Citrus Sinensis ID: 048064

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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-------400-------410-------420-------43
Protein Sequence
KVYAQIVIPVFYRVDPSHVRKQIGSFGVSFSKLKEKFPEKMQRWRSALTEAANLSGFDSFVIRNESELIKKVVNDILEKLPKVVPCDSKNELVGVESRVEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQVLRNCHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYLFERKKEVWENAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFFKGEDIYLVKKFFEASGFYPEIGISILVDKALIAINSYNKITMHDLLQELGREIVRQESTNPGNRTRLWHHEDIYEVLAYNRLFSLLQDLM
Secondary Structure (PSIPRED)
cccccEEEEEcccccccccccccccHHHHHHHHHHHcHHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHcccccccccccccccHHHHHHHHHHHHccccccEEEEcccccHHHHHHHHHHHHHccccEEEEccccHHHHHHcccHHHHHHHHHHHHHccccccccHHHHHHHHccccEEEEEcccccHHHHHHHHccccccccccEEEEEEccHHHHHHccccEEEEcccccHHHHHHHHHHHHccccccccHHHHHHHHHHHHHccccccHHHHccccccccHHHHHHHHHHHHcccccHHHHHHHHcccccccccccHHHEEEcccccccHHHHHHHHHHccccccccHHHHHccccEEEEccccEEccHHHHHHHHHHHHHcccccccccccccccHHHHHHHcccccccccccc
Secondary Structure Prediction (SSPRO)
ccccEEEEEEEEEccHHHHHHccccHHHHHHHHHHccHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHcccccccccccccccHHHHHHHHHHHHccEEEEEEccccccHHHHHHHHHHHHHHHccHHHHHHHHHcccccccHHHHHHHHHHHHHHcccccHHcHHHHHHHHcccEEEEEEccccHHHHHHHHHccccccccccEEEEEEccHHHHHHccccEEEEEccccHHHHHHHHHHHHHccccccccHHHHHHHHHHHHcccccHHHHHHHHHccccHHHHHHHHHHHHHcccHHHHHHEEEEcccccHHHHHHHHHHHHHHccccHHHHHHHHHHccccHHHHHHHHHHcEEEEEcccccEEHHHHHHHHcHHHHEcccccccccEEEccHHHHHHHHHccccccEEEEEc
Coil and Loop (DISEMBL)
KVYAQIVIpvfyrvdpshvrkqigSFGVSFSKLKEKFPEKMQRWRSALTEaanlsgfdsFVIRNESELIKKVVNDILEklpkvvpcdsknelvgvESRVEEIQSLLGaapllgiwgiggigkTTIARVIFNRISrnfkgscfLENIREESQKAGGLAFLQQKLLSEVLkdvnviphidlnfrRLSCRKVLIVLDDVTCLNQIESLVGSLdrllpesrilITTRNKQVLRNCHINQiyemkglgddHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYLFERKKEVWENAIKKLKNFLHQNILDVLKISyddldndekniFLDVacffkgedIYLVKKFFeasgfypeiGISILVDKALIAINSYNKITMHDLLQELGREIVRqestnpgnrtrlwhhEDIYEVLAYNRLFSLLQDLM
Flexible Loop (DISEMBL)
KVYAQIVIpvfyrvdpshvrkqigsfgvsfsklkEKFPEKMQRWRSALTeaanlsgfdsFVIRNESELIKKVVNDILeklpkvvpcdsknelVGVESRVEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLNQIESLvgsldrllpeSRILittrnkqvlrNCHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYLFERKKEVWENAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFFKGEDIYLVKKFFEASGFYPEIGISILVDKALIAINSYNKITMHDLLQELGREIVRQestnpgnrtrlwhHEDIYEVLAYNRLFSLLQDLM
Low Complexity Region (SEG)
KVYAQIVIPVFYRVDPSHVRKQIGSFGVSFSKLKEKFPEKMQRWRSALTEAANLSGFDSFVIRNESELIKKVVNDILEKLPKVVPCDSKNELVGVESRVEEIQSllgaapllgiwgiggigKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQVLRNCHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYLFERKKEVWENAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFFKGEDIYLVKKFFEASGFYPEIGISILVDKALIAINSYNKITMHDLLQELGREIVRQESTNPGNRTRLWHHEDIYEVLAYNRLFSLLQDLM
Disordered region (IsUnstruct)
**YAQIVIPVFYRVDPSHVRKQIGSFGVSFSKLKEKFPEKMQRWRSALTEAANLSGFDSFVIRNESELIKKVVNDILEKLPKVVPCDSKNELVGVESRVEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQVLRNCHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYLFERKKEVWENAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFFKGEDIYLVKKFFEASGFYPEIGISILVDKALIAINSYNKITMHDLLQELGREIVRQ*****GNRTRLWHHEDIYEVLAYNRLFSLL****
Disordered Region (DISOPRED)
*VYAQIVIPVFYRVDPSHVRKQIGSFGVSFSKLKEKFPEKMQRWRSALTEAANLSGFDSFVIRNESELIKKVVNDILEKLPKVVPCDSKNELVGVESRVEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQVLRNCHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYLFERKKEVWENAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFFKGEDIYLVKKFFEASGFYPEIGISILVDKALIAINSYNKITMHDLLQELGREIVRQESTNPGNRTRLWHHEDIYEVLAYNRLFSLLQDLM
Disordered Region (DISEMBL)
KVYAQIVIPVFYRVDPSHVRKQIGSFGVSFSKLKEKFPEKMQRWRSALTEAANLSGFDSFVIRNESELIKKVVNDILEKLPKVVPCDSKNELVGVESRVEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQVLRNCHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYLFERKKEVWENAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFFKGEDIYLVKKFFEASGFYPEIGISILVDKALIAINSYNKITMHDLLQELGREIVRQESTNPGNRTRLWHHEDIYEVLAYNRLFSLLQDLM
Disordered Region (DISPRO)
**YAQIVIPVFYRVDPSHVRKQIGSFGVSFSKLKEKFPEKMQRWRSALTEAANLSGFDSFVIRNESELIKKVVNDILEKLPKVVPCDSKNELVGVESRVEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQVLRNCHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYLFERKKEVWENAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFFKGEDIYLVKKFFEASGFYPEIGISILVDKALIAINSYNKITMHDLLQELGREIVRQESTNPGNRTRLWHHEDIYEVLAYNRLFSLLQDLM
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
KVYAQIVIPVFYRVDPSHVRKQIGSFGVSFSKLKEKFPEKMQRWRSALTEAANLSGFDSFVIRNESELIKKVVNDILEKLPKVVPCDSKNELVGVESRVEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQVLRNCHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYLFERKKEVWENAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFFKGEDIYLVKKFFEASGFYPEIGISILVDKALIAINSYNKITMHDLLQELGREIVRQESTNPGNRTRLWHHEDIYEVLAYNRLFSLLQDLM
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	429	2.2.26 [Sep-21-2011]
Q40392	1144	TMV resistance protein N	N/A	no	0.955	0.358	0.404	3e-81
O82500	1095	Putative disease resistan	no	no	0.958	0.375	0.395	1e-73
Q9FL92	1372	Probable WRKY transcripti	no	no	0.867	0.271	0.367	2e-67
O23530	1301	Protein SUPPRESSOR OF npr	no	no	0.944	0.311	0.364	1e-66
Q9FH83	1288	Probable WRKY transcripti	no	no	0.804	0.267	0.386	5e-60
Q9FKN7	1613	Protein DA1-related 4 OS=	no	no	0.895	0.238	0.354	3e-55
Q9SZ67	1895	Probable WRKY transcripti	no	no	0.909	0.205	0.346	1e-53
Q9FJB5	901	Disease resistance RPP8-l	no	no	0.641	0.305	0.291	2e-16
Q9SZA7	816	Probable disease resistan	no	no	0.685	0.360	0.263	1e-14
Q9LRR5	1424	Putative disease resistan	no	no	0.699	0.210	0.240	2e-13

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

 Score =  302 bits (774), Expect = 3e-81,   Method: Compositional matrix adjust.
 Identities = 176/435 (40%), Positives = 277/435 (63%), Gaps = 25/435 (5%)

Query: 3   YAQIVIPVFYRVDPSHVRKQIGSFGVSFSKLKEKFP---EKMQRWRSALTEAANLSGFDS 59
           + Q VIP+FY VDPSHVR Q  SF  +F + + K+    E +QRWR AL EAANL G   
Sbjct: 97  FKQTVIPIFYDVDPSHVRNQKESFAKAFEEHETKYKDDVEGIQRWRIALNEAANLKGSCD 156

Query: 60  FVIRNESELIKKVVNDILEKLPKVVPCDSKNELVGVESRVEEIQSLL----GAAPLLGIW 115
              + +++ I+++V+ I  KL K+     +N +VG+++ +E+I+SLL        ++GIW
Sbjct: 157 NRDKTDADCIRQIVDQISSKLCKISLSYLQN-IVGIDTHLEKIESLLEIGINGVRIMGIW 215

Query: 116 GIGGIGKTTIARVIFNRI------SRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLK 169
           G+GG+GKTTIAR IF+ +      S  F G+CFL++I+E  +   G+  LQ  LLSE+L+
Sbjct: 216 GMGGVGKTTIARAIFDTLLGRMDSSYQFDGACFLKDIKENKR---GMHSLQNALLSELLR 272

Query: 170 D-VNVIPHIDLNFR---RLSCRKVLIVLDDVTCLNQ-IESLVGSLDRLLPESRILITTRN 224
           +  N     D   +   RL  +KVLIVLDD+   +  +E L G LD     SRI+ITTR+
Sbjct: 273 EKANYNNEEDGKHQMASRLRSKKVLIVLDDIDNKDHYLEYLAGDLDWFGNGSRIIITTRD 332

Query: 225 KQVLRNCHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALK 284
           K ++    I  IYE+  L D  +++LF +HAF + + + ++++LS +V+NYA+G+PLALK
Sbjct: 333 KHLIEKNDI--IYEVTALPDHESIQLFKQHAFGKEVPNENFEKLSLEVVNYAKGLPLALK 390

Query: 285 ILGCYLFERKKEVWENAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFFKGEDI 344
           + G  L   +   W++AI+ +KN  +  I+D LKISYD L+  ++ +FLD+ACF +GE+ 
Sbjct: 391 VWGSLLHNLRLTEWKSAIEHMKNNSYSGIIDKLKISYDGLEPKQQEMFLDIACFLRGEEK 450

Query: 345 YLVKKFFEASGFYPEIGISILVDKALIAINSYNKITMHDLLQELGREIVRQESTNPGNRT 404
             + +  E+     E G+ IL+DK+L+ I+ YN++ MHDL+Q++G+ IV  +  +PG R+
Sbjct: 451 DYILQILESCHIGAEYGLRILIDKSLVFISEYNQVQMHDLIQDMGKYIVNFQK-DPGERS 509

Query: 405 RLWHHEDIYEVLAYN 419
           RLW  +++ EV++ N
Sbjct: 510 RLWLAKEVEEVMSNN 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|O82500|Y4117_ARATH Putative disease resistance protein At4g11170 OS=Arabidopsis thaliana GN=At4g11170 PE=2 SV=1

 Score =  277 bits (708), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 169/427 (39%), Positives = 254/427 (59%), Gaps = 16/427 (3%)

Query: 7   VIPVFYRVDPSHVRKQIGSFGVSF-SKLKEKFPEKMQRWRSALTEAANLSGFDSFVIRNE 65
           V+PVFY+VDPS +RKQ G FG+SF      K  E+   WR ALT+AAN+ G       NE
Sbjct: 99  VMPVFYKVDPSDIRKQTGKFGMSFLETCCGKTEERQHNWRRALTDAANILGDHPQNWDNE 158

Query: 66  SELIKKVVNDILEKLPKVVPCDSKNELVGVESRVEEIQSLL----GAAPLLGIWGIGGIG 121
           +  I  +  D+LEKL    P    N+LVG+E+ + +++SLL        ++GIWG  G+G
Sbjct: 159 AYKITTISKDVLEKL-NATPSRDFNDLVGMEAHIAKMESLLCLESQGVRIVGIWGPAGVG 217

Query: 122 KTTIARVIFNRISRNFKGSCFLENIREESQKAG----GLAF-LQQKLLSEVL--KDVNVI 174
           KTTIAR ++N+   NF  S F+EN+RE   +AG    GL   LQQ+ LS++L  KD+ V 
Sbjct: 218 KTTIARALYNQYHENFNLSIFMENVRESYGEAGLDDYGLKLHLQQRFLSKLLDQKDLRV- 276

Query: 175 PHIDLNFRRLSCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQVLRNCHIN 234
            H+     RL  +KVLI+LDDV  + Q+++L         +SRI++TT+NKQ+L +  IN
Sbjct: 277 RHLGAIEERLKSQKVLIILDDVDNIEQLKALAKENQWFGNKSRIVVTTQNKQLLVSHDIN 336

Query: 235 QIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYLFERK 294
            +Y++       AL +F +HAF+Q+    D K L+ +    A  +PLAL++LG ++  + 
Sbjct: 337 HMYQVAYPSKQEALTIFCQHAFKQSSPSDDLKHLAIEFTTLAGHLPLALRVLGSFMRGKG 396

Query: 295 KEVWENAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFFKGE-DIYLVKKFFEA 353
           KE WE ++  LK+ L   +  VLK+ YD L + EK++FL +AC F G+ + YL +     
Sbjct: 397 KEEWEFSLPTLKSRLDGEVEKVLKVGYDGLHDHEKDLFLHIACIFSGQHENYLKQMIIAN 456

Query: 354 SGFYPEIGISILVDKALIAINSYNKITMHDLLQELGREIVRQEST-NPGNRTRLWHHEDI 412
           +  Y   G+ +L DK+LI      +I MH LL++LG+E+VR++S   PG R  L + ++ 
Sbjct: 457 NDTYVSFGLQVLADKSLIQKFENGRIEMHSLLRQLGKEVVRKQSIYEPGKRQFLMNAKET 516

Query: 413 YEVLAYN 419
             VL+ N
Sbjct: 517 CGVLSNN 523

Arabidopsis thaliana (taxid: 3702)

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

 Score =  256 bits (655), Expect = 2e-67,   Method: Compositional matrix adjust.
 Identities = 150/408 (36%), Positives = 233/408 (57%), Gaps = 36/408 (8%)

Query: 5   QIVIPVFYRVDPSHVRKQIGSFGVSFSKLKEKFPEKMQRWRSALTEAANLSGFDSFVIRN 64
           Q+V+PV Y V  S                          W SAL      S   S    +
Sbjct: 85  QVVVPVLYGVRSSETE-----------------------WLSALDSKGFSSVHHSRKECS 121

Query: 65  ESELIKKVVNDILEKLPKVVPCDSKNELVGVESRVEEIQSLLGAAPL----LGIWGIGGI 120
           +S+L+K+ V D+ EKL  +       E +G+ S++ EI+ ++   PL    +GIWG+ GI
Sbjct: 122 DSQLVKETVRDVYEKLFYM-------ERIGIYSKLLEIEKMINKQPLDIRCVGIWGMPGI 174

Query: 121 GKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLN 180
           GKTT+A+ +F+++S  F   CF+E+  +  Q+ G    L+++ L E       +  + L 
Sbjct: 175 GKTTLAKAVFDQMSGEFDAHCFIEDYTKAIQEKGVYCLLEEQFLKENAGASGTVTKLSLL 234

Query: 181 FRRLSCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQVLRNCHINQIYEMK 240
             RL+ ++VL+VLDDV     +ES +G  D   P+S I+IT+++K V R C +NQIYE++
Sbjct: 235 RDRLNNKRVLVVLDDVRSPLVVESFLGGFDWFGPKSLIIITSKDKSVFRLCRVNQIYEVQ 294

Query: 241 GLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYLFERKKEV-WE 299
           GL +  AL+LF   A   ++ + +  E+S KVI YA G PLAL + G  L  +K+    E
Sbjct: 295 GLNEKEALQLFSLCASIDDMAEQNLHEVSMKVIKYANGHPLALNLYGRELMGKKRPPEME 354

Query: 300 NAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFFKGEDIYLVKKFFEASGFYPE 359
            A  KLK       +D +K SYD L++ EKNIFLD+ACFF+GE++  V +  E  GF+P 
Sbjct: 355 IAFLKLKECPPAIFVDAIKSSYDTLNDREKNIFLDIACFFQGENVDYVMQLLEGCGFFPH 414

Query: 360 IGISILVDKALIAINSYNKITMHDLLQELGREIVRQESTNPGNRTRLW 407
           +GI +LV+K+L+ I S N++ MH+L+Q++GR+I+ +E+     R+RLW
Sbjct: 415 VGIDVLVEKSLVTI-SENRVRMHNLIQDVGRQIINRETRQTKRRSRLW 461

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

 Score =  254 bits (648), Expect = 1e-66,   Method: Compositional matrix adjust.
 Identities = 154/423 (36%), Positives = 250/423 (59%), Gaps = 18/423 (4%)

Query: 5   QIVIPVFYRVDPSHVRKQIGSFGVSFSK-LKEKFPEKMQRWRSALTEAANLSGFDSFVIR 63
           Q+VIP+F+ VD S V+KQ G FG  F +  K K  ++ Q W+ AL   A ++G+D     
Sbjct: 97  QMVIPIFFHVDASEVKKQTGEFGKVFEETCKAKSEDEKQSWKQALAAVAVMAGYDLRKWP 156

Query: 64  NESELIKKVVNDILEKLPKVVPCDSKNELVGVESRVEEIQSLLG-----AAPLLGIWGIG 118
           +E+ +I+++  D+L K   + P D   +LVG+E+ +E I+S+L      A  ++GIWG  
Sbjct: 157 SEAAMIEELAEDVLRK--TMTPSDDFGDLVGIENHIEAIKSVLCLESKEARIMVGIWGQS 214

Query: 119 GIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAF-LQQKLLSEVL--KDVNVIP 175
           GIGK+TI R +++++S  F    F+           G+    +++LLSE+L  KD+  I 
Sbjct: 215 GIGKSTIGRALYSKLSIQFHHRAFITYKSTSGSDVSGMKLRWEKELLSEILGQKDIK-IE 273

Query: 176 HIDLNFRRLSCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQVLRNCHINQ 235
           H  +  +RL  +KVLI+LDDV  L  +++LVG  +     SRI++ T+++Q+L+   I+ 
Sbjct: 274 HFGVVEQRLKQQKVLILLDDVDSLEFLKTLVGKAEWFGSGSRIIVITQDRQLLKAHEIDL 333

Query: 236 IYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYLFERKK 295
           IYE++   +  AL +  R AF ++    D+KEL+ +V   A  +PL L +LG  L  R K
Sbjct: 334 IYEVEFPSEHLALTMLCRSAFGKDSPPDDFKELAFEVAKLAGNLPLGLSVLGSSLKGRTK 393

Query: 296 EVWENAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFFKGEDIYLVKKFFEASG 355
           E W   + +L+N L+ +I+  L++SYD L   ++++FL +AC F G ++  VK   + + 
Sbjct: 394 EWWMEMMPRLRNGLNGDIMKTLRVSYDRLHQKDQDMFLYIACLFNGFEVSYVKDLLKDN- 452

Query: 356 FYPEIGISILVDKALIAINSYNKITMHDLLQELGREIVRQEST-NPGNRTRLWHHEDIYE 414
               +G ++L +K+LI I     I MH+LL++LGREI R +S  NPG R  L + EDI+E
Sbjct: 453 ----VGFTMLTEKSLIRITPDGYIEMHNLLEKLGREIDRAKSKGNPGKRRFLTNFEDIHE 508

Query: 415 VLA 417
           V+ 
Sbjct: 509 VVT 511

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

 Score =  232 bits (591), Expect = 5e-60,   Method: Compositional matrix adjust.
 Identities = 140/362 (38%), Positives = 218/362 (60%), Gaps = 17/362 (4%)

Query: 64  NESELIKKVVNDILEKLPKVVPCDSKNELVGVESRVEEIQSLLGAAPL----LGIWGIGG 119
           ++S L++++V D+ E    V         +G+ S++ EI++++   P+    +GIWG+ G
Sbjct: 130 SDSILVEEIVRDVYETHFYV-------GRIGIYSKLLEIENMVNKQPIGIRCVGIWGMPG 182

Query: 120 IGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDL 179
           IGKTT+A+ +F+++S  F  SCF+E+  +   + G    L+++LL     D  ++    L
Sbjct: 183 IGKTTLAKAVFDQMSSAFDASCFIEDYDKSIHEKGLYCLLEEQLLPG--NDATIMKLSSL 240

Query: 180 NFRRLSCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQVLRNCHINQIYEM 239
              RL+ ++VL+VLDDV      ES +   D L P S I+IT+R+KQV   C INQIYE+
Sbjct: 241 R-DRLNSKRVLVVLDDVRNALVGESFLEGFDWLGPGSLIIITSRDKQVFCLCGINQIYEV 299

Query: 240 KGLGDDHALELFIRHA-FRQNLVDVDYKELSDKVINYAQGVPLALKILGCYLFERKK-EV 297
           +GL +  A +LF+  A  ++++ + + +ELS +VINYA G PLA+ + G  L  +KK   
Sbjct: 300 QGLNEKEARQLFLLSASIKEDMGEQNLQELSVRVINYANGNPLAISVYGRELKGKKKLSE 359

Query: 298 WENAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFFKGEDIYLVKKFFEASGFY 357
            E A  KLK      I+D  K +YD L ++EKNIFLD+ACFF+GE++  V +  E  GF+
Sbjct: 360 METAFLKLKRRPPFKIVDAFKSTYDTLSDNEKNIFLDIACFFQGENVNYVIQLLEGCGFF 419

Query: 358 PEIGISILVDKALIAINSYNKITMHDLLQELGREIVRQESTNPGNRTRLWHHEDIYEVLA 417
           P + I +LVDK L+ I S N++ +H L Q++GREI+  E+     R RLW    I  +L 
Sbjct: 420 PHVEIDVLVDKCLVTI-SENRVWLHKLTQDIGREIINGETVQIERRRRLWEPWSIKYLLE 478

Query: 418 YN 419
           YN
Sbjct: 479 YN 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|Q9FKN7|DAR4_ARATH Protein DA1-related 4 OS=Arabidopsis thaliana GN=DAR4 PE=1 SV=2

 Score =  216 bits (550), Expect = 3e-55,   Method: Compositional matrix adjust.
 Identities = 153/431 (35%), Positives = 233/431 (54%), Gaps = 47/431 (10%)

Query: 4   AQIVIPVFYRVDPSHVRKQIGSFGVSFSKLKEKFPEKMQRWRSALTEAANLSGFDSFVIR 63
             +V+PVFY VD             S +++          W ++  EA  L+   S ++ 
Sbjct: 104 GHVVVPVFYGVD-------------SLTRV--------YGWANSWLEAEKLTSHQSKILS 142

Query: 64  N----ESELIKKVVNDILEKLPKVVPCDSKNELVGVESRVEEIQSLLGAAPL----LGIW 115
           N    +SEL++++V D+  KL          E VG+ +R+ EI+ LL         +GIW
Sbjct: 143 NNVLTDSELVEEIVRDVYGKLYPA-------ERVGIYARLLEIEKLLYKQHRDIRSIGIW 195

Query: 116 GIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKD----- 170
           G+ GIGKTT+A+ +FN +S ++  SCF+EN  E   K G    L++++  ++LKD     
Sbjct: 196 GMPGIGKTTLAKAVFNHMSTDYDASCFIENFDEAFHKEGLHRLLKERI-GKILKDEFDIE 254

Query: 171 VNVIPHIDLNFRRLSCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQVLRN 230
            + I    L+  +L  +++L+VLDDV      ES +  LD     S I+IT+ +KQV   
Sbjct: 255 SSYIMRPTLHRDKLYDKRILVVLDDVRDSLAAESFLKRLDWFGSGSLIIITSVDKQVFAF 314

Query: 231 CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYL 290
           C INQIY ++GL    AL+LF +  F  N  + + ++LS KVI+Y  G PLAL I G  L
Sbjct: 315 CQINQIYTVQGLNVHEALQLFSQSVFGINEPEQNDRKLSMKVIDYVNGNPLALSIYGREL 374

Query: 291 FERKKEVWENAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFFKGEDIYLVKKF 350
             +K E+ E A  +LK+     I DVLK +Y  L ++EKNI LD+A FFKGE +  V + 
Sbjct: 375 MGKKSEM-ETAFFELKHCPPLKIQDVLKNAYSALSDNEKNIVLDIAFFFKGETVNYVMQL 433

Query: 351 FEASGFYPEIGISILVDKALIAINSYNKITMHDLLQELGREIVRQESTNPGNRTRLWHHE 410
            E S ++P + I +LVDK ++ I S N + M++L+Q+  +EI   E       TR+W   
Sbjct: 434 LEESHYFPRLAIDVLVDKCVLTI-SENTVQMNNLIQDTCQEIFNGEIETC---TRMWEPS 489

Query: 411 DIYEVLAYNRL 421
            I  +L Y+ L
Sbjct: 490 RIRYLLEYDEL 500

Arabidopsis thaliana (taxid: 3702)

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

 Score =  210 bits (535), Expect = 1e-53,   Method: Compositional matrix adjust.
 Identities = 148/427 (34%), Positives = 235/427 (55%), Gaps = 37/427 (8%)

Query: 5    QIVIPVFYRVDPSHVRKQIGSFGVSFSKLKEKF--PEKMQRWRSALTEAANLSGFDSFVI 62
            ++V P+FYR+ P           V  SK  E+F   ++ ++W++AL E   + G+ +   
Sbjct: 740  RVVYPIFYRLSPYDF--------VCNSKNYERFYLQDEPKKWQAALKEITQMPGY-TLTD 790

Query: 63   RNESELIKKVVNDILEKLPKVVPCDSKNELVGVESRVEEIQSLLGAAPL----LGIWGIG 118
            ++ESELI ++V D L    KV+    K  ++G++ +VEEI SLL    L    +GIWG  
Sbjct: 791  KSESELIDEIVRDAL----KVLCSADKVNMIGMDMQVEEILSLLCIESLDVRSIGIWGTV 846

Query: 119  GIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPH-- 176
            GIGKTTIA  IF +IS  ++    L+++ +E +  G  A +++  LSEVL+   V PH  
Sbjct: 847  GIGKTTIAEEIFRKISVQYETCVVLKDLHKEVEVKGHDA-VRENFLSEVLE---VEPHVI 902

Query: 177  ----IDLNF--RRLSCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQVLRN 230
                I  +F   RL  +++L++LDDV     +++ +G+L+   P SRI++T+RN++V   
Sbjct: 903  RISDIKTSFLRSRLQRKRILVILDDVNDYRDVDTFLGTLNYFGPGSRIIMTSRNRRVFVL 962

Query: 231  CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYL 290
            C I+ +YE+K L    +L L  R   +  L    YK LS +++ ++ G P  L+ L    
Sbjct: 963  CKIDHVYEVKPLDIPKSLLLLDRGTCQIVLSPEVYKTLSLELVKFSNGNPQVLQFLSSID 1022

Query: 291  FERKKEVWENAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFFKGEDIYLVKKF 350
             E     W    +++K      I  + + S   LD++E+ IFLD+ACFF   D   V   
Sbjct: 1023 RE-----WNKLSQEVKTTSPIYIPGIFEKSCCGLDDNERGIFLDIACFFNRIDKDNVAML 1077

Query: 351  FEASGFYPEIGISILVDKALIAINSYNKITMHDLLQELGREIVRQESTN-PGNRTRLWHH 409
             +  GF   +G   LVDK+L+ I+ +N + M   +Q  GREIVRQES + PG+R+RLW+ 
Sbjct: 1078 LDGCGFSAHVGFRGLVDKSLLTISQHNLVDMLSFIQATGREIVRQESADRPGDRSRLWNA 1137

Query: 410  EDIYEVL 416
            + I  V 
Sbjct: 1138 DYIRHVF 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|Q9FJB5|RP8L3_ARATH Disease resistance RPP8-like protein 3 OS=Arabidopsis thaliana GN=RPP8L3 PE=2 SV=1

 Score = 87.0 bits (214), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 96/329 (29%), Positives = 162/329 (49%), Gaps = 54/329 (16%)

Query: 73  VNDILEKLPKVVPCDSKNELVGVESRVEEIQSLL---GAAPLLGIWGIGGIGKTTIARVI 129
           + DI  ++ +  P  S+++LVGVE  VEE+   +       ++ I G+GGIGKTT+AR I
Sbjct: 144 LQDIQREIRQTFPNSSESDLVGVEQSVEELVGPMVEIDNIQVVSISGMGGIGKTTLARQI 203

Query: 130 FNR--ISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLN------F 181
           F+   + R+F G  ++   ++ +QK      + Q++L E+      I  +D        F
Sbjct: 204 FHHDLVRRHFDGFAWVCVSQQFTQK-----HVWQRILQELRPHDGEILQMDEYTIQGKLF 258

Query: 182 RRLSCRKVLIVLDDVTCLNQIESLVGSLDRLLPESR---ILITTRNKQVLRNCHINQI-- 236
           + L   + L+VLDDV      E     +  + P  R   +L+T+RN+ V    H +    
Sbjct: 259 QLLETGRYLVVLDDV----WKEEDWDRIKEVFPRKRGWKMLLTSRNEGV--GLHADPTCL 312

Query: 237 -YEMKGLGDDHALELFIRHAFRQNLVDVDYKEL---SDKVINYAQGVPLALKILGCYLFE 292
            +  + L    + +LF R   R+N  + +Y+E+     +++ Y  G+PLA+K+LG  L  
Sbjct: 313 SFRARILNPKESWKLFERIVPRRN--ETEYEEMEAIGKEMVTYCGGLPLAVKVLGGLLAN 370

Query: 293 RK-----KEVWENAIKKL--KNFLHQNILD----VLKISYDDLDNDEKNIFLDVACF--- 338
           +      K V EN   ++  K+ L  N L+    +L +SY+DL  D K+ FL +A F   
Sbjct: 371 KHTASEWKRVSENIGAQIVGKSCLDDNSLNSVYRILSLSYEDLPTDLKHCFLYLAHFPED 430

Query: 339 --FKGEDIYLVKKFFEASGFYPEIGISIL 365
              K   +Y    ++ A G Y   G++IL
Sbjct: 431 YKIKTRTLY---SYWAAEGIYD--GLTIL 454

Disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SZA7|DRL29_ARATH Probable disease resistance protein At4g33300 OS=Arabidopsis thaliana GN=At4g33300 PE=2 SV=3

 Score = 81.3 bits (199), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 95/361 (26%), Positives = 159/361 (44%), Gaps = 67/361 (18%)

Query: 87  DSKNELVGVESRVEEIQSLL--GAAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLE 144
           DS+   VG+E    +++ ++      + GI G+GG+GKTT+A+     + R+ +  C  E
Sbjct: 176 DSEKFGVGLELGKVKVKKMMFESQGGVFGISGMGGVGKTTLAK----ELQRDHEVQCHFE 231

Query: 145 NIREESQKAGGLAFLQQKLLSEVLKDV----------NVIPHIDLNFRRLSCRKVLIVLD 194
           N      +   L   Q  LL E+ + +          N +P  D NF     RK L++LD
Sbjct: 232 N------RILFLTVSQSPLLEELRELIWGFLSGCEAGNPVP--DCNFPFDGARK-LVILD 282

Query: 195 DVTCLNQIESLVGSLDRL----LPESRILITTRNKQVLRNCHINQIYEMKGLGDDHALEL 250
           DV           +LDRL     P    L+ +R+K           Y+++ L +D A+ L
Sbjct: 283 DVWTTQ-------ALDRLTSFKFPGCTTLVVSRSKLT----EPKFTYDVEVLSEDEAISL 331

Query: 251 FIRHAFRQNLVDVDY-KELSDKVINYAQGVPLALKILGCYLFERKKEVWENAIKKLK--- 306
           F   AF Q  + + + K+L  +V N  +G+PLALK+ G  L  + +  W+  +++L    
Sbjct: 332 FCLCAFGQKSIPLGFCKDLVKQVANECKGLPLALKVTGASLNGKPEMYWKGVLQRLSKGE 391

Query: 307 ---NFLHQNILDVLKISYDDLDNDEKNIFLDVACFFKGEDI---YLVKKFFEASGFYPEI 360
              +     +L  ++ S D+LD   K+ FLD+  F +   I    L+  + E        
Sbjct: 392 PADDSHESRLLRQMEASLDNLDQTTKDCFLDLGAFPEDRKIPLDVLINIWIELHDIDEGN 451

Query: 361 GISILVD---KALIAINSYNK------------ITMHDLLQELGREIVRQESTNPGNRTR 405
             +ILVD   K L+ +    +            +T HD+L++L   +      N   R R
Sbjct: 452 AFAILVDLSHKNLLTLGKDPRLGSLYASHYDIFVTQHDVLRDLALHLSNAGKVN--RRKR 509

Query: 406 L 406
           L
Sbjct: 510 L 510

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LRR5|DRL21_ARATH Putative disease resistance protein At3g14460 OS=Arabidopsis thaliana GN=At3g14460 PE=3 SV=1

 Score = 77.8 bits (190), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 85/353 (24%), Positives = 162/353 (45%), Gaps = 53/353 (15%)

Query: 106 LGAAPLLGIWGIGGIGKTTIARVIFN--RISRNFKGSCFLENIREESQKAGGLAFLQQKL 163
           +G   ++ + G+ G+GKTT+  ++FN  R++ +F+   ++         + G+ F    +
Sbjct: 190 IGKPAVISVVGMPGVGKTTLTEIVFNDYRVTEHFEVKMWI---------SAGINFNVFTV 240

Query: 164 LSEVLKDVNV-------IPHIDLNFRR-LSCRKVLIVLDDV--TCLNQIESLVGSLDRLL 213
              VL+D+         +P + +  ++ LS ++ L+VLDD      ++ ES   +     
Sbjct: 241 TKAVLQDITSSAVNTEDLPSLQIQLKKTLSGKRFLLVLDDFWSESDSEWESFQVAFTDAE 300

Query: 214 PESRILITTRNKQVLRNCHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKEL---SD 270
             S+I++TTR++ V       +IY+MK + ++   EL  R AF    V    +EL     
Sbjct: 301 EGSKIVLTTRSEIVSTVAKAEKIYQMKLMTNEECWELISRFAFGNISVGSINQELEGIGK 360

Query: 271 KVINYAQGVPLALKILGCYLFERK-KEVWENAIKKLKNFLHQNILDVLKISYDDLDNDEK 329
           ++    +G+PLA + +  +L  +   + W    K   ++ + +IL VLK+SYD L    K
Sbjct: 361 RIAEQCKGLPLAARAIASHLRSKPNPDDWYAVSKNFSSYTN-SILPVLKLSYDSLPPQLK 419

Query: 330 NIFLDVACFFKG-----EDIYLVKKFFE------ASGFYPEIGISILVDKALIAINSYNK 378
             F   + F KG     E++ L+    +      +S    +IG   L D  L+A + + +
Sbjct: 420 RCFALCSIFPKGHVFDREELVLLWMAIDLLYQPRSSRRLEDIGNDYLGD--LVAQSFFQR 477

Query: 379 I-------TMHDLLQELGREIVRQESTNPGNRTRLWHHEDIYEVLAYNRLFSL 424
           +        MHDL+ +L + +        G+       ++I E+ +  R FS 
Sbjct: 478 LDITMTSFVMHDLMNDLAKAVS-------GDFCFRLEDDNIPEIPSTTRHFSF 523

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	429
255537139	1137	leucine-rich repeat-containing protein,	0.939	0.354	0.484	1e-101
224127917	1470	tir-nbs-lrr resistance protein [Populus	0.967	0.282	0.469	1e-100
255564976	944	TMV resistance protein N, putative [Rici	0.967	0.439	0.484	1e-100
255573549	908	ATP binding protein, putative [Ricinus c	0.969	0.458	0.469	2e-99
255569048	1084	leucine-rich repeat-containing protein,	0.965	0.381	0.477	1e-98
356577113	1344	PREDICTED: putative disease resistance p	0.967	0.308	0.452	3e-98
356524185	882	PREDICTED: TMV resistance protein N-like	0.941	0.458	0.458	6e-98
356550897	970	PREDICTED: TMV resistance protein N-like	0.953	0.421	0.465	1e-97
359496034	1132	PREDICTED: TMV resistance protein N-like	0.972	0.368	0.460	2e-96
359486075	1291	PREDICTED: TMV resistance protein N-like	0.962	0.319	0.460	3e-96

>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 =  375 bits (964), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 209/431 (48%), Positives = 286/431 (66%), Gaps = 28/431 (6%)

Query: 4   AQIVIPVFYRVDPSHVRKQIGSFGVSFSKLKEKFP-----EKMQRWRSALTEAANLSGFD 58
            Q+V+PVFY V PS V           S   E FP     EK+Q+W++AL++AANLS FD
Sbjct: 102 GQLVLPVFYHVGPSDV-----------SVFAEAFPSYDQFEKVQKWKNALSKAANLSAFD 150

Query: 59  SFVIRNESELIKKVVNDILEKLPKVVPCDSKNELVGVESRVEEIQSLLGAAPL----LGI 114
           S V R ES+L+ ++V   L++L +    D    +VGV+SR+E+I+ LL    +    LGI
Sbjct: 151 SRVTRPESKLVDEIVMYTLKQLKQSYSSDVVEGIVGVDSRIEQIKELLSIGSVDVRFLGI 210

Query: 115 WGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVL--KDVN 172
           WG+GGIGKTT+A  +F +I+  F+GSCFL N+R   +K GGLA LQ++LLS+ L  +D  
Sbjct: 211 WGMGGIGKTTLAEAVFYQIAYQFEGSCFLANVRGNFEKNGGLARLQEELLSKTLEKRDFK 270

Query: 173 V-IPHIDLNF---RRLSCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQVL 228
           +  P+I  +F   + L  R+VLIV+DD     Q++ LVGS D   P SRI++T+R+KQVL
Sbjct: 271 IDTPNIGYSFWVKQMLKHRRVLIVVDDANDSEQLDLLVGSHDWFGPGSRIIVTSRDKQVL 330

Query: 229 RNCHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGC 288
               ++ IYE+K L    AL+LF +  F++  V  DY  LSD VI YA+GVPLALK+LG 
Sbjct: 331 TKI-VDDIYEVKELVHHEALQLFNQTTFKKKCVPEDYSYLSDLVIEYAKGVPLALKVLGS 389

Query: 289 YLFERKKEVWENAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFFKGEDIYLVK 348
           +LF + K  WE+A+ KLK   H+   +VLKISYD LD +EKNIFLD+ACFF+GE + +V 
Sbjct: 390 FLFGKSKTEWESALDKLKKAPHRATQNVLKISYDGLDAEEKNIFLDIACFFRGESVEMVT 449

Query: 349 KFFEASGFYPEIGISILVDKALIAINSYNKITMHDLLQELGREIVRQESTNPGNRTRLWH 408
           K  +  GF  +IG+ +LVDK+LI I + +K+ MHDLLQE+G+EIV QES  P  RTRLW+
Sbjct: 450 KILDGCGFSTKIGLCLLVDKSLITILN-DKVEMHDLLQEMGKEIVLQESKQPSQRTRLWN 508

Query: 409 HEDIYEVLAYN 419
           HEDI  V + N
Sbjct: 509 HEDILHVFSRN 519

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 =  371 bits (953), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 203/432 (46%), Positives = 295/432 (68%), Gaps = 17/432 (3%)

Query: 1   KVYAQIVIPVFYRVDPSHVRKQIGSFGVSFSKLKEKFPEKMQ---RWRSALTEAANLSGF 57
           K Y QIV+PVFY VDPS V +Q GSFG +F++L+  F +KM    RWR+ LT AAN+SG+
Sbjct: 95  KAYGQIVLPVFYHVDPSDVDQQTGSFGNAFAELERNFKQKMDKVPRWRADLTSAANISGW 154

Query: 58  DSFVIRNESELIKKVVNDILEKLPKVVPCDSKNELVGVESRVEEIQ-SLLGAAP---LLG 113
           DS V R ES L++++V+ IL+KL      D K  LVG++SR+E+I+ SL    P    +G
Sbjct: 155 DSQVTRPESSLVEQIVHHILKKLNYASSSDLKG-LVGMDSRMEQIEASLCTKLPEFCFVG 213

Query: 114 IWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNV 173
           IWG+GG GKTTIA  IFN+I+R ++G  FL N+RE S+K GGL  ++ +L S++ ++ N+
Sbjct: 214 IWGMGGTGKTTIAGEIFNKIAREYEGHYFLANVRE-SEKNGGLFRIRDELFSKITEEENL 272

Query: 174 ---IPHIDLNF--RRLSCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQVL 228
               P I   F   R+  +K+LIV DDV  ++QIE L+G  +   P SRI++T+R+KQVL
Sbjct: 273 HIRTPRIGHPFIKDRICRKKILIVFDDVNDVDQIEMLLGGCESFGPGSRIILTSRDKQVL 332

Query: 229 RNCHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGC 288
           +  + ++I+E++GL    AL LF  HAF+ N    +Y ELS + INYA+G PLALK+LG 
Sbjct: 333 KK-YADKIFEVEGLNHREALHLFSLHAFKDNQPPYNYMELSVRAINYAKGNPLALKVLGS 391

Query: 289 YLFERKKEVWENAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFFKGEDIYLVK 348
            LF R  + WE+A+ K++    Q +  VL+ISY+ LD++EK+IFLD+ACFF+G  +  VK
Sbjct: 392 SLFGRTTKEWESALNKVEKLTRQKVHSVLRISYEALDSEEKSIFLDIACFFRGHRVDFVK 451

Query: 349 KFFEASGFYPEIGISILVDKALIAINSYNKITMHDLLQELGREIVRQESTNP-GNRTRLW 407
           +  +  GF  +IG S+L+D+ LI I S +K+ MHDLLQE+  ++VR+ES +  G ++RLW
Sbjct: 452 RILDGCGFKTDIGFSVLIDRCLIKI-SDDKVEMHDLLQEMAHDVVRKESLDELGGQSRLW 510

Query: 408 HHEDIYEVLAYN 419
             +D+Y+VL  N
Sbjct: 511 SPKDVYQVLTNN 522

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

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 =  371 bits (952), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 208/429 (48%), Positives = 288/429 (67%), Gaps = 14/429 (3%)

Query: 1   KVYAQIVIPVFYRVDPSHVRKQIGSFGVSFSKLKEKFPE---KMQRWRSALTEAANLSGF 57
           K   QIV+PVFY VDPS V +Q G FG +F + ++ F E   K+Q+WR+ALTEAAN+SG+
Sbjct: 98  KTVGQIVLPVFYHVDPSDVAEQKGGFGAAFIEHEKCFKERIDKLQKWRAALTEAANISGW 157

Query: 58  DSFVIRNESELIKKVVNDILEKLPKVVPCDSKNELVGVESRVEEIQSLL----GAAPLLG 113
            S VIR+ES+LI+++  DIL+KL  +        LVG+ SR+++I+ LL         LG
Sbjct: 158 SSSVIRSESKLIQEIAEDILKKLNHMSSSTDSKGLVGINSRIDKIELLLCVELADVRFLG 217

Query: 114 IWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVL--KDV 171
           +WG+GG GKTT A V+FNRIS  F   CFL N+ EES++ G L  LQ++L S++L   +V
Sbjct: 218 LWGMGGAGKTTTAEVVFNRISTQFDSCCFLANVNEESERYGLLK-LQRQLFSKLLGQDNV 276

Query: 172 NVIPHIDLNFRRLSCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQVLRNC 231
           N    I  +  RL  RKVLIVLDDV  L Q+E+L G  +   P SRI++T+R+K VL+N 
Sbjct: 277 NYAEGI-FDKSRLKHRKVLIVLDDVNNLRQLENLAGEHNWFGPGSRIILTSRDKDVLKN- 334

Query: 232 HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYLF 291
             + IY+++ L    AL+LF  +AFRQ     DY +LS +VINYA+G PL LK+LG +L+
Sbjct: 335 KTDAIYKIEDLDHHEALQLFSLNAFRQECPKADYMKLSKRVINYAKGNPLGLKVLGSFLY 394

Query: 292 ERKKEVWENAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFFKGEDIYLVKKFF 351
           +R  + WE+A+ KL+   ++ I +VLK+SYD LD++EK+IFLDVACFF GED   V +  
Sbjct: 395 QRNIKEWESALHKLERSTNKEIQNVLKVSYDGLDDEEKDIFLDVACFFNGEDRDFVTRIL 454

Query: 352 EASGFYPEIGISILVDKALIAINSYNKITMHDLLQELGREIVRQESTN-PGNRTRLWHHE 410
              GF  +I IS+LV K+L+ I S N + +H+LLQ++G  IVRQEST  PG R+RL   E
Sbjct: 455 NGCGFSADIAISVLVSKSLLTI-SNNTLAIHNLLQQMGWGIVRQESTKEPGRRSRLCTSE 513

Query: 411 DIYEVLAYN 419
           D+  VL+ N
Sbjct: 514 DVVHVLSKN 522

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255573549|ref|XP_002527699.1| ATP binding protein, putative [Ricinus communis] gi|223532930|gb|EEF34698.1| ATP binding protein, putative [Ricinus communis]

 Score =  368 bits (945), Expect = 2e-99,   Method: Compositional matrix adjust.
 Identities = 202/430 (46%), Positives = 292/430 (67%), Gaps = 14/430 (3%)

Query: 1   KVYAQIVIPVFYRVDPSHVRKQIGSFGVSFSKLKEKFPEKMQRWRSALTEAANLSGFDSF 60
           K   QIV+PVFY VDP  VRKQ G+FG +FS+    F +K+ RWR+AL EAAN SG+   
Sbjct: 97  KTMGQIVLPVFYEVDPREVRKQSGAFGEAFSRHVIDFTDKVSRWRTALAEAANYSGWVLG 156

Query: 61  VIRNESELIKKVVNDILEKLPKVVPCDSKNELVGVESRVEEIQSLLGAAPL----LGIWG 116
             R ES +I  +VN IL++L ++    + + L+G++S V+++++LL         +GIWG
Sbjct: 157 DTRPESLVINDIVNYILKRLHQL--SSNLDGLIGMDSHVKQLETLLCLGSFDNRTVGIWG 214

Query: 117 IGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPH 176
           +GGIGKTTIARVIFN++S +F+  CFL NIRE+  K G L  LQ++ L E+    N+   
Sbjct: 215 MGGIGKTTIARVIFNKMSGSFENRCFLGNIREKIGKTG-LLNLQREFLCEISGGENISAD 273

Query: 177 I-----DLNFRRLSCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQVLRNC 231
                     +RL  +KVL+VLDDV  L  + SL G L+   P SRI++T+R+KQVL+ C
Sbjct: 274 TVDVMSSFIIKRLRNKKVLVVLDDVDNLMDLSSLTGGLNLFGPGSRIIVTSRDKQVLQYC 333

Query: 232 HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYLF 291
            ++ IYE+KGL +  +L+LF  +AF Q+L    Y  LS++V+ YA+G+PLALKI G +L 
Sbjct: 334 GVDSIYEVKGLNNHESLQLFSHYAFEQSLPTEAYWNLSNRVLQYAKGLPLALKICGSHLC 393

Query: 292 ERKKEVWENAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFFKGEDIYLVKKFF 351
            R  E WE+ + +L++ L+  + +VL+ISY  LD+ +K+IFLD+ACFF+G+ I  VK+  
Sbjct: 394 TRSIEQWESILHRLESPLNSEVQEVLQISYYGLDDLDKDIFLDIACFFRGQGIDHVKEIL 453

Query: 352 EASGFYPEIGISILVDKALIAINSYNKITMHDLLQELGREIVRQEST-NPGNRTRLWHHE 410
             SGFY +IGI+ L+ K+LI+I S  ++ MH+L+QE+G EIVRQES   PG+R+RLW+HE
Sbjct: 454 YDSGFYADIGIARLIGKSLISI-SDKRLEMHNLVQEMGWEIVRQESIYEPGSRSRLWNHE 512

Query: 411 DIYEVLAYNR 420
           +IY VL  N+
Sbjct: 513 EIYHVLTSNK 522

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255569048|ref|XP_002525493.1| leucine-rich repeat-containing protein, putative [Ricinus communis] gi|223535172|gb|EEF36851.1| leucine-rich repeat-containing protein, putative [Ricinus communis]

 Score =  366 bits (940), Expect = 1e-98,   Method: Compositional matrix adjust.
 Identities = 205/429 (47%), Positives = 288/429 (67%), Gaps = 15/429 (3%)

Query: 1   KVYAQIVIPVFYRVDPSHVRKQIGSFGVSFSKLKEKFPEKMQRWRSALTEAANLSGFDSF 60
           + + Q V+PVFY VDPS V +Q GSF ++  +L++ F +K+ +WR+ L +AA++SG+DS 
Sbjct: 94  ETHGQAVLPVFYHVDPSDVEEQNGSFALTLVELEKNFKDKVSKWRTDLMKAASISGWDSR 153

Query: 61  VIRNESELIKKVVNDILEKLPKVVPCDSKNELVGVESRVEEIQSLLGAA----PLLGIWG 116
            I +E++L+K +V  IL+KL K    D K  L+G++S + +I+ LL         +G+WG
Sbjct: 154 AIGSEAKLVKHIVEHILQKLNKASSTDLKG-LIGLDSHIRKIKKLLQIGLPDIRTVGLWG 212

Query: 117 IGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNV--- 173
           + GIGKTTIA  IFN +S  F+G CFLENI+EES++ G L  L+ KLLSE+L + NV   
Sbjct: 213 MSGIGKTTIAGAIFNTLSSQFEGCCFLENIKEESERCG-LVPLRDKLLSEILMEGNVHIA 271

Query: 174 IPHIDLNF--RRLSCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQVLRNC 231
            P I       RL  +KVL+VLDDV  ++QIE+L+G  D  L  SR+L+T+R+KQVL+N 
Sbjct: 272 TPSIGSTSLKNRLRHKKVLLVLDDVNDVDQIETLIGRCDFGL-GSRVLVTSRDKQVLKNV 330

Query: 232 HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYLF 291
            +++IYE++GL DD AL+LF  HAF+ N    D  +LS +V+ +AQG PLALK+LG  LF
Sbjct: 331 -VDEIYEVEGLSDDEALQLFNLHAFKDNCSTTDKIKLSYRVVKHAQGNPLALKVLGSSLF 389

Query: 292 ERKKEVWENAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFFKGEDIYLVKKFF 351
            R K+ WE+A++KL+      I  VL+ S+D LD++EK+IFLD+ACFFKG+ I  VKK  
Sbjct: 390 ARSKQDWESALEKLERTPQPKIFHVLRSSFDALDDEEKSIFLDIACFFKGQQIGFVKKIL 449

Query: 352 EASGFYPEIGISILVDKALIAINSYNKITMHDLLQELGREIVRQESTNP-GNRTRLWHHE 410
              G    IGIS+L  K L++I   NK+ MHDLLQE+ +EIV QES    G R+RLW   
Sbjct: 450 NGCGLSAGIGISVLAGKCLVSIQE-NKLEMHDLLQEMAQEIVHQESIKELGKRSRLWSPS 508

Query: 411 DIYEVLAYN 419
           D  +VL  N
Sbjct: 509 DACQVLTKN 517

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356577113|ref|XP_003556672.1| PREDICTED: putative disease resistance protein At4g11170-like [Glycine max]

 Score =  365 bits (936), Expect = 3e-98,   Method: Compositional matrix adjust.
 Identities = 195/431 (45%), Positives = 285/431 (66%), Gaps = 16/431 (3%)

Query: 4   AQIVIPVFYRVDPSHVRKQIGSFGVSFSKLKEKFPEKM---QRWRSALTEAANLSGFDSF 60
             IVIPVFY++DPSHVRKQ G++G +F K +      M   Q+W++ALTE ANL G++  
Sbjct: 129 GHIVIPVFYKIDPSHVRKQTGTYGKAFEKYERDVKHNMAMLQKWKAALTEVANLVGWEFK 188

Query: 61  VIRNESELIKKVVNDILEKLPKVVPCDSKNELVGVESRVEEIQSLLGAAP----LLGIWG 116
             R E+ELI+ +V D++EKL ++ P + K  LVG++  +  I+SLL        ++GIWG
Sbjct: 189 NHRTENELIEGIVKDVMEKLNRIYPTEVKETLVGIDQNIAPIESLLRIGSKEVRIIGIWG 248

Query: 117 IGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKD-VNV-- 173
           +GG+GKTTIA  +F ++S  ++GSCFL N+REE +  G L +L+ KL SEVL+D VN+  
Sbjct: 249 MGGVGKTTIANALFTKLSSQYEGSCFLANVREEYENQG-LGYLRNKLFSEVLEDDVNLHI 307

Query: 174 -IPHIDLNF--RRLSCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQVLRN 230
             P +   F  RRL  +KVLIVLDDV    ++E L    D L   S +++TTR+K V+  
Sbjct: 308 STPKVRSTFVMRRLRQKKVLIVLDDVDDSKKLEYLAAQHDCLGSGSIVIVTTRDKHVISK 367

Query: 231 CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYL 290
             +++ YE+KGL   HA+ LF  +AF +   +  ++ LS +V+++A G PLALK+LG  L
Sbjct: 368 -GVDETYEVKGLSLHHAVRLFSLNAFGKTYPEKGFEMLSKQVVDHANGNPLALKVLGSLL 426

Query: 291 FERKKEVWENAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFFKGEDIYLVKKF 350
             R ++ W NA++KL    +  I +VL+ SYD LD ++KN+FLD+ACFF+GE+I  V + 
Sbjct: 427 HSRNEQQWANALRKLTKVPNAEIQNVLRWSYDGLDYEQKNMFLDIACFFRGENIENVIRL 486

Query: 351 FEASGFYPEIGISILVDKALIAINSYNKITMHDLLQELGREIVRQES-TNPGNRTRLWHH 409
            E  GFYP IGI IL +K+L+  +   K+ MHDL+QE+G EIV +ES  +PG R+RLW  
Sbjct: 487 LEICGFYPYIGIKILQEKSLVTFSDDGKVCMHDLIQEMGWEIVHRESIKDPGRRSRLWDP 546

Query: 410 EDIYEVLAYNR 420
           +++Y+VL  NR
Sbjct: 547 KEVYDVLKNNR 557

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356524185|ref|XP_003530712.1| PREDICTED: TMV resistance protein N-like [Glycine max]

 Score =  363 bits (933), Expect = 6e-98,   Method: Compositional matrix adjust.
 Identities = 194/423 (45%), Positives = 279/423 (65%), Gaps = 19/423 (4%)

Query: 4   AQIVIPVFYRVDPSHVRKQIGSFGVSFSKLKEKFPEKMQRWRSALTEAANLSGFDSFVIR 63
            QIVIPVFY +DPSHVRKQ GS+  +F K  E  P +  +W++ALTEAA L+GFDS   R
Sbjct: 110 GQIVIPVFYNIDPSHVRKQTGSYEQAFEK-HEGEP-RCNKWKTALTEAAGLAGFDSRNYR 167

Query: 64  NESELIKKVVNDILEKLPKVVPCDSKNELVGVESRVEEIQSLL--GAAPL--LGIWGIGG 119
            + EL+K +V  +L KLP     + +  L+G+E   ++I+SLL  G++ +  LGIWG+GG
Sbjct: 168 TDPELLKDIVGAVLRKLPPRYQ-NQRKGLIGIEDHCKQIESLLKIGSSEVKTLGIWGMGG 226

Query: 120 IGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDL 179
           IGKTT+A  +++++S  F+ +CFL N+ E+S K    +F           D+  +  +D 
Sbjct: 227 IGKTTLATTLYDKLSHKFEDACFLANLSEQSDKPKNRSFGNF--------DMANLEQLDK 278

Query: 180 NFRRLSCRKVLIVLDDVTCLNQIESLVGSLDR--LLPESRILITTRNKQVLRNCHINQIY 237
           N  RL  +KVLI+LDDVT   Q++ ++   D   L P SR+++TTR+KQ+L    +++IY
Sbjct: 279 NHSRLQDKKVLIILDDVTTSEQLDKIIPDFDCDFLGPGSRVIVTTRDKQILS--RVDEIY 336

Query: 238 EMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYLFERKKEV 297
            +     D +L+LF   AF +   +  Y +LS  V++Y +G+PLALK+LG  L  R KE+
Sbjct: 337 PVGEWSFDKSLQLFCLTAFGEKQPNDGYADLSRMVVSYCKGIPLALKVLGASLRSRSKEI 396

Query: 298 WENAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFFKGEDIYLVKKFFEASGFY 357
           WE  ++KL+   ++ I  VLK+SYD LD  E++IFLD+ACFFKG D   V +  EA  F+
Sbjct: 397 WECELRKLQKIPNKEIHKVLKLSYDGLDRSEQDIFLDIACFFKGRDRCWVTRVLEAFEFF 456

Query: 358 PEIGISILVDKALIAINSYNKITMHDLLQELGREIVRQESTNPGNRTRLWHHEDIYEVLA 417
           P  GI+IL+DKALI I+  N I MHDL+QE+GREIV QES +PG RTRLW HE++++VL 
Sbjct: 457 PAPGINILLDKALITISDSNLILMHDLIQEMGREIVHQESKDPGRRTRLWRHEEVHDVLK 516

Query: 418 YNR 420
           YN+
Sbjct: 517 YNK 519

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356550897|ref|XP_003543819.1| PREDICTED: TMV resistance protein N-like [Glycine max]

 Score =  363 bits (931), Expect = 1e-97,   Method: Compositional matrix adjust.
 Identities = 200/430 (46%), Positives = 283/430 (65%), Gaps = 21/430 (4%)

Query: 4   AQIVIPVFYRVDPSHVRKQIGSFGVSFSKLKEKFPEKMQRWRSALTEAANLSGFDSFVIR 63
            QIVIPVFY +DPSHVRKQ GS+  SF+K       +  +W++ALTEAANL+ +DS + R
Sbjct: 105 GQIVIPVFYNIDPSHVRKQTGSYEQSFAK--HTGEPRCSKWKAALTEAANLAAWDSQIYR 162

Query: 64  NESELIKKVVNDILEKLPKVVPCDSKNELVGVESRVEEIQSLL--GAAP--LLGIWGIGG 119
            ESE +K +V D+L KL    P + + ELVGVE   E+I+SLL  G++   +LGIWG+GG
Sbjct: 163 TESEFLKDIVKDVLRKLAPRYP-NHRKELVGVEENYEKIESLLKIGSSKVRILGIWGMGG 221

Query: 120 IGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNV------ 173
           IGKTT+A  +++++S  F+G CFL N+REES K G  A L+ KL SE+L++ N+      
Sbjct: 222 IGKTTLASALYDKLSPEFEGCCFLANVREESDKHGFKA-LRNKLFSELLENENLCFDASS 280

Query: 174 --IPHIDLNFRRLSCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQVLRNC 231
             + H  L+  RL  +KV IVLDDV    Q+E+L+   D L   SR+++TTRNKQ+    
Sbjct: 281 FLVSHFVLS--RLGRKKVFIVLDDVDTSEQLENLIEDFDFLGLGSRVIVTTRNKQIFSQ- 337

Query: 232 HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYLF 291
            +++IY++K L   H+L+LF    FR+      Y++LS   I+Y +G+PLALK+LG  L 
Sbjct: 338 -VDKIYKVKELSIHHSLKLFCLSVFREKQPKHGYEDLSRSAISYCKGIPLALKVLGASLR 396

Query: 292 ERKKEVWENAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFFKGEDIYLVKKFF 351
            R K+ WE  ++KL+ F +  I +VLK+SYD LD  +K IFLD+ACF +G+    V    
Sbjct: 397 SRSKQAWECELRKLQKFPNMEIHNVLKLSYDGLDYSQKEIFLDIACFLRGKQRDHVTSIL 456

Query: 352 EASGFYPEIGISILVDKALIAINSYNKITMHDLLQELGREIVRQES-TNPGNRTRLWHHE 410
           EA  F    GI +L+DKALI I+   +I MHDL+QE+G +IV QE   +PG R+RLW HE
Sbjct: 457 EAFDFPAASGIEVLLDKALITISGGIQIEMHDLIQEMGWKIVHQEHIKDPGRRSRLWKHE 516

Query: 411 DIYEVLAYNR 420
           ++++VL YN+
Sbjct: 517 EVHDVLKYNK 526

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359496034|ref|XP_002277500.2| PREDICTED: TMV resistance protein N-like [Vitis vinifera]

 Score =  359 bits (921), Expect = 2e-96,   Method: Compositional matrix adjust.
 Identities = 197/428 (46%), Positives = 290/428 (67%), Gaps = 11/428 (2%)

Query: 1   KVYAQIVIPVFYRVDPSHVRKQIGSFGVSFSKLKEKFPEKMQR---WRSALTEAANLSGF 57
           K   Q+V+P+FY+VDPS VRKQ GS+G +F+K +E   E M++   WR AL+E  N+SG 
Sbjct: 93  KTKGQVVLPIFYQVDPSDVRKQKGSYGKAFAKHEENMKENMEKVHIWREALSEVGNISGR 152

Query: 58  DSFVIRNESELIKKVVNDILEKLPKVVPCDSKNELVGVESRVEEIQSLLGAAP----LLG 113
           DS   ++ES LIK++V+ +L +L      D++++LVG+ S++ E++ LL        ++G
Sbjct: 153 DS-RNKDESVLIKEIVSMLLNELLSTPSSDAEDQLVGIGSQIREMELLLCTESTDVRMVG 211

Query: 114 IWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNV 173
           IWG+GGIGKTT+A+ I+N++S  F+G  +LE+  E+ +K G L  LQ+KLLS++L   N+
Sbjct: 212 IWGMGGIGKTTLAQAIYNQVSSQFEGCSYLEDAGEDLRKRG-LIGLQEKLLSQILGHENI 270

Query: 174 IPHIDLNFR-RLSCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQVLRNCH 232
             +  ++ + RL  R+V IVLD+V   + +E LVGS D     SRI+ITTR+K++L +  
Sbjct: 271 KLNGPISLKARLCSREVFIVLDNVYDQDILECLVGSHDWFGQGSRIIITTRDKRLLMSHG 330

Query: 233 INQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYLFE 292
           +  +YE+K L    A+E   R+A +Q +V  ++ ELS+ +I YAQG+PL LK+LG +LF 
Sbjct: 331 VRVVYEVKKLVHTEAIEFLGRYASKQQIVIDEFMELSNSIITYAQGLPLVLKVLGSFLFS 390

Query: 293 RKKEVWENAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFFKGEDIYLVKKFFE 352
             K  W + + KLK+  H  I +VL+ISYD LD+ EKNIFLD+ACFFKGED   V K  +
Sbjct: 391 MSKHEWRSELDKLKDTPHGRIQEVLRISYDGLDDKEKNIFLDIACFFKGEDKDHVIKILD 450

Query: 353 ASGFYPEIGISILVDKALIAINSYNKITMHDLLQELGREIVRQESTN-PGNRTRLWHHED 411
             GF+   GI  L+DK+LI I++ +KI MHDLLQE+GR+I+RQ S   PG R+RLW ++D
Sbjct: 451 GCGFFAVCGIRGLIDKSLITISNNDKIVMHDLLQEMGRKIIRQTSPKEPGKRSRLWIYKD 510

Query: 412 IYEVLAYN 419
            Y VL+ N
Sbjct: 511 AYHVLSKN 518

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 =  358 bits (919), Expect = 3e-96,   Method: Compositional matrix adjust.
 Identities = 199/432 (46%), Positives = 289/432 (66%), Gaps = 19/432 (4%)

Query: 1   KVYAQIVIPVFYRVDPSHVRKQIGSFGVSFSKLKEKFPEKMQR---WRSALTEAANLSGF 57
           KV    V PVFY VDPSHVRKQ GS+GV+F+K ++ + + M++   WR ALT A+ LSG+
Sbjct: 103 KVGGHTVFPVFYNVDPSHVRKQTGSYGVAFTKHEKVYRDNMEKVLKWREALTVASGLSGW 162

Query: 58  DSFVIRNESELIKKVVNDILEKLPKVVPCDSKNELVGVESRVEEIQSLLGAAP----LLG 113
           DS   R+ES++IK++V+ I  +L     C+ +  LVG++S ++ + SLL        ++G
Sbjct: 163 DS-RDRHESKVIKEIVSKIWNELNDASSCNME-ALVGMDSHIQNMVSLLCIGSDDVRMVG 220

Query: 114 IWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNV 173
           IWG+ GIGKTTIA  ++ +I   F+G CFL N+RE+SQK    A +Q +LLS+V  + N+
Sbjct: 221 IWGMAGIGKTTIAEAVYQKICTQFEGCCFLSNVREKSQK-NDPAVIQMELLSQVFWEGNL 279

Query: 174 IPHI---DLNF--RRLSCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQVL 228
              I    +N   + L   +VLIVLDDV    Q+E L G+ +   P SRI+ITTR K +L
Sbjct: 280 NTRIFNRGINAIKKTLHSMRVLIVLDDVDRPQQLEVLAGNHNWFGPGSRIIITTREKHLL 339

Query: 229 RNCHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGC 288
                 +IYE+K L  D A  LF +HAF+      D+ +L D+ +NY +G+PLALKILG 
Sbjct: 340 D--EKVEIYEVKELNKDEARRLFYQHAFKYKPPAGDFVQLCDRALNYTKGIPLALKILGR 397

Query: 289 YLFERKKEVWENAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFFKGEDIYLVK 348
           +L+ R K+ WE+ ++KL+   ++ I DVL+IS+D LD+++K+IF D+ACFFKG+D   V 
Sbjct: 398 FLYNRSKKEWESELEKLRRIPNKEIQDVLRISFDGLDDNQKDIFFDIACFFKGQDKDYVI 457

Query: 349 KFFEASGFYPEIGISILVDKALIAINSYNKITMHDLLQELGREIVRQEST-NPGNRTRLW 407
           K  ++  F+PEIGI  L+DK+L+ I SYNK+ MHDL+QE+G EIVRQES  +PG R+RLW
Sbjct: 458 KLLKSCDFFPEIGIRNLIDKSLVTI-SYNKLCMHDLIQEMGWEIVRQESMKDPGKRSRLW 516

Query: 408 HHEDIYEVLAYN 419
            ++D+ ++L  N
Sbjct: 517 VNDDVIDMLTTN 528

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	429
TAIR|locus:2167457	1191	AT5G36930 [Arabidopsis thalian	0.955	0.344	0.394	1.1e-70
TAIR|locus:2175991	1294	AT5G17680 [Arabidopsis thalian	0.965	0.319	0.377	2e-69
UNIPROTKB|Q40392	1144	N "TMV resistance protein N" [	0.955	0.358	0.383	4.9e-69
TAIR|locus:2146243	900	AT5G18360 [Arabidopsis thalian	0.972	0.463	0.377	3.2e-65
TAIR|locus:2155189	980	AT5G49140 [Arabidopsis thalian	0.958	0.419	0.372	2.2e-64
TAIR|locus:2136108	1095	AT4G11170 [Arabidopsis thalian	0.958	0.375	0.377	4e-64
TAIR|locus:2195468	1017	AT1G63880 [Arabidopsis thalian	0.967	0.408	0.347	1.3e-60
TAIR|locus:2170408	1139	AT5G46270 [Arabidopsis thalian	0.953	0.359	0.366	1.5e-60
TAIR|locus:2162439	1008	AT5G22690 [Arabidopsis thalian	0.965	0.410	0.377	2.7e-60
TAIR|locus:2147992	1189	AT5G11250 [Arabidopsis thalian	0.965	0.348	0.346	3.5e-60

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

 Score = 723 (259.6 bits), Expect = 1.1e-70, P = 1.1e-70
 Identities = 166/421 (39%), Positives = 246/421 (58%)

Query:     4 AQIVIPVFYRVDPSHVRKQIGSFGVSFSKLKEKFP-EKMQRWRSALTEAANLSGFDSFVI 62
             + +V P+F  VDPS +R Q GS+  SFSK K   P  K++ WR ALT+ AN+SG+D    
Sbjct:   104 SHMVFPIFLYVDPSDIRWQQGSYAKSFSKHKNSHPLNKLKDWREALTKVANISGWD-IKN 162

Query:    63 RNESELIKKVVNDILEKLPKVVPCDSKNELVGVESRVEEIQSXXXXXXXXXXXXXXXXX- 121
             RNE+E I  +  +IL++LP        +  VG+ SR++ I S                  
Sbjct:   163 RNEAECIADITREILKRLPCQY-LHVPSYAVGLRSRLQHISSLLSIGSDGVRVIVIYGMG 221

Query:   122 ---KTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNV-IPHI 177
                KTT+A+V FN  S  F+GS FLEN RE S+K  G   LQ +LLS++L+  ++    +
Sbjct:   222 GIGKTTLAKVAFNEFSHLFEGSSFLENFREYSKKPEGRTHLQHQLLSDILRRNDIEFKGL 281

Query:   178 DLNFR-RLSCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQVLRNCHINQI 236
             D   + R   ++VL+V+DDV  ++Q+ S     D     SRI+ITTRN  +L+       
Sbjct:   282 DHAVKERFRSKRVLLVVDDVDDVHQLNSAAIDRDCFGHGSRIIITTRNMHLLKQLRAEGS 341

Query:   237 YEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYLFERKKE 296
             Y  K L  D +LELF  HAFR +    ++ + S++V+ Y  G+PLA+++LG +L ER   
Sbjct:   342 YSPKELDGDESLELFSWHAFRTSEPPKEFLQHSEEVVTYCAGLPLAVEVLGAFLIERSIR 401

Query:   297 VWENAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFFKGEDIYLVKKFFEASGF 356
              WE+ +K LK   + NI   L+IS++ L  ++K++FLD+ACFF G D Y V    +    
Sbjct:   402 EWESTLKLLKRIPNDNIQAKLQISFNALTIEQKDVFLDIACFFIGVDSYYVACILDGCNL 461

Query:   357 YPEIGISILVDKALIAINSYNKITMHDLLQELGREIVRQESTNP-GNRTRLWHHEDIYEV 415
             YP+I +S+L+++ LI I+  N I MHDLL+++GR+IVR+ S    G R+RLW H D+  V
Sbjct:   462 YPDIVLSLLMERCLITISG-NNIMMHDLLRDMGRQIVREISPKKCGERSRLWSHNDVVGV 520

Query:   416 L 416
             L
Sbjct:   521 L 521

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:2175991 AT5G17680 [Arabidopsis thaliana (taxid:3702)]

 Score = 713 (256.0 bits), Expect = 2.0e-69, P = 2.0e-69
 Identities = 164/435 (37%), Positives = 258/435 (59%)

Query:     7 VIPVFYRVDPSHVRKQIGSFGVSFSKLKEKFPEKMQRWRSALTEAANLSGFDSFVIRN-- 64
             ++P+FY VDPS VR+Q GSFG       +K  EK+ +W+ AL + A +SG DS   RN  
Sbjct:   104 IVPIFYEVDPSDVRRQRGSFGEDVESHSDK--EKVGKWKEALKKLAAISGEDS---RNWD 158

Query:    65 ESELIKKVVNDILEKLPKVVPCDSKNELVGVESRVEEIQSXXXXXXXXXXXXXX----XX 120
             +S+LIKK+V DI +KL      DSK  L+G+ S ++ +QS                    
Sbjct:   159 DSKLIKKIVKDISDKLVSTSWDDSKG-LIGMSSHMDFLQSMISIVDKDVRMLGIWGMGGV 217

Query:   121 XKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVL--KDVNVIPHID 178
              KTTIA+ ++N++S  F+  CF+EN++E   + G +  LQ + L  +   +D      + 
Sbjct:   218 GKTTIAKYLYNQLSGQFQVHCFMENVKEVCNRYG-VRRLQVEFLCRMFQERDKEAWSSVS 276

Query:   179 L-NF--RRLSCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQVLRNCHINQ 235
               N    R   + V IVLDDV    Q+  LV       P SRI++TTR++ +L +  IN 
Sbjct:   277 CCNIIKERFRHKMVFIVLDDVDRSEQLNELVKETGWFGPGSRIIVTTRDRHLLLSHGINL 336

Query:   236 IYEMKGLGDDHALELFIRHAFRQNLV-DVDYKELSDKVINYAQGVPLALKILGCYLFERK 294
             +Y++K L    AL+LF  +AFR+ ++    ++ELS + +NYA G+PLAL++LG +L+ R 
Sbjct:   337 VYKVKCLPKKEALQLFCNYAFREEIILPHGFEELSVQAVNYASGLPLALRVLGSFLYRRS 396

Query:   295 KEVWENAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFFKGEDIYLVKKFFEAS 354
             +  WE+ + +LK + H +I++VL++SYD LD  EK IFL ++CF+  + +  V+K  +  
Sbjct:   397 QIEWESTLARLKTYPHSDIMEVLRVSYDGLDEQEKAIFLYISCFYNMKQVDYVRKLLDLC 456

Query:   355 GFYPEIGISILVDKALIAINSYNKITMHDLLQELGREIVRQESTN-PGNRTRLWHHEDIY 413
             G+  EIGI+IL +K+LI + S   + +HDLL+++GRE+VRQ++ N P  R  LW  EDI 
Sbjct:   457 GYAAEIGITILTEKSLI-VESNGCVKIHDLLEQMGRELVRQQAVNNPAQRLLLWDPEDIC 515

Query:   414 EVLAYNRLFSLLQDL 428
              +L+ N    L++ +
Sbjct:   516 HLLSENSGTQLVEGI 530

GO:0005622 "intracellular" evidence=IEA

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 707 (253.9 bits), Expect = 4.9e-69, P = 4.9e-69
 Identities = 167/435 (38%), Positives = 264/435 (60%)

Query:     3 YAQIVIPVFYRVDPSHVRKQIGSFGVSFSKLKEKFP---EKMQRWRSALTEAANLSGFDS 59
             + Q VIP+FY VDPSHVR Q  SF  +F + + K+    E +QRWR AL EAANL G   
Sbjct:    97 FKQTVIPIFYDVDPSHVRNQKESFAKAFEEHETKYKDDVEGIQRWRIALNEAANLKGSCD 156

Query:    60 FVIRNESELIKKVVNDILEKLPKVVPCDSKNELVGVESRVEEIQSXXXXXXXXXXXXXX- 118
                + +++ I+++V+ I  KL K+     +N +VG+++ +E+I+S               
Sbjct:   157 NRDKTDADCIRQIVDQISSKLCKISLSYLQN-IVGIDTHLEKIESLLEIGINGVRIMGIW 215

Query:   119 ---XXXKTTIARVIFNRI------SRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLK 169
                   KTTIAR IF+ +      S  F G+CFL++I+E  +   G+  LQ  LLSE+L+
Sbjct:   216 GMGGVGKTTIARAIFDTLLGRMDSSYQFDGACFLKDIKENKR---GMHSLQNALLSELLR 272

Query:   170 D-VNVIPHIDLNFR---RLSCRKVLIVLDDVTCLNQ-IESLVGSLDRLLPESRILITTRN 224
             +  N     D   +   RL  +KVLIVLDD+   +  +E L G LD     SRI+ITTR+
Sbjct:   273 EKANYNNEEDGKHQMASRLRSKKVLIVLDDIDNKDHYLEYLAGDLDWFGNGSRIIITTRD 332

Query:   225 KQVLRNCHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALK 284
             K ++    I  IYE+  L D  +++LF +HAF + + + ++++LS +V+NYA+G+PLALK
Sbjct:   333 KHLIEKNDI--IYEVTALPDHESIQLFKQHAFGKEVPNENFEKLSLEVVNYAKGLPLALK 390

Query:   285 ILGCYLFERKKEVWENAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFFKGEDI 344
             + G  L   +   W++AI+ +KN  +  I+D LKISYD L+  ++ +FLD+ACF +GE+ 
Sbjct:   391 VWGSLLHNLRLTEWKSAIEHMKNNSYSGIIDKLKISYDGLEPKQQEMFLDIACFLRGEEK 450

Query:   345 YLVKKFFEASGFYPEIGISILVDKALIAINSYNKITMHDLLQELGREIVRQESTNPGNRT 404
               + +  E+     E G+ IL+DK+L+ I+ YN++ MHDL+Q++G+ IV  +  +PG R+
Sbjct:   451 DYILQILESCHIGAEYGLRILIDKSLVFISEYNQVQMHDLIQDMGKYIVNFQK-DPGERS 509

Query:   405 RLWHHEDIYEVLAYN 419
             RLW  +++ EV++ N
Sbjct:   510 RLWLAKEVEEVMSNN 524

GO:0005515 "protein binding" evidence=IPI

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

 Score = 664 (238.8 bits), Expect = 3.2e-65, P = 3.2e-65
 Identities = 164/434 (37%), Positives = 253/434 (58%)

Query:     1 KVYAQIVIPVFYRVDPSHVRKQIGSFGVSFSKLKEKFPEK--MQRWRSALTEAANLSGFD 58
             K  +Q+++PVFY VDPS VRK+ G FG +F +  E+ P++   Q+WR AL   AN++G  
Sbjct:    94 KKVSQMIMPVFYEVDPSDVRKRTGEFGKAFEEACERQPDEEVKQKWREALVYIANIAGES 153

Query:    59 SFVIRNESELIKKVVNDILEKLPKVVPCDSKNELVGVESRVEEIQSXXXXXXXXXXXXX- 117
             S    NE++LI K+   I  +L   +  DS N LVG+++ + E+ S              
Sbjct:   154 SQNWDNEADLIDKIAMSISYELNSTLSRDSYN-LVGIDNHMRELDSLLCLESTEVKMVGI 212

Query:   118 ---XXXXKTTIARVIFNRISRNFKGSCFLENIREESQK----AGGLAF-LQQKLLSEVLK 169
                    KTTIAR +FNR+S NF+ + F+EN++  S+     A G    LQ++ LSEV+ 
Sbjct:   213 WGPAGIGKTTIARALFNRLSENFQHTIFMENVKGSSRTSELDAYGFQLRLQEQFLSEVID 272

Query:   170 DVNVIPHIDLNF--RRLSCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQV 227
               ++  H DL     RL   KVL+VLDDV  L Q+++LV         SRI++TT NKQ+
Sbjct:   273 HKHMKIH-DLGLVKERLQDLKVLVVLDDVDKLEQLDALVKQSQWFGSGSRIIVTTENKQL 331

Query:   228 LRNCHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILG 287
             LR   I  IYE+       +L++F ++AF ++       EL+ ++   A  +PLALK+LG
Sbjct:   332 LRAHGITCIYELGFPSRSDSLQIFCQYAFGESSAPDGCIELATEITKLAGYLPLALKVLG 391

Query:   288 CYLFERKKEVWENAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFFKGEDIYLV 347
               L    K+  ++A+ +L+  L+++I +VL++ YD + + +K IFL +AC F GE++  V
Sbjct:   392 SSLRGMSKDEQKSALPRLRTSLNEDIRNVLRVGYDGIHDKDKVIFLHIACLFNGENVDYV 451

Query:   348 KKFFEASGFYPEIGISILVDKALIAINSYNK-ITMHDLLQELGREIVRQES-TNPGNRTR 405
             K+   +SG     G+ +L  ++LI I+  N+ ITMH+LL++LGREIV ++S   PG R  
Sbjct:   452 KQILASSGLDVTFGLQVLTSRSLIHISRCNRTITMHNLLEQLGREIVCEQSIAEPGKRQF 511

Query:   406 LWHHEDIYEVLAYN 419
             L    +IY+VLA N
Sbjct:   512 LMDASEIYDVLADN 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:2155189 AT5G49140 [Arabidopsis thaliana (taxid:3702)]

 Score = 660 (237.4 bits), Expect = 2.2e-64, P = 2.2e-64
 Identities = 159/427 (37%), Positives = 246/427 (57%)

Query:     7 VIPVFYRVDPSHVRKQIGSFGVSFSKLKE-KFPEKMQRWRSALTEAANLSGFDSFVIRNE 65
             +IP+FY+V+PS VR Q G FG  F +  E K  E   +W++ALTEAAN++G DS   +NE
Sbjct:   101 LIPIFYKVNPSDVRNQTGKFGRGFRETCEGKNDETQNKWKAALTEAANIAGEDSQSWKNE 160

Query:    66 SELIKKVVNDILEKLPKVVPCDSKNELVGVESRVEEIQSXXXXXXXXXXXXX----XXXX 121
             ++ + K+  DIL KL      D +N ++G+ES +E++                       
Sbjct:   161 ADFLTKIAKDILAKLNGTPSNDFEN-IIGIESHMEKMVQLLCLNDDDVRMVGIWGPAGIG 219

Query:   122 KTTIARVIFNRISRNFKGSCFLENIREESQK---AGGLAFLQQKLLSEVL------KDVN 172
             KTTIARV+ +R S +F+ + F+EN+R   Q+   +GG   LQ +L  E L      KD  
Sbjct:   220 KTTIARVLHSRFSGDFRFTVFMENVRGNYQRIVDSGGEYNLQARLQKEFLPIIFNQKD-R 278

Query:   173 VIPHIDLNFRRLSCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQVLRNCH 232
              I H+     RL  +KVLIVL DV  + Q+E+L        P SRI++TT++KQ+L    
Sbjct:   279 KINHLWKIEERLKKQKVLIVLGDVDKVEQLEALANETRWFGPGSRIIVTTKDKQILVGHE 338

Query:   233 INQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYLFE 292
             IN IYE+K      ALE+   +AF+QN+   D+ ++  +V   +  +PL L++LG ++  
Sbjct:   339 INHIYEVKLPCRKTALEILCLYAFKQNVAPDDFMDVVVEVAELSGHLPLGLRVLGSHMRG 398

Query:   293 RKKEVWENAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFFKGEDIYLVKKFFE 352
             + K+ W+  + +L   L + +  +LKISYDDL   +K +FL +AC F GE+I LVK+   
Sbjct:   399 KSKDRWKLELGRLTTSLDEKVEKILKISYDDLHIRDKALFLHIACMFNGENIDLVKQMLV 458

Query:   353 ASGFYPEIGISILVDKALIAINSYNKITMHDLLQELGREIVRQESTNPGNRTRLWHHEDI 412
              S     +G+ +L+DK+LI IN   +I MH LL ++G+E+V Q S+ PG R  L++ ++ 
Sbjct:   459 NSDLDVSLGLQLLLDKSLIQINDDREIVMHSLLLKMGKEVVCQHSSEPGKRQFLFNTKET 518

Query:   413 YEVLAYN 419
               +L+ N
Sbjct:   519 CNILSNN 525

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 661 (237.7 bits), Expect = 4.0e-64, P = 4.0e-64
 Identities = 161/427 (37%), Positives = 244/427 (57%)

Query:     7 VIPVFYRVDPSHVRKQIGSFGVSFSKLK-EKFPEKMQRWRSALTEAANLSGFDSFVIRNE 65
             V+PVFY+VDPS +RKQ G FG+SF +    K  E+   WR ALT+AAN+ G       NE
Sbjct:    99 VMPVFYKVDPSDIRKQTGKFGMSFLETCCGKTEERQHNWRRALTDAANILGDHPQNWDNE 158

Query:    66 SELIKKVVNDILEKLPKVVPCDSKNELVGVESRVEEIQSXXXXXXXXXXXXX----XXXX 121
             +  I  +  D+LEKL    P    N+LVG+E+ + +++S                     
Sbjct:   159 AYKITTISKDVLEKL-NATPSRDFNDLVGMEAHIAKMESLLCLESQGVRIVGIWGPAGVG 217

Query:   122 KTTIARVIFNRISRNFKGSCFLENIREESQKAG----GLAF-LQQKLLSEVL--KDVNVI 174
             KTTIAR ++N+   NF  S F+EN+RE   +AG    GL   LQQ+ LS++L  KD+ V 
Sbjct:   218 KTTIARALYNQYHENFNLSIFMENVRESYGEAGLDDYGLKLHLQQRFLSKLLDQKDLRV- 276

Query:   175 PHIDLNFRRLSCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQVLRNCHIN 234
              H+     RL  +KVLI+LDDV  + Q+++L         +SRI++TT+NKQ+L +  IN
Sbjct:   277 RHLGAIEERLKSQKVLIILDDVDNIEQLKALAKENQWFGNKSRIVVTTQNKQLLVSHDIN 336

Query:   235 QIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYLFERK 294
              +Y++       AL +F +HAF+Q+    D K L+ +    A  +PLAL++LG ++  + 
Sbjct:   337 HMYQVAYPSKQEALTIFCQHAFKQSSPSDDLKHLAIEFTTLAGHLPLALRVLGSFMRGKG 396

Query:   295 KEVWENAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFFKGE-DIYLVKKFFEA 353
             KE WE ++  LK+ L   +  VLK+ YD L + EK++FL +AC F G+ + YL +     
Sbjct:   397 KEEWEFSLPTLKSRLDGEVEKVLKVGYDGLHDHEKDLFLHIACIFSGQHENYLKQMIIAN 456

Query:   354 SGFYPEIGISILVDKALIAINSYNKITMHDLLQELGREIVRQEST-NPGNRTRLWHHEDI 412
             +  Y   G+ +L DK+LI      +I MH LL++LG+E+VR++S   PG R  L + ++ 
Sbjct:   457 NDTYVSFGLQVLADKSLIQKFENGRIEMHSLLRQLGKEVVRKQSIYEPGKRQFLMNAKET 516

Query:   413 YEVLAYN 419
               VL+ N
Sbjct:   517 CGVLSNN 523

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IDA

GO:0010193 "response to ozone" evidence=IEP

TAIR|locus:2195468 AT1G63880 [Arabidopsis thaliana (taxid:3702)]

 Score = 627 (225.8 bits), Expect = 1.3e-60, P = 1.3e-60
 Identities = 150/432 (34%), Positives = 239/432 (55%)

Query:     1 KVYAQIVIPVFYRVDPSHVRKQIGSFGVSFSKL-KEKFPEKMQRWRSALTEAANLSGFDS 59
             K   QIV+ +FY VDPS VRKQIG FG++F++    K  E+ Q+W  AL + +N++G D 
Sbjct:    96 KAMGQIVMTIFYGVDPSDVRKQIGKFGIAFNETCARKTEEERQKWSKALNQVSNIAGEDF 155

Query:    60 FVIRNESELIKKVVNDILEKLPKVVPCDSKNELVGVESRVEEIQSXXXXXXXXXXXXXXX 119
                 NE+ +I+K+  D+L+KL    P    + +VG+E+ + EI+S               
Sbjct:   156 LRWDNEAIMIEKIARDVLDKL-NATPSRDFDGMVGIEAHLREIKSLLDLDNVEVKIVAIA 214

Query:   120 X----XKTTIARVIFNRISRNFKGSCFLENIREESQKA----GGLAFLQQKLLSEVLKDV 171
                   KTTIAR ++  +S+ F+ SCF++N+R          G    LQ++ LS+VL   
Sbjct:   215 GPAGIGKTTIARALYGLLSKRFQLSCFVDNLRGSYHSGFDEYGFKLHLQEQFLSKVLNQS 274

Query:   172 NV-IPHIDLNFRRLSCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQVLRN 230
              + I H+      LS ++VLI+LDDV  L Q+E+L        P SRI++TT NK++L+ 
Sbjct:   275 GMRICHLGAIKENLSDQRVLIILDDVNKLKQLEALANETTWFGPGSRIVVTTENKELLQQ 334

Query:   231 CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYL 290
               IN  Y +    D+ AL++   +AF+Q      ++ELS+ V      +PL L ++G  L
Sbjct:   335 HGINNTYHVGFPSDEDALKILCSYAFKQTSPRHGFEELSESVTKLCGKLPLGLCVVGSSL 394

Query:   291 FERKKEVWENAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFFKGEDIYLVKKF 350
               +K++ WE+ + +L+  L Q+I DVL++ Y+ LD + + +FL +A FF  ED  LVK  
Sbjct:   395 RGKKEDEWEDVVTRLETILDQDIEDVLRVGYESLDENAQTLFLHIAIFFNKEDGDLVKTM 454

Query:   351 FEASGFYPEIGISILVDKALIAI----NSYNKITMHDLLQELGREIVRQESTNPGNRTRL 406
             F  S    + G+ IL +++LI +    N   KI MH LLQ++G+  ++++   P  R  L
Sbjct:   455 FAESDLDVKYGLKILENRSLIKMKIFSNGDTKIVMHRLLQQMGKRAIQKQE--PWERQIL 512

Query:   407 WHHEDIYEVLAY 418
                 +I  VL +
Sbjct:   513 IDAREICHVLEH 524

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

GO:0050832 "defense response to fungus" evidence=IMP

TAIR|locus:2170408 AT5G46270 [Arabidopsis thaliana (taxid:3702)]

 Score = 615 (221.5 bits), Expect = 1.5e-60, Sum P(2) = 1.5e-60
 Identities = 158/431 (36%), Positives = 236/431 (54%)

Query:     5 QIVIPVFYRVDPSHVRKQIGSFGVSFSKLKEKFPEKMQ-RWRSALTEAANLSGFDSFVIR 63
             +IVIPVFY VDPS VR QIG FG  F K  ++  E+++ +W+ ALT+ AN+ GFDS    
Sbjct:   106 KIVIPVFYGVDPSQVRHQIGDFGKIFEKTCKRQTEQVKNQWKKALTDVANMLGFDSATWD 165

Query:    64 NESELIKKVVNDILEKLPKVVPCDSKNELVGVESRVEE----IQSXXXXXXXXXXXXXXX 119
             +E+++I+++ ND+L KL    P D +N  VG+E  +      ++                
Sbjct:   166 DEAKMIEEIANDVLAKLLLTTPKDFEN-FVGIEDHIANMSVLLKLEAEEVRMVGIWGSSG 224

Query:   120 XXKTTIARVIFNRISRNFKGSCFLENI-----REESQKAGG-----LAFLQQKLLSEVLK 169
               KTTIAR +FN++SR+F  S F++       RE   +A          LQ+KLLSE+L+
Sbjct:   225 IGKTTIARALFNQLSRHFPVSKFIDRAFVYKSREIFSRANPDDHNMKLHLQEKLLSEILR 284

Query:   170 DVNV-IPHIDLNFRRLSCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQVL 228
               ++ I H+ +   RL  +KVLI++DD+     ++SLVG        SRI+  T NK  L
Sbjct:   285 MPDIKIDHLGVLGERLQHQKVLIIVDDLDDQVILDSLVGQTQWFGSGSRIIAVTNNKHFL 344

Query:   229 RNCHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGC 288
             R   I+ IYE+      HAL +  + AFR+      ++ L  +V  +   +PL L +LG 
Sbjct:   345 RAHEIDHIYEVSLPTQQHALAMLCQSAFRKKSPPEGFEMLVVQVARHVDSLPLGLNVLGS 404

Query:   289 YLFERKKEVWENAIKKLKNFLHQNILDVLKISYDDLDNDE-KNIFLDVACFFKGEDIYLV 347
             YL  R KE W   + +L+N LH  I  +L+ISYD L ++E K IF  +AC F   ++  +
Sbjct:   405 YLRGRDKEYWMEMLPRLENGLHDKIEKILRISYDGLGSEEDKAIFRHIACLFNHMEVTTI 464

Query:   348 KKFFEASGFYPEIGISILVDKALIAINSYNKITMHDLLQELGREIVRQESTN-PGNRTRL 406
                    G    IG+  LVDK++I +     + MH +LQE+GR+IVR +S + PG R  L
Sbjct:   465 TSLLTDLGI--NIGLKNLVDKSIIHVRR-GCVEMHRMLQEMGRKIVRTQSIDKPGKREFL 521

Query:   407 WHHEDIYEVLA 417
                 DI +VL+
Sbjct:   522 VDPNDISDVLS 532

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:2162439 AT5G22690 [Arabidopsis thaliana (taxid:3702)]

 Score = 624 (224.7 bits), Expect = 2.7e-60, P = 2.7e-60
 Identities = 165/437 (37%), Positives = 238/437 (54%)

Query:     3 YAQIVIPVFYRVDPSHVRKQIGSFGVSFSKL-KEKFPEKMQRWRSALTEAANLSGFDSFV 61
             + QIVIPVFY +DP HVRKQ G FG+ F    + K  +++Q+WR ALT+ AN+ GF S  
Sbjct:    94 FGQIVIPVFYGLDPCHVRKQSGEFGIVFENTCQTKTDDEIQKWRRALTDVANILGFHSSN 153

Query:    62 IRNESELIKKVVNDILEKLPKVVPCDSKNELVGVESRVEEIQSXXXXXXXXXXXXX---- 117
               NE+ +++ + ND+L KL      +     VG+E  + +I                   
Sbjct:   154 WDNEATMVEDIANDVLAKLNLTTTSNDFEGFVGIEGHIAKISLMLCLECKQVRMFGIWGP 213

Query:   118 XXXXKTTIARVIFNRISRNFKGSCFLEN-IREESQK--AGGLA-------FLQQKLLSEV 167
                 KTTIAR +F+RISR+F+GS FL+     +S +  +GG          LQ K LSE+
Sbjct:   214 SGIGKTTIARALFSRISRHFQGSVFLDRAFVSKSMEIYSGGNVDNYNAKLHLQGKFLSEI 273

Query:   168 L--KDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNK 225
             L  KD+  I ++ +   RL   KVLI +DD+     +++L          SRI++ T++K
Sbjct:   274 LRAKDIK-ISNLGVVGERLKHMKVLIFIDDLDDQVVLDALASKPHWFGCGSRIIVITKDK 332

Query:   226 QVLRNCHINQIYEMKGLGDDH-ALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALK 284
             Q  R   I   YE+ GL  D  ALE+F + AFRQN     + EL+ +V   +  +PLAL 
Sbjct:   333 QFFRAHGIGLFYEV-GLPSDKLALEMFSQSAFRQNSPPPGFTELASEVSKRSGNLPLALN 391

Query:   285 ILGCYLFERKKEVWENAIKKLKNFLHQNILDVLKISYDDLDN-DEKNIFLDVACFFKGED 343
             +LG +L  R KE W + + +L+  L   I  +L++ YD+L N D+K IF  +AC F G +
Sbjct:   392 VLGSHLRGRDKEDWIDMLPRLRKGLDGKIEKILRVGYDELSNKDDKAIFRLIACLFNGAE 451

Query:   344 IYLVKKFFEASGFYPEIGISILVDKALIAINSYNKITMHDLLQELGREIVRQEST-NPGN 402
             I  +K     S     IG+  LVDK+LI I   + + MH +LQE+GREIVR++S   PG 
Sbjct:   452 ISYIKLLLADSNLGVTIGLKNLVDKSLIRIGC-DTVEMHSMLQEMGREIVREQSIYEPGE 510

Query:   403 RTRLWHHEDIYEVLAYN 419
             R  L    DI +VL  N
Sbjct:   511 REFLVDSTDILDVLNDN 527

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 626 (225.4 bits), Expect = 3.5e-60, P = 3.5e-60
 Identities = 148/427 (34%), Positives = 245/427 (57%)

Query:     3 YAQIVIPVFYRVDPSHVRKQIGSFGVSFSKLKEKFPEK-MQRWRSALTEAANLSGFDSFV 61
             Y Q V+ +FY+VDPS V+   G FG  F K     P+K + RWR A  + A ++G+ S  
Sbjct:   146 YGQTVMAIFYKVDPSDVKNLTGDFGKVFRKTCAGKPKKDIGRWRQAWEKVATVAGYHSIN 205

Query:    62 IRNESELIKKVVNDILEKLPKVVPCDSKNELVGVESRVEEIQSXXXXXXXXXXXXXX--- 118
               NE+ +IKK+  DI   L    P    + LVG+ + +E+++                  
Sbjct:   206 WDNEAAMIKKIATDISNILINSTPSRDFDGLVGMRAHLEKMKPLLCLDTDEVRIIGIWGP 265

Query:   119 -XXXKTTIARVIFNRISRNFKGSCFLENIREE-SQKAGGLAF-----LQQKLLSEVLKDV 171
                 KTTIARV++N++S +F+ S F+ENI+   ++  G   +     LQQ  +S++ K  
Sbjct:   266 PGIGKTTIARVVYNQLSHSFQLSVFMENIKANYTRPTGSDDYSAKLQLQQMFMSQITKQK 325

Query:   172 NV-IPHIDLNFRRLSCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQVLRN 230
             ++ IPH+ +   RL  +KVL+VLD V    Q++++        P SRI+ITT+++++ R 
Sbjct:   326 DIEIPHLGVAQDRLKDKKVLVVLDGVNQSVQLDAMAKEAWWFGPGSRIIITTQDQKLFRA 385

Query:   231 CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYL 290
               IN IY++     + AL++F  +AF QN     ++ L+ KVIN A  +PL L+I+G Y 
Sbjct:   386 HGINHIYKVDFPPTEEALQIFCMYAFGQNSPKDGFQNLAWKVINLAGNLPLGLRIMGSYF 445

Query:   291 FERKKEVWENAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFFKGEDIYLVKKF 350
                 +E W+ ++ +L++ L  +I  +LK SYD LD+++KN+FL +ACFF G++I ++++ 
Sbjct:   446 RGMSREEWKKSLPRLESSLDADIQSILKFSYDALDDEDKNLFLHIACFFNGKEIKILEEH 505

Query:   351 FEASGFYPEIGISILVDKALIAINSYNKITMHDLLQELGREIVRQESTN-PGNRTRLWHH 409
                        +++L +K+LI+ +++  I MH LL +LG EIVR +S + PG R  L+  
Sbjct:   506 LAKKFVEVRQRLNVLAEKSLISFSNWGTIEMHKLLAKLGGEIVRNQSIHEPGQRQFLFDG 565

Query:   410 EDIYEVL 416
             E+I +VL
Sbjct:   566 EEICDVL 572

GO:0005622 "intracellular" evidence=IEA

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: eugene3.01250003 tir-nbs-lrr resistance protein (1470 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	429
PLN03210	1153	PLN03210, PLN03210, Resistant to P	5e-91
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	7e-36
pfam01582	135	pfam01582, TIR, TIR domain	2e-06
smart00255	140	smart00255, TIR, Toll - interleukin 1 - resistance	3e-06
pfam13191	154	pfam13191, AAA_16, AAA ATPase domain	0.002

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

 Score =  297 bits (763), Expect = 5e-91
 Identities = 167/436 (38%), Positives = 251/436 (57%), Gaps = 19/436 (4%)

Query: 1   KVYAQIVIPVFYRVDPSHVRKQIGSFGVSFSKL-KEKFPEKMQRWRSALTEAANLSGFDS 59
           +   Q+VIPVFY +DPSHVRKQ G FG +F K  + K  ++  +W+ ALT+ AN+ G+ S
Sbjct: 95  EELGQLVIPVFYGLDPSHVRKQTGDFGEAFEKTCQNKTEDEKIQWKQALTDVANILGYHS 154

Query: 60  FVIRNESELIKKVVNDILEKLPKVVPCDSKNELVGVESRVEEIQSLLGAAP----LLGIW 115
               NE+++I+++ ND+L KL  + P +   + VG+E  + ++ SLL        ++GIW
Sbjct: 155 QNWPNEAKMIEEIANDVLGKL-NLTPSNDFEDFVGIEDHIAKMSSLLHLESEEVRMVGIW 213

Query: 116 GIGGIGKTTIARVIFNRISRNFKGSCFLEN--IREESQKAGGL--------AFLQQKLLS 165
           G  GIGKTTIAR +F+R+SR F+ S F++   I +  +               LQ+  LS
Sbjct: 214 GSSGIGKTTIARALFSRLSRQFQSSVFIDRAFISKSMEIYSSANPDDYNMKLHLQRAFLS 273

Query: 166 EVLKDVNV-IPHIDLNFRRLSCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRN 224
           E+L   ++ I H+     RL  RKVLI +DD+   + +++L G        SRI++ T++
Sbjct: 274 EILDKKDIKIYHLGAMEERLKHRKVLIFIDDLDDQDVLDALAGQTQWFGSGSRIIVITKD 333

Query: 225 KQVLRNCHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALK 284
           K  LR   I+ IYE+    ++ ALE+F R AF++N     + EL+ +V   A  +PL L 
Sbjct: 334 KHFLRAHGIDHIYEVCLPSNELALEMFCRSAFKKNSPPDGFMELASEVALRAGNLPLGLN 393

Query: 285 ILGCYLFERKKEVWENAIKKLKNFLHQNILDVLKISYDDLDN-DEKNIFLDVACFFKGED 343
           +LG YL  R KE W + + +L+N L   I   L++SYD L+N  +K IF  +AC F GE 
Sbjct: 394 VLGSYLRGRDKEDWMDMLPRLRNGLDGKIEKTLRVSYDGLNNKKDKAIFRHIACLFNGEK 453

Query: 344 IYLVKKFFEASGFYPEIGISILVDKALIAINSYNKITMHDLLQELGREIVRQESTNPGNR 403
           +  +K     S     IG+  LVDK+LI +   + + MH LLQE+G+EIVR +S  PG R
Sbjct: 454 VNDIKLLLANSDLDVNIGLKNLVDKSLIHV-REDIVEMHSLLQEMGKEIVRAQSNEPGER 512

Query: 404 TRLWHHEDIYEVLAYN 419
             L   +DI +VL  N
Sbjct: 513 EFLVDAKDICDVLEDN 528

syringae 6; Provisional. Length = 1153

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

 Score =  133 bits (336), Expect = 7e-36
 Identities = 71/269 (26%), Positives = 133/269 (49%), Gaps = 23/269 (8%)

Query: 112 LGIWGIGGIGKTTIARVIFN--RISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLK 169
           +GI G+GG+GKTT+A+ I+N   +  +F    ++   +  ++       LQ+ +L E+  
Sbjct: 22  VGIVGMGGVGKTTLAKQIYNDDSVGGHFDSVAWVVVSKTYTEFR-----LQKDILQELGL 76

Query: 170 DVNVIPHIDLN------FRRLSCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTR 223
           D +     + +         L  ++ L+VLDDV   N  + +          SR+++TTR
Sbjct: 77  DDSDWVEKNESELAVKIKEALLRKRFLLVLDDVWEKNDWDKIGVPFPDGENGSRVIVTTR 136

Query: 224 NKQVLRNCH-INQIYEMKGLGDDHALELFIRHAFRQNL-VDVDYKELSDKVINYAQGVPL 281
           ++ V       ++ +E++ L  + + ELF    F + L    + +E++ +++   +G+PL
Sbjct: 137 SESVAGRMGGTSKPHEVESLEPEESWELFSNKVFEKELPPCPELEEVAKEIVEKCKGLPL 196

Query: 282 ALKILGCYLFERKK-EVWENAIKKLKNFLHQN-----ILDVLKISYDDLDNDEKNIFLDV 335
           ALK+LG  L  +   + WE+ +++L N L        +L +L +SYD+L    K  FL +
Sbjct: 197 ALKVLGGLLAFKSTVQEWEHVLEQLNNELAGRDGLNEVLSILSLSYDNLPMHLKRCFLYL 256

Query: 336 ACFFKGEDIYLVK--KFFEASGFYPEIGI 362
           A F +  +I   +  K + A GF     I
Sbjct: 257 ALFPEDYNIRKEQLIKLWIAEGFVIPSDI 285

Length = 285

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

 Score = 46.5 bits (111), Expect = 2e-06
 Identities = 19/48 (39%), Positives = 30/48 (62%), Gaps = 3/48 (6%)

Query: 5   QIVIPVFYRVDPSHVRKQIGSFGVSFSKL---KEKFPEKMQRWRSALT 49
           ++++P+FY+VDPS VR Q G FG +F K         +K++ W+ AL 
Sbjct: 88  KVILPIFYKVDPSDVRPQSGKFGKAFLKTLKWSGDKEDKIRFWKKALY 135

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

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

 Score = 46.2 bits (110), Expect = 3e-06
 Identities = 24/52 (46%), Positives = 28/52 (53%), Gaps = 2/52 (3%)

Query: 5   QIVIPVFYRVDPSHVRKQIGSFGVSFSKLKEKFP--EKMQRWRSALTEAANL 54
             VIP+FY V PS VRKQ G F   F K   K+P  EK Q W+ AL    + 
Sbjct: 89  LRVIPIFYEVIPSDVRKQPGKFRKVFKKNYLKWPEDEKEQFWKKALYAVPSK 140

Length = 140

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

 Score = 38.3 bits (89), Expect = 0.002
 Identities = 30/153 (19%), Positives = 53/153 (34%), Gaps = 23/153 (15%)

Query: 91  ELVGVESRVEEIQSLL-----GAAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSC---- 141
            LVG E  +E +   L     G  P + + G  G GKT++ R +   +            
Sbjct: 1   RLVGREEELERLLDALRRARSGGPPSVLLTGPSGTGKTSLLRELLEGLLVAAGKCDQAER 60

Query: 142 ------------FLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLS-CRK 188
                        L  +  E      L                +   ++L  R L+  R 
Sbjct: 61  NPPYAFSQALRELLRQLLRELAAELLLLREALLAALGAELIEGLQDLVELLERLLARARP 120

Query: 189 VLIVLDDVTCLN-QIESLVGSLDRLLPESRILI 220
           +++VLDD+   + +   L+ +L R L    +L+
Sbjct: 121 LVLVLDDLQWADEESLDLLAALLRRLERLPLLV 153

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	429
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	99.8
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	99.72
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.59
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.52
COG3899	849	Predicted ATPase [General function prediction only	99.52
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	99.52
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.5
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.5
PF05729	166	NACHT: NACHT domain	99.34
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	99.33
COG3903	414	Predicted ATPase [General function prediction only	99.32
PLN03194	187	putative disease resistance protein; Provisional	99.31
COG2256	436	MGS1 ATPase related to the helicase subunit of the	99.23
PRK06893	229	DNA replication initiation factor; Validated	99.21
PRK13342	413	recombination factor protein RarA; Reviewed	99.16
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	99.16
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	99.14
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	99.1
PRK08727	233	hypothetical protein; Validated	99.06
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	99.04
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	99.04
PRK00440	319	rfc replication factor C small subunit; Reviewed	99.04
PRK12402	337	replication factor C small subunit 2; Reviewed	99.03
PF14516	331	AAA_35: AAA-like domain	99.03
PTZ00112	1164	origin recognition complex 1 protein; Provisional	99.02
PRK08084	235	DNA replication initiation factor; Provisional	99.01
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	99.01
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	99.01
PLN03025	319	replication factor C subunit; Provisional	99.0
PRK04195	482	replication factor C large subunit; Provisional	98.99
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	98.99
PRK07471	365	DNA polymerase III subunit delta'; Validated	98.99
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	98.98
PRK08903	227	DnaA regulatory inactivator Hda; Validated	98.97
PRK05642	234	DNA replication initiation factor; Validated	98.95
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	98.94
PF13173	128	AAA_14: AAA domain	98.93
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	98.93
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	98.91
PRK05564	313	DNA polymerase III subunit delta'; Validated	98.91
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	98.91
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	98.89
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	98.88
PRK13341	725	recombination factor protein RarA/unknown domain f	98.88
PRK09112	351	DNA polymerase III subunit delta'; Validated	98.88
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	98.87
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	98.87
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	98.86
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	98.86
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	98.86
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	98.85
PRK09087	226	hypothetical protein; Validated	98.85
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	98.84
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	98.81
PRK07940	394	DNA polymerase III subunit delta'; Validated	98.8
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	98.79
PRK14087	450	dnaA chromosomal replication initiation protein; P	98.78
KOG2028	554	consensus ATPase related to the helicase subunit o	98.78
PRK03992	389	proteasome-activating nucleotidase; Provisional	98.78
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	98.77
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	98.77
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.76
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	98.76
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	98.76
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	98.76
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.75
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	98.74
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	98.73
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	98.72
PRK06620	214	hypothetical protein; Validated	98.72
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	98.72
PTZ00202	550	tuzin; Provisional	98.71
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	98.71
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	98.69
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	98.69
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.69
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	98.68
PRK07399	314	DNA polymerase III subunit delta'; Validated	98.67
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	98.67
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	98.66
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	98.66
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	98.64
PRK14088	440	dnaA chromosomal replication initiation protein; P	98.62
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	98.62
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	98.61
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	98.61
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	98.61
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	98.6
PRK00149	450	dnaA chromosomal replication initiation protein; R	98.6
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	98.59
PHA02544	316	44 clamp loader, small subunit; Provisional	98.59
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	98.58
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	98.57
CHL00181	287	cbbX CbbX; Provisional	98.57
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	98.57
CHL00095	821	clpC Clp protease ATP binding subunit	98.55
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	98.54
PRK12422	445	chromosomal replication initiation protein; Provis	98.53
PRK14086	617	dnaA chromosomal replication initiation protein; P	98.5
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	98.49
PRK05707	328	DNA polymerase III subunit delta'; Validated	98.49
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	98.48
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	98.48
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	98.46
CHL00176	638	ftsH cell division protein; Validated	98.45
PRK10865	857	protein disaggregation chaperone; Provisional	98.43
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	98.41
PF00004	132	AAA: ATPase family associated with various cellula	98.4
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	98.39
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	98.38
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	98.37
PRK08769	319	DNA polymerase III subunit delta'; Validated	98.37
COG0593	408	DnaA ATPase involved in DNA replication initiation	98.36
CHL00195	489	ycf46 Ycf46; Provisional	98.3
PRK06871	325	DNA polymerase III subunit delta'; Validated	98.29
PRK12377	248	putative replication protein; Provisional	98.28
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	98.28
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	98.27
PRK06090	319	DNA polymerase III subunit delta'; Validated	98.27
PRK08116	268	hypothetical protein; Validated	98.25
PRK08181	269	transposase; Validated	98.25
PRK07993	334	DNA polymerase III subunit delta'; Validated	98.23
PRK08058	329	DNA polymerase III subunit delta'; Validated	98.23
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	98.22
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	98.19
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	98.19
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	98.18
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	98.17
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	98.17
cd01128	249	rho_factor Transcription termination factor rho is	98.17
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	98.15
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	98.15
PRK07952	244	DNA replication protein DnaC; Validated	98.13
PRK06526	254	transposase; Provisional	98.11
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	98.1
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	98.1
PRK10536	262	hypothetical protein; Provisional	98.09
PRK09376	416	rho transcription termination factor Rho; Provisio	98.08
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	98.08
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	98.05
PRK06964	342	DNA polymerase III subunit delta'; Validated	98.04
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	98.04
TIGR00767	415	rho transcription termination factor Rho. Members	98.02
COG1484	254	DnaC DNA replication protein [DNA replication, rec	98.01
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	98.0
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	97.99
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	97.99
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	97.98
PRK09183	259	transposase/IS protein; Provisional	97.98
smart00382	148	AAA ATPases associated with a variety of cellular	97.97
PRK06921	266	hypothetical protein; Provisional	97.96
PRK08939	306	primosomal protein DnaI; Reviewed	97.92
PRK06835	329	DNA replication protein DnaC; Validated	97.92
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	97.9
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	97.9
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	97.89
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	97.88
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	97.87
PRK13531	498	regulatory ATPase RavA; Provisional	97.86
PRK08699	325	DNA polymerase III subunit delta'; Validated	97.86
PRK04132	846	replication factor C small subunit; Provisional	97.86
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	97.85
PRK10865	857	protein disaggregation chaperone; Provisional	97.84
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	97.81
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	97.8
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	97.79
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	97.79
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.78
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	97.78
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.76
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	97.75
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	97.74
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	97.73
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.73
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	97.72
KOG1514	767	consensus Origin recognition complex, subunit 1, a	97.71
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	97.7
PRK12608	380	transcription termination factor Rho; Provisional	97.7
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	97.68
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	97.67
CHL00095	821	clpC Clp protease ATP binding subunit	97.66
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	97.66
KOG1970	634	consensus Checkpoint RAD17-RFC complex, RAD17/RAD2	97.63
PRK04296	190	thymidine kinase; Provisional	97.62
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.62
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	97.62
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	97.61
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	97.6
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	97.6
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	97.59
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	97.55
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	97.55
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	97.55
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	97.54
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	97.53
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	97.53
PRK00771	437	signal recognition particle protein Srp54; Provisi	97.52
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	97.49
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.48
PRK11608	326	pspF phage shock protein operon transcriptional ac	97.48
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	97.46
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	97.46
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	97.46
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	97.45
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	97.44
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	97.44
PHA00729	226	NTP-binding motif containing protein	97.43
KOG1969	877	consensus DNA replication checkpoint protein CHL12	97.41
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	97.41
PRK05022	509	anaerobic nitric oxide reductase transcription reg	97.4
KOG0736	953	consensus Peroxisome assembly factor 2 containing	97.34
PRK07132	299	DNA polymerase III subunit delta'; Validated	97.33
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	97.33
PRK06696	223	uridine kinase; Validated	97.31
PF10236	309	DAP3: Mitochondrial ribosomal death-associated pro	97.31
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	97.29
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	97.29
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	97.26
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	97.26
KOG0737	386	consensus AAA+-type ATPase [Posttranslational modi	97.26
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	97.26
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	97.23
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	97.22
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	97.2
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	97.19
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	97.18
PRK14974	336	cell division protein FtsY; Provisional	97.18
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	97.16
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	97.16
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	97.15
KOG0651	388	consensus 26S proteasome regulatory complex, ATPas	97.11
PRK08118	167	topology modulation protein; Reviewed	97.09
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	97.07
TIGR00959	428	ffh signal recognition particle protein. This mode	97.07
TIGR00064	272	ftsY signal recognition particle-docking protein F	97.04
TIGR02524	358	dot_icm_DotB Dot/Icm secretion system ATPase DotB.	97.03
COG5635	824	Predicted NTPase (NACHT family) [Signal transducti	97.03
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	97.02
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	97.02
PRK05973	237	replicative DNA helicase; Provisional	97.0
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	97.0
PRK07667	193	uridine kinase; Provisional	96.99
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	96.99
PRK06067	234	flagellar accessory protein FlaH; Validated	96.99
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	96.98
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	96.98
PRK05541	176	adenylylsulfate kinase; Provisional	96.97
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	96.97
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	96.97
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	96.97
CHL00206	2281	ycf2 Ycf2; Provisional	96.96
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	96.96
PRK15455	644	PrkA family serine protein kinase; Provisional	96.94
PRK05917	290	DNA polymerase III subunit delta'; Validated	96.94
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	96.92
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	96.92
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	96.92
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	96.91
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	96.9
PRK11823	446	DNA repair protein RadA; Provisional	96.89
TIGR02533	486	type_II_gspE general secretory pathway protein E.	96.89
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	96.89
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	96.89
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	96.89
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	96.89
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	96.88
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	96.88
PRK07261	171	topology modulation protein; Provisional	96.87
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	96.86
PF00437	270	T2SE: Type II/IV secretion system protein; InterPr	96.86
cd03216	163	ABC_Carb_Monos_I This family represents the domain	96.85
KOG0726	440	consensus 26S proteasome regulatory complex, ATPas	96.84
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	96.83
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	96.82
PRK10436	462	hypothetical protein; Provisional	96.81
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	96.8
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	96.8
TIGR02782	299	TrbB_P P-type conjugative transfer ATPase TrbB. Th	96.78
cd01394	218	radB RadB. The archaeal protein radB shares simila	96.78
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	96.77
PRK06762	166	hypothetical protein; Provisional	96.77
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	96.76
PRK10867	433	signal recognition particle protein; Provisional	96.76
COG2804	500	PulE Type II secretory pathway, ATPase PulE/Tfp pi	96.74
TIGR02329	526	propionate_PrpR propionate catabolism operon regul	96.74
TIGR02525	372	plasmid_TraJ plasmid transfer ATPase TraJ. Members	96.72
PTZ00301	210	uridine kinase; Provisional	96.72
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	96.71
cd03246	173	ABCC_Protease_Secretion This family represents the	96.71
PTZ00494	664	tuzin-like protein; Provisional	96.71
COG1643	845	HrpA HrpA-like helicases [DNA replication, recombi	96.7
TIGR02237	209	recomb_radB DNA repair and recombination protein R	96.7
COG2805	353	PilT Tfp pilus assembly protein, pilus retraction	96.7
PRK08233	182	hypothetical protein; Provisional	96.68
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	96.67
PRK05986	191	cob(I)alamin adenolsyltransferase/cobinamide ATP-d	96.67
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	96.67
PRK13765	637	ATP-dependent protease Lon; Provisional	96.66
PF07726	131	AAA_3: ATPase family associated with various cellu	96.66
PRK07276	290	DNA polymerase III subunit delta'; Validated	96.65
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	96.65
PRK10416	318	signal recognition particle-docking protein FtsY;	96.64
cd03115	173	SRP The signal recognition particle (SRP) mediates	96.62
KOG0742	630	consensus AAA+-type ATPase [Posttranslational modi	96.62
KOG0740	428	consensus AAA+-type ATPase [Posttranslational modi	96.62
PRK15115	444	response regulator GlrR; Provisional	96.61
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	96.61
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	96.6
PRK05480	209	uridine/cytidine kinase; Provisional	96.6
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	96.59
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	96.59
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	96.59
PRK00131	175	aroK shikimate kinase; Reviewed	96.58
COG0714	329	MoxR-like ATPases [General function prediction onl	96.58
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	96.58
PRK06547	172	hypothetical protein; Provisional	96.57
TIGR02538	564	type_IV_pilB type IV-A pilus assembly ATPase PilB.	96.56
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	96.56
PRK04040	188	adenylate kinase; Provisional	96.56
PRK09280	463	F0F1 ATP synthase subunit beta; Validated	96.56
cd03237	246	ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 o	96.53
COG2401	593	ABC-type ATPase fused to a predicted acetyltransfe	96.53
PRK03839	180	putative kinase; Provisional	96.53
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	96.52
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	96.52
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	96.52
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	96.52
KOG3928	461	consensus Mitochondrial ribosome small subunit com	96.51
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	96.51
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	96.51
PRK13833	323	conjugal transfer protein TrbB; Provisional	96.51
cd03283	199	ABC_MutS-like MutS-like homolog in eukaryotes. The	96.5
PHA02244	383	ATPase-like protein	96.5
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	96.49
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	96.49
COG3910	233	Predicted ATPase [General function prediction only	96.47
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	96.47
PF13245	76	AAA_19: Part of AAA domain	96.47
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	96.47
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	96.46
PF00406	151	ADK: Adenylate kinase; InterPro: IPR000850 Adenyla	96.46
TIGR02788	308	VirB11 P-type DNA transfer ATPase VirB11. The VirB	96.46
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	96.46
PRK00625	173	shikimate kinase; Provisional	96.45
PRK12597	461	F0F1 ATP synthase subunit beta; Provisional	96.44
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	96.44
TIGR01069	771	mutS2 MutS2 family protein. Function of MutS2 is u	96.44
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	96.43
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	96.43
TIGR01967	1283	DEAH_box_HrpA ATP-dependent helicase HrpA. This mo	96.42
KOG0736	953	consensus Peroxisome assembly factor 2 containing	96.42
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	96.41
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	96.41
PRK00889	175	adenylylsulfate kinase; Provisional	96.41
PRK11131	1294	ATP-dependent RNA helicase HrpA; Provisional	96.41
TIGR00235	207	udk uridine kinase. Model contains a number of lon	96.4
PRK05818	261	DNA polymerase III subunit delta'; Validated	96.39
COG0396	251	sufC Cysteine desulfurase activator ATPase [Posttr	96.39
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	96.39
KOG0924	1042	consensus mRNA splicing factor ATP-dependent RNA h	96.38
TIGR01039	461	atpD ATP synthase, F1 beta subunit. The sequences	96.38
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	96.38
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	96.38
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	96.36
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	96.35
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	96.35
PRK14529	223	adenylate kinase; Provisional	96.35
PTZ00088	229	adenylate kinase 1; Provisional	96.35
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	96.34
PRK13543	214	cytochrome c biogenesis protein CcmA; Provisional	96.34
PRK12678	672	transcription termination factor Rho; Provisional	96.32
PRK14528	186	adenylate kinase; Provisional	96.32
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	96.3
PRK13894	319	conjugal transfer ATPase TrbB; Provisional	96.3
COG1875	436	NYN ribonuclease and ATPase of PhoH family domains	96.3
TIGR03411	242	urea_trans_UrtD urea ABC transporter, ATP-binding	96.29
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	96.29
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	96.28
PRK09544	251	znuC high-affinity zinc transporter ATPase; Review	96.27
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	96.27
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	96.26
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	96.26
KOG0066	807	consensus eIF2-interacting protein ABC50 (ABC supe	96.25
PRK13947	171	shikimate kinase; Provisional	96.24
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	96.23
TIGR03740	223	galliderm_ABC gallidermin-class lantibiotic protec	96.23
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	96.22
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	96.22
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	96.22
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	96.19
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	96.18
PRK03846	198	adenylylsulfate kinase; Provisional	96.18
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	96.16
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	96.16
PRK15424	538	propionate catabolism operon regulatory protein Pr	96.14
cd03217	200	ABC_FeS_Assembly ABC-type transport system involve	96.14
cd01135	276	V_A-ATPase_B V/A-type ATP synthase (non-catalytic)	96.12
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	96.11
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	96.11
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	96.1
TIGR03305	449	alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit	96.09
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	96.09
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	96.09
PRK14530	215	adenylate kinase; Provisional	96.09
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	96.08
KOG0922	674	consensus DEAH-box RNA helicase [RNA processing an	96.07
PRK06217	183	hypothetical protein; Validated	96.07
PRK13949	169	shikimate kinase; Provisional	96.06
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	96.05
TIGR02768	744	TraA_Ti Ti-type conjugative transfer relaxase TraA	96.04
cd03300	232	ABC_PotA_N PotA is an ABC-type transporter and the	96.03
COG2884	223	FtsE Predicted ATPase involved in cell division [C	96.03
cd03287	222	ABC_MSH3_euk MutS3 homolog in eukaryotes. The MutS	96.03
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	96.02
CHL00060	494	atpB ATP synthase CF1 beta subunit	96.02
PRK12339	197	2-phosphoglycerate kinase; Provisional	96.02
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	96.01
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	95.99
) proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor" target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF06309">PF06309	127	Torsin: Torsin; InterPro: IPR010448 This family co	95.99
PRK13948	182	shikimate kinase; Provisional	95.98
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	95.98
PRK13764	602	ATPase; Provisional	95.98
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	95.98
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	95.98
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	95.98
PHA02774	613	E1; Provisional	95.97
PRK14527	191	adenylate kinase; Provisional	95.96
PRK00300	205	gmk guanylate kinase; Provisional	95.96
PF02367	123	UPF0079: Uncharacterised P-loop hydrolase UPF0079;	95.95
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	95.95
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	95.94
TIGR03522	301	GldA_ABC_ATP gliding motility-associated ABC trans	95.94
PRK13946	184	shikimate kinase; Provisional	95.93
PRK04328	249	hypothetical protein; Provisional	95.93
PRK13657	588	cyclic beta-1,2-glucan ABC transporter; Provisiona	95.92
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	95.92
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	95.92
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	95.92
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	95.9
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	95.9
PRK14737	186	gmk guanylate kinase; Provisional	95.9
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	95.9
cd03282	204	ABC_MSH4_euk MutS4 homolog in eukaryotes. The MutS	95.9
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	95.89
smart00534	185	MUTSac ATPase domain of DNA mismatch repair MUTS f	95.88
cd03243	202	ABC_MutS_homologs The MutS protein initiates DNA m	95.88
cd00046	144	DEXDc DEAD-like helicases superfamily. A diverse f	95.87
PRK15453	290	phosphoribulokinase; Provisional	95.87
PRK13900	332	type IV secretion system ATPase VirB11; Provisiona	95.86
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	95.86
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	95.85
PRK11174	588	cysteine/glutathione ABC transporter membrane/ATP-	95.84
COG0488	530	Uup ATPase components of ABC transporters with dup	95.84
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	95.83
PLN02674	244	adenylate kinase	95.83
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	95.83
TIGR03375	694	type_I_sec_LssB type I secretion system ATPase, Ls	95.83
KOG0732	1080	consensus AAA+-type ATPase containing the bromodom	95.82
KOG0927	614	consensus Predicted transporter (ABC superfamily)	95.82
PRK05057	172	aroK shikimate kinase I; Reviewed	95.81
PRK10875	615	recD exonuclease V subunit alpha; Provisional	95.8
KOG0920	924	consensus ATP-dependent RNA helicase A [RNA proces	95.8
PRK14531	183	adenylate kinase; Provisional	95.79
TIGR01287	275	nifH nitrogenase iron protein. This model describe	95.78
PLN02200	234	adenylate kinase family protein	95.78
PRK05439	311	pantothenate kinase; Provisional	95.77
TIGR01448	720	recD_rel helicase, putative, RecD/TraA family. Thi	95.76
PRK06761	282	hypothetical protein; Provisional	95.76
PRK08533	230	flagellar accessory protein FlaH; Reviewed	95.76
TIGR01818	463	ntrC nitrogen regulation protein NR(I). This model	95.76
COG0541	451	Ffh Signal recognition particle GTPase [Intracellu	95.76
COG0488	530	Uup ATPase components of ABC transporters with dup	95.75
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	95.75
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	95.75
TIGR01447	586	recD exodeoxyribonuclease V, alpha subunit. This f	95.74
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	95.73
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	95.73
cd00983	325	recA RecA is a bacterial enzyme which has roles in	95.73
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	95.7
PF02456	369	Adeno_IVa2: Adenovirus IVa2 protein; InterPro: IPR	95.7
PRK13975	196	thymidylate kinase; Provisional	95.7
PRK13808	333	adenylate kinase; Provisional	95.69
PF05970	364	PIF1: PIF1-like helicase; InterPro: IPR010285 This	95.68
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	95.68
TIGR02915	445	PEP_resp_reg putative PEP-CTERM system response re	95.68
TIGR03796	710	NHPM_micro_ABC1 NHPM bacteriocin system ABC transp	95.68
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	95.67
KOG2170	344	consensus ATPase of the AAA+ superfamily [General	95.67
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	95.66
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	95.63
PRK14493	274	putative bifunctional molybdopterin-guanine dinucl	95.62
PRK06851	367	hypothetical protein; Provisional	95.62
PF02374	305	ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_	95.61
KOG0058	716	consensus Peptide exporter, ABC superfamily [Intra	95.61
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	95.61
PRK14532	188	adenylate kinase; Provisional	95.6
PRK13768	253	GTPase; Provisional	95.59

>PLN03210 Resistant to P

Probab=100.00  E-value=9.1e-68  Score=574.22  Aligned_cols=426  Identities=38%  Similarity=0.631  Sum_probs=376.3

Q ss_pred             CCCCcEEEeEeeecccccccccccchHHHHHHhhhh-CHHHHHHHHHHHHHHHhhcCCccCCCCchHHHHHHHhhhhhcc
Q 048064            1 KVYAQIVIPVFYRVDPSHVRKQIGSFGVSFSKLKEK-FPEKMQRWRSALTEAANLSGFDSFVIRNESELIKKVVNDILEK   79 (429)
Q Consensus         1 ~~~~~~v~pvfy~v~p~~vr~~~~~~~~~~~~~~~~-~~~~~~~w~~al~~~~~~~~~~~~~~~~e~~~i~~i~~~~~~~   79 (429)
                      +..|++|+||||+|||+|||+|+|+||++|.++..+ ..+++++|++||+++|++.|++...+.+|++.|++|+++|..+
T Consensus        95 ~~~~~~v~pvfy~v~p~~v~~~~g~f~~~f~~~~~~~~~~~~~~w~~al~~~~~~~g~~~~~~~~E~~~i~~Iv~~v~~~  174 (1153)
T PLN03210         95 EELGQLVIPVFYGLDPSHVRKQTGDFGEAFEKTCQNKTEDEKIQWKQALTDVANILGYHSQNWPNEAKMIEEIANDVLGK  174 (1153)
T ss_pred             hhcCceEEEEEecccHHHHhhccchHHHHHHHHhcccchhHHHHHHHHHHHHhCcCceecCCCCCHHHHHHHHHHHHHHh
Confidence            357899999999999999999999999999998765 4567999999999999999999667789999999999999999


Q ss_pred             CCccccCCCCCcccchhhHHHHHHHhhc----CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeec--hhhh---
Q 048064           80 LPKVVPCDSKNELVGVESRVEEIQSLLG----AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENI--REES---  150 (429)
Q Consensus        80 ~~~~~p~~~~~~~vGR~~~~~~l~~~l~----~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~--~~~~---  150 (429)
                      +...++ .....+|||+.+++++..++.    +.++|+|+||||+||||||+.+|+++..+|+..+|+...  ....   
T Consensus       175 l~~~~~-~~~~~~vG~~~~l~~l~~lL~l~~~~~~vvgI~G~gGiGKTTLA~~l~~~l~~~F~g~vfv~~~~v~~~~~~~  253 (1153)
T PLN03210        175 LNLTPS-NDFEDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFSRLSRQFQSSVFIDRAFISKSMEIY  253 (1153)
T ss_pred             hccccC-cccccccchHHHHHHHHHHHccccCceEEEEEEcCCCCchHHHHHHHHHHHhhcCCeEEEeeccccccchhhc
Confidence            987666 777899999999999999986    788999999999999999999999999999988887532  1100   


Q ss_pred             h-----hcCCHHHHHHHHHHHHhcC-CCCCCCHHHHHHHhcCCcEEEEecCCCCHHHHHHHhccCCCCCCCCEEEEEeCC
Q 048064          151 Q-----KAGGLAFLQQKLLSEVLKD-VNVIPHIDLNFRRLSCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRN  224 (429)
Q Consensus       151 ~-----~~~~~~~~~~~l~~~~~~~-~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~~~~l~~~l~~~~~~~~iiiTtR~  224 (429)
                      .     .......++.+++..+... .........+.+.+.++++||||||+|+..+++.+.....++++|++||||||+
T Consensus       254 ~~~~~~~~~~~~~l~~~~l~~il~~~~~~~~~~~~~~~~L~~krvLLVLDdv~~~~~l~~L~~~~~~~~~GsrIIiTTrd  333 (1153)
T PLN03210        254 SSANPDDYNMKLHLQRAFLSEILDKKDIKIYHLGAMEERLKHRKVLIFIDDLDDQDVLDALAGQTQWFGSGSRIIVITKD  333 (1153)
T ss_pred             ccccccccchhHHHHHHHHHHHhCCCCcccCCHHHHHHHHhCCeEEEEEeCCCCHHHHHHHHhhCccCCCCcEEEEEeCc
Confidence            0     0011234555666665544 223334566888999999999999999999999998877778899999999999


Q ss_pred             hhhhhhcCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHHHhhcCCCHHHHHHHHHH
Q 048064          225 KQVLRNCHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYLFERKKEVWENAIKK  304 (429)
Q Consensus       225 ~~~~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~~~l~~~~~~~~~~~l~~  304 (429)
                      ..++...+...+|+++.|+.++|++||++++|+...++..+.+++.+++++|+|+||||+++|++|+.++..+|+..++.
T Consensus       334 ~~vl~~~~~~~~~~v~~l~~~ea~~LF~~~Af~~~~~~~~~~~l~~~iv~~c~GLPLAl~vlgs~L~~k~~~~W~~~l~~  413 (1153)
T PLN03210        334 KHFLRAHGIDHIYEVCLPSNELALEMFCRSAFKKNSPPDGFMELASEVALRAGNLPLGLNVLGSYLRGRDKEDWMDMLPR  413 (1153)
T ss_pred             HHHHHhcCCCeEEEecCCCHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHhCCCcHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            99988777778999999999999999999999887777778899999999999999999999999999999999999999


Q ss_pred             HhhCCCccHHHHHHHhhhcCCh-hhHHHHhhhhcccCCcCHHHHHHHHHHcCCChhhhHHHHHHcCceeEccCCeEEccH
Q 048064          305 LKNFLHQNILDVLKISYDDLDN-DEKNIFLDVACFFKGEDIYLVKKFFEASGFYPEIGISILVDKALIAINSYNKITMHD  383 (429)
Q Consensus       305 l~~~~~~~i~~~l~~s~~~L~~-~~~~~l~~la~f~~~~~~~~l~~~~~~~~~~~~~~l~~L~~~sLi~~~~~~~~~mH~  383 (429)
                      +....+..+..+|+.||+.|++ .+|.+|+++|||+.+.+.+.+..++..++.....+++.|++++||+.. .+++.||+
T Consensus       414 L~~~~~~~I~~~L~~SYd~L~~~~~k~~Fl~ia~ff~~~~~~~v~~~l~~~~~~~~~~l~~L~~ksLi~~~-~~~~~MHd  492 (1153)
T PLN03210        414 LRNGLDGKIEKTLRVSYDGLNNKKDKAIFRHIACLFNGEKVNDIKLLLANSDLDVNIGLKNLVDKSLIHVR-EDIVEMHS  492 (1153)
T ss_pred             HHhCccHHHHHHHHHhhhccCccchhhhhheehhhcCCCCHHHHHHHHHhcCCCchhChHHHHhcCCEEEc-CCeEEhhh
Confidence            9988888999999999999986 599999999999999999999999988888888899999999999987 67899999


Q ss_pred             HHHHHHHHHHhhhcCCCCCcccCCCcchHHHHHhcCCCccchhcc
Q 048064          384 LLQELGREIVRQESTNPGNRTRLWHHEDIYEVLAYNRLFSLLQDL  428 (429)
Q Consensus       384 lv~~~a~~~~~~~~~~~~~~~rl~~~~~i~~~l~~~~~~~~~~~~  428 (429)
                      ++|++|++++++++..+++|+|+|++.+|.++|.+++|++.+++|
T Consensus       493 Ll~~~~r~i~~~~~~~~~~r~~l~~~~di~~vl~~~~g~~~v~~i  537 (1153)
T PLN03210        493 LLQEMGKEIVRAQSNEPGEREFLVDAKDICDVLEDNTGTKKVLGI  537 (1153)
T ss_pred             HHHHHHHHHHHhhcCCCCcceeEeCHHHHHHHHHhCcccceeeEE
Confidence            999999999999887899999999999999999999999999876

syringae 6; Provisional

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=8.4e-42  Score=354.42  Aligned_cols=300  Identities=27%  Similarity=0.389  Sum_probs=258.4

Q ss_pred             cchhhHHHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHH---hhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHH
Q 048064           93 VGVESRVEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNR---ISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEV  167 (429)
Q Consensus        93 vGR~~~~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~---~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  167 (429)
                      ||.+..++.+.+.|.  +..+++|+||||+||||||++++++   +..+|+..+|+..    +. ......++++++..+
T Consensus       161 VG~e~~~~kl~~~L~~d~~~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~V----Sk-~f~~~~iq~~Il~~l  235 (889)
T KOG4658|consen  161 VGLETMLEKLWNRLMEDDVGIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVV----SK-EFTTRKIQQTILERL  235 (889)
T ss_pred             ccHHHHHHHHHHHhccCCCCEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEEE----cc-cccHHhHHHHHHHHh
Confidence            999999999999997  6689999999999999999999995   5678999999983    33 678899999999988


Q ss_pred             hcCCCCCCC------HHHHHHHhcCCcEEEEecCCCCHHHHHHHhccCCCCCCCCEEEEEeCChhhhhh-cCCCeEEEcC
Q 048064          168 LKDVNVIPH------IDLNFRRLSCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQVLRN-CHINQIYEMK  240 (429)
Q Consensus       168 ~~~~~~~~~------~~~l~~~l~~~~~LlVlDdv~~~~~~~~l~~~l~~~~~~~~iiiTtR~~~~~~~-~~~~~~~~l~  240 (429)
                      +........      ...+.+.|.++|++|||||||+...|+.+...++....|++|++|||+..++.. ++....++++
T Consensus       236 ~~~~~~~~~~~~~~~~~~i~~~L~~krfllvLDDIW~~~dw~~I~~~~p~~~~g~KvvlTTRs~~V~~~~m~~~~~~~v~  315 (889)
T KOG4658|consen  236 GLLDEEWEDKEEDELASKLLNLLEGKRFLLVLDDIWEEVDWDKIGVPFPSRENGSKVVLTTRSEEVCGRAMGVDYPIEVE  315 (889)
T ss_pred             ccCCcccchhhHHHHHHHHHHHhccCceEEEEecccccccHHhcCCCCCCccCCeEEEEEeccHhhhhccccCCcccccc
Confidence            775222211      122888999999999999999999999999999887789999999999999988 7778889999


Q ss_pred             CCCHHHHHHHHHHhhhcCC-CCChhHHHHHHHHHHHhCCChHHHHHHHHhhcC-CCHHHHHHHHHHHhhC-------CCc
Q 048064          241 GLGDDHALELFIRHAFRQN-LVDVDYKELSDKVINYAQGVPLALKILGCYLFE-RKKEVWENAIKKLKNF-------LHQ  311 (429)
Q Consensus       241 ~L~~~ea~~L~~~~~~~~~-~~~~~~~~~~~~i~~~~~G~PLai~~~~~~l~~-~~~~~~~~~l~~l~~~-------~~~  311 (429)
                      .|+++|||.||++.++... ...+...+++++++++|+|+|||+.++|+.|+. .+..+|+.+.+.+...       ...
T Consensus       316 ~L~~~eaW~LF~~~v~~~~~~~~~~i~~lak~v~~kC~GLPLAl~viG~~ma~K~t~~eW~~~~~~l~s~~~~~~~~~~~  395 (889)
T KOG4658|consen  316 CLTPEEAWDLFQKKVGPNTLGSHPDIEELAKEVAEKCGGLPLALNVLGGLLACKKTVQEWRRALNVLKSSLAADFSGMEE  395 (889)
T ss_pred             ccCccccHHHHHHhhccccccccccHHHHHHHHHHHhCChHHHHHHHHHHhcCCCcHHHHHHHHccccccccCCCCchhh
Confidence            9999999999999997763 333447899999999999999999999999988 4567999999988664       135


Q ss_pred             cHHHHHHHhhhcCChhhHHHHhhhhcccCC--cCHHHHHHHHHHcCCCh------------hhhHHHHHHcCceeEccC-
Q 048064          312 NILDVLKISYDDLDNDEKNIFLDVACFFKG--EDIYLVKKFFEASGFYP------------EIGISILVDKALIAINSY-  376 (429)
Q Consensus       312 ~i~~~l~~s~~~L~~~~~~~l~~la~f~~~--~~~~~l~~~~~~~~~~~------------~~~l~~L~~~sLi~~~~~-  376 (429)
                      .+..++..||+.|+++.|.||+|||+||++  ++.+.+..+|.++|+..            ..++.+|++++|+..... 
T Consensus       396 ~i~~iLklSyd~L~~~lK~CFLycalFPED~~I~~e~Li~yWiaEGfi~~~~~~~~~~d~G~~~i~~LV~~~Ll~~~~~~  475 (889)
T KOG4658|consen  396 SILPILKLSYDNLPEELKSCFLYCALFPEDYEIKKEKLIEYWIAEGFIDPLDGGETAEDVGYDYIEELVRASLLIEERDE  475 (889)
T ss_pred             hhHHhhhccHhhhhHHHHHHHHhhccCCcccccchHHHHHHHHhccCcCccccccchhcchHHHHHHHHHHHHHhhcccc
Confidence            788999999999999999999999999998  57799999999999643            336999999999997642 


Q ss_pred             ---CeEEccHHHHHHHHHHHhhhc
Q 048064          377 ---NKITMHDLLQELGREIVRQES  397 (429)
Q Consensus       377 ---~~~~mH~lv~~~a~~~~~~~~  397 (429)
                         ..+.|||+||++|..++++.+
T Consensus       476 ~~~~~~kmHDvvRe~al~ias~~~  499 (889)
T KOG4658|consen  476 GRKETVKMHDVVREMALWIASDFG  499 (889)
T ss_pred             cceeEEEeeHHHHHHHHHHhcccc
Confidence               469999999999999999443

>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-37  Score=291.88  Aligned_cols=259  Identities=29%  Similarity=0.478  Sum_probs=199.5

Q ss_pred             hhhHHHHHHHhhc----CCCEEEEEcCCCcchHHHHHHHHHH--hhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHh
Q 048064           95 VESRVEEIQSLLG----AAPLLGIWGIGGIGKTTIARVIFNR--ISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVL  168 (429)
Q Consensus        95 R~~~~~~l~~~l~----~~~~v~I~G~~GiGKTtLa~~~~~~--~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  168 (429)
                      |+.++++|.+.|.    +.++|+|+|+||+||||||.+++++  +..+|+.++|+.....     .....+...++..+.
T Consensus         1 re~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~-----~~~~~~~~~i~~~l~   75 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKN-----PSLEQLLEQILRQLG   75 (287)
T ss_dssp             -HHHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES------SCCHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeecccccccccccccccccccccc-----ccccccccccccccc
Confidence            7889999999887    5889999999999999999999998  8889987777764332     333777778888887


Q ss_pred             cCCCC---CCCH----HHHHHHhcCCcEEEEecCCCCHHHHHHHhccCCCCCCCCEEEEEeCChhhhhhcCC-CeEEEcC
Q 048064          169 KDVNV---IPHI----DLNFRRLSCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQVLRNCHI-NQIYEMK  240 (429)
Q Consensus       169 ~~~~~---~~~~----~~l~~~l~~~~~LlVlDdv~~~~~~~~l~~~l~~~~~~~~iiiTtR~~~~~~~~~~-~~~~~l~  240 (429)
                      .....   ....    +.+.+.+.++++||||||+|+...++.+...++....+++||||||+..+...... ...++++
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            76322   2222    33888899999999999999999998887777766779999999999988766544 6789999


Q ss_pred             CCCHHHHHHHHHHhhhcCC-CCChhHHHHHHHHHHHhCCChHHHHHHHHhhcC-CCHHHHHHHHHHHhhCC------Ccc
Q 048064          241 GLGDDHALELFIRHAFRQN-LVDVDYKELSDKVINYAQGVPLALKILGCYLFE-RKKEVWENAIKKLKNFL------HQN  312 (429)
Q Consensus       241 ~L~~~ea~~L~~~~~~~~~-~~~~~~~~~~~~i~~~~~G~PLai~~~~~~l~~-~~~~~~~~~l~~l~~~~------~~~  312 (429)
                      +|+.+|+++||.+.++... .......+.+++|++.|+|+||||+++|++++. .+..+|...++.+....      ...
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            9999999999999986654 223344567899999999999999999999954 25578999988876543      367


Q ss_pred             HHHHHHHhhhcCChhhHHHHhhhhcccCC--cCHHHHHHHHHHcCCCh
Q 048064          313 ILDVLKISYDDLDNDEKNIFLDVACFFKG--EDIYLVKKFFEASGFYP  358 (429)
Q Consensus       313 i~~~l~~s~~~L~~~~~~~l~~la~f~~~--~~~~~l~~~~~~~~~~~  358 (429)
                      +..++..||+.|+++.|.||++||+||.+  ++.+.+..+|.++|+..
T Consensus       236 ~~~~l~~s~~~L~~~~~~~f~~L~~f~~~~~i~~~~li~lW~~e~~i~  283 (287)
T PF00931_consen  236 VFSALELSYDSLPDELRRCFLYLSIFPEGVPIPRERLIRLWVAEGFIS  283 (287)
T ss_dssp             HHHHHHHHHHSSHTCCHHHHHHGGGSGTTS-EEHHHHHHHHTT-HHTC
T ss_pred             ccccceechhcCCccHHHHHhhCcCCCCCceECHHHHHHHHHHCCCCc
Confidence            99999999999999999999999999987  56899999998876543

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=99.80  E-value=2.8e-17  Score=177.76  Aligned_cols=292  Identities=15%  Similarity=0.173  Sum_probs=190.7

Q ss_pred             CCCCcccchhhHHHHHHHhhcCCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSE  166 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~  166 (429)
                      ..+..+|-|...++.|... ...+++.|+||+|.||||++.+++.+.    +.++|+. +...   ..+...+...++..
T Consensus        11 ~~~~~~~~R~rl~~~l~~~-~~~~~~~v~apaG~GKTtl~~~~~~~~----~~~~w~~-l~~~---d~~~~~f~~~l~~~   81 (903)
T PRK04841         11 VRLHNTVVRERLLAKLSGA-NNYRLVLVTSPAGYGKTTLISQWAAGK----NNLGWYS-LDES---DNQPERFASYLIAA   81 (903)
T ss_pred             CCccccCcchHHHHHHhcc-cCCCeEEEECCCCCCHHHHHHHHHHhC----CCeEEEe-cCcc---cCCHHHHHHHHHHH
Confidence            5667899999888877643 378899999999999999999988643    3466664 4332   23445555555555


Q ss_pred             HhcCCCC-------------CCCHH----HHHHHhc--CCcEEEEecCCCCHH--HHH-HHhccCCCCCCCCEEEEEeCC
Q 048064          167 VLKDVNV-------------IPHID----LNFRRLS--CRKVLIVLDDVTCLN--QIE-SLVGSLDRLLPESRILITTRN  224 (429)
Q Consensus       167 ~~~~~~~-------------~~~~~----~l~~~l~--~~~~LlVlDdv~~~~--~~~-~l~~~l~~~~~~~~iiiTtR~  224 (429)
                      +......             .....    .+...+.  +.+++|||||++..+  ... .+...+....++.++|||||.
T Consensus        82 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~lv~~sR~  161 (903)
T PRK04841         82 LQQATNGHCSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTLVVLSRN  161 (903)
T ss_pred             HHHhcCcccchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEEEEEeCC
Confidence            5322100             01111    1333333  578999999997542  222 333333344567889899998


Q ss_pred             hhhhh--hc-CCCeEEEcC----CCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHHHhhcCCCHHH
Q 048064          225 KQVLR--NC-HINQIYEMK----GLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYLFERKKEV  297 (429)
Q Consensus       225 ~~~~~--~~-~~~~~~~l~----~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~~~l~~~~~~~  297 (429)
                      .....  .+ .......+.    +|+.+|+.+||.......  .   ..+.+.++++.|+|+|+++..++..+...... 
T Consensus       162 ~~~~~~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~~~~~--~---~~~~~~~l~~~t~Gwp~~l~l~~~~~~~~~~~-  235 (903)
T PRK04841        162 LPPLGIANLRVRDQLLEIGSQQLAFDHQEAQQFFDQRLSSP--I---EAAESSRLCDDVEGWATALQLIALSARQNNSS-  235 (903)
T ss_pred             CCCCchHhHHhcCcceecCHHhCCCCHHHHHHHHHhccCCC--C---CHHHHHHHHHHhCChHHHHHHHHHHHhhCCCc-
Confidence            42211  11 112234455    999999999998765322  1   23557889999999999999988776543210 


Q ss_pred             HHHHHHHHhhCCCccHHHHHHH-hhhcCChhhHHHHhhhhcccCCcCHHHHHHHHHHcCCChhhhHHHHHHcCceeE--c
Q 048064          298 WENAIKKLKNFLHQNILDVLKI-SYDDLDNDEKNIFLDVACFFKGEDIYLVKKFFEASGFYPEIGISILVDKALIAI--N  374 (429)
Q Consensus       298 ~~~~l~~l~~~~~~~i~~~l~~-s~~~L~~~~~~~l~~la~f~~~~~~~~l~~~~~~~~~~~~~~l~~L~~~sLi~~--~  374 (429)
                      .......+.......+...+.. .++.||++.+.++..+|+++ .++.+.+..+.+.  ......++.|.+.+|+..  +
T Consensus       236 ~~~~~~~~~~~~~~~~~~~l~~~v~~~l~~~~~~~l~~~a~~~-~~~~~l~~~l~~~--~~~~~~L~~l~~~~l~~~~~~  312 (903)
T PRK04841        236 LHDSARRLAGINASHLSDYLVEEVLDNVDLETRHFLLRCSVLR-SMNDALIVRVTGE--ENGQMRLEELERQGLFIQRMD  312 (903)
T ss_pred             hhhhhHhhcCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcccc-cCCHHHHHHHcCC--CcHHHHHHHHHHCCCeeEeec
Confidence            1111122211123456665544 48999999999999999986 7787777666642  245778999999999764  2


Q ss_pred             c-CCeEEccHHHHHHHHHHHhhh
Q 048064          375 S-YNKITMHDLLQELGREIVRQE  396 (429)
Q Consensus       375 ~-~~~~~mH~lv~~~a~~~~~~~  396 (429)
                      + ..+|++|++++++.++.+..+
T Consensus       313 ~~~~~yr~H~L~r~~l~~~l~~~  335 (903)
T PRK04841        313 DSGEWFRYHPLFASFLRHRCQWE  335 (903)
T ss_pred             CCCCEEehhHHHHHHHHHHHHhc
Confidence            2 347999999999999988555

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=99.72  E-value=1.2e-15  Score=152.63  Aligned_cols=293  Identities=14%  Similarity=0.136  Sum_probs=192.3

Q ss_pred             CCCCcccchhhHHHHHHHhhcCCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSE  166 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~  166 (429)
                      .++.+.|-|...++.|.+.. +.|.+.|+.|+|.|||||+.+++. ....-..+.|+..-.    ...+...+...++..
T Consensus        16 ~~~~~~v~R~rL~~~L~~~~-~~RL~li~APAGfGKttl~aq~~~-~~~~~~~v~Wlslde----~dndp~rF~~yLi~a   89 (894)
T COG2909          16 VRPDNYVVRPRLLDRLRRAN-DYRLILISAPAGFGKTTLLAQWRE-LAADGAAVAWLSLDE----SDNDPARFLSYLIAA   89 (894)
T ss_pred             CCcccccccHHHHHHHhcCC-CceEEEEeCCCCCcHHHHHHHHHH-hcCcccceeEeecCC----ccCCHHHHHHHHHHH
Confidence            55678888887776666533 789999999999999999999998 444456777876322    256677788888777


Q ss_pred             HhcCCCCCC-------------CHHH----HHHHhc--CCcEEEEecCCC---CHHHHHHHhccCCCCCCCCEEEEEeCC
Q 048064          167 VLKDVNVIP-------------HIDL----NFRRLS--CRKVLIVLDDVT---CLNQIESLVGSLDRLLPESRILITTRN  224 (429)
Q Consensus       167 ~~~~~~~~~-------------~~~~----l~~~l~--~~~~LlVlDdv~---~~~~~~~l~~~l~~~~~~~~iiiTtR~  224 (429)
                      +....+...             .+..    +...+.  .++..+||||.+   +......+...+...+++..+++|||+
T Consensus        90 l~~~~p~~~~~a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~P~~l~lvv~SR~  169 (894)
T COG2909          90 LQQATPTLGDEAQTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLKHAPENLTLVVTSRS  169 (894)
T ss_pred             HHHhCccccHHHHHHHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHHhCCCCeEEEEEecc
Confidence            764422111             1111    233222  368999999996   222223333334445678999999998


Q ss_pred             hhhhhh--cC-CCeEEEcC----CCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHHHhhcC-CCHH
Q 048064          225 KQVLRN--CH-INQIYEMK----GLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYLFE-RKKE  296 (429)
Q Consensus       225 ~~~~~~--~~-~~~~~~l~----~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~~~l~~-~~~~  296 (429)
                      ..-..-  +. ....+++.    .|+.+|+.++|.......     -....++.+.+.++|++-|+.+++=.++. .+.+
T Consensus       170 rP~l~la~lRlr~~llEi~~~~Lrf~~eE~~~fl~~~~~l~-----Ld~~~~~~L~~~teGW~~al~L~aLa~~~~~~~~  244 (894)
T COG2909         170 RPQLGLARLRLRDELLEIGSEELRFDTEEAAAFLNDRGSLP-----LDAADLKALYDRTEGWAAALQLIALALRNNTSAE  244 (894)
T ss_pred             CCCCcccceeehhhHHhcChHhhcCChHHHHHHHHHcCCCC-----CChHHHHHHHhhcccHHHHHHHHHHHccCCCcHH
Confidence            732111  10 11222332    489999999998775221     12345889999999999999998888773 2222


Q ss_pred             HHHHHHHHHhhCCCccHHH-HHHHhhhcCChhhHHHHhhhhcccCCcCHHHHHHHHHHcCCChhhhHHHHHHcCceeE--
Q 048064          297 VWENAIKKLKNFLHQNILD-VLKISYDDLDNDEKNIFLDVACFFKGEDIYLVKKFFEASGFYPEIGISILVDKALIAI--  373 (429)
Q Consensus       297 ~~~~~l~~l~~~~~~~i~~-~l~~s~~~L~~~~~~~l~~la~f~~~~~~~~l~~~~~~~~~~~~~~l~~L~~~sLi~~--  373 (429)
                      .   ....+... ...+.+ ..+..++.||++.+.++..+|++. .++-+....+.+.  ......++.|.+++|+-.  
T Consensus       245 q---~~~~LsG~-~~~l~dYL~eeVld~Lp~~l~~FLl~~svl~-~f~~eL~~~Ltg~--~ng~amLe~L~~~gLFl~~L  317 (894)
T COG2909         245 Q---SLRGLSGA-ASHLSDYLVEEVLDRLPPELRDFLLQTSVLS-RFNDELCNALTGE--ENGQAMLEELERRGLFLQRL  317 (894)
T ss_pred             H---Hhhhccch-HHHHHHHHHHHHHhcCCHHHHHHHHHHHhHH-HhhHHHHHHHhcC--CcHHHHHHHHHhCCCceeee
Confidence            1   12212111 122222 334568899999999999999983 3444444444422  234556999999999884  


Q ss_pred             -ccCCeEEccHHHHHHHHHHHhhhc
Q 048064          374 -NSYNKITMHDLLQELGREIVRQES  397 (429)
Q Consensus       374 -~~~~~~~mH~lv~~~a~~~~~~~~  397 (429)
                       +++++|++|+++.+|.+...+.+.
T Consensus       318 dd~~~WfryH~LFaeFL~~r~~~~~  342 (894)
T COG2909         318 DDEGQWFRYHHLFAEFLRQRLQREL  342 (894)
T ss_pred             cCCCceeehhHHHHHHHHhhhcccc
Confidence             336789999999999999887764

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.59  E-value=8.3e-13  Score=129.32  Aligned_cols=279  Identities=16%  Similarity=0.089  Sum_probs=162.6

Q ss_pred             cCCCCCcccchhhHHHHHHHhhc------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcc-eeEEEeechhhhhhcCCHH
Q 048064           85 PCDSKNELVGVESRVEEIQSLLG------AAPLLGIWGIGGIGKTTIARVIFNRISRNFK-GSCFLENIREESQKAGGLA  157 (429)
Q Consensus        85 p~~~~~~~vGR~~~~~~l~~~l~------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~-~~~~~~~~~~~~~~~~~~~  157 (429)
                      |...+..|+||+.++++|...+.      ..+.+.|+|++|+|||++++.+++.+....+ ..+.+.++..    .....
T Consensus        25 ~~~~P~~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~----~~~~~  100 (394)
T PRK00411         25 PDYVPENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQI----DRTRY  100 (394)
T ss_pred             CCCcCCCCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCc----CCCHH
Confidence            33567889999999999999884      4467899999999999999999998765542 2222333332    23455


Q ss_pred             HHHHHHHHHHhcCC-C-CCCCHH----HHHHHhc--CCcEEEEecCCCCHH------HHHHHhccCCCCC-CCCEEEEEe
Q 048064          158 FLQQKLLSEVLKDV-N-VIPHID----LNFRRLS--CRKVLIVLDDVTCLN------QIESLVGSLDRLL-PESRILITT  222 (429)
Q Consensus       158 ~~~~~l~~~~~~~~-~-~~~~~~----~l~~~l~--~~~~LlVlDdv~~~~------~~~~l~~~l~~~~-~~~~iiiTt  222 (429)
                      .+...++.++.... + .....+    .+...+.  +++.+||||+++...      .+..+........ .+..+|.++
T Consensus       101 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~~~~~~~~v~vI~i~  180 (394)
T PRK00411        101 AIFSEIARQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAHEEYPGARIGVIGIS  180 (394)
T ss_pred             HHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhhhccCCCeEEEEEEE
Confidence            66667777765421 1 111222    2444443  456899999998653      3444443322211 122355555


Q ss_pred             CChhhhhhc-------CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHh----CCChHHHHHHHHhh-
Q 048064          223 RNKQVLRNC-------HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYA----QGVPLALKILGCYL-  290 (429)
Q Consensus       223 R~~~~~~~~-------~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~----~G~PLai~~~~~~l-  290 (429)
                      ....+...+       .....+.+++++.++..+++..++........-..+.++.+++.+    |..+.|+.++-..+ 
T Consensus       181 ~~~~~~~~l~~~~~s~~~~~~i~f~py~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~  260 (394)
T PRK00411        181 SDLTFLYILDPRVKSVFRPEEIYFPPYTADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGL  260 (394)
T ss_pred             CCcchhhhcCHHHHhcCCcceeecCCCCHHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            544332221       113467899999999999998876322111111123444555444    44566666553321 


Q ss_pred             ----cC---CCHHHHHHHHHHHhhCCCccHHHHHHHhhhcCChhhHHHHhhhhccc----CCcCHHHHHH----HHHHcC
Q 048064          291 ----FE---RKKEVWENAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFF----KGEDIYLVKK----FFEASG  355 (429)
Q Consensus       291 ----~~---~~~~~~~~~l~~l~~~~~~~i~~~l~~s~~~L~~~~~~~l~~la~f~----~~~~~~~l~~----~~~~~~  355 (429)
                          .+   -+......+.+...       .......+..||.+.+.++..++...    .+++...+..    ++..-+
T Consensus       261 ~a~~~~~~~I~~~~v~~a~~~~~-------~~~~~~~~~~L~~~~k~~L~ai~~~~~~~~~~~~~~~i~~~y~~l~~~~~  333 (394)
T PRK00411        261 IAEREGSRKVTEEDVRKAYEKSE-------IVHLSEVLRTLPLHEKLLLRAIVRLLKKGGDEVTTGEVYEEYKELCEELG  333 (394)
T ss_pred             HHHHcCCCCcCHHHHHHHHHHHH-------HHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHHHHHHcC
Confidence                11   13344544444431       23345568899999999988877553    2344433332    232223


Q ss_pred             CC------hhhhHHHHHHcCceeEc
Q 048064          356 FY------PEIGISILVDKALIAIN  374 (429)
Q Consensus       356 ~~------~~~~l~~L~~~sLi~~~  374 (429)
                      ..      ....++.|...|||...
T Consensus       334 ~~~~~~~~~~~~l~~L~~~glI~~~  358 (394)
T PRK00411        334 YEPRTHTRFYEYINKLDMLGIINTR  358 (394)
T ss_pred             CCcCcHHHHHHHHHHHHhcCCeEEE
Confidence            32      23478999999999963

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.52  E-value=1.6e-11  Score=119.02  Aligned_cols=277  Identities=15%  Similarity=0.114  Sum_probs=158.7

Q ss_pred             CCCCcccchhhHHHHHHHhhc------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcc-----eeEEEeechhhhhhcCC
Q 048064           87 DSKNELVGVESRVEEIQSLLG------AAPLLGIWGIGGIGKTTIARVIFNRISRNFK-----GSCFLENIREESQKAGG  155 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~-----~~~~~~~~~~~~~~~~~  155 (429)
                      ..|..++||+.++++|...+.      ..+.+.|+|++|+|||++++.+++.+.+...     ..+.+.++..    ...
T Consensus        12 ~~p~~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~----~~~   87 (365)
T TIGR02928        12 YVPDRIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQI----LDT   87 (365)
T ss_pred             CCCCCCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCC----CCC
Confidence            556789999999999999885      3468999999999999999999997754322     2233333332    234


Q ss_pred             HHHHHHHHHHHHhc---CCCCC-CC----HHHHHHHh--cCCcEEEEecCCCCHH-----HHHHHhccC--CCCC-CCCE
Q 048064          156 LAFLQQKLLSEVLK---DVNVI-PH----IDLNFRRL--SCRKVLIVLDDVTCLN-----QIESLVGSL--DRLL-PESR  217 (429)
Q Consensus       156 ~~~~~~~l~~~~~~---~~~~~-~~----~~~l~~~l--~~~~~LlVlDdv~~~~-----~~~~l~~~l--~~~~-~~~~  217 (429)
                      ...+...+..++..   ..+.. ..    ...+...+  .+++++||||++|...     .+..+....  .... ....
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            45666667666632   11111 11    22244444  3567899999998662     122333221  1111 2334


Q ss_pred             EEEEeCChhhhhhcC-------CCeEEEcCCCCHHHHHHHHHHhhh---cCCCCChhHHHHHHHHHHHhCCChHHHHHHH
Q 048064          218 ILITTRNKQVLRNCH-------INQIYEMKGLGDDHALELFIRHAF---RQNLVDVDYKELSDKVINYAQGVPLALKILG  287 (429)
Q Consensus       218 iiiTtR~~~~~~~~~-------~~~~~~l~~L~~~ea~~L~~~~~~---~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~  287 (429)
                      +|.++........+.       ....+.++|++.+|..+++..++.   .......+..+.+..++..+.|.|..+..+.
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            455554443222111       124688999999999999998863   1222233333455567777789985543332


Q ss_pred             Hhh-----c-C---CCHHHHHHHHHHHhhCCCccHHHHHHHhhhcCChhhHHHHhhhhcccC----CcCHHHHHH----H
Q 048064          288 CYL-----F-E---RKKEVWENAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFFK----GEDIYLVKK----F  350 (429)
Q Consensus       288 ~~l-----~-~---~~~~~~~~~l~~l~~~~~~~i~~~l~~s~~~L~~~~~~~l~~la~f~~----~~~~~~l~~----~  350 (429)
                      ...     . +   -+.+....+.+.+.       ......++..||.+.+.++..++....    .+....+..    +
T Consensus       248 ~~a~~~a~~~~~~~it~~~v~~a~~~~~-------~~~~~~~i~~l~~~~~~~l~ai~~~~~~~~~~~~~~~~~~~y~~~  320 (365)
T TIGR02928       248 RVAGEIAEREGAERVTEDHVEKAQEKIE-------KDRLLELIRGLPTHSKLVLLAIANLAANDEDPFRTGEVYEVYKEV  320 (365)
T ss_pred             HHHHHHHHHcCCCCCCHHHHHHHHHHHH-------HHHHHHHHHcCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHHH
Confidence            211     1 1   22334444443331       233456778999988888777663321    233332222    2


Q ss_pred             HHHcCCC------hhhhHHHHHHcCceeEc
Q 048064          351 FEASGFY------PEIGISILVDKALIAIN  374 (429)
Q Consensus       351 ~~~~~~~------~~~~l~~L~~~sLi~~~  374 (429)
                      +...+..      ....++.|...|||+..
T Consensus       321 ~~~~~~~~~~~~~~~~~l~~l~~~gli~~~  350 (365)
T TIGR02928       321 CEDIGVDPLTQRRISDLLNELDMLGLVEAE  350 (365)
T ss_pred             HHhcCCCCCcHHHHHHHHHHHHhcCCeEEE
Confidence            2222221      22368999999999974

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.

>COG3899 Predicted ATPase [General function prediction only]

Probab=99.52  E-value=6.1e-13  Score=139.94  Aligned_cols=320  Identities=16%  Similarity=0.209  Sum_probs=193.5

Q ss_pred             cccchhhHHHHHHHhhc-----CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEE--eechhhhhhcCCHHHHHHHH
Q 048064           91 ELVGVESRVEEIQSLLG-----AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFL--ENIREESQKAGGLAFLQQKL  163 (429)
Q Consensus        91 ~~vGR~~~~~~l~~~l~-----~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~--~~~~~~~~~~~~~~~~~~~l  163 (429)
                      .++||+.+++.|...+.     ...++.+.|.+|||||++++++...+.+.+...+.-  .......+ ...+....+.+
T Consensus         1 ~l~GRe~ev~~Ll~~f~~v~~g~~~~~lv~G~sGIGKsalv~ev~~~i~~~~~~~i~~~f~q~~~~ip-l~~lvq~~r~l   79 (849)
T COG3899           1 PLYGRETELAQLLAAFDRVSKGRGEVVLVAGESGIGKSALVNEVHKPITQQRGYFIKGKFDQFERNIP-LSPLVQAFRDL   79 (849)
T ss_pred             CCCchHhHHHHHHHHHHHHhCCCeEEEEEeecCCCcHHHHHHHHHHHHhccceeeeHhhcccccCCCc-hHHHHHHHHHH
Confidence            37999999999999987     567899999999999999999999876652211110  00000000 11122222223


Q ss_pred             HHHHhcC-------------------CCCCC-C---------------------HHH---------HHHH-hcCCcEEEE
Q 048064          164 LSEVLKD-------------------VNVIP-H---------------------IDL---------NFRR-LSCRKVLIV  192 (429)
Q Consensus       164 ~~~~~~~-------------------~~~~~-~---------------------~~~---------l~~~-l~~~~~LlV  192 (429)
                      ..++...                   ..... .                     .+.         +... .+.+|.++|
T Consensus        80 ~~~ll~~~~~~~~~~~~~il~~~g~~~~~~~~vip~L~~i~g~~~~~~el~~~~~~~r~n~~~~~~i~~~~~~~~plVi~  159 (849)
T COG3899          80 MGQLLSESDTRILSWRARLLAALGENGQVIIDVIPELELIIGKRPPALELSPTAAQNRFNLAFLRFIQVFTAEEHPLVIV  159 (849)
T ss_pred             HHHHhhccchHHHHHHHHHHHHhcccchhHHhhhHHHHhhcCCCcchhhcccchhHHHHHHHHHHHHHHHHhccCCeEEE
Confidence            2222111                   00000 0                     000         1111 234699999


Q ss_pred             ecCCC-CHH----HHHHHhccCC--CC-CCCCEEEEEeCCh--hhhhhcCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCC
Q 048064          193 LDDVT-CLN----QIESLVGSLD--RL-LPESRILITTRNK--QVLRNCHINQIYEMKGLGDDHALELFIRHAFRQNLVD  262 (429)
Q Consensus       193 lDdv~-~~~----~~~~l~~~l~--~~-~~~~~iiiTtR~~--~~~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~  262 (429)
                      +||++ -+.    -++.++....  .+ ......+.|.+..  .+.........+.|.||+..+...+............
T Consensus       160 leDlhWaD~~SL~lL~~lm~~~~~~~~~~n~v~~~h~~~~~~~~~~~~~~~i~~I~L~PL~~~d~~~lV~~~l~~~~~~~  239 (849)
T COG3899         160 LEDLHWADSASLKLLQLLMDRIAIGAYRDNEVLLLHPLRPTLGEILKSATNITTITLAPLSRADTNQLVAATLGCTKLLP  239 (849)
T ss_pred             EecccccChhHHHHHHHHHHhcchhhhhccccccCCCccchhhHHhhcCCceeEEecCcCchhhHHHHHHHHhCCccccc
Confidence            99994 222    2333333322  00 0011122233322  1122223457899999999999999988875433222


Q ss_pred             hhHHHHHHHHHHHhCCChHHHHHHHHhhcCC-------CHHHHHHHHHHHhhCC-CccHHHHHHHhhhcCChhhHHHHhh
Q 048064          263 VDYKELSDKVINYAQGVPLALKILGCYLFER-------KKEVWENAIKKLKNFL-HQNILDVLKISYDDLDNDEKNIFLD  334 (429)
Q Consensus       263 ~~~~~~~~~i~~~~~G~PLai~~~~~~l~~~-------~~~~~~~~l~~l~~~~-~~~i~~~l~~s~~~L~~~~~~~l~~  334 (429)
                         .+..+.++++..|||+++..+...+...       ....|..-...+.... .+++.+.+...+++||...++++..
T Consensus       240 ---~p~~~~i~~kt~GnPfFi~e~lk~l~~~~~i~f~~~~~~w~~~~~~i~~~~~~~~vv~~l~~rl~kL~~~t~~Vl~~  316 (849)
T COG3899         240 ---APLLELIFEKTKGNPFFIEEFLKALYEEGLLVFNFDTGAWQCSIASLGILATTDAVVEFLAARLQKLPGTTREVLKA  316 (849)
T ss_pred             ---chHHHHHHHHhcCCCccHHHHHHHHHhCCeeEecCCCcceeccHHhcCCchhhHHHHHHHHHHHhcCCHHHHHHHHH
Confidence               4668899999999999999999888653       2344554444433321 2235567889999999999999999


Q ss_pred             hhcccCCcCHHHHHHHHHHcCCChhhhHHHHHHcCceeEcc----CC----eE---EccHHHHHHHHHHHhhhcCCCCCc
Q 048064          335 VACFFKGEDIYLVKKFFEASGFYPEIGISILVDKALIAINS----YN----KI---TMHDLLQELGREIVRQESTNPGNR  403 (429)
Q Consensus       335 la~f~~~~~~~~l~~~~~~~~~~~~~~l~~L~~~sLi~~~~----~~----~~---~mH~lv~~~a~~~~~~~~~~~~~~  403 (429)
                      .||+.+.++.+.+..++..........+-.....++|...+    .+    ..   ..|+.+|+.+-....++     .|
T Consensus       317 AA~iG~~F~l~~La~l~~~~~~~~a~~l~~al~e~lI~~~~~~yr~~~~~~~~~Y~F~H~~vqqaaY~~i~~~-----~r  391 (849)
T COG3899         317 AACIGNRFDLDTLAALAEDSPALEAAALLDALQEGLILPLSETYRFGSNVDIATYKFLHDRVQQAAYNLIPES-----QR  391 (849)
T ss_pred             HHHhCccCCHHHHHHHHhhchHHHHHHHHHHhHhhceeccccccccccccchhhHHhhHHHHHHHHhccCchh-----hH
Confidence            99999999999999998764444444555555566666432    11    12   45888887776554333     23


Q ss_pred             ccCCCcchHHHHHhcCCC
Q 048064          404 TRLWHHEDIYEVLAYNRL  421 (429)
Q Consensus       404 ~rl~~~~~i~~~l~~~~~  421 (429)
                      +  ..|..|..+|..+..
T Consensus       392 q--~~H~~i~~lL~~~~~  407 (849)
T COG3899         392 Q--YLHLRIGQLLEQNIP  407 (849)
T ss_pred             H--HHHHHHHHHHHHhCC
Confidence            3  348888887765543

>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=99.52  E-value=7.3e-14  Score=126.41  Aligned_cols=190  Identities=19%  Similarity=0.283  Sum_probs=102.0

Q ss_pred             ccchhhHHHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHH------HHHH
Q 048064           92 LVGVESRVEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFL------QQKL  163 (429)
Q Consensus        92 ~vGR~~~~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~------~~~l  163 (429)
                      |+||+.++++|.+++.  ..+.+.|+|+.|+|||+|++.+.+...+.....+++........  ......      ...+
T Consensus         1 F~gR~~el~~l~~~l~~~~~~~~~l~G~rg~GKTsLl~~~~~~~~~~~~~~~y~~~~~~~~~--~~~~~~~~~~~~~~~l   78 (234)
T PF01637_consen    1 FFGREKELEKLKELLESGPSQHILLYGPRGSGKTSLLKEFINELKEKGYKVVYIDFLEESNE--SSLRSFIEETSLADEL   78 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH--SSEEEEEESTTSSHHHHHHHHHHHCT--EECCCHHCCTTBSHH--HHHHHHHHHHHHHCHC
T ss_pred             CCCHHHHHHHHHHHHHhhcCcEEEEEcCCcCCHHHHHHHHHHHhhhcCCcEEEEecccchhh--hHHHHHHHHHHHHHHH
Confidence            7999999999999998  47999999999999999999999988544333444432222111  011111      1111


Q ss_pred             HHHHhcCC--------------CCCCCHHHHHHHhcC--CcEEEEecCCCCHH-----------HHHHHhccCCCCCCCC
Q 048064          164 LSEVLKDV--------------NVIPHIDLNFRRLSC--RKVLIVLDDVTCLN-----------QIESLVGSLDRLLPES  216 (429)
Q Consensus       164 ~~~~~~~~--------------~~~~~~~~l~~~l~~--~~~LlVlDdv~~~~-----------~~~~l~~~l~~~~~~~  216 (429)
                      ...+....              .....+..+...+..  ++++||+||++...           .+..++..+.. ..+.
T Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~~  157 (234)
T PF01637_consen   79 SEALGISIPSITLEKISKDLSEDSFSALERLLEKLKKKGKKVIIVIDEFQYLAIASEEDKDFLKSLRSLLDSLLS-QQNV  157 (234)
T ss_dssp             HHHHHHHCCTSTTEEEECTS-GG-G--HHHHHHHHHHCHCCEEEEEETGGGGGBCTTTTHHHHHHHHHHHHH-----TTE
T ss_pred             HHHHhhhcccccchhhhhcchhhHHHHHHHHHHHHHhcCCcEEEEEecHHHHhhcccchHHHHHHHHHHHhhccc-cCCc
Confidence            11121110              112223334444443  45999999996544           12223333222 2334


Q ss_pred             EEEEEeCChhhhhh--------cCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHH
Q 048064          217 RILITTRNKQVLRN--------CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKI  285 (429)
Q Consensus       217 ~iiiTtR~~~~~~~--------~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~  285 (429)
                      .+|+++........        .+....+.+++|+.+++.+++...+...... +...+..++++..+||+|..|..
T Consensus       158 ~~v~~~S~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~e~~~~~~~~~~~~~~~-~~~~~~~~~i~~~~gG~P~~l~~  233 (234)
T PF01637_consen  158 SIVITGSSDSLMEEFLDDKSPLFGRFSHIELKPLSKEEAREFLKELFKELIKL-PFSDEDIEEIYSLTGGNPRYLQE  233 (234)
T ss_dssp             EEEEEESSHHHHHHTT-TTSTTTT---EEEE----HHHHHHHHHHHHHCC-------HHHHHHHHHHHTT-HHHHHH
T ss_pred             eEEEECCchHHHHHhhcccCccccccceEEEeeCCHHHHHHHHHHHHHHhhcc-cCCHHHHHHHHHHhCCCHHHHhc
Confidence            45555544434332        2334459999999999999998865332111 12345679999999999999865

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

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=99.50  E-value=4.9e-13  Score=127.18  Aligned_cols=257  Identities=16%  Similarity=0.131  Sum_probs=155.7

Q ss_pred             CCCCcccchhhHHHHHHHhhc-------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG-------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFL  159 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~-------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~  159 (429)
                      ....+|+|++..++.+..++.       ..+.+.|+|++|+|||+||+.+++.+...+.    .......    ..... 
T Consensus        22 ~~~~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l~~~~~----~~~~~~~----~~~~~-   92 (328)
T PRK00080         22 KSLDEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEMGVNIR----ITSGPAL----EKPGD-   92 (328)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHhCCCeE----EEecccc----cChHH-
Confidence            445789999999999988774       3567999999999999999999998754321    1111100    00000 


Q ss_pred             HHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCHH--HHHHHhccCC-------------------CCCCCCEE
Q 048064          160 QQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLN--QIESLVGSLD-------------------RLLPESRI  218 (429)
Q Consensus       160 ~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~--~~~~l~~~l~-------------------~~~~~~~i  218 (429)
                      ...                 +...+ +..-+|+||+++...  ..+.+...+.                   ...+.+-|
T Consensus        93 l~~-----------------~l~~l-~~~~vl~IDEi~~l~~~~~e~l~~~~e~~~~~~~l~~~~~~~~~~~~l~~~~li  154 (328)
T PRK00080         93 LAA-----------------ILTNL-EEGDVLFIDEIHRLSPVVEEILYPAMEDFRLDIMIGKGPAARSIRLDLPPFTLI  154 (328)
T ss_pred             HHH-----------------HHHhc-ccCCEEEEecHhhcchHHHHHHHHHHHhcceeeeeccCccccceeecCCCceEE
Confidence            111                 11112 234588889887432  2122211111                   01123334


Q ss_pred             EEEeCChhhhhhc--CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHHHhhcCCCHH
Q 048064          219 LITTRNKQVLRNC--HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYLFERKKE  296 (429)
Q Consensus       219 iiTtR~~~~~~~~--~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~~~l~~~~~~  296 (429)
                      ..|++...+...+  .....+++++++.++..+++.+.+......  -..+.+..|++.|+|.|..+..+...+.     
T Consensus       155 ~at~~~~~l~~~L~sRf~~~~~l~~~~~~e~~~il~~~~~~~~~~--~~~~~~~~ia~~~~G~pR~a~~~l~~~~-----  227 (328)
T PRK00080        155 GATTRAGLLTSPLRDRFGIVQRLEFYTVEELEKIVKRSARILGVE--IDEEGALEIARRSRGTPRIANRLLRRVR-----  227 (328)
T ss_pred             eecCCcccCCHHHHHhcCeeeecCCCCHHHHHHHHHHHHHHcCCC--cCHHHHHHHHHHcCCCchHHHHHHHHHH-----
Confidence            5566654333222  123568999999999999999887543322  2246789999999999976666555431     


Q ss_pred             HHHHHHHHHhhCCC---ccHHHHHHHhhhcCChhhHHHHh-hhhcccC-CcCHHHHHHHHHHcCCChhhhHH-HHHHcCc
Q 048064          297 VWENAIKKLKNFLH---QNILDVLKISYDDLDNDEKNIFL-DVACFFK-GEDIYLVKKFFEASGFYPEIGIS-ILVDKAL  370 (429)
Q Consensus       297 ~~~~~l~~l~~~~~---~~i~~~l~~s~~~L~~~~~~~l~-~la~f~~-~~~~~~l~~~~~~~~~~~~~~l~-~L~~~sL  370 (429)
                      .|.... .-.....   ......+...+..|++..+..+. .+..|.. ++..+.+...++.+....+..++ .|++.+|
T Consensus       228 ~~a~~~-~~~~I~~~~v~~~l~~~~~~~~~l~~~~~~~l~~~~~~~~~~~~~~~~~a~~lg~~~~~~~~~~e~~Li~~~l  306 (328)
T PRK00080        228 DFAQVK-GDGVITKEIADKALDMLGVDELGLDEMDRKYLRTIIEKFGGGPVGLDTLAAALGEERDTIEDVYEPYLIQQGF  306 (328)
T ss_pred             HHHHHc-CCCCCCHHHHHHHHHHhCCCcCCCCHHHHHHHHHHHHHcCCCceeHHHHHHHHCCCcchHHHHhhHHHHHcCC
Confidence            111100 0000001   11223344566788888888886 5555554 47889988888776666677788 9999999


Q ss_pred             eeEccCCe
Q 048064          371 IAINSYNK  378 (429)
Q Consensus       371 i~~~~~~~  378 (429)
                      |+..+.|+
T Consensus       307 i~~~~~gr  314 (328)
T PRK00080        307 IQRTPRGR  314 (328)
T ss_pred             cccCCchH
Confidence            98665554

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=99.50  E-value=1.3e-12  Score=123.25  Aligned_cols=253  Identities=19%  Similarity=0.176  Sum_probs=151.5

Q ss_pred             CcccchhhHHHHHHHhhc-------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHH
Q 048064           90 NELVGVESRVEEIQSLLG-------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQK  162 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~-------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~  162 (429)
                      .+|+|+++.+++|..++.       ..+.+.++|++|+|||+||+.+++.+...+.    .......    .....+. .
T Consensus         4 ~~~iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~~~~~~----~~~~~~~----~~~~~l~-~   74 (305)
T TIGR00635         4 AEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEMGVNLK----ITSGPAL----EKPGDLA-A   74 (305)
T ss_pred             HHHcCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCEE----Eeccchh----cCchhHH-H
Confidence            579999999999998885       2456899999999999999999998754321    1111100    0111111 1


Q ss_pred             HHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCHH--HHHHHhccCC-------------------CCCCCCEEEEE
Q 048064          163 LLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLN--QIESLVGSLD-------------------RLLPESRILIT  221 (429)
Q Consensus       163 l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~--~~~~l~~~l~-------------------~~~~~~~iiiT  221 (429)
                      .+..                 + +...+|+|||++...  ..+.+...+.                   ...+.+-|..|
T Consensus        75 ~l~~-----------------~-~~~~vl~iDEi~~l~~~~~e~l~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~li~~t  136 (305)
T TIGR00635        75 ILTN-----------------L-EEGDVLFIDEIHRLSPAVEELLYPAMEDFRLDIVIGKGPSARSVRLDLPPFTLVGAT  136 (305)
T ss_pred             HHHh-----------------c-ccCCEEEEehHhhhCHHHHHHhhHHHhhhheeeeeccCccccceeecCCCeEEEEec
Confidence            1111                 1 234578888886432  2222221111                   11223334456


Q ss_pred             eCChhhhhhc--CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHHHhhcCCCHHHHH
Q 048064          222 TRNKQVLRNC--HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYLFERKKEVWE  299 (429)
Q Consensus       222 tR~~~~~~~~--~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~~~l~~~~~~~~~  299 (429)
                      |+...+...+  .....+.+++++.++..+++.+.+......  -..+.+..|++.|+|.|..+..++..+.       .
T Consensus       137 ~~~~~l~~~l~sR~~~~~~l~~l~~~e~~~il~~~~~~~~~~--~~~~al~~ia~~~~G~pR~~~~ll~~~~-------~  207 (305)
T TIGR00635       137 TRAGMLTSPLRDRFGIILRLEFYTVEELAEIVSRSAGLLNVE--IEPEAALEIARRSRGTPRIANRLLRRVR-------D  207 (305)
T ss_pred             CCccccCHHHHhhcceEEEeCCCCHHHHHHHHHHHHHHhCCC--cCHHHHHHHHHHhCCCcchHHHHHHHHH-------H
Confidence            6654332221  124567899999999999999887543221  2246778999999999987765555431       1


Q ss_pred             HHHHHHhh--CCC---ccHHHHHHHhhhcCChhhHHHHh-hhhcccC-CcCHHHHHHHHHHcCCChhhhHH-HHHHcCce
Q 048064          300 NAIKKLKN--FLH---QNILDVLKISYDDLDNDEKNIFL-DVACFFK-GEDIYLVKKFFEASGFYPEIGIS-ILVDKALI  371 (429)
Q Consensus       300 ~~l~~l~~--~~~---~~i~~~l~~s~~~L~~~~~~~l~-~la~f~~-~~~~~~l~~~~~~~~~~~~~~l~-~L~~~sLi  371 (429)
                      ... ....  ...   ......+...+..++...+..|. .+..+.. +++.+.+...++.+.......++ .|++++||
T Consensus       208 ~a~-~~~~~~it~~~v~~~l~~l~~~~~~l~~~~~~~L~al~~~~~~~~~~~~~ia~~lg~~~~~~~~~~e~~Li~~~li  286 (305)
T TIGR00635       208 FAQ-VRGQKIINRDIALKALEMLMIDELGLDEIDRKLLSVLIEQFQGGPVGLKTLAAALGEDADTIEDVYEPYLLQIGFL  286 (305)
T ss_pred             HHH-HcCCCCcCHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHHHhCCCcccHHHHHHHhCCCcchHHHhhhHHHHHcCCc
Confidence            000 0000  000   01112244567788888888777 4455543 37788888888777666777788 69999999


Q ss_pred             eEccCCeE
Q 048064          372 AINSYNKI  379 (429)
Q Consensus       372 ~~~~~~~~  379 (429)
                      .....|++
T Consensus       287 ~~~~~g~~  294 (305)
T TIGR00635       287 QRTPRGRI  294 (305)
T ss_pred             ccCCchhh
Confidence            86655543

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.

>PF05729 NACHT: NACHT domain

Probab=99.34  E-value=1.9e-11  Score=104.30  Aligned_cols=143  Identities=22%  Similarity=0.308  Sum_probs=87.3

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhhcCcc-----eeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHH-HH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRISRNFK-----GSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNF-RR  183 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~-----~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~-~~  183 (429)
                      |++.|+|.+|+||||+++.+++.+.....     ...++...+.... ......+...+.............  .+. ..
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~~~l~~~~~~~~~~~~~--~~~~~~   77 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISD-SNNSRSLADLLFDQLPESIAPIEE--LLQELL   77 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhh-ccccchHHHHHHHhhccchhhhHH--HHHHHH
Confidence            67999999999999999999998765532     2333444444333 111123333333332222111111  111 22


Q ss_pred             hcCCcEEEEecCCCCHHH---------HHHHh-ccCCC-CCCCCEEEEEeCChhh---hhhcCCCeEEEcCCCCHHHHHH
Q 048064          184 LSCRKVLIVLDDVTCLNQ---------IESLV-GSLDR-LLPESRILITTRNKQV---LRNCHINQIYEMKGLGDDHALE  249 (429)
Q Consensus       184 l~~~~~LlVlDdv~~~~~---------~~~l~-~~l~~-~~~~~~iiiTtR~~~~---~~~~~~~~~~~l~~L~~~ea~~  249 (429)
                      ...++++||||++|+...         +..++ ..+.. ..++++++||+|....   .........+.+.+|++++..+
T Consensus        78 ~~~~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  157 (166)
T PF05729_consen   78 EKNKRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPFSEEDIKQ  157 (166)
T ss_pred             HcCCceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCCCHHHHHH
Confidence            356889999999975432         22222 22222 3578999999998755   3334445689999999999999


Q ss_pred             HHHHhh
Q 048064          250 LFIRHA  255 (429)
Q Consensus       250 L~~~~~  255 (429)
                      ++.+..
T Consensus       158 ~~~~~f  163 (166)
T PF05729_consen  158 YLRKYF  163 (166)
T ss_pred             HHHHHh
Confidence            997764

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

Probab=99.33  E-value=4.9e-10  Score=103.78  Aligned_cols=176  Identities=17%  Similarity=0.133  Sum_probs=105.7

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCH---HHHHH--
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHI---DLNFR--  182 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~---~~l~~--  182 (429)
                      +.+.++|+|++|+|||||++.+++.+...-...+++.+.      ..+...+...+...++.........   ..+..  
T Consensus        42 ~~~~~~l~G~~G~GKTtl~~~l~~~l~~~~~~~~~~~~~------~~~~~~~l~~i~~~lG~~~~~~~~~~~~~~l~~~l  115 (269)
T TIGR03015        42 REGFILITGEVGAGKTTLIRNLLKRLDQERVVAAKLVNT------RVDAEDLLRMVAADFGLETEGRDKAALLRELEDFL  115 (269)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHhcCCCCeEEeeeeCC------CCCHHHHHHHHHHHcCCCCCCCCHHHHHHHHHHHH
Confidence            466899999999999999999998865321112222211      2234456666666654432222111   12222  


Q ss_pred             ---HhcCCcEEEEecCCCCHH--HHHHHhccCC---CCCCCCEEEEEeCChhhhhhc----------CCCeEEEcCCCCH
Q 048064          183 ---RLSCRKVLIVLDDVTCLN--QIESLVGSLD---RLLPESRILITTRNKQVLRNC----------HINQIYEMKGLGD  244 (429)
Q Consensus       183 ---~l~~~~~LlVlDdv~~~~--~~~~l~~~l~---~~~~~~~iiiTtR~~~~~~~~----------~~~~~~~l~~L~~  244 (429)
                         ...+++.+||+||++...  .++.+.....   .......|++|.... ....+          .....+.+++++.
T Consensus       116 ~~~~~~~~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~~-~~~~l~~~~~~~l~~r~~~~~~l~~l~~  194 (269)
T TIGR03015       116 IEQFAAGKRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQPE-FRETLQSPQLQQLRQRIIASCHLGPLDR  194 (269)
T ss_pred             HHHHhCCCCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCHH-HHHHHcCchhHHHHhheeeeeeCCCCCH
Confidence               225678999999998643  3443322111   112233455555432 21111          1234678999999


Q ss_pred             HHHHHHHHHhhhcCCC--CChhHHHHHHHHHHHhCCChHHHHHHHHhh
Q 048064          245 DHALELFIRHAFRQNL--VDVDYKELSDKVINYAQGVPLALKILGCYL  290 (429)
Q Consensus       245 ~ea~~L~~~~~~~~~~--~~~~~~~~~~~i~~~~~G~PLai~~~~~~l  290 (429)
                      +|..+++...+.....  ...-..+..+.|++.++|+|..|..++..+
T Consensus       195 ~e~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~  242 (269)
T TIGR03015       195 EETREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRL  242 (269)
T ss_pred             HHHHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHH
Confidence            9999999877643221  111235788999999999999999988776

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.

>COG3903 Predicted ATPase [General function prediction only]

Probab=99.32  E-value=2.6e-12  Score=119.74  Aligned_cols=286  Identities=21%  Similarity=0.249  Sum_probs=196.4

Q ss_pred             HhhcCCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcC-CCCCCCHHHHHH
Q 048064          104 SLLGAAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKD-VNVIPHIDLNFR  182 (429)
Q Consensus       104 ~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~l~~  182 (429)
                      ..+...+.+.++|+|||||||++..+.. +...|+..+++.+....+.    ...+.-.+...++-. .+....++.+..
T Consensus         9 ~~~~~~RlvtL~g~ggvgkttl~~~~a~-~~~~~~~~v~~vdl~pitD----~~~v~~~~ag~~gl~~~~g~~~~~~~~~   83 (414)
T COG3903           9 DLLTALRLVTLTGAGGVGKTTLALQAAH-AASEYADGVAFVDLAPITD----PALVFPTLAGALGLHVQPGDSAVDTLVR   83 (414)
T ss_pred             hhhhhhheeeeeccCccceehhhhhhHh-HhhhcccceeeeeccccCc----hhHhHHHHHhhcccccccchHHHHHHHH
Confidence            3334678999999999999999999999 8888999888887776544    233333333333333 223445566888


Q ss_pred             HhcCCcEEEEecCCCCHH-HHHHHhccCCCCCCCCEEEEEeCChhhhhhcCCCeEEEcCCCCHH-HHHHHHHHhhhcCC-
Q 048064          183 RLSCRKVLIVLDDVTCLN-QIESLVGSLDRLLPESRILITTRNKQVLRNCHINQIYEMKGLGDD-HALELFIRHAFRQN-  259 (429)
Q Consensus       183 ~l~~~~~LlVlDdv~~~~-~~~~l~~~l~~~~~~~~iiiTtR~~~~~~~~~~~~~~~l~~L~~~-ea~~L~~~~~~~~~-  259 (429)
                      ...+++.++|+||..... +...+...+...++.-.|+.|+|......   ......+++|+.. ++.++|...+.... 
T Consensus        84 ~~~~rr~llvldncehl~~~~a~~i~all~~~~~~~~~atsre~~l~~---ge~~~~~~~L~~~d~a~~lf~~ra~~~~~  160 (414)
T COG3903          84 RIGDRRALLVLDNCEHLLDACAALIVALLGACPRLAILATSREAILVA---GEVHRRVPSLSLFDEAIELFVCRAVLVAL  160 (414)
T ss_pred             HHhhhhHHHHhcCcHHHHHHHHHHHHHHHccchhhhhHHHhHhhhccc---ccccccCCccccCCchhHHHHHHHHHhcc
Confidence            888999999999996553 33444444444466677899999764322   3556778888876 78888876653222 


Q ss_pred             --CCChhHHHHHHHHHHHhCCChHHHHHHHHhhcCCCHHHHHHHHHH----HhhC------CCccHHHHHHHhhhcCChh
Q 048064          260 --LVDVDYKELSDKVINYAQGVPLALKILGCYLFERKKEVWENAIKK----LKNF------LHQNILDVLKISYDDLDND  327 (429)
Q Consensus       260 --~~~~~~~~~~~~i~~~~~G~PLai~~~~~~l~~~~~~~~~~~l~~----l~~~------~~~~i~~~l~~s~~~L~~~  327 (429)
                        .........+.+|++..+|.|++|..+++..+.....+....++.    +...      ........+.+||.-|+..
T Consensus       161 ~f~l~~~~~a~v~~icr~ldg~~laielaaarv~sl~~~~i~~~L~drf~ll~~~~r~a~~~~qtl~asl~ws~~lLtgw  240 (414)
T COG3903         161 SFWLTDDNAAAVAEICRRLDGIPLAIELAAARVRSLSPDEIAAGLRDRFRLLTGGARLAVLRQQTLRASLDWSYALLTGW  240 (414)
T ss_pred             ceeecCCchHHHHHHHHHhhcchHHHHHHHHHHHhcCHHHHHHHHhhHHHHHhcccccchhHHHhccchhhhhhHhhhhH
Confidence              111223456889999999999999999999887655443333322    2221      1234667899999999999


Q ss_pred             hHHHHhhhhcccCCcCHHHHHHHHHHcCC-----ChhhhHHHHHHcCceeEcc---CCeEEccHHHHHHHHHHHhhhc
Q 048064          328 EKNIFLDVACFFKGEDIYLVKKFFEASGF-----YPEIGISILVDKALIAINS---YNKITMHDLLQELGREIVRQES  397 (429)
Q Consensus       328 ~~~~l~~la~f~~~~~~~~l~~~~~~~~~-----~~~~~l~~L~~~sLi~~~~---~~~~~mH~lv~~~a~~~~~~~~  397 (429)
                      ++..+..++.|...|+.+...........     ..-..+..|++++++....   .-.|+.-+-+|.|+.+.+.+..
T Consensus       241 e~~~~~rLa~~~g~f~~~l~~~~a~g~~~~~~~y~~~~a~~ll~~kslv~a~~~~~~a~~Rl~eT~r~YalaeL~r~~  318 (414)
T COG3903         241 ERALFGRLAVFVGGFDLGLALAVAAGADVDVPRYLVLLALTLLVDKSLVVALDLLGRARYRLLETGRRYALAELHRSG  318 (414)
T ss_pred             HHHHhcchhhhhhhhcccHHHHHhcCCccccchHHHHHHHHHHhhccchhhhhhhhHHHHHHHHHHHHHHHHHHHhhh
Confidence            99999999999988887743333222211     2233577899999998654   2248888888888888776654

>PLN03194 putative disease resistance protein; Provisional

Probab=99.31  E-value=2e-12  Score=108.23  Aligned_cols=68  Identities=29%  Similarity=0.415  Sum_probs=56.1

Q ss_pred             CcEEEeEeeeccccccccc-ccchHHHHHHhhhhCHHHHHHHHHHHHHHHhhcCCcc-CCCCchHHHHHHHhhhhhccCC
Q 048064            4 AQIVIPVFYRVDPSHVRKQ-IGSFGVSFSKLKEKFPEKMQRWRSALTEAANLSGFDS-FVIRNESELIKKVVNDILEKLP   81 (429)
Q Consensus         4 ~~~v~pvfy~v~p~~vr~~-~~~~~~~~~~~~~~~~~~~~~w~~al~~~~~~~~~~~-~~~~~e~~~i~~i~~~~~~~~~   81 (429)
                      +..||||||+|+|++||+| .|.+          ..+++++|++||+++|+++|++. ...++|++++++|++.+.+.+.
T Consensus       109 ~~~ViPIFY~VdPsdVr~q~~~~~----------~~e~v~~Wr~AL~~va~l~G~~~~~~~~~e~e~i~~iv~~v~k~l~  178 (187)
T PLN03194        109 KKRVIPIFCDVKPSQLRVVDNGTC----------PDEEIRRFNWALEEAKYTVGLTFDSLKGNWSEVVTMASDAVIKNLI  178 (187)
T ss_pred             CCEEEEEEecCCHHHhhccccCCC----------CHHHHHHHHHHHHHHhccccccCCCCCCCHHHHHHHHHHHHHHHHH
Confidence            3579999999999999997 4432          35789999999999999999862 2357899999999998876653

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

Probab=99.23  E-value=2e-10  Score=106.62  Aligned_cols=172  Identities=24%  Similarity=0.348  Sum_probs=108.6

Q ss_pred             CCCCcccchhhHH---HHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHH
Q 048064           87 DSKNELVGVESRV---EEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQ  161 (429)
Q Consensus        87 ~~~~~~vGR~~~~---~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~  161 (429)
                      ..-+++||.++.+   .-|.+++.  ......+|||||+||||||+.++......|...--+         ..+...+..
T Consensus        21 ~~lde~vGQ~HLlg~~~~lrr~v~~~~l~SmIl~GPPG~GKTTlA~liA~~~~~~f~~~sAv---------~~gvkdlr~   91 (436)
T COG2256          21 KSLDEVVGQEHLLGEGKPLRRAVEAGHLHSMILWGPPGTGKTTLARLIAGTTNAAFEALSAV---------TSGVKDLRE   91 (436)
T ss_pred             CCHHHhcChHhhhCCCchHHHHHhcCCCceeEEECCCCCCHHHHHHHHHHhhCCceEEeccc---------cccHHHHHH
Confidence            3345677777665   33455555  677889999999999999999999876665422111         222332222


Q ss_pred             HHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCC--HHHHHHHhccCCCCCCCCEEEE--EeCChhh---hhhcCCC
Q 048064          162 KLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTC--LNQIESLVGSLDRLLPESRILI--TTRNKQV---LRNCHIN  234 (429)
Q Consensus       162 ~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~--~~~~~~l~~~l~~~~~~~~iii--TtR~~~~---~~~~~~~  234 (429)
                      -+ ...            -.....+++.+|++|+|+.  ..+.+.|++.+.   .|..|+|  ||.++..   ....+..
T Consensus        92 i~-e~a------------~~~~~~gr~tiLflDEIHRfnK~QQD~lLp~vE---~G~iilIGATTENPsF~ln~ALlSR~  155 (436)
T COG2256          92 II-EEA------------RKNRLLGRRTILFLDEIHRFNKAQQDALLPHVE---NGTIILIGATTENPSFELNPALLSRA  155 (436)
T ss_pred             HH-HHH------------HHHHhcCCceEEEEehhhhcChhhhhhhhhhhc---CCeEEEEeccCCCCCeeecHHHhhhh
Confidence            11 111            1223457899999999984  456677776644   4766776  7776632   1223456


Q ss_pred             eEEEcCCCCHHHHHHHHHHhhhcCC-CCC----hhHHHHHHHHHHHhCCChHHH
Q 048064          235 QIYEMKGLGDDHALELFIRHAFRQN-LVD----VDYKELSDKVINYAQGVPLAL  283 (429)
Q Consensus       235 ~~~~l~~L~~~ea~~L~~~~~~~~~-~~~----~~~~~~~~~i~~~~~G~PLai  283 (429)
                      .++.+++|+.++...++.+-+.... ...    .-..+....++..++|--...
T Consensus       156 ~vf~lk~L~~~di~~~l~ra~~~~~rgl~~~~~~i~~~a~~~l~~~s~GD~R~a  209 (436)
T COG2256         156 RVFELKPLSSEDIKKLLKRALLDEERGLGGQIIVLDEEALDYLVRLSNGDARRA  209 (436)
T ss_pred             heeeeecCCHHHHHHHHHHHHhhhhcCCCcccccCCHHHHHHHHHhcCchHHHH
Confidence            7899999999999999988432211 111    122456778888888865443

>PRK06893 DNA replication initiation factor; Validated

Probab=99.21  E-value=8.4e-10  Score=99.28  Aligned_cols=155  Identities=17%  Similarity=0.322  Sum_probs=96.0

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCR  187 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~  187 (429)
                      ..+.+.|+|++|+|||+|++.+++.+..+.....|+... ..       ......+.                 ..+. +
T Consensus        38 ~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~~-~~-------~~~~~~~~-----------------~~~~-~   91 (229)
T PRK06893         38 QQPFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPLS-KS-------QYFSPAVL-----------------ENLE-Q   91 (229)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeHH-Hh-------hhhhHHHH-----------------hhcc-c
Confidence            456789999999999999999999876665555555421 10       00001111                 1121 2


Q ss_pred             cEEEEecCCCCH---HHHH-HHhccCCCC-CCCCEEE-EEeCC---------hhhhhhcCCCeEEEcCCCCHHHHHHHHH
Q 048064          188 KVLIVLDDVTCL---NQIE-SLVGSLDRL-LPESRIL-ITTRN---------KQVLRNCHINQIYEMKGLGDDHALELFI  252 (429)
Q Consensus       188 ~~LlVlDdv~~~---~~~~-~l~~~l~~~-~~~~~ii-iTtR~---------~~~~~~~~~~~~~~l~~L~~~ea~~L~~  252 (429)
                      .-+|||||++..   ..++ .+...+... ..+..+| +|+..         +.+...+.....+++++++.++.++++.
T Consensus        92 ~dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illits~~~p~~l~~~~~~L~sRl~~g~~~~l~~pd~e~~~~iL~  171 (229)
T PRK06893         92 QDLVCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLISADCSPHALSIKLPDLASRLTWGEIYQLNDLTDEQKIIVLQ  171 (229)
T ss_pred             CCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeCCCChHHccccchhHHHHHhcCCeeeCCCCCHHHHHHHHH
Confidence            349999999853   2332 232222211 2355554 45544         2444444556689999999999999999


Q ss_pred             HhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHHHhh
Q 048064          253 RHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYL  290 (429)
Q Consensus       253 ~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~~~l  290 (429)
                      +.+......  -..+...-|++.+.|..-.+..+-..+
T Consensus       172 ~~a~~~~l~--l~~~v~~~L~~~~~~d~r~l~~~l~~l  207 (229)
T PRK06893        172 RNAYQRGIE--LSDEVANFLLKRLDRDMHTLFDALDLL  207 (229)
T ss_pred             HHHHHcCCC--CCHHHHHHHHHhccCCHHHHHHHHHHH
Confidence            888644322  224678889999998887775554433

>PRK13342 recombination factor protein RarA; Reviewed

Probab=99.16  E-value=6.4e-09  Score=102.01  Aligned_cols=178  Identities=23%  Similarity=0.321  Sum_probs=109.1

Q ss_pred             CCCCcccchhhHHHH---HHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHH
Q 048064           87 DSKNELVGVESRVEE---IQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQ  161 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~---l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~  161 (429)
                      ....+++|++..+..   |..++.  ..+.+.|+|++|+||||||+.+++.....|..   +. ..     ..+... .+
T Consensus         9 ~~l~d~vGq~~~v~~~~~L~~~i~~~~~~~ilL~GppGtGKTtLA~~ia~~~~~~~~~---l~-a~-----~~~~~~-ir   78 (413)
T PRK13342          9 KTLDEVVGQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLARIIAGATDAPFEA---LS-AV-----TSGVKD-LR   78 (413)
T ss_pred             CCHHHhcCcHHHhCcchHHHHHHHcCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEE---Ee-cc-----cccHHH-HH
Confidence            445679999988776   777776  55678999999999999999999977544321   11 11     111111 11


Q ss_pred             HHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEE--EeCChh--hh-hhcCCC
Q 048064          162 KLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILI--TTRNKQ--VL-RNCHIN  234 (429)
Q Consensus       162 ~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iii--TtR~~~--~~-~~~~~~  234 (429)
                      .+......            ....+++.+|+||+++..  .+.+.++..+..   +..++|  ||.+..  +. ...+..
T Consensus        79 ~ii~~~~~------------~~~~g~~~vL~IDEi~~l~~~~q~~LL~~le~---~~iilI~att~n~~~~l~~aL~SR~  143 (413)
T PRK13342         79 EVIEEARQ------------RRSAGRRTILFIDEIHRFNKAQQDALLPHVED---GTITLIGATTENPSFEVNPALLSRA  143 (413)
T ss_pred             HHHHHHHH------------hhhcCCceEEEEechhhhCHHHHHHHHHHhhc---CcEEEEEeCCCChhhhccHHHhccc
Confidence            12211110            011346789999999855  355566655442   444444  344332  11 112234


Q ss_pred             eEEEcCCCCHHHHHHHHHHhhhcCCC-CChhHHHHHHHHHHHhCCChHHHHHHHHh
Q 048064          235 QIYEMKGLGDDHALELFIRHAFRQNL-VDVDYKELSDKVINYAQGVPLALKILGCY  289 (429)
Q Consensus       235 ~~~~l~~L~~~ea~~L~~~~~~~~~~-~~~~~~~~~~~i~~~~~G~PLai~~~~~~  289 (429)
                      ..+.+.+++.++...++.+.+..... ...-..+....+++.++|.+..+..+...
T Consensus       144 ~~~~~~~ls~e~i~~lL~~~l~~~~~~~i~i~~~al~~l~~~s~Gd~R~aln~Le~  199 (413)
T PRK13342        144 QVFELKPLSEEDIEQLLKRALEDKERGLVELDDEALDALARLANGDARRALNLLEL  199 (413)
T ss_pred             eeeEeCCCCHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            67899999999999999886532111 10123466788999999999877555443

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=99.16  E-value=1.3e-09  Score=98.20  Aligned_cols=173  Identities=19%  Similarity=0.255  Sum_probs=105.3

Q ss_pred             CCcccc--hhhHHHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHH
Q 048064           89 KNELVG--VESRVEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLL  164 (429)
Q Consensus        89 ~~~~vG--R~~~~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~  164 (429)
                      .++|++  .+..++.+.+++.  ..+.+.|+|++|+|||+||+.+++.........+++. +.....   ..    ..+ 
T Consensus        14 ~~~~~~~~~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la~~~~~~~~~~~~~~~~i~-~~~~~~---~~----~~~-   84 (226)
T TIGR03420        14 FDNFYAGGNAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAAEERGKSAIYLP-LAELAQ---AD----PEV-   84 (226)
T ss_pred             hcCcCcCCcHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEe-HHHHHH---hH----HHH-
Confidence            345653  4457778887754  6778999999999999999999998765443344433 322211   00    011 


Q ss_pred             HHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCHH---H-HHHHhccCCC-CCCCCEEEEEeCChh---------hhhh
Q 048064          165 SEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLN---Q-IESLVGSLDR-LLPESRILITTRNKQ---------VLRN  230 (429)
Q Consensus       165 ~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~---~-~~~l~~~l~~-~~~~~~iiiTtR~~~---------~~~~  230 (429)
                                      ...+.+ .-+|||||++...   . .+.+...+.. ...+..+|+||+...         +...
T Consensus        85 ----------------~~~~~~-~~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~~~~~~~~~~L~~r  147 (226)
T TIGR03420        85 ----------------LEGLEQ-ADLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPLRLPDLRTR  147 (226)
T ss_pred             ----------------Hhhccc-CCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCChHHCCcccHHHHHH
Confidence                            111222 2389999997543   1 2333332221 123457888887532         1122


Q ss_pred             cCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHHHh
Q 048064          231 CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCY  289 (429)
Q Consensus       231 ~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~~~  289 (429)
                      +.....+++++++.++...++...+......  -..+....+.+.+.|+|..+..+...
T Consensus       148 ~~~~~~i~l~~l~~~e~~~~l~~~~~~~~~~--~~~~~l~~L~~~~~gn~r~L~~~l~~  204 (226)
T TIGR03420       148 LAWGLVFQLPPLSDEEKIAALQSRAARRGLQ--LPDEVADYLLRHGSRDMGSLMALLDA  204 (226)
T ss_pred             HhcCeeEecCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHhccCCHHHHHHHHHH
Confidence            2224578999999999999998765322211  22456788888999999888766544

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.

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

Probab=99.14  E-value=1.7e-08  Score=96.38  Aligned_cols=275  Identities=17%  Similarity=0.173  Sum_probs=163.0

Q ss_pred             CCCCcccchhhHHHHHHHhhc------CCCEEEEEcCCCcchHHHHHHHHHHhhcCccee-EEEeechhhhhhcCCHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGS-CFLENIREESQKAGGLAFL  159 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~-~~~~~~~~~~~~~~~~~~~  159 (429)
                      ..|..+.+|+.+++++...|.      .+..+.|+|++|+|||+.++.+++++.+..+.. +...|+..    ......+
T Consensus        14 ~iP~~l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~----~~t~~~i   89 (366)
T COG1474          14 YIPEELPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLE----LRTPYQV   89 (366)
T ss_pred             CCcccccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeee----CCCHHHH
Confidence            555679999999999999886      445599999999999999999999988775544 44445544    4567777


Q ss_pred             HHHHHHHHhcC-CCCCCC---HHHHHHHhc--CCcEEEEecCCCCHHH-----HHHHhccCCCCCCCCE--EEEEeCChh
Q 048064          160 QQKLLSEVLKD-VNVIPH---IDLNFRRLS--CRKVLIVLDDVTCLNQ-----IESLVGSLDRLLPESR--ILITTRNKQ  226 (429)
Q Consensus       160 ~~~l~~~~~~~-~~~~~~---~~~l~~~l~--~~~~LlVlDdv~~~~~-----~~~l~~~l~~~~~~~~--iiiTtR~~~  226 (429)
                      ...++..+... ......   ...+.+.+.  ++.+++|||+++....     +-.|.......  .++  +|..+-+..
T Consensus        90 ~~~i~~~~~~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~~~~LY~L~r~~~~~--~~~v~vi~i~n~~~  167 (366)
T COG1474          90 LSKILNKLGKVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDGEVLYSLLRAPGEN--KVKVSIIAVSNDDK  167 (366)
T ss_pred             HHHHHHHcCCCCCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhccccchHHHHHHhhcccc--ceeEEEEEEeccHH
Confidence            77777777533 222222   222555554  4789999999975532     22333222222  343  333444443


Q ss_pred             hhhhc-------CCCeEEEcCCCCHHHHHHHHHHhh---hcCCCCChhHHHHHHHHHHHhCCCh-HHHHHHHHh--hcC-
Q 048064          227 VLRNC-------HINQIYEMKGLGDDHALELFIRHA---FRQNLVDVDYKELSDKVINYAQGVP-LALKILGCY--LFE-  292 (429)
Q Consensus       227 ~~~~~-------~~~~~~~l~~L~~~ea~~L~~~~~---~~~~~~~~~~~~~~~~i~~~~~G~P-Lai~~~~~~--l~~-  292 (429)
                      ....+       -....+..+|.+.+|-.+++..++   +..........++...++...+|-. .||..+-..  +.+ 
T Consensus       168 ~~~~ld~rv~s~l~~~~I~F~pY~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aidilr~A~eiAe~  247 (366)
T COG1474         168 FLDYLDPRVKSSLGPSEIVFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDILRRAGEIAER  247 (366)
T ss_pred             HHHHhhhhhhhccCcceeeeCCCCHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHh
Confidence            22222       122347899999999999998876   3444444455555566666666532 333333221  111 


Q ss_pred             -----CCHHHHHHHHHHHhhCCCccHHHHHHHhhhcCChhhHHHHhhhhcccCCcCHHHH----HHHHHHcCC---Chhh
Q 048064          293 -----RKKEVWENAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFFKGEDIYLV----KKFFEASGF---YPEI  360 (429)
Q Consensus       293 -----~~~~~~~~~l~~l~~~~~~~i~~~l~~s~~~L~~~~~~~l~~la~f~~~~~~~~l----~~~~~~~~~---~~~~  360 (429)
                           .+.+.-..+.+.       --...+...+..|+.+.+..+..++....++....+    ..++...+.   ....
T Consensus       248 ~~~~~v~~~~v~~a~~~-------~~~~~~~~~~~~L~~~~ki~L~~i~~~~~~~~~~~~y~~y~~~~~~~~~~~~~~~~  320 (366)
T COG1474         248 EGSRKVSEDHVREAQEE-------IERDVLEEVLKTLPLHQKIVLLAIVELTVEISTGELYDVYESLCERLRTSQRRFSD  320 (366)
T ss_pred             hCCCCcCHHHHHHHHHH-------hhHHHHHHHHHcCCHhHHHHHHHHHHhcCCCChHHHHHHHHHHHhhhCchHHHHHH
Confidence                 011111111111       112234455788999988888777766444544333    333333343   2234


Q ss_pred             hHHHHHHcCceeEc
Q 048064          361 GISILVDKALIAIN  374 (429)
Q Consensus       361 ~l~~L~~~sLi~~~  374 (429)
                      .++.|...|++...
T Consensus       321 ii~~L~~lgiv~~~  334 (366)
T COG1474         321 IISELEGLGIVSAS  334 (366)
T ss_pred             HHHHHHhcCeEEee
Confidence            68889999999864

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=99.10  E-value=1.4e-08  Score=102.77  Aligned_cols=179  Identities=18%  Similarity=0.236  Sum_probs=113.7

Q ss_pred             CCCCcccchhhHHHHHHHhhcC---CCEEEEEcCCCcchHHHHHHHHHHhhcCc---------------------ceeEE
Q 048064           87 DSKNELVGVESRVEEIQSLLGA---APLLGIWGIGGIGKTTIARVIFNRISRNF---------------------KGSCF  142 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~~---~~~v~I~G~~GiGKTtLa~~~~~~~~~~f---------------------~~~~~  142 (429)
                      ....++||.+..++.|.+++..   .+.+.++|+.|+||||+|+.+++.+....                     ...+.
T Consensus        13 qtFdEVIGQe~Vv~~L~~aL~~gRL~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C~sCr~I~~G~h~DviE   92 (830)
T PRK07003         13 KDFASLVGQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRACREIDEGRFVDYVE   92 (830)
T ss_pred             CcHHHHcCcHHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCcccHHHHHHhcCCCceEEE
Confidence            4457899999999999999982   45678999999999999999998763210                     01111


Q ss_pred             EeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEE
Q 048064          143 LENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILI  220 (429)
Q Consensus       143 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iii  220 (429)
                      +. ..  +  ..+... .+.++.....            .-..++.-++|||+++..  ..++.|+..+.....+.++|+
T Consensus        93 ID-Aa--s--~rgVDd-IReLIe~a~~------------~P~~gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FIL  154 (830)
T PRK07003         93 MD-AA--S--NRGVDE-MAALLERAVY------------APVDARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFIL  154 (830)
T ss_pred             ec-cc--c--cccHHH-HHHHHHHHHh------------ccccCCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEE
Confidence            10 00  0  011111 1111111100            001234568999999855  457788887776667888887


Q ss_pred             EeCChh-hhhh-cCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChH-HHHH
Q 048064          221 TTRNKQ-VLRN-CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPL-ALKI  285 (429)
Q Consensus       221 TtR~~~-~~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PL-ai~~  285 (429)
                      +|.+.. +... .+....+++.+++.++..+.+.+.+......  -..+....|++.++|... +|.+
T Consensus       155 aTtd~~KIp~TIrSRCq~f~Fk~Ls~eeIv~~L~~Il~~EgI~--id~eAL~lIA~~A~GsmRdALsL  220 (830)
T PRK07003        155 ATTDPQKIPVTVLSRCLQFNLKQMPAGHIVSHLERILGEERIA--FEPQALRLLARAAQGSMRDALSL  220 (830)
T ss_pred             EECChhhccchhhhheEEEecCCcCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHH
Confidence            776653 3322 2345689999999999999998876443321  124667889999998764 4444

>PRK08727 hypothetical protein; Validated

Probab=99.06  E-value=1.2e-08  Score=92.12  Aligned_cols=168  Identities=18%  Similarity=0.205  Sum_probs=99.0

Q ss_pred             Ccccchh-hHHHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHH
Q 048064           90 NELVGVE-SRVEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSE  166 (429)
Q Consensus        90 ~~~vGR~-~~~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~  166 (429)
                      ++|++.. ..+..+.....  ....+.|+|++|+|||+|++.+++...++.....|+. ....   ...    ....+  
T Consensus        19 ~~f~~~~~n~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~-~~~~---~~~----~~~~~--   88 (233)
T PRK08727         19 DSYIAAPDGLLAQLQALAAGQSSDWLYLSGPAGTGKTHLALALCAAAEQAGRSSAYLP-LQAA---AGR----LRDAL--   88 (233)
T ss_pred             hhccCCcHHHHHHHHHHHhccCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEe-HHHh---hhh----HHHHH--
Confidence            4455444 34444444433  3456999999999999999999998776654455554 2110   000    00111  


Q ss_pred             HhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCHH---HH-HHHhccCCC-CCCCCEEEEEeCCh---------hhhhhcC
Q 048064          167 VLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLN---QI-ESLVGSLDR-LLPESRILITTRNK---------QVLRNCH  232 (429)
Q Consensus       167 ~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~---~~-~~l~~~l~~-~~~~~~iiiTtR~~---------~~~~~~~  232 (429)
                                     ..+. ..-+|||||++...   .+ ..+...+.. ...+..||+||+..         .+...+.
T Consensus        89 ---------------~~l~-~~dlLiIDDi~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~~~p~~l~~~~~dL~SRl~  152 (233)
T PRK08727         89 ---------------EALE-GRSLVALDGLESIAGQREDEVALFDFHNRARAAGITLLYTARQMPDGLALVLPDLRSRLA  152 (233)
T ss_pred             ---------------HHHh-cCCEEEEeCcccccCChHHHHHHHHHHHHHHHcCCeEEEECCCChhhhhhhhHHHHHHHh
Confidence                           1121 23489999997331   12 223322221 13466799999854         2222233


Q ss_pred             CCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHH
Q 048064          233 INQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKI  285 (429)
Q Consensus       233 ~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~  285 (429)
                      ....+++++++.++..+++.+++......  -..+....|++.++|-.-.+..
T Consensus       153 ~~~~~~l~~~~~e~~~~iL~~~a~~~~l~--l~~e~~~~La~~~~rd~r~~l~  203 (233)
T PRK08727        153 QCIRIGLPVLDDVARAAVLRERAQRRGLA--LDEAAIDWLLTHGERELAGLVA  203 (233)
T ss_pred             cCceEEecCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHhCCCCHHHHHH
Confidence            45688999999999999999876443221  2245677888888877665533

>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=99.04  E-value=9.5e-09  Score=89.38  Aligned_cols=177  Identities=21%  Similarity=0.265  Sum_probs=101.0

Q ss_pred             CCCCcccchhhHHHHHHHhhc-------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG-------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFL  159 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~-------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~  159 (429)
                      ..-.+|||.++.+..+.-++.       ....+.+|||||+||||||.-+++.+..+|.    +.+.....    ....+
T Consensus        21 ~~L~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~~~~~~----~~sg~~i~----k~~dl   92 (233)
T PF05496_consen   21 KSLDEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANELGVNFK----ITSGPAIE----KAGDL   92 (233)
T ss_dssp             SSCCCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHHCT--EE----EEECCC------SCHHH
T ss_pred             CCHHHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhccCCCeE----eccchhhh----hHHHH
Confidence            556899999999998876664       3567999999999999999999999876653    11111000    01111


Q ss_pred             HHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCHH--HHHHHhccCCCC--------CCCC-----------EE
Q 048064          160 QQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLN--QIESLVGSLDRL--------LPES-----------RI  218 (429)
Q Consensus       160 ~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~--~~~~l~~~l~~~--------~~~~-----------~i  218 (429)
                      .                  .+...+. ++-+|++|+++...  +-+.|.+.+.++        +++.           -|
T Consensus        93 ~------------------~il~~l~-~~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~FTli  153 (233)
T PF05496_consen   93 A------------------AILTNLK-EGDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARSIRINLPPFTLI  153 (233)
T ss_dssp             H------------------HHHHT---TT-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE----EEE
T ss_pred             H------------------HHHHhcC-CCcEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccceeeccCCCceEe
Confidence            1                  1112222 35588899998554  344444433221        2222           23


Q ss_pred             EEEeCChhhhhhcC--CCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHHHhhcC
Q 048064          219 LITTRNKQVLRNCH--INQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYLFE  292 (429)
Q Consensus       219 iiTtR~~~~~~~~~--~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~~~l~~  292 (429)
                      =.|||...+...+.  ..-..+++.++.+|-..++.+.+..-..  .-..+.+.+|+.+|.|.|--..-+-..++.
T Consensus       154 gATTr~g~ls~pLrdRFgi~~~l~~Y~~~el~~Iv~r~a~~l~i--~i~~~~~~~Ia~rsrGtPRiAnrll~rvrD  227 (233)
T PF05496_consen  154 GATTRAGLLSSPLRDRFGIVLRLEFYSEEELAKIVKRSARILNI--EIDEDAAEEIARRSRGTPRIANRLLRRVRD  227 (233)
T ss_dssp             EEESSGCCTSHCCCTTSSEEEE----THHHHHHHHHHCCHCTT---EE-HHHHHHHHHCTTTSHHHHHHHHHHHCC
T ss_pred             eeeccccccchhHHhhcceecchhcCCHHHHHHHHHHHHHHhCC--CcCHHHHHHHHHhcCCChHHHHHHHHHHHH
Confidence            34888765544442  2345689999999999999887633221  123578999999999999876666555543

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.

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.04  E-value=5.1e-08  Score=93.94  Aligned_cols=190  Identities=14%  Similarity=0.180  Sum_probs=112.5

Q ss_pred             CCCCcccchhhHHHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhcCcc---eeEEEe-echhhhhh-cCCHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISRNFK---GSCFLE-NIREESQK-AGGLAF  158 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~---~~~~~~-~~~~~~~~-~~~~~~  158 (429)
                      ....+++|.+..++.+.+.+.   -.+.+.++|++|+||||+|+.+++.+.....   ..|-.+ .+...... ..++..
T Consensus        13 ~~~~~iiGq~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~~~pc~~c~~c~~~~~~~~~d~~~   92 (363)
T PRK14961         13 QYFRDIIGQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKSLNCQNGITSNPCRKCIICKEIEKGLCLDLIE   92 (363)
T ss_pred             CchhhccChHHHHHHHHHHHHcCCCCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCceEE
Confidence            445789999999999999887   2456799999999999999999997642110   000000 00000000 000000


Q ss_pred             HHHHHHHHHhcC-CCCCCCHHHHHHHh-----cCCcEEEEecCCCCHH--HHHHHhccCCCCCCCCEEEEEeCCh-hhhh
Q 048064          159 LQQKLLSEVLKD-VNVIPHIDLNFRRL-----SCRKVLIVLDDVTCLN--QIESLVGSLDRLLPESRILITTRNK-QVLR  229 (429)
Q Consensus       159 ~~~~l~~~~~~~-~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~~--~~~~l~~~l~~~~~~~~iiiTtR~~-~~~~  229 (429)
                              +... ......+..+.+.+     .+++-++|||+++...  .++.++..+....+...+|++|.+. .+.+
T Consensus        93 --------~~~~~~~~v~~ir~i~~~~~~~p~~~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~~~~~l~~  164 (363)
T PRK14961         93 --------IDAASRTKVEEMREILDNIYYSPSKSRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTDVEKIPK  164 (363)
T ss_pred             --------ecccccCCHHHHHHHHHHHhcCcccCCceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcCChHhhhH
Confidence                    0000 00001111122221     2345699999998654  5677777777666677777666543 3333


Q ss_pred             hc-CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHH
Q 048064          230 NC-HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKIL  286 (429)
Q Consensus       230 ~~-~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~  286 (429)
                      .+ +....+++.+++.++..+++...+......  -..+.+..+++.++|.|..+...
T Consensus       165 tI~SRc~~~~~~~l~~~el~~~L~~~~~~~g~~--i~~~al~~ia~~s~G~~R~al~~  220 (363)
T PRK14961        165 TILSRCLQFKLKIISEEKIFNFLKYILIKESID--TDEYALKLIAYHAHGSMRDALNL  220 (363)
T ss_pred             HHHhhceEEeCCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHH
Confidence            32 234689999999999999988866443311  12356788999999998754433

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=99.04  E-value=2.1e-08  Score=95.27  Aligned_cols=183  Identities=16%  Similarity=0.213  Sum_probs=110.4

Q ss_pred             CCCCcccchhhHHHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhcC-cceeEEEeechhhhhhcCCHHHHHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISRN-FKGSCFLENIREESQKAGGLAFLQQKL  163 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-f~~~~~~~~~~~~~~~~~~~~~~~~~l  163 (429)
                      ..-.+++|++..++.+..++.  ..+.+.|+|++|+||||+++.+++.+... +...+...+...    ......+.. .
T Consensus        14 ~~~~~~~g~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l~~~~~~~~~i~~~~~~----~~~~~~~~~-~   88 (319)
T PRK00440         14 RTLDEIVGQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELYGEDWRENFLELNASD----ERGIDVIRN-K   88 (319)
T ss_pred             CcHHHhcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHcCCccccceEEecccc----ccchHHHHH-H
Confidence            334679999999999999987  44568999999999999999999986433 211111111111    111111111 1


Q ss_pred             HHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEeCCh-hhhhh-cCCCeEEEc
Q 048064          164 LSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITTRNK-QVLRN-CHINQIYEM  239 (429)
Q Consensus       164 ~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTtR~~-~~~~~-~~~~~~~~l  239 (429)
                      ........+          .....+-++++|+++..  .....+...+....+.+.+|+++... .+... ......+++
T Consensus        89 i~~~~~~~~----------~~~~~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~l~sr~~~~~~  158 (319)
T PRK00440         89 IKEFARTAP----------VGGAPFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQSRCAVFRF  158 (319)
T ss_pred             HHHHHhcCC----------CCCCCceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeCCccccchhHHHHhheeee
Confidence            111111100          00123568999999744  33455555555555667777766433 12111 112346899


Q ss_pred             CCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHH
Q 048064          240 KGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKIL  286 (429)
Q Consensus       240 ~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~  286 (429)
                      ++++.++...++...+......  -..+.+..+++.++|.+.-+...
T Consensus       159 ~~l~~~ei~~~l~~~~~~~~~~--i~~~al~~l~~~~~gd~r~~~~~  203 (319)
T PRK00440        159 SPLKKEAVAERLRYIAENEGIE--ITDDALEAIYYVSEGDMRKAINA  203 (319)
T ss_pred             CCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHH
Confidence            9999999999998877543321  12457888999999998765433

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=99.03  E-value=2.3e-08  Score=95.77  Aligned_cols=196  Identities=17%  Similarity=0.171  Sum_probs=111.2

Q ss_pred             CCCCcccchhhHHHHHHHhhcC--CCEEEEEcCCCcchHHHHHHHHHHhhcCc-ceeEEEeechhhhhhcCCHHHHHH--
Q 048064           87 DSKNELVGVESRVEEIQSLLGA--APLLGIWGIGGIGKTTIARVIFNRISRNF-KGSCFLENIREESQKAGGLAFLQQ--  161 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~~--~~~v~I~G~~GiGKTtLa~~~~~~~~~~f-~~~~~~~~~~~~~~~~~~~~~~~~--  161 (429)
                      .....++|++..++.|.+++..  .+.+.++|++|+||||+|+.+++.+.... ...+...++.....  .....+..  
T Consensus        12 ~~~~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l~~~~~~~~~~~i~~~~~~~--~~~~~~~~~~   89 (337)
T PRK12402         12 ALLEDILGQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELYGDPWENNFTEFNVADFFD--QGKKYLVEDP   89 (337)
T ss_pred             CcHHHhcCCHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhcCcccccceEEechhhhhh--cchhhhhcCc
Confidence            3346789999999999999883  34789999999999999999999875432 22222222221110  00000000  


Q ss_pred             HHHHHHhcC-CCCCCCHHHHHH---Hh------cCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEeCCh-hhh
Q 048064          162 KLLSEVLKD-VNVIPHIDLNFR---RL------SCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITTRNK-QVL  228 (429)
Q Consensus       162 ~l~~~~~~~-~~~~~~~~~l~~---~l------~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTtR~~-~~~  228 (429)
                      .+....... .......+.+..   ..      ...+-+|||||++..  .....+...+....+.+++|+|+... .+.
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~~~  169 (337)
T PRK12402         90 RFAHFLGTDKRIRSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATRQPSKLI  169 (337)
T ss_pred             chhhhhhhhhhhccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCCHHHHHHHHHHHHhccCCCeEEEEeCChhhCc
Confidence            000000000 000001111111   11      123458999999754  23444544444445567777776543 222


Q ss_pred             hhc-CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHH
Q 048064          229 RNC-HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKIL  286 (429)
Q Consensus       229 ~~~-~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~  286 (429)
                      ..+ .....+.+.+++.++...++...+......  -..+.++.+++.++|++-.+...
T Consensus       170 ~~L~sr~~~v~~~~~~~~~~~~~l~~~~~~~~~~--~~~~al~~l~~~~~gdlr~l~~~  226 (337)
T PRK12402        170 PPIRSRCLPLFFRAPTDDELVDVLESIAEAEGVD--YDDDGLELIAYYAGGDLRKAILT  226 (337)
T ss_pred             hhhcCCceEEEecCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHH
Confidence            222 234578899999999999998876443322  22467888999999987665443

>PF14516 AAA_35: AAA-like domain

Probab=99.03  E-value=2.1e-07  Score=88.42  Aligned_cols=199  Identities=13%  Similarity=0.188  Sum_probs=120.9

Q ss_pred             CCCCcccchhhHHHHHHHhhc-CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhh-hcCCHHHHHHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG-AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQ-KAGGLAFLQQKLL  164 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~-~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~-~~~~~~~~~~~l~  164 (429)
                      ..+..+|.|...-+++.+.+. ....+.|.|+..+|||+|...+.++..+.- ..+...++..... ...+...+.+.+.
T Consensus         8 ~~~~~Yi~R~~~e~~~~~~i~~~G~~~~I~apRq~GKTSll~~l~~~l~~~~-~~~v~id~~~~~~~~~~~~~~f~~~~~   86 (331)
T PF14516_consen    8 LDSPFYIERPPAEQECYQEIVQPGSYIRIKAPRQMGKTSLLLRLLERLQQQG-YRCVYIDLQQLGSAIFSDLEQFLRWFC   86 (331)
T ss_pred             CCCCcccCchHHHHHHHHHHhcCCCEEEEECcccCCHHHHHHHHHHHHHHCC-CEEEEEEeecCCCcccCCHHHHHHHHH
Confidence            556778899967777777666 589999999999999999999999886542 2222333433221 1345555555555


Q ss_pred             HHHhcCCCCCCC--------------HHH-HHHH-h--cCCcEEEEecCCCCHH----HHHHHhccCCC------CC---
Q 048064          165 SEVLKDVNVIPH--------------IDL-NFRR-L--SCRKVLIVLDDVTCLN----QIESLVGSLDR------LL---  213 (429)
Q Consensus       165 ~~~~~~~~~~~~--------------~~~-l~~~-l--~~~~~LlVlDdv~~~~----~~~~l~~~l~~------~~---  213 (429)
                      ..+.........              ... +.+. +  .+++++|+||++|..-    ..+.++..+..      ..   
T Consensus        87 ~~i~~~L~l~~~l~~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~l~~~~~~~~dF~~~LR~~~~~~~~~~~~  166 (331)
T PF14516_consen   87 EEISRQLKLDEKLDEYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDRLFEYPQIADDFFGLLRSWYEQRKNNPIW  166 (331)
T ss_pred             HHHHHHcCCChhHHHHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhhhccCcchHHHHHHHHHHHHHhcccCccc
Confidence            555443111111              111 2222 2  2589999999997442    12333332211      01   


Q ss_pred             CCCEEEEEeCCh-hhhhh-----cCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHH
Q 048064          214 PESRILITTRNK-QVLRN-----CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILG  287 (429)
Q Consensus       214 ~~~~iiiTtR~~-~~~~~-----~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~  287 (429)
                      ...++++....+ .....     ++....+.|++++.+|...|+..+-..   ..   .+..+++...++|+|..+..++
T Consensus       167 ~~L~li~~~~t~~~~~~~~~~SPFNIg~~i~L~~Ft~~ev~~L~~~~~~~---~~---~~~~~~l~~~tgGhP~Lv~~~~  240 (331)
T PF14516_consen  167 QKLRLILAGSTEDYIILDINQSPFNIGQPIELPDFTPEEVQELAQRYGLE---FS---QEQLEQLMDWTGGHPYLVQKAC  240 (331)
T ss_pred             ceEEEEEecCcccccccCCCCCCcccccceeCCCCCHHHHHHHHHhhhcc---CC---HHHHHHHHHHHCCCHHHHHHHH
Confidence            111222222111 11111     234557899999999999999876422   11   2338999999999999999999


Q ss_pred             HhhcC
Q 048064          288 CYLFE  292 (429)
Q Consensus       288 ~~l~~  292 (429)
                      ..+..
T Consensus       241 ~~l~~  245 (331)
T PF14516_consen  241 YLLVE  245 (331)
T ss_pred             HHHHH
Confidence            98865

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=99.02  E-value=2.4e-08  Score=101.86  Aligned_cols=277  Identities=16%  Similarity=0.127  Sum_probs=143.8

Q ss_pred             CCCCcccchhhHHHHHHHhhc-------CCCEEEEEcCCCcchHHHHHHHHHHhhcC-----cc-eeEEEeechhhhhhc
Q 048064           87 DSKNELVGVESRVEEIQSLLG-------AAPLLGIWGIGGIGKTTIARVIFNRISRN-----FK-GSCFLENIREESQKA  153 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~-------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-----f~-~~~~~~~~~~~~~~~  153 (429)
                      ..|..++||+.++++|...|.       ...++.|+|++|+|||++++.+.+++.+.     .+ ..+...++..    .
T Consensus       752 YVPD~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~----L  827 (1164)
T PTZ00112        752 VVPKYLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMN----V  827 (1164)
T ss_pred             cCCCcCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCc----c
Confidence            566889999999999999886       23456799999999999999999876432     12 2223333322    2


Q ss_pred             CCHHHHHHHHHHHHhcCCCC--CCC---HHHHHHHhc---CCcEEEEecCCCCHH--HHHHHhccCCCC-CCCCEEEE--
Q 048064          154 GGLAFLQQKLLSEVLKDVNV--IPH---IDLNFRRLS---CRKVLIVLDDVTCLN--QIESLVGSLDRL-LPESRILI--  220 (429)
Q Consensus       154 ~~~~~~~~~l~~~~~~~~~~--~~~---~~~l~~~l~---~~~~LlVlDdv~~~~--~~~~l~~~l~~~-~~~~~iii--  220 (429)
                      .....+...+..++....+.  ...   ++.+...+.   ....+||||+++...  .-+.|...+.+. ..+++|++  
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            34455555555555433211  111   222333331   224589999998543  112222122111 23455433  


Q ss_pred             EeCChhhh----hhcC---CCeEEEcCCCCHHHHHHHHHHhhhcC-CCCChhHHHHHHHHHHHhCCC-hHHHHHHHHhhc
Q 048064          221 TTRNKQVL----RNCH---INQIYEMKGLGDDHALELFIRHAFRQ-NLVDVDYKELSDKVINYAQGV-PLALKILGCYLF  291 (429)
Q Consensus       221 TtR~~~~~----~~~~---~~~~~~l~~L~~~ea~~L~~~~~~~~-~~~~~~~~~~~~~i~~~~~G~-PLai~~~~~~l~  291 (429)
                      +|.+....    +.+.   ....+.++|++.++..+++..++... ....++..++..+.+....|- =.||.++-....
T Consensus       908 ISNdlDLperLdPRLRSRLg~eeIvF~PYTaEQL~dILk~RAe~A~gVLdDdAIELIArkVAq~SGDARKALDILRrAgE  987 (1164)
T PTZ00112        908 ISNTMDLPERLIPRCRSRLAFGRLVFSPYKGDEIEKIIKERLENCKEIIDHTAIQLCARKVANVSGDIRKALQICRKAFE  987 (1164)
T ss_pred             ecCchhcchhhhhhhhhccccccccCCCCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhhcCCHHHHHHHHHHHHHh
Confidence            44332211    1111   12246789999999999999987432 122222222222222244443 344444332221


Q ss_pred             --CC---CHHHHHHHHHHHhhCCCccHHHHHHHhhhcCChhhHHHHhhhhcccC-----CcCHHHHH----HHHHHc---
Q 048064          292 --ER---KKEVWENAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFFK-----GEDIYLVK----KFFEAS---  354 (429)
Q Consensus       292 --~~---~~~~~~~~l~~l~~~~~~~i~~~l~~s~~~L~~~~~~~l~~la~f~~-----~~~~~~l~----~~~~~~---  354 (429)
                        +.   ..+....+...+.       ...+...+..||.+.+-+|..+.....     +++...+.    .++...   
T Consensus       988 ikegskVT~eHVrkAleeiE-------~srI~e~IktLPlHqKLVLlALIlLlk~tg~~~i~TGEVYerYk~Lce~~Gk~ 1060 (1164)
T PTZ00112        988 NKRGQKIVPRDITEATNQLF-------DSPLTNAINYLPWPFKMFLTCLIVELRMLNDFIIPYKKVLNRYKVLVETSGKY 1060 (1164)
T ss_pred             hcCCCccCHHHHHHHHHHHH-------hhhHHHHHHcCCHHHHHHHHHHHHHHhhcCCCceeHHHHHHHHHHHHHhhhhh
Confidence              11   1222223322221       122344567899888888775554322     13332222    233211   


Q ss_pred             -CCC-----hhhhHHHHHHcCceeEc
Q 048064          355 -GFY-----PEIGISILVDKALIAIN  374 (429)
Q Consensus       355 -~~~-----~~~~l~~L~~~sLi~~~  374 (429)
                       |..     ....+.+|...|+|...
T Consensus      1061 iGv~plTqRV~d~L~eL~~LGIIl~e 1086 (1164)
T PTZ00112       1061 IGMCSNNELFKIMLDKLVKMGILLIR 1086 (1164)
T ss_pred             cCCCCcHHHHHHHHHHHHhcCeEEec
Confidence             122     23367899999999875

>PRK08084 DNA replication initiation factor; Provisional

Probab=99.01  E-value=2.4e-08  Score=90.14  Aligned_cols=171  Identities=15%  Similarity=0.244  Sum_probs=100.3

Q ss_pred             cccch-hhHHHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHH
Q 048064           91 ELVGV-ESRVEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEV  167 (429)
Q Consensus        91 ~~vGR-~~~~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  167 (429)
                      .++|- ...+..+.++..  ..+.+.|+|++|+|||+|++.+++........+.|+. +....   ...    ..+    
T Consensus        24 f~~~~n~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~-~~~~~---~~~----~~~----   91 (235)
T PRK08084         24 FYPGDNDSLLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVP-LDKRA---WFV----PEV----   91 (235)
T ss_pred             cccCccHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEE-HHHHh---hhh----HHH----
Confidence            33463 233444555443  5578999999999999999999998765533344443 22110   000    011    


Q ss_pred             hcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH---HHHH-HHhccCCCC-CCC-CEEEEEeCCh---------hhhhhcC
Q 048064          168 LKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL---NQIE-SLVGSLDRL-LPE-SRILITTRNK---------QVLRNCH  232 (429)
Q Consensus       168 ~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~---~~~~-~l~~~l~~~-~~~-~~iiiTtR~~---------~~~~~~~  232 (429)
                                   .+.+.+ --+|+|||++..   ..++ .+...+... ..| .++|+||+..         .+...+.
T Consensus        92 -------------~~~~~~-~dlliiDdi~~~~~~~~~~~~lf~l~n~~~e~g~~~li~ts~~~p~~l~~~~~~L~SRl~  157 (235)
T PRK08084         92 -------------LEGMEQ-LSLVCIDNIECIAGDELWEMAIFDLYNRILESGRTRLLITGDRPPRQLNLGLPDLASRLD  157 (235)
T ss_pred             -------------HHHhhh-CCEEEEeChhhhcCCHHHHHHHHHHHHHHHHcCCCeEEEeCCCChHHcCcccHHHHHHHh
Confidence                         111111 138999999743   2222 222222111 123 4788988755         2233344


Q ss_pred             CCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHHHh
Q 048064          233 INQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCY  289 (429)
Q Consensus       233 ~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~~~  289 (429)
                      ...++++.+++.++-.+++.+.+......  -.++...-|++.+.|..-.+..+-..
T Consensus       158 ~g~~~~l~~~~~~~~~~~l~~~a~~~~~~--l~~~v~~~L~~~~~~d~r~l~~~l~~  212 (235)
T PRK08084        158 WGQIYKLQPLSDEEKLQALQLRARLRGFE--LPEDVGRFLLKRLDREMRTLFMTLDQ  212 (235)
T ss_pred             CCceeeecCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHhhcCCHHHHHHHHHH
Confidence            55789999999999999998866433211  22567888889998887766554433

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.01  E-value=4.9e-08  Score=97.21  Aligned_cols=190  Identities=15%  Similarity=0.124  Sum_probs=113.8

Q ss_pred             CCCCcccchhhHHHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhc--CcceeEEEeechh-hhhh-cCCHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISR--NFKGSCFLENIRE-ESQK-AGGLAFL  159 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~--~f~~~~~~~~~~~-~~~~-~~~~~~~  159 (429)
                      ....+++|.+..++.|..++.   -.+.+.++|++|+||||+|+.+++.+..  .+...|+.+.... .... ..++..+
T Consensus        11 ~~~~dvvGq~~v~~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~~i~~~~h~dv~el   90 (504)
T PRK14963         11 ITFDEVVGQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCLAVRRGAHPDVLEI   90 (504)
T ss_pred             CCHHHhcChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhHHHhcCCCCceEEe
Confidence            445689999999999999887   2455699999999999999999997642  1222222221000 0000 0000000


Q ss_pred             HHHHHHHHhcCCCCCCCHHHHHHHh-----cCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEeCCh-hhhhhc
Q 048064          160 QQKLLSEVLKDVNVIPHIDLNFRRL-----SCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITTRNK-QVLRNC  231 (429)
Q Consensus       160 ~~~l~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTtR~~-~~~~~~  231 (429)
                      -       .........+..+...+     .+++-++|||+++..  ..++.++..+....+...+|+++... .+...+
T Consensus        91 ~-------~~~~~~vd~iR~l~~~~~~~p~~~~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~~~~kl~~~I  163 (504)
T PRK14963         91 D-------AASNNSVEDVRDLREKVLLAPLRGGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPPTI  163 (504)
T ss_pred             c-------ccccCCHHHHHHHHHHHhhccccCCCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcCChhhCChHH
Confidence            0       00000011111122211     235669999999854  45777777776655566656555433 332222


Q ss_pred             -CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHH
Q 048064          232 -HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKI  285 (429)
Q Consensus       232 -~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~  285 (429)
                       .....+++.+++.++...++.+.+.......  ..+.+..|++.++|.+--+..
T Consensus       164 ~SRc~~~~f~~ls~~el~~~L~~i~~~egi~i--~~~Al~~ia~~s~GdlR~aln  216 (504)
T PRK14963        164 LSRTQHFRFRRLTEEEIAGKLRRLLEAEGREA--EPEALQLVARLADGAMRDAES  216 (504)
T ss_pred             hcceEEEEecCCCHHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHcCCCHHHHHH
Confidence             3356899999999999999988774443221  246788999999999976543

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.01  E-value=4.5e-08  Score=97.94  Aligned_cols=190  Identities=15%  Similarity=0.156  Sum_probs=114.0

Q ss_pred             CCCCcccchhhHHHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhcCcc---e-----eEEEe-echhhhhh-c
Q 048064           87 DSKNELVGVESRVEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISRNFK---G-----SCFLE-NIREESQK-A  153 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~---~-----~~~~~-~~~~~~~~-~  153 (429)
                      ....++||.+..++.|.+++.   -.+.+.++|+.|+||||+|+.+++.+-..-+   .     .|-.+ .+...... .
T Consensus        13 qtFddVIGQe~vv~~L~~al~~gRLpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~~~PCG~C~sC~~I~aG~h   92 (700)
T PRK12323         13 RDFTTLVGQEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGITAQPCGQCRACTEIDAGRF   92 (700)
T ss_pred             CcHHHHcCcHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCCCCCCcccHHHHHHHcCCC
Confidence            445789999999999999998   2356789999999999999999997642100   0     00000 00000000 0


Q ss_pred             CCHHHHHHHHHHHHhcC-CCCCCCHHHHHHH-----hcCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEeC-C
Q 048064          154 GGLAFLQQKLLSEVLKD-VNVIPHIDLNFRR-----LSCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITTR-N  224 (429)
Q Consensus       154 ~~~~~~~~~l~~~~~~~-~~~~~~~~~l~~~-----l~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTtR-~  224 (429)
                      .++.        .+... ....+.+..+.+.     ..++.-++|||+++..  ...+.|+..+.....++.+|++|. .
T Consensus        93 pDvi--------EIdAas~~gVDdIReLie~~~~~P~~gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTtep  164 (700)
T PRK12323         93 VDYI--------EMDAASNRGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDP  164 (700)
T ss_pred             Ccce--------EecccccCCHHHHHHHHHHHHhchhcCCceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeCCh
Confidence            0000        00000 0001111112222     1345669999999855  577888888877666777665544 4


Q ss_pred             hhhhhhc-CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHH
Q 048064          225 KQVLRNC-HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKIL  286 (429)
Q Consensus       225 ~~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~  286 (429)
                      ..+...+ +....+++.+++.++..+.+.+.+......  ...+.++.|++.++|.|.-...+
T Consensus       165 ~kLlpTIrSRCq~f~f~~ls~eei~~~L~~Il~~Egi~--~d~eAL~~IA~~A~Gs~RdALsL  225 (700)
T PRK12323        165 QKIPVTVLSRCLQFNLKQMPPGHIVSHLDAILGEEGIA--HEVNALRLLAQAAQGSMRDALSL  225 (700)
T ss_pred             HhhhhHHHHHHHhcccCCCChHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHH
Confidence            4444332 234678999999999999988776433221  12355788999999999654433

>PLN03025 replication factor C subunit; Provisional

Probab=99.00  E-value=3.6e-08  Score=93.42  Aligned_cols=182  Identities=16%  Similarity=0.225  Sum_probs=110.2

Q ss_pred             CCCCcccchhhHHHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhc-CcceeEEEeechhhhhhcCCHHHHHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISR-NFKGSCFLENIREESQKAGGLAFLQQKL  163 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~-~f~~~~~~~~~~~~~~~~~~~~~~~~~l  163 (429)
                      ..-.+++|.++.++.|..++.  ..+.+.++|++|+||||+|..+++.+.. .+...+.-.+...    ..+... .+..
T Consensus        10 ~~l~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l~~~~~~~~~~eln~sd----~~~~~~-vr~~   84 (319)
T PLN03025         10 TKLDDIVGNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELLGPNYKEAVLELNASD----DRGIDV-VRNK   84 (319)
T ss_pred             CCHHHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhcccCccceeeecccc----cccHHH-HHHH
Confidence            445678999999999988876  4566889999999999999999998633 2322221111111    112221 1222


Q ss_pred             HHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEeCCh-hhhhhc-CCCeEEEc
Q 048064          164 LSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITTRNK-QVLRNC-HINQIYEM  239 (429)
Q Consensus       164 ~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTtR~~-~~~~~~-~~~~~~~l  239 (429)
                      ...........         ..++.-++|||+++..  .....+...+....+.+++++++... .+.+.+ .....+++
T Consensus        85 i~~~~~~~~~~---------~~~~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~L~SRc~~i~f  155 (319)
T PLN03025         85 IKMFAQKKVTL---------PPGRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSRCAIVRF  155 (319)
T ss_pred             HHHHHhccccC---------CCCCeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCCccccchhHHHhhhcccC
Confidence            11111110000         0134669999999855  34455555555445567777666443 222221 12357899


Q ss_pred             CCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHH
Q 048064          240 KGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALK  284 (429)
Q Consensus       240 ~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~  284 (429)
                      ++++.++....+...+-.....-  ..+....+++.++|..-.+.
T Consensus       156 ~~l~~~~l~~~L~~i~~~egi~i--~~~~l~~i~~~~~gDlR~al  198 (319)
T PLN03025        156 SRLSDQEILGRLMKVVEAEKVPY--VPEGLEAIIFTADGDMRQAL  198 (319)
T ss_pred             CCCCHHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHcCCCHHHHH
Confidence            99999999999988774433221  24568889999999875543

>PRK04195 replication factor C large subunit; Provisional

Probab=98.99  E-value=3.5e-08  Score=98.74  Aligned_cols=181  Identities=15%  Similarity=0.212  Sum_probs=111.5

Q ss_pred             CCCCcccchhhHHHHHHHhhc------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQ  160 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~  160 (429)
                      ....+++|.+..++.|.+|+.      ..+.+.|+|++|+||||+|..+++.+.  +.  +...+...    ..... ..
T Consensus        11 ~~l~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el~--~~--~ielnasd----~r~~~-~i   81 (482)
T PRK04195         11 KTLSDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDYG--WE--VIELNASD----QRTAD-VI   81 (482)
T ss_pred             CCHHHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHcC--CC--EEEEcccc----cccHH-HH
Confidence            445679999999999999986      278899999999999999999999873  22  11112211    11111 12


Q ss_pred             HHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCHH------HHHHHhccCCCCCCCCEEEEEeCChh-hhh-h-c
Q 048064          161 QKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLN------QIESLVGSLDRLLPESRILITTRNKQ-VLR-N-C  231 (429)
Q Consensus       161 ~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~------~~~~l~~~l~~~~~~~~iiiTtR~~~-~~~-~-~  231 (429)
                      ..+........          .....++-+||||+++...      ....+...+.  ..+..||+|+.+.. ... . .
T Consensus        82 ~~~i~~~~~~~----------sl~~~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~--~~~~~iIli~n~~~~~~~k~Lr  149 (482)
T PRK04195         82 ERVAGEAATSG----------SLFGARRKLILLDEVDGIHGNEDRGGARAILELIK--KAKQPIILTANDPYDPSLRELR  149 (482)
T ss_pred             HHHHHHhhccC----------cccCCCCeEEEEecCcccccccchhHHHHHHHHHH--cCCCCEEEeccCccccchhhHh
Confidence            22222111110          0011356799999998552      2455554444  23344666654432 111 1 1


Q ss_pred             CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHHHhh
Q 048064          232 HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYL  290 (429)
Q Consensus       232 ~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~~~l  290 (429)
                      .....+.+++++.++....+...+......-  ..+....|++.++|....+......+
T Consensus       150 sr~~~I~f~~~~~~~i~~~L~~i~~~egi~i--~~eaL~~Ia~~s~GDlR~ain~Lq~~  206 (482)
T PRK04195        150 NACLMIEFKRLSTRSIVPVLKRICRKEGIEC--DDEALKEIAERSGGDLRSAINDLQAI  206 (482)
T ss_pred             ccceEEEecCCCHHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            2356789999999999999888764433221  24678899999999887665544433

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.99  E-value=5.4e-08  Score=100.54  Aligned_cols=186  Identities=17%  Similarity=0.189  Sum_probs=116.3

Q ss_pred             CCCCcccchhhHHHHHHHhhc--C-CCEEEEEcCCCcchHHHHHHHHHHhhcCcc---eeEEEeec-hhhh---------
Q 048064           87 DSKNELVGVESRVEEIQSLLG--A-APLLGIWGIGGIGKTTIARVIFNRISRNFK---GSCFLENI-REES---------  150 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~--~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~---~~~~~~~~-~~~~---------  150 (429)
                      ....++||.+..++.|.+++.  . .+.+.++|++|+||||+|+.+++.+.....   ..|..+.. ....         
T Consensus        13 ~tFddIIGQe~Iv~~LknaI~~~rl~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~sC~~i~~g~~~DviE   92 (944)
T PRK14949         13 ATFEQMVGQSHVLHALTNALTQQRLHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCSSCVEIAQGRFVDLIE   92 (944)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCchHHHHHhcCCCceEEE
Confidence            445789999999999999887  2 345689999999999999999998643210   01111100 0000         


Q ss_pred             --hh-cCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEeCC-
Q 048064          151 --QK-AGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITTRN-  224 (429)
Q Consensus       151 --~~-~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTtR~-  224 (429)
                        .. ...... .+.+...+.            ..-..++.-++|||+++..  ...+.|+..+.....+.++|++|.+ 
T Consensus        93 idAas~~kVDd-IReLie~v~------------~~P~~gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrFILaTTe~  159 (944)
T PRK14949         93 VDAASRTKVDD-TRELLDNVQ------------YRPSRGRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKFLLATTDP  159 (944)
T ss_pred             eccccccCHHH-HHHHHHHHH------------hhhhcCCcEEEEEechHhcCHHHHHHHHHHHhccCCCeEEEEECCCc
Confidence              00 011111 111211110            0112356779999999854  5778888888776677776665544 


Q ss_pred             hhhhhh-cCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHH
Q 048064          225 KQVLRN-CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILG  287 (429)
Q Consensus       225 ~~~~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~  287 (429)
                      ..+... ......|++.+|+.++....+.+.+......  -..+.+..|+..++|.|.-+..+.
T Consensus       160 ~kLl~TIlSRCq~f~fkpLs~eEI~~~L~~il~~EgI~--~edeAL~lIA~~S~Gd~R~ALnLL  221 (944)
T PRK14949        160 QKLPVTVLSRCLQFNLKSLTQDEIGTQLNHILTQEQLP--FEAEALTLLAKAANGSMRDALSLT  221 (944)
T ss_pred             hhchHHHHHhheEEeCCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            444333 2345789999999999999998876433211  224568889999999997554443

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=98.99  E-value=1.4e-07  Score=90.28  Aligned_cols=190  Identities=12%  Similarity=0.111  Sum_probs=114.3

Q ss_pred             CCCCcccchhhHHHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhcCc--cee-EE--EeechhhhhhcCCHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISRNF--KGS-CF--LENIREESQKAGGLAF  158 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f--~~~-~~--~~~~~~~~~~~~~~~~  158 (429)
                      .....++|.+...+.|.+.+.   -.+.+.++|+.|+||+|+|..+++.+-.+-  ... +-  ...+.. .   .. -.
T Consensus        16 ~~~~~iiGq~~~~~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~~l~~-~---~~-c~   90 (365)
T PRK07471         16 RETTALFGHAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPTSLAI-D---PD-HP   90 (365)
T ss_pred             CchhhccChHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccccccccC-C---CC-Ch
Confidence            556789999999999999887   355789999999999999999999763221  100 00  000000 0   00 00


Q ss_pred             HHHHHHHHH-hc---------CCC----CCCCHHH---HHHHhc-----CCcEEEEecCCC--CHHHHHHHhccCCCCCC
Q 048064          159 LQQKLLSEV-LK---------DVN----VIPHIDL---NFRRLS-----CRKVLIVLDDVT--CLNQIESLVGSLDRLLP  214 (429)
Q Consensus       159 ~~~~l~~~~-~~---------~~~----~~~~~~~---l~~~l~-----~~~~LlVlDdv~--~~~~~~~l~~~l~~~~~  214 (429)
                      ..+.+.... .+         +..    ..-.++.   +.+.+.     +.+.++|||+++  +......|+..+....+
T Consensus        91 ~c~~i~~~~HPDl~~i~~~~~~~~~~~~~~I~VdqiR~l~~~~~~~~~~~~~kVviIDead~m~~~aanaLLK~LEepp~  170 (365)
T PRK07471         91 VARRIAAGAHGGLLTLERSWNEKGKRLRTVITVDEVRELISFFGLTAAEGGWRVVIVDTADEMNANAANALLKVLEEPPA  170 (365)
T ss_pred             HHHHHHccCCCCeEEEecccccccccccccccHHHHHHHHHHhCcCcccCCCEEEEEechHhcCHHHHHHHHHHHhcCCC
Confidence            011110000 00         000    0011222   333332     456799999997  44567788887776556


Q ss_pred             CCEEEEEeCChh-hhhh-cCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHH
Q 048064          215 ESRILITTRNKQ-VLRN-CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILG  287 (429)
Q Consensus       215 ~~~iiiTtR~~~-~~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~  287 (429)
                      ++.+|++|.+.. +... .+....+.+.+++.++..+++......   ..   .+....++..++|+|+....+.
T Consensus       171 ~~~~IL~t~~~~~llpti~SRc~~i~l~~l~~~~i~~~L~~~~~~---~~---~~~~~~l~~~s~Gsp~~Al~ll  239 (365)
T PRK07471        171 RSLFLLVSHAPARLLPTIRSRCRKLRLRPLAPEDVIDALAAAGPD---LP---DDPRAALAALAEGSVGRALRLA  239 (365)
T ss_pred             CeEEEEEECCchhchHHhhccceEEECCCCCHHHHHHHHHHhccc---CC---HHHHHHHHHHcCCCHHHHHHHh
Confidence            676777666553 3333 234568999999999999999876421   11   1223678999999998665443

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.98  E-value=5.6e-08  Score=97.47  Aligned_cols=179  Identities=19%  Similarity=0.181  Sum_probs=114.3

Q ss_pred             CCCCcccchhhHHHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhcCcc---------------------eeEE
Q 048064           87 DSKNELVGVESRVEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISRNFK---------------------GSCF  142 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~---------------------~~~~  142 (429)
                      ....+++|.+...+.|.+++.   -.+.+.++|++|+||||+|+.+++.+-....                     ..+.
T Consensus        12 ktFddVIGQe~vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg~C~sC~~I~~g~hpDviE   91 (702)
T PRK14960         12 RNFNELVGQNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCEVCATCKAVNEGRFIDLIE   91 (702)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCccCHHHHHHhcCCCCceEE
Confidence            445789999999999999997   2457799999999999999999987632110                     1111


Q ss_pred             EeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEE
Q 048064          143 LENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILI  220 (429)
Q Consensus       143 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iii  220 (429)
                      +. ..  +  ...... .+.++.....            .-..++.-++|||+++..  ...+.++..+....++..+|+
T Consensus        92 ID-AA--s--~~~Vdd-IReli~~~~y------------~P~~gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FIL  153 (702)
T PRK14960         92 ID-AA--S--RTKVED-TRELLDNVPY------------APTQGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLF  153 (702)
T ss_pred             ec-cc--c--cCCHHH-HHHHHHHHhh------------hhhcCCcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEE
Confidence            10 00  0  001111 1111111100            011245679999999855  467778877776666777777


Q ss_pred             EeCChh-hhhh-cCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHH
Q 048064          221 TTRNKQ-VLRN-CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKI  285 (429)
Q Consensus       221 TtR~~~-~~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~  285 (429)
                      +|.+.. +... ......+++.+++.++....+...+......  -..+.+..|++.++|.+..+..
T Consensus       154 aTtd~~kIp~TIlSRCq~feFkpLs~eEI~k~L~~Il~kEgI~--id~eAL~~IA~~S~GdLRdALn  218 (702)
T PRK14960        154 ATTDPQKLPITVISRCLQFTLRPLAVDEITKHLGAILEKEQIA--ADQDAIWQIAESAQGSLRDALS  218 (702)
T ss_pred             EECChHhhhHHHHHhhheeeccCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHH
Confidence            776542 2212 2345689999999999999998876443322  2245678899999998855543

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=98.97  E-value=2.1e-08  Score=90.38  Aligned_cols=178  Identities=19%  Similarity=0.243  Sum_probs=102.5

Q ss_pred             CCccccCCCCCccc-chhh-HHHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcC
Q 048064           80 LPKVVPCDSKNELV-GVES-RVEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAG  154 (429)
Q Consensus        80 ~~~~~p~~~~~~~v-GR~~-~~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~  154 (429)
                      ++...| ...++|+ |... .+..+.++..   ..+.+.|+|++|+|||+||..+++.....-....++. ......   
T Consensus         9 ~~~~~~-~~~d~f~~~~~~~~~~~l~~~~~~~~~~~~~~l~G~~G~GKT~La~ai~~~~~~~~~~~~~i~-~~~~~~---   83 (227)
T PRK08903          9 LGPPPP-PTFDNFVAGENAELVARLRELAAGPVADRFFYLWGEAGSGRSHLLQALVADASYGGRNARYLD-AASPLL---   83 (227)
T ss_pred             CCCCCh-hhhcccccCCcHHHHHHHHHHHhccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEe-hHHhHH---
Confidence            344444 3345555 5433 3444544443   4578999999999999999999998654433344443 211110   


Q ss_pred             CHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH--HHHHHHhccCCCC-CCCC-EEEEEeCChhhh--
Q 048064          155 GLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL--NQIESLVGSLDRL-LPES-RILITTRNKQVL--  228 (429)
Q Consensus       155 ~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~l~~~-~~~~-~iiiTtR~~~~~--  228 (429)
                             .+                  .. ....-+||+||++..  .....+...+... ..+. .+|+|++.....  
T Consensus        84 -------~~------------------~~-~~~~~~liiDdi~~l~~~~~~~L~~~~~~~~~~~~~~vl~~~~~~~~~~~  137 (227)
T PRK08903         84 -------AF------------------DF-DPEAELYAVDDVERLDDAQQIALFNLFNRVRAHGQGALLVAGPAAPLALP  137 (227)
T ss_pred             -------HH------------------hh-cccCCEEEEeChhhcCchHHHHHHHHHHHHHHcCCcEEEEeCCCCHHhCC
Confidence                   00                  00 112347999999744  2223333333211 1233 366666643211  


Q ss_pred             ------hhcCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHHHhh
Q 048064          229 ------RNCHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYL  290 (429)
Q Consensus       229 ------~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~~~l  290 (429)
                            ..+.....+++++++.++-..++.+.+......  -..+....+++.+.|++..+..+...+
T Consensus       138 l~~~L~sr~~~~~~i~l~pl~~~~~~~~l~~~~~~~~v~--l~~~al~~L~~~~~gn~~~l~~~l~~l  203 (227)
T PRK08903        138 LREDLRTRLGWGLVYELKPLSDADKIAALKAAAAERGLQ--LADEVPDYLLTHFRRDMPSLMALLDAL  203 (227)
T ss_pred             CCHHHHHHHhcCeEEEecCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHhccCCHHHHHHHHHHH
Confidence                  122234688999999998888777654322211  224678888899999999887776554

>PRK05642 DNA replication initiation factor; Validated

Probab=98.95  E-value=4.7e-08  Score=88.15  Aligned_cols=154  Identities=20%  Similarity=0.300  Sum_probs=93.4

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCc
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRK  188 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~  188 (429)
                      ...+.|+|++|+|||+|++.+++.+......++|+. .....          ..              ...+.+.+.+-.
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~~-~~~~~----------~~--------------~~~~~~~~~~~d   99 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLP-LAELL----------DR--------------GPELLDNLEQYE   99 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEee-HHHHH----------hh--------------hHHHHHhhhhCC
Confidence            367899999999999999999998765544445544 22111          00              011222333222


Q ss_pred             EEEEecCCCCH---HHH-HHHhccCCC-CCCCCEEEEEeCChh---------hhhhcCCCeEEEcCCCCHHHHHHHHHHh
Q 048064          189 VLIVLDDVTCL---NQI-ESLVGSLDR-LLPESRILITTRNKQ---------VLRNCHINQIYEMKGLGDDHALELFIRH  254 (429)
Q Consensus       189 ~LlVlDdv~~~---~~~-~~l~~~l~~-~~~~~~iiiTtR~~~---------~~~~~~~~~~~~l~~L~~~ea~~L~~~~  254 (429)
                       +|||||++..   ..+ +.+...+.. ...|..+|+|++...         +...+....++++.+++.++-.+++..+
T Consensus       100 -~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~~~p~~l~~~~~~L~SRl~~gl~~~l~~~~~e~~~~il~~k  178 (234)
T PRK05642        100 -LVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAASKSPRELPIKLPDLKSRLTLALVFQMRGLSDEDKLRALQLR  178 (234)
T ss_pred             -EEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCCCCHHHcCccCccHHHHHhcCeeeecCCCCHHHHHHHHHHH
Confidence             7889999633   232 223333321 134677888887541         1222233467899999999999999866


Q ss_pred             hhcCCCCChhHHHHHHHHHHHhCCChHHHHHHHHhh
Q 048064          255 AFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYL  290 (429)
Q Consensus       255 ~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~~~l  290 (429)
                      +......  -..++..-|++.+.|..-.+..+-..|
T Consensus       179 a~~~~~~--l~~ev~~~L~~~~~~d~r~l~~~l~~l  212 (234)
T PRK05642        179 ASRRGLH--LTDEVGHFILTRGTRSMSALFDLLERL  212 (234)
T ss_pred             HHHcCCC--CCHHHHHHHHHhcCCCHHHHHHHHHHH
Confidence            5433211  124677888888888877665554433

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.94  E-value=2.2e-07  Score=91.60  Aligned_cols=179  Identities=17%  Similarity=0.237  Sum_probs=114.3

Q ss_pred             CCCCcccchhhHHHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhcC---------------------cceeEE
Q 048064           87 DSKNELVGVESRVEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISRN---------------------FKGSCF  142 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~---------------------f~~~~~  142 (429)
                      ....++||.+..++.|.+.+.   -.+.+.++|++|+||||+|+.+++.+-..                     +...+.
T Consensus        10 ~~f~dliGQe~vv~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~Dv~e   89 (491)
T PRK14964         10 SSFKDLVGQDVLVRILRNAFTLNKIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHPDVIE   89 (491)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCCCEEE
Confidence            455789999999999998887   34579999999999999999998864211                     111122


Q ss_pred             EeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEE
Q 048064          143 LENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILI  220 (429)
Q Consensus       143 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iii  220 (429)
                      +...+     ..+... .+.+.......            -..++.-++|+|+++..  ...+.|+..+....+.+.+|+
T Consensus        90 idaas-----~~~vdd-IR~Iie~~~~~------------P~~~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~fIl  151 (491)
T PRK14964         90 IDAAS-----NTSVDD-IKVILENSCYL------------PISSKFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFIL  151 (491)
T ss_pred             Eeccc-----CCCHHH-HHHHHHHHHhc------------cccCCceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEEEE
Confidence            21100     111111 11111111100            01235568999999854  467788888877677777666


Q ss_pred             EeC-Chhhhhh-cCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHH
Q 048064          221 TTR-NKQVLRN-CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKI  285 (429)
Q Consensus       221 TtR-~~~~~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~  285 (429)
                      +|. ...+... ......+++.+++.++....+...+......  -..+.+..|++.++|.+..+..
T Consensus       152 atte~~Kl~~tI~SRc~~~~f~~l~~~el~~~L~~ia~~Egi~--i~~eAL~lIa~~s~GslR~als  216 (491)
T PRK14964        152 ATTEVKKIPVTIISRCQRFDLQKIPTDKLVEHLVDIAKKENIE--HDEESLKLIAENSSGSMRNALF  216 (491)
T ss_pred             EeCChHHHHHHHHHhheeeecccccHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHH
Confidence            554 3344333 2345678999999999999998877544322  1245678899999998864433

>PF13173 AAA_14: AAA domain

Probab=98.93  E-value=1.3e-08  Score=82.87  Aligned_cols=120  Identities=16%  Similarity=0.169  Sum_probs=76.5

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCc
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRK  188 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~  188 (429)
                      .+++.|.|+.|+|||||+++++++.. .....+++. +.....     ....  ..          ...+.+.+....++
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~~-~~~~~~yi~-~~~~~~-----~~~~--~~----------~~~~~~~~~~~~~~   62 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDLL-PPENILYIN-FDDPRD-----RRLA--DP----------DLLEYFLELIKPGK   62 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhc-ccccceeec-cCCHHH-----HHHh--hh----------hhHHHHHHhhccCC
Confidence            47899999999999999999998875 222333332 322111     0000  00          01112233333467


Q ss_pred             EEEEecCCCCHHHHHHHhccCCCCCCCCEEEEEeCChhhhhh-c-----CCCeEEEcCCCCHHHH
Q 048064          189 VLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQVLRN-C-----HINQIYEMKGLGDDHA  247 (429)
Q Consensus       189 ~LlVlDdv~~~~~~~~l~~~l~~~~~~~~iiiTtR~~~~~~~-~-----~~~~~~~l~~L~~~ea  247 (429)
                      .+++||+++....|...+..+.+..+..+|++|+.+...+.. .     +....+++.||+-.|.
T Consensus        63 ~~i~iDEiq~~~~~~~~lk~l~d~~~~~~ii~tgS~~~~l~~~~~~~l~gr~~~~~l~Plsf~E~  127 (128)
T PF13173_consen   63 KYIFIDEIQYLPDWEDALKFLVDNGPNIKIILTGSSSSLLSKDIAESLAGRVIEIELYPLSFREF  127 (128)
T ss_pred             cEEEEehhhhhccHHHHHHHHHHhccCceEEEEccchHHHhhcccccCCCeEEEEEECCCCHHHh
Confidence            899999999888887777666655567899999987755432 1     2234678999998774

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.93  E-value=1.2e-07  Score=92.39  Aligned_cols=186  Identities=16%  Similarity=0.152  Sum_probs=111.9

Q ss_pred             CCCCcccchhhHHHHHHHhhcC---CCEEEEEcCCCcchHHHHHHHHHHhhcCcce---eEEEeechhhhhhcCCHHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLGA---APLLGIWGIGGIGKTTIARVIFNRISRNFKG---SCFLENIREESQKAGGLAFLQ  160 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~~---~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~---~~~~~~~~~~~~~~~~~~~~~  160 (429)
                      ....+++|.+..++.|..++..   .+.+.++|++|+||||+|+.+++.+-.....   .|..+.         ....+.
T Consensus        15 ~~f~dvVGQe~iv~~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~~pCg~C~---------sC~~i~   85 (484)
T PRK14956         15 QFFRDVIHQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRLNCENPIGNEPCNECT---------SCLEIT   85 (484)
T ss_pred             CCHHHHhChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhcCcccccCccccCCCc---------HHHHHH
Confidence            4557899999999999998872   3357999999999999999999976432110   111100         000000


Q ss_pred             HHHHHHHhc----CCCCCCCHHHHHHH-----hcCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEe-CChhhh
Q 048064          161 QKLLSEVLK----DVNVIPHIDLNFRR-----LSCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITT-RNKQVL  228 (429)
Q Consensus       161 ~~l~~~~~~----~~~~~~~~~~l~~~-----l~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTt-R~~~~~  228 (429)
                      ......+..    .....+.+..+.+.     ..++.-++|||+++..  ..++.|+..+........+|++| ....+.
T Consensus        86 ~g~~~dviEIdaas~~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~kI~  165 (484)
T PRK14956         86 KGISSDVLEIDAASNRGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHKIP  165 (484)
T ss_pred             ccCCccceeechhhcccHHHHHHHHHHHHhhhhcCCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChhhcc
Confidence            000000000    00001111112111     2345679999999854  56888888877655566655444 434443


Q ss_pred             hhc-CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHH
Q 048064          229 RNC-HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLAL  283 (429)
Q Consensus       229 ~~~-~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai  283 (429)
                      ..+ +....|.+.+++.++..+.+...+......  -..+....|++.++|.+.-.
T Consensus       166 ~TI~SRCq~~~f~~ls~~~i~~~L~~i~~~Egi~--~e~eAL~~Ia~~S~Gd~RdA  219 (484)
T PRK14956        166 ETILSRCQDFIFKKVPLSVLQDYSEKLCKIENVQ--YDQEGLFWIAKKGDGSVRDM  219 (484)
T ss_pred             HHHHhhhheeeecCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCChHHHH
Confidence            332 334679999999999999988876433321  12467889999999998544

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=98.91  E-value=3.5e-08  Score=95.33  Aligned_cols=170  Identities=19%  Similarity=0.288  Sum_probs=99.5

Q ss_pred             CCCcccchhhHHHHHHHhhc---------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhh
Q 048064           88 SKNELVGVESRVEEIQSLLG---------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQK  152 (429)
Q Consensus        88 ~~~~~vGR~~~~~~l~~~l~---------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~  152 (429)
                      ....+.|++..+++|.+.+.               .++.+.|+|++|+|||++|+.+++.....|-..   . ...    
T Consensus       120 ~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~~~~~~v---~-~~~----  191 (364)
T TIGR01242       120 SYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRV---V-GSE----  191 (364)
T ss_pred             CHHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCCCCEEec---c-hHH----
Confidence            34578999999999988763               256699999999999999999999875443211   1 000    


Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCCCHHHHHHH-hcCCcEEEEecCCCCHH----------------HHHHHhccCCCC--C
Q 048064          153 AGGLAFLQQKLLSEVLKDVNVIPHIDLNFRR-LSCRKVLIVLDDVTCLN----------------QIESLVGSLDRL--L  213 (429)
Q Consensus       153 ~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~-l~~~~~LlVlDdv~~~~----------------~~~~l~~~l~~~--~  213 (429)
                            +.......      ....+..+... -...+.+|+|||++...                .+..++..+...  .
T Consensus       192 ------l~~~~~g~------~~~~i~~~f~~a~~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~~~  259 (364)
T TIGR01242       192 ------LVRKYIGE------GARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFDPR  259 (364)
T ss_pred             ------HHHHhhhH------HHHHHHHHHHHHHhcCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCCCC
Confidence                  00000000      00001112222 23457899999997531                122333222221  2


Q ss_pred             CCCEEEEEeCChhhh-----hhcCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCCh
Q 048064          214 PESRILITTRNKQVL-----RNCHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVP  280 (429)
Q Consensus       214 ~~~~iiiTtR~~~~~-----~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  280 (429)
                      .+..||.||......     ........+.++..+.++..++|..+.........   -....+++.+.|..
T Consensus       260 ~~v~vI~ttn~~~~ld~al~r~grfd~~i~v~~P~~~~r~~Il~~~~~~~~l~~~---~~~~~la~~t~g~s  328 (364)
T TIGR01242       260 GNVKVIAATNRPDILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMKLAED---VDLEAIAKMTEGAS  328 (364)
T ss_pred             CCEEEEEecCChhhCChhhcCcccCceEEEeCCcCHHHHHHHHHHHHhcCCCCcc---CCHHHHHHHcCCCC
Confidence            456677777754322     11123567899999999999999887644332211   11456777777654

Many proteins may score above the trusted cutoff because an internal

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=98.91  E-value=4.8e-08  Score=92.39  Aligned_cols=175  Identities=17%  Similarity=0.239  Sum_probs=112.6

Q ss_pred             CcccchhhHHHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhc-----CcceeEEEeechhhhhhcCCHHHHHH
Q 048064           90 NELVGVESRVEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISR-----NFKGSCFLENIREESQKAGGLAFLQQ  161 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~-----~f~~~~~~~~~~~~~~~~~~~~~~~~  161 (429)
                      .+++|-+..++.+.+.+.   -++...++|+.|+||||+|..+++.+..     .++....+......   ...... .+
T Consensus         4 ~~i~g~~~~~~~l~~~~~~~~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~---~i~v~~-ir   79 (313)
T PRK05564          4 HTIIGHENIKNRIKNSIIKNRFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKK---SIGVDD-IR   79 (313)
T ss_pred             hhccCcHHHHHHHHHHHHcCCCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCC---CCCHHH-HH
Confidence            467898999999999887   4567799999999999999999997532     22333222211110   112222 11


Q ss_pred             HHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCC--CHHHHHHHhccCCCCCCCCEEEEEeCChhh-hhh-cCCCeEE
Q 048064          162 KLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVT--CLNQIESLVGSLDRLLPESRILITTRNKQV-LRN-CHINQIY  237 (429)
Q Consensus       162 ~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~--~~~~~~~l~~~l~~~~~~~~iiiTtR~~~~-~~~-~~~~~~~  237 (429)
                      .+...+...            -..+++-++|+|+++  +....+.++..+....+++.+|++|.+.+. ++. .+....+
T Consensus        80 ~~~~~~~~~------------p~~~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~SRc~~~  147 (313)
T PRK05564         80 NIIEEVNKK------------PYEGDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKSRCQIY  147 (313)
T ss_pred             HHHHHHhcC------------cccCCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHHhhceee
Confidence            222221111            012345577788776  556788999999887788888887766543 222 2345689


Q ss_pred             EcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHH
Q 048064          238 EMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKIL  286 (429)
Q Consensus       238 ~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~  286 (429)
                      ++.+++.++...++.....  . .   ..+.+..++..++|.|.-+...
T Consensus       148 ~~~~~~~~~~~~~l~~~~~--~-~---~~~~~~~l~~~~~g~~~~a~~~  190 (313)
T PRK05564        148 KLNRLSKEEIEKFISYKYN--D-I---KEEEKKSAIAFSDGIPGKVEKF  190 (313)
T ss_pred             eCCCcCHHHHHHHHHHHhc--C-C---CHHHHHHHHHHcCCCHHHHHHH
Confidence            9999999999988876542  1 1   1344678899999998765433

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=98.91  E-value=2.4e-07  Score=91.98  Aligned_cols=188  Identities=19%  Similarity=0.194  Sum_probs=113.3

Q ss_pred             CCCCcccchhhHHHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhcCcc-------eeEEEee-chhhhhh-cC
Q 048064           87 DSKNELVGVESRVEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISRNFK-------GSCFLEN-IREESQK-AG  154 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~-------~~~~~~~-~~~~~~~-~~  154 (429)
                      ....+++|-+..++.|...+.   -.+.+.++|++|+||||+|+.+++.+-....       ..|..+. +...... ..
T Consensus        18 ~~f~dliGq~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C~~C~~C~~i~~~~h~   97 (507)
T PRK06645         18 SNFAELQGQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEQCTNCISFNNHNHP   97 (507)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCCCCChHHHHHhcCCCC
Confidence            455789999999999998776   2357999999999999999999997632110       0011100 0000000 00


Q ss_pred             CHHHHHHHHHHHHhc-CCCCCCCHHHHHHH-----hcCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEE-EeCCh
Q 048064          155 GLAFLQQKLLSEVLK-DVNVIPHIDLNFRR-----LSCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILI-TTRNK  225 (429)
Q Consensus       155 ~~~~~~~~l~~~~~~-~~~~~~~~~~l~~~-----l~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iii-TtR~~  225 (429)
                      ++..        +.. .....+.+..+.+.     +.+++-++|||+++..  ..++.|+..+....+.+.+|+ ||+..
T Consensus        98 Dv~e--------idaas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aTte~~  169 (507)
T PRK06645         98 DIIE--------IDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQ  169 (507)
T ss_pred             cEEE--------eeccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEeCChH
Confidence            0000        000 00011111112111     2345678999999864  467788877776566666555 55544


Q ss_pred             hhhhhc-CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHH
Q 048064          226 QVLRNC-HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALK  284 (429)
Q Consensus       226 ~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~  284 (429)
                      .+...+ .....+++.+++.++...++...+......  -..+.+..|++.++|.+.-+.
T Consensus       170 kI~~tI~SRc~~~ef~~ls~~el~~~L~~i~~~egi~--ie~eAL~~Ia~~s~GslR~al  227 (507)
T PRK06645        170 KIPATIISRCQRYDLRRLSFEEIFKLLEYITKQENLK--TDIEALRIIAYKSEGSARDAV  227 (507)
T ss_pred             HhhHHHHhcceEEEccCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHH
Confidence            444432 234678999999999999998887544322  124567889999999885543

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.89  E-value=8e-08  Score=95.99  Aligned_cols=175  Identities=15%  Similarity=0.187  Sum_probs=110.0

Q ss_pred             CCCCcccchhhHHHHHHHhhcC---CCEEEEEcCCCcchHHHHHHHHHHhhcC---------------------cceeEE
Q 048064           87 DSKNELVGVESRVEEIQSLLGA---APLLGIWGIGGIGKTTIARVIFNRISRN---------------------FKGSCF  142 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~~---~~~v~I~G~~GiGKTtLa~~~~~~~~~~---------------------f~~~~~  142 (429)
                      ....+++|.+..++.|...+..   .+.+.++|++|+||||+|+.+++.+...                     |...+.
T Consensus        13 ~~f~diiGq~~~v~~L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~~~~~dlie   92 (546)
T PRK14957         13 QSFAEVAGQQHALNSLVHALETQKVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINNNSFIDLIE   92 (546)
T ss_pred             CcHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhcCCCCceEE
Confidence            4457899999999999998872   3457899999999999999999875321                     111111


Q ss_pred             EeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEE
Q 048064          143 LENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILI  220 (429)
Q Consensus       143 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iii  220 (429)
                      +. ...    ..+...+ +.++..+..            .-..+++-++|+|+++..  ...+.|+..+......+.+|+
T Consensus        93 id-aas----~~gvd~i-r~ii~~~~~------------~p~~g~~kViIIDEa~~ls~~a~naLLK~LEepp~~v~fIL  154 (546)
T PRK14957         93 ID-AAS----RTGVEET-KEILDNIQY------------MPSQGRYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKFIL  154 (546)
T ss_pred             ee-ccc----ccCHHHH-HHHHHHHHh------------hhhcCCcEEEEEechhhccHHHHHHHHHHHhcCCCCceEEE
Confidence            10 000    1111111 111111100            012345679999999844  567788888876666676665


Q ss_pred             -EeCChhhhhh-cCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChH
Q 048064          221 -TTRNKQVLRN-CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPL  281 (429)
Q Consensus       221 -TtR~~~~~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PL  281 (429)
                       ||....+... ......+++.+++.++....+...+......  ...+.+..|++.++|.+.
T Consensus       155 ~Ttd~~kil~tI~SRc~~~~f~~Ls~~eI~~~L~~il~~egi~--~e~~Al~~Ia~~s~GdlR  215 (546)
T PRK14957        155 ATTDYHKIPVTILSRCIQLHLKHISQADIKDQLKIILAKENIN--SDEQSLEYIAYHAKGSLR  215 (546)
T ss_pred             EECChhhhhhhHHHheeeEEeCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHH
Confidence             4443334433 2345789999999999998888765433211  224567889999999775

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=98.88  E-value=5.2e-08  Score=98.79  Aligned_cols=191  Identities=17%  Similarity=0.152  Sum_probs=114.3

Q ss_pred             CCCCcccchhhHHHHHHHhhcCC---CEEEEEcCCCcchHHHHHHHHHHhhcCcc---eeEEEe-echhhhhh-cCCHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLGAA---PLLGIWGIGGIGKTTIARVIFNRISRNFK---GSCFLE-NIREESQK-AGGLAF  158 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~~~---~~v~I~G~~GiGKTtLa~~~~~~~~~~f~---~~~~~~-~~~~~~~~-~~~~~~  158 (429)
                      ....++||.+..++.|.+.+...   +.+.++|+.|+||||+|+.+++.+-....   ..|-.+ .+...... ..++..
T Consensus        13 ~~f~divGQe~vv~~L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~~C~~i~~g~~~D~ie   92 (647)
T PRK07994         13 QTFAEVVGQEHVLTALANALDLGRLHHAYLFSGTRGVGKTTIARLLAKGLNCETGITATPCGECDNCREIEQGRFVDLIE   92 (647)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhhhccCCCCCCCCCCHHHHHHHcCCCCCcee
Confidence            45578999999999999998733   34789999999999999999987633210   000000 00000000 000000


Q ss_pred             HHHHHHHHHhcC-CCCCCCHHHHHHH-----hcCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEeCC-hhhhh
Q 048064          159 LQQKLLSEVLKD-VNVIPHIDLNFRR-----LSCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITTRN-KQVLR  229 (429)
Q Consensus       159 ~~~~l~~~~~~~-~~~~~~~~~l~~~-----l~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTtR~-~~~~~  229 (429)
                              +... ....+.+..+...     ..++.-++|||+++..  ...+.|+..+....++.++|++|.+ ..+..
T Consensus        93 --------idaas~~~VddiR~li~~~~~~p~~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~kLl~  164 (647)
T PRK07994         93 --------IDAASRTKVEDTRELLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPV  164 (647)
T ss_pred             --------ecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCccccch
Confidence                    0000 0001111112111     2356679999999844  5778888888776667766665544 44433


Q ss_pred             h-cCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHH
Q 048064          230 N-CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILG  287 (429)
Q Consensus       230 ~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~  287 (429)
                      . .+....+++.+++.++....+...+......  ...+....|+..++|.+.-+..+.
T Consensus       165 TI~SRC~~~~f~~Ls~~ei~~~L~~il~~e~i~--~e~~aL~~Ia~~s~Gs~R~Al~ll  221 (647)
T PRK07994        165 TILSRCLQFHLKALDVEQIRQQLEHILQAEQIP--FEPRALQLLARAADGSMRDALSLT  221 (647)
T ss_pred             HHHhhheEeeCCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            3 2335789999999999999998776333221  123567889999999887554443

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

Probab=98.88  E-value=3.1e-07  Score=95.11  Aligned_cols=176  Identities=21%  Similarity=0.286  Sum_probs=103.0

Q ss_pred             CCCCcccchhhHHH---HHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHH
Q 048064           87 DSKNELVGVESRVE---EIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQ  161 (429)
Q Consensus        87 ~~~~~~vGR~~~~~---~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~  161 (429)
                      ....+|+|.+..+.   .|.+.+.  ....+.|+|++|+||||||+.+++.....|.   .+. ..     ..+...+ +
T Consensus        25 ~tldd~vGQe~ii~~~~~L~~~i~~~~~~slLL~GPpGtGKTTLA~aIA~~~~~~f~---~ln-a~-----~~~i~di-r   94 (725)
T PRK13341         25 RTLEEFVGQDHILGEGRLLRRAIKADRVGSLILYGPPGVGKTTLARIIANHTRAHFS---SLN-AV-----LAGVKDL-R   94 (725)
T ss_pred             CcHHHhcCcHHHhhhhHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHhcCcce---eeh-hh-----hhhhHHH-H
Confidence            44467899999884   4666665  5567899999999999999999987754442   111 10     0111111 1


Q ss_pred             HHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEE--EeCChh--hhhh-cCCC
Q 048064          162 KLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILI--TTRNKQ--VLRN-CHIN  234 (429)
Q Consensus       162 ~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iii--TtR~~~--~~~~-~~~~  234 (429)
                      ..+....          ... ...+++.+|||||++..  .+.+.++..+.   .+..++|  ||.+..  +... .+..
T Consensus        95 ~~i~~a~----------~~l-~~~~~~~IL~IDEIh~Ln~~qQdaLL~~lE---~g~IiLI~aTTenp~~~l~~aL~SR~  160 (725)
T PRK13341         95 AEVDRAK----------ERL-ERHGKRTILFIDEVHRFNKAQQDALLPWVE---NGTITLIGATTENPYFEVNKALVSRS  160 (725)
T ss_pred             HHHHHHH----------HHh-hhcCCceEEEEeChhhCCHHHHHHHHHHhc---CceEEEEEecCCChHhhhhhHhhccc
Confidence            1111100          000 01235679999999744  45566665443   3444555  334331  1111 1234


Q ss_pred             eEEEcCCCCHHHHHHHHHHhhhcC-----CCCChhHHHHHHHHHHHhCCChHHHHHH
Q 048064          235 QIYEMKGLGDDHALELFIRHAFRQ-----NLVDVDYKELSDKVINYAQGVPLALKIL  286 (429)
Q Consensus       235 ~~~~l~~L~~~ea~~L~~~~~~~~-----~~~~~~~~~~~~~i~~~~~G~PLai~~~  286 (429)
                      ..+.+++++.++...++.+.+...     .....-..+....|++.+.|+.--+..+
T Consensus       161 ~v~~l~pLs~edi~~IL~~~l~~~~~~~g~~~v~I~deaL~~La~~s~GD~R~lln~  217 (725)
T PRK13341        161 RLFRLKSLSDEDLHQLLKRALQDKERGYGDRKVDLEPEAEKHLVDVANGDARSLLNA  217 (725)
T ss_pred             cceecCCCCHHHHHHHHHHHHHHHHhhcCCcccCCCHHHHHHHHHhCCCCHHHHHHH
Confidence            578999999999999998765310     1111123567788999999986544443

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=98.88  E-value=1.4e-07  Score=89.75  Aligned_cols=189  Identities=15%  Similarity=0.150  Sum_probs=114.3

Q ss_pred             CCCCcccchhhHHHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhcC----cceeEEEeechhhhhhcCCHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISRN----FKGSCFLENIREESQKAGGLAFL  159 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~----f~~~~~~~~~~~~~~~~~~~~~~  159 (429)
                      .....++|-+...+.|...+.   .++.+.|+|+.|+||||+|..+++.+...    +.........        +.-..
T Consensus        20 ~~~~~l~Gh~~a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~~~~~~~--------~~c~~   91 (351)
T PRK09112         20 SENTRLFGHEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPETLADPD--------PASPV   91 (351)
T ss_pred             CchhhccCcHHHHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCccccCCCC--------CCCHH
Confidence            566789999999999999988   34469999999999999999999987442    1100000000        00001


Q ss_pred             HHHHHHH-------Hhc---CC----CCCCCHHH---HHHHh-----cCCcEEEEecCCCCH--HHHHHHhccCCCCCCC
Q 048064          160 QQKLLSE-------VLK---DV----NVIPHIDL---NFRRL-----SCRKVLIVLDDVTCL--NQIESLVGSLDRLLPE  215 (429)
Q Consensus       160 ~~~l~~~-------~~~---~~----~~~~~~~~---l~~~l-----~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~  215 (429)
                      .+.+...       +..   ..    ...-.++.   +.+.+     .++.-++|||+++..  ...+.++..+.....+
T Consensus        92 c~~i~~~~hPdl~~l~~~~~~~~~~~~~~I~vd~iR~l~~~l~~~~~~g~~rVviIDeAd~l~~~aanaLLk~LEEpp~~  171 (351)
T PRK09112         92 WRQIAQGAHPNLLHITRPFDEKTGKFKTAITVDEIRRVGHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLEEPPAR  171 (351)
T ss_pred             HHHHHcCCCCCEEEeecccccccccccccCCHHHHHHHHHHhhhccccCCceEEEEEchhhcCHHHHHHHHHHHhcCCCC
Confidence            1111111       000   00    00011222   33333     245679999999844  4667777777765555


Q ss_pred             CEEEEEe-CChhhhhhc-CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHH
Q 048064          216 SRILITT-RNKQVLRNC-HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILG  287 (429)
Q Consensus       216 ~~iiiTt-R~~~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~  287 (429)
                      ..+|++| +...+++.+ +....+++.+++.++..+++........    -..+.+..+++.++|.|.....+.
T Consensus       172 ~~fiLit~~~~~llptIrSRc~~i~l~pl~~~~~~~~L~~~~~~~~----~~~~~~~~i~~~s~G~pr~Al~ll  241 (351)
T PRK09112        172 ALFILISHSSGRLLPTIRSRCQPISLKPLDDDELKKALSHLGSSQG----SDGEITEALLQRSKGSVRKALLLL  241 (351)
T ss_pred             ceEEEEECChhhccHHHHhhccEEEecCCCHHHHHHHHHHhhcccC----CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            5555544 433333332 2346899999999999999987432111    113457789999999998665443

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

Probab=98.87  E-value=8.8e-08  Score=85.38  Aligned_cols=163  Identities=15%  Similarity=0.179  Sum_probs=95.5

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcCcc-eeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCC
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRNFK-GSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCR  187 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~-~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~  187 (429)
                      ...+.|+|+.|+|||+|.+++++.+.+..+ ..+.+.+.          ..+...+...+..     .....+...+.+-
T Consensus        34 ~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~----------~~f~~~~~~~~~~-----~~~~~~~~~~~~~   98 (219)
T PF00308_consen   34 YNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSA----------EEFIREFADALRD-----GEIEEFKDRLRSA   98 (219)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEH----------HHHHHHHHHHHHT-----TSHHHHHHHHCTS
T ss_pred             CCceEEECCCCCCHHHHHHHHHHHHHhccccccceeecH----------HHHHHHHHHHHHc-----ccchhhhhhhhcC
Confidence            356899999999999999999998876443 23333222          2222233332222     2334455556533


Q ss_pred             cEEEEecCCCCHH---HH-HHHhccCCC-CCCCCEEEEEeCCh---------hhhhhcCCCeEEEcCCCCHHHHHHHHHH
Q 048064          188 KVLIVLDDVTCLN---QI-ESLVGSLDR-LLPESRILITTRNK---------QVLRNCHINQIYEMKGLGDDHALELFIR  253 (429)
Q Consensus       188 ~~LlVlDdv~~~~---~~-~~l~~~l~~-~~~~~~iiiTtR~~---------~~~~~~~~~~~~~l~~L~~~ea~~L~~~  253 (429)
                       =+|+|||++...   .+ +.+...+.. ...|.++|+|+...         .+...+...-.+++.+++.++..+++.+
T Consensus        99 -DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~~P~~l~~~~~~L~SRl~~Gl~~~l~~pd~~~r~~il~~  177 (219)
T PF00308_consen   99 -DLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDRPPSELSGLLPDLRSRLSWGLVVELQPPDDEDRRRILQK  177 (219)
T ss_dssp             -SEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS-TTTTTTS-HHHHHHHHCSEEEEE----HHHHHHHHHH
T ss_pred             -CEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCCCCccccccChhhhhhHhhcchhhcCCCCHHHHHHHHHH
Confidence             388999997442   22 222222221 13577899999543         2223334567899999999999999998


Q ss_pred             hhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHHHh
Q 048064          254 HAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCY  289 (429)
Q Consensus       254 ~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~~~  289 (429)
                      .+......  -..+++.-|++.+.+..-.|..+-..
T Consensus       178 ~a~~~~~~--l~~~v~~~l~~~~~~~~r~L~~~l~~  211 (219)
T PF00308_consen  178 KAKERGIE--LPEEVIEYLARRFRRDVRELEGALNR  211 (219)
T ss_dssp             HHHHTT----S-HHHHHHHHHHTTSSHHHHHHHHHH
T ss_pred             HHHHhCCC--CcHHHHHHHHHhhcCCHHHHHHHHHH
Confidence            87544322  23467777888888777766555443

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.

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.87  E-value=1.9e-07  Score=93.29  Aligned_cols=180  Identities=16%  Similarity=0.165  Sum_probs=113.1

Q ss_pred             CCCCcccchhhHHHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhcC---------------------cceeEE
Q 048064           87 DSKNELVGVESRVEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISRN---------------------FKGSCF  142 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~---------------------f~~~~~  142 (429)
                      ....++||-+..++.|.+++.   -.+.+.++|++|+||||+|+.+++.+-..                     ++..+.
T Consensus        13 ~~f~divGq~~v~~~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~g~~~d~~e   92 (509)
T PRK14958         13 RCFQEVIGQAPVVRALSNALDQQYLHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENCREIDEGRFPDLFE   92 (509)
T ss_pred             CCHHHhcCCHHHHHHHHHHHHhCCCCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHHHHhcCCCceEEE
Confidence            445789999999999999997   34557899999999999999999975321                     111111


Q ss_pred             EeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEE
Q 048064          143 LENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILI  220 (429)
Q Consensus       143 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iii  220 (429)
                      +....     ...+..+ +.++..+...            -..++.-++|||+++..  ...+.++..+....+.+.+|+
T Consensus        93 idaas-----~~~v~~i-R~l~~~~~~~------------p~~~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~fIl  154 (509)
T PRK14958         93 VDAAS-----RTKVEDT-RELLDNIPYA------------PTKGRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFIL  154 (509)
T ss_pred             Ecccc-----cCCHHHH-HHHHHHHhhc------------cccCCcEEEEEEChHhcCHHHHHHHHHHHhccCCCeEEEE
Confidence            11000     1112211 1222211110            01245568999999854  567788888777667777776


Q ss_pred             EeCCh-hhhhhc-CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHH
Q 048064          221 TTRNK-QVLRNC-HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKIL  286 (429)
Q Consensus       221 TtR~~-~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~  286 (429)
                      +|.+. .+...+ +....+++.+++.++....+...+-......  ..+.+..|++.++|.+.-+..+
T Consensus       155 attd~~kl~~tI~SRc~~~~f~~l~~~~i~~~l~~il~~egi~~--~~~al~~ia~~s~GslR~al~l  220 (509)
T PRK14958        155 ATTDHHKLPVTVLSRCLQFHLAQLPPLQIAAHCQHLLKEENVEF--ENAALDLLARAANGSVRDALSL  220 (509)
T ss_pred             EECChHhchHHHHHHhhhhhcCCCCHHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHcCCcHHHHHHH
Confidence            55443 333222 2345688999999998888777664333221  2356778999999988655443

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=98.86  E-value=1.5e-07  Score=95.31  Aligned_cols=191  Identities=16%  Similarity=0.164  Sum_probs=112.3

Q ss_pred             CCCCcccchhhHHHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhcCcce---eEEEe-echhhhhh-cCCHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISRNFKG---SCFLE-NIREESQK-AGGLAF  158 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~---~~~~~-~~~~~~~~-~~~~~~  158 (429)
                      ....+++|.+..++.|.+++.   -.+.+.++|++|+||||+|+.+++.+-.....   .|-.+ .+...... ..++. 
T Consensus        13 ~tFddIIGQe~vv~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~~~pCg~C~sCr~i~~g~~~Dvl-   91 (709)
T PRK08691         13 KTFADLVGQEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSLNCENAQHGEPCGVCQSCTQIDAGRYVDLL-   91 (709)
T ss_pred             CCHHHHcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcccCCCCCCCCcccHHHHHHhccCccceE-
Confidence            445789999999999999987   24568999999999999999999875321100   00000 00000000 00000 


Q ss_pred             HHHHHHHHHh-cCCCCCCCHHHHHHH-----hcCCcEEEEecCCCCHH--HHHHHhccCCCCCCCCEEEEEeCCh-hhhh
Q 048064          159 LQQKLLSEVL-KDVNVIPHIDLNFRR-----LSCRKVLIVLDDVTCLN--QIESLVGSLDRLLPESRILITTRNK-QVLR  229 (429)
Q Consensus       159 ~~~~l~~~~~-~~~~~~~~~~~l~~~-----l~~~~~LlVlDdv~~~~--~~~~l~~~l~~~~~~~~iiiTtR~~-~~~~  229 (429)
                             .+. ......+.+..+...     ..+++-++|||+++...  ....|+..+......+.+|++|.+. .+..
T Consensus        92 -------EidaAs~~gVd~IRelle~a~~~P~~gk~KVIIIDEad~Ls~~A~NALLKtLEEPp~~v~fILaTtd~~kL~~  164 (709)
T PRK08691         92 -------EIDAASNTGIDNIREVLENAQYAPTAGKYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPHKVPV  164 (709)
T ss_pred             -------EEeccccCCHHHHHHHHHHHHhhhhhCCcEEEEEECccccCHHHHHHHHHHHHhCCCCcEEEEEeCCccccch
Confidence                   000 000001111111111     12456699999998554  4666777776555667777766544 2222


Q ss_pred             h-cCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHH
Q 048064          230 N-CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILG  287 (429)
Q Consensus       230 ~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~  287 (429)
                      . .+....+++.+++.++....+.+.+-.....  -..+.+..|++.++|.+.-+..+.
T Consensus       165 TIrSRC~~f~f~~Ls~eeI~~~L~~Il~kEgi~--id~eAL~~Ia~~A~GslRdAlnLL  221 (709)
T PRK08691        165 TVLSRCLQFVLRNMTAQQVADHLAHVLDSEKIA--YEPPALQLLGRAAAGSMRDALSLL  221 (709)
T ss_pred             HHHHHHhhhhcCCCCHHHHHHHHHHHHHHcCCC--cCHHHHHHHHHHhCCCHHHHHHHH
Confidence            2 1233567889999999999998877443322  124568899999999996554443

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.86  E-value=4.3e-07  Score=92.03  Aligned_cols=190  Identities=16%  Similarity=0.168  Sum_probs=113.0

Q ss_pred             CCCCcccchhhHHHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhcCcc---eeEEEeechhhhhhcCCHHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISRNFK---GSCFLENIREESQKAGGLAFLQ  160 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~---~~~~~~~~~~~~~~~~~~~~~~  160 (429)
                      ....++||-+..++.|.+++.   -.+.+.++|+.|+||||+|+.+++.+-..-+   ...-...++..        ...
T Consensus        13 ~~f~dviGQe~vv~~L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~~pCg~C--------~~C   84 (618)
T PRK14951         13 RSFSEMVGQEHVVQALTNALTQQRLHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITATPCGVC--------QAC   84 (618)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCCCCCCcc--------HHH
Confidence            445789999999999999987   3456799999999999999999887532100   00000000000        000


Q ss_pred             HHHHHHHh-----cCCCCCCCHHH---HHHHh-----cCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEeCC-
Q 048064          161 QKLLSEVL-----KDVNVIPHIDL---NFRRL-----SCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITTRN-  224 (429)
Q Consensus       161 ~~l~~~~~-----~~~~~~~~~~~---l~~~l-----~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTtR~-  224 (429)
                      +.+.....     ........++.   +.+..     .++.-++|||+++..  ...+.++..+........+|++|.+ 
T Consensus        85 ~~i~~g~h~D~~eldaas~~~Vd~iReli~~~~~~p~~g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~Ttd~  164 (618)
T PRK14951         85 RDIDSGRFVDYTELDAASNRGVDEVQQLLEQAVYKPVQGRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTDP  164 (618)
T ss_pred             HHHHcCCCCceeecCcccccCHHHHHHHHHHHHhCcccCCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEECCc
Confidence            00000000     00000011222   22221     234458999999854  5677888888776666676665543 


Q ss_pred             hhhhhh-cCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHH
Q 048064          225 KQVLRN-CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKIL  286 (429)
Q Consensus       225 ~~~~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~  286 (429)
                      ..+... ......+++.+++.++....+.+.+...+..-  ..+.+..|++.++|.+.-+..+
T Consensus       165 ~kil~TIlSRc~~~~f~~Ls~eei~~~L~~i~~~egi~i--e~~AL~~La~~s~GslR~al~l  225 (618)
T PRK14951        165 QKVPVTVLSRCLQFNLRPMAPETVLEHLTQVLAAENVPA--EPQALRLLARAARGSMRDALSL  225 (618)
T ss_pred             hhhhHHHHHhceeeecCCCCHHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHcCCCHHHHHHH
Confidence            333322 23457899999999999999988764433221  2456788999999988655443

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=98.86  E-value=2.3e-07  Score=89.59  Aligned_cols=182  Identities=16%  Similarity=0.179  Sum_probs=113.4

Q ss_pred             CCCCcccchhhHHHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhcC----c-----------------ceeEE
Q 048064           87 DSKNELVGVESRVEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISRN----F-----------------KGSCF  142 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~----f-----------------~~~~~  142 (429)
                      ..-..++|.+..++.|.+.+.   -.+.+.++|++|+||||+|+.++..+...    +                 .....
T Consensus        11 ~~~~~iig~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~~~~~   90 (355)
T TIGR02397        11 QTFEDVIGQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEINSGSSLDVIE   90 (355)
T ss_pred             CcHhhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCCEEE
Confidence            445688999999999999887   23567899999999999999999876422    1                 01111


Q ss_pred             EeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEE
Q 048064          143 LENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILI  220 (429)
Q Consensus       143 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iii  220 (429)
                      +... .    ..... ..+.+...+...            -..+++-++|+|+++..  .....++..+....+.+.+|+
T Consensus        91 ~~~~-~----~~~~~-~~~~l~~~~~~~------------p~~~~~~vviidea~~l~~~~~~~Ll~~le~~~~~~~lIl  152 (355)
T TIGR02397        91 IDAA-S----NNGVD-DIREILDNVKYA------------PSSGKYKVYIIDEVHMLSKSAFNALLKTLEEPPEHVVFIL  152 (355)
T ss_pred             eecc-c----cCCHH-HHHHHHHHHhcC------------cccCCceEEEEeChhhcCHHHHHHHHHHHhCCccceeEEE
Confidence            1100 0    00111 011121111100            01234558999999755  456777777765556666666


Q ss_pred             EeCChh-hhhhc-CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHHH
Q 048064          221 TTRNKQ-VLRNC-HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGC  288 (429)
Q Consensus       221 TtR~~~-~~~~~-~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~~  288 (429)
                      +|.+.. +...+ .....+++.+++.++..+++...+-.....  -..+.+..+++.++|.|..+.....
T Consensus       153 ~~~~~~~l~~~l~sr~~~~~~~~~~~~~l~~~l~~~~~~~g~~--i~~~a~~~l~~~~~g~~~~a~~~le  220 (355)
T TIGR02397       153 ATTEPHKIPATILSRCQRFDFKRIPLEDIVERLKKILDKEGIK--IEDEALELIARAADGSLRDALSLLD  220 (355)
T ss_pred             EeCCHHHHHHHHHhheeEEEcCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCChHHHHHHHH
Confidence            665543 33222 234578899999999999998876443321  1246788899999999977655443

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.

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.85  E-value=8.4e-07  Score=87.79  Aligned_cols=182  Identities=20%  Similarity=0.230  Sum_probs=109.5

Q ss_pred             CCCCcccchhhHHHHHHHhhcC---CCEEEEEcCCCcchHHHHHHHHHHhhcCc---------------------ceeEE
Q 048064           87 DSKNELVGVESRVEEIQSLLGA---APLLGIWGIGGIGKTTIARVIFNRISRNF---------------------KGSCF  142 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~~---~~~v~I~G~~GiGKTtLa~~~~~~~~~~f---------------------~~~~~  142 (429)
                      ..-.+++|.+...+.|...+..   ++.+.++|++|+||||+|+.+++.+...-                     .....
T Consensus        11 ~~~~divGq~~i~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i~~g~~~dv~e   90 (472)
T PRK14962         11 KTFSEVVGQDHVKKLIINALKKNSISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSIDEGTFMDVIE   90 (472)
T ss_pred             CCHHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHHhcCCCCccEE
Confidence            4457899999999999888872   34579999999999999999998753210                     00111


Q ss_pred             EeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEE
Q 048064          143 LENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILI  220 (429)
Q Consensus       143 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iii  220 (429)
                      +. ...    ..+...+ +.+......            .-..+++-++|+|+++..  ...+.++..+....+...+|+
T Consensus        91 l~-aa~----~~gid~i-R~i~~~~~~------------~p~~~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~~vv~Il  152 (472)
T PRK14962         91 LD-AAS----NRGIDEI-RKIRDAVGY------------RPMEGKYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVFVL  152 (472)
T ss_pred             Ee-Ccc----cCCHHHH-HHHHHHHhh------------ChhcCCeEEEEEEChHHhHHHHHHHHHHHHHhCCCcEEEEE
Confidence            11 000    1111111 111111100            002245679999999855  356677777665444555554


Q ss_pred             EeCC-hhhhhh-cCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCC-hHHHHHHHH
Q 048064          221 TTRN-KQVLRN-CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGV-PLALKILGC  288 (429)
Q Consensus       221 TtR~-~~~~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~-PLai~~~~~  288 (429)
                      +|.+ ..+... ......+++.+++.++....+...+......  -..+.+..|++.++|. +.++..+-.
T Consensus       153 attn~~kl~~~L~SR~~vv~f~~l~~~el~~~L~~i~~~egi~--i~~eal~~Ia~~s~GdlR~aln~Le~  221 (472)
T PRK14962        153 ATTNLEKVPPTIISRCQVIEFRNISDELIIKRLQEVAEAEGIE--IDREALSFIAKRASGGLRDALTMLEQ  221 (472)
T ss_pred             EeCChHhhhHHHhcCcEEEEECCccHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            4444 333322 2345688999999999999998876443321  1245678899888765 556555544

>PRK09087 hypothetical protein; Validated

Probab=98.85  E-value=1.8e-07  Score=83.77  Aligned_cols=145  Identities=11%  Similarity=0.110  Sum_probs=89.4

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCR  187 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~  187 (429)
                      ..+.+.|+|++|+|||+|++.++....     ..++. ..          .+...+...                 +.+ 
T Consensus        43 ~~~~l~l~G~~GsGKThLl~~~~~~~~-----~~~i~-~~----------~~~~~~~~~-----------------~~~-   88 (226)
T PRK09087         43 PSPVVVLAGPVGSGKTHLASIWREKSD-----ALLIH-PN----------EIGSDAANA-----------------AAE-   88 (226)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHhcC-----CEEec-HH----------HcchHHHHh-----------------hhc-
Confidence            456799999999999999999887642     22332 10          111111111                 111 


Q ss_pred             cEEEEecCCCCHH-HHHHHhccCCC-CCCCCEEEEEeCCh---------hhhhhcCCCeEEEcCCCCHHHHHHHHHHhhh
Q 048064          188 KVLIVLDDVTCLN-QIESLVGSLDR-LLPESRILITTRNK---------QVLRNCHINQIYEMKGLGDDHALELFIRHAF  256 (429)
Q Consensus       188 ~~LlVlDdv~~~~-~~~~l~~~l~~-~~~~~~iiiTtR~~---------~~~~~~~~~~~~~l~~L~~~ea~~L~~~~~~  256 (429)
                       -+|+|||++... .-+.+...+.. ...|..+|+|++..         .+...+....++++++++.++-.+++.+.+-
T Consensus        89 -~~l~iDDi~~~~~~~~~lf~l~n~~~~~g~~ilits~~~p~~~~~~~~dL~SRl~~gl~~~l~~pd~e~~~~iL~~~~~  167 (226)
T PRK09087         89 -GPVLIEDIDAGGFDETGLFHLINSVRQAGTSLLMTSRLWPSSWNVKLPDLKSRLKAATVVEIGEPDDALLSQVIFKLFA  167 (226)
T ss_pred             -CeEEEECCCCCCCCHHHHHHHHHHHHhCCCeEEEECCCChHHhccccccHHHHHhCCceeecCCCCHHHHHHHHHHHHH
Confidence             278889996431 11223222221 13467789888742         3344445567899999999999999998874


Q ss_pred             cCCCCChhHHHHHHHHHHHhCCChHHHHHHHHh
Q 048064          257 RQNLVDVDYKELSDKVINYAQGVPLALKILGCY  289 (429)
Q Consensus       257 ~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~~~  289 (429)
                      .....  -.+++..-|++.+.|..-.+..+...
T Consensus       168 ~~~~~--l~~ev~~~La~~~~r~~~~l~~~l~~  198 (226)
T PRK09087        168 DRQLY--VDPHVVYYLVSRMERSLFAAQTIVDR  198 (226)
T ss_pred             HcCCC--CCHHHHHHHHHHhhhhHHHHHHHHHH
Confidence            43211  22567888899998888777654433

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

Probab=98.84  E-value=3.3e-07  Score=81.61  Aligned_cols=257  Identities=18%  Similarity=0.222  Sum_probs=149.4

Q ss_pred             CCCCcccchhhHHHHHHHhhc-------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG-------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFL  159 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~-------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~  159 (429)
                      ..-.+|+|.++..++|.-++.       ..-.+.++||+|.||||||.-+++.+..++.    +... ..          
T Consensus        23 ~~l~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~Emgvn~k----~tsG-p~----------   87 (332)
T COG2255          23 KTLDEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANELGVNLK----ITSG-PA----------   87 (332)
T ss_pred             ccHHHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHHhcCCeE----eccc-cc----------
Confidence            445789999999988887775       4567999999999999999999998865432    1100 00          


Q ss_pred             HHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCHH-HHHHHh-ccCCCC--------CCCCE-----------E
Q 048064          160 QQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLN-QIESLV-GSLDRL--------LPESR-----------I  218 (429)
Q Consensus       160 ~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~-~~~~l~-~~l~~~--------~~~~~-----------i  218 (429)
                                 .....++..+...+. ..=+|++|+++... ..++++ +...++        +++++           |
T Consensus        88 -----------leK~gDlaaiLt~Le-~~DVLFIDEIHrl~~~vEE~LYpaMEDf~lDI~IG~gp~Arsv~ldLppFTLI  155 (332)
T COG2255          88 -----------LEKPGDLAAILTNLE-EGDVLFIDEIHRLSPAVEEVLYPAMEDFRLDIIIGKGPAARSIRLDLPPFTLI  155 (332)
T ss_pred             -----------ccChhhHHHHHhcCC-cCCeEEEehhhhcChhHHHHhhhhhhheeEEEEEccCCccceEeccCCCeeEe
Confidence                       000111111222233 23477889998553 222222 211111        23333           3


Q ss_pred             EEEeCChhhhhhcC--CCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHHHhhcCCCHH
Q 048064          219 LITTRNKQVLRNCH--INQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYLFERKKE  296 (429)
Q Consensus       219 iiTtR~~~~~~~~~--~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~~~l~~~~~~  296 (429)
                      =.|||...+...+.  ..-+.+++-.+.+|-.+++.+.+..-. .. -..+.+.+|++++.|-|.-..-+-+..+.    
T Consensus       156 GATTr~G~lt~PLrdRFGi~~rlefY~~~eL~~Iv~r~a~~l~-i~-i~~~~a~eIA~rSRGTPRIAnRLLrRVRD----  229 (332)
T COG2255         156 GATTRAGMLTNPLRDRFGIIQRLEFYTVEELEEIVKRSAKILG-IE-IDEEAALEIARRSRGTPRIANRLLRRVRD----  229 (332)
T ss_pred             eeccccccccchhHHhcCCeeeeecCCHHHHHHHHHHHHHHhC-CC-CChHHHHHHHHhccCCcHHHHHHHHHHHH----
Confidence            34888764433321  244678999999999999988762211 11 22467889999999999765544444322    


Q ss_pred             HHHHHHHHHhhCCCc----cHHHHHHHhhhcCChhhHHHHhhhhccc--CCcCHHHHHHHHHHcCCChhhhHH-HHHHcC
Q 048064          297 VWENAIKKLKNFLHQ----NILDVLKISYDDLDNDEKNIFLDVACFF--KGEDIYLVKKFFEASGFYPEIGIS-ILVDKA  369 (429)
Q Consensus       297 ~~~~~l~~l~~~~~~----~i~~~l~~s~~~L~~~~~~~l~~la~f~--~~~~~~~l~~~~~~~~~~~~~~l~-~L~~~s  369 (429)
                       +..+...  ...+.    .....|..-=..|+.-.++.|..+.-.+  .++..+.+...++.+....++.++ -|++.|
T Consensus       230 -fa~V~~~--~~I~~~ia~~aL~~L~Vd~~GLd~~D~k~L~~li~~f~GgPVGl~tia~~lge~~~TiEdv~EPyLiq~g  306 (332)
T COG2255         230 -FAQVKGD--GDIDRDIADKALKMLDVDELGLDEIDRKYLRALIEQFGGGPVGLDTIAAALGEDRDTIEDVIEPYLIQQG  306 (332)
T ss_pred             -HHHHhcC--CcccHHHHHHHHHHhCcccccccHHHHHHHHHHHHHhCCCCccHHHHHHHhcCchhHHHHHHhHHHHHhc
Confidence             1000000  00011    1112222222356666666666665544  457778777776554433444443 589999


Q ss_pred             ceeEccCCeE
Q 048064          370 LIAINSYNKI  379 (429)
Q Consensus       370 Li~~~~~~~~  379 (429)
                      +++....|+.
T Consensus       307 fi~RTpRGR~  316 (332)
T COG2255         307 FIQRTPRGRI  316 (332)
T ss_pred             hhhhCCCcce
Confidence            9999888874

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=98.81  E-value=4.5e-07  Score=95.11  Aligned_cols=188  Identities=13%  Similarity=0.099  Sum_probs=111.9

Q ss_pred             CCCCcccchhhHHHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhcCcc---eeEEEe-echhhhhh---cCCH
Q 048064           87 DSKNELVGVESRVEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISRNFK---GSCFLE-NIREESQK---AGGL  156 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~---~~~~~~-~~~~~~~~---~~~~  156 (429)
                      ....++||.+..++.|..++.   -.+.+.++|+.|+||||+|+.+++.+.....   ..|-.+ .+......   ..++
T Consensus        12 ~~f~eiiGqe~v~~~L~~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~pCg~C~sC~~~~~g~~~~~dv   91 (824)
T PRK07764         12 ATFAEVIGQEHVTEPLSTALDSGRINHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGECDSCVALAPGGPGSLDV   91 (824)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCcccHHHHHHHcCCCCCCcE
Confidence            445689999999999999987   3456889999999999999999997632100   000000 00000000   0000


Q ss_pred             HHHHHHHHHHHhc-CCCCCCCHHHHHHH-----hcCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEeC-Chhh
Q 048064          157 AFLQQKLLSEVLK-DVNVIPHIDLNFRR-----LSCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITTR-NKQV  227 (429)
Q Consensus       157 ~~~~~~l~~~~~~-~~~~~~~~~~l~~~-----l~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTtR-~~~~  227 (429)
                      ..        +.. ....++.+..+.+.     ..++.-++|||+++..  ...+.|+..+......+.+|++|. ...+
T Consensus        92 ~e--------idaas~~~Vd~iR~l~~~~~~~p~~~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~fIl~tt~~~kL  163 (824)
T PRK07764         92 TE--------IDAASHGGVDDARELRERAFFAPAESRYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKFIFATTEPDKV  163 (824)
T ss_pred             EE--------ecccccCCHHHHHHHHHHHHhchhcCCceEEEEechhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhhh
Confidence            00        000 00001111112111     2345568999999855  567788888877667777665554 3444


Q ss_pred             hhhc-CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHH
Q 048064          228 LRNC-HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALK  284 (429)
Q Consensus       228 ~~~~-~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~  284 (429)
                      ...+ .....|++.+++.++...++.+.+-.....  -..+.+..|++.++|.+..+.
T Consensus       164 l~TIrSRc~~v~F~~l~~~~l~~~L~~il~~EGv~--id~eal~lLa~~sgGdlR~Al  219 (824)
T PRK07764        164 IGTIRSRTHHYPFRLVPPEVMRGYLERICAQEGVP--VEPGVLPLVIRAGGGSVRDSL  219 (824)
T ss_pred             hHHHHhheeEEEeeCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHH
Confidence            4432 345789999999999999988765333321  123557789999999885443

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=98.80  E-value=2.3e-07  Score=89.56  Aligned_cols=168  Identities=18%  Similarity=0.199  Sum_probs=106.5

Q ss_pred             CcccchhhHHHHHHHhhcC------------CCEEEEEcCCCcchHHHHHHHHHHhhcCc--------------------
Q 048064           90 NELVGVESRVEEIQSLLGA------------APLLGIWGIGGIGKTTIARVIFNRISRNF--------------------  137 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~~------------~~~v~I~G~~GiGKTtLa~~~~~~~~~~f--------------------  137 (429)
                      .+++|.+..++.|.+.+..            .+.+.++|++|+|||++|..++..+-...                    
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            5688999999988888862            34588999999999999999998653221                    


Q ss_pred             ceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHh-----cCCcEEEEecCCCCH--HHHHHHhccCC
Q 048064          138 KGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRL-----SCRKVLIVLDDVTCL--NQIESLVGSLD  210 (429)
Q Consensus       138 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~~~~l~~~l~  210 (429)
                      +...++.. ...   .....                  .+..+.+.+     .+++-++|||+++..  ...+.|+..+.
T Consensus        85 pD~~~i~~-~~~---~i~i~------------------~iR~l~~~~~~~p~~~~~kViiIDead~m~~~aanaLLk~LE  142 (394)
T PRK07940         85 PDVRVVAP-EGL---SIGVD------------------EVRELVTIAARRPSTGRWRIVVIEDADRLTERAANALLKAVE  142 (394)
T ss_pred             CCEEEecc-ccc---cCCHH------------------HHHHHHHHHHhCcccCCcEEEEEechhhcCHHHHHHHHHHhh
Confidence            11111110 000   01111                  111122222     234558889999844  45567777777


Q ss_pred             CCCCCCEEEEEeCCh-hhhhhc-CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHH
Q 048064          211 RLLPESRILITTRNK-QVLRNC-HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKIL  286 (429)
Q Consensus       211 ~~~~~~~iiiTtR~~-~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~  286 (429)
                      ...++..+|++|.+. .+.+.+ +....+.+.+++.++..+++.....    .+   .+.+..++..++|.|.....+
T Consensus       143 ep~~~~~fIL~a~~~~~llpTIrSRc~~i~f~~~~~~~i~~~L~~~~~----~~---~~~a~~la~~s~G~~~~A~~l  213 (394)
T PRK07940        143 EPPPRTVWLLCAPSPEDVLPTIRSRCRHVALRTPSVEAVAEVLVRRDG----VD---PETARRAARASQGHIGRARRL  213 (394)
T ss_pred             cCCCCCeEEEEECChHHChHHHHhhCeEEECCCCCHHHHHHHHHHhcC----CC---HHHHHHHHHHcCCCHHHHHHH
Confidence            666677666666554 344332 3457899999999999998875421    11   345778899999999755443

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.79  E-value=6.3e-07  Score=90.49  Aligned_cols=189  Identities=18%  Similarity=0.173  Sum_probs=110.3

Q ss_pred             CCCCcccchhhHHHHHHHhhcC---CCEEEEEcCCCcchHHHHHHHHHHhhcCc-c--eeEEEe-echhhhhhcCCHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLGA---APLLGIWGIGGIGKTTIARVIFNRISRNF-K--GSCFLE-NIREESQKAGGLAFL  159 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~~---~~~v~I~G~~GiGKTtLa~~~~~~~~~~f-~--~~~~~~-~~~~~~~~~~~~~~~  159 (429)
                      ....+++|.+..++.|.+++..   .+.+.++|+.|+||||+|+.+++.+.... +  ..|-.+ .+........+...+
T Consensus        10 ~~f~eivGq~~i~~~L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~~~~~~~dv   89 (584)
T PRK14952         10 ATFAEVVGQEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARILARSLNCAQGPTATPCGVCESCVALAPNGPGSIDV   89 (584)
T ss_pred             CcHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCcccccHHHHHhhcccCCCceE
Confidence            4457899999999999999872   34578999999999999999998764211 0  000000 000000000000000


Q ss_pred             HHHHHHHHhc-CCCCCCCHHHHHHHh-----cCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEe-CChhhhhh
Q 048064          160 QQKLLSEVLK-DVNVIPHIDLNFRRL-----SCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITT-RNKQVLRN  230 (429)
Q Consensus       160 ~~~l~~~~~~-~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTt-R~~~~~~~  230 (429)
                          . .+.. .....+.+..+...+     .++.-++|||+++..  ...+.|+..+........+|++| ....+...
T Consensus        90 ----i-eidaas~~gvd~iRel~~~~~~~P~~~~~KVvIIDEah~Lt~~A~NALLK~LEEpp~~~~fIL~tte~~kll~T  164 (584)
T PRK14952         90 ----V-ELDAASHGGVDDTRELRDRAFYAPAQSRYRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATTEPEKVLPT  164 (584)
T ss_pred             ----E-EeccccccCHHHHHHHHHHHHhhhhcCCceEEEEECCCcCCHHHHHHHHHHHhcCCCCeEEEEEeCChHhhHHH
Confidence                0 0000 000111111121111     245569999999844  56778888887766666666544 44444433


Q ss_pred             -cCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHH
Q 048064          231 -CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLA  282 (429)
Q Consensus       231 -~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLa  282 (429)
                       .+....+++.+++.++..+++...+......  -..+.+..|++.++|.+..
T Consensus       165 I~SRc~~~~F~~l~~~~i~~~L~~i~~~egi~--i~~~al~~Ia~~s~GdlR~  215 (584)
T PRK14952        165 IRSRTHHYPFRLLPPRTMRALIARICEQEGVV--VDDAVYPLVIRAGGGSPRD  215 (584)
T ss_pred             HHHhceEEEeeCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHH
Confidence             2345789999999999999988766443321  1235677889999998853

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=98.78  E-value=2.3e-07  Score=91.50  Aligned_cols=166  Identities=17%  Similarity=0.220  Sum_probs=100.1

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhhcCcc-e-eEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCC
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRISRNFK-G-SCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCR  187 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~-~-~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~  187 (429)
                      ..+.|+|+.|+|||+|++.+++.+....+ . ++++. .          ..+...+...+....   .....+...+++ 
T Consensus       142 npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~-~----------~~f~~~~~~~l~~~~---~~~~~~~~~~~~-  206 (450)
T PRK14087        142 NPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMS-G----------DEFARKAVDILQKTH---KEIEQFKNEICQ-  206 (450)
T ss_pred             CceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEE-H----------HHHHHHHHHHHHHhh---hHHHHHHHHhcc-
Confidence            56899999999999999999997754322 2 23332 1          223333333332210   122334444443 


Q ss_pred             cEEEEecCCCCHH----HHHHHhccCCC-CCCCCEEEEEeCCh-hh--------hhhcCCCeEEEcCCCCHHHHHHHHHH
Q 048064          188 KVLIVLDDVTCLN----QIESLVGSLDR-LLPESRILITTRNK-QV--------LRNCHINQIYEMKGLGDDHALELFIR  253 (429)
Q Consensus       188 ~~LlVlDdv~~~~----~~~~l~~~l~~-~~~~~~iiiTtR~~-~~--------~~~~~~~~~~~l~~L~~~ea~~L~~~  253 (429)
                      .-+|||||++...    ..+.+...+.. ...+..||+|+... ..        ...+...-++.+.+++.++..+++.+
T Consensus       207 ~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd~~P~~l~~l~~rL~SR~~~Gl~~~L~~pd~e~r~~iL~~  286 (450)
T PRK14087        207 NDVLIIDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSDKSPELLNGFDNRLITRFNMGLSIAIQKLDNKTATAIIKK  286 (450)
T ss_pred             CCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECCCCHHHHhhccHHHHHHHhCCceeccCCcCHHHHHHHHHH
Confidence            3488899996432    22333333221 13455688887543 22        22233456788999999999999998


Q ss_pred             hhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHHHhh
Q 048064          254 HAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYL  290 (429)
Q Consensus       254 ~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~~~l  290 (429)
                      .+-.......-..+.+.-|++.+.|.|-.+..+...+
T Consensus       287 ~~~~~gl~~~l~~evl~~Ia~~~~gd~R~L~gaL~~l  323 (450)
T PRK14087        287 EIKNQNIKQEVTEEAINFISNYYSDDVRKIKGSVSRL  323 (450)
T ss_pred             HHHhcCCCCCCCHHHHHHHHHccCCCHHHHHHHHHHH
Confidence            8743321112335788999999999998887665443

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

Probab=98.78  E-value=5.8e-08  Score=89.02  Aligned_cols=173  Identities=19%  Similarity=0.321  Sum_probs=103.0

Q ss_pred             CCCCcccchhhHHHH---HHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHH
Q 048064           87 DSKNELVGVESRVEE---IQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQ  161 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~---l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~  161 (429)
                      ..-.++||.+..+.+   |..++.  ..+.+.+||++|+||||||+.++...+.+-  ..|+. ++.......++.    
T Consensus       135 ktL~dyvGQ~hlv~q~gllrs~ieq~~ipSmIlWGppG~GKTtlArlia~tsk~~S--yrfve-lSAt~a~t~dvR----  207 (554)
T KOG2028|consen  135 KTLDDYVGQSHLVGQDGLLRSLIEQNRIPSMILWGPPGTGKTTLARLIASTSKKHS--YRFVE-LSATNAKTNDVR----  207 (554)
T ss_pred             chHHHhcchhhhcCcchHHHHHHHcCCCCceEEecCCCCchHHHHHHHHhhcCCCc--eEEEE-EeccccchHHHH----
Confidence            344677777766654   222333  677899999999999999999998765542  23333 221111122222    


Q ss_pred             HHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEE--EeCChhh---hhhcCCC
Q 048064          162 KLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILI--TTRNKQV---LRNCHIN  234 (429)
Q Consensus       162 ~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iii--TtR~~~~---~~~~~~~  234 (429)
                      .+..+..+.           ..+..++.+|++|+++..  .+.+.|++..   ..|..++|  ||.++..   ...+...
T Consensus       208 ~ife~aq~~-----------~~l~krkTilFiDEiHRFNksQQD~fLP~V---E~G~I~lIGATTENPSFqln~aLlSRC  273 (554)
T KOG2028|consen  208 DIFEQAQNE-----------KSLTKRKTILFIDEIHRFNKSQQDTFLPHV---ENGDITLIGATTENPSFQLNAALLSRC  273 (554)
T ss_pred             HHHHHHHHH-----------HhhhcceeEEEeHHhhhhhhhhhhccccee---ccCceEEEecccCCCccchhHHHHhcc
Confidence            233222221           234568899999999744  3555555543   45777676  7776633   2223456


Q ss_pred             eEEEcCCCCHHHHHHHHHHhhh---cCC---CCCh-----hHHHHHHHHHHHhCCCh
Q 048064          235 QIYEMKGLGDDHALELFIRHAF---RQN---LVDV-----DYKELSDKVINYAQGVP  280 (429)
Q Consensus       235 ~~~~l~~L~~~ea~~L~~~~~~---~~~---~~~~-----~~~~~~~~i~~~~~G~P  280 (429)
                      .++.|++|+.++...++.+...   ...   .+-+     -...+.+-++..|+|-.
T Consensus       274 ~VfvLekL~~n~v~~iL~raia~l~dser~~~~l~n~s~~ve~siidyla~lsdGDa  330 (554)
T KOG2028|consen  274 RVFVLEKLPVNAVVTILMRAIASLGDSERPTDPLPNSSMFVEDSIIDYLAYLSDGDA  330 (554)
T ss_pred             ceeEeccCCHHHHHHHHHHHHHhhccccccCCCCCCcchhhhHHHHHHHHHhcCchH
Confidence            7889999999999998876321   111   1111     12345566667777754

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=98.78  E-value=2.7e-07  Score=89.61  Aligned_cols=168  Identities=20%  Similarity=0.286  Sum_probs=95.9

Q ss_pred             CCcccchhhHHHHHHHhhc---------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhc
Q 048064           89 KNELVGVESRVEEIQSLLG---------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKA  153 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~---------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~  153 (429)
                      ...+.|++..++++.+.+.               .++.|.++|++|+|||++|+.+++.....|-    ...........
T Consensus       130 ~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~~~~i----~v~~~~l~~~~  205 (389)
T PRK03992        130 YEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFI----RVVGSELVQKF  205 (389)
T ss_pred             HHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhCCCEE----EeehHHHhHhh
Confidence            3567899999999988763               3567999999999999999999998653321    11111110000


Q ss_pred             -CCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCHH-------------H---HHHHhccCCCC--CC
Q 048064          154 -GGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLN-------------Q---IESLVGSLDRL--LP  214 (429)
Q Consensus       154 -~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~-------------~---~~~l~~~l~~~--~~  214 (429)
                       .......+.+                +...-...+.+|+|||++...             .   +..++..+...  ..
T Consensus       206 ~g~~~~~i~~~----------------f~~a~~~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~~~~  269 (389)
T PRK03992        206 IGEGARLVREL----------------FELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFDPRG  269 (389)
T ss_pred             ccchHHHHHHH----------------HHHHHhcCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccCCCC
Confidence             0001111111                111123457899999997541             1   22222222221  23


Q ss_pred             CCEEEEEeCChhhhhh-c----CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCC
Q 048064          215 ESRILITTRNKQVLRN-C----HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGV  279 (429)
Q Consensus       215 ~~~iiiTtR~~~~~~~-~----~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~  279 (429)
                      +..||.||.....+.. +    .....+.+++.+.++..++|..+........ .  -....++..+.|.
T Consensus       270 ~v~VI~aTn~~~~ld~allRpgRfd~~I~v~~P~~~~R~~Il~~~~~~~~~~~-~--~~~~~la~~t~g~  336 (389)
T PRK03992        270 NVKIIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKMNLAD-D--VDLEELAELTEGA  336 (389)
T ss_pred             CEEEEEecCChhhCCHHHcCCccCceEEEECCCCHHHHHHHHHHHhccCCCCC-c--CCHHHHHHHcCCC
Confidence            4556767765433221 1    2346789999999999999988764332221 1  1145566666664

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=98.77  E-value=2.3e-07  Score=85.36  Aligned_cols=132  Identities=14%  Similarity=0.177  Sum_probs=70.3

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcCc--ceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcC
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRNF--KGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSC  186 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f--~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~  186 (429)
                      ...+.++|++|+||||+|+.+++.+....  ....++. +....        +.    ......  .......+..... 
T Consensus        42 ~~~vll~GppGtGKTtlA~~ia~~l~~~~~~~~~~~v~-~~~~~--------l~----~~~~g~--~~~~~~~~~~~a~-  105 (261)
T TIGR02881        42 VLHMIFKGNPGTGKTTVARILGKLFKEMNVLSKGHLIE-VERAD--------LV----GEYIGH--TAQKTREVIKKAL-  105 (261)
T ss_pred             cceEEEEcCCCCCHHHHHHHHHHHHHhcCcccCCceEE-ecHHH--------hh----hhhccc--hHHHHHHHHHhcc-
Confidence            34688999999999999999998764321  1111221 11110        00    000000  0001111222222 


Q ss_pred             CcEEEEecCCCCH----------HHHHHHhccCCCCCCCCEEEEEeCChhhh------hhc--CCCeEEEcCCCCHHHHH
Q 048064          187 RKVLIVLDDVTCL----------NQIESLVGSLDRLLPESRILITTRNKQVL------RNC--HINQIYEMKGLGDDHAL  248 (429)
Q Consensus       187 ~~~LlVlDdv~~~----------~~~~~l~~~l~~~~~~~~iiiTtR~~~~~------~~~--~~~~~~~l~~L~~~ea~  248 (429)
                       .-+|+||+++..          +.++.++..+........+|+++.....-      +.+  .....+.+++++.+|..
T Consensus       106 -~~VL~IDE~~~L~~~~~~~~~~~~i~~Ll~~~e~~~~~~~vila~~~~~~~~~~~~~p~L~sRf~~~i~f~~~~~~el~  184 (261)
T TIGR02881       106 -GGVLFIDEAYSLARGGEKDFGKEAIDTLVKGMEDNRNEFVLILAGYSDEMDYFLSLNPGLRSRFPISIDFPDYTVEELM  184 (261)
T ss_pred             -CCEEEEechhhhccCCccchHHHHHHHHHHHHhccCCCEEEEecCCcchhHHHHhcChHHHhccceEEEECCCCHHHHH
Confidence             348999999752          24555665555433444555555432210      011  12356889999999999


Q ss_pred             HHHHHhhhc
Q 048064          249 ELFIRHAFR  257 (429)
Q Consensus       249 ~L~~~~~~~  257 (429)
                      +++.+.+..
T Consensus       185 ~Il~~~~~~  193 (261)
T TIGR02881       185 EIAERMVKE  193 (261)
T ss_pred             HHHHHHHHH
Confidence            999877643

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.

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=98.77  E-value=5.2e-07  Score=78.73  Aligned_cols=148  Identities=16%  Similarity=0.255  Sum_probs=91.1

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcC---------------------cceeEEEeechhhhhhcCCHHHHHHHHHHHH
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRN---------------------FKGSCFLENIREESQKAGGLAFLQQKLLSEV  167 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~---------------------f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  167 (429)
                      .+.+.++|+.|+|||++|..+++.+...                     ++...++.....    ..... ..+.+...+
T Consensus        14 ~~~~L~~G~~G~gkt~~a~~~~~~l~~~~~~~~~~c~~~~~c~~~~~~~~~d~~~~~~~~~----~~~~~-~i~~i~~~~   88 (188)
T TIGR00678        14 AHAYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPDLHRLEPEGQ----SIKVD-QVRELVEFL   88 (188)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCcEEEeccccC----cCCHH-HHHHHHHHH
Confidence            4678999999999999999999986432                     111111110000    01111 111111111


Q ss_pred             hcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEeCCh-hhhhhc-CCCeEEEcCCCC
Q 048064          168 LKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITTRNK-QVLRNC-HINQIYEMKGLG  243 (429)
Q Consensus       168 ~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTtR~~-~~~~~~-~~~~~~~l~~L~  243 (429)
                      ...            -..+.+-++|+||++..  ...+.++..+....+.+.+|++|++. .+.+.+ .....+.+.+++
T Consensus        89 ~~~------------~~~~~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~i~sr~~~~~~~~~~  156 (188)
T TIGR00678        89 SRT------------PQESGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPTIRSRCQVLPFPPLS  156 (188)
T ss_pred             ccC------------cccCCeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhChHHHHhhcEEeeCCCCC
Confidence            110            01235568999999754  45677777777656667777766654 222222 234689999999


Q ss_pred             HHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChH
Q 048064          244 DDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPL  281 (429)
Q Consensus       244 ~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PL  281 (429)
                      .++..+++.+..     .+   .+.+..+++.++|.|.
T Consensus       157 ~~~~~~~l~~~g-----i~---~~~~~~i~~~~~g~~r  186 (188)
T TIGR00678       157 EEALLQWLIRQG-----IS---EEAAELLLALAGGSPG  186 (188)
T ss_pred             HHHHHHHHHHcC-----CC---HHHHHHHHHHcCCCcc
Confidence            999999998771     11   3568899999999985

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

>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold

Probab=98.76  E-value=7.1e-08  Score=80.09  Aligned_cols=120  Identities=22%  Similarity=0.233  Sum_probs=69.0

Q ss_pred             cchhhHHHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcC
Q 048064           93 VGVESRVEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKD  170 (429)
Q Consensus        93 vGR~~~~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  170 (429)
                      +|++..++.+...+.  ..+.+.|+|++|+|||++++.+++.+.......+++ +......    ...........    
T Consensus         1 ~~~~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~-~~~~~~~----~~~~~~~~~~~----   71 (151)
T cd00009           1 VGQEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYL-NASDLLE----GLVVAELFGHF----   71 (151)
T ss_pred             CchHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEE-ehhhhhh----hhHHHHHhhhh----
Confidence            478888999988887  478999999999999999999999875433333333 2322111    00000000000    


Q ss_pred             CCCCCCHHHHHHHhcCCcEEEEecCCCCH--HH---HHHHhccCCCC---CCCCEEEEEeCCh
Q 048064          171 VNVIPHIDLNFRRLSCRKVLIVLDDVTCL--NQ---IESLVGSLDRL---LPESRILITTRNK  225 (429)
Q Consensus       171 ~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~---~~~l~~~l~~~---~~~~~iiiTtR~~  225 (429)
                          ............++.+||+||++..  ..   +...+......   ..+..+|+||...
T Consensus        72 ----~~~~~~~~~~~~~~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~  130 (151)
T cd00009          72 ----LVRLLFELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRP  130 (151)
T ss_pred             ----hHhHHHHhhccCCCeEEEEeChhhhhHHHHHHHHHHHHhcCceeccCCCeEEEEecCcc
Confidence                0000011223346789999999854  22   22333332221   3567788888765

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.

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=98.76  E-value=7.4e-07  Score=90.46  Aligned_cols=191  Identities=17%  Similarity=0.195  Sum_probs=116.1

Q ss_pred             CCCCcccchhhHHHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhcCcce---eEEEeechhhhhhcCCHHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISRNFKG---SCFLENIREESQKAGGLAFLQ  160 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~---~~~~~~~~~~~~~~~~~~~~~  160 (429)
                      ....+++|.+..++.|.+.+.   -.+.+.++|+.|+||||+|+.+++.+......   ..-+..+...        ...
T Consensus        21 ~~f~dliGq~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~~cg~c--------~~C   92 (598)
T PRK09111         21 QTFDDLIGQEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTIDLCGVG--------EHC   92 (598)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccccCccc--------HHH
Confidence            455789999999999999987   34578999999999999999999976422110   0000000000        000


Q ss_pred             HHHHHHHhc--------CCCCCCCHHHHHHHh-----cCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEe-CC
Q 048064          161 QKLLSEVLK--------DVNVIPHIDLNFRRL-----SCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITT-RN  224 (429)
Q Consensus       161 ~~l~~~~~~--------~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTt-R~  224 (429)
                      +.+......        ....++.+..+...+     .+++-++|+|+++..  ...+.|+..+....+++.+|++| ..
T Consensus        93 ~~i~~g~h~Dv~e~~a~s~~gvd~IReIie~~~~~P~~a~~KVvIIDEad~Ls~~a~naLLKtLEePp~~~~fIl~tte~  172 (598)
T PRK09111         93 QAIMEGRHVDVLEMDAASHTGVDDIREIIESVRYRPVSARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHVKFIFATTEI  172 (598)
T ss_pred             HHHhcCCCCceEEecccccCCHHHHHHHHHHHHhchhcCCcEEEEEEChHhCCHHHHHHHHHHHHhCCCCeEEEEEeCCh
Confidence            111110000        000111112222222     234558999999755  45778888877766777766544 44


Q ss_pred             hhhhhhc-CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHH
Q 048064          225 KQVLRNC-HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILG  287 (429)
Q Consensus       225 ~~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~  287 (429)
                      ..+...+ .....+++.+++.++....+.+.+......  -..+.+..|++.++|.+.-+....
T Consensus       173 ~kll~tI~SRcq~~~f~~l~~~el~~~L~~i~~kegi~--i~~eAl~lIa~~a~Gdlr~al~~L  234 (598)
T PRK09111        173 RKVPVTVLSRCQRFDLRRIEADVLAAHLSRIAAKEGVE--VEDEALALIARAAEGSVRDGLSLL  234 (598)
T ss_pred             hhhhHHHHhheeEEEecCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            4443332 235678999999999999998876443322  123668889999999987664443

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=98.76  E-value=4.1e-07  Score=91.16  Aligned_cols=187  Identities=17%  Similarity=0.151  Sum_probs=109.6

Q ss_pred             CCCCcccchhhHHHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKL  163 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l  163 (429)
                      ....+++|++..++.|.+.+.   ..+.+.++|++|+||||+|+.+++.+...-....-.  +....        ..+.+
T Consensus        13 ~~F~dIIGQe~iv~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~~~~~~~--Cg~C~--------sCr~i   82 (605)
T PRK05896         13 HNFKQIIGQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAINCLNPKDGDC--CNSCS--------VCESI   82 (605)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCC--CcccH--------HHHHH
Confidence            455789999999999999886   356789999999999999999999763211000000  00000        00000


Q ss_pred             HHHHhcC--------CCCCCCHHHHHHHh-----cCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEeCC-hhh
Q 048064          164 LSEVLKD--------VNVIPHIDLNFRRL-----SCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITTRN-KQV  227 (429)
Q Consensus       164 ~~~~~~~--------~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTtR~-~~~  227 (429)
                      .......        ....+.+..+....     .+++-++|+|+++..  .....|+..+....+...+|++|.. ..+
T Consensus        83 ~~~~h~DiieIdaas~igVd~IReIi~~~~~~P~~~~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfIL~Tt~~~KL  162 (605)
T PRK05896         83 NTNQSVDIVELDAASNNGVDEIRNIIDNINYLPTTFKYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATTEFQKI  162 (605)
T ss_pred             HcCCCCceEEeccccccCHHHHHHHHHHHHhchhhCCcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEEEECCChHhh
Confidence            0000000        00001111111111     123447999999854  4667777777665556666555543 333


Q ss_pred             hhh-cCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHH
Q 048064          228 LRN-CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKI  285 (429)
Q Consensus       228 ~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~  285 (429)
                      ... ......+++.+++.++....+...+......  -..+.+..+++.++|.+.-+..
T Consensus       163 l~TI~SRcq~ieF~~Ls~~eL~~~L~~il~kegi~--Is~eal~~La~lS~GdlR~Aln  219 (605)
T PRK05896        163 PLTIISRCQRYNFKKLNNSELQELLKSIAKKEKIK--IEDNAIDKIADLADGSLRDGLS  219 (605)
T ss_pred             hHHHHhhhhhcccCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCcHHHHHH
Confidence            322 2335678999999999999998876443311  1135678899999998764433

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.76  E-value=4.8e-07  Score=88.29  Aligned_cols=194  Identities=15%  Similarity=0.158  Sum_probs=112.1

Q ss_pred             CCCCcccchhhHHHHHHHhhcC---CCEEEEEcCCCcchHHHHHHHHHHhhcC--cceeEEEeechhhhhhcCCHHHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLGA---APLLGIWGIGGIGKTTIARVIFNRISRN--FKGSCFLENIREESQKAGGLAFLQQ  161 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~~---~~~v~I~G~~GiGKTtLa~~~~~~~~~~--f~~~~~~~~~~~~~~~~~~~~~~~~  161 (429)
                      ....+++|.+..++.|..++..   .+.+.++|++|+||||+|..+++.+...  +...-|.........   .. ...+
T Consensus        13 ~~~~eiiGq~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~~~c~---~c-~~c~   88 (397)
T PRK14955         13 KKFADITAQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVTEPCG---EC-ESCR   88 (397)
T ss_pred             CcHhhccChHHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCCCCCC---CC-HHHH
Confidence            4557899999999999998873   3458899999999999999999976431  000000000000000   00 0000


Q ss_pred             HHHHHH-------hc-CCCCCCCHHHHHHHh-----cCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEe-CCh
Q 048064          162 KLLSEV-------LK-DVNVIPHIDLNFRRL-----SCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITT-RNK  225 (429)
Q Consensus       162 ~l~~~~-------~~-~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTt-R~~  225 (429)
                      .+....       .. .....+.+..+.+.+     .+.+-++|+|+++..  ..++.++..+....+.+.+|++| +..
T Consensus        89 ~~~~~~~~n~~~~~~~~~~~id~Ir~l~~~~~~~p~~~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t~~Il~t~~~~  168 (397)
T PRK14955         89 DFDAGTSLNISEFDAASNNSVDDIRLLRENVRYGPQKGRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATTELH  168 (397)
T ss_pred             HHhcCCCCCeEeecccccCCHHHHHHHHHHHhhchhcCCeEEEEEeChhhCCHHHHHHHHHHHhcCCCCeEEEEEeCChH
Confidence            000000       00 000011122222333     234568999999854  46777887777656666666554 433


Q ss_pred             hhhhhc-CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHH
Q 048064          226 QVLRNC-HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKIL  286 (429)
Q Consensus       226 ~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~  286 (429)
                      .+...+ .....+++.+++.++....+...+-.....  -..+.+..+++.++|.+.-+...
T Consensus       169 kl~~tl~sR~~~v~f~~l~~~ei~~~l~~~~~~~g~~--i~~~al~~l~~~s~g~lr~a~~~  228 (397)
T PRK14955        169 KIPATIASRCQRFNFKRIPLEEIQQQLQGICEAEGIS--VDADALQLIGRKAQGSMRDAQSI  228 (397)
T ss_pred             HhHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHH
Confidence            443322 123568899999999999988776332211  22467889999999988655443

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

Probab=98.75  E-value=4e-08  Score=85.44  Aligned_cols=46  Identities=30%  Similarity=0.565  Sum_probs=34.7

Q ss_pred             cccchhhHHHHHHHhhc-----CCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064           91 ELVGVESRVEEIQSLLG-----AAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus        91 ~~vGR~~~~~~l~~~l~-----~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      .|+||+.+++++...+.     ..+.+.|+|++|+|||+|+++++.++...
T Consensus         1 ~fvgR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~   51 (185)
T PF13191_consen    1 QFVGREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRLAER   51 (185)
T ss_dssp             --TT-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            48999999999999993     67899999999999999999999988776

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.74  E-value=2.7e-07  Score=92.78  Aligned_cols=177  Identities=16%  Similarity=0.170  Sum_probs=109.4

Q ss_pred             CCCCcccchhhHHHHHHHhhc--C-CCEEEEEcCCCcchHHHHHHHHHHhhcCcc---------------------eeEE
Q 048064           87 DSKNELVGVESRVEEIQSLLG--A-APLLGIWGIGGIGKTTIARVIFNRISRNFK---------------------GSCF  142 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~--~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~---------------------~~~~  142 (429)
                      ....+++|-+..++.|.+++.  . .+.+.++|++|+||||+|+.+++.+-....                     ..+.
T Consensus        13 ~~f~divGq~~v~~~L~~~i~~~~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C~~C~~i~~~~~~d~~e   92 (527)
T PRK14969         13 KSFSELVGQEHVVRALTNALEQQRLHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSACLEIDSGRFVDLIE   92 (527)
T ss_pred             CcHHHhcCcHHHHHHHHHHHHcCCCCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCceeE
Confidence            445689999999999999887  2 345789999999999999999987632110                     0111


Q ss_pred             EeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEE
Q 048064          143 LENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILI  220 (429)
Q Consensus       143 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iii  220 (429)
                      +. ...    ...... .+.++......            -..+++-++|+|+++..  ...+.++..+......+.+|+
T Consensus        93 i~-~~~----~~~vd~-ir~l~~~~~~~------------p~~~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~fIL  154 (527)
T PRK14969         93 VD-AAS----NTQVDA-MRELLDNAQYA------------PTRGRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFIL  154 (527)
T ss_pred             ee-ccc----cCCHHH-HHHHHHHHhhC------------cccCCceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEEEE
Confidence            10 000    011111 11111111000            01245679999999855  457778888776566666666


Q ss_pred             EeCCh-hhhhh-cCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHH
Q 048064          221 TTRNK-QVLRN-CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLAL  283 (429)
Q Consensus       221 TtR~~-~~~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai  283 (429)
                      +|.+. .+... .+....+++.+++.++....+.+.+......  ...+.+..|++.++|.+.-+
T Consensus       155 ~t~d~~kil~tI~SRc~~~~f~~l~~~~i~~~L~~il~~egi~--~~~~al~~la~~s~Gslr~a  217 (527)
T PRK14969        155 ATTDPQKIPVTVLSRCLQFNLKQMPPPLIVSHLQHILEQENIP--FDATALQLLARAAAGSMRDA  217 (527)
T ss_pred             EeCChhhCchhHHHHHHHHhcCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHH
Confidence            55443 33322 1224578899999999998888766433321  12456788999999988644

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.73  E-value=2.4e-06  Score=82.79  Aligned_cols=181  Identities=17%  Similarity=0.243  Sum_probs=110.0

Q ss_pred             CCCCcccchhhHHHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhcC--------cceeEEEeechhhhhhcCC
Q 048064           87 DSKNELVGVESRVEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISRN--------FKGSCFLENIREESQKAGG  155 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~--------f~~~~~~~~~~~~~~~~~~  155 (429)
                      ..-.+++|.+..++.+.+.+.   -.+.+.++|++|+||||+|..+++.+...        |...++-.  ....  ...
T Consensus        14 ~~~~~iig~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l--~~~~--~~~   89 (367)
T PRK14970         14 QTFDDVVGQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFEL--DAAS--NNS   89 (367)
T ss_pred             CcHHhcCCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEe--cccc--CCC
Confidence            455789999999999999987   34578899999999999999998876431        11111111  0000  111


Q ss_pred             HHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEeC-Chhhhhh-c
Q 048064          156 LAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITTR-NKQVLRN-C  231 (429)
Q Consensus       156 ~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTtR-~~~~~~~-~  231 (429)
                      ...+ +.+.......            -..+++-++|+|+++..  ..++.++..+....+.+.+|+++. ...+... .
T Consensus        90 ~~~i-~~l~~~~~~~------------p~~~~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~~~~kl~~~l~  156 (367)
T PRK14970         90 VDDI-RNLIDQVRIP------------PQTGKYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKIIPTIL  156 (367)
T ss_pred             HHHH-HHHHHHHhhc------------cccCCcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeCCcccCCHHHH
Confidence            1111 1122111100            01234558999999744  346667666655444555555553 3333222 2


Q ss_pred             CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHH
Q 048064          232 HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKIL  286 (429)
Q Consensus       232 ~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~  286 (429)
                      .....+++.+++.++...++...+......  -..+.+..+++.++|.+-.+...
T Consensus       157 sr~~~v~~~~~~~~~l~~~l~~~~~~~g~~--i~~~al~~l~~~~~gdlr~~~~~  209 (367)
T PRK14970        157 SRCQIFDFKRITIKDIKEHLAGIAVKEGIK--FEDDALHIIAQKADGALRDALSI  209 (367)
T ss_pred             hcceeEecCCccHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHhCCCCHHHHHHH
Confidence            234578999999999999998876443321  12467888999999987655433

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

Probab=98.72  E-value=6.8e-07  Score=84.87  Aligned_cols=199  Identities=15%  Similarity=0.176  Sum_probs=116.4

Q ss_pred             CCCCcccchhhHHHHHHHhhc------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcce-eEEEeechhhhhhcCCHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKG-SCFLENIREESQKAGGLAFL  159 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~-~~~~~~~~~~~~~~~~~~~~  159 (429)
                      ..+..++||+.++..+..++.      ..+.+-|.|.+|.|||.+...++.+....... .....++..    -.....+
T Consensus       147 ~~p~~l~gRe~e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~s----l~~~~ai  222 (529)
T KOG2227|consen  147 APPGTLKGRELEMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTS----LTEASAI  222 (529)
T ss_pred             CCCCCccchHHHHHHHHHHHHhhhhcccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeecc----ccchHHH
Confidence            446789999999999999986      67789999999999999999999987666544 222222322    1233444


Q ss_pred             HHHHHHHH----hcCCCCCCCHHHHHHHhcC--CcEEEEecCCCCHHHH--HHHhccCCCC-CCCCEEEEEeCC------
Q 048064          160 QQKLLSEV----LKDVNVIPHIDLNFRRLSC--RKVLIVLDDVTCLNQI--ESLVGSLDRL-LPESRILITTRN------  224 (429)
Q Consensus       160 ~~~l~~~~----~~~~~~~~~~~~l~~~l~~--~~~LlVlDdv~~~~~~--~~l~~~l~~~-~~~~~iiiTtR~------  224 (429)
                      ...+...+    ............+.....+  ..+|+|+|++|....-  ..+...+.|. -+++++|+..-.      
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            44554444    2222222222334444443  3689999999865421  1111122211 356665442211      


Q ss_pred             hhhhhhcC-----CCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHHHhh
Q 048064          225 KQVLRNCH-----INQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYL  290 (429)
Q Consensus       225 ~~~~~~~~-----~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~~~l  290 (429)
                      +..+..+.     .-..+..+|.+.++..++|..+..... ........++.++.++.|.---+..+-...
T Consensus       303 dR~LprL~~~~~~~P~~l~F~PYTk~qI~~Il~~rl~~~~-t~~~~~~Aie~~ArKvaa~SGDlRkaLdv~  372 (529)
T KOG2227|consen  303 DRFLPRLNLDLTIKPKLLVFPPYTKDQIVEILQQRLSEES-TSIFLNAAIELCARKVAAPSGDLRKALDVC  372 (529)
T ss_pred             HHHhhhhhhccCCCCceeeecCCCHHHHHHHHHHHHhccc-ccccchHHHHHHHHHhccCchhHHHHHHHH
Confidence            12222222     235678999999999999999874332 222233455556666666554444444433

>PRK06620 hypothetical protein; Validated

Probab=98.72  E-value=3.1e-07  Score=81.49  Aligned_cols=137  Identities=12%  Similarity=0.114  Sum_probs=82.9

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcE
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKV  189 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~  189 (429)
                      +.+.|+|++|+|||+|++.+++....     .+.....      ..     ..                    ..+ ..-
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~~~-----~~~~~~~------~~-----~~--------------------~~~-~~d   87 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLSNA-----YIIKDIF------FN-----EE--------------------ILE-KYN   87 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhccCC-----EEcchhh------hc-----hh--------------------HHh-cCC
Confidence            66999999999999999987775421     2221000      00     00                    011 224


Q ss_pred             EEEecCCCCHHH--HHHHhccCCCCCCCCEEEEEeCChh-------hhhhcCCCeEEEcCCCCHHHHHHHHHHhhhcCCC
Q 048064          190 LIVLDDVTCLNQ--IESLVGSLDRLLPESRILITTRNKQ-------VLRNCHINQIYEMKGLGDDHALELFIRHAFRQNL  260 (429)
Q Consensus       190 LlVlDdv~~~~~--~~~l~~~l~~~~~~~~iiiTtR~~~-------~~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~  260 (429)
                      +|++||++..+.  +-.+...+.  ..|..||+|++...       +...+....++++++++.++...++.+.+.....
T Consensus        88 ~lliDdi~~~~~~~lf~l~N~~~--e~g~~ilits~~~p~~l~l~~L~SRl~~gl~~~l~~pd~~~~~~~l~k~~~~~~l  165 (214)
T PRK06620         88 AFIIEDIENWQEPALLHIFNIIN--EKQKYLLLTSSDKSRNFTLPDLSSRIKSVLSILLNSPDDELIKILIFKHFSISSV  165 (214)
T ss_pred             EEEEeccccchHHHHHHHHHHHH--hcCCEEEEEcCCCccccchHHHHHHHhCCceEeeCCCCHHHHHHHHHHHHHHcCC
Confidence            788999985432  222222222  34667888887542       2233344568999999999988888877643221


Q ss_pred             CChhHHHHHHHHHHHhCCChHHHHHHH
Q 048064          261 VDVDYKELSDKVINYAQGVPLALKILG  287 (429)
Q Consensus       261 ~~~~~~~~~~~i~~~~~G~PLai~~~~  287 (429)
                      .  -.+++.+-|++.+.|.--.+.-+-
T Consensus       166 ~--l~~ev~~~L~~~~~~d~r~l~~~l  190 (214)
T PRK06620        166 T--ISRQIIDFLLVNLPREYSKIIEIL  190 (214)
T ss_pred             C--CCHHHHHHHHHHccCCHHHHHHHH
Confidence            1  224677888888888766654443

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.72  E-value=4.6e-06  Score=83.02  Aligned_cols=190  Identities=16%  Similarity=0.121  Sum_probs=111.2

Q ss_pred             CCCCcccchhhHHHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhcC-----cceeEEEeechhhhhh-cCCHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISRN-----FKGSCFLENIREESQK-AGGLA  157 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-----f~~~~~~~~~~~~~~~-~~~~~  157 (429)
                      .....++|.+..++.|.+++.   -.+.+.++|++|+||||+|+.++..+...     .++.. ..++...... ..++.
T Consensus        13 ~~f~diiGq~~i~~~L~~~i~~~~i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~-c~nc~~i~~g~~~d~~   91 (486)
T PRK14953         13 KFFKEVIGQEIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGK-CENCVEIDKGSFPDLI   91 (486)
T ss_pred             CcHHHccChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCc-cHHHHHHhcCCCCcEE
Confidence            445789999999999999997   23456789999999999999999876321     01100 0000000000 00000


Q ss_pred             HHHHHHHHHHhc-CCCCCCCHHHHHHHh-----cCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEe-CChhhh
Q 048064          158 FLQQKLLSEVLK-DVNVIPHIDLNFRRL-----SCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITT-RNKQVL  228 (429)
Q Consensus       158 ~~~~~l~~~~~~-~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTt-R~~~~~  228 (429)
                      .        +.. .....+.+..+....     .+++-++|+|+++..  ...+.++..+....+...+|++| +...+.
T Consensus        92 e--------idaas~~gvd~ir~I~~~~~~~P~~~~~KVvIIDEad~Lt~~a~naLLk~LEepp~~~v~Il~tt~~~kl~  163 (486)
T PRK14953         92 E--------IDAASNRGIDDIRALRDAVSYTPIKGKYKVYIIDEAHMLTKEAFNALLKTLEEPPPRTIFILCTTEYDKIP  163 (486)
T ss_pred             E--------EeCccCCCHHHHHHHHHHHHhCcccCCeeEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEECCHHHHH
Confidence            0        000 000011111122222     245569999999854  45677777777655555555544 433333


Q ss_pred             hh-cCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHH
Q 048064          229 RN-CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILG  287 (429)
Q Consensus       229 ~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~  287 (429)
                      .. ......+++.+++.++....+...+-.....  -..+.+..+++.++|.+..+....
T Consensus       164 ~tI~SRc~~i~f~~ls~~el~~~L~~i~k~egi~--id~~al~~La~~s~G~lr~al~~L  221 (486)
T PRK14953        164 PTILSRCQRFIFSKPTKEQIKEYLKRICNEEKIE--YEEKALDLLAQASEGGMRDAASLL  221 (486)
T ss_pred             HHHHHhceEEEcCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            32 2234678999999999999988876443321  124567889999999887655444

>PTZ00202 tuzin; Provisional

Probab=98.71  E-value=5.4e-06  Score=79.11  Aligned_cols=157  Identities=13%  Similarity=0.116  Sum_probs=97.7

Q ss_pred             CCCCcccchhhHHHHHHHhhc-----CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG-----AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQ  161 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~-----~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~  161 (429)
                      .....|+||+.++.+|...|.     .++++.|.|++|+|||||++.+.....    ...++.|..       +...+..
T Consensus       259 a~~~~FVGReaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~l~----~~qL~vNpr-------g~eElLr  327 (550)
T PTZ00202        259 AVIRQFVSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRKEG----MPAVFVDVR-------GTEDTLR  327 (550)
T ss_pred             CCccCCCCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhcCC----ceEEEECCC-------CHHHHHH
Confidence            667899999999999999986     456889999999999999999997653    234554443       4577888


Q ss_pred             HHHHHHhcCCCCC--CCHHHHHHH-----hc-CCcEEEEecCC--CCHHH-HHHHhccCCCCCCCCEEEEEeCChhhhh-
Q 048064          162 KLLSEVLKDVNVI--PHIDLNFRR-----LS-CRKVLIVLDDV--TCLNQ-IESLVGSLDRLLPESRILITTRNKQVLR-  229 (429)
Q Consensus       162 ~l~~~~~~~~~~~--~~~~~l~~~-----l~-~~~~LlVlDdv--~~~~~-~~~l~~~l~~~~~~~~iiiTtR~~~~~~-  229 (429)
                      .++..++......  +.++.+.+.     .. +++.+|||-=-  .+..- ..+.. .|..-..-|+|++---.+.+-. 
T Consensus       328 ~LL~ALGV~p~~~k~dLLrqIqeaLl~~~~e~GrtPVLII~lreg~~l~rvyne~v-~la~drr~ch~v~evpleslt~~  406 (550)
T PTZ00202        328 SVVKALGVPNVEACGDLLDFISEACRRAKKMNGETPLLVLKLREGSSLQRVYNEVV-ALACDRRLCHVVIEVPLESLTIA  406 (550)
T ss_pred             HHHHHcCCCCcccHHHHHHHHHHHHHHHHHhCCCCEEEEEEecCCCcHHHHHHHHH-HHHccchhheeeeeehHhhcchh
Confidence            8888887532111  111222221     22 56667766322  23321 11111 1111145677877554432211 


Q ss_pred             --hcCCCeEEEcCCCCHHHHHHHHHHhh
Q 048064          230 --NCHINQIYEMKGLGDDHALELFIRHA  255 (429)
Q Consensus       230 --~~~~~~~~~l~~L~~~ea~~L~~~~~  255 (429)
                        .+..-..|.+++++.++|.++.+...
T Consensus       407 ~~~lprldf~~vp~fsr~qaf~y~~h~~  434 (550)
T PTZ00202        407 NTLLPRLDFYLVPNFSRSQAFAYTQHAI  434 (550)
T ss_pred             cccCccceeEecCCCCHHHHHHHHhhcc
Confidence              11234678899999999998876654

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.71  E-value=1e-06  Score=90.19  Aligned_cols=191  Identities=16%  Similarity=0.161  Sum_probs=112.9

Q ss_pred             CCCCcccchhhHHHHHHHhhcC---CCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLGA---APLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKL  163 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~~---~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l  163 (429)
                      ....+++|.+..++.|..++..   .+.+.++|+.|+||||+|+.+++.+.......-. ..+..        -...+.+
T Consensus        13 ~~~~eiiGq~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~~~-~~c~~--------c~~c~~i   83 (585)
T PRK14950         13 QTFAELVGQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAVNCTTNDPKG-RPCGT--------CEMCRAI   83 (585)
T ss_pred             CCHHHhcCCHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCC-CCCcc--------CHHHHHH
Confidence            4457899999999999998872   3456899999999999999999876321110000 00000        0001111


Q ss_pred             HHHHhcC----C-CCCCCHH---HHHHHh-----cCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEeCC-hhh
Q 048064          164 LSEVLKD----V-NVIPHID---LNFRRL-----SCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITTRN-KQV  227 (429)
Q Consensus       164 ~~~~~~~----~-~~~~~~~---~l~~~l-----~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTtR~-~~~  227 (429)
                      .......    . .....++   .+...+     .+.+-++|||+++..  ...+.|+..+....+...+|+++.+ ..+
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            1000000    0 0001111   122221     134568999999744  5577777777665566666665543 333


Q ss_pred             hhhc-CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHHH
Q 048064          228 LRNC-HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGC  288 (429)
Q Consensus       228 ~~~~-~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~~  288 (429)
                      ...+ .....+.+.+++.++....+...+......  -..+.+..+++.++|.+..+.....
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 PATILSRCQRFDFHRHSVADMAAHLRKIAAAEGIN--LEPGALEAIARAATGSMRDAENLLQ  223 (585)
T ss_pred             hHHHHhccceeeCCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            3322 234578899999999999988776443321  1245688899999999976655443

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=98.69  E-value=4.6e-06  Score=83.14  Aligned_cols=184  Identities=16%  Similarity=0.200  Sum_probs=113.5

Q ss_pred             CCCCcccchhhHHHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhc-Ccce--eEEEe---------------e
Q 048064           87 DSKNELVGVESRVEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISR-NFKG--SCFLE---------------N  145 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~-~f~~--~~~~~---------------~  145 (429)
                      ..-.+++|-+...+.|...+.   -.+...++|+.|+||||+|+.+++.+-. ....  .|..+               .
T Consensus        11 ~~fdeiiGqe~v~~~L~~~I~~grl~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C~~C~~~~~~~h~dv~e   90 (535)
T PRK08451         11 KHFDELIGQESVSKTLSLALDNNRLAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTCIQCQSALENRHIDIIE   90 (535)
T ss_pred             CCHHHccCcHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhhcCCCeEEE
Confidence            445789999999999999987   2345689999999999999999987632 1110  00000               0


Q ss_pred             chhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEeC
Q 048064          146 IREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITTR  223 (429)
Q Consensus       146 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTtR  223 (429)
                      ....+  ..+...+.. +.......            -..+++-++|||+++..  +..+.|+..+....+.+.+|++|.
T Consensus        91 ldaas--~~gId~IRe-lie~~~~~------------P~~~~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~t~FIL~tt  155 (535)
T PRK08451         91 MDAAS--NRGIDDIRE-LIEQTKYK------------PSMARFKIFIIDEVHMLTKEAFNALLKTLEEPPSYVKFILATT  155 (535)
T ss_pred             ecccc--ccCHHHHHH-HHHHHhhC------------cccCCeEEEEEECcccCCHHHHHHHHHHHhhcCCceEEEEEEC
Confidence            00000  011111111 11110000            01134568999999844  467778887776667777777665


Q ss_pred             Ch-hhhhh-cCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHH
Q 048064          224 NK-QVLRN-CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILG  287 (429)
Q Consensus       224 ~~-~~~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~  287 (429)
                      +. .+... ......+++.+++.++....+...+......  -..+.+..|++.++|.+.-+..+.
T Consensus       156 d~~kL~~tI~SRc~~~~F~~Ls~~ei~~~L~~Il~~EGi~--i~~~Al~~Ia~~s~GdlR~alnlL  219 (535)
T PRK08451        156 DPLKLPATILSRTQHFRFKQIPQNSIISHLKTILEKEGVS--YEPEALEILARSGNGSLRDTLTLL  219 (535)
T ss_pred             ChhhCchHHHhhceeEEcCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCcHHHHHHHH
Confidence            54 22222 2235689999999999999998776443322  124678899999999996654443

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.69  E-value=2.5e-06  Score=86.01  Aligned_cols=183  Identities=16%  Similarity=0.183  Sum_probs=112.6

Q ss_pred             CCCCcccchhhHHHHHHHhhcC---CCEEEEEcCCCcchHHHHHHHHHHhhcCc---------------------ceeEE
Q 048064           87 DSKNELVGVESRVEEIQSLLGA---APLLGIWGIGGIGKTTIARVIFNRISRNF---------------------KGSCF  142 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~~---~~~v~I~G~~GiGKTtLa~~~~~~~~~~f---------------------~~~~~  142 (429)
                      ....+++|-+..++.|.+.+..   .+.+.++|+.|+||||+|+.+++.+-...                     ...++
T Consensus        13 ~sf~dIiGQe~v~~~L~~ai~~~ri~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~~~pCg~C~sC~~i~~g~hpDv~e   92 (624)
T PRK14959         13 QTFAEVAGQETVKAILSRAAQENRVAPAYLFSGTRGVGKTTIARIFAKALNCETAPTGEPCNTCEQCRKVTQGMHVDVVE   92 (624)
T ss_pred             CCHHHhcCCHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhccccCCCCCCCCcccHHHHHHhcCCCCceEE
Confidence            4456889999999999998872   46788999999999999999998763211                     00111


Q ss_pred             EeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEE
Q 048064          143 LENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILI  220 (429)
Q Consensus       143 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iii  220 (429)
                      +. ...    ...+..+ +.+...+..            .-..+++-++|||+++..  ...+.|+..+........+|+
T Consensus        93 Id-~a~----~~~Id~i-R~L~~~~~~------------~p~~g~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifIL  154 (624)
T PRK14959         93 ID-GAS----NRGIDDA-KRLKEAIGY------------APMEGRYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVL  154 (624)
T ss_pred             Ee-ccc----ccCHHHH-HHHHHHHHh------------hhhcCCceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEE
Confidence            10 000    0111111 111111100            012345679999999855  456777777765445566666


Q ss_pred             EeCC-hhhhhh-cCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCCh-HHHHHHHHh
Q 048064          221 TTRN-KQVLRN-CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVP-LALKILGCY  289 (429)
Q Consensus       221 TtR~-~~~~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P-Lai~~~~~~  289 (429)
                      +|.. ..+... ......+++.+++.++....+...+......  -..+.++.|++.++|.+ .++..+...
T Consensus       155 aTt~~~kll~TI~SRcq~i~F~pLs~~eL~~~L~~il~~egi~--id~eal~lIA~~s~GdlR~Al~lLeql  224 (624)
T PRK14959        155 ATTEPHKFPVTIVSRCQHFTFTRLSEAGLEAHLTKVLGREGVD--YDPAAVRLIARRAAGSVRDSMSLLGQV  224 (624)
T ss_pred             ecCChhhhhHHHHhhhhccccCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            5544 333322 2234578999999999999998766443321  12456888999999976 566665443

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

Probab=98.69  E-value=1.6e-07  Score=76.69  Aligned_cols=110  Identities=21%  Similarity=0.255  Sum_probs=67.9

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcCc----ceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHH----HH
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRNF----KGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHID----LN  180 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f----~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~----~l  180 (429)
                      .+.+.|+|++|+|||+++..+++......    ...+++.++..    ......+...+...+...........    .+
T Consensus         4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~i~~~l~~~~~~~~~~~~l~~~~   79 (131)
T PF13401_consen    4 QRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPS----SRTPRDFAQEILEALGLPLKSRQTSDELRSLL   79 (131)
T ss_dssp             ---EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHH----HSSHHHHHHHHHHHHT-SSSSTS-HHHHHHHH
T ss_pred             CcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCC----CCCHHHHHHHHHHHhCccccccCCHHHHHHHH
Confidence            56799999999999999999999765431    23333333333    33678888888888877744422232    25


Q ss_pred             HHHhcCCc-EEEEecCCCCH-H--HHHHHhccCCCCCCCCEEEEEeCC
Q 048064          181 FRRLSCRK-VLIVLDDVTCL-N--QIESLVGSLDRLLPESRILITTRN  224 (429)
Q Consensus       181 ~~~l~~~~-~LlVlDdv~~~-~--~~~~l~~~l~~~~~~~~iiiTtR~  224 (429)
                      .+.+...+ .+|||||++.. .  .++.+.....  ..+.++|+..+.
T Consensus        80 ~~~l~~~~~~~lviDe~~~l~~~~~l~~l~~l~~--~~~~~vvl~G~~  125 (131)
T PF13401_consen   80 IDALDRRRVVLLVIDEADHLFSDEFLEFLRSLLN--ESNIKVVLVGTP  125 (131)
T ss_dssp             HHHHHHCTEEEEEEETTHHHHTHHHHHHHHHHTC--SCBEEEEEEESS
T ss_pred             HHHHHhcCCeEEEEeChHhcCCHHHHHHHHHHHh--CCCCeEEEEECh
Confidence            55555544 59999999876 2  3333433223  567778777665

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.68  E-value=2.6e-06  Score=86.74  Aligned_cols=192  Identities=16%  Similarity=0.161  Sum_probs=111.2

Q ss_pred             CCCCcccchhhHHHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhcCc--ceeEEEeechhhhhhcCCHHHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISRNF--KGSCFLENIREESQKAGGLAFLQQ  161 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f--~~~~~~~~~~~~~~~~~~~~~~~~  161 (429)
                      ....+++|.+..++.|.+.+.   -.+.+.++|++|+||||+|+.+++.+-..-  ....|.......+.   ... ..+
T Consensus        13 ~~f~eivGQe~i~~~L~~~i~~~ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~~~~Cg---~C~-sC~   88 (620)
T PRK14954         13 SKFADITAQEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEVTEPCG---ECE-SCR   88 (620)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccccCCCCc---cCH-HHH
Confidence            455789999999999999886   245588999999999999999998763211  00001100000000   000 000


Q ss_pred             HHHHH-------Hhc-CCCCCCCHHHHHHHh-----cCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEe-CCh
Q 048064          162 KLLSE-------VLK-DVNVIPHIDLNFRRL-----SCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITT-RNK  225 (429)
Q Consensus       162 ~l~~~-------~~~-~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTt-R~~  225 (429)
                      .+...       +.. .....+.+..+.+.+     .+.+-++|+||++..  ...+.|+..+....+.+.+|++| +..
T Consensus        89 ~~~~g~~~n~~~~d~~s~~~vd~Ir~l~e~~~~~P~~~~~KVvIIdEad~Lt~~a~naLLK~LEePp~~tv~IL~t~~~~  168 (620)
T PRK14954         89 DFDAGTSLNISEFDAASNNSVDDIRQLRENVRYGPQKGRYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHAIFIFATTELH  168 (620)
T ss_pred             HHhccCCCCeEEecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEeChhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChh
Confidence            00000       000 000011122222222     234558899999855  45777888877655566655544 434


Q ss_pred             hhhhh-cCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHH
Q 048064          226 QVLRN-CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALK  284 (429)
Q Consensus       226 ~~~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~  284 (429)
                      .+... ......+++.+++.++....+.+.+......  -..+.+..+++.++|..--+.
T Consensus       169 kLl~TI~SRc~~vef~~l~~~ei~~~L~~i~~~egi~--I~~eal~~La~~s~Gdlr~al  226 (620)
T PRK14954        169 KIPATIASRCQRFNFKRIPLDEIQSQLQMICRAEGIQ--IDADALQLIARKAQGSMRDAQ  226 (620)
T ss_pred             hhhHHHHhhceEEecCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHhCCCHHHHH
Confidence            44433 2346789999999999998887765432211  124568889999999776443

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=98.67  E-value=4.8e-06  Score=78.27  Aligned_cols=187  Identities=17%  Similarity=0.200  Sum_probs=112.6

Q ss_pred             CcccchhhHHHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhc---------------CcceeEEEeechhhhh
Q 048064           90 NELVGVESRVEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISR---------------NFKGSCFLENIREESQ  151 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~---------------~f~~~~~~~~~~~~~~  151 (429)
                      .+++|.+...+.+.+.+.   -.+...++|+.|+||+++|..+++.+-.               .++...|+........
T Consensus         4 ~~iiGq~~~~~~L~~~i~~~rl~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~hPDl~~i~p~~~~~g   83 (314)
T PRK07399          4 ANLIGQPLAIELLTAAIKQNRIAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNHPDLLWVEPTYQHQG   83 (314)
T ss_pred             HHhCCHHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCCCCEEEEeccccccc
Confidence            468999999999999987   2578999999999999999999987532               2233344431100000


Q ss_pred             hcCCHHHHHHHHHHHHh--cCCCC---CCCHHHHHHHhc-----CCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEE
Q 048064          152 KAGGLAFLQQKLLSEVL--KDVNV---IPHIDLNFRRLS-----CRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRIL  219 (429)
Q Consensus       152 ~~~~~~~~~~~l~~~~~--~~~~~---~~~~~~l~~~l~-----~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~ii  219 (429)
                       .. .   ........+  .....   ++.+..+.+.+.     +.+-++|+|+++..  ...+.|+..+...+ .+.+|
T Consensus        84 -~~-~---~~~~~~~~~~~~~~~~~I~id~ir~i~~~l~~~p~~~~~kVvII~~ae~m~~~aaNaLLK~LEEPp-~~~fI  157 (314)
T PRK07399         84 -KL-I---TASEAEEAGLKRKAPPQIRLEQIREIKRFLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLEEPG-NGTLI  157 (314)
T ss_pred             -cc-c---chhhhhhccccccccccCcHHHHHHHHHHHccCcccCCceEEEEEchhhcCHHHHHHHHHHHhCCC-CCeEE
Confidence             00 0   000000110  00001   112223444333     35569999999744  56777888887655 55555


Q ss_pred             E-EeCChhhhhhc-CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHH
Q 048064          220 I-TTRNKQVLRNC-HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILG  287 (429)
Q Consensus       220 i-TtR~~~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~  287 (429)
                      + |+....+++.+ +....+++.+++.++..+.+....... ..    ......++..++|.|.....+.
T Consensus       158 Li~~~~~~Ll~TI~SRcq~i~f~~l~~~~~~~~L~~~~~~~-~~----~~~~~~l~~~a~Gs~~~al~~l  222 (314)
T PRK07399        158 LIAPSPESLLPTIVSRCQIIPFYRLSDEQLEQVLKRLGDEE-IL----NINFPELLALAQGSPGAAIANI  222 (314)
T ss_pred             EEECChHhCcHHHHhhceEEecCCCCHHHHHHHHHHhhccc-cc----hhHHHHHHHHcCCCHHHHHHHH
Confidence            4 44444444433 346789999999999999998764211 11    1113578899999997665443

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

Probab=98.67  E-value=4.7e-06  Score=75.19  Aligned_cols=179  Identities=20%  Similarity=0.281  Sum_probs=113.4

Q ss_pred             CCCCcccchhhHHHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhc--CcceeEEEeechhhhhhcCCHHHHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISR--NFKGSCFLENIREESQKAGGLAFLQQK  162 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~--~f~~~~~~~~~~~~~~~~~~~~~~~~~  162 (429)
                      ....+++|.+..++.|.+.+.  ..+....|||+|.|||+.|..++..+-.  -|++++.-.+.+..    .+.......
T Consensus        33 kt~de~~gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSde----rGisvvr~K  108 (346)
T KOG0989|consen   33 KTFDELAGQEHVVQVLKNALLRRILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDE----RGISVVREK  108 (346)
T ss_pred             CcHHhhcchHHHHHHHHHHHhhcCCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhccccc----ccccchhhh
Confidence            556789999999999999887  6788999999999999999999987532  34544432222221    111100000


Q ss_pred             HHHHHhcCCCCCCCHHHHHHHh------cCCc-EEEEecCCCCH--HHHHHHhccCCCCCCCCE-EEEEeCChhhhhh-c
Q 048064          163 LLSEVLKDVNVIPHIDLNFRRL------SCRK-VLIVLDDVTCL--NQIESLVGSLDRLLPESR-ILITTRNKQVLRN-C  231 (429)
Q Consensus       163 l~~~~~~~~~~~~~~~~l~~~l------~~~~-~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~-iiiTtR~~~~~~~-~  231 (429)
                      +           .....+....      ...+ -++|||+++..  +.|..+...+..+....+ |+||+--..+... .
T Consensus       109 i-----------k~fakl~~~~~~~~~~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s~~trFiLIcnylsrii~pi~  177 (346)
T KOG0989|consen  109 I-----------KNFAKLTVLLKRSDGYPCPPFKIIILDECDSMTSDAQAALRRTMEDFSRTTRFILICNYLSRIIRPLV  177 (346)
T ss_pred             h-----------cCHHHHhhccccccCCCCCcceEEEEechhhhhHHHHHHHHHHHhccccceEEEEEcCChhhCChHHH
Confidence            0           0000010001      0122 58999999865  567778777776666666 4555544333222 1


Q ss_pred             CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHH
Q 048064          232 HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLA  282 (429)
Q Consensus       232 ~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLa  282 (429)
                      +....++.++|..+....-++..+-.++..-  ..+..+.|++.++|--.-
T Consensus       178 SRC~KfrFk~L~d~~iv~rL~~Ia~~E~v~~--d~~al~~I~~~S~GdLR~  226 (346)
T KOG0989|consen  178 SRCQKFRFKKLKDEDIVDRLEKIASKEGVDI--DDDALKLIAKISDGDLRR  226 (346)
T ss_pred             hhHHHhcCCCcchHHHHHHHHHHHHHhCCCC--CHHHHHHHHHHcCCcHHH
Confidence            2345688999999999988888875544322  246788999999986443

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

Probab=98.66  E-value=7.7e-07  Score=93.57  Aligned_cols=148  Identities=14%  Similarity=0.146  Sum_probs=88.4

Q ss_pred             CCcccchhhHHHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhcCc------ceeEEEeechhhhhhc---CCHH
Q 048064           89 KNELVGVESRVEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISRNF------KGSCFLENIREESQKA---GGLA  157 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f------~~~~~~~~~~~~~~~~---~~~~  157 (429)
                      -++++||+++++++.+.|.  ...-+.++|++|+|||++|+.+++++....      ...+|..++.......   ....
T Consensus       181 l~~~igr~~ei~~~~~~L~~~~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~~~~~l~a~~~~~g~~e  260 (731)
T TIGR02639       181 IDPLIGREDELERTIQVLCRRKKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSLDMGSLLAGTKYRGDFE  260 (731)
T ss_pred             CCcccCcHHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEecHHHHhhhccccchHH
Confidence            3579999999999999887  566788999999999999999999874431      2334443332211100   0111


Q ss_pred             HHHHHHHHHHhcCCCCCCCHHHHHHHh-cCCcEEEEecCCCCHH-----------HHHHHhccCCCCCCCCEEEEEeCCh
Q 048064          158 FLQQKLLSEVLKDVNVIPHIDLNFRRL-SCRKVLIVLDDVTCLN-----------QIESLVGSLDRLLPESRILITTRNK  225 (429)
Q Consensus       158 ~~~~~l~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~~~-----------~~~~l~~~l~~~~~~~~iiiTtR~~  225 (429)
                      .-                 +..+...+ ...+.+|+||+++...           ..+.+.+.+..  ...++|-+|...
T Consensus       261 ~~-----------------l~~i~~~~~~~~~~ILfiDEih~l~~~g~~~~~~~~~~~~L~~~l~~--g~i~~IgaTt~~  321 (731)
T TIGR02639       261 ER-----------------LKAVVSEIEKEPNAILFIDEIHTIVGAGATSGGSMDASNLLKPALSS--GKLRCIGSTTYE  321 (731)
T ss_pred             HH-----------------HHHHHHHHhccCCeEEEEecHHHHhccCCCCCccHHHHHHHHHHHhC--CCeEEEEecCHH
Confidence            11                 11222222 2357899999997331           22333333331  223444444332


Q ss_pred             hhh-------hhcCCCeEEEcCCCCHHHHHHHHHHhh
Q 048064          226 QVL-------RNCHINQIYEMKGLGDDHALELFIRHA  255 (429)
Q Consensus       226 ~~~-------~~~~~~~~~~l~~L~~~ea~~L~~~~~  255 (429)
                      +.-       ........+.+++++.++..+++....
T Consensus       322 e~~~~~~~d~al~rRf~~i~v~~p~~~~~~~il~~~~  358 (731)
T TIGR02639       322 EYKNHFEKDRALSRRFQKIDVGEPSIEETVKILKGLK  358 (731)
T ss_pred             HHHHHhhhhHHHHHhCceEEeCCCCHHHHHHHHHHHH
Confidence            110       111234578999999999999998654

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=98.66  E-value=9.3e-07  Score=90.46  Aligned_cols=188  Identities=14%  Similarity=0.196  Sum_probs=110.9

Q ss_pred             CCCCcccchhhHHHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhh---hcCCHHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQ---KAGGLAFLQ  160 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~---~~~~~~~~~  160 (429)
                      .....++|.+..++.|...+.   -.+.+.++|++|+||||+|+.++..+-.......+- .+..+..   ...++.   
T Consensus        15 ~~f~dIiGQe~~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~-pC~~C~~~~~~~~Dvi---   90 (725)
T PRK07133         15 KTFDDIVGQDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLE-PCQECIENVNNSLDII---   90 (725)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCC-chhHHHHhhcCCCcEE---
Confidence            445789999999999999987   355678999999999999999998753211100000 0000000   000000   


Q ss_pred             HHHHHHHhc-CCCCCCCHHHHHHHh-----cCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEE-EeCChhhhhh-
Q 048064          161 QKLLSEVLK-DVNVIPHIDLNFRRL-----SCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILI-TTRNKQVLRN-  230 (429)
Q Consensus       161 ~~l~~~~~~-~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iii-TtR~~~~~~~-  230 (429)
                           .+.. .......+..+...+     .+++-++|+|+++..  ..+..|+..+....+...+|+ |+....+... 
T Consensus        91 -----eidaasn~~vd~IReLie~~~~~P~~g~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~tifILaTte~~KLl~TI  165 (725)
T PRK07133         91 -----EMDAASNNGVDEIRELIENVKNLPTQSKYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEVHKIPLTI  165 (725)
T ss_pred             -----EEeccccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhCCHHHHHHHHHHhhcCCCceEEEEEcCChhhhhHHH
Confidence                 0000 000011122222222     245569999999844  467788877776555665554 4444444433 


Q ss_pred             cCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHH
Q 048064          231 CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKI  285 (429)
Q Consensus       231 ~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~  285 (429)
                      ......+++.+++.++....+...+......  ...+.+..++..++|.+.-+..
T Consensus       166 ~SRcq~ieF~~L~~eeI~~~L~~il~kegI~--id~eAl~~LA~lS~GslR~Als  218 (725)
T PRK07133        166 LSRVQRFNFRRISEDEIVSRLEFILEKENIS--YEKNALKLIAKLSSGSLRDALS  218 (725)
T ss_pred             HhhceeEEccCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHH
Confidence            2335689999999999999988765333211  1235678899999998754433

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=98.64  E-value=1.5e-06  Score=85.86  Aligned_cols=189  Identities=19%  Similarity=0.215  Sum_probs=110.2

Q ss_pred             CCCCcccchhhHHHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhcCcc----eeEEEe-echhhhhhc-CCHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISRNFK----GSCFLE-NIREESQKA-GGLA  157 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~----~~~~~~-~~~~~~~~~-~~~~  157 (429)
                      ..-.+++|.+..++.|.+.+.   -.+.+.++|++|+||||+|+.+++.+...-.    ..|-.+ ++....... .++.
T Consensus        14 ~~~~diiGq~~~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C~~i~~~~~~d~~   93 (451)
T PRK06305         14 QTFSEILGQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASCKEISSGTSLDVL   93 (451)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCCCceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHHHHHhcCCCCceE
Confidence            455789999999999999987   2456889999999999999999987632200    000000 000000000 0000


Q ss_pred             HHHHHHHHHHhc-CCCCCCCHHHHHHH-----hcCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEeCC-hhhh
Q 048064          158 FLQQKLLSEVLK-DVNVIPHIDLNFRR-----LSCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITTRN-KQVL  228 (429)
Q Consensus       158 ~~~~~l~~~~~~-~~~~~~~~~~l~~~-----l~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTtR~-~~~~  228 (429)
                              .+.. .....+.+..+.+.     ..+.+-++|+|+++..  ...+.|+..+....+...+|++|.. ..+.
T Consensus        94 --------~i~g~~~~gid~ir~i~~~l~~~~~~~~~kvvIIdead~lt~~~~n~LLk~lEep~~~~~~Il~t~~~~kl~  165 (451)
T PRK06305         94 --------EIDGASHRGIEDIRQINETVLFTPSKSRYKIYIIDEVHMLTKEAFNSLLKTLEEPPQHVKFFLATTEIHKIP  165 (451)
T ss_pred             --------EeeccccCCHHHHHHHHHHHHhhhhcCCCEEEEEecHHhhCHHHHHHHHHHhhcCCCCceEEEEeCChHhcc
Confidence                    0000 00000111111111     1245678999999744  4566777777665556666665543 3333


Q ss_pred             hh-cCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHH
Q 048064          229 RN-CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKI  285 (429)
Q Consensus       229 ~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~  285 (429)
                      .. ......+++.+++.++....+...+-.....  -..+.+..++..++|.+.-+..
T Consensus       166 ~tI~sRc~~v~f~~l~~~el~~~L~~~~~~eg~~--i~~~al~~L~~~s~gdlr~a~~  221 (451)
T PRK06305        166 GTILSRCQKMHLKRIPEETIIDKLALIAKQEGIE--TSREALLPIARAAQGSLRDAES  221 (451)
T ss_pred             hHHHHhceEEeCCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHH
Confidence            32 2235678999999999999888766433211  1245688899999998754433

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=98.62  E-value=1.1e-06  Score=86.55  Aligned_cols=161  Identities=14%  Similarity=0.096  Sum_probs=96.1

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhhcCcc-eeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCc
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRISRNFK-GSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRK  188 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~-~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~  188 (429)
                      ..+.|+|++|+|||+|++.+++.+.+.++ ..+.+.+.          ..+...+...+..     ...+.+...+....
T Consensus       131 n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~----------~~f~~~~~~~~~~-----~~~~~f~~~~~~~~  195 (440)
T PRK14088        131 NPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITS----------EKFLNDLVDSMKE-----GKLNEFREKYRKKV  195 (440)
T ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH----------HHHHHHHHHHHhc-----ccHHHHHHHHHhcC
Confidence            46999999999999999999998876543 23333222          1222333332221     12334444444455


Q ss_pred             EEEEecCCCCHH----HHHHHhccCCC-CCCCCEEEEEeC-Chhhh--------hhcCCCeEEEcCCCCHHHHHHHHHHh
Q 048064          189 VLIVLDDVTCLN----QIESLVGSLDR-LLPESRILITTR-NKQVL--------RNCHINQIYEMKGLGDDHALELFIRH  254 (429)
Q Consensus       189 ~LlVlDdv~~~~----~~~~l~~~l~~-~~~~~~iiiTtR-~~~~~--------~~~~~~~~~~l~~L~~~ea~~L~~~~  254 (429)
                      -+|+|||++...    .-+.+...+.. ...+..||+||. .+.-+        ..+.....+++++.+.+.-.+++.+.
T Consensus       196 dvLlIDDi~~l~~~~~~q~elf~~~n~l~~~~k~iIitsd~~p~~l~~l~~rL~SR~~~gl~v~i~~pd~e~r~~IL~~~  275 (440)
T PRK14088        196 DVLLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEETRKKIARKM  275 (440)
T ss_pred             CEEEEechhhhcCcHHHHHHHHHHHHHHHHcCCeEEEECCCCHHHHHHHHHHHhhHHhcCceEeeCCCCHHHHHHHHHHH
Confidence            689999997431    11223222211 123456888874 33222        12233457899999999999999888


Q ss_pred             hhcCCCCChhHHHHHHHHHHHhCCChHHHHHHH
Q 048064          255 AFRQNLVDVDYKELSDKVINYAQGVPLALKILG  287 (429)
Q Consensus       255 ~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~  287 (429)
                      +......  -..+.+..|++.+.|+.-.+.-+-
T Consensus       276 ~~~~~~~--l~~ev~~~Ia~~~~~~~R~L~g~l  306 (440)
T PRK14088        276 LEIEHGE--LPEEVLNFVAENVDDNLRRLRGAI  306 (440)
T ss_pred             HHhcCCC--CCHHHHHHHHhccccCHHHHHHHH
Confidence            7433221  124678889999988876665443

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=98.62  E-value=1.4e-06  Score=92.54  Aligned_cols=176  Identities=14%  Similarity=0.122  Sum_probs=98.2

Q ss_pred             CCCCcccchhhHHHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhcCc------ceeEEEeechhhhhh---cCC
Q 048064           87 DSKNELVGVESRVEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISRNF------KGSCFLENIREESQK---AGG  155 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f------~~~~~~~~~~~~~~~---~~~  155 (429)
                      ..-++++||+.+++++.+.|.  ....+.++|++|+||||+|..+++++....      ...+|..++......   ...
T Consensus       184 ~~ld~~iGr~~ei~~~i~~l~r~~~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~l~ag~~~~ge  263 (852)
T TIGR03345       184 GKIDPVLGRDDEIRQMIDILLRRRQNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGLLQAGASVKGE  263 (852)
T ss_pred             CCCCcccCCHHHHHHHHHHHhcCCcCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhhhhcccccchH
Confidence            344689999999999999887  556788999999999999999999875432      122333333221100   011


Q ss_pred             HHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCHH-------HHH---HHhccCCCCCCCCEEEEEeCCh
Q 048064          156 LAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLN-------QIE---SLVGSLDRLLPESRILITTRNK  225 (429)
Q Consensus       156 ~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~-------~~~---~l~~~l~~~~~~~~iiiTtR~~  225 (429)
                      +..-.+.++....               -.+.+.+|+||+++...       +.+   .|.+.+.  ....++|-||...
T Consensus       264 ~e~~lk~ii~e~~---------------~~~~~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp~l~--~G~l~~IgaTT~~  326 (852)
T TIGR03345       264 FENRLKSVIDEVK---------------ASPQPIILFIDEAHTLIGAGGQAGQGDAANLLKPALA--RGELRTIAATTWA  326 (852)
T ss_pred             HHHHHHHHHHHHH---------------hcCCCeEEEEeChHHhccCCCccccccHHHHhhHHhh--CCCeEEEEecCHH
Confidence            1112222222111               02468999999997542       111   2333332  1224455555432


Q ss_pred             hhh-------hhcCCCeEEEcCCCCHHHHHHHHHHhhhc--CCCCChhHHHHHHHHHHHhCCC
Q 048064          226 QVL-------RNCHINQIYEMKGLGDDHALELFIRHAFR--QNLVDVDYKELSDKVINYAQGV  279 (429)
Q Consensus       226 ~~~-------~~~~~~~~~~l~~L~~~ea~~L~~~~~~~--~~~~~~~~~~~~~~i~~~~~G~  279 (429)
                      +.-       ........+.+++++.+++.+++......  ....-.-..+....+++.+.+.
T Consensus       327 e~~~~~~~d~AL~rRf~~i~v~eps~~~~~~iL~~~~~~~e~~~~v~i~d~al~~~~~ls~ry  389 (852)
T TIGR03345       327 EYKKYFEKDPALTRRFQVVKVEEPDEETAIRMLRGLAPVLEKHHGVLILDEAVVAAVELSHRY  389 (852)
T ss_pred             HHhhhhhccHHHHHhCeEEEeCCCCHHHHHHHHHHHHHhhhhcCCCeeCHHHHHHHHHHcccc
Confidence            211       11123568999999999999997543311  1000011234556666666543

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.

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=98.61  E-value=1.3e-06  Score=85.86  Aligned_cols=161  Identities=15%  Similarity=0.157  Sum_probs=95.6

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcCcc-eeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCC
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRNFK-GSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCR  187 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~-~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~  187 (429)
                      ...+.|+|++|+|||+|++.+++.+.+..+ ..+.+.+..          .+...+...+...     ..+.+...+.+ 
T Consensus       136 ~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~~----------~~~~~~~~~~~~~-----~~~~~~~~~~~-  199 (405)
T TIGR00362       136 YNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSSE----------KFTNDFVNALRNN-----KMEEFKEKYRS-  199 (405)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEHH----------HHHHHHHHHHHcC-----CHHHHHHHHHh-
Confidence            346899999999999999999998876543 223222221          1122232222211     23344444543 


Q ss_pred             cEEEEecCCCCHH----HHHHHhccCCCC-CCCCEEEEEeCCh-hh--------hhhcCCCeEEEcCCCCHHHHHHHHHH
Q 048064          188 KVLIVLDDVTCLN----QIESLVGSLDRL-LPESRILITTRNK-QV--------LRNCHINQIYEMKGLGDDHALELFIR  253 (429)
Q Consensus       188 ~~LlVlDdv~~~~----~~~~l~~~l~~~-~~~~~iiiTtR~~-~~--------~~~~~~~~~~~l~~L~~~ea~~L~~~  253 (429)
                      .-+|+|||++...    ..+.+...+... ..+..+|+|+... ..        ...+.....+.+++.+.++-.+++.+
T Consensus       200 ~dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~~~~~iiits~~~p~~l~~l~~~l~SRl~~g~~v~i~~pd~~~r~~il~~  279 (405)
T TIGR00362       200 VDLLLIDDIQFLAGKERTQEEFFHTFNALHENGKQIVLTSDRPPKELPGLEERLRSRFEWGLVVDIEPPDLETRLAILQK  279 (405)
T ss_pred             CCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCCEEEecCCCHHHHhhhhhhhhhhccCCeEEEeCCCCHHHHHHHHHH
Confidence            3488999997432    122233322211 2355677877542 22        22223345789999999999999998


Q ss_pred             hhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHH
Q 048064          254 HAFRQNLVDVDYKELSDKVINYAQGVPLALKILG  287 (429)
Q Consensus       254 ~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~  287 (429)
                      .+......  -..+.+..|++.+.|.+-.+.-+-
T Consensus       280 ~~~~~~~~--l~~e~l~~ia~~~~~~~r~l~~~l  311 (405)
T TIGR00362       280 KAEEEGLE--LPDEVLEFIAKNIRSNVRELEGAL  311 (405)
T ss_pred             HHHHcCCC--CCHHHHHHHHHhcCCCHHHHHHHH
Confidence            87543321  125678888999998887665443

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).

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.61  E-value=1e-05  Score=82.80  Aligned_cols=179  Identities=16%  Similarity=0.197  Sum_probs=111.1

Q ss_pred             CCCCcccchhhHHHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhcCcc----------------------eeE
Q 048064           87 DSKNELVGVESRVEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISRNFK----------------------GSC  141 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~----------------------~~~  141 (429)
                      ..-..++|.+...+.|.+.+.   -.+.+.++|+.|+||||+|+.++..+.....                      ...
T Consensus        14 ~~f~~viGq~~~~~~L~~~i~~~~l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~~~~~~~~~n~~   93 (614)
T PRK14971         14 STFESVVGQEALTTTLKNAIATNKLAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCVAFNEQRSYNIH   93 (614)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHHHHhcCCCCceE
Confidence            445789999999999999987   3456889999999999999999987631100                      000


Q ss_pred             EEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEE
Q 048064          142 FLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRIL  219 (429)
Q Consensus       142 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~ii  219 (429)
                      .+ +...    ......+ +.+...+...            -..+.+-++|||+++..  ...+.|+..+.....++.+|
T Consensus        94 ~l-d~~~----~~~vd~I-r~li~~~~~~------------P~~~~~KVvIIdea~~Ls~~a~naLLK~LEepp~~tifI  155 (614)
T PRK14971         94 EL-DAAS----NNSVDDI-RNLIEQVRIP------------PQIGKYKIYIIDEVHMLSQAAFNAFLKTLEEPPSYAIFI  155 (614)
T ss_pred             Ee-cccc----cCCHHHH-HHHHHHHhhC------------cccCCcEEEEEECcccCCHHHHHHHHHHHhCCCCCeEEE
Confidence            00 0000    0011111 1111111000            01134558899999854  46778888877666666665


Q ss_pred             E-EeCChhhhhh-cCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHH
Q 048064          220 I-TTRNKQVLRN-CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKI  285 (429)
Q Consensus       220 i-TtR~~~~~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~  285 (429)
                      + |+....+... ......+++.+++.++....+...+......  ...+.+..|++.++|...-+..
T Consensus       156 L~tt~~~kIl~tI~SRc~iv~f~~ls~~ei~~~L~~ia~~egi~--i~~~al~~La~~s~gdlr~al~  221 (614)
T PRK14971        156 LATTEKHKILPTILSRCQIFDFNRIQVADIVNHLQYVASKEGIT--AEPEALNVIAQKADGGMRDALS  221 (614)
T ss_pred             EEeCCchhchHHHHhhhheeecCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHH
Confidence            5 4444444443 2345679999999999999998766443322  1235678899999998765433

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=98.61  E-value=2.2e-06  Score=79.64  Aligned_cols=129  Identities=14%  Similarity=0.164  Sum_probs=71.1

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHhhcCc--ceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCc
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRISRNF--KGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRK  188 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~~~~f--~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~  188 (429)
                      .+.++|++|+|||++|+.+++.+....  ....++....         ..+    ........  ......+....  ..
T Consensus        60 ~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~~---------~~l----~~~~~g~~--~~~~~~~~~~a--~~  122 (284)
T TIGR02880        60 HMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVTR---------DDL----VGQYIGHT--APKTKEILKRA--MG  122 (284)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEecH---------HHH----hHhhcccc--hHHHHHHHHHc--cC
Confidence            689999999999999999888764321  1112222000         111    11111110  01111222222  23


Q ss_pred             EEEEecCCCCH-----------HHHHHHhccCCCCCCCCEEEEEeCChhhhhh--c------CCCeEEEcCCCCHHHHHH
Q 048064          189 VLIVLDDVTCL-----------NQIESLVGSLDRLLPESRILITTRNKQVLRN--C------HINQIYEMKGLGDDHALE  249 (429)
Q Consensus       189 ~LlVlDdv~~~-----------~~~~~l~~~l~~~~~~~~iiiTtR~~~~~~~--~------~~~~~~~l~~L~~~ea~~  249 (429)
                      -+|+||+++..           +..+.++..+.....+.+||+++.....-..  .      .....+.+++++.+|..+
T Consensus       123 gvL~iDEi~~L~~~~~~~~~~~~~~~~Ll~~le~~~~~~~vI~a~~~~~~~~~~~~np~L~sR~~~~i~fp~l~~edl~~  202 (284)
T TIGR02880       123 GVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENQRDDLVVILAGYKDRMDSFFESNPGFSSRVAHHVDFPDYSEAELLV  202 (284)
T ss_pred             cEEEEechhhhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhhCHHHHhhCCcEEEeCCcCHHHHHH
Confidence            58999999733           2345555555544455666666654322111  1      124568999999999999


Q ss_pred             HHHHhhh
Q 048064          250 LFIRHAF  256 (429)
Q Consensus       250 L~~~~~~  256 (429)
                      ++...+-
T Consensus       203 I~~~~l~  209 (284)
T TIGR02880       203 IAGLMLK  209 (284)
T ss_pred             HHHHHHH
Confidence            9988763

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.

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

Probab=98.60  E-value=1.9e-06  Score=83.52  Aligned_cols=177  Identities=14%  Similarity=0.191  Sum_probs=99.3

Q ss_pred             CCCCcccchhhHHHHHHHhhc---------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhh
Q 048064           87 DSKNELVGVESRVEEIQSLLG---------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQ  151 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~---------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~  151 (429)
                      ..-.++.|.+...++|.+.+.               .++.+.++|++|+|||+||+.+++.....|-   .+. ....  
T Consensus       142 v~~~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l~~~fi---~i~-~s~l--  215 (398)
T PTZ00454        142 VTYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTATFI---RVV-GSEF--  215 (398)
T ss_pred             CCHHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCEE---EEe-hHHH--
Confidence            334578899999988887653               4678999999999999999999987643321   111 1100  


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCCCCHHH-HHHHhcCCcEEEEecCCCCHH----------------HHHHHhccCCCC--
Q 048064          152 KAGGLAFLQQKLLSEVLKDVNVIPHIDL-NFRRLSCRKVLIVLDDVTCLN----------------QIESLVGSLDRL--  212 (429)
Q Consensus       152 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~-l~~~l~~~~~LlVlDdv~~~~----------------~~~~l~~~l~~~--  212 (429)
                              ....    ...  ....+.. +.......+.+|+||+++...                .+..++..+...  
T Consensus       216 --------~~k~----~ge--~~~~lr~lf~~A~~~~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~~  281 (398)
T PTZ00454        216 --------VQKY----LGE--GPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFDQ  281 (398)
T ss_pred             --------HHHh----cch--hHHHHHHHHHHHHhcCCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhccCC
Confidence                    0000    000  0001111 222234578999999986431                122333333221  


Q ss_pred             CCCCEEEEEeCChhhhhh-----cCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCC-hHHHHHH
Q 048064          213 LPESRILITTRNKQVLRN-----CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGV-PLALKIL  286 (429)
Q Consensus       213 ~~~~~iiiTtR~~~~~~~-----~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~-PLai~~~  286 (429)
                      ..+..||+||.....+..     ......+.++..+.++..++|..+...... ..+  -....++..+.|. |--|+.+
T Consensus       282 ~~~v~VI~aTN~~d~LDpAllR~GRfd~~I~~~~P~~~~R~~Il~~~~~~~~l-~~d--vd~~~la~~t~g~sgaDI~~l  358 (398)
T PTZ00454        282 TTNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKMNL-SEE--VDLEDFVSRPEKISAADIAAI  358 (398)
T ss_pred             CCCEEEEEecCCchhCCHHHcCCCcccEEEEeCCcCHHHHHHHHHHHHhcCCC-Ccc--cCHHHHHHHcCCCCHHHHHHH
Confidence            235567777765543321     124567889999999988888866533221 111  1145566677665 3334433

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=98.60  E-value=1.3e-06  Score=86.90  Aligned_cols=160  Identities=12%  Similarity=0.122  Sum_probs=96.2

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcCcce-eEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCC
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRNFKG-SCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCR  187 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~  187 (429)
                      ...+.|+|++|+|||+|++.+++.+..+++. .+.+.+..          .+...+...+..     ...+.+...+++ 
T Consensus       148 ~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~~----------~~~~~~~~~~~~-----~~~~~~~~~~~~-  211 (450)
T PRK00149        148 YNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTSE----------KFTNDFVNALRN-----NTMEEFKEKYRS-  211 (450)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEHH----------HHHHHHHHHHHc-----CcHHHHHHHHhc-
Confidence            3569999999999999999999998776532 22222221          112222222211     122334445543 


Q ss_pred             cEEEEecCCCCHH----HHHHHhccCCC-CCCCCEEEEEeCCh-h--------hhhhcCCCeEEEcCCCCHHHHHHHHHH
Q 048064          188 KVLIVLDDVTCLN----QIESLVGSLDR-LLPESRILITTRNK-Q--------VLRNCHINQIYEMKGLGDDHALELFIR  253 (429)
Q Consensus       188 ~~LlVlDdv~~~~----~~~~l~~~l~~-~~~~~~iiiTtR~~-~--------~~~~~~~~~~~~l~~L~~~ea~~L~~~  253 (429)
                      .-+|||||++...    ..+.+...+.. ...+..||+||... .        +...+.....+++++++.++..+++..
T Consensus       212 ~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~~~~~~iiits~~~p~~l~~l~~~l~SRl~~gl~v~i~~pd~~~r~~il~~  291 (450)
T PRK00149        212 VDVLLIDDIQFLAGKERTQEEFFHTFNALHEAGKQIVLTSDRPPKELPGLEERLRSRFEWGLTVDIEPPDLETRIAILKK  291 (450)
T ss_pred             CCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHHHhHhcCCeeEEecCCCHHHHHHHHHH
Confidence            4489999996431    12233332211 12345677777643 1        122333456799999999999999998


Q ss_pred             hhhcCCCCChhHHHHHHHHHHHhCCChHHHHHH
Q 048064          254 HAFRQNLVDVDYKELSDKVINYAQGVPLALKIL  286 (429)
Q Consensus       254 ~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~  286 (429)
                      .+......  -..+.++.|++.+.|..-.+.-+
T Consensus       292 ~~~~~~~~--l~~e~l~~ia~~~~~~~R~l~~~  322 (450)
T PRK00149        292 KAEEEGID--LPDEVLEFIAKNITSNVRELEGA  322 (450)
T ss_pred             HHHHcCCC--CCHHHHHHHHcCcCCCHHHHHHH
Confidence            87542211  22467888999999988765444

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=98.59  E-value=8.6e-06  Score=82.41  Aligned_cols=188  Identities=15%  Similarity=0.134  Sum_probs=113.1

Q ss_pred             CCCCcccchhhHHHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhcC-cce--eEEEe-echhhhhh-cCCHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISRN-FKG--SCFLE-NIREESQK-AGGLAF  158 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-f~~--~~~~~-~~~~~~~~-~~~~~~  158 (429)
                      ..-.+++|-+..++.|...+.   -.+.+.++|+.|+||||+|+.+++.+-.. .+.  .|-.+ ++...... ..++..
T Consensus        13 ~~f~diiGqe~iv~~L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~~pC~~C~~C~~i~~~~~~dv~~   92 (563)
T PRK06647         13 RDFNSLEGQDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARAFARCLNCVNGPTPMPCGECSSCKSIDNDNSLDVIE   92 (563)
T ss_pred             CCHHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhccccCCCCCCCccchHHHHHHcCCCCCeEE
Confidence            445789999999999999987   34568899999999999999999976321 000  00000 00000000 000000


Q ss_pred             HHHHHHHHHhcCCCCCCCHHH---HHHH-----hcCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEeCC-hhh
Q 048064          159 LQQKLLSEVLKDVNVIPHIDL---NFRR-----LSCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITTRN-KQV  227 (429)
Q Consensus       159 ~~~~l~~~~~~~~~~~~~~~~---l~~~-----l~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTtR~-~~~  227 (429)
                              +  .......++.   +.+.     ..+++-++|+|+++..  ...+.|+..+....+...+|++|.. ..+
T Consensus        93 --------i--dgas~~~vddIr~l~e~~~~~p~~~~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI~~tte~~kL  162 (563)
T PRK06647         93 --------I--DGASNTSVQDVRQIKEEIMFPPASSRYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTEVHKL  162 (563)
T ss_pred             --------e--cCcccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEEEecCChHHh
Confidence                    0  0000011222   1111     1345668999999855  4577888887765666666665543 333


Q ss_pred             hhhc-CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHH
Q 048064          228 LRNC-HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKIL  286 (429)
Q Consensus       228 ~~~~-~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~  286 (429)
                      ...+ .....+++.+++.++....+...+......  -..+.+..|++.++|.+..+..+
T Consensus       163 ~~tI~SRc~~~~f~~l~~~el~~~L~~i~~~egi~--id~eAl~lLa~~s~GdlR~alsl  220 (563)
T PRK06647        163 PATIKSRCQHFNFRLLSLEKIYNMLKKVCLEDQIK--YEDEALKWIAYKSTGSVRDAYTL  220 (563)
T ss_pred             HHHHHHhceEEEecCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHH
Confidence            3322 234578999999999999998776443322  22466788999999988655443

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=98.59  E-value=1.5e-06  Score=82.42  Aligned_cols=146  Identities=18%  Similarity=0.267  Sum_probs=86.5

Q ss_pred             CCCCcccchhhHHHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKL  163 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l  163 (429)
                      ....+++|.+...+.+..++.   .+..+.++|++|+||||+|+.+++.....+   ..+ +...     .....+ +..
T Consensus        18 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~~~~~~---~~i-~~~~-----~~~~~i-~~~   87 (316)
T PHA02544         18 STIDECILPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEVGAEV---LFV-NGSD-----CRIDFV-RNR   87 (316)
T ss_pred             CcHHHhcCcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHHhCccc---eEe-ccCc-----ccHHHH-HHH
Confidence            455789999999999999887   345677799999999999999998763221   122 2211     011111 111


Q ss_pred             HHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH---HHHHHHhccCCCCCCCCEEEEEeCChhh-hhh-cCCCeEEE
Q 048064          164 LSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL---NQIESLVGSLDRLLPESRILITTRNKQV-LRN-CHINQIYE  238 (429)
Q Consensus       164 ~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~---~~~~~l~~~l~~~~~~~~iiiTtR~~~~-~~~-~~~~~~~~  238 (429)
                      +.......           .+.+.+-++||||++..   +....+...+.....++.+|+||..... .+. .+....+.
T Consensus        88 l~~~~~~~-----------~~~~~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~~~l~~~l~sR~~~i~  156 (316)
T PHA02544         88 LTRFASTV-----------SLTGGGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNKNGIIEPLRSRCRVID  156 (316)
T ss_pred             HHHHHHhh-----------cccCCCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCChhhchHHHHhhceEEE
Confidence            11111000           01134568999999855   2233343334444567788888865422 111 12335678


Q ss_pred             cCCCCHHHHHHHHHH
Q 048064          239 MKGLGDDHALELFIR  253 (429)
Q Consensus       239 l~~L~~~ea~~L~~~  253 (429)
                      ++..+.++..+++..
T Consensus       157 ~~~p~~~~~~~il~~  171 (316)
T PHA02544        157 FGVPTKEEQIEMMKQ  171 (316)
T ss_pred             eCCCCHHHHHHHHHH
Confidence            888888888776654

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=98.58  E-value=4.4e-06  Score=84.75  Aligned_cols=188  Identities=13%  Similarity=0.123  Sum_probs=110.1

Q ss_pred             CCCCcccchhhHHHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhcCcc-e--eEEEe-echhhhhh-cCCHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISRNFK-G--SCFLE-NIREESQK-AGGLAF  158 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~-~--~~~~~-~~~~~~~~-~~~~~~  158 (429)
                      ....+++|.+..++.|.+.+.   -.+.+.++|+.|+||||+|+.+++.+-..-+ .  .|-.+ ++...... ..++..
T Consensus        13 ~~f~~viGq~~v~~~L~~~i~~~~~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~~~pC~~C~~C~~i~~g~~~dv~e   92 (559)
T PRK05563         13 QTFEDVVGQEHITKTLKNAIKQGKISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPDGEPCNECEICKAITNGSLMDVIE   92 (559)
T ss_pred             CcHHhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccHHHHHHhcCCCCCeEE
Confidence            455789999999999999987   3556788999999999999999987532110 0  00000 00000000 000000


Q ss_pred             HHHHHHHHHhcC-CCCCCCHHHHHHHh-----cCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEe-CChhhhh
Q 048064          159 LQQKLLSEVLKD-VNVIPHIDLNFRRL-----SCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITT-RNKQVLR  229 (429)
Q Consensus       159 ~~~~l~~~~~~~-~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTt-R~~~~~~  229 (429)
                              +... ....+.+..+....     .++.-++|||+++..  .....|+..+.....+..+|++| ....+..
T Consensus        93 --------idaas~~~vd~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlatt~~~ki~~  164 (559)
T PRK05563         93 --------IDAASNNGVDEIRDIRDKVKYAPSEAKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTEPHKIPA  164 (559)
T ss_pred             --------eeccccCCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEeCChhhCcH
Confidence                    0000 00011111222221     235568999999855  46778887777655555555544 4333333


Q ss_pred             h-cCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHH
Q 048064          230 N-CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALK  284 (429)
Q Consensus       230 ~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~  284 (429)
                      . .+....+++.+++.++....+...+-.....-  ..+.+..++..++|.+..+.
T Consensus       165 tI~SRc~~~~f~~~~~~ei~~~L~~i~~~egi~i--~~~al~~ia~~s~G~~R~al  218 (559)
T PRK05563        165 TILSRCQRFDFKRISVEDIVERLKYILDKEGIEY--EDEALRLIARAAEGGMRDAL  218 (559)
T ss_pred             HHHhHheEEecCCCCHHHHHHHHHHHHHHcCCCC--CHHHHHHHHHHcCCCHHHHH
Confidence            2 23356788999999999999887764333211  23567788889999886543

>TIGR03689 pup_AAA proteasome ATPase

Probab=98.57  E-value=1.1e-06  Score=87.07  Aligned_cols=155  Identities=17%  Similarity=0.299  Sum_probs=90.5

Q ss_pred             CCCCcccchhhHHHHHHHhhc---------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCc-----ceeEEEeec
Q 048064           87 DSKNELVGVESRVEEIQSLLG---------------AAPLLGIWGIGGIGKTTIARVIFNRISRNF-----KGSCFLENI  146 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~---------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f-----~~~~~~~~~  146 (429)
                      ..-..+.|.+..++++.+.+.               .++-+.++|++|+|||++|+.+++.+...+     ....|+ ++
T Consensus       179 v~~~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~fl-~v  257 (512)
T TIGR03689       179 VTYADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSYFL-NI  257 (512)
T ss_pred             CCHHHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccccccccCCceeEE-ec
Confidence            344668889999999888753               456799999999999999999999876542     122333 22


Q ss_pred             hhhhhhc---CCHHHHHHHHHHHHhcCCCCCCCHHHHHH-HhcCCcEEEEecCCCCHH--------------HHHHHhcc
Q 048064          147 REESQKA---GGLAFLQQKLLSEVLKDVNVIPHIDLNFR-RLSCRKVLIVLDDVTCLN--------------QIESLVGS  208 (429)
Q Consensus       147 ~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~~~~~l~~-~l~~~~~LlVlDdv~~~~--------------~~~~l~~~  208 (429)
                      .......   .......+.++..             ... ...+++.+|+||+++...              .+..|+..
T Consensus       258 ~~~eLl~kyvGete~~ir~iF~~-------------Ar~~a~~g~p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~  324 (512)
T TIGR03689       258 KGPELLNKYVGETERQIRLIFQR-------------AREKASDGRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSE  324 (512)
T ss_pred             cchhhcccccchHHHHHHHHHHH-------------HHHHhhcCCCceEEEehhhhhhcccCCCccchHHHHHHHHHHHH
Confidence            2110000   0011111111111             111 123478999999997431              12344444


Q ss_pred             CCCCC--CCCEEEEEeCChhhhhh-c----CCCeEEEcCCCCHHHHHHHHHHhh
Q 048064          209 LDRLL--PESRILITTRNKQVLRN-C----HINQIYEMKGLGDDHALELFIRHA  255 (429)
Q Consensus       209 l~~~~--~~~~iiiTtR~~~~~~~-~----~~~~~~~l~~L~~~ea~~L~~~~~  255 (429)
                      +....  .+..||.||.....+.. +    .....+.+++.+.++..++|..++
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            43222  33445556654433221 1    335568999999999999998886

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.

>CHL00181 cbbX CbbX; Provisional

Probab=98.57  E-value=3.7e-06  Score=78.08  Aligned_cols=131  Identities=14%  Similarity=0.197  Sum_probs=72.1

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhhcC-c-ceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCC
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRISRN-F-KGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCR  187 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~~~-f-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~  187 (429)
                      ..+.++|++|+||||+|+.+++.+... + ...-++. +.        ...+    ........  ......+....  .
T Consensus        60 ~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~-v~--------~~~l----~~~~~g~~--~~~~~~~l~~a--~  122 (287)
T CHL00181         60 LHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLT-VT--------RDDL----VGQYIGHT--APKTKEVLKKA--M  122 (287)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEE-ec--------HHHH----HHHHhccc--hHHHHHHHHHc--c
Confidence            348899999999999999998875432 1 1111221 10        1111    11111100  00111122222  2


Q ss_pred             cEEEEecCCCCH-----------HHHHHHhccCCCCCCCCEEEEEeCChhhhh------hc--CCCeEEEcCCCCHHHHH
Q 048064          188 KVLIVLDDVTCL-----------NQIESLVGSLDRLLPESRILITTRNKQVLR------NC--HINQIYEMKGLGDDHAL  248 (429)
Q Consensus       188 ~~LlVlDdv~~~-----------~~~~~l~~~l~~~~~~~~iiiTtR~~~~~~------~~--~~~~~~~l~~L~~~ea~  248 (429)
                      .-+|+||+++..           +..+.+...+.....+..||+++....+..      .+  .....+.+++++.+|..
T Consensus       123 ggVLfIDE~~~l~~~~~~~~~~~e~~~~L~~~me~~~~~~~vI~ag~~~~~~~~~~~np~L~sR~~~~i~F~~~t~~el~  202 (287)
T CHL00181        123 GGVLFIDEAYYLYKPDNERDYGSEAIEILLQVMENQRDDLVVIFAGYKDRMDKFYESNPGLSSRIANHVDFPDYTPEELL  202 (287)
T ss_pred             CCEEEEEccchhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhcCHHHHHhCCceEEcCCcCHHHHH
Confidence            349999999743           234555555554445566777765432211      01  23457899999999999


Q ss_pred             HHHHHhhhc
Q 048064          249 ELFIRHAFR  257 (429)
Q Consensus       249 ~L~~~~~~~  257 (429)
                      +++...+-.
T Consensus       203 ~I~~~~l~~  211 (287)
T CHL00181        203 QIAKIMLEE  211 (287)
T ss_pred             HHHHHHHHH
Confidence            999887643

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.57  E-value=2.3e-05  Score=80.29  Aligned_cols=192  Identities=19%  Similarity=0.175  Sum_probs=111.9

Q ss_pred             CCCCcccchhhHHHHHHHhhcC---CCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLGA---APLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKL  163 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~~---~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l  163 (429)
                      .....++|.+..++.|..++..   .+.+.++|+.|+||||+|+.+++.+........-...++.        -...+.+
T Consensus        13 ~~f~~liGq~~i~~~L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~~~~~Cg~--------C~~C~~i   84 (620)
T PRK14948         13 QRFDELVGQEAIATTLKNALISNRIAPAYLFTGPRGTGKTSSARILAKSLNCLNSDKPTPEPCGK--------CELCRAI   84 (620)
T ss_pred             CcHhhccChHHHHHHHHHHHHcCCCCceEEEECCCCCChHHHHHHHHHHhcCCCcCCCCCCCCcc--------cHHHHHH
Confidence            4457899999999999998872   4678999999999999999999976432100000000000        0000011


Q ss_pred             HHHHhc-----C---CCCCCCHHHHHHHh-----cCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEeCCh-hh
Q 048064          164 LSEVLK-----D---VNVIPHIDLNFRRL-----SCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITTRNK-QV  227 (429)
Q Consensus       164 ~~~~~~-----~---~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTtR~~-~~  227 (429)
                      ......     .   ....+.+..+...+     .+++-++|||+++..  ...+.|+..+........+|++|.+. .+
T Consensus        85 ~~g~h~D~~ei~~~~~~~vd~IReii~~a~~~p~~~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~t~~~~~l  164 (620)
T PRK14948         85 AAGNALDVIEIDAASNTGVDNIRELIERAQFAPVQARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLATTDPQRV  164 (620)
T ss_pred             hcCCCccEEEEeccccCCHHHHHHHHHHHhhChhcCCceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEEeCChhhh
Confidence            000000     0   00111111222221     234568999999854  46777887777655555555554443 33


Q ss_pred             hhhc-CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHHH
Q 048064          228 LRNC-HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGC  288 (429)
Q Consensus       228 ~~~~-~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~~  288 (429)
                      ...+ .....+++.+++.++....+.+.+......  -..+.+..+++.++|.+..+..+..
T Consensus       165 lpTIrSRc~~~~f~~l~~~ei~~~L~~ia~kegi~--is~~al~~La~~s~G~lr~A~~lLe  224 (620)
T PRK14948        165 LPTIISRCQRFDFRRIPLEAMVQHLSEIAEKESIE--IEPEALTLVAQRSQGGLRDAESLLD  224 (620)
T ss_pred             hHHHHhheeEEEecCCCHHHHHHHHHHHHHHhCCC--CCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            3332 235678899999999988887766432211  1135678899999998876554443

>CHL00095 clpC Clp protease ATP binding subunit

Probab=98.55  E-value=1.7e-06  Score=92.02  Aligned_cols=145  Identities=18%  Similarity=0.189  Sum_probs=86.4

Q ss_pred             CcccchhhHHHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhcC-c-----ceeEEEeechhhhhhcC---CHHH
Q 048064           90 NELVGVESRVEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISRN-F-----KGSCFLENIREESQKAG---GLAF  158 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-f-----~~~~~~~~~~~~~~~~~---~~~~  158 (429)
                      .+++||+.+++++.+.|.  ....+.++|++|+|||++|..+++++... -     ...+|..+.........   .+..
T Consensus       179 ~~~igr~~ei~~~~~~L~r~~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l~~~~l~ag~~~~ge~e~  258 (821)
T CHL00095        179 DPVIGREKEIERVIQILGRRTKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITLDIGLLLAGTKYRGEFEE  258 (821)
T ss_pred             CCCCCcHHHHHHHHHHHcccccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeHHHHhccCCCccHHHH
Confidence            568999999999999997  55677899999999999999999987532 1     23444443322111000   0111


Q ss_pred             HHHHHHHHHhcCCCCCCCHHHHHHHh-cCCcEEEEecCCCCHH----------HHHHHhccCCCCCCCCEEEEEeCChhh
Q 048064          159 LQQKLLSEVLKDVNVIPHIDLNFRRL-SCRKVLIVLDDVTCLN----------QIESLVGSLDRLLPESRILITTRNKQV  227 (429)
Q Consensus       159 ~~~~l~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~~~----------~~~~l~~~l~~~~~~~~iiiTtR~~~~  227 (429)
                      -                 +..+...+ ..++.+|+||+++...          ..+-|.+.+.  ....++|.+|...+.
T Consensus       259 r-----------------l~~i~~~~~~~~~~ILfiDEih~l~~~g~~~g~~~~a~lLkp~l~--rg~l~~IgaTt~~ey  319 (821)
T CHL00095        259 R-----------------LKRIFDEIQENNNIILVIDEVHTLIGAGAAEGAIDAANILKPALA--RGELQCIGATTLDEY  319 (821)
T ss_pred             H-----------------HHHHHHHHHhcCCeEEEEecHHHHhcCCCCCCcccHHHHhHHHHh--CCCcEEEEeCCHHHH
Confidence            1                 11122222 2467899999996331          1122222222  123455555554432


Q ss_pred             hh-------hcCCCeEEEcCCCCHHHHHHHHHH
Q 048064          228 LR-------NCHINQIYEMKGLGDDHALELFIR  253 (429)
Q Consensus       228 ~~-------~~~~~~~~~l~~L~~~ea~~L~~~  253 (429)
                      ..       .......+.++..+.++...++..
T Consensus       320 ~~~ie~D~aL~rRf~~I~v~ep~~~e~~aILr~  352 (821)
T CHL00095        320 RKHIEKDPALERRFQPVYVGEPSVEETIEILFG  352 (821)
T ss_pred             HHHHhcCHHHHhcceEEecCCCCHHHHHHHHHH
Confidence            11       112346788999999999888764

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.54  E-value=3.2e-06  Score=86.13  Aligned_cols=191  Identities=16%  Similarity=0.182  Sum_probs=110.5

Q ss_pred             CCCCcccchhhHHHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhcC-cc--eeEEEe-echhhhhh-cCCHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISRN-FK--GSCFLE-NIREESQK-AGGLAF  158 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-f~--~~~~~~-~~~~~~~~-~~~~~~  158 (429)
                      ....+++|.+..++.|.+.+.   -.+.+.++|+.|+||||+|+.+++.+-.. ..  ..|-.+ .+...... ..++..
T Consensus        13 ~~f~~iiGq~~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~~~c~~c~~c~~i~~g~~~d~~e   92 (576)
T PRK14965         13 QTFSDLTGQEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKALNCEQGLTAEPCNVCPPCVEITEGRSVDVFE   92 (576)
T ss_pred             CCHHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCCCCCCccHHHHHHhcCCCCCeee
Confidence            455789999999999999987   24567899999999999999999875321 10  000000 00000000 000000


Q ss_pred             HHHHHHHHHhcCCCCCCCHHHHHHHh-----cCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEe-CChhhhhh
Q 048064          159 LQQKLLSEVLKDVNVIPHIDLNFRRL-----SCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITT-RNKQVLRN  230 (429)
Q Consensus       159 ~~~~l~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTt-R~~~~~~~  230 (429)
                      +       .+......+.+..+...+     .++.-++|||+++..  ...+.|+..+....+++.+|++| ....+...
T Consensus        93 i-------d~~s~~~v~~ir~l~~~~~~~p~~~~~KVvIIdev~~Lt~~a~naLLk~LEepp~~~~fIl~t~~~~kl~~t  165 (576)
T PRK14965         93 I-------DGASNTGVDDIRELRENVKYLPSRSRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFATTEPHKVPIT  165 (576)
T ss_pred             e-------eccCccCHHHHHHHHHHHHhccccCCceEEEEEChhhCCHHHHHHHHHHHHcCCCCeEEEEEeCChhhhhHH
Confidence            0       000000011112222222     234458999999854  45777888777666677666544 44444433


Q ss_pred             c-CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChH-HHHHH
Q 048064          231 C-HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPL-ALKIL  286 (429)
Q Consensus       231 ~-~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PL-ai~~~  286 (429)
                      + .....+++.+++.++....+...+......  -..+.+..+++.++|... ++..+
T Consensus       166 I~SRc~~~~f~~l~~~~i~~~L~~i~~~egi~--i~~~al~~la~~a~G~lr~al~~L  221 (576)
T PRK14965        166 ILSRCQRFDFRRIPLQKIVDRLRYIADQEGIS--ISDAALALVARKGDGSMRDSLSTL  221 (576)
T ss_pred             HHHhhhhhhcCCCCHHHHHHHHHHHHHHhCCC--CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            2 234578899999999998887765433321  124567889999999774 44333

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=98.53  E-value=6.9e-06  Score=80.87  Aligned_cols=152  Identities=11%  Similarity=0.126  Sum_probs=88.9

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcE
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKV  189 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~  189 (429)
                      ..+.|+|++|+|||+|++.+++.+......++++. .          ..+...+...+..     ...+.+...++. .-
T Consensus       142 npl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~-~----------~~f~~~~~~~l~~-----~~~~~f~~~~~~-~d  204 (445)
T PRK12422        142 NPIYLFGPEGSGKTHLMQAAVHALRESGGKILYVR-S----------ELFTEHLVSAIRS-----GEMQRFRQFYRN-VD  204 (445)
T ss_pred             ceEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEee-H----------HHHHHHHHHHHhc-----chHHHHHHHccc-CC
Confidence            56899999999999999999998865543344443 1          1122223222221     122334444433 34


Q ss_pred             EEEecCCCCHH----HHHHHhccCCC-CCCCCEEEEEeCC-hh--------hhhhcCCCeEEEcCCCCHHHHHHHHHHhh
Q 048064          190 LIVLDDVTCLN----QIESLVGSLDR-LLPESRILITTRN-KQ--------VLRNCHINQIYEMKGLGDDHALELFIRHA  255 (429)
Q Consensus       190 LlVlDdv~~~~----~~~~l~~~l~~-~~~~~~iiiTtR~-~~--------~~~~~~~~~~~~l~~L~~~ea~~L~~~~~  255 (429)
                      +|+|||++...    ..+.+...+.. ...+..||+||.. +.        +...+.....+++.+++.++...++.+.+
T Consensus       205 vLiIDDiq~l~~k~~~qeelf~l~N~l~~~~k~IIlts~~~p~~l~~l~~rL~SR~~~Gl~~~l~~pd~e~r~~iL~~k~  284 (445)
T PRK12422        205 ALFIEDIEVFSGKGATQEEFFHTFNSLHTEGKLIVISSTCAPQDLKAMEERLISRFEWGIAIPLHPLTKEGLRSFLERKA  284 (445)
T ss_pred             EEEEcchhhhcCChhhHHHHHHHHHHHHHCCCcEEEecCCCHHHHhhhHHHHHhhhcCCeEEecCCCCHHHHHHHHHHHH
Confidence            88899996432    12223222211 1235578887754 22        12223345688999999999999998877


Q ss_pred             hcCCCCChhHHHHHHHHHHHhCCCh
Q 048064          256 FRQNLVDVDYKELSDKVINYAQGVP  280 (429)
Q Consensus       256 ~~~~~~~~~~~~~~~~i~~~~~G~P  280 (429)
                      -.....  -..+...-|+..+.++-
T Consensus       285 ~~~~~~--l~~evl~~la~~~~~di  307 (445)
T PRK12422        285 EALSIR--IEETALDFLIEALSSNV  307 (445)
T ss_pred             HHcCCC--CCHHHHHHHHHhcCCCH
Confidence            443211  12456676777777665

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=98.50  E-value=3.4e-06  Score=84.73  Aligned_cols=160  Identities=14%  Similarity=0.155  Sum_probs=95.5

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhhcCcc-eeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCc
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRISRNFK-GSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRK  188 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~-~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~  188 (429)
                      ..+.|+|..|+|||+|+..+++.+...+. ..+.+...          ..+...+...+..     ...+.+.+.+.+ .
T Consensus       315 NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yita----------eef~~el~~al~~-----~~~~~f~~~y~~-~  378 (617)
T PRK14086        315 NPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSS----------EEFTNEFINSIRD-----GKGDSFRRRYRE-M  378 (617)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeH----------HHHHHHHHHHHHh-----ccHHHHHHHhhc-C
Confidence            45899999999999999999998765432 22332212          2222233222211     112334444443 3


Q ss_pred             EEEEecCCCCH---HH-HHHHhccCCC-CCCCCEEEEEeCCh---------hhhhhcCCCeEEEcCCCCHHHHHHHHHHh
Q 048064          189 VLIVLDDVTCL---NQ-IESLVGSLDR-LLPESRILITTRNK---------QVLRNCHINQIYEMKGLGDDHALELFIRH  254 (429)
Q Consensus       189 ~LlVlDdv~~~---~~-~~~l~~~l~~-~~~~~~iiiTtR~~---------~~~~~~~~~~~~~l~~L~~~ea~~L~~~~  254 (429)
                      -+|||||++..   +. -+.|...+.. ...+..|||||...         .+...+...-++.|.+.+.+.-.+++.+.
T Consensus       379 DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~gk~IIITSd~~P~eL~~l~~rL~SRf~~GLvv~I~~PD~EtR~aIL~kk  458 (617)
T PRK14086        379 DILLVDDIQFLEDKESTQEEFFHTFNTLHNANKQIVLSSDRPPKQLVTLEDRLRNRFEWGLITDVQPPELETRIAILRKK  458 (617)
T ss_pred             CEEEEehhccccCCHHHHHHHHHHHHHHHhcCCCEEEecCCChHhhhhccHHHHhhhhcCceEEcCCCCHHHHHHHHHHH
Confidence            47889999633   11 1223332221 13356688888753         22333455678999999999999999988


Q ss_pred             hhcCCCCChhHHHHHHHHHHHhCCChHHHHHHH
Q 048064          255 AFRQNLVDVDYKELSDKVINYAQGVPLALKILG  287 (429)
Q Consensus       255 ~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~  287 (429)
                      +......  -..++++-|++.+.++.-.|.-+.
T Consensus       459 a~~r~l~--l~~eVi~yLa~r~~rnvR~LegaL  489 (617)
T PRK14086        459 AVQEQLN--APPEVLEFIASRISRNIRELEGAL  489 (617)
T ss_pred             HHhcCCC--CCHHHHHHHHHhccCCHHHHHHHH
Confidence            7443322  225678888888887766554443

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

Probab=98.49  E-value=1.6e-06  Score=84.66  Aligned_cols=174  Identities=19%  Similarity=0.275  Sum_probs=98.0

Q ss_pred             CcccchhhHHHHHHHhhc---------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhc-
Q 048064           90 NELVGVESRVEEIQSLLG---------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKA-  153 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~---------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~-  153 (429)
                      .++.|.+..+++|.+.+.               .++.+.++|++|+|||++|+.+++.....|-   .+. ........ 
T Consensus       183 ~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el~~~fi---~V~-~seL~~k~~  258 (438)
T PTZ00361        183 ADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSATFL---RVV-GSELIQKYL  258 (438)
T ss_pred             HHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhhCCCEE---EEe-cchhhhhhc
Confidence            567899999999888763               3567899999999999999999998755431   111 11000000 


Q ss_pred             CCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCHH----------------HHHHHhccCCCC--CCC
Q 048064          154 GGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLN----------------QIESLVGSLDRL--LPE  215 (429)
Q Consensus       154 ~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~----------------~~~~l~~~l~~~--~~~  215 (429)
                      .......+.+                +.....+.+.+|+||+++...                .+..++..+..+  ..+
T Consensus       259 Ge~~~~vr~l----------------F~~A~~~~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~~~~~~  322 (438)
T PTZ00361        259 GDGPKLVREL----------------FRVAEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFDSRGD  322 (438)
T ss_pred             chHHHHHHHH----------------HHHHHhCCCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHhhhcccCC
Confidence            0001111111                112223567899999985321                112222222211  235


Q ss_pred             CEEEEEeCChhhhhh-c----CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCCh-HHHHHH
Q 048064          216 SRILITTRNKQVLRN-C----HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVP-LALKIL  286 (429)
Q Consensus       216 ~~iiiTtR~~~~~~~-~----~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P-Lai~~~  286 (429)
                      ..||+||.....+.. +    .....+.+++.+.++..++|..+...-.... +  -....++..+.|.- ..|..+
T Consensus       323 V~VI~ATNr~d~LDpaLlRpGRfd~~I~~~~Pd~~~R~~Il~~~~~k~~l~~-d--vdl~~la~~t~g~sgAdI~~i  396 (438)
T PTZ00361        323 VKVIMATNRIESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTSKMTLAE-D--VDLEEFIMAKDELSGADIKAI  396 (438)
T ss_pred             eEEEEecCChHHhhHHhccCCeeEEEEEeCCCCHHHHHHHHHHHHhcCCCCc-C--cCHHHHHHhcCCCCHHHHHHH
Confidence            567777765544322 1    2356789999999999999987763322111 1  11345666665543 334433

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=98.49  E-value=3.6e-06  Score=79.49  Aligned_cols=94  Identities=14%  Similarity=0.170  Sum_probs=65.5

Q ss_pred             CcEEEEecCCC--CHHHHHHHhccCCCCCCCCEEEEEeCCh-hhhhhc-CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCC
Q 048064          187 RKVLIVLDDVT--CLNQIESLVGSLDRLLPESRILITTRNK-QVLRNC-HINQIYEMKGLGDDHALELFIRHAFRQNLVD  262 (429)
Q Consensus       187 ~~~LlVlDdv~--~~~~~~~l~~~l~~~~~~~~iiiTtR~~-~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~  262 (429)
                      ++-++|||+++  +.+..+.++..+....+++.+|++|.+. .+++.+ +....+.+.+++.+++.+.+.....  ... 
T Consensus       106 ~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SRc~~~~~~~~~~~~~~~~L~~~~~--~~~-  182 (328)
T PRK05707        106 GRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRCQQQACPLPSNEESLQWLQQALP--ESD-  182 (328)
T ss_pred             CCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhhceeeeCCCcCHHHHHHHHHHhcc--cCC-
Confidence            34466789998  4567888888888766777777777665 344332 3456799999999999999976531  111 


Q ss_pred             hhHHHHHHHHHHHhCCChHHHHHH
Q 048064          263 VDYKELSDKVINYAQGVPLALKIL  286 (429)
Q Consensus       263 ~~~~~~~~~i~~~~~G~PLai~~~  286 (429)
                         .+.+..++..++|.|+....+
T Consensus       183 ---~~~~~~~l~la~Gsp~~A~~l  203 (328)
T PRK05707        183 ---ERERIELLTLAGGSPLRALQL  203 (328)
T ss_pred             ---hHHHHHHHHHcCCCHHHHHHH
Confidence               234567788999999765444

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

Probab=98.48  E-value=2.4e-05  Score=69.29  Aligned_cols=51  Identities=22%  Similarity=0.429  Sum_probs=42.8

Q ss_pred             CCCCcccchhhHHHHHHHhhc------CCCEEEEEcCCCcchHHHHHHHHHHhhcCc
Q 048064           87 DSKNELVGVESRVEEIQSLLG------AAPLLGIWGIGGIGKTTIARVIFNRISRNF  137 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f  137 (429)
                      .....++|.+.+.+.|.+-..      +...+.++|..|+|||++++.+.+.+...-
T Consensus        24 ~~l~~L~Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y~~~G   80 (249)
T PF05673_consen   24 IRLDDLIGIERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEYADQG   80 (249)
T ss_pred             CCHHHhcCHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHHhhcC
Confidence            556789999999998877543      667799999999999999999999886654

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=98.48  E-value=4.5e-06  Score=89.22  Aligned_cols=151  Identities=12%  Similarity=0.078  Sum_probs=86.8

Q ss_pred             CCCcccchhhHHHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhcCc------ceeEEEeechhhhhhcCCHHHH
Q 048064           88 SKNELVGVESRVEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISRNF------KGSCFLENIREESQKAGGLAFL  159 (429)
Q Consensus        88 ~~~~~vGR~~~~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f------~~~~~~~~~~~~~~~~~~~~~~  159 (429)
                      .-++++||+.+++++...|.  ....+.++|++|+|||++|..+++++....      ...+|..++............ 
T Consensus       171 ~~~~~igr~~ei~~~~~~l~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l~~~~l~a~~~~~g~-  249 (852)
T TIGR03346       171 KLDPVIGRDEEIRRTIQVLSRRTKNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLALDMGALIAGAKYRGE-  249 (852)
T ss_pred             CCCcCCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEeeHHHHhhcchhhhh-
Confidence            34679999999999999887  556778999999999999999999875431      223443333221100000000 


Q ss_pred             HHHHHHHHhcCCCCCCCHHHHHHHhc--CCcEEEEecCCCCHH----------HHHHHhccCCCCCCCCEEEEEeCChhh
Q 048064          160 QQKLLSEVLKDVNVIPHIDLNFRRLS--CRKVLIVLDDVTCLN----------QIESLVGSLDRLLPESRILITTRNKQV  227 (429)
Q Consensus       160 ~~~l~~~~~~~~~~~~~~~~l~~~l~--~~~~LlVlDdv~~~~----------~~~~l~~~l~~~~~~~~iiiTtR~~~~  227 (429)
                                   ....+..+...+.  +++.+|+||+++...          ..+.+.+.+.  ....++|.+|.....
T Consensus       250 -------------~e~~l~~~l~~~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~~~Lk~~l~--~g~i~~IgaTt~~e~  314 (852)
T TIGR03346       250 -------------FEERLKAVLNEVTKSEGQIILFIDELHTLVGAGKAEGAMDAGNMLKPALA--RGELHCIGATTLDEY  314 (852)
T ss_pred             -------------HHHHHHHHHHHHHhcCCCeEEEeccHHHhhcCCCCcchhHHHHHhchhhh--cCceEEEEeCcHHHH
Confidence                         0011112222222  368999999997442          1222222221  122344444443322


Q ss_pred             hh-------hcCCCeEEEcCCCCHHHHHHHHHHh
Q 048064          228 LR-------NCHINQIYEMKGLGDDHALELFIRH  254 (429)
Q Consensus       228 ~~-------~~~~~~~~~l~~L~~~ea~~L~~~~  254 (429)
                      -.       .......+.++..+.++...++...
T Consensus       315 r~~~~~d~al~rRf~~i~v~~p~~~~~~~iL~~~  348 (852)
T TIGR03346       315 RKYIEKDAALERRFQPVFVDEPTVEDTISILRGL  348 (852)
T ss_pred             HHHhhcCHHHHhcCCEEEeCCCCHHHHHHHHHHH
Confidence            11       1123456889999999999988754

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.

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

Probab=98.46  E-value=4e-06  Score=77.28  Aligned_cols=170  Identities=16%  Similarity=0.275  Sum_probs=99.9

Q ss_pred             CcccchhhHHHHHHHhhc---------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcC
Q 048064           90 NELVGVESRVEEIQSLLG---------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAG  154 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~---------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~  154 (429)
                      ..+=|-+..+++|.+...               .++-|.+|||||.|||-||++++++...     .|+..++.      
T Consensus       151 ~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T~A-----tFIrvvgS------  219 (406)
T COG1222         151 EDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTDA-----TFIRVVGS------  219 (406)
T ss_pred             hhccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhccCc-----eEEEeccH------
Confidence            356688999999988764               6788999999999999999999998643     33332211      


Q ss_pred             CHHHHHHHHHHHHhcCCCCCCCHHHHHHHhc-CCcEEEEecCCCCHH----------------HHHHHhccCCCCC--CC
Q 048064          155 GLAFLQQKLLSEVLKDVNVIPHIDLNFRRLS-CRKVLIVLDDVTCLN----------------QIESLVGSLDRLL--PE  215 (429)
Q Consensus       155 ~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~-~~~~LlVlDdv~~~~----------------~~~~l~~~l~~~~--~~  215 (429)
                        .-+++-+.       ....-+.++....+ ..+.+|++|++|...                ..-+|+..+..|.  .+
T Consensus       220 --ElVqKYiG-------EGaRlVRelF~lArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~~~n  290 (406)
T COG1222         220 --ELVQKYIG-------EGARLVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDPRGN  290 (406)
T ss_pred             --HHHHHHhc-------cchHHHHHHHHHHhhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCCCCCC
Confidence              11111111       11111223333333 468999999996331                1223444444443  45


Q ss_pred             CEEEEEeCChhhh-----hhcCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHH
Q 048064          216 SRILITTRNKQVL-----RNCHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLA  282 (429)
Q Consensus       216 ~~iiiTtR~~~~~-----~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLa  282 (429)
                      .+||..|...+.+     ..-...+.++++.-+.+.-.++|.-|.. ......+.  -.+.+++.+.|.--|
T Consensus       291 vKVI~ATNR~D~LDPALLRPGR~DRkIEfplPd~~gR~~Il~IHtr-kM~l~~dv--d~e~la~~~~g~sGA  359 (406)
T COG1222         291 VKVIMATNRPDILDPALLRPGRFDRKIEFPLPDEEGRAEILKIHTR-KMNLADDV--DLELLARLTEGFSGA  359 (406)
T ss_pred             eEEEEecCCccccChhhcCCCcccceeecCCCCHHHHHHHHHHHhh-hccCccCc--CHHHHHHhcCCCchH
Confidence            6788766544332     2224566788886777777777776652 22222111  145677777776533

>CHL00176 ftsH cell division protein; Validated

Probab=98.45  E-value=8.8e-06  Score=83.39  Aligned_cols=177  Identities=15%  Similarity=0.182  Sum_probs=101.4

Q ss_pred             CCCcccchhhHHHHHHHhhc--------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhc
Q 048064           88 SKNELVGVESRVEEIQSLLG--------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKA  153 (429)
Q Consensus        88 ~~~~~vGR~~~~~~l~~~l~--------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~  153 (429)
                      ...++.|.+...+++.+.+.              .++-+.++|++|+|||+||+.++......|    +..+....    
T Consensus       181 ~f~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~~~p~----i~is~s~f----  252 (638)
T CHL00176        181 TFRDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVPF----FSISGSEF----  252 (638)
T ss_pred             CHHhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCCe----eeccHHHH----
Confidence            34678898888887777653              245799999999999999999998753221    11111110    


Q ss_pred             CCHHHHHHHHHHHHhcCCCCCCCHHH-HHHHhcCCcEEEEecCCCCHH----------------HHHHHhccCCCC--CC
Q 048064          154 GGLAFLQQKLLSEVLKDVNVIPHIDL-NFRRLSCRKVLIVLDDVTCLN----------------QIESLVGSLDRL--LP  214 (429)
Q Consensus       154 ~~~~~~~~~l~~~~~~~~~~~~~~~~-l~~~l~~~~~LlVlDdv~~~~----------------~~~~l~~~l~~~--~~  214 (429)
                            .....    .  .....+.. +.......+.+|+|||+|...                .+..++..+..+  ..
T Consensus       253 ------~~~~~----g--~~~~~vr~lF~~A~~~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~~~  320 (638)
T CHL00176        253 ------VEMFV----G--VGAARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGNK  320 (638)
T ss_pred             ------HHHhh----h--hhHHHHHHHHHHHhcCCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccCCC
Confidence                  00000    0  00011222 333345678999999996441                123343333222  23


Q ss_pred             CCEEEEEeCChhhhhh-----cCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCC-ChHHHHHHH
Q 048064          215 ESRILITTRNKQVLRN-----CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQG-VPLALKILG  287 (429)
Q Consensus       215 ~~~iiiTtR~~~~~~~-----~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G-~PLai~~~~  287 (429)
                      +..||.||...+.+..     ......+.++..+.++-.+++..++......   .......++..+.| .+--|..+.
T Consensus       321 ~ViVIaaTN~~~~LD~ALlRpGRFd~~I~v~lPd~~~R~~IL~~~l~~~~~~---~d~~l~~lA~~t~G~sgaDL~~lv  396 (638)
T CHL00176        321 GVIVIAATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARNKKLS---PDVSLELIARRTPGFSGADLANLL  396 (638)
T ss_pred             CeeEEEecCchHhhhhhhhccccCceEEEECCCCHHHHHHHHHHHHhhcccc---hhHHHHHHHhcCCCCCHHHHHHHH
Confidence            4456666655433221     1234678899999999999998887442211   12345677778777 444444433

>PRK10865 protein disaggregation chaperone; Provisional

Probab=98.43  E-value=4.3e-06  Score=89.05  Aligned_cols=151  Identities=13%  Similarity=0.099  Sum_probs=86.6

Q ss_pred             CCCCcccchhhHHHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhcCc------ceeEEEeechhhhhhc---CC
Q 048064           87 DSKNELVGVESRVEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISRNF------KGSCFLENIREESQKA---GG  155 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f------~~~~~~~~~~~~~~~~---~~  155 (429)
                      ..-++++||+.+++++.+.|.  ....+.++|++|+|||++|..++.++....      ...++..++.......   ..
T Consensus       175 ~~l~~vigr~~ei~~~i~iL~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~l~~l~ag~~~~g~  254 (857)
T PRK10865        175 GKLDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYRGE  254 (857)
T ss_pred             CCCCcCCCCHHHHHHHHHHHhcCCcCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEehhhhhhccchhhh
Confidence            334679999999999999887  556788999999999999999999875421      2334443333211100   11


Q ss_pred             HHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCHH----------HHHHHhccCCCCCCCCEEEEEeCCh
Q 048064          156 LAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLN----------QIESLVGSLDRLLPESRILITTRNK  225 (429)
Q Consensus       156 ~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~----------~~~~l~~~l~~~~~~~~iiiTtR~~  225 (429)
                      +..-.+.++..+.               -.+.+.+|++|+++...          ..+-+.+.+.  ....++|-+|...
T Consensus       255 ~e~~lk~~~~~~~---------------~~~~~~ILfIDEih~l~~~~~~~~~~d~~~~lkp~l~--~g~l~~IgaTt~~  317 (857)
T PRK10865        255 FEERLKGVLNDLA---------------KQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALA--RGELHCVGATTLD  317 (857)
T ss_pred             hHHHHHHHHHHHH---------------HcCCCeEEEEecHHHhccCCCCccchhHHHHhcchhh--cCCCeEEEcCCCH
Confidence            1111222222110               12467999999997552          1222333332  1233455444433


Q ss_pred             hhh-------hhcCCCeEEEcCCCCHHHHHHHHHHh
Q 048064          226 QVL-------RNCHINQIYEMKGLGDDHALELFIRH  254 (429)
Q Consensus       226 ~~~-------~~~~~~~~~~l~~L~~~ea~~L~~~~  254 (429)
                      +..       ........+.+...+.++...++...
T Consensus       318 e~r~~~~~d~al~rRf~~i~v~eP~~~~~~~iL~~l  353 (857)
T PRK10865        318 EYRQYIEKDAALERRFQKVFVAEPSVEDTIAILRGL  353 (857)
T ss_pred             HHHHHhhhcHHHHhhCCEEEeCCCCHHHHHHHHHHH
Confidence            221       11122345667777889998888654

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

Probab=98.41  E-value=8.2e-06  Score=80.42  Aligned_cols=187  Identities=17%  Similarity=0.212  Sum_probs=114.6

Q ss_pred             CCCCcccchhhHHHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhcCc-c--eeEEEe-echhhhhhcCCHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISRNF-K--GSCFLE-NIREESQKAGGLAFL  159 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f-~--~~~~~~-~~~~~~~~~~~~~~~  159 (429)
                      ....+++|-+.....|.+.+.   -.+.....|+.|+||||+|+.++..+--.- +  ..|--+ .+.....  .....+
T Consensus        13 ~~F~evvGQe~v~~~L~nal~~~ri~hAYlfsG~RGvGKTt~Ari~AkalNC~~~~~~ePC~~C~~Ck~I~~--g~~~Dv   90 (515)
T COG2812          13 KTFDDVVGQEHVVKTLSNALENGRIAHAYLFSGPRGVGKTTIARILAKALNCENGPTAEPCGKCISCKEINE--GSLIDV   90 (515)
T ss_pred             ccHHHhcccHHHHHHHHHHHHhCcchhhhhhcCCCCcCchhHHHHHHHHhcCCCCCCCCcchhhhhhHhhhc--CCcccc
Confidence            344678999999999999997   344578999999999999999998642110 0  001000 0000000  000000


Q ss_pred             HHHHHHHHhcCCCCCCCHHHHHHHhc-----CCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEeCCh-hhhhh-
Q 048064          160 QQKLLSEVLKDVNVIPHIDLNFRRLS-----CRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITTRNK-QVLRN-  230 (429)
Q Consensus       160 ~~~l~~~~~~~~~~~~~~~~l~~~l~-----~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTtR~~-~~~~~-  230 (429)
                      .    .--......++++..+.+...     ++.-++|||+|+..  ..+.+|+..+....++...|+.|.+. .+... 
T Consensus        91 i----EiDaASn~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIlATTe~~Kip~TI  166 (515)
T COG2812          91 I----EIDAASNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATTEPQKIPNTI  166 (515)
T ss_pred             h----hhhhhhccChHHHHHHHHHhccCCccccceEEEEecHHhhhHHHHHHHhcccccCccCeEEEEecCCcCcCchhh
Confidence            0    000000122333333444433     34569999999855  57899999998877788777666554 33322 


Q ss_pred             cCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChH
Q 048064          231 CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPL  281 (429)
Q Consensus       231 ~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PL  281 (429)
                      ++..+.|.+..++.++-...+...+......  -..+....|.+..+|...
T Consensus       167 lSRcq~f~fkri~~~~I~~~L~~i~~~E~I~--~e~~aL~~ia~~a~Gs~R  215 (515)
T COG2812         167 LSRCQRFDFKRLDLEEIAKHLAAILDKEGIN--IEEDALSLIARAAEGSLR  215 (515)
T ss_pred             hhccccccccCCCHHHHHHHHHHHHHhcCCc--cCHHHHHHHHHHcCCChh
Confidence            3456789999999999999888877444322  224556777777777554

>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=98.40  E-value=4e-06  Score=68.31  Aligned_cols=23  Identities=35%  Similarity=0.525  Sum_probs=21.3

Q ss_pred             EEEEcCCCcchHHHHHHHHHHhh
Q 048064          112 LGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      |.|+|++|+|||++|+.+++.+.
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            67999999999999999999974

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 ....

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

Probab=98.39  E-value=4.1e-06  Score=87.31  Aligned_cols=149  Identities=15%  Similarity=0.170  Sum_probs=84.2

Q ss_pred             CcccchhhHHHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhcCc------ceeEEEeechhhhhhcCCHHHHHH
Q 048064           90 NELVGVESRVEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISRNF------KGSCFLENIREESQKAGGLAFLQQ  161 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f------~~~~~~~~~~~~~~~~~~~~~~~~  161 (429)
                      ..++||+.+++++.+.|.  ....+.++|++|+|||++|+.+++++....      ...+|..+...          +  
T Consensus       186 ~~liGR~~ei~~~i~iL~r~~~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l~~~~----------l--  253 (758)
T PRK11034        186 DPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGS----------L--  253 (758)
T ss_pred             CcCcCCCHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEeccHHH----------H--
Confidence            469999999999999887  455678999999999999999998764321      12223221111          0  


Q ss_pred             HHHHHHhcCCCCCCCHHHHHHHh-cCCcEEEEecCCCCH----------HHHH-HHhccCCCCCCCCEEEEEeCChhhhh
Q 048064          162 KLLSEVLKDVNVIPHIDLNFRRL-SCRKVLIVLDDVTCL----------NQIE-SLVGSLDRLLPESRILITTRNKQVLR  229 (429)
Q Consensus       162 ~l~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~~----------~~~~-~l~~~l~~~~~~~~iiiTtR~~~~~~  229 (429)
                        +............+..+...+ ...+.+|+||+++..          .... .+.+.+.  ....++|-+|...+...
T Consensus       254 --laG~~~~Ge~e~rl~~l~~~l~~~~~~ILfIDEIh~L~g~g~~~~g~~d~~nlLkp~L~--~g~i~vIgATt~~E~~~  329 (758)
T PRK11034        254 --LAGTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS--SGKIRVIGSTTYQEFSN  329 (758)
T ss_pred             --hcccchhhhHHHHHHHHHHHHHhcCCCEEEeccHHHHhccCCCCCcHHHHHHHHHHHHh--CCCeEEEecCChHHHHH
Confidence              000000000011112222222 345689999999743          1111 1222222  12334444443332110


Q ss_pred             -------hcCCCeEEEcCCCCHHHHHHHHHHh
Q 048064          230 -------NCHINQIYEMKGLGDDHALELFIRH  254 (429)
Q Consensus       230 -------~~~~~~~~~l~~L~~~ea~~L~~~~  254 (429)
                             ..+..+.+.+++++.+++.+++...
T Consensus       330 ~~~~D~AL~rRFq~I~v~ePs~~~~~~IL~~~  361 (758)
T PRK11034        330 IFEKDRALARRFQKIDITEPSIEETVQIINGL  361 (758)
T ss_pred             HhhccHHHHhhCcEEEeCCCCHHHHHHHHHHH
Confidence                   1123467999999999999998854

>PF10443 RNA12: RNA12 protein; InterPro: IPR018850 Mitochondrial escape protein 2 (also known as RNA12) plays a role in maintaining the mitochondrial genome and in controlling mtDNA escape [, ]

Probab=98.38  E-value=0.00028  Score=67.54  Aligned_cols=101  Identities=9%  Similarity=0.047  Sum_probs=67.6

Q ss_pred             cEEEEecCCCCH-----------HHHHHHhccCCCCCCCCEEEEEeCChhhhhh----c--CCCeEEEcCCCCHHHHHHH
Q 048064          188 KVLIVLDDVTCL-----------NQIESLVGSLDRLLPESRILITTRNKQVLRN----C--HINQIYEMKGLGDDHALEL  250 (429)
Q Consensus       188 ~~LlVlDdv~~~-----------~~~~~l~~~l~~~~~~~~iiiTtR~~~~~~~----~--~~~~~~~l~~L~~~ea~~L  250 (429)
                      +-++||||+...           .+|...+..    .+-.+||+.|-+......    +  .....+.|...+++.|.++
T Consensus       149 ~PVVVIdnF~~k~~~~~~iy~~laeWAa~Lv~----~nIAHVIFlT~dv~~~k~LskaLPn~vf~tI~L~Das~~~Ak~y  224 (431)
T PF10443_consen  149 RPVVVIDNFLHKAEENDFIYDKLAEWAASLVQ----NNIAHVIFLTDDVSYSKPLSKALPNRVFKTISLSDASPESAKQY  224 (431)
T ss_pred             CCEEEEcchhccCcccchHHHHHHHHHHHHHh----cCccEEEEECCCCchhhhHHHhCCCCceeEEeecCCCHHHHHHH
Confidence            568999999422           123322221    345678888876543322    2  2466788999999999999


Q ss_pred             HHHhhhcCCCC------------------ChhHHHHHHHHHHHhCCChHHHHHHHHhhcC
Q 048064          251 FIRHAFRQNLV------------------DVDYKELSDKVINYAQGVPLALKILGCYLFE  292 (429)
Q Consensus       251 ~~~~~~~~~~~------------------~~~~~~~~~~i~~~~~G~PLai~~~~~~l~~  292 (429)
                      ...++......                  ...........++.+||--.-|..+++.++.
T Consensus       225 V~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~eld~~i~~LGGRltDLe~lvrRiks  284 (431)
T PF10443_consen  225 VLSQLDEDTEDSSDSKESNEQNKNDKSAENEKDLAELDECIEPLGGRLTDLEFLVRRIKS  284 (431)
T ss_pred             HHHHhcccccccccccccccccccccccccccchHHHHHHHHHcCCcHHHHHHHHHHHHc
Confidence            99887443110                  0124455677888999999999999998865

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 [].

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=98.37  E-value=1.6e-05  Score=80.09  Aligned_cols=178  Identities=15%  Similarity=0.154  Sum_probs=98.0

Q ss_pred             CCCCcccchhhHHHHHHHhhc--------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhh
Q 048064           87 DSKNELVGVESRVEEIQSLLG--------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQK  152 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~--------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~  152 (429)
                      ..-.+++|-+...+++.+.+.              .++-+.++|++|+|||+||+.++....-.|    +..+...    
T Consensus        52 ~~~~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~~~~~----~~i~~~~----  123 (495)
T TIGR01241        52 VTFKDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPF----FSISGSD----  123 (495)
T ss_pred             CCHHHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCCe----eeccHHH----
Confidence            344678888887776665443              345699999999999999999998753222    1111111    


Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCCCHHH-HHHHhcCCcEEEEecCCCCHH----------------HHHHHhccCCCC--C
Q 048064          153 AGGLAFLQQKLLSEVLKDVNVIPHIDL-NFRRLSCRKVLIVLDDVTCLN----------------QIESLVGSLDRL--L  213 (429)
Q Consensus       153 ~~~~~~~~~~l~~~~~~~~~~~~~~~~-l~~~l~~~~~LlVlDdv~~~~----------------~~~~l~~~l~~~--~  213 (429)
                            +....    ..  .....+.. +.......+.+|+|||++...                .+..++..+...  .
T Consensus       124 ------~~~~~----~g--~~~~~l~~~f~~a~~~~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~~  191 (495)
T TIGR01241       124 ------FVEMF----VG--VGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGTN  191 (495)
T ss_pred             ------HHHHH----hc--ccHHHHHHHHHHHHhcCCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccccCC
Confidence                  00000    00  00011112 222234567899999996431                122333333222  2


Q ss_pred             CCCEEEEEeCChhhhh-----hcCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCC-ChHHHHHHH
Q 048064          214 PESRILITTRNKQVLR-----NCHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQG-VPLALKILG  287 (429)
Q Consensus       214 ~~~~iiiTtR~~~~~~-----~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G-~PLai~~~~  287 (429)
                      .+..||.||.....+.     .......+.++..+.++-.+++..++.......   ......+++.+.| .+--|..+.
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            2334555665543221     113456788999999999999987764322211   1224578888877 445555443

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.

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=98.37  E-value=3.3e-05  Score=72.42  Aligned_cols=94  Identities=14%  Similarity=0.181  Sum_probs=66.8

Q ss_pred             CCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEeCCh-hhhhhc-CCCeEEEcCCCCHHHHHHHHHHhhhcCCCC
Q 048064          186 CRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITTRNK-QVLRNC-HINQIYEMKGLGDDHALELFIRHAFRQNLV  261 (429)
Q Consensus       186 ~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTtR~~-~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~  261 (429)
                      ++.-++|||+++..  .....|+..+....+++.+|++|.+. .+++.+ +....+.+.+++.+++.+.+....     .
T Consensus       112 g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIrSRCq~i~~~~~~~~~~~~~L~~~~-----~  186 (319)
T PRK08769        112 GIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRSRCQRLEFKLPPAHEALAWLLAQG-----V  186 (319)
T ss_pred             CCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHHhhheEeeCCCcCHHHHHHHHHHcC-----C
Confidence            34569999999844  56788888888777788777766654 444443 345678999999999999987542     1


Q ss_pred             ChhHHHHHHHHHHHhCCChHHHHHHH
Q 048064          262 DVDYKELSDKVINYAQGVPLALKILG  287 (429)
Q Consensus       262 ~~~~~~~~~~i~~~~~G~PLai~~~~  287 (429)
                      +   .+.+..++..++|.|+....+.
T Consensus       187 ~---~~~a~~~~~l~~G~p~~A~~~~  209 (319)
T PRK08769        187 S---ERAAQEALDAARGHPGLAAQWL  209 (319)
T ss_pred             C---hHHHHHHHHHcCCCHHHHHHHh
Confidence            1   2236678999999998665443

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

Probab=98.36  E-value=1.6e-05  Score=76.09  Aligned_cols=152  Identities=15%  Similarity=0.173  Sum_probs=90.8

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCc
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRK  188 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~  188 (429)
                      ...+.|||+.|.|||+|++++++...+..+...++...         .......+...+..     ...+.+++..  .-
T Consensus       113 ~nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~~---------se~f~~~~v~a~~~-----~~~~~Fk~~y--~~  176 (408)
T COG0593         113 YNPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLT---------SEDFTNDFVKALRD-----NEMEKFKEKY--SL  176 (408)
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEecc---------HHHHHHHHHHHHHh-----hhHHHHHHhh--cc
Confidence            67899999999999999999999988877754333211         12222222222221     2233455555  33


Q ss_pred             EEEEecCCCCHH----HHHHHhccCCCC-CCCCEEEEEeCCh---------hhhhhcCCCeEEEcCCCCHHHHHHHHHHh
Q 048064          189 VLIVLDDVTCLN----QIESLVGSLDRL-LPESRILITTRNK---------QVLRNCHINQIYEMKGLGDDHALELFIRH  254 (429)
Q Consensus       189 ~LlVlDdv~~~~----~~~~l~~~l~~~-~~~~~iiiTtR~~---------~~~~~~~~~~~~~l~~L~~~ea~~L~~~~  254 (429)
                      -++++||++...    .-+++...+... ..|..||+|++..         .+...+...-++.+.+++.+....++.+.
T Consensus       177 dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~kqIvltsdr~P~~l~~~~~rL~SR~~~Gl~~~I~~Pd~e~r~aiL~kk  256 (408)
T COG0593         177 DLLLIDDIQFLAGKERTQEEFFHTFNALLENGKQIVLTSDRPPKELNGLEDRLRSRLEWGLVVEIEPPDDETRLAILRKK  256 (408)
T ss_pred             CeeeechHhHhcCChhHHHHHHHHHHHHHhcCCEEEEEcCCCchhhccccHHHHHHHhceeEEeeCCCCHHHHHHHHHHH
Confidence            488999996321    123333333221 2344899988643         23334455678999999999999999986


Q ss_pred             hhcCC-CCChhHHHHHHHHHHHhCCC
Q 048064          255 AFRQN-LVDVDYKELSDKVINYAQGV  279 (429)
Q Consensus       255 ~~~~~-~~~~~~~~~~~~i~~~~~G~  279 (429)
                      +.... ..+   .++..-++.....+
T Consensus       257 a~~~~~~i~---~ev~~~la~~~~~n  279 (408)
T COG0593         257 AEDRGIEIP---DEVLEFLAKRLDRN  279 (408)
T ss_pred             HHhcCCCCC---HHHHHHHHHHhhcc
Confidence            63333 222   24444455544443

>CHL00195 ycf46 Ycf46; Provisional

Probab=98.30  E-value=2.2e-05  Score=77.99  Aligned_cols=172  Identities=12%  Similarity=0.093  Sum_probs=93.9

Q ss_pred             CCCcccchhhHHHHHHHhh------------cCCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCC
Q 048064           88 SKNELVGVESRVEEIQSLL------------GAAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGG  155 (429)
Q Consensus        88 ~~~~~vGR~~~~~~l~~~l------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~  155 (429)
                      ...++-|.+...+.+.+..            ..++-+.++|++|+|||.+|+.+++...-.|    +..+.........+
T Consensus       226 ~~~dvgGl~~lK~~l~~~~~~~~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~~~~~----~~l~~~~l~~~~vG  301 (489)
T CHL00195        226 KISDIGGLDNLKDWLKKRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDWQLPL----LRLDVGKLFGGIVG  301 (489)
T ss_pred             CHHHhcCHHHHHHHHHHHHHHhhHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCE----EEEEhHHhcccccC
Confidence            3456788877666665421            1467799999999999999999999864322    22111111000000


Q ss_pred             -HHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCHH--------------HHHHHhccCCCCCCCCEEEE
Q 048064          156 -LAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLN--------------QIESLVGSLDRLLPESRILI  220 (429)
Q Consensus       156 -~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~--------------~~~~l~~~l~~~~~~~~iii  220 (429)
                       .....+.++                ...-...+.+|+||++|...              .+..++..+.....+.-||.
T Consensus       302 ese~~l~~~f----------------~~A~~~~P~IL~IDEID~~~~~~~~~~d~~~~~rvl~~lL~~l~~~~~~V~vIa  365 (489)
T CHL00195        302 ESESRMRQMI----------------RIAEALSPCILWIDEIDKAFSNSESKGDSGTTNRVLATFITWLSEKKSPVFVVA  365 (489)
T ss_pred             hHHHHHHHHH----------------HHHHhcCCcEEEehhhhhhhccccCCCCchHHHHHHHHHHHHHhcCCCceEEEE
Confidence             111111111                11123468999999997331              11223333332233444556


Q ss_pred             EeCChhhhh-----hcCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCCh
Q 048064          221 TTRNKQVLR-----NCHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVP  280 (429)
Q Consensus       221 TtR~~~~~~-----~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  280 (429)
                      ||.....++     .......+.++..+.++-.++|..+........ ........+++.+.|.-
T Consensus       366 TTN~~~~Ld~allR~GRFD~~i~v~lP~~~eR~~Il~~~l~~~~~~~-~~~~dl~~La~~T~GfS  429 (489)
T CHL00195        366 TANNIDLLPLEILRKGRFDEIFFLDLPSLEEREKIFKIHLQKFRPKS-WKKYDIKKLSKLSNKFS  429 (489)
T ss_pred             ecCChhhCCHHHhCCCcCCeEEEeCCcCHHHHHHHHHHHHhhcCCCc-ccccCHHHHHhhcCCCC
Confidence            776553221     123456788999999999999988874432111 00112456677776654

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=98.29  E-value=4.7e-05  Score=71.52  Aligned_cols=173  Identities=11%  Similarity=0.119  Sum_probs=98.2

Q ss_pred             HHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhcCcc---eeEEEe-echhhhh-hcCCHHHHHHHHHHHHhcC
Q 048064           99 VEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISRNFK---GSCFLE-NIREESQ-KAGGLAFLQQKLLSEVLKD  170 (429)
Q Consensus        99 ~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~---~~~~~~-~~~~~~~-~~~~~~~~~~~l~~~~~~~  170 (429)
                      -+.|.+.+.   -.+...++|+.|+||+++|..++..+--.-+   ..|-.+ .++.... ...++..+..     ..+.
T Consensus        11 ~~~l~~~~~~~rl~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p-----~~~~   85 (325)
T PRK06871         11 YQQITQAFQQGLGHHALLFKADSGLGTEQLIRALAQWLMCQTPQGDQPCGQCHSCHLFQAGNHPDFHILEP-----IDNK   85 (325)
T ss_pred             HHHHHHHHHcCCcceeEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEcc-----ccCC
Confidence            344555554   3567889999999999999999986532110   000000 0000000 0000000000     0000


Q ss_pred             CCCCCCHHHHHHHh-----cCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEeCCh-hhhhhc-CCCeEEEcCC
Q 048064          171 VNVIPHIDLNFRRL-----SCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITTRNK-QVLRNC-HINQIYEMKG  241 (429)
Q Consensus       171 ~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTtR~~-~~~~~~-~~~~~~~l~~  241 (429)
                      .-.++.+..+.+.+     .++.-++|||+++..  .....|+..+....++..+|++|.+. .+++.. +....+.+.+
T Consensus        86 ~I~id~iR~l~~~~~~~~~~g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~SRC~~~~~~~  165 (325)
T PRK06871         86 DIGVDQVREINEKVSQHAQQGGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYSRCQTWLIHP  165 (325)
T ss_pred             CCCHHHHHHHHHHHhhccccCCceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHHhhceEEeCCC
Confidence            00111222232332     245568899999844  57788999888877787777777655 444442 3456899999


Q ss_pred             CCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHH
Q 048064          242 LGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLAL  283 (429)
Q Consensus       242 L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai  283 (429)
                      ++.++..+.+......    .   ...+..++..++|.|+..
T Consensus       166 ~~~~~~~~~L~~~~~~----~---~~~~~~~~~l~~g~p~~A  200 (325)
T PRK06871        166 PEEQQALDWLQAQSSA----E---ISEILTALRINYGRPLLA  200 (325)
T ss_pred             CCHHHHHHHHHHHhcc----C---hHHHHHHHHHcCCCHHHH
Confidence            9999999999776411    1   123566788899999644

>PRK12377 putative replication protein; Provisional

Probab=98.28  E-value=8.9e-06  Score=73.51  Aligned_cols=102  Identities=19%  Similarity=0.171  Sum_probs=56.7

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCR  187 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~  187 (429)
                      +...+.|+|++|+|||+||..+++.+......+.++. +          ..+...+.......    .....+.+.+. +
T Consensus       100 ~~~~l~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i~-~----------~~l~~~l~~~~~~~----~~~~~~l~~l~-~  163 (248)
T PRK12377        100 GCTNFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVT-V----------PDVMSRLHESYDNG----QSGEKFLQELC-K  163 (248)
T ss_pred             cCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEE-H----------HHHHHHHHHHHhcc----chHHHHHHHhc-C
Confidence            4578999999999999999999999876644445543 1          12222222221111    11222333443 3


Q ss_pred             cEEEEecCCCC----HHHHHHHhccCCC-CCCCCEEEEEeCCh
Q 048064          188 KVLIVLDDVTC----LNQIESLVGSLDR-LLPESRILITTRNK  225 (429)
Q Consensus       188 ~~LlVlDdv~~----~~~~~~l~~~l~~-~~~~~~iiiTtR~~  225 (429)
                      .-||||||+..    ....+.|...+.. ......+||||...
T Consensus       164 ~dLLiIDDlg~~~~s~~~~~~l~~ii~~R~~~~~ptiitSNl~  206 (248)
T PRK12377        164 VDLLVLDEIGIQRETKNEQVVLNQIIDRRTASMRSVGMLTNLN  206 (248)
T ss_pred             CCEEEEcCCCCCCCCHHHHHHHHHHHHHHHhcCCCEEEEcCCC
Confidence            45999999932    2222333333321 22344578887643

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=98.28  E-value=1.6e-05  Score=81.69  Aligned_cols=47  Identities=26%  Similarity=0.432  Sum_probs=40.0

Q ss_pred             CCCCcccchhhHHHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064           87 DSKNELVGVESRVEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      .....++|++..++.+.+.+.  ....++|+|++|+||||||+.+++..
T Consensus       151 ~~~~~iiGqs~~~~~l~~~ia~~~~~~vlL~Gp~GtGKTTLAr~i~~~~  199 (615)
T TIGR02903       151 RAFSEIVGQERAIKALLAKVASPFPQHIILYGPPGVGKTTAARLALEEA  199 (615)
T ss_pred             CcHHhceeCcHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHhh
Confidence            445679999999999887776  55679999999999999999988765

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=98.27  E-value=1.9e-05  Score=76.86  Aligned_cols=239  Identities=16%  Similarity=0.077  Sum_probs=128.4

Q ss_pred             cchhhHHHHHHHhhcCCC-EEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCC
Q 048064           93 VGVESRVEEIQSLLGAAP-LLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDV  171 (429)
Q Consensus        93 vGR~~~~~~l~~~l~~~~-~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  171 (429)
                      .-|..-+.++.+.+...+ ++.|.|+.++||||+++.+.....+.   .+++.......    ....+ ...+..     
T Consensus        20 ~~~~~~~~~l~~~~~~~~~i~~i~GpR~~GKTtll~~l~~~~~~~---~iy~~~~d~~~----~~~~l-~d~~~~-----   86 (398)
T COG1373          20 IERRKLLPRLIKKLDLRPFIILILGPRQVGKTTLLKLLIKGLLEE---IIYINFDDLRL----DRIEL-LDLLRA-----   86 (398)
T ss_pred             hhHHhhhHHHHhhcccCCcEEEEECCccccHHHHHHHHHhhCCcc---eEEEEecchhc----chhhH-HHHHHH-----
Confidence            334455666666666333 99999999999999997777765544   34443222111    11111 111111     


Q ss_pred             CCCCCHHHHHHHhcCCcEEEEecCCCCHHHHHHHhccCCCCCCCCEEEEEeCChhhhhh-----c-CCCeEEEcCCCCHH
Q 048064          172 NVIPHIDLNFRRLSCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQVLRN-----C-HINQIYEMKGLGDD  245 (429)
Q Consensus       172 ~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~~~~l~~~l~~~~~~~~iiiTtR~~~~~~~-----~-~~~~~~~l~~L~~~  245 (429)
                              +...-..++..++||+|+....|...+..+.+.++. +|++|+-+......     + +....+.+-||+-.
T Consensus        87 --------~~~~~~~~~~yifLDEIq~v~~W~~~lk~l~d~~~~-~v~itgsss~ll~~~~~~~L~GR~~~~~l~PlSF~  157 (398)
T COG1373          87 --------YIELKEREKSYIFLDEIQNVPDWERALKYLYDRGNL-DVLITGSSSSLLSKEISESLAGRGKDLELYPLSFR  157 (398)
T ss_pred             --------HHHhhccCCceEEEecccCchhHHHHHHHHHccccc-eEEEECCchhhhccchhhhcCCCceeEEECCCCHH
Confidence                    111111267899999999999999888888766666 88888877644322     1 34567899999999


Q ss_pred             HHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHHHhhcCCCHHHHHHHHHHHhhCCCccHHHHHHHhhhcCC
Q 048064          246 HALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYLFERKKEVWENAIKKLKNFLHQNILDVLKISYDDLD  325 (429)
Q Consensus       246 ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~~~l~~~~~~~~~~~l~~l~~~~~~~i~~~l~~s~~~L~  325 (429)
                      |...+.....    ... .. ...-+-.-..||.|.++..-...-.      ........   ...+   +.+..- ..+
T Consensus       158 Efl~~~~~~~----~~~-~~-~~~f~~Yl~~GGfP~~v~~~~~~~~------~~~~~~~~---~~~D---i~~~~~-~~~  218 (398)
T COG1373         158 EFLKLKGEEI----EPS-KL-ELLFEKYLETGGFPESVKADLSEKK------LKEYLDTI---LKRD---IIERGK-IEN  218 (398)
T ss_pred             HHHhhccccc----chh-HH-HHHHHHHHHhCCCcHHHhCcchhhH------HHHHHHHH---HHHH---HHHHcC-ccc
Confidence            9877643100    000 11 1122233457899988743221110      00111100   0001   111000 011


Q ss_pred             -hhhHHHHhhhhcc-cCCcCHHHHHHHHH-HcCCChhhhHHHHHHcCcee
Q 048064          326 -NDEKNIFLDVACF-FKGEDIYLVKKFFE-ASGFYPEIGISILVDKALIA  372 (429)
Q Consensus       326 -~~~~~~l~~la~f-~~~~~~~~l~~~~~-~~~~~~~~~l~~L~~~sLi~  372 (429)
                       ...+.++..++-. +..++...+...+. -+......+++.|.+.-++.
T Consensus       219 ~~~~k~i~~~l~~~~g~~~s~~~la~~l~~is~~Ti~~Yl~~le~~fll~  268 (398)
T COG1373         219 ADLMKRILRFLASNIGSPISYSSLARELKGISKDTIRKYLSYLEDAFLLF  268 (398)
T ss_pred             HHHHHHHHHHHHhhcCCccCHHHHHHHHhccchHHHHHHHHHHHHhhheE
Confidence             2344554444443 34567777777773 33333445677777777666

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=98.27  E-value=9e-05  Score=69.46  Aligned_cols=158  Identities=13%  Similarity=0.181  Sum_probs=97.9

Q ss_pred             HHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhcC--------------------cceeEEEeechhhhhhcCC
Q 048064           99 VEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISRN--------------------FKGSCFLENIREESQKAGG  155 (429)
Q Consensus        99 ~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~--------------------f~~~~~~~~~~~~~~~~~~  155 (429)
                      -+++...+.   -.+.+.++|+.|+||+++|..+++.+--.                    ++...++..... .. .-.
T Consensus        12 ~~~l~~~~~~~rl~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~-~~-~I~   89 (319)
T PRK06090         12 WQNWKAGLDAGRIPGALLLQSDEGLGVESLVELFSRALLCQNYQSEACGFCHSCELMQSGNHPDLHVIKPEKE-GK-SIT   89 (319)
T ss_pred             HHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecCcC-CC-cCC
Confidence            344555554   35678999999999999999999864211                    111222210000 00 000


Q ss_pred             HHHHHHHHHHHHhcCCCCCCCHHHHHHHh-----cCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEeCCh-hh
Q 048064          156 LAFLQQKLLSEVLKDVNVIPHIDLNFRRL-----SCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITTRNK-QV  227 (429)
Q Consensus       156 ~~~~~~~l~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTtR~~-~~  227 (429)
                                        ++.+..+.+.+     .++.-++|||+++..  .....++..+....+++.+|++|.+. .+
T Consensus        90 ------------------vdqiR~l~~~~~~~~~~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~l  151 (319)
T PRK06090         90 ------------------VEQIRQCNRLAQESSQLNGYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKRL  151 (319)
T ss_pred             ------------------HHHHHHHHHHHhhCcccCCceEEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhC
Confidence                              11111122222     234569999999844  57788998888877777766666554 45


Q ss_pred             hhhc-CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHH
Q 048064          228 LRNC-HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKIL  286 (429)
Q Consensus       228 ~~~~-~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~  286 (429)
                      ++.+ +....+.+.+++.+++.+.+....     .+     ....++..++|.|+....+
T Consensus       152 LpTI~SRCq~~~~~~~~~~~~~~~L~~~~-----~~-----~~~~~l~l~~G~p~~A~~~  201 (319)
T PRK06090        152 LPTIVSRCQQWVVTPPSTAQAMQWLKGQG-----IT-----VPAYALKLNMGSPLKTLAM  201 (319)
T ss_pred             hHHHHhcceeEeCCCCCHHHHHHHHHHcC-----Cc-----hHHHHHHHcCCCHHHHHHH
Confidence            5443 345688999999999999986542     11     1346788999999876544

>PRK08116 hypothetical protein; Validated

Probab=98.25  E-value=5.5e-06  Score=76.16  Aligned_cols=103  Identities=23%  Similarity=0.243  Sum_probs=58.3

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCc
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRK  188 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~  188 (429)
                      ...+.|+|.+|+|||+||..+++.+..+...++++. .          ..+...+......  ........+...+.+-.
T Consensus       114 ~~gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~-~----------~~ll~~i~~~~~~--~~~~~~~~~~~~l~~~d  180 (268)
T PRK08116        114 NVGLLLWGSVGTGKTYLAACIANELIEKGVPVIFVN-F----------PQLLNRIKSTYKS--SGKEDENEIIRSLVNAD  180 (268)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEE-H----------HHHHHHHHHHHhc--cccccHHHHHHHhcCCC
Confidence            346899999999999999999999876633344443 2          2222233222211  11122334555565544


Q ss_pred             EEEEecCCCC--HH--HHHHHhccCC-CCCCCCEEEEEeCCh
Q 048064          189 VLIVLDDVTC--LN--QIESLVGSLD-RLLPESRILITTRNK  225 (429)
Q Consensus       189 ~LlVlDdv~~--~~--~~~~l~~~l~-~~~~~~~iiiTtR~~  225 (429)
                       ||||||+..  ..  ....+...+. ....+..+||||...
T Consensus       181 -lLviDDlg~e~~t~~~~~~l~~iin~r~~~~~~~IiTsN~~  221 (268)
T PRK08116        181 -LLILDDLGAERDTEWAREKVYNIIDSRYRKGLPTIVTTNLS  221 (268)
T ss_pred             -EEEEecccCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence             899999932  22  2222333222 123566789998754

>PRK08181 transposase; Validated

Probab=98.25  E-value=5.2e-06  Score=75.97  Aligned_cols=105  Identities=24%  Similarity=0.228  Sum_probs=59.3

Q ss_pred             HhhcCCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHH
Q 048064          104 SLLGAAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRR  183 (429)
Q Consensus       104 ~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~  183 (429)
                      +|+.....+.++|++|+|||+||..+++.+..+...+.|+.           ...+...+.....     ..........
T Consensus       101 ~~~~~~~nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~-----------~~~L~~~l~~a~~-----~~~~~~~l~~  164 (269)
T PRK08181        101 SWLAKGANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTR-----------TTDLVQKLQVARR-----ELQLESAIAK  164 (269)
T ss_pred             HHHhcCceEEEEecCCCcHHHHHHHHHHHHHHcCCceeeee-----------HHHHHHHHHHHHh-----CCcHHHHHHH
Confidence            46667778999999999999999999998766543444443           1222333322111     1122233333


Q ss_pred             hcCCcEEEEecCCCCH----HHHHHHhccCCCCCCCCEEEEEeCCh
Q 048064          184 LSCRKVLIVLDDVTCL----NQIESLVGSLDRLLPESRILITTRNK  225 (429)
Q Consensus       184 l~~~~~LlVlDdv~~~----~~~~~l~~~l~~~~~~~~iiiTtR~~  225 (429)
                      +. +.-||||||+...    .....+...+...-.+..+||||...
T Consensus       165 l~-~~dLLIIDDlg~~~~~~~~~~~Lf~lin~R~~~~s~IiTSN~~  209 (269)
T PRK08181        165 LD-KFDLLILDDLAYVTKDQAETSVLFELISARYERRSILITANQP  209 (269)
T ss_pred             Hh-cCCEEEEeccccccCCHHHHHHHHHHHHHHHhCCCEEEEcCCC
Confidence            33 3349999999522    22223333332111224688888755

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=98.23  E-value=5.1e-05  Score=71.94  Aligned_cols=159  Identities=12%  Similarity=0.113  Sum_probs=98.3

Q ss_pred             HHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhcC---------------------cceeEEEeechhhhhhcC
Q 048064           99 VEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISRN---------------------FKGSCFLENIREESQKAG  154 (429)
Q Consensus        99 ~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~---------------------f~~~~~~~~~~~~~~~~~  154 (429)
                      -+++.+.+.   -.+...++|+.|+||+++|..++..+--.                     ++...++..-..  .   
T Consensus        11 ~~~l~~~~~~~rl~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~--~---   85 (334)
T PRK07993         11 YEQLVGSYQAGRGHHALLIQALPGMGDDALIYALSRWLMCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLTPEKG--K---   85 (334)
T ss_pred             HHHHHHHHHcCCcceEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecccc--c---
Confidence            345555554   35678899999999999999999875221                     111122210000  0   


Q ss_pred             CHHHHHHHHHHHHhcCCCCCCCHHHHHHHh-----cCCcEEEEecCCCC--HHHHHHHhccCCCCCCCCEEEEEeCCh-h
Q 048064          155 GLAFLQQKLLSEVLKDVNVIPHIDLNFRRL-----SCRKVLIVLDDVTC--LNQIESLVGSLDRLLPESRILITTRNK-Q  226 (429)
Q Consensus       155 ~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~--~~~~~~l~~~l~~~~~~~~iiiTtR~~-~  226 (429)
                                     ..-.++.+..+.+.+     .+++-++|||+++.  ......|+..+....++..+|.+|.+. .
T Consensus        86 ---------------~~I~idqiR~l~~~~~~~~~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~  150 (334)
T PRK07993         86 ---------------SSLGVDAVREVTEKLYEHARLGGAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPAR  150 (334)
T ss_pred             ---------------ccCCHHHHHHHHHHHhhccccCCceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChhh
Confidence                           000011122233332     24556999999984  457888999888877777766666654 4


Q ss_pred             hhhhc-CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHH
Q 048064          227 VLRNC-HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALK  284 (429)
Q Consensus       227 ~~~~~-~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~  284 (429)
                      +++.+ +....+.+.+++.+++.+.+.....    .+   .+.+..++..++|.|....
T Consensus       151 lLpTIrSRCq~~~~~~~~~~~~~~~L~~~~~----~~---~~~a~~~~~la~G~~~~Al  202 (334)
T PRK07993        151 LLATLRSRCRLHYLAPPPEQYALTWLSREVT----MS---QDALLAALRLSAGAPGAAL  202 (334)
T ss_pred             ChHHHHhccccccCCCCCHHHHHHHHHHccC----CC---HHHHHHHHHHcCCCHHHHH
Confidence            55442 3455789999999999998865421    11   2336678899999996443

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=98.23  E-value=3.6e-05  Score=73.17  Aligned_cols=142  Identities=15%  Similarity=0.143  Sum_probs=90.1

Q ss_pred             cccc-hhhHHHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhcC---------------------cceeEEEee
Q 048064           91 ELVG-VESRVEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISRN---------------------FKGSCFLEN  145 (429)
Q Consensus        91 ~~vG-R~~~~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~---------------------f~~~~~~~~  145 (429)
                      .++| -+..++.|...+.   -++...++|+.|+||||+|..+++.+-..                     ++...++..
T Consensus         6 ~i~~~q~~~~~~L~~~~~~~~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~~cg~C~~c~~~~~~~hpD~~~i~~   85 (329)
T PRK08058          6 QLTALQPVVVKMLQNSIAKNRLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEPCGTCTNCKRIDSGNHPDVHLVAP   85 (329)
T ss_pred             HHHhhHHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCcCHHHHHHhcCCCCCEEEecc
Confidence            4566 6667778888776   35667999999999999999999875321                     111111110


Q ss_pred             chhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHh-----cCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEE
Q 048064          146 IREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRL-----SCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRI  218 (429)
Q Consensus       146 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~i  218 (429)
                      - ..   ...                  .+.+..+.+.+     .+.+-++|+|+++..  ...+.|+..+....+++.+
T Consensus        86 ~-~~---~i~------------------id~ir~l~~~~~~~~~~~~~kvviI~~a~~~~~~a~NaLLK~LEEPp~~~~~  143 (329)
T PRK08058         86 D-GQ---SIK------------------KDQIRYLKEEFSKSGVESNKKVYIIEHADKMTASAANSLLKFLEEPSGGTTA  143 (329)
T ss_pred             c-cc---cCC------------------HHHHHHHHHHHhhCCcccCceEEEeehHhhhCHHHHHHHHHHhcCCCCCceE
Confidence            0 00   000                  11111122222     234558999999844  4677888888877778877


Q ss_pred             EEEeCCh-hhhhhc-CCCeEEEcCCCCHHHHHHHHHHh
Q 048064          219 LITTRNK-QVLRNC-HINQIYEMKGLGDDHALELFIRH  254 (429)
Q Consensus       219 iiTtR~~-~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~  254 (429)
                      |++|.+. .+.+.+ +....+++.+++.++..+.+...
T Consensus       144 Il~t~~~~~ll~TIrSRc~~i~~~~~~~~~~~~~L~~~  181 (329)
T PRK08058        144 ILLTENKHQILPTILSRCQVVEFRPLPPESLIQRLQEE  181 (329)
T ss_pred             EEEeCChHhCcHHHHhhceeeeCCCCCHHHHHHHHHHc
Confidence            7777654 333332 34578999999999998888654

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=98.22  E-value=4.1e-05  Score=80.90  Aligned_cols=176  Identities=15%  Similarity=0.231  Sum_probs=98.2

Q ss_pred             CCCcccchhhHHHHHHHhhc---------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhh
Q 048064           88 SKNELVGVESRVEEIQSLLG---------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQK  152 (429)
Q Consensus        88 ~~~~~vGR~~~~~~l~~~l~---------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~  152 (429)
                      .-..+.|.+...+.|.+.+.               .++-+.++|++|+|||++|+.+++....+|    +.....+....
T Consensus       451 ~~~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~~~~f----i~v~~~~l~~~  526 (733)
T TIGR01243       451 RWSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGANF----IAVRGPEILSK  526 (733)
T ss_pred             chhhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCE----EEEehHHHhhc
Confidence            34567888888887777553               345689999999999999999999865433    11111111000


Q ss_pred             cC-CHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCHH--------------HHHHHhccCCCC--CCC
Q 048064          153 AG-GLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLN--------------QIESLVGSLDRL--LPE  215 (429)
Q Consensus       153 ~~-~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~--------------~~~~l~~~l~~~--~~~  215 (429)
                      .. ......+.+                +...-...+.+|+||+++...              ....++..+...  ..+
T Consensus       527 ~vGese~~i~~~----------------f~~A~~~~p~iifiDEid~l~~~r~~~~~~~~~~~~~~~lL~~ldg~~~~~~  590 (733)
T TIGR01243       527 WVGESEKAIREI----------------FRKARQAAPAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGIQELSN  590 (733)
T ss_pred             ccCcHHHHHHHH----------------HHHHHhcCCEEEEEEChhhhhccCCCCCCccHHHHHHHHHHHHhhcccCCCC
Confidence            00 011111111                112224467899999996431              223344444322  233


Q ss_pred             CEEEEEeCChhhhhh-----cCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCCh-HHHHHH
Q 048064          216 SRILITTRNKQVLRN-----CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVP-LALKIL  286 (429)
Q Consensus       216 ~~iiiTtR~~~~~~~-----~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P-Lai~~~  286 (429)
                      ..||.||..+..+..     -.....+.++..+.++-.++|..+........ .  .....+++.+.|.- ..|..+
T Consensus       591 v~vI~aTn~~~~ld~allRpgRfd~~i~v~~Pd~~~R~~i~~~~~~~~~~~~-~--~~l~~la~~t~g~sgadi~~~  664 (733)
T TIGR01243       591 VVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSMPLAE-D--VDLEELAEMTEGYTGADIEAV  664 (733)
T ss_pred             EEEEEeCCChhhCCHhhcCCCccceEEEeCCcCHHHHHHHHHHHhcCCCCCc-c--CCHHHHHHHcCCCCHHHHHHH
Confidence            345556655543221     13456788999999999999976653222111 1  11456777777754 334433

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.

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=98.19  E-value=8.1e-05  Score=68.43  Aligned_cols=36  Identities=22%  Similarity=0.232  Sum_probs=28.5

Q ss_pred             HHHHHHHhhcCCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064           98 RVEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus        98 ~~~~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      .++++..++...+.+.|.|++|+|||++|+.+++..
T Consensus        10 l~~~~l~~l~~g~~vLL~G~~GtGKT~lA~~la~~l   45 (262)
T TIGR02640        10 VTSRALRYLKSGYPVHLRGPAGTGKTTLAMHVARKR   45 (262)
T ss_pred             HHHHHHHHHhcCCeEEEEcCCCCCHHHHHHHHHHHh
Confidence            344555555566778899999999999999999865

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).

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=98.19  E-value=2.8e-05  Score=82.10  Aligned_cols=169  Identities=16%  Similarity=0.167  Sum_probs=93.4

Q ss_pred             CCcccchhhHHHHHHHhhc---------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhc
Q 048064           89 KNELVGVESRVEEIQSLLG---------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKA  153 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~---------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~  153 (429)
                      ..++.|.+..++++.+++.               ..+.+.++|++|+|||+||+.+++.....|    +..+........
T Consensus       177 ~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~~~~~----i~i~~~~i~~~~  252 (733)
T TIGR01243       177 YEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAYF----ISINGPEIMSKY  252 (733)
T ss_pred             HHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHhCCeE----EEEecHHHhccc
Confidence            3568899999999988763               356799999999999999999998764332    222221111000


Q ss_pred             C-CHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCHH-------------HHHHHhccCCCCC-CCCEE
Q 048064          154 G-GLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLN-------------QIESLVGSLDRLL-PESRI  218 (429)
Q Consensus       154 ~-~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~-------------~~~~l~~~l~~~~-~~~~i  218 (429)
                      . ......+.+                +.....+.+.+|+|||++...             ....++..+.... .+..+
T Consensus       253 ~g~~~~~l~~l----------------f~~a~~~~p~il~iDEid~l~~~r~~~~~~~~~~~~~~Ll~~ld~l~~~~~vi  316 (733)
T TIGR01243       253 YGESEERLREI----------------FKEAEENAPSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKGRGRVI  316 (733)
T ss_pred             ccHHHHHHHHH----------------HHHHHhcCCcEEEeehhhhhcccccCCcchHHHHHHHHHHHHhhccccCCCEE
Confidence            0 001111111                122234467899999986431             1233443333222 23334


Q ss_pred             EE-EeCChh-hhhhc----CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCCh
Q 048064          219 LI-TTRNKQ-VLRNC----HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVP  280 (429)
Q Consensus       219 ii-TtR~~~-~~~~~----~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  280 (429)
                      +| ||.... +...+    .....+.+...+.++-.+++..+..... ...  ......+++.+.|..
T Consensus       317 vI~atn~~~~ld~al~r~gRfd~~i~i~~P~~~~R~~Il~~~~~~~~-l~~--d~~l~~la~~t~G~~  381 (733)
T TIGR01243       317 VIGATNRPDALDPALRRPGRFDREIVIRVPDKRARKEILKVHTRNMP-LAE--DVDLDKLAEVTHGFV  381 (733)
T ss_pred             EEeecCChhhcCHHHhCchhccEEEEeCCcCHHHHHHHHHHHhcCCC-Ccc--ccCHHHHHHhCCCCC
Confidence            44 454332 11111    2345678888899998888886542211 111  112566777777764

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.

>TIGR00602 rad24 checkpoint protein rad24

Probab=98.18  E-value=1.3e-05  Score=81.66  Aligned_cols=48  Identities=25%  Similarity=0.463  Sum_probs=41.3

Q ss_pred             CCCCcccchhhHHHHHHHhhc-------CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064           87 DSKNELVGVESRVEEIQSLLG-------AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~-------~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ....+++|-++.++++..++.       ..++++|+|++|+||||+++.++..+.
T Consensus        81 ~~ldel~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l~  135 (637)
T TIGR00602        81 ETQHELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKELG  135 (637)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHhh
Confidence            556789999999999999886       345799999999999999999998653

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

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=98.17  E-value=1.7e-05  Score=78.74  Aligned_cols=169  Identities=18%  Similarity=0.228  Sum_probs=95.8

Q ss_pred             cccchhhHHHHHHHhhc---------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCC
Q 048064           91 ELVGVESRVEEIQSLLG---------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGG  155 (429)
Q Consensus        91 ~~vGR~~~~~~l~~~l~---------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~  155 (429)
                      ++=|.++..++|.+...               .++-|.++||||+|||++|+.+++...-+|-.+   .-..-.+.-...
T Consensus       435 dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne~~~nFlsv---kgpEL~sk~vGe  511 (693)
T KOG0730|consen  435 DIGGLEELKRELQQAVEWPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLAKALANEAGMNFLSV---KGPELFSKYVGE  511 (693)
T ss_pred             hccCHHHHHHHHHHHHhhhhhchHHHHHhcCCCCceEEEECCCCcchHHHHHHHhhhhcCCeeec---cCHHHHHHhcCc
Confidence            34447766666665543               678899999999999999999999876665322   000000110112


Q ss_pred             HHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCHH-------------HHHHHhccCCCCCCCCEEEE--
Q 048064          156 LAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLN-------------QIESLVGSLDRLLPESRILI--  220 (429)
Q Consensus       156 ~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~-------------~~~~l~~~l~~~~~~~~iii--  220 (429)
                      -++..+.++++.                -..-+.+++||++|...             .+..++..+........|+|  
T Consensus       512 SEr~ir~iF~kA----------------R~~aP~IiFfDEiDsi~~~R~g~~~~v~~RVlsqLLtEmDG~e~~k~V~ViA  575 (693)
T KOG0730|consen  512 SERAIREVFRKA----------------RQVAPCIIFFDEIDALAGSRGGSSSGVTDRVLSQLLTEMDGLEALKNVLVIA  575 (693)
T ss_pred             hHHHHHHHHHHH----------------hhcCCeEEehhhHHhHhhccCCCccchHHHHHHHHHHHcccccccCcEEEEe
Confidence            233333333322                22356899999997443             23344444443333333433  


Q ss_pred             -EeCChhhhhh-c---CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChH
Q 048064          221 -TTRNKQVLRN-C---HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPL  281 (429)
Q Consensus       221 -TtR~~~~~~~-~---~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PL  281 (429)
                       |.|...+-.. +   ...+.+.+++-+.+.-.++|+.++-.-. ..+.  -...+|++.++|.--
T Consensus       576 ATNRpd~ID~ALlRPGRlD~iiyVplPD~~aR~~Ilk~~~kkmp-~~~~--vdl~~La~~T~g~SG  638 (693)
T KOG0730|consen  576 ATNRPDMIDPALLRPGRLDRIIYVPLPDLEARLEILKQCAKKMP-FSED--VDLEELAQATEGYSG  638 (693)
T ss_pred             ccCChhhcCHHHcCCcccceeEeecCccHHHHHHHHHHHHhcCC-CCcc--ccHHHHHHHhccCCh
Confidence             4443322221 2   3567788888888888999988873322 1111  124667777776643

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

Probab=98.17  E-value=8.5e-05  Score=68.02  Aligned_cols=186  Identities=15%  Similarity=0.115  Sum_probs=105.2

Q ss_pred             hHHHHHHHhhc-----CCCEEEEEcCCCcchHHHHHHHHHHhhcCcc-----eeEEEeechhhhhhcCCHHHHHHHHHHH
Q 048064           97 SRVEEIQSLLG-----AAPLLGIWGIGGIGKTTIARVIFNRISRNFK-----GSCFLENIREESQKAGGLAFLQQKLLSE  166 (429)
Q Consensus        97 ~~~~~l~~~l~-----~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~-----~~~~~~~~~~~~~~~~~~~~~~~~l~~~  166 (429)
                      ..++.|.+++.     ..+-+.|+|.+|+|||++++.+....-..++     ..++.....    ...+...+...++..
T Consensus        44 ~~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P----~~p~~~~~Y~~IL~~  119 (302)
T PF05621_consen   44 EALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMP----PEPDERRFYSAILEA  119 (302)
T ss_pred             HHHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecC----CCCChHHHHHHHHHH
Confidence            34556666665     4567999999999999999999986433221     123333222    256788888999998


Q ss_pred             HhcCCCCCCCHHH----HHHHhcC-CcEEEEecCCCCH-----HHHHHHhccCCCCC---CCCEEEEEeCChhhhhh---
Q 048064          167 VLKDVNVIPHIDL----NFRRLSC-RKVLIVLDDVTCL-----NQIESLVGSLDRLL---PESRILITTRNKQVLRN---  230 (429)
Q Consensus       167 ~~~~~~~~~~~~~----l~~~l~~-~~~LlVlDdv~~~-----~~~~~l~~~l~~~~---~~~~iiiTtR~~~~~~~---  230 (429)
                      ++...........    ....++. +.-+||||++++.     ..-..++..+...+   .-+-|.+-|++-..+-.   
T Consensus       120 lgaP~~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~~A~~al~~D~  199 (302)
T PF05621_consen  120 LGAPYRPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTREAYRALRTDP  199 (302)
T ss_pred             hCcccCCCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccHHHHHHhccCH
Confidence            8877433333333    3334443 3449999999764     23333333333223   23345555543311111   


Q ss_pred             --cCCCeEEEcCCCCHH-HHHHHHHHhh--hc-CCCCChhHHHHHHHHHHHhCCChHHHHHH
Q 048064          231 --CHINQIYEMKGLGDD-HALELFIRHA--FR-QNLVDVDYKELSDKVINYAQGVPLALKIL  286 (429)
Q Consensus       231 --~~~~~~~~l~~L~~~-ea~~L~~~~~--~~-~~~~~~~~~~~~~~i~~~~~G~PLai~~~  286 (429)
                        .+-..++.+++...+ +...|+....  .. .....-...+++..|+..++|+.--+..+
T Consensus       200 QLa~RF~~~~Lp~W~~d~ef~~LL~s~e~~LPLr~~S~l~~~~la~~i~~~s~G~iG~l~~l  261 (302)
T PF05621_consen  200 QLASRFEPFELPRWELDEEFRRLLASFERALPLRKPSNLASPELARRIHERSEGLIGELSRL  261 (302)
T ss_pred             HHHhccCCccCCCCCCCcHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHcCCchHHHHHH
Confidence              012345667765543 4455543321  11 11111234678899999999987655443

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

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

Probab=98.17  E-value=5.3e-06  Score=75.06  Aligned_cols=90  Identities=23%  Similarity=0.159  Sum_probs=58.6

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhc-CcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHH-------
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISR-NFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDL-------  179 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~-~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~-------  179 (429)
                      ....++|.|++|+|||||++.+++.+.. +|+..+|+..+.+.   ......+++.+...+.......+....       
T Consensus        15 ~Gqr~~I~G~~G~GKTTLlr~I~n~l~~~~fdv~~~v~vI~er---~~ev~el~~~I~~~~v~~~~~~~~~~~~~~~~~~   91 (249)
T cd01128          15 KGQRGLIVAPPKAGKTTLLQSIANAITKNHPEVYLIVLLIDER---PEEVTDMQRSVKGEVIASTFDEPPERHVQVAEMV   91 (249)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhccccccCCeEEEEEEccCC---CccHHHHHHHhccEEEEecCCCCHHHHHHHHHHH
Confidence            6788999999999999999999998754 57777787755442   245667776663332222111111111       


Q ss_pred             ---HHH-HhcCCcEEEEecCCCCHH
Q 048064          180 ---NFR-RLSCRKVLIVLDDVTCLN  200 (429)
Q Consensus       180 ---l~~-~l~~~~~LlVlDdv~~~~  200 (429)
                         ... .-.+++++|++|++....
T Consensus        92 ~~~a~~~~~~G~~vll~iDei~r~a  116 (249)
T cd01128          92 LEKAKRLVEHGKDVVILLDSITRLA  116 (249)
T ss_pred             HHHHHHHHHCCCCEEEEEECHHHhh
Confidence               111 134789999999996543

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.

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.15  E-value=5.8e-05  Score=74.23  Aligned_cols=49  Identities=22%  Similarity=0.348  Sum_probs=41.8

Q ss_pred             CCcccchhhHHHHHHHhhc--------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCc
Q 048064           89 KNELVGVESRVEEIQSLLG--------------AAPLLGIWGIGGIGKTTIARVIFNRISRNF  137 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~--------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f  137 (429)
                      ..++=|.+..+.+|.+++.              .++-|.+|||+|+|||.||++++.++.-.|
T Consensus       189 f~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~vPf  251 (802)
T KOG0733|consen  189 FSDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELGVPF  251 (802)
T ss_pred             hhhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhcCCce
Confidence            4678899999999998774              577899999999999999999999875443

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

Probab=98.15  E-value=2.3e-05  Score=78.62  Aligned_cols=156  Identities=22%  Similarity=0.379  Sum_probs=91.2

Q ss_pred             CCcccchhhHHHHHHHhhc--------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHH
Q 048064           89 KNELVGVESRVEEIQSLLG--------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQ  160 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~--------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~  160 (429)
                      +.+-+|.+...+++.++|.        ..++++++||||+|||+|++.+++.+...|-. +.+--++..+. -.+-+   
T Consensus       322 d~dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al~RkfvR-~sLGGvrDEAE-IRGHR---  396 (782)
T COG0466         322 DKDHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKALGRKFVR-ISLGGVRDEAE-IRGHR---  396 (782)
T ss_pred             cccccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHHhCCCEEE-EecCccccHHH-hcccc---
Confidence            4578899999999999886        67899999999999999999999988777632 22211111111 00000   


Q ss_pred             HHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCHH------HHHHHhccCCCCC-------------CCCEE-EE
Q 048064          161 QKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLN------QIESLVGSLDRLL-------------PESRI-LI  220 (429)
Q Consensus       161 ~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~------~~~~l~~~l~~~~-------------~~~~i-ii  220 (429)
                      +...      ......+-+-....+.++-+++||++|...      -..+++..|..-.             .=|.| .|
T Consensus       397 RTYI------GamPGrIiQ~mkka~~~NPv~LLDEIDKm~ss~rGDPaSALLEVLDPEQN~~F~DhYLev~yDLS~VmFi  470 (782)
T COG0466         397 RTYI------GAMPGKIIQGMKKAGVKNPVFLLDEIDKMGSSFRGDPASALLEVLDPEQNNTFSDHYLEVPYDLSKVMFI  470 (782)
T ss_pred             cccc------ccCChHHHHHHHHhCCcCCeEEeechhhccCCCCCChHHHHHhhcCHhhcCchhhccccCccchhheEEE
Confidence            0000      001111111122234466799999997432      2233444332111             11333 34


Q ss_pred             EeCCh-h-h-hhhcCCCeEEEcCCCCHHHHHHHHHHhh
Q 048064          221 TTRNK-Q-V-LRNCHINQIYEMKGLGDDHALELFIRHA  255 (429)
Q Consensus       221 TtR~~-~-~-~~~~~~~~~~~l~~L~~~ea~~L~~~~~  255 (429)
                      ||-+. + + .+.+..-+++++.+.+++|-.++-.+++
T Consensus       471 aTANsl~tIP~PLlDRMEiI~lsgYt~~EKl~IAk~~L  508 (782)
T COG0466         471 ATANSLDTIPAPLLDRMEVIRLSGYTEDEKLEIAKRHL  508 (782)
T ss_pred             eecCccccCChHHhcceeeeeecCCChHHHHHHHHHhc
Confidence            44332 2 2 2233445789999999999999988876

>PRK07952 DNA replication protein DnaC; Validated

Probab=98.13  E-value=6e-05  Score=67.97  Aligned_cols=102  Identities=18%  Similarity=0.166  Sum_probs=55.6

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCc
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRK  188 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~  188 (429)
                      ...+.++|.+|+|||+||..+++.+......++++. +          ..+...+......   .......+...+. +.
T Consensus        99 ~~~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~it-~----------~~l~~~l~~~~~~---~~~~~~~~l~~l~-~~  163 (244)
T PRK07952         99 IASFIFSGKPGTGKNHLAAAICNELLLRGKSVLIIT-V----------ADIMSAMKDTFSN---SETSEEQLLNDLS-NV  163 (244)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE-H----------HHHHHHHHHHHhh---ccccHHHHHHHhc-cC
Confidence            357999999999999999999998866544444443 1          2222222222111   1112233445555 34


Q ss_pred             EEEEecCCCCH--HHHH--HHhccCC-CCCCCCEEEEEeCCh
Q 048064          189 VLIVLDDVTCL--NQIE--SLVGSLD-RLLPESRILITTRNK  225 (429)
Q Consensus       189 ~LlVlDdv~~~--~~~~--~l~~~l~-~~~~~~~iiiTtR~~  225 (429)
                      -+|||||+...  ..|.  .+...+. +......+||||...
T Consensus       164 dlLvIDDig~~~~s~~~~~~l~~Ii~~Ry~~~~~tiitSNl~  205 (244)
T PRK07952        164 DLLVIDEIGVQTESRYEKVIINQIVDRRSSSKRPTGMLTNSN  205 (244)
T ss_pred             CEEEEeCCCCCCCCHHHHHHHHHHHHHHHhCCCCEEEeCCCC
Confidence            48889999532  2222  2222221 122344577777643

>PRK06526 transposase; Provisional

Probab=98.11  E-value=5.5e-06  Score=75.39  Aligned_cols=30  Identities=23%  Similarity=0.160  Sum_probs=26.0

Q ss_pred             cCCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          107 GAAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       107 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ...+.+.|+|++|+|||+||..++......
T Consensus        96 ~~~~nlll~Gp~GtGKThLa~al~~~a~~~  125 (254)
T PRK06526         96 TGKENVVFLGPPGTGKTHLAIGLGIRACQA  125 (254)
T ss_pred             hcCceEEEEeCCCCchHHHHHHHHHHHHHC
Confidence            367789999999999999999999887544

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=98.10  E-value=4.9e-06  Score=71.56  Aligned_cols=39  Identities=28%  Similarity=0.325  Sum_probs=28.0

Q ss_pred             hcCCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEe
Q 048064          106 LGAAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLE  144 (429)
Q Consensus       106 l~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  144 (429)
                      +....-+.++|++|+|||.||..+++.+..+-..+.|+.
T Consensus        44 ~~~~~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~   82 (178)
T PF01695_consen   44 IENGENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFIT   82 (178)
T ss_dssp             -SC--EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEE
T ss_pred             cccCeEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEee
Confidence            336778999999999999999999998766544455554

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.

>TIGR00763 lon ATP-dependent protease La

Probab=98.10  E-value=0.00016  Score=76.69  Aligned_cols=48  Identities=29%  Similarity=0.552  Sum_probs=39.7

Q ss_pred             CcccchhhHHHHHHHhhc--------CCCEEEEEcCCCcchHHHHHHHHHHhhcCc
Q 048064           90 NELVGVESRVEEIQSLLG--------AAPLLGIWGIGGIGKTTIARVIFNRISRNF  137 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~--------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f  137 (429)
                      ...+|.+...+++.+++.        ..+.+.++|++|+|||++|+.+++.+...|
T Consensus       320 ~~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~l~~~~  375 (775)
T TIGR00763       320 EDHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKALNRKF  375 (775)
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHHhcCCe
Confidence            457899999988888664        345799999999999999999999875443

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.

>PRK10536 hypothetical protein; Provisional

Probab=98.09  E-value=3.3e-05  Score=69.30  Aligned_cols=133  Identities=12%  Similarity=0.209  Sum_probs=76.0

Q ss_pred             CCcccchhhHHHHHHHhhcCCCEEEEEcCCCcchHHHHHHHHHH-h-hcCcceeEEEeechhhhh----hcCCHHHHH--
Q 048064           89 KNELVGVESRVEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFNR-I-SRNFKGSCFLENIREESQ----KAGGLAFLQ--  160 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~-~-~~~f~~~~~~~~~~~~~~----~~~~~~~~~--  160 (429)
                      ...+.+|......+..++.....+.+.|++|+|||+||..++.+ + ...|...+.....-....    ...+...-.  
T Consensus        54 ~~~i~p~n~~Q~~~l~al~~~~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI~RP~v~~ge~LGfLPG~~~eK~~p  133 (262)
T PRK10536         54 TSPILARNEAQAHYLKAIESKQLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVTRPVLQADEDLGFLPGDIAEKFAP  133 (262)
T ss_pred             CccccCCCHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEEeCCCCCchhhhCcCCCCHHHHHHH
Confidence            35577788888888888887779999999999999999998885 3 334443333221111000    011111111  


Q ss_pred             --HHHHHHHhcCCCCCCCHHH------------HHHHhcCCcE---EEEecCCCCHH--HHHHHhccCCCCCCCCEEEEE
Q 048064          161 --QKLLSEVLKDVNVIPHIDL------------NFRRLSCRKV---LIVLDDVTCLN--QIESLVGSLDRLLPESRILIT  221 (429)
Q Consensus       161 --~~l~~~~~~~~~~~~~~~~------------l~~~l~~~~~---LlVlDdv~~~~--~~~~l~~~l~~~~~~~~iiiT  221 (429)
                        +.+...+..-. ....++.            -..+++++.+   +||+|++.+..  +...++   .+.+.++++|+|
T Consensus       134 ~~~pi~D~L~~~~-~~~~~~~~~~~~~~~Iei~~l~ymRGrtl~~~~vIvDEaqn~~~~~~k~~l---tR~g~~sk~v~~  209 (262)
T PRK10536        134 YFRPVYDVLVRRL-GASFMQYCLRPEIGKVEIAPFAYMRGRTFENAVVILDEAQNVTAAQMKMFL---TRLGENVTVIVN  209 (262)
T ss_pred             HHHHHHHHHHHHh-ChHHHHHHHHhccCcEEEecHHHhcCCcccCCEEEEechhcCCHHHHHHHH---hhcCCCCEEEEe
Confidence              11222211110 0011111            2335566554   99999998554  444444   345789999998


Q ss_pred             eCCh
Q 048064          222 TRNK  225 (429)
Q Consensus       222 tR~~  225 (429)
                      .-..
T Consensus       210 GD~~  213 (262)
T PRK10536        210 GDIT  213 (262)
T ss_pred             CChh
Confidence            7543

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=98.08  E-value=1e-05  Score=76.74  Aligned_cols=90  Identities=22%  Similarity=0.165  Sum_probs=59.2

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhc-CcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHH-------
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISR-NFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDL-------  179 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~-~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~-------  179 (429)
                      ..+..+|+|++|+|||||++.+++.+.. +|+..+|+..+.+.   ......+++.+...+.....+.+....       
T Consensus       168 kGQR~lIvgppGvGKTTLaK~Ian~I~~nhFDv~~~VvLIgER---~~EVtdiqrsIlg~vv~st~d~~~~~~~~~a~~~  244 (416)
T PRK09376        168 KGQRGLIVAPPKAGKTVLLQNIANSITTNHPEVHLIVLLIDER---PEEVTDMQRSVKGEVVASTFDEPAERHVQVAEMV  244 (416)
T ss_pred             cCceEEEeCCCCCChhHHHHHHHHHHHhhcCCeEEEEEEeCCc---hhHHHHHHHHhcCcEEEECCCCCHHHHHHHHHHH
Confidence            6788999999999999999999998765 58888888866653   134566666665322222111111111       


Q ss_pred             --HHHH--hcCCcEEEEecCCCCHH
Q 048064          180 --NFRR--LSCRKVLIVLDDVTCLN  200 (429)
Q Consensus       180 --l~~~--l~~~~~LlVlDdv~~~~  200 (429)
                        ..++  ..+++++|++|++....
T Consensus       245 ie~Ae~~~e~G~dVlL~iDsItR~a  269 (416)
T PRK09376        245 IEKAKRLVEHGKDVVILLDSITRLA  269 (416)
T ss_pred             HHHHHHHHHcCCCEEEEEEChHHHH
Confidence              1111  35789999999997554

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

Probab=98.08  E-value=0.00057  Score=60.61  Aligned_cols=184  Identities=15%  Similarity=0.172  Sum_probs=98.5

Q ss_pred             HHHHHHhhc-CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCC-CC--
Q 048064           99 VEEIQSLLG-AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVN-VI--  174 (429)
Q Consensus        99 ~~~l~~~l~-~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~--  174 (429)
                      +..+...+. +.+++.++|.-|.|||.+++.+...+-++ ...+.+.+..     ......+...+...+..... ..  
T Consensus        40 l~~l~~~i~d~qg~~~vtGevGsGKTv~~Ral~~s~~~d-~~~~v~i~~~-----~~s~~~~~~ai~~~l~~~p~~~~~~  113 (269)
T COG3267          40 LLMLHAAIADGQGILAVTGEVGSGKTVLRRALLASLNED-QVAVVVIDKP-----TLSDATLLEAIVADLESQPKVNVNA  113 (269)
T ss_pred             HHHHHHHHhcCCceEEEEecCCCchhHHHHHHHHhcCCC-ceEEEEecCc-----chhHHHHHHHHHHHhccCccchhHH
Confidence            333444444 56699999999999999999555444322 2222222121     22233344444444433210 11  


Q ss_pred             --CCHHH-HHHH-hcCCc-EEEEecCCCCH--HHH---HHHhccCCCCCCCCEEEEEeCCh-------hhhhhcC-CCeE
Q 048064          175 --PHIDL-NFRR-LSCRK-VLIVLDDVTCL--NQI---ESLVGSLDRLLPESRILITTRNK-------QVLRNCH-INQI  236 (429)
Q Consensus       175 --~~~~~-l~~~-l~~~~-~LlVlDdv~~~--~~~---~~l~~~l~~~~~~~~iiiTtR~~-------~~~~~~~-~~~~  236 (429)
                        ...+. +... .++++ +.+++|+.++.  +.+   ..|...-......-+|+....-+       ..+.... ....
T Consensus       114 ~~e~~~~~L~al~~~g~r~v~l~vdEah~L~~~~le~Lrll~nl~~~~~~~l~ivL~Gqp~L~~~lr~~~l~e~~~R~~i  193 (269)
T COG3267         114 VLEQIDRELAALVKKGKRPVVLMVDEAHDLNDSALEALRLLTNLEEDSSKLLSIVLIGQPKLRPRLRLPVLRELEQRIDI  193 (269)
T ss_pred             HHHHHHHHHHHHHHhCCCCeEEeehhHhhhChhHHHHHHHHHhhcccccCceeeeecCCcccchhhchHHHHhhhheEEE
Confidence              11111 2222 23455 99999999644  233   33332222222222333322211       1111111 1223


Q ss_pred             -EEcCCCCHHHHHHHHHHhhhcCCCCChh-HHHHHHHHHHHhCCChHHHHHHHH
Q 048064          237 -YEMKGLGDDHALELFIRHAFRQNLVDVD-YKELSDKVINYAQGVPLALKILGC  288 (429)
Q Consensus       237 -~~l~~L~~~ea~~L~~~~~~~~~~~~~~-~~~~~~~i~~~~~G~PLai~~~~~  288 (429)
                       |.++|++.++...++..++.+...+.+- ..+....+.....|.|.+|..++.
T Consensus       194 r~~l~P~~~~~t~~yl~~~Le~a~~~~~l~~~~a~~~i~~~sqg~P~lin~~~~  247 (269)
T COG3267         194 RIELPPLTEAETGLYLRHRLEGAGLPEPLFSDDALLLIHEASQGIPRLINNLAT  247 (269)
T ss_pred             EEecCCcChHHHHHHHHHHHhccCCCcccCChhHHHHHHHHhccchHHHHHHHH
Confidence             8999999999999998887544333222 346778899999999999988764

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

Probab=98.05  E-value=8.4e-05  Score=78.38  Aligned_cols=46  Identities=20%  Similarity=0.367  Sum_probs=37.6

Q ss_pred             CCcccchhhHHHHHHHhhc-----------CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064           89 KNELVGVESRVEEIQSLLG-----------AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~-----------~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ...++|.+..++.+.+.+.           ...++.++|++|+|||+||+.+++.+.
T Consensus       453 ~~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l~  509 (731)
T TIGR02639       453 KAKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEALG  509 (731)
T ss_pred             hcceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHhc
Confidence            4568899999998888765           123578999999999999999999773

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=98.04  E-value=0.00039  Score=65.91  Aligned_cols=90  Identities=19%  Similarity=0.280  Sum_probs=63.1

Q ss_pred             CcEEEEecCCC--CHHHHHHHhccCCCCCCCCEEEEEeCC-hhhhhhc-CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCC
Q 048064          187 RKVLIVLDDVT--CLNQIESLVGSLDRLLPESRILITTRN-KQVLRNC-HINQIYEMKGLGDDHALELFIRHAFRQNLVD  262 (429)
Q Consensus       187 ~~~LlVlDdv~--~~~~~~~l~~~l~~~~~~~~iiiTtR~-~~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~  262 (429)
                      +.-++|||+++  +......|+..+....+++.+|++|.+ ..+++.+ +....+.+.+++.++..+.+....    ...
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            45589999998  446788899888877778776655554 4455442 345789999999999999997652    111


Q ss_pred             hhHHHHHHHHHHHhCCChHHHHHH
Q 048064          263 VDYKELSDKVINYAQGVPLALKIL  286 (429)
Q Consensus       263 ~~~~~~~~~i~~~~~G~PLai~~~  286 (429)
                            ...+...++|.|+....+
T Consensus       208 ------~~~~l~~~~Gsp~~Al~~  225 (342)
T PRK06964        208 ------ADALLAEAGGAPLAALAL  225 (342)
T ss_pred             ------HHHHHHHcCCCHHHHHHH
Confidence                  223577889999755444

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

Probab=98.04  E-value=0.00013  Score=68.02  Aligned_cols=157  Identities=20%  Similarity=0.308  Sum_probs=95.9

Q ss_pred             CCcccchhhHHHHHHHhhc-----CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHH
Q 048064           89 KNELVGVESRVEEIQSLLG-----AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKL  163 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~-----~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l  163 (429)
                      .+.+.+|+.+++.+..++.     -+..|.|+|.+|.|||.+.+++.+...   ...+|+....     ......+...+
T Consensus         5 ~~~v~~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~n---~~~vw~n~~e-----cft~~~lle~I   76 (438)
T KOG2543|consen    5 EPNVPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKLN---LENVWLNCVE-----CFTYAILLEKI   76 (438)
T ss_pred             ccCccchHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhcC---CcceeeehHH-----hccHHHHHHHH
Confidence            4578899999999999997     234568999999999999999998762   2345655333     45677778888


Q ss_pred             HHHHhcCCCCCC-------CHHH----HHH--Hhc--CCcEEEEecCCCCHHHHHH-----H---hccCCCCCCCCEEEE
Q 048064          164 LSEVLKDVNVIP-------HIDL----NFR--RLS--CRKVLIVLDDVTCLNQIES-----L---VGSLDRLLPESRILI  220 (429)
Q Consensus       164 ~~~~~~~~~~~~-------~~~~----l~~--~l~--~~~~LlVlDdv~~~~~~~~-----l---~~~l~~~~~~~~iii  220 (429)
                      +.+....+.+..       .+..    +.+  ...  ++.++|||||++...+.++     +   ...++  .+...|+.
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            887752211111       1111    111  122  3589999999986653221     1   12222  23333333


Q ss_pred             EeCCh--hhhhhcCC--CeEEEcCCCCHHHHHHHHHHhh
Q 048064          221 TTRNK--QVLRNCHI--NQIYEMKGLGDDHALELFIRHA  255 (429)
Q Consensus       221 TtR~~--~~~~~~~~--~~~~~l~~L~~~ea~~L~~~~~  255 (429)
                      ..-..  .....++.  .-++.++..+.+|...++.+.-
T Consensus       155 s~~~~e~~y~~n~g~~~i~~l~fP~Ys~~e~~~Il~~~~  193 (438)
T KOG2543|consen  155 SAPSCEKQYLINTGTLEIVVLHFPQYSVEETQVILSRDN  193 (438)
T ss_pred             eccccHHHhhcccCCCCceEEecCCCCHHHHHHHHhcCC
Confidence            22211  12222333  3356789999999999997654

>TIGR00767 rho transcription termination factor Rho

Probab=98.02  E-value=2.2e-05  Score=74.85  Aligned_cols=90  Identities=22%  Similarity=0.147  Sum_probs=61.0

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcC-cceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHH---H----
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRN-FKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHID---L----  179 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~---~----  179 (429)
                      ..+.++|+|++|+|||||++.+++.+..+ |+..+|+..+.+.   ...+..+++.++..+.....+.+...   .    
T Consensus       167 ~Gq~~~IvG~~g~GKTtL~~~i~~~I~~nhfdv~v~VlLIgER---~~EVtDLqrsIlg~Vvast~d~p~~~~~~va~~v  243 (415)
T TIGR00767       167 KGQRGLIVAPPKAGKTVLLQKIAQAITRNHPEVELIVLLIDER---PEEVTDMQRSVKGEVVASTFDEPASRHVQVAEMV  243 (415)
T ss_pred             CCCEEEEECCCCCChhHHHHHHHHhhcccCCceEEEEEEcCCC---CccHHHHHHHhhceEEEecCCCChHHHHHHHHHH
Confidence            67889999999999999999999987665 7778887765442   24677777777544333311111111   0    


Q ss_pred             ---H-HHHhcCCcEEEEecCCCCHH
Q 048064          180 ---N-FRRLSCRKVLIVLDDVTCLN  200 (429)
Q Consensus       180 ---l-~~~l~~~~~LlVlDdv~~~~  200 (429)
                         . .....+++++|++|++....
T Consensus       244 ~e~Ae~~~~~GkdVVLlIDEitR~a  268 (415)
T TIGR00767       244 IEKAKRLVEHKKDVVILLDSITRLA  268 (415)
T ss_pred             HHHHHHHHHcCCCeEEEEEChhHHH
Confidence               1 11235789999999997654

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

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=98.01  E-value=3.3e-05  Score=70.35  Aligned_cols=39  Identities=26%  Similarity=0.290  Sum_probs=30.9

Q ss_pred             hcCCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEe
Q 048064          106 LGAAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLE  144 (429)
Q Consensus       106 l~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  144 (429)
                      +....-+.++|++|+|||.||.++++.+......+.|+.
T Consensus       102 ~~~~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~~  140 (254)
T COG1484         102 FERGENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFIT  140 (254)
T ss_pred             hccCCcEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEE
Confidence            337788999999999999999999999884434444443

>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional

Probab=98.00  E-value=0.00017  Score=67.84  Aligned_cols=153  Identities=19%  Similarity=0.276  Sum_probs=84.7

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhh-hcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQ-KAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSC  186 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~  186 (429)
                      .++.++|||++|+|||.+|+.++..+.-.|    +..+..+... ......+..++++......           ..-++
T Consensus       147 ~PlgllL~GPPGcGKTllAraiA~elg~~~----i~vsa~eL~sk~vGEsEk~IR~~F~~A~~~-----------a~~~~  211 (413)
T PLN00020        147 VPLILGIWGGKGQGKSFQCELVFKKMGIEP----IVMSAGELESENAGEPGKLIRQRYREAADI-----------IKKKG  211 (413)
T ss_pred             CCeEEEeeCCCCCCHHHHHHHHHHHcCCCe----EEEEHHHhhcCcCCcHHHHHHHHHHHHHHH-----------hhccC
Confidence            677899999999999999999999875432    2332332211 1223344444444332110           00145


Q ss_pred             CcEEEEecCCCCHH------------HH--HHHhccCC--------------CCCCCCEEEEEeCChhhhhh--cC---C
Q 048064          187 RKVLIVLDDVTCLN------------QI--ESLVGSLD--------------RLLPESRILITTRNKQVLRN--CH---I  233 (429)
Q Consensus       187 ~~~LlVlDdv~~~~------------~~--~~l~~~l~--------------~~~~~~~iiiTtR~~~~~~~--~~---~  233 (429)
                      ++.+|+||++|...            +.  ..|+..+.              ...++..||+||.....+..  ..   .
T Consensus       212 aPcVLFIDEIDA~~g~r~~~~~tv~~qiV~~tLLnl~D~p~~v~l~G~w~~~~~~~~V~VIaTTNrpd~LDpALlRpGRf  291 (413)
T PLN00020        212 KMSCLFINDLDAGAGRFGTTQYTVNNQMVNGTLMNIADNPTNVSLGGDWREKEEIPRVPIIVTGNDFSTLYAPLIRDGRM  291 (413)
T ss_pred             CCeEEEEehhhhcCCCCCCCCcchHHHHHHHHHHHHhcCCccccccccccccccCCCceEEEeCCCcccCCHhHcCCCCC
Confidence            78999999996221            11  23332211              12345667888876643222  11   1


Q ss_pred             CeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChH
Q 048064          234 NQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPL  281 (429)
Q Consensus       234 ~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PL  281 (429)
                      ...|  ..-+.++-.++++.+... ...+   .....+|++...|-|+
T Consensus       292 Dk~i--~lPd~e~R~eIL~~~~r~-~~l~---~~dv~~Lv~~f~gq~~  333 (413)
T PLN00020        292 EKFY--WAPTREDRIGVVHGIFRD-DGVS---REDVVKLVDTFPGQPL  333 (413)
T ss_pred             Ccee--CCCCHHHHHHHHHHHhcc-CCCC---HHHHHHHHHcCCCCCc
Confidence            2223  345667777777665533 3222   2446678888888775

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=97.99  E-value=0.00014  Score=77.53  Aligned_cols=48  Identities=19%  Similarity=0.310  Sum_probs=39.2

Q ss_pred             CCcccchhhHHHHHHHhhc-----------CCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064           89 KNELVGVESRVEEIQSLLG-----------AAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~-----------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ...++|.+..++.+.+.+.           ...++.++|++|+|||.||+.+++.+...
T Consensus       565 ~~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~~~  623 (852)
T TIGR03345       565 AERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELLYGG  623 (852)
T ss_pred             cCeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHHhCC
Confidence            4578999999999988774           12368899999999999999999887443

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.

>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A

Probab=97.99  E-value=0.00016  Score=61.20  Aligned_cols=135  Identities=15%  Similarity=0.214  Sum_probs=75.1

Q ss_pred             chhhHHHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhcC--------------------cceeEEEeechhhh
Q 048064           94 GVESRVEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISRN--------------------FKGSCFLENIREES  150 (429)
Q Consensus        94 GR~~~~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~--------------------f~~~~~~~~~~~~~  150 (429)
                      |-+...+.|.+.+.   -++.+.++|+.|+||+++|..+++.+-..                    ++...++...... 
T Consensus         1 gq~~~~~~L~~~~~~~~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~-   79 (162)
T PF13177_consen    1 GQEEIIELLKNLIKSGRLPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIKPDKKK-   79 (162)
T ss_dssp             S-HHHHHHHHHHHHCTC--SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEETTTSS-
T ss_pred             CcHHHHHHHHHHHHcCCcceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEeccccc-
Confidence            44566677777776   35678999999999999999999965321                    2223333211000 


Q ss_pred             hhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCC--HHHHHHHhccCCCCCCCCEEEEEeCChh-h
Q 048064          151 QKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTC--LNQIESLVGSLDRLLPESRILITTRNKQ-V  227 (429)
Q Consensus       151 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~--~~~~~~l~~~l~~~~~~~~iiiTtR~~~-~  227 (429)
                      . .-....+. .+...+...            ...+..-++||||++.  .+...+|+..+.....++.+|++|.+.. +
T Consensus        80 ~-~i~i~~ir-~i~~~~~~~------------~~~~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fiL~t~~~~~i  145 (162)
T PF13177_consen   80 K-SIKIDQIR-EIIEFLSLS------------PSEGKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYFILITNNPSKI  145 (162)
T ss_dssp             S-SBSHHHHH-HHHHHCTSS-------------TTSSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEEEEES-GGGS
T ss_pred             c-hhhHHHHH-HHHHHHHHH------------HhcCCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEEEEECChHHC
Confidence            0 01111111 222211111            0123466999999984  4577888888887778888888887764 3


Q ss_pred             hhh-cCCCeEEEcCCCC
Q 048064          228 LRN-CHINQIYEMKGLG  243 (429)
Q Consensus       228 ~~~-~~~~~~~~l~~L~  243 (429)
                      ++. .+....+.+++++
T Consensus       146 l~TI~SRc~~i~~~~ls  162 (162)
T PF13177_consen  146 LPTIRSRCQVIRFRPLS  162 (162)
T ss_dssp             -HHHHTTSEEEEE----
T ss_pred             hHHHHhhceEEecCCCC
Confidence            333 2345677777764

...

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=97.98  E-value=0.00055  Score=73.45  Aligned_cols=126  Identities=14%  Similarity=0.209  Sum_probs=72.1

Q ss_pred             CCcccchhhHHHHHHHhhc----C-------CCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHH
Q 048064           89 KNELVGVESRVEEIQSLLG----A-------APLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLA  157 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~----~-------~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~  157 (429)
                      ...++|.+..++.+...+.    +       ...+.++|++|+|||++|+.++..+.......+.+ ++..... .... 
T Consensus       564 ~~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~~~~~~~i~~-d~s~~~~-~~~~-  640 (852)
T TIGR03346       564 HERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFLFDDEDAMVRI-DMSEYME-KHSV-  640 (852)
T ss_pred             hcccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhcCCCCcEEEE-echhhcc-cchH-
Confidence            4578999999999998875    1       24688999999999999999999764432222222 2322111 1111 


Q ss_pred             HHHHHHHHHHhcCCCC---CCCHHHHHHHhcCCc-EEEEecCCC--CHHHHHHHhccCCCC-----------CCCCEEEE
Q 048064          158 FLQQKLLSEVLKDVNV---IPHIDLNFRRLSCRK-VLIVLDDVT--CLNQIESLVGSLDRL-----------LPESRILI  220 (429)
Q Consensus       158 ~~~~~l~~~~~~~~~~---~~~~~~l~~~l~~~~-~LlVlDdv~--~~~~~~~l~~~l~~~-----------~~~~~iii  220 (429)
                             ..+....+.   ......+...++.++ .+|+||+++  +.+.+..|+..+...           ..++.||+
T Consensus       641 -------~~l~g~~~g~~g~~~~g~l~~~v~~~p~~vlllDeieka~~~v~~~Ll~~l~~g~l~d~~g~~vd~rn~iiI~  713 (852)
T TIGR03346       641 -------ARLIGAPPGYVGYEEGGQLTEAVRRKPYSVVLFDEVEKAHPDVFNVLLQVLDDGRLTDGQGRTVDFRNTVIIM  713 (852)
T ss_pred             -------HHhcCCCCCccCcccccHHHHHHHcCCCcEEEEeccccCCHHHHHHHHHHHhcCceecCCCeEEecCCcEEEE
Confidence                   111111111   111123444444444 489999997  444556666555321           12344777


Q ss_pred             EeCC
Q 048064          221 TTRN  224 (429)
Q Consensus       221 TtR~  224 (429)
                      ||..
T Consensus       714 TSn~  717 (852)
T TIGR03346       714 TSNL  717 (852)
T ss_pred             eCCc
Confidence            8765

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.

>PRK09183 transposase/IS protein; Provisional

Probab=97.98  E-value=4.7e-05  Score=69.68  Aligned_cols=36  Identities=22%  Similarity=0.182  Sum_probs=27.4

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEE
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFL  143 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  143 (429)
                      ....+.|+|++|+|||+||..++.........+.|+
T Consensus       101 ~~~~v~l~Gp~GtGKThLa~al~~~a~~~G~~v~~~  136 (259)
T PRK09183        101 RNENIVLLGPSGVGKTHLAIALGYEAVRAGIKVRFT  136 (259)
T ss_pred             cCCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEE
Confidence            667889999999999999999988755443233333

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.97  E-value=1.9e-05  Score=64.69  Aligned_cols=29  Identities=31%  Similarity=0.358  Sum_probs=25.5

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcCc
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRNF  137 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f  137 (429)
                      .+.+.|+|++|+||||+++.+++.+....
T Consensus         2 ~~~~~l~G~~G~GKTtl~~~l~~~~~~~~   30 (148)
T smart00382        2 GEVILIVGPPGSGKTTLARALARELGPPG   30 (148)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHhccCCCC
Confidence            46799999999999999999999876654

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.

>PRK06921 hypothetical protein; Provisional

Probab=97.96  E-value=2.4e-05  Score=71.83  Aligned_cols=36  Identities=19%  Similarity=0.252  Sum_probs=29.3

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcC-cceeEEEe
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRN-FKGSCFLE  144 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~-f~~~~~~~  144 (429)
                      ...+.++|++|+|||+||..+++.+.++ ...++|+.
T Consensus       117 ~~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~  153 (266)
T PRK06921        117 KNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFP  153 (266)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEE
Confidence            5679999999999999999999988765 44455554

>PRK08939 primosomal protein DnaI; Reviewed

Probab=97.92  E-value=0.00011  Score=68.76  Aligned_cols=115  Identities=16%  Similarity=0.245  Sum_probs=64.6

Q ss_pred             chhhHHHHHHHhhc------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHH
Q 048064           94 GVESRVEEIQSLLG------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEV  167 (429)
Q Consensus        94 GR~~~~~~l~~~l~------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  167 (429)
                      +|...+....+++.      ..+-+.|+|+.|+|||.||..+++.+......+.|+.           ...+...+....
T Consensus       135 ~~~~~~~~~~~fi~~~~~~~~~~gl~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~~-----------~~~l~~~lk~~~  203 (306)
T PRK08939        135 DRLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKSYLLAAIANELAKKGVSSTLLH-----------FPEFIRELKNSI  203 (306)
T ss_pred             HHHHHHHHHHHHHHHhhccCCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEE-----------HHHHHHHHHHHH
Confidence            45444554455554      3457999999999999999999999875544455554           112222332222


Q ss_pred             hcCCCCCCCHHHHHHHhcCCcEEEEecCCCC--HHHHH--HHhccC-C-CCCCCCEEEEEeCCh
Q 048064          168 LKDVNVIPHIDLNFRRLSCRKVLIVLDDVTC--LNQIE--SLVGSL-D-RLLPESRILITTRNK  225 (429)
Q Consensus       168 ~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~--~~~~~--~l~~~l-~-~~~~~~~iiiTtR~~  225 (429)
                      ..     .........+. +--||||||+..  ...|.  .++..+ . +...+..+|+||.-.
T Consensus       204 ~~-----~~~~~~l~~l~-~~dlLiIDDiG~e~~s~~~~~~ll~~Il~~R~~~~~~ti~TSNl~  261 (306)
T PRK08939        204 SD-----GSVKEKIDAVK-EAPVLMLDDIGAEQMSSWVRDEVLGVILQYRMQEELPTFFTSNFD  261 (306)
T ss_pred             hc-----CcHHHHHHHhc-CCCEEEEecCCCccccHHHHHHHHHHHHHHHHHCCCeEEEECCCC
Confidence            11     12333344444 344899999952  22332  343332 2 112456688888643

>PRK06835 DNA replication protein DnaC; Validated

Probab=97.92  E-value=6.6e-05  Score=70.86  Aligned_cols=37  Identities=22%  Similarity=0.239  Sum_probs=30.3

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEe
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLE  144 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  144 (429)
                      ....+.++|++|+|||+||..+++.+......++|+.
T Consensus       182 ~~~~Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t  218 (329)
T PRK06835        182 NNENLLFYGNTGTGKTFLSNCIAKELLDRGKSVIYRT  218 (329)
T ss_pred             cCCcEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEE
Confidence            4578999999999999999999998876644555554

>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=97.90  E-value=0.00025  Score=72.65  Aligned_cols=173  Identities=14%  Similarity=0.202  Sum_probs=104.9

Q ss_pred             CCcccchhhHHHHHHHhhc--------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcC
Q 048064           89 KNELVGVESRVEEIQSLLG--------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAG  154 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~--------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~  154 (429)
                      -.++.|-++..++|.+...              -++-+.++||+|+|||-||++++-...     +-|+.....      
T Consensus       310 FkDVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEAg-----VPF~svSGS------  378 (774)
T KOG0731|consen  310 FKDVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEAG-----VPFFSVSGS------  378 (774)
T ss_pred             cccccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhcccC-----CceeeechH------
Confidence            4678888887777776553              467799999999999999999998643     222221110      


Q ss_pred             CHHHHHHHHHHHHhcCCCCCCCHHHHHH-HhcCCcEEEEecCCCCH-----------------HHHHHHhccCCCCCCCC
Q 048064          155 GLAFLQQKLLSEVLKDVNVIPHIDLNFR-RLSCRKVLIVLDDVTCL-----------------NQIESLVGSLDRLLPES  216 (429)
Q Consensus       155 ~~~~~~~~l~~~~~~~~~~~~~~~~l~~-~l~~~~~LlVlDdv~~~-----------------~~~~~l~~~l~~~~~~~  216 (429)
                             ++..-...  .....+..+.. .-.+.+.++.+|+++..                 ..+..++..+..+....
T Consensus       379 -------EFvE~~~g--~~asrvr~lf~~ar~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~~~  449 (774)
T KOG0731|consen  379 -------EFVEMFVG--VGASRVRDLFPLARKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFETSK  449 (774)
T ss_pred             -------HHHHHhcc--cchHHHHHHHHHhhccCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCcCCC
Confidence                   01111100  11222333322 23457889999998532                 12455555555444444


Q ss_pred             EEEE--EeCChhhhhh-----cCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHH
Q 048064          217 RILI--TTRNKQVLRN-----CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLAL  283 (429)
Q Consensus       217 ~iii--TtR~~~~~~~-----~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai  283 (429)
                      .||+  +|+..+++..     -...+.+.++.-+..+..++|.-++...... .+..+... ++..+.|++=|.
T Consensus       450 ~vi~~a~tnr~d~ld~allrpGRfdr~i~i~~p~~~~r~~i~~~h~~~~~~~-~e~~dl~~-~a~~t~gf~gad  521 (774)
T KOG0731|consen  450 GVIVLAATNRPDILDPALLRPGRFDRQIQIDLPDVKGRASILKVHLRKKKLD-DEDVDLSK-LASLTPGFSGAD  521 (774)
T ss_pred             cEEEEeccCCccccCHHhcCCCccccceeccCCchhhhHHHHHHHhhccCCC-cchhhHHH-HHhcCCCCcHHH
Confidence            3333  5554444322     2346678899999999999999888544433 34455566 889999988664

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.90  E-value=0.00014  Score=70.34  Aligned_cols=127  Identities=21%  Similarity=0.237  Sum_probs=76.5

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHH--HHHHHHhcCCCCCCCHHHHHHHhc
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQ--KLLSEVLKDVNVIPHIDLNFRRLS  185 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~~~~~l~~~l~  185 (429)
                      +...+.++|++|+|||+||..++..  ..|+.+-.++   ....  -++..-.+  .+-.             .+....+
T Consensus       537 ~lvSvLl~Gp~~sGKTaLAA~iA~~--S~FPFvKiiS---pe~m--iG~sEsaKc~~i~k-------------~F~DAYk  596 (744)
T KOG0741|consen  537 PLVSVLLEGPPGSGKTALAAKIALS--SDFPFVKIIS---PEDM--IGLSESAKCAHIKK-------------IFEDAYK  596 (744)
T ss_pred             cceEEEEecCCCCChHHHHHHHHhh--cCCCeEEEeC---hHHc--cCccHHHHHHHHHH-------------HHHHhhc
Confidence            4567889999999999999999875  4666544332   1111  11111110  0100             1233345


Q ss_pred             CCcEEEEecCCCCHH------------HHHHHhccCCCCCCC-CE--EEEEeCChhhhhhcC----CCeEEEcCCCCH-H
Q 048064          186 CRKVLIVLDDVTCLN------------QIESLVGSLDRLLPE-SR--ILITTRNKQVLRNCH----INQIYEMKGLGD-D  245 (429)
Q Consensus       186 ~~~~LlVlDdv~~~~------------~~~~l~~~l~~~~~~-~~--iiiTtR~~~~~~~~~----~~~~~~l~~L~~-~  245 (429)
                      ..--+||+||++..-            .++.|+-.+....|. -+  |+-||....++..++    ....+.++.++. +
T Consensus       597 S~lsiivvDdiErLiD~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~m~i~~~F~~~i~Vpnl~~~~  676 (744)
T KOG0741|consen  597 SPLSIIVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQEMGILDCFSSTIHVPNLTTGE  676 (744)
T ss_pred             CcceEEEEcchhhhhcccccCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHHHcCHHHhhhheeecCccCchH
Confidence            556799999996443            245555555544443 34  444777777877765    245788999987 7


Q ss_pred             HHHHHHHHh
Q 048064          246 HALELFIRH  254 (429)
Q Consensus       246 ea~~L~~~~  254 (429)
                      +..+.++..
T Consensus       677 ~~~~vl~~~  685 (744)
T KOG0741|consen  677 QLLEVLEEL  685 (744)
T ss_pred             HHHHHHHHc
Confidence            777777654

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

Probab=97.89  E-value=0.00039  Score=61.54  Aligned_cols=168  Identities=19%  Similarity=0.250  Sum_probs=96.2

Q ss_pred             CCcccchhhHHHH---HHHhhc--------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHH
Q 048064           89 KNELVGVESRVEE---IQSLLG--------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLA  157 (429)
Q Consensus        89 ~~~~vGR~~~~~~---l~~~l~--------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~  157 (429)
                      -++.||.+...+.   |.+.|.        .++.|..+|++|.|||.+|+++++.....|    ......+         
T Consensus       120 ~ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~kvp~----l~vkat~---------  186 (368)
T COG1223         120 LDDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEAKVPL----LLVKATE---------  186 (368)
T ss_pred             HhhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhcccCCce----EEechHH---------
Confidence            4678898876554   344443        688999999999999999999998764322    1111111         


Q ss_pred             HHHHHHHHHHhcCCCCCCCHHHHHHHh-cCCcEEEEecCCCCHH--------------HHHHHhccCCCC--CCCCEEEE
Q 048064          158 FLQQKLLSEVLKDVNVIPHIDLNFRRL-SCRKVLIVLDDVTCLN--------------QIESLVGSLDRL--LPESRILI  220 (429)
Q Consensus       158 ~~~~~l~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~~~--------------~~~~l~~~l~~~--~~~~~iii  220 (429)
                          -+....+   .....+.++.++. +.-+++++||++|...              ..++|+..+...  +.|...|.
T Consensus       187 ----liGehVG---dgar~Ihely~rA~~~aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~eneGVvtIa  259 (368)
T COG1223         187 ----LIGEHVG---DGARRIHELYERARKAAPCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKENEGVVTIA  259 (368)
T ss_pred             ----HHHHHhh---hHHHHHHHHHHHHHhcCCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCcccCCceEEEe
Confidence                1111111   1111222233322 3468999999996432              346666665533  23444555


Q ss_pred             EeCChhhhhhc---CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCC
Q 048064          221 TTRNKQVLRNC---HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGV  279 (429)
Q Consensus       221 TtR~~~~~~~~---~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~  279 (429)
                      .|...+++...   .....++...-+++|-..++...+-.-..+- .  .-.+.++.+++|+
T Consensus       260 aTN~p~~LD~aiRsRFEeEIEF~LP~~eEr~~ile~y~k~~Plpv-~--~~~~~~~~~t~g~  318 (368)
T COG1223         260 ATNRPELLDPAIRSRFEEEIEFKLPNDEERLEILEYYAKKFPLPV-D--ADLRYLAAKTKGM  318 (368)
T ss_pred             ecCChhhcCHHHHhhhhheeeeeCCChHHHHHHHHHHHHhCCCcc-c--cCHHHHHHHhCCC
Confidence            56555544331   2345677777889999999988762211111 1  1145566666665

>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.88  E-value=3.7e-05  Score=69.92  Aligned_cols=26  Identities=23%  Similarity=0.445  Sum_probs=23.5

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      -.|+|.++||||.|||+|++++++++
T Consensus       176 ~NRliLlhGPPGTGKTSLCKaLaQkL  201 (423)
T KOG0744|consen  176 WNRLILLHGPPGTGKTSLCKALAQKL  201 (423)
T ss_pred             eeeEEEEeCCCCCChhHHHHHHHHhh
Confidence            35789999999999999999999964

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

Probab=97.87  E-value=0.0001  Score=77.68  Aligned_cols=155  Identities=19%  Similarity=0.321  Sum_probs=86.1

Q ss_pred             CcccchhhHHHHHHHhhc--------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHH
Q 048064           90 NELVGVESRVEEIQSLLG--------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQ  161 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~--------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~  161 (429)
                      ...+|.+...+++.+++.        ....++++|++|+||||+++.++..+...|-. +-+...+       +...+..
T Consensus       322 ~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~l~~~~~~-i~~~~~~-------d~~~i~g  393 (784)
T PRK10787        322 TDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKATGRKYVR-MALGGVR-------DEAEIRG  393 (784)
T ss_pred             hhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEE-EEcCCCC-------CHHHhcc
Confidence            468999999999988775        45689999999999999999999876544321 1111111       1111100


Q ss_pred             HHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCHHH------HHHHhccCCCC---------------CCCCEEEE
Q 048064          162 KLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLNQ------IESLVGSLDRL---------------LPESRILI  220 (429)
Q Consensus       162 ~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~------~~~l~~~l~~~---------------~~~~~iii  220 (429)
                      .- ....  ......+-.........+-+++||+++....      ...|+..+...               ..+..+|.
T Consensus       394 ~~-~~~~--g~~~G~~~~~l~~~~~~~~villDEidk~~~~~~g~~~~aLlevld~~~~~~~~d~~~~~~~dls~v~~i~  470 (784)
T PRK10787        394 HR-RTYI--GSMPGKLIQKMAKVGVKNPLFLLDEIDKMSSDMRGDPASALLEVLDPEQNVAFSDHYLEVDYDLSDVMFVA  470 (784)
T ss_pred             ch-hccC--CCCCcHHHHHHHhcCCCCCEEEEEChhhcccccCCCHHHHHHHHhccccEEEEecccccccccCCceEEEE
Confidence            00 0000  0011111111111222344789999974321      34444443210               12333445


Q ss_pred             EeCChhhhhh-cCCCeEEEcCCCCHHHHHHHHHHhh
Q 048064          221 TTRNKQVLRN-CHINQIYEMKGLGDDHALELFIRHA  255 (429)
Q Consensus       221 TtR~~~~~~~-~~~~~~~~l~~L~~~ea~~L~~~~~  255 (429)
                      |+....+.+. +....++++.+++.+|-.++..+++
T Consensus       471 TaN~~~i~~aLl~R~~ii~~~~~t~eek~~Ia~~~L  506 (784)
T PRK10787        471 TSNSMNIPAPLLDRMEVIRLSGYTEDEKLNIAKRHL  506 (784)
T ss_pred             cCCCCCCCHHHhcceeeeecCCCCHHHHHHHHHHhh
Confidence            6654433222 2334678999999999999987776

>PRK13531 regulatory ATPase RavA; Provisional

Probab=97.86  E-value=0.00016  Score=70.72  Aligned_cols=47  Identities=17%  Similarity=0.079  Sum_probs=42.4

Q ss_pred             CCcccchhhHHHHHHHhhcCCCEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064           89 KNELVGVESRVEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      ...++||++.++.+...+.....|.|.|++|+|||++|+.++.....
T Consensus        19 ~~~i~gre~vI~lll~aalag~hVLL~GpPGTGKT~LAraLa~~~~~   65 (498)
T PRK13531         19 EKGLYERSHAIRLCLLAALSGESVFLLGPPGIAKSLIARRLKFAFQN   65 (498)
T ss_pred             hhhccCcHHHHHHHHHHHccCCCEEEECCCChhHHHHHHHHHHHhcc
Confidence            45799999999999999988889999999999999999999987643

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=97.86  E-value=0.00016  Score=68.38  Aligned_cols=87  Identities=16%  Similarity=0.269  Sum_probs=54.2

Q ss_pred             CcEEEEecCCCC--HHHHHHHhccCCCCCCCCEEEEEeCChh-hhhhc-CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCC
Q 048064          187 RKVLIVLDDVTC--LNQIESLVGSLDRLLPESRILITTRNKQ-VLRNC-HINQIYEMKGLGDDHALELFIRHAFRQNLVD  262 (429)
Q Consensus       187 ~~~LlVlDdv~~--~~~~~~l~~~l~~~~~~~~iiiTtR~~~-~~~~~-~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~  262 (429)
                      ++-++|+|+++.  ......++..+.....+..+|++|.+.. +.+.+ +....+.+.+++.+++.+.+....    ...
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            344566798874  4456666666665555676777777653 33332 235678899999999998886542    111


Q ss_pred             hhHHHHHHHHHHHhCCChHHH
Q 048064          263 VDYKELSDKVINYAQGVPLAL  283 (429)
Q Consensus       263 ~~~~~~~~~i~~~~~G~PLai  283 (429)
                       .     ...+..++|.|+..
T Consensus       189 -~-----~~~l~~~~g~p~~~  203 (325)
T PRK08699        189 -P-----EERLAFHSGAPLFD  203 (325)
T ss_pred             -H-----HHHHHHhCCChhhh
Confidence             1     11235688999643

>PRK04132 replication factor C small subunit; Provisional

Probab=97.86  E-value=0.00051  Score=72.22  Aligned_cols=158  Identities=15%  Similarity=0.163  Sum_probs=96.7

Q ss_pred             EEEc--CCCcchHHHHHHHHHHhhc-CcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcE
Q 048064          113 GIWG--IGGIGKTTIARVIFNRISR-NFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKV  189 (429)
Q Consensus       113 ~I~G--~~GiGKTtLa~~~~~~~~~-~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~  189 (429)
                      .+.|  |.++||||+|..+++++-. .+...+.-.|++.    ..+...+. .+........+.          -..+.-
T Consensus       568 ~~~G~lPh~lGKTT~A~ala~~l~g~~~~~~~lElNASd----~rgid~IR-~iIk~~a~~~~~----------~~~~~K  632 (846)
T PRK04132        568 FIGGNLPTVLHNTTAALALARELFGENWRHNFLELNASD----ERGINVIR-EKVKEFARTKPI----------GGASFK  632 (846)
T ss_pred             hhcCCCCCcccHHHHHHHHHHhhhcccccCeEEEEeCCC----cccHHHHH-HHHHHHHhcCCc----------CCCCCE
Confidence            3458  8999999999999998632 3333333333332    12333222 222222111000          012457


Q ss_pred             EEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEeCCh-hhhhh-cCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhH
Q 048064          190 LIVLDDVTCL--NQIESLVGSLDRLLPESRILITTRNK-QVLRN-CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDY  265 (429)
Q Consensus       190 LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTtR~~-~~~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~  265 (429)
                      ++|||++|..  .+...|+..+......+++|+++.+. .+.+. .+....+++.+++.++....+...+......  -.
T Consensus       633 VvIIDEaD~Lt~~AQnALLk~lEep~~~~~FILi~N~~~kIi~tIrSRC~~i~F~~ls~~~i~~~L~~I~~~Egi~--i~  710 (846)
T PRK04132        633 IIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGLE--LT  710 (846)
T ss_pred             EEEEECcccCCHHHHHHHHHHhhCCCCCeEEEEEeCChhhCchHHhhhceEEeCCCCCHHHHHHHHHHHHHhcCCC--CC
Confidence            9999999855  46777887777666777777665554 33333 2345789999999999998887765432211  12


Q ss_pred             HHHHHHHHHHhCCChHHHHHHH
Q 048064          266 KELSDKVINYAQGVPLALKILG  287 (429)
Q Consensus       266 ~~~~~~i~~~~~G~PLai~~~~  287 (429)
                      .+....|+..++|.+.....+.
T Consensus       711 ~e~L~~Ia~~s~GDlR~AIn~L  732 (846)
T PRK04132        711 EEGLQAILYIAEGDMRRAINIL  732 (846)
T ss_pred             HHHHHHHHHHcCCCHHHHHHHH
Confidence            4578899999999986554443

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=97.85  E-value=0.00037  Score=64.04  Aligned_cols=165  Identities=20%  Similarity=0.210  Sum_probs=97.6

Q ss_pred             CcccchhhHHHHHHHhhc------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhh-cCCHHHHHHH
Q 048064           90 NELVGVESRVEEIQSLLG------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQK-AGGLAFLQQK  162 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~-~~~~~~~~~~  162 (429)
                      ..++|-.++-+.+..++.      ....+.|+||.|.|||+|......+. +.+.-.+.+.-+...... ...+..+.++
T Consensus        24 ~~l~g~~~~~~~l~~~lkqt~~~gEsnsviiigprgsgkT~li~~~Ls~~-q~~~E~~l~v~Lng~~~~dk~al~~I~rq  102 (408)
T KOG2228|consen   24 INLFGVQDEQKHLSELLKQTILHGESNSVIIIGPRGSGKTILIDTRLSDI-QENGENFLLVRLNGELQTDKIALKGITRQ  102 (408)
T ss_pred             cceeehHHHHHHHHHHHHHHHHhcCCCceEEEccCCCCceEeeHHHHhhH-HhcCCeEEEEEECccchhhHHHHHHHHHH
Confidence            568999999999999886      67789999999999999988777663 333333333333322110 1123333333


Q ss_pred             HHHHHhcC----CCCCCCHHHHHHHhcC------CcEEEEecCCCCHH------HHHHHhccCC-CCCCCCEEEEEeCCh
Q 048064          163 LLSEVLKD----VNVIPHIDLNFRRLSC------RKVLIVLDDVTCLN------QIESLVGSLD-RLLPESRILITTRNK  225 (429)
Q Consensus       163 l~~~~~~~----~~~~~~~~~l~~~l~~------~~~LlVlDdv~~~~------~~~~l~~~l~-~~~~~~~iiiTtR~~  225 (429)
                      +-.++...    .+-.+.+..+...|+.      .++++|+|++|-..      .+-.+..... ...|-|.|-+|||-.
T Consensus       103 l~~e~~~~~k~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisqs~r~Piciig~Ttrld  182 (408)
T KOG2228|consen  103 LALELNRIVKSFGSFTENLSKLLEALKKGDETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQSARAPICIIGVTTRLD  182 (408)
T ss_pred             HHHHHhhhheeecccchhHHHHHHHHhcCCCCCCceEEEEeehhhccccchhhHHHHHHHHHHhhcCCCeEEEEeecccc
Confidence            33333222    2333445556666653      36899999997322      1122222211 224556677899965


Q ss_pred             h-------hhhhcCCCeEEEcCCCCHHHHHHHHHHhh
Q 048064          226 Q-------VLRNCHINQIYEMKGLGDDHALELFIRHA  255 (429)
Q Consensus       226 ~-------~~~~~~~~~~~~l~~L~~~ea~~L~~~~~  255 (429)
                      -       |-..++...++-++.++-++...++++..
T Consensus       183 ~lE~LEKRVKSRFshr~I~m~~~~~l~~yv~l~r~ll  219 (408)
T KOG2228|consen  183 ILELLEKRVKSRFSHRVIFMLPSLPLGDYVDLYRKLL  219 (408)
T ss_pred             HHHHHHHHHHhhcccceeeccCCCChHHHHHHHHHHh
Confidence            2       11222333456677788889998888765

>PRK10865 protein disaggregation chaperone; Provisional

Probab=97.84  E-value=0.00042  Score=74.12  Aligned_cols=47  Identities=19%  Similarity=0.349  Sum_probs=38.4

Q ss_pred             CCcccchhhHHHHHHHhhc-------C----CCEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064           89 KNELVGVESRVEEIQSLLG-------A----APLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~-------~----~~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      ...++|.+..++.+...+.       .    ...+.++|++|+|||++|+.+++.+..
T Consensus       567 ~~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l~~  624 (857)
T PRK10865        567 HHRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFMFD  624 (857)
T ss_pred             CCeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHhhc
Confidence            4578999999999888775       1    136889999999999999999987643

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

Probab=97.81  E-value=5.7e-05  Score=73.23  Aligned_cols=46  Identities=28%  Similarity=0.315  Sum_probs=40.7

Q ss_pred             CcccchhhHHHHHHHhhcCCCEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064           90 NELVGVESRVEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      .++++.+..++.+...+...+.+.++|++|+|||++|+.+++.+..
T Consensus       175 ~d~~i~e~~le~l~~~L~~~~~iil~GppGtGKT~lA~~la~~l~~  220 (459)
T PRK11331        175 NDLFIPETTIETILKRLTIKKNIILQGPPGVGKTFVARRLAYLLTG  220 (459)
T ss_pred             hcccCCHHHHHHHHHHHhcCCCEEEECCCCCCHHHHHHHHHHHhcC
Confidence            4577888899999999888889999999999999999999998754

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=97.80  E-value=0.00049  Score=71.36  Aligned_cols=165  Identities=16%  Similarity=0.181  Sum_probs=88.4

Q ss_pred             CcccchhhHHHHHHHhhc--------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCC
Q 048064           90 NELVGVESRVEEIQSLLG--------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGG  155 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~--------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~  155 (429)
                      .++.|.+...+++.+.+.              -++-+.|+|++|+|||++|+.++....-.|    +..+.........+
T Consensus       152 ~di~g~~~~~~~l~~i~~~~~~~~~~~~~~~~~~~gill~G~~G~GKt~~~~~~a~~~~~~f----~~is~~~~~~~~~g  227 (644)
T PRK10733        152 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPF----FTISGSDFVEMFVG  227 (644)
T ss_pred             HHHcCHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCCE----EEEehHHhHHhhhc
Confidence            355676666666555442              144699999999999999999998764332    11111111000000


Q ss_pred             HHHHHHHHHHHHhcCCCCCCCHHH-HHHHhcCCcEEEEecCCCCHH----------------HHHHHhccCCCCC--CCC
Q 048064          156 LAFLQQKLLSEVLKDVNVIPHIDL-NFRRLSCRKVLIVLDDVTCLN----------------QIESLVGSLDRLL--PES  216 (429)
Q Consensus       156 ~~~~~~~l~~~~~~~~~~~~~~~~-l~~~l~~~~~LlVlDdv~~~~----------------~~~~l~~~l~~~~--~~~  216 (429)
                                      .....+.. +.......+.+|+||++|...                .+..++..+..+.  .+.
T Consensus       228 ----------------~~~~~~~~~f~~a~~~~P~IifIDEiD~l~~~r~~~~~g~~~~~~~~ln~lL~~mdg~~~~~~v  291 (644)
T PRK10733        228 ----------------VGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGI  291 (644)
T ss_pred             ----------------ccHHHHHHHHHHHHhcCCcEEEehhHhhhhhccCCCCCCCchHHHHHHHHHHHhhhcccCCCCe
Confidence                            00001111 222233467899999997541                1233333333222  233


Q ss_pred             EEEEEeCChhhhhh-----cCCCeEEEcCCCCHHHHHHHHHHhhhcCCC-CChhHHHHHHHHHHHhCC
Q 048064          217 RILITTRNKQVLRN-----CHINQIYEMKGLGDDHALELFIRHAFRQNL-VDVDYKELSDKVINYAQG  278 (429)
Q Consensus       217 ~iiiTtR~~~~~~~-----~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~-~~~~~~~~~~~i~~~~~G  278 (429)
                      -+|.||..++.+..     -.....+.++..+.++-.+++..+...... ....    ...+++.+.|
T Consensus       292 ivIaaTN~p~~lD~Al~RpgRfdr~i~v~~Pd~~~R~~Il~~~~~~~~l~~~~d----~~~la~~t~G  355 (644)
T PRK10733        292 IVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDID----AAIIARGTPG  355 (644)
T ss_pred             eEEEecCChhhcCHHHhCCcccceEEEcCCCCHHHHHHHHHHHhhcCCCCCcCC----HHHHHhhCCC
Confidence            44456665543222     123567889999999888998877643221 1111    3346666655

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.79  E-value=0.00046  Score=69.28  Aligned_cols=163  Identities=20%  Similarity=0.211  Sum_probs=89.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCR  187 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~  187 (429)
                      ....|.|.|+.|+|||+|++++++.+..+..+.+-+..+..  .....+..+++.+..-             +.+.+...
T Consensus       430 ~~~~Ill~G~~GsGKT~L~kal~~~~~k~~~~hv~~v~Cs~--l~~~~~e~iQk~l~~v-------------fse~~~~~  494 (952)
T KOG0735|consen  430 RHGNILLNGPKGSGKTNLVKALFDYYSKDLIAHVEIVSCST--LDGSSLEKIQKFLNNV-------------FSEALWYA  494 (952)
T ss_pred             ccccEEEeCCCCCCHhHHHHHHHHHhccccceEEEEEechh--ccchhHHHHHHHHHHH-------------HHHHHhhC
Confidence            56789999999999999999999988754333332322322  2123355555444332             23445667


Q ss_pred             cEEEEecCCCCHHH------------HHHHhccC----CC-CCCCCE--EEEEeCChhhh-----hhcCCCeEEEcCCCC
Q 048064          188 KVLIVLDDVTCLNQ------------IESLVGSL----DR-LLPESR--ILITTRNKQVL-----RNCHINQIYEMKGLG  243 (429)
Q Consensus       188 ~~LlVlDdv~~~~~------------~~~l~~~l----~~-~~~~~~--iiiTtR~~~~~-----~~~~~~~~~~l~~L~  243 (429)
                      +-++||||++....            .+.+...+    .. ...+.+  +|.|.....-.     ...-...+..++++.
T Consensus       495 PSiIvLDdld~l~~~s~~e~~q~~~~~~rla~flnqvi~~y~~~~~~ia~Iat~qe~qtl~~~L~s~~~Fq~~~~L~ap~  574 (952)
T KOG0735|consen  495 PSIIVLDDLDCLASASSNENGQDGVVSERLAAFLNQVIKIYLKRNRKIAVIATGQELQTLNPLLVSPLLFQIVIALPAPA  574 (952)
T ss_pred             CcEEEEcchhhhhccCcccCCcchHHHHHHHHHHHHHHHHHHccCcEEEEEEechhhhhcChhhcCccceEEEEecCCcc
Confidence            89999999963321            11111111    11 122333  44454433211     111234567899999


Q ss_pred             HHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCC-ChHHHHHHH
Q 048064          244 DDHALELFIRHAFRQNLVDVDYKELSDKVINYAQG-VPLALKILG  287 (429)
Q Consensus       244 ~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G-~PLai~~~~  287 (429)
                      ..+-.++++... ...... ...+...-+..+|+| .|.-+.++.
T Consensus       575 ~~~R~~IL~~~~-s~~~~~-~~~~dLd~ls~~TEGy~~~DL~ifV  617 (952)
T KOG0735|consen  575 VTRRKEILTTIF-SKNLSD-ITMDDLDFLSVKTEGYLATDLVIFV  617 (952)
T ss_pred             hhHHHHHHHHHH-Hhhhhh-hhhHHHHHHHHhcCCccchhHHHHH
Confidence            988888876654 222211 122233447777776 455554443

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=97.79  E-value=0.0019  Score=61.40  Aligned_cols=146  Identities=17%  Similarity=0.160  Sum_probs=83.2

Q ss_pred             cccchhhHHHHHHHhhc----CCCEEEEEcCCCcchHHHHHHHHHHhhcCc---------------------ceeEEEee
Q 048064           91 ELVGVESRVEEIQSLLG----AAPLLGIWGIGGIGKTTIARVIFNRISRNF---------------------KGSCFLEN  145 (429)
Q Consensus        91 ~~vGR~~~~~~l~~~l~----~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f---------------------~~~~~~~~  145 (429)
                      .++|-+....++..+..    .++.+.++|++|+||||+|..+++.+....                     +....+. 
T Consensus         2 ~~~~~~~~~~~l~~~~~~~~~~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~lel~-   80 (325)
T COG0470           2 ELVPWQEAVKRLLVQALESGRLPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFLELN-   80 (325)
T ss_pred             CcccchhHHHHHHHHHHhcCCCCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceEEec-
Confidence            35566666777776665    334599999999999999999999865332                     1222221 


Q ss_pred             chhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEeC
Q 048064          146 IREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITTR  223 (429)
Q Consensus       146 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTtR  223 (429)
                      ...... ........+.+........            ..+..-++|||+++..  +....+...+........+|++|.
T Consensus        81 ~s~~~~-~~i~~~~vr~~~~~~~~~~------------~~~~~kviiidead~mt~~A~nallk~lEep~~~~~~il~~n  147 (325)
T COG0470          81 PSDLRK-IDIIVEQVRELAEFLSESP------------LEGGYKVVIIDEADKLTEDAANALLKTLEEPPKNTRFILITN  147 (325)
T ss_pred             ccccCC-CcchHHHHHHHHHHhccCC------------CCCCceEEEeCcHHHHhHHHHHHHHHHhccCCCCeEEEEEcC
Confidence            111000 0012222222222221110            0245679999999855  456777777777677888777776


Q ss_pred             Ch-hhhhhc-CCCeEEEcCCCCHHHHHHH
Q 048064          224 NK-QVLRNC-HINQIYEMKGLGDDHALEL  250 (429)
Q Consensus       224 ~~-~~~~~~-~~~~~~~l~~L~~~ea~~L  250 (429)
                      .. .+.+.+ +....+++.+.+..+....
T Consensus       148 ~~~~il~tI~SRc~~i~f~~~~~~~~i~~  176 (325)
T COG0470         148 DPSKILPTIRSRCQRIRFKPPSRLEAIAW  176 (325)
T ss_pred             ChhhccchhhhcceeeecCCchHHHHHHH
Confidence            44 333322 3345677777444444333

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

Probab=97.78  E-value=0.00033  Score=73.39  Aligned_cols=46  Identities=17%  Similarity=0.275  Sum_probs=38.2

Q ss_pred             CCcccchhhHHHHHHHhhc-----------CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064           89 KNELVGVESRVEEIQSLLG-----------AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~-----------~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ...++|.+..++.|...+.           ....+.++|++|+|||++|+.++..+.
T Consensus       457 ~~~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l~  513 (758)
T PRK11034        457 KMLVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG  513 (758)
T ss_pred             cceEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHhC
Confidence            3568999999998888775           124688999999999999999998873

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

Probab=97.78  E-value=0.00023  Score=71.44  Aligned_cols=50  Identities=30%  Similarity=0.486  Sum_probs=43.7

Q ss_pred             CCcccchhhHHHHHHHhhc--------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcc
Q 048064           89 KNELVGVESRVEEIQSLLG--------AAPLLGIWGIGGIGKTTIARVIFNRISRNFK  138 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~--------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~  138 (429)
                      ...-+|.++..+++.+++.        ..++++.+||+|+|||++|+.++..+-.+|.
T Consensus       410 deDHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~ALnRkFf  467 (906)
T KOG2004|consen  410 DEDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARALNRKFF  467 (906)
T ss_pred             cccccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHHhCCceE
Confidence            4567899999999999886        6789999999999999999999998866653

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=97.76  E-value=0.00017  Score=74.22  Aligned_cols=113  Identities=16%  Similarity=0.231  Sum_probs=73.1

Q ss_pred             CCcccchhhHHHHHHHhhc-----------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHH
Q 048064           89 KNELVGVESRVEEIQSLLG-----------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLA  157 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~-----------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~  157 (429)
                      ...++|.+..+..+.+.+.           +..+....||.|||||-||++++..+-..=...+-+ +.++...      
T Consensus       490 ~~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lfg~e~aliR~-DMSEy~E------  562 (786)
T COG0542         490 KKRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFGDEQALIRI-DMSEYME------  562 (786)
T ss_pred             hcceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHhcCCCccceee-chHHHHH------
Confidence            4578999999999998875           334677899999999999999999875332222222 2332211      


Q ss_pred             HHHHHHHHHHhcCCCCC---CCHHHHHHHhcCCcE-EEEecCCC--CHHHHHHHhccCCC
Q 048064          158 FLQQKLLSEVLKDVNVI---PHIDLNFRRLSCRKV-LIVLDDVT--CLNQIESLVGSLDR  211 (429)
Q Consensus       158 ~~~~~l~~~~~~~~~~~---~~~~~l~~~l~~~~~-LlVlDdv~--~~~~~~~l~~~l~~  211 (429)
                         +.-.+.+.+..+.-   +.-..|.+..+.+|+ +|.||+++  +++-++-|+..+..
T Consensus       563 ---kHsVSrLIGaPPGYVGyeeGG~LTEaVRr~PySViLlDEIEKAHpdV~nilLQVlDd  619 (786)
T COG0542         563 ---KHSVSRLIGAPPGYVGYEEGGQLTEAVRRKPYSVILLDEIEKAHPDVFNLLLQVLDD  619 (786)
T ss_pred             ---HHHHHHHhCCCCCCceeccccchhHhhhcCCCeEEEechhhhcCHHHHHHHHHHhcC
Confidence               11222333332221   222337888888987 88899997  56667777766653

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=97.75  E-value=0.0023  Score=59.88  Aligned_cols=51  Identities=18%  Similarity=0.133  Sum_probs=38.5

Q ss_pred             CCCCcccchhhHHHHHHHhhcCCCEEEEEcCCCcchHHHHHHHHHHhhcCc
Q 048064           87 DSKNELVGVESRVEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFNRISRNF  137 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f  137 (429)
                      ..+..|+=.......+...+...+.|.|.|++|+||||+|+.++..+.-.+
T Consensus        42 ~~d~~y~f~~~~~~~vl~~l~~~~~ilL~G~pGtGKTtla~~lA~~l~~~~   92 (327)
T TIGR01650        42 DIDPAYLFDKATTKAICAGFAYDRRVMVQGYHGTGKSTHIEQIAARLNWPC   92 (327)
T ss_pred             CCCCCccCCHHHHHHHHHHHhcCCcEEEEeCCCChHHHHHHHHHHHHCCCe
Confidence            333445555556666777777677899999999999999999999886443

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.

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=97.74  E-value=0.00066  Score=68.74  Aligned_cols=47  Identities=28%  Similarity=0.508  Sum_probs=39.2

Q ss_pred             CCCCcccchhhHHHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064           87 DSKNELVGVESRVEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ....+++|.+..++.+...+.  ....+.|+|++|+|||++|+.+++..
T Consensus        62 ~~f~~iiGqs~~i~~l~~al~~~~~~~vLi~Ge~GtGKt~lAr~i~~~~  110 (531)
T TIGR02902        62 KSFDEIIGQEEGIKALKAALCGPNPQHVIIYGPPGVGKTAAARLVLEEA  110 (531)
T ss_pred             CCHHHeeCcHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            334579999999999988765  45778999999999999999988754

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.

>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=97.73  E-value=0.0047  Score=55.44  Aligned_cols=206  Identities=17%  Similarity=0.223  Sum_probs=120.6

Q ss_pred             CcccchhhHHHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhc------CcceeEEEeechh-------------
Q 048064           90 NELVGVESRVEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISR------NFKGSCFLENIRE-------------  148 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~------~f~~~~~~~~~~~-------------  148 (429)
                      ..+.++++.-..+..+..  +.+...+|||.|.||-|.+..+.+++-.      +.....|......             
T Consensus        13 ~~l~~~~e~~~~Lksl~~~~d~PHll~yGPSGaGKKTrimclL~elYG~gveklki~~~t~~tpS~kklEistvsS~yHl   92 (351)
T KOG2035|consen   13 DELIYHEELANLLKSLSSTGDFPHLLVYGPSGAGKKTRIMCLLRELYGVGVEKLKIETRTFTTPSKKKLEISTVSSNYHL   92 (351)
T ss_pred             hhcccHHHHHHHHHHhcccCCCCeEEEECCCCCCchhhHHHHHHHHhCCCchheeeeeEEEecCCCceEEEEEecccceE
Confidence            347777777777777766  5789999999999999999888887533      1122233221111             


Q ss_pred             ---hhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcE-EEEecCCCCHH--HHHHHhccCCCCCCCCEEEE--
Q 048064          149 ---ESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKV-LIVLDDVTCLN--QIESLVGSLDRLLPESRILI--  220 (429)
Q Consensus       149 ---~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~-LlVlDdv~~~~--~~~~l~~~l~~~~~~~~iii--  220 (429)
                         .|.....-+.+.++++..+........        ...+++ ++||-.+++..  ...++-.........+|+|+  
T Consensus        93 EitPSDaG~~DRvViQellKevAQt~qie~--------~~qr~fKvvvi~ead~LT~dAQ~aLRRTMEkYs~~~RlIl~c  164 (351)
T KOG2035|consen   93 EITPSDAGNYDRVVIQELLKEVAQTQQIET--------QGQRPFKVVVINEADELTRDAQHALRRTMEKYSSNCRLILVC  164 (351)
T ss_pred             EeChhhcCcccHHHHHHHHHHHHhhcchhh--------ccccceEEEEEechHhhhHHHHHHHHHHHHHHhcCceEEEEe
Confidence               111112223444555555444311111        112333 77787777542  33334344444467888776  


Q ss_pred             --EeCChhhhhhcCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHHHhhcC------
Q 048064          221 --TTRNKQVLRNCHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYLFE------  292 (429)
Q Consensus       221 --TtR~~~~~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~~~l~~------  292 (429)
                        |||--....  +..-.++++..+++|....+++.+-.....-+  .+++.+|+++++|+-.-.-.+...++-      
T Consensus       165 ns~SriIepIr--SRCl~iRvpaps~eeI~~vl~~v~~kE~l~lp--~~~l~rIa~kS~~nLRrAllmlE~~~~~n~~~~  240 (351)
T KOG2035|consen  165 NSTSRIIEPIR--SRCLFIRVPAPSDEEITSVLSKVLKKEGLQLP--KELLKRIAEKSNRNLRRALLMLEAVRVNNEPFT  240 (351)
T ss_pred             cCcccchhHHh--hheeEEeCCCCCHHHHHHHHHHHHHHhcccCc--HHHHHHHHHHhcccHHHHHHHHHHHHhcccccc
Confidence              333322222  23346889999999999999888755553322  578999999999986443333333221      


Q ss_pred             -----CCHHHHHHHHHHHhh
Q 048064          293 -----RKKEVWENAIKKLKN  307 (429)
Q Consensus       293 -----~~~~~~~~~l~~l~~  307 (429)
                           -+..+|+.++.+...
T Consensus       241 a~~~~i~~~dWe~~i~e~a~  260 (351)
T KOG2035|consen  241 ANSQVIPKPDWEIYIQEIAR  260 (351)
T ss_pred             ccCCCCCCccHHHHHHHHHH
Confidence                 134678888776543

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=97.73  E-value=0.0006  Score=70.36  Aligned_cols=145  Identities=13%  Similarity=0.182  Sum_probs=84.6

Q ss_pred             CCcccchhhHHHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhcC-cc-----eeEEEeechhhhhh---cCCHH
Q 048064           89 KNELVGVESRVEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISRN-FK-----GSCFLENIREESQK---AGGLA  157 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-f~-----~~~~~~~~~~~~~~---~~~~~  157 (429)
                      -++.+||+.|++++.+.|.  ...--.++|.+|+|||+++.-++.++... -+     ..++-.++...-..   ...+.
T Consensus       169 lDPvIGRd~EI~r~iqIL~RR~KNNPvLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~sLD~g~LvAGakyRGeFE  248 (786)
T COG0542         169 LDPVIGRDEEIRRTIQILSRRTKNNPVLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSLDLGSLVAGAKYRGEFE  248 (786)
T ss_pred             CCCCcChHHHHHHHHHHHhccCCCCCeEecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEEecHHHHhccccccCcHH
Confidence            3579999999999999998  33445678999999999999999986443 21     12222222111000   01112


Q ss_pred             HHHHHHHHHHhcCCCCCCCHHHHHHHhc-CCcEEEEecCCCCH-----------HHHHHHhccCCCCCCC-CEEE-EEeC
Q 048064          158 FLQQKLLSEVLKDVNVIPHIDLNFRRLS-CRKVLIVLDDVTCL-----------NQIESLVGSLDRLLPE-SRIL-ITTR  223 (429)
Q Consensus       158 ~~~~~l~~~~~~~~~~~~~~~~l~~~l~-~~~~LlVlDdv~~~-----------~~~~~l~~~l~~~~~~-~~ii-iTtR  223 (429)
                      .-                 +..+...+. ..+++|++|.++..           +...-+-+.|.   .| .++| .||-
T Consensus       249 eR-----------------lk~vl~ev~~~~~vILFIDEiHtiVGAG~~~G~a~DAaNiLKPaLA---RGeL~~IGATT~  308 (786)
T COG0542         249 ER-----------------LKAVLKEVEKSKNVILFIDEIHTIVGAGATEGGAMDAANLLKPALA---RGELRCIGATTL  308 (786)
T ss_pred             HH-----------------HHHHHHHHhcCCCeEEEEechhhhcCCCcccccccchhhhhHHHHh---cCCeEEEEeccH
Confidence            22                 222222232 34899999999633           12222333333   23 3444 4554


Q ss_pred             Chhh------hhhcCCCeEEEcCCCCHHHHHHHHHH
Q 048064          224 NKQV------LRNCHINQIYEMKGLGDDHALELFIR  253 (429)
Q Consensus       224 ~~~~------~~~~~~~~~~~l~~L~~~ea~~L~~~  253 (429)
                      ++.-      +......+.+.+...+.+++..++.-
T Consensus       309 ~EYRk~iEKD~AL~RRFQ~V~V~EPs~e~ti~ILrG  344 (786)
T COG0542         309 DEYRKYIEKDAALERRFQKVLVDEPSVEDTIAILRG  344 (786)
T ss_pred             HHHHHHhhhchHHHhcCceeeCCCCCHHHHHHHHHH
Confidence            4421      11113467888999999999988864

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=97.72  E-value=0.0037  Score=63.22  Aligned_cols=171  Identities=16%  Similarity=0.158  Sum_probs=94.3

Q ss_pred             CCCCcccchhhHHHHHHHhhc---------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhh
Q 048064           87 DSKNELVGVESRVEEIQSLLG---------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQ  151 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~---------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~  151 (429)
                      ..-....|.+...+.+.+...               ..+.+.++|++|+|||.||++++......|-....    .....
T Consensus       239 v~~~diggl~~~k~~l~e~v~~~~~~~e~~~~~~~~~~~giLl~GpPGtGKT~lAkava~~~~~~fi~v~~----~~l~s  314 (494)
T COG0464         239 VTLDDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVALESRSRFISVKG----SELLS  314 (494)
T ss_pred             cceehhhcHHHHHHHHHHHHHhHhhChHHHHhcCCCCCCeeEEECCCCCCHHHHHHHHHhhCCCeEEEeeC----HHHhc
Confidence            333455566666665555443               44579999999999999999999965544432111    11100


Q ss_pred             -hcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH-------------HHHHHHhccCCCCCC--C
Q 048064          152 -KAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL-------------NQIESLVGSLDRLLP--E  215 (429)
Q Consensus       152 -~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~-------------~~~~~l~~~l~~~~~--~  215 (429)
                       ......+..+.+                +....+..+.+|++|+++..             .....++..+.....  +
T Consensus       315 k~vGesek~ir~~----------------F~~A~~~~p~iiFiDEiDs~~~~r~~~~~~~~~r~~~~lL~~~d~~e~~~~  378 (494)
T COG0464         315 KWVGESEKNIREL----------------FEKARKLAPSIIFIDEIDSLASGRGPSEDGSGRRVVGQLLTELDGIEKAEG  378 (494)
T ss_pred             cccchHHHHHHHH----------------HHHHHcCCCcEEEEEchhhhhccCCCCCchHHHHHHHHHHHHhcCCCccCc
Confidence             011112222222                22233467899999999533             233444444433333  3


Q ss_pred             CEEEEEeCChhhhhh-----cCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCC
Q 048064          216 SRILITTRNKQVLRN-----CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQG  278 (429)
Q Consensus       216 ~~iiiTtR~~~~~~~-----~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G  278 (429)
                      ..||-||..+.....     ......+.+++-+.++..++|..+........ ...-....+++.+.|
T Consensus       379 v~vi~aTN~p~~ld~a~lR~gRfd~~i~v~~pd~~~r~~i~~~~~~~~~~~~-~~~~~~~~l~~~t~~  445 (494)
T COG0464         379 VLVIAATNRPDDLDPALLRPGRFDRLIYVPLPDLEERLEIFKIHLRDKKPPL-AEDVDLEELAEITEG  445 (494)
T ss_pred             eEEEecCCCccccCHhhcccCccceEeecCCCCHHHHHHHHHHHhcccCCcc-hhhhhHHHHHHHhcC
Confidence            334445554433321     13356788999999999999998874333220 111224455555555

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=97.71  E-value=0.002  Score=64.89  Aligned_cols=165  Identities=13%  Similarity=0.173  Sum_probs=104.3

Q ss_pred             CCCcccchhhHHHHHHHhhc-------CCCEEEEEcCCCcchHHHHHHHHHHhhc-----CcceeEE--Eeechhhhhhc
Q 048064           88 SKNELVGVESRVEEIQSLLG-------AAPLLGIWGIGGIGKTTIARVIFNRISR-----NFKGSCF--LENIREESQKA  153 (429)
Q Consensus        88 ~~~~~vGR~~~~~~l~~~l~-------~~~~v~I~G~~GiGKTtLa~~~~~~~~~-----~f~~~~~--~~~~~~~~~~~  153 (429)
                      .+..+-+|+.+..+|...+.       ....+-|.|.+|+|||+.+..+.+.++.     ..+...|  +....     .
T Consensus       394 vp~sLpcRe~E~~~I~~f~~~~i~~~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~yveINgm~-----l  468 (767)
T KOG1514|consen  394 VPESLPCRENEFSEIEDFLRSFISDQGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFDYVEINGLR-----L  468 (767)
T ss_pred             ccccccchhHHHHHHHHHHHhhcCCCCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCccEEEEccee-----e
Confidence            45677899999999999886       3457889999999999999999996541     1222222  22111     3


Q ss_pred             CCHHHHHHHHHHHHhcC-CCCCCCHHHHHHHhc-----CCcEEEEecCCCCHHH--HHHHhccCCCC-CCCCEEEEEe--
Q 048064          154 GGLAFLQQKLLSEVLKD-VNVIPHIDLNFRRLS-----CRKVLIVLDDVTCLNQ--IESLVGSLDRL-LPESRILITT--  222 (429)
Q Consensus       154 ~~~~~~~~~l~~~~~~~-~~~~~~~~~l~~~l~-----~~~~LlVlDdv~~~~~--~~~l~~~l~~~-~~~~~iiiTt--  222 (429)
                      .....+...|+..+... ......++.+..+..     .+..++++|++|.+-.  -+-+-..+.|. .++++++|-+  
T Consensus       469 ~~~~~~Y~~I~~~lsg~~~~~~~al~~L~~~f~~~k~~~~~~VvLiDElD~Lvtr~QdVlYn~fdWpt~~~sKLvvi~Ia  548 (767)
T KOG1514|consen  469 ASPREIYEKIWEALSGERVTWDAALEALNFRFTVPKPKRSTTVVLIDELDILVTRSQDVLYNIFDWPTLKNSKLVVIAIA  548 (767)
T ss_pred             cCHHHHHHHHHHhcccCcccHHHHHHHHHHhhccCCCCCCCEEEEeccHHHHhcccHHHHHHHhcCCcCCCCceEEEEec
Confidence            45778888888887766 334444454555543     3568999999975532  12222223332 4677755422  


Q ss_pred             CChhhhhhc--------CCCeEEEcCCCCHHHHHHHHHHhhhc
Q 048064          223 RNKQVLRNC--------HINQIYEMKGLGDDHALELFIRHAFR  257 (429)
Q Consensus       223 R~~~~~~~~--------~~~~~~~l~~L~~~ea~~L~~~~~~~  257 (429)
                      ...++...+        -....+.+.|.+.++-.++...++.+
T Consensus       549 NTmdlPEr~l~nrvsSRlg~tRi~F~pYth~qLq~Ii~~RL~~  591 (767)
T KOG1514|consen  549 NTMDLPERLLMNRVSSRLGLTRICFQPYTHEQLQEIISARLKG  591 (767)
T ss_pred             ccccCHHHHhccchhhhccceeeecCCCCHHHHHHHHHHhhcc
Confidence            222222221        12356789999999999998887743

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=97.70  E-value=5.6e-05  Score=62.25  Aligned_cols=102  Identities=20%  Similarity=0.278  Sum_probs=58.3

Q ss_pred             cchhhHHHHHHHhhc----CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEe-echhhhhhcCCHHHHHHHHHHHH
Q 048064           93 VGVESRVEEIQSLLG----AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLE-NIREESQKAGGLAFLQQKLLSEV  167 (429)
Q Consensus        93 vGR~~~~~~l~~~l~----~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~-~~~~~~~~~~~~~~~~~~l~~~~  167 (429)
                      ||....++++.+.+.    ....|.|+|++|+||+++|+.+...-....  ..++. ++..     ..     ..++.. 
T Consensus         1 vG~S~~~~~l~~~l~~~a~~~~pvli~GE~GtGK~~~A~~lh~~~~~~~--~~~~~~~~~~-----~~-----~~~l~~-   67 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLERLAKSSSPVLITGEPGTGKSLLARALHRYSGRAN--GPFIVIDCAS-----LP-----AELLEQ-   67 (138)
T ss_dssp             --SCHHHHHHHHHHHHHHCSSS-EEEECCTTSSHHHHHHCCHHTTTTCC--S-CCCCCHHC-----TC-----HHHHHH-
T ss_pred             CCCCHHHHHHHHHHHHHhCCCCcEEEEcCCCCCHHHHHHHHHhhcCccC--CCeEEechhh-----Cc-----HHHHHH-
Confidence            466667777777665    677899999999999999998777533221  11111 1111     11     112221 


Q ss_pred             hcCCCCCCCHHHHHHHhcCCcEEEEecCCCCHH--HHHHHhccCCC-CCCCCEEEEEeCCh
Q 048064          168 LKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLN--QIESLVGSLDR-LLPESRILITTRNK  225 (429)
Q Consensus       168 ~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~--~~~~l~~~l~~-~~~~~~iiiTtR~~  225 (429)
                                      .  +.-.|+|+|++...  ....+...+.. ...+.|+|.||..+
T Consensus        68 ----------------a--~~gtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~RlI~ss~~~  110 (138)
T PF14532_consen   68 ----------------A--KGGTLYLKNIDRLSPEAQRRLLDLLKRQERSNVRLIASSSQD  110 (138)
T ss_dssp             ----------------C--TTSEEEEECGCCS-HHHHHHHHHHHHHCTTTTSEEEEEECC-
T ss_pred             ----------------c--CCCEEEECChHHCCHHHHHHHHHHHHhcCCCCeEEEEEeCCC
Confidence                            1  34478899998553  34444444432 15678999998765

>PRK12608 transcription termination factor Rho; Provisional

Probab=97.70  E-value=0.00023  Score=67.49  Aligned_cols=98  Identities=20%  Similarity=0.192  Sum_probs=61.1

Q ss_pred             HHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhcCccee-EEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCC
Q 048064           99 VEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGS-CFLENIREESQKAGGLAFLQQKLLSEVLKDVNVI  174 (429)
Q Consensus        99 ~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~-~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  174 (429)
                      ..++.+.+.   ..+.++|+|++|+|||||++.+++.+..+.+.. +++..+.+.   ......+.+.+...+.....+.
T Consensus       120 ~~RvID~l~PiGkGQR~LIvG~pGtGKTTLl~~la~~i~~~~~dv~~vv~lIgER---~~EV~df~~~i~~~Vvast~de  196 (380)
T PRK12608        120 SMRVVDLVAPIGKGQRGLIVAPPRAGKTVLLQQIAAAVAANHPEVHLMVLLIDER---PEEVTDMRRSVKGEVYASTFDR  196 (380)
T ss_pred             hHhhhhheeecCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEEecCC---CCCHHHHHHHHhhhEEeecCCC
Confidence            344666665   667889999999999999999999887655333 344334332   3456666666665444332111


Q ss_pred             CCHHH---------HHHHh--cCCcEEEEecCCCCH
Q 048064          175 PHIDL---------NFRRL--SCRKVLIVLDDVTCL  199 (429)
Q Consensus       175 ~~~~~---------l~~~l--~~~~~LlVlDdv~~~  199 (429)
                      .....         ..+++  .+++++||+|++...
T Consensus       197 ~~~~~~~v~~~~~~~Ae~f~~~GkdVVLvlDsltr~  232 (380)
T PRK12608        197 PPDEHIRVAELVLERAKRLVEQGKDVVILLDSLTRL  232 (380)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHcCCCEEEEEeCcHHH
Confidence            11111         12222  478999999999644

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

Probab=97.68  E-value=0.00054  Score=59.70  Aligned_cols=49  Identities=29%  Similarity=0.330  Sum_probs=41.3

Q ss_pred             CCCCcccchhhHHHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064           87 DSKNELVGVESRVEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      ..-.++||-++-+++|.-...  ..+.+.|.||||+||||-+..+++.+..
T Consensus        24 ~~l~dIVGNe~tv~rl~via~~gnmP~liisGpPG~GKTTsi~~LAr~LLG   74 (333)
T KOG0991|consen   24 SVLQDIVGNEDTVERLSVIAKEGNMPNLIISGPPGTGKTTSILCLARELLG   74 (333)
T ss_pred             hHHHHhhCCHHHHHHHHHHHHcCCCCceEeeCCCCCchhhHHHHHHHHHhC
Confidence            334679999999998887776  7788999999999999999999987643

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.67  E-value=0.0012  Score=63.06  Aligned_cols=29  Identities=21%  Similarity=0.288  Sum_probs=25.3

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      .+++|+|+|++|+||||++..++..+..+
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~~L~~~  268 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAWQFHGK  268 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHHHHHHc
Confidence            45789999999999999999999887644

>CHL00095 clpC Clp protease ATP binding subunit

Probab=97.66  E-value=0.00028  Score=75.37  Aligned_cols=128  Identities=12%  Similarity=0.136  Sum_probs=73.4

Q ss_pred             CCcccchhhHHHHHHHhhc-----------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHH
Q 048064           89 KNELVGVESRVEEIQSLLG-----------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLA  157 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~-----------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~  157 (429)
                      ...++|.+..++.+...+.           ....+.++||+|+|||+||+.+++.+...-...+ ..+..+... .....
T Consensus       508 ~~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l~~~~~~~~-~~d~s~~~~-~~~~~  585 (821)
T CHL00095        508 HKRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYFFGSEDAMI-RLDMSEYME-KHTVS  585 (821)
T ss_pred             cCcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCCccceE-EEEchhccc-cccHH
Confidence            4678999999999988774           1235679999999999999999997643322222 222322111 11111


Q ss_pred             HHHHHHHHHHhcC--CCCCCCHHHHHHHhcCCc-EEEEecCCC--CHHHHHHHhccCCCC-----------CCCCEEEEE
Q 048064          158 FLQQKLLSEVLKD--VNVIPHIDLNFRRLSCRK-VLIVLDDVT--CLNQIESLVGSLDRL-----------LPESRILIT  221 (429)
Q Consensus       158 ~~~~~l~~~~~~~--~~~~~~~~~l~~~l~~~~-~LlVlDdv~--~~~~~~~l~~~l~~~-----------~~~~~iiiT  221 (429)
                      .+    .   +..  .........+...++.++ -+++||+++  +.+..+.|+..+...           ..++.||+|
T Consensus       586 ~l----~---g~~~gyvg~~~~~~l~~~~~~~p~~VvllDeieka~~~v~~~Llq~le~g~~~d~~g~~v~~~~~i~I~T  658 (821)
T CHL00095        586 KL----I---GSPPGYVGYNEGGQLTEAVRKKPYTVVLFDEIEKAHPDIFNLLLQILDDGRLTDSKGRTIDFKNTLIIMT  658 (821)
T ss_pred             Hh----c---CCCCcccCcCccchHHHHHHhCCCeEEEECChhhCCHHHHHHHHHHhccCceecCCCcEEecCceEEEEe
Confidence            11    1   111  011112223556666665 589999997  444556666555431           134456777


Q ss_pred             eCCh
Q 048064          222 TRNK  225 (429)
Q Consensus       222 tR~~  225 (429)
                      |...
T Consensus       659 sn~g  662 (821)
T CHL00095        659 SNLG  662 (821)
T ss_pred             CCcc
Confidence            7654

>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=97.66  E-value=0.0007  Score=65.84  Aligned_cols=146  Identities=16%  Similarity=0.176  Sum_probs=79.2

Q ss_pred             CcccchhhHH---HHHHHhhc-----------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCC
Q 048064           90 NELVGVESRV---EEIQSLLG-----------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGG  155 (429)
Q Consensus        90 ~~~vGR~~~~---~~l~~~l~-----------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~  155 (429)
                      .+.-|-|+..   +++.++|.           =++-|.++||+|.|||-||++++-...    ..+|....++.....  
T Consensus       304 ~dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA~----VPFF~~sGSEFdEm~--  377 (752)
T KOG0734|consen  304 EDVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEAG----VPFFYASGSEFDEMF--  377 (752)
T ss_pred             ccccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcccC----CCeEeccccchhhhh--
Confidence            4566776554   45555554           256799999999999999999987643    223333222211100  


Q ss_pred             HHHHHHHHHHHHhcCCCCCCCHHHHHH-HhcCCcEEEEecCCCCH-------------HHHHHHhccCCCCCCCCEEEE-
Q 048064          156 LAFLQQKLLSEVLKDVNVIPHIDLNFR-RLSCRKVLIVLDDVTCL-------------NQIESLVGSLDRLLPESRILI-  220 (429)
Q Consensus       156 ~~~~~~~l~~~~~~~~~~~~~~~~l~~-~l~~~~~LlVlDdv~~~-------------~~~~~l~~~l~~~~~~~~iii-  220 (429)
                               -     ......+.+|.. .-..-+++|+||++|..             ..+..++..+..+..+.-||| 
T Consensus       378 ---------V-----GvGArRVRdLF~aAk~~APcIIFIDEiDavG~kR~~~~~~y~kqTlNQLLvEmDGF~qNeGiIvi  443 (752)
T KOG0734|consen  378 ---------V-----GVGARRVRDLFAAAKARAPCIIFIDEIDAVGGKRNPSDQHYAKQTLNQLLVEMDGFKQNEGIIVI  443 (752)
T ss_pred             ---------h-----cccHHHHHHHHHHHHhcCCeEEEEechhhhcccCCccHHHHHHHHHHHHHHHhcCcCcCCceEEE
Confidence                     0     001111222222 23456899999999633             134556666665554433333 


Q ss_pred             -EeCChhhhhh-c----CCCeEEEcCCCCHHHHHHHHHHhh
Q 048064          221 -TTRNKQVLRN-C----HINQIYEMKGLGDDHALELFIRHA  255 (429)
Q Consensus       221 -TtR~~~~~~~-~----~~~~~~~l~~L~~~ea~~L~~~~~  255 (429)
                       .|.-++.+.. +    .....+.++.-+-.--.++|..+.
T Consensus       444 gATNfpe~LD~AL~RPGRFD~~v~Vp~PDv~GR~eIL~~yl  484 (752)
T KOG0734|consen  444 GATNFPEALDKALTRPGRFDRHVTVPLPDVRGRTEILKLYL  484 (752)
T ss_pred             eccCChhhhhHHhcCCCccceeEecCCCCcccHHHHHHHHH
Confidence             4444433322 1    234456666666666666666554

>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=97.63  E-value=0.0011  Score=64.89  Aligned_cols=37  Identities=24%  Similarity=0.473  Sum_probs=29.7

Q ss_pred             hHHHHHHHhhc---------CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064           97 SRVEEIQSLLG---------AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus        97 ~~~~~l~~~l~---------~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      .-+.++..||.         +.+++.|+||+|+||||.++.++..+
T Consensus        89 kKI~eVk~WL~~~~~~~~~l~~~iLLltGPsGcGKSTtvkvLskel  134 (634)
T KOG1970|consen   89 KKISEVKQWLKQVAEFTPKLGSRILLLTGPSGCGKSTTVKVLSKEL  134 (634)
T ss_pred             HhHHHHHHHHHHHHHhccCCCceEEEEeCCCCCCchhHHHHHHHhh
Confidence            34556666664         67799999999999999999988864

>PRK04296 thymidine kinase; Provisional

Probab=97.62  E-value=0.00012  Score=63.75  Aligned_cols=106  Identities=16%  Similarity=0.089  Sum_probs=59.5

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEee-chhhhhhcCCHHHHHHHHHHHHhcCCC--CCCCHHHHHHHh--
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLEN-IREESQKAGGLAFLQQKLLSEVLKDVN--VIPHIDLNFRRL--  184 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~~~--~~~~~~~l~~~l--  184 (429)
                      .++.|+|+.|.||||++..++.+...+...++++.. ...    .....    .+...++....  .......+...+  
T Consensus         3 ~i~litG~~GsGKTT~~l~~~~~~~~~g~~v~i~k~~~d~----~~~~~----~i~~~lg~~~~~~~~~~~~~~~~~~~~   74 (190)
T PRK04296          3 KLEFIYGAMNSGKSTELLQRAYNYEERGMKVLVFKPAIDD----RYGEG----KVVSRIGLSREAIPVSSDTDIFELIEE   74 (190)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHHHcCCeEEEEeccccc----cccCC----cEecCCCCcccceEeCChHHHHHHHHh
Confidence            478899999999999999999988665444443321 011    01111    11222221111  112233333332  


Q ss_pred             -cCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEeCCh
Q 048064          185 -SCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITTRNK  225 (429)
Q Consensus       185 -~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTtR~~  225 (429)
                       .++.-+||+|++.-.  +++.++...+.  ..|..||+|.++.
T Consensus        75 ~~~~~dvviIDEaq~l~~~~v~~l~~~l~--~~g~~vi~tgl~~  116 (190)
T PRK04296         75 EGEKIDCVLIDEAQFLDKEQVVQLAEVLD--DLGIPVICYGLDT  116 (190)
T ss_pred             hCCCCCEEEEEccccCCHHHHHHHHHHHH--HcCCeEEEEecCc
Confidence             235569999999643  44555554433  4678899999875

>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=97.62  E-value=0.00032  Score=62.69  Aligned_cols=37  Identities=22%  Similarity=0.341  Sum_probs=31.3

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEe
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLE  144 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  144 (429)
                      .+-.++|.|.+|+|||||+..+.......|..++.+.
T Consensus        12 ~~fr~viIG~sGSGKT~li~~lL~~~~~~f~~I~l~t   48 (241)
T PF04665_consen   12 DPFRMVIIGKSGSGKTTLIKSLLYYLRHKFDHIFLIT   48 (241)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHhhcccCCEEEEEe
Confidence            3447899999999999999999999988997666554

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

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.62  E-value=0.0011  Score=65.57  Aligned_cols=129  Identities=18%  Similarity=0.262  Sum_probs=75.3

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHH-HHHHhcC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDL-NFRRLSC  186 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~-l~~~l~~  186 (429)
                      .+.-|.+|||+|+|||-||+++++...-+|-.+      .       +.+     ++....++  ....+.. +.+.-.+
T Consensus       544 ~PsGvLL~GPPGCGKTLlAKAVANEag~NFisV------K-------GPE-----LlNkYVGE--SErAVR~vFqRAR~s  603 (802)
T KOG0733|consen  544 APSGVLLCGPPGCGKTLLAKAVANEAGANFISV------K-------GPE-----LLNKYVGE--SERAVRQVFQRARAS  603 (802)
T ss_pred             CCCceEEeCCCCccHHHHHHHHhhhccCceEee------c-------CHH-----HHHHHhhh--HHHHHHHHHHHhhcC
Confidence            456799999999999999999999876665311      1       111     11111111  0011112 2333345


Q ss_pred             CcEEEEecCCCCHH-------------HHHHHhccCCCCC--CCCEEEEEeCChhhh-----hhcCCCeEEEcCCCCHHH
Q 048064          187 RKVLIVLDDVTCLN-------------QIESLVGSLDRLL--PESRILITTRNKQVL-----RNCHINQIYEMKGLGDDH  246 (429)
Q Consensus       187 ~~~LlVlDdv~~~~-------------~~~~l~~~l~~~~--~~~~iiiTtR~~~~~-----~~~~~~~~~~l~~L~~~e  246 (429)
                      .+++|+||++|...             ....|+..+....  .|.-||-.|..+++.     ..-......-++.-+.+|
T Consensus       604 aPCVIFFDEiDaL~p~R~~~~s~~s~RvvNqLLtElDGl~~R~gV~viaATNRPDiIDpAiLRPGRlDk~LyV~lPn~~e  683 (802)
T KOG0733|consen  604 APCVIFFDEIDALVPRRSDEGSSVSSRVVNQLLTELDGLEERRGVYVIAATNRPDIIDPAILRPGRLDKLLYVGLPNAEE  683 (802)
T ss_pred             CCeEEEecchhhcCcccCCCCchhHHHHHHHHHHHhcccccccceEEEeecCCCcccchhhcCCCccCceeeecCCCHHH
Confidence            79999999996431             2455665554332  344455555444332     222334566688888899


Q ss_pred             HHHHHHHhhh
Q 048064          247 ALELFIRHAF  256 (429)
Q Consensus       247 a~~L~~~~~~  256 (429)
                      -.+++....-
T Consensus       684 R~~ILK~~tk  693 (802)
T KOG0733|consen  684 RVAILKTITK  693 (802)
T ss_pred             HHHHHHHHhc
Confidence            9999988764

>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.61  E-value=0.0032  Score=56.99  Aligned_cols=169  Identities=16%  Similarity=0.166  Sum_probs=91.3

Q ss_pred             CCCCcccchhhHHHHHHHhhc--------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeec--hhhh
Q 048064           87 DSKNELVGVESRVEEIQSLLG--------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENI--REES  150 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~--------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~--~~~~  150 (429)
                      ..-..+-|.+...+.|.+..-              .-+-|.++||+|.|||.||++++-..-.     .|++..  .-.+
T Consensus       130 VkWsDVAGLE~AKeALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLAKAVATEAnS-----TFFSvSSSDLvS  204 (439)
T KOG0739|consen  130 VKWSDVAGLEGAKEALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLAKAVATEANS-----TFFSVSSSDLVS  204 (439)
T ss_pred             CchhhhccchhHHHHHHhheeecccchhhhcCCCCcceeEEEeCCCCCcHHHHHHHHHhhcCC-----ceEEeehHHHHH
Confidence            445678899999998888653              3467999999999999999999986532     222211  1111


Q ss_pred             hhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHh-cCCcEEEEecCCCCHH---------HHH----HHhccCC---CCC
Q 048064          151 QKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRL-SCRKVLIVLDDVTCLN---------QIE----SLVGSLD---RLL  213 (429)
Q Consensus       151 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~~~---------~~~----~l~~~l~---~~~  213 (429)
                      ........+.+.                 +.+.. .+++-+|++|+++...         ..+    +|+-...   ...
T Consensus       205 KWmGESEkLVkn-----------------LFemARe~kPSIIFiDEiDslcg~r~enEseasRRIKTEfLVQMqGVG~d~  267 (439)
T KOG0739|consen  205 KWMGESEKLVKN-----------------LFEMARENKPSIIFIDEIDSLCGSRSENESEASRRIKTEFLVQMQGVGNDN  267 (439)
T ss_pred             HHhccHHHHHHH-----------------HHHHHHhcCCcEEEeehhhhhccCCCCCchHHHHHHHHHHHHhhhccccCC
Confidence            111112222222                 22222 3588999999996331         111    2222222   112


Q ss_pred             CCCEEEEEeCChhhhhhc---CCCeEEEcCCCCHHHHH-HHHHHhhhcCCCCChhHHHHHHHHHHHhCCCh
Q 048064          214 PESRILITTRNKQVLRNC---HINQIYEMKGLGDDHAL-ELFIRHAFRQNLVDVDYKELSDKVINYAQGVP  280 (429)
Q Consensus       214 ~~~~iiiTtR~~~~~~~~---~~~~~~~l~~L~~~ea~-~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  280 (429)
                      .|.-|+-.|..+-++...   .....|-++ |.+..|+ .+|.-+++..  +......-.+++..+++|.-
T Consensus       268 ~gvLVLgATNiPw~LDsAIRRRFekRIYIP-LPe~~AR~~MF~lhlG~t--p~~LT~~d~~eL~~kTeGyS  335 (439)
T KOG0739|consen  268 DGVLVLGATNIPWVLDSAIRRRFEKRIYIP-LPEAHARARMFKLHLGDT--PHVLTEQDFKELARKTEGYS  335 (439)
T ss_pred             CceEEEecCCCchhHHHHHHHHhhcceecc-CCcHHHhhhhheeccCCC--ccccchhhHHHHHhhcCCCC
Confidence            344455577766544331   123334343 4444444 5566565332  22223344667777777753

>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=97.60  E-value=0.00024  Score=60.41  Aligned_cols=42  Identities=26%  Similarity=0.344  Sum_probs=32.2

Q ss_pred             ccchhhHHHHHHHhhc----CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064           92 LVGVESRVEEIQSLLG----AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus        92 ~vGR~~~~~~l~~~l~----~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ++|.+..++++.+.+.    ....|.|+|++|+||+.+|+.+.+.-
T Consensus         1 liG~s~~m~~~~~~~~~~a~~~~pVlI~GE~GtGK~~lA~~IH~~s   46 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAASSDLPVLITGETGTGKELLARAIHNNS   46 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHTTSTS-EEEECSTTSSHHHHHHHHHHCS
T ss_pred             CEeCCHHHHHHHHHHHHHhCCCCCEEEEcCCCCcHHHHHHHHHHhh
Confidence            4677778888777665    56778999999999999999998843

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 ....

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.60  E-value=0.0022  Score=56.27  Aligned_cols=57  Identities=21%  Similarity=0.331  Sum_probs=44.6

Q ss_pred             CCCCcccchhhHHHHHHHhhc------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEE
Q 048064           87 DSKNELVGVESRVEEIQSLLG------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFL  143 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  143 (429)
                      ..-..++|-+...+.|.+--.      ...-|.++|..|+|||+|++++.+.+.......+-+
T Consensus        57 i~L~~l~Gvd~qk~~L~~NT~~F~~G~pANnVLLwGaRGtGKSSLVKA~~~e~~~~glrLVEV  119 (287)
T COG2607          57 IDLADLVGVDRQKEALVRNTEQFAEGLPANNVLLWGARGTGKSSLVKALLNEYADEGLRLVEV  119 (287)
T ss_pred             cCHHHHhCchHHHHHHHHHHHHHHcCCcccceEEecCCCCChHHHHHHHHHHHHhcCCeEEEE
Confidence            344678999988888876433      556799999999999999999999988776654333

>cd01131 PilT Pilus retraction ATPase PilT

Probab=97.59  E-value=0.00038  Score=61.12  Aligned_cols=108  Identities=14%  Similarity=0.063  Sum_probs=60.4

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEe-echhhhhhcCCHHHHHHHHHHHHhcCCCCCCCH-HHHHHHhcCC
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLE-NIREESQKAGGLAFLQQKLLSEVLKDVNVIPHI-DLNFRRLSCR  187 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~-~~l~~~l~~~  187 (429)
                      ..+.|+|++|+||||++..++..+.......++.. +-.+. . ....    ..+..+.. ........ +.+...++..
T Consensus         2 GlilI~GptGSGKTTll~~ll~~~~~~~~~~i~t~e~~~E~-~-~~~~----~~~i~q~~-vg~~~~~~~~~i~~aLr~~   74 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDYINKNKTHHILTIEDPIEF-V-HESK----RSLINQRE-VGLDTLSFENALKAALRQD   74 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhhhcCCcEEEEEcCCccc-c-ccCc----cceeeecc-cCCCccCHHHHHHHHhcCC
Confidence            57899999999999999998887765443333332 11110 0 0000    00000000 01111222 3367777778


Q ss_pred             cEEEEecCCCCHHHHHHHhccCCCCCCCCEEEEEeCChhh
Q 048064          188 KVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQV  227 (429)
Q Consensus       188 ~~LlVlDdv~~~~~~~~l~~~l~~~~~~~~iiiTtR~~~~  227 (429)
                      +-++++|++.+.+....++...   ..|..++.|+-....
T Consensus        75 pd~ii~gEird~e~~~~~l~~a---~~G~~v~~t~Ha~~~  111 (198)
T cd01131          75 PDVILVGEMRDLETIRLALTAA---ETGHLVMSTLHTNSA  111 (198)
T ss_pred             cCEEEEcCCCCHHHHHHHHHHH---HcCCEEEEEecCCcH
Confidence            8899999998777665544432   234457777665544

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.

>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]

Probab=97.55  E-value=0.0029  Score=56.15  Aligned_cols=44  Identities=20%  Similarity=0.379  Sum_probs=35.5

Q ss_pred             CcccchhhHHHHHHHhhc---------------CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064           90 NELVGVESRVEEIQSLLG---------------AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~---------------~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      .++=|-+..+++|.+.+-               .++-+..+||+|.|||-+|++.+.+.
T Consensus       171 sDiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT  229 (424)
T KOG0652|consen  171 SDIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQT  229 (424)
T ss_pred             cccccHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhc
Confidence            456677888888877653               56789999999999999999988764

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

Probab=97.55  E-value=0.00053  Score=62.52  Aligned_cols=90  Identities=17%  Similarity=0.240  Sum_probs=57.9

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcC-------CCCCCCHHH-
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKD-------VNVIPHIDL-  179 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-------~~~~~~~~~-  179 (429)
                      ..+.++|.|.+|+|||||++.+++++..+|...+++..+.+..   .....+.+.+...-...       ......... 
T Consensus        68 ~GQr~~If~~~G~GKTtLa~~i~~~i~~~~~~~~V~~~iGer~---~Ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~  144 (274)
T cd01133          68 KGGKIGLFGGAGVGKTVLIMELINNIAKAHGGYSVFAGVGERT---REGNDLYHEMKESGVLSKTALVYGQMNEPPGARA  144 (274)
T ss_pred             cCCEEEEecCCCCChhHHHHHHHHHHHhcCCCEEEEEEeccCc---HHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHH
Confidence            6788999999999999999999999987887777776665432   23444444444321110       011111111 


Q ss_pred             --------HHHHh---cCCcEEEEecCCCCHH
Q 048064          180 --------NFRRL---SCRKVLIVLDDVTCLN  200 (429)
Q Consensus       180 --------l~~~l---~~~~~LlVlDdv~~~~  200 (429)
                              +.+++   .++++|+++||+-...
T Consensus       145 ~~~~~a~~~AEyfr~~~g~~Vl~~~Dsltr~a  176 (274)
T cd01133         145 RVALTGLTMAEYFRDEEGQDVLLFIDNIFRFT  176 (274)
T ss_pred             HHHHHHHHHHHHHHHhcCCeEEEEEeChhHHH
Confidence                    33344   3789999999985443

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.

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.55  E-value=0.0014  Score=62.31  Aligned_cols=36  Identities=19%  Similarity=0.303  Sum_probs=27.6

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEE
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFL  143 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  143 (429)
                      +.++++|+|+.|+||||++..++..+...-..+.++
T Consensus       205 ~~~ii~lvGptGvGKTTt~akLA~~l~~~g~~V~lI  240 (407)
T PRK12726        205 NHRIISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFI  240 (407)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEE
Confidence            567899999999999999999998765443333333

>KOG0728 consensus 26S proteasome regulatory complex, ATPase RPT6 [Posttranslational modification, protein turnover, chaperones]

Probab=97.54  E-value=0.0033  Score=55.41  Aligned_cols=145  Identities=17%  Similarity=0.354  Sum_probs=81.7

Q ss_pred             cccc-hhhHHHHHHHhhc---------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcC
Q 048064           91 ELVG-VESRVEEIQSLLG---------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAG  154 (429)
Q Consensus        91 ~~vG-R~~~~~~l~~~l~---------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~  154 (429)
                      +++| .+..++++.+.+.               .++-+.++|++|.|||-||+.++++.     .+.|+. ++.      
T Consensus       147 eMiGgLd~QIkeIkEVIeLPvKHPELF~aLGIaQPKGvlLygppgtGktLlaraVahht-----~c~fir-vsg------  214 (404)
T KOG0728|consen  147 EMIGGLDKQIKEIKEVIELPVKHPELFEALGIAQPKGVLLYGPPGTGKTLLARAVAHHT-----DCTFIR-VSG------  214 (404)
T ss_pred             HHhccHHHHHHHHHHHHhccccCHHHHHhcCCCCCcceEEecCCCCchhHHHHHHHhhc-----ceEEEE-ech------
Confidence            4454 5677777777664               56789999999999999999999763     233332 221      


Q ss_pred             CHHHHHHHHHHHHhcCCCCCCCHHHHHH-HhcCCcEEEEecCCCCHH-------------H---HHHHhccCCCC--CCC
Q 048064          155 GLAFLQQKLLSEVLKDVNVIPHIDLNFR-RLSCRKVLIVLDDVTCLN-------------Q---IESLVGSLDRL--LPE  215 (429)
Q Consensus       155 ~~~~~~~~l~~~~~~~~~~~~~~~~l~~-~l~~~~~LlVlDdv~~~~-------------~---~~~l~~~l~~~--~~~  215 (429)
                       ..-+++.+...       ..-+.++.- .-..-+-+|+.|++++..             .   .-+++..+..+  .++
T Consensus       215 -selvqk~igeg-------srmvrelfvmarehapsiifmdeidsigs~r~e~~~ggdsevqrtmlellnqldgfeatkn  286 (404)
T KOG0728|consen  215 -SELVQKYIGEG-------SRMVRELFVMAREHAPSIIFMDEIDSIGSSRVESGSGGDSEVQRTMLELLNQLDGFEATKN  286 (404)
T ss_pred             -HHHHHHHhhhh-------HHHHHHHHHHHHhcCCceEeeecccccccccccCCCCccHHHHHHHHHHHHhccccccccc
Confidence             11112211111       000111111 123457899999986441             1   12233333322  356


Q ss_pred             CEEEEEeCChhhhh-----hcCCCeEEEcCCCCHHHHHHHHHHhh
Q 048064          216 SRILITTRNKQVLR-----NCHINQIYEMKGLGDDHALELFIRHA  255 (429)
Q Consensus       216 ~~iiiTtR~~~~~~-----~~~~~~~~~l~~L~~~ea~~L~~~~~  255 (429)
                      .+||..|..-+++.     .-.....++.++-+++.-.+++.-+.
T Consensus       287 ikvimatnridild~allrpgridrkiefp~p~e~ar~~ilkihs  331 (404)
T KOG0728|consen  287 IKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILKIHS  331 (404)
T ss_pred             eEEEEeccccccccHhhcCCCcccccccCCCCCHHHHHHHHHHhh
Confidence            67777554333322     22345678888888888888886654

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=97.53  E-value=0.00032  Score=59.11  Aligned_cols=34  Identities=26%  Similarity=0.372  Sum_probs=26.7

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEe
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLE  144 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  144 (429)
                      ++.|+|++|+||||++..++......-..++|+.
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~   34 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNIATKGGKVVYVD   34 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEE
Confidence            3689999999999999999998765444455544

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.

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=97.53  E-value=0.0034  Score=59.67  Aligned_cols=42  Identities=24%  Similarity=0.230  Sum_probs=33.6

Q ss_pred             ccchhhHHHHHHHhhc----CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064           92 LVGVESRVEEIQSLLG----AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus        92 ~vGR~~~~~~l~~~l~----~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ++|....++++.+.+.    ....|.|+|++|+||+++|+.+.+.-
T Consensus         1 liG~S~~m~~~~~~~~~~a~~~~pVLI~GE~GtGK~~lAr~iH~~s   46 (329)
T TIGR02974         1 LIGESNAFLEVLEQVSRLAPLDRPVLIIGERGTGKELIAARLHYLS   46 (329)
T ss_pred             CCcCCHHHHHHHHHHHHHhCCCCCEEEECCCCChHHHHHHHHHHhc
Confidence            4677777777777665    56679999999999999999887653

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

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=97.52  E-value=0.0036  Score=61.39  Aligned_cols=28  Identities=25%  Similarity=0.351  Sum_probs=25.0

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      +.++.++|++|+||||++..++..+...
T Consensus        95 p~vI~lvG~~GsGKTTtaakLA~~L~~~  122 (437)
T PRK00771         95 PQTIMLVGLQGSGKTTTAAKLARYFKKK  122 (437)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHHHHc
Confidence            5689999999999999999999887654

>PF07693 KAP_NTPase: KAP family P-loop domain; InterPro: IPR011646 The KAP (after Kidins220/ARMS and PifA) family of predicted NTPases are sporadically distributed across a wide phylogenetic range in bacteria and in animals

Probab=97.49  E-value=0.0064  Score=57.80  Aligned_cols=29  Identities=17%  Similarity=0.458  Sum_probs=26.2

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      .+.+|+|.|.=|+|||++.+.+.+.+...
T Consensus        19 ~~~~IgL~G~WGsGKSs~l~~l~~~L~~~   47 (325)
T PF07693_consen   19 DPFVIGLYGEWGSGKSSFLNMLKEELKED   47 (325)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhcc
Confidence            46689999999999999999999988776

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 [].

>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=97.48  E-value=9.5e-05  Score=59.26  Aligned_cols=23  Identities=35%  Similarity=0.533  Sum_probs=21.6

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHh
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      +|+|.|++|+||||+|+.+++++
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            58999999999999999999986

...

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=97.48  E-value=0.0068  Score=57.59  Aligned_cols=43  Identities=23%  Similarity=0.260  Sum_probs=37.0

Q ss_pred             CcccchhhHHHHHHHhhc----CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064           90 NELVGVESRVEEIQSLLG----AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~----~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ..++|+...++++.+.+.    ....|.|+|.+|+||+++|+.+...
T Consensus         6 ~~liG~S~~~~~~~~~i~~~a~~~~pVlI~GE~GtGK~~lA~~iH~~   52 (326)
T PRK11608          6 DNLLGEANSFLEVLEQVSRLAPLDKPVLIIGERGTGKELIASRLHYL   52 (326)
T ss_pred             CccEECCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHh
Confidence            468999999999888776    5667999999999999999988753

>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=97.46  E-value=5.1e-05  Score=62.55  Aligned_cols=22  Identities=36%  Similarity=0.450  Sum_probs=21.0

Q ss_pred             EEEEcCCCcchHHHHHHHHHHh
Q 048064          112 LGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      |.|+|++|+|||+||+.+++.+
T Consensus         2 vlL~G~~G~GKt~l~~~la~~~   23 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAALL   23 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7899999999999999999988

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.

>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.46  E-value=0.0032  Score=59.09  Aligned_cols=66  Identities=18%  Similarity=0.315  Sum_probs=47.8

Q ss_pred             hHHHHHHHhhhhhccCCccccCCCCCcccchhhHHHHHHHhhc--------------CCCEEEEEcCCCcchHHHHHHHH
Q 048064           65 ESELIKKVVNDILEKLPKVVPCDSKNELVGVESRVEEIQSLLG--------------AAPLLGIWGIGGIGKTTIARVIF  130 (429)
Q Consensus        65 e~~~i~~i~~~~~~~~~~~~p~~~~~~~vGR~~~~~~l~~~l~--------------~~~~v~I~G~~GiGKTtLa~~~~  130 (429)
                      +..+.+.+-+++...-|.    ..-+++.|.++..+-|.+...              .-+-|.++||+|.|||-||++++
T Consensus       191 d~~Lve~lerdIl~~np~----ikW~DIagl~~AK~lL~EAVvlPi~mPe~F~GirrPWkgvLm~GPPGTGKTlLAKAvA  266 (491)
T KOG0738|consen  191 DADLVEALERDILQRNPN----IKWDDIAGLHEAKKLLKEAVVLPIWMPEFFKGIRRPWKGVLMVGPPGTGKTLLAKAVA  266 (491)
T ss_pred             hHHHHHHHHHHHhccCCC----cChHhhcchHHHHHHHHHHHhhhhhhHHHHhhcccccceeeeeCCCCCcHHHHHHHHH
Confidence            445555555555544333    445778898888888877653              44679999999999999999999


Q ss_pred             HHhh
Q 048064          131 NRIS  134 (429)
Q Consensus       131 ~~~~  134 (429)
                      -...
T Consensus       267 TEc~  270 (491)
T KOG0738|consen  267 TECG  270 (491)
T ss_pred             Hhhc
Confidence            8764

>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=97.46  E-value=0.00055  Score=59.75  Aligned_cols=126  Identities=14%  Similarity=0.117  Sum_probs=59.5

Q ss_pred             hhHHHHHHHhhcCCCEEEEEcCCCcchHHHHHHHHHHh--hcCcceeEEEeechhhhhh-cCC---HHH----HHHHHHH
Q 048064           96 ESRVEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFNRI--SRNFKGSCFLENIREESQK-AGG---LAF----LQQKLLS  165 (429)
Q Consensus        96 ~~~~~~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~--~~~f~~~~~~~~~~~~~~~-~~~---~~~----~~~~l~~  165 (429)
                      ..+-+...+.+....++.+.|++|+|||.||.+.+-+.  ..+|...++....-..... ...   ...    ....+..
T Consensus         6 ~~~Q~~~~~al~~~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v~~~~~lGflpG~~~eK~~p~~~p~~d   85 (205)
T PF02562_consen    6 NEEQKFALDALLNNDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPVEAGEDLGFLPGDLEEKMEPYLRPIYD   85 (205)
T ss_dssp             SHHHHHHHHHHHH-SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--TT----SS---------TTTHHHHH
T ss_pred             CHHHHHHHHHHHhCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCCCCccccccCCCCHHHHHHHHHHHHHH
Confidence            34444555555577899999999999999999988653  3456666665433221000 000   111    1111111


Q ss_pred             HHhcCCCCCCCHHHHH----------HHhcCC---cEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEeCCh
Q 048064          166 EVLKDVNVIPHIDLNF----------RRLSCR---KVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITTRNK  225 (429)
Q Consensus       166 ~~~~~~~~~~~~~~l~----------~~l~~~---~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTtR~~  225 (429)
                      .+..- -....++.+.          .+++++   ..++|+|++.+.  .++..++..   .+.+|++|++.-..
T Consensus        86 ~l~~~-~~~~~~~~~~~~~~Ie~~~~~~iRGrt~~~~~iIvDEaQN~t~~~~k~ilTR---~g~~skii~~GD~~  156 (205)
T PF02562_consen   86 ALEEL-FGKEKLEELIQNGKIEIEPLAFIRGRTFDNAFIIVDEAQNLTPEELKMILTR---IGEGSKIIITGDPS  156 (205)
T ss_dssp             HHTTT-S-TTCHHHHHHTTSEEEEEGGGGTT--B-SEEEEE-SGGG--HHHHHHHHTT---B-TT-EEEEEE---
T ss_pred             HHHHH-hChHhHHHHhhcCeEEEEehhhhcCccccceEEEEecccCCCHHHHHHHHcc---cCCCcEEEEecCce
Confidence            11111 1122233322          234443   469999999755  466666543   57899999987543

; GO: 0005524 ATP binding; PDB: 3B85_A.

>smart00763 AAA_PrkA PrkA AAA domain

Probab=97.45  E-value=0.00017  Score=68.12  Aligned_cols=46  Identities=17%  Similarity=0.368  Sum_probs=40.5

Q ss_pred             CcccchhhHHHHHHHhhc--------CCCEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064           90 NELVGVESRVEEIQSLLG--------AAPLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~--------~~~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      ..++|.++.++++.+++.        ..++++|+|++|+||||||..+++.+..
T Consensus        51 ~~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l~~  104 (361)
T smart00763       51 HDFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGLEE  104 (361)
T ss_pred             hhccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            379999999999999885        3578999999999999999999997643

This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=97.44  E-value=0.00032  Score=64.36  Aligned_cols=101  Identities=18%  Similarity=0.134  Sum_probs=60.6

Q ss_pred             HHHHHHHhhc-CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcC-CCCCC
Q 048064           98 RVEEIQSLLG-AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKD-VNVIP  175 (429)
Q Consensus        98 ~~~~l~~~l~-~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~  175 (429)
                      .++.+..++. ....+.|.|+.|+||||++..+...+...-...+.+.+..+...  .+.        .+..-. .....
T Consensus        68 ~~~~l~~~~~~~~GlilisG~tGSGKTT~l~all~~i~~~~~~iitiEdp~E~~~--~~~--------~q~~v~~~~~~~  137 (264)
T cd01129          68 NLEIFRKLLEKPHGIILVTGPTGSGKTTTLYSALSELNTPEKNIITVEDPVEYQI--PGI--------NQVQVNEKAGLT  137 (264)
T ss_pred             HHHHHHHHHhcCCCEEEEECCCCCcHHHHHHHHHhhhCCCCCeEEEECCCceecC--CCc--------eEEEeCCcCCcC
Confidence            4445555555 66789999999999999999988876543223344432222110  000        000000 11112


Q ss_pred             CHHHHHHHhcCCcEEEEecCCCCHHHHHHHhcc
Q 048064          176 HIDLNFRRLSCRKVLIVLDDVTCLNQIESLVGS  208 (429)
Q Consensus       176 ~~~~l~~~l~~~~~LlVlDdv~~~~~~~~l~~~  208 (429)
                      ..+.+...++..+-.++++++.+.+....++..
T Consensus       138 ~~~~l~~~lR~~PD~i~vgEiR~~e~a~~~~~a  170 (264)
T cd01129         138 FARGLRAILRQDPDIIMVGEIRDAETAEIAVQA  170 (264)
T ss_pred             HHHHHHHHhccCCCEEEeccCCCHHHHHHHHHH
Confidence            233477788888999999999988876655444

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.

>TIGR01817 nifA Nif-specific regulatory protein

Probab=97.44  E-value=0.0048  Score=62.98  Aligned_cols=48  Identities=17%  Similarity=0.286  Sum_probs=40.7

Q ss_pred             CCCCcccchhhHHHHHHHhhc----CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064           87 DSKNELVGVESRVEEIQSLLG----AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~----~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      .....++|....++++.+.+.    ....|.|+|++|+|||++|+.+.+...
T Consensus       193 ~~~~~liG~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~lA~~ih~~s~  244 (534)
T TIGR01817       193 GKEDGIIGKSPAMRQVVDQARVVARSNSTVLLRGESGTGKELIAKAIHYLSP  244 (534)
T ss_pred             CccCceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCccHHHHHHHHHHhCC
Confidence            445789999999999988776    556789999999999999999987643

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.

>PHA00729 NTP-binding motif containing protein

Probab=97.43  E-value=0.00047  Score=60.94  Aligned_cols=27  Identities=30%  Similarity=0.241  Sum_probs=23.8

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      +...++|+|.+|+||||||..+++++.
T Consensus        16 ~f~nIlItG~pGvGKT~LA~aLa~~l~   42 (226)
T PHA00729         16 GFVSAVIFGKQGSGKTTYALKVARDVF   42 (226)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            455799999999999999999999864

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=97.41  E-value=0.00039  Score=69.97  Aligned_cols=73  Identities=26%  Similarity=0.351  Sum_probs=46.5

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHh--c
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRL--S  185 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l--~  185 (429)
                      ..++..++|++|.||||||.-++++..    ..+.=.|++.    ......+-..+...+...           ..+  .
T Consensus       325 ~kKilLL~GppGlGKTTLAHViAkqaG----YsVvEINASD----eRt~~~v~~kI~~avq~~-----------s~l~ad  385 (877)
T KOG1969|consen  325 PKKILLLCGPPGLGKTTLAHVIAKQAG----YSVVEINASD----ERTAPMVKEKIENAVQNH-----------SVLDAD  385 (877)
T ss_pred             ccceEEeecCCCCChhHHHHHHHHhcC----ceEEEecccc----cccHHHHHHHHHHHHhhc-----------cccccC
Confidence            457899999999999999999998742    2222223322    334444444444444333           112  2


Q ss_pred             CCcEEEEecCCCCH
Q 048064          186 CRKVLIVLDDVTCL  199 (429)
Q Consensus       186 ~~~~LlVlDdv~~~  199 (429)
                      +++..||+|++|-.
T Consensus       386 srP~CLViDEIDGa  399 (877)
T KOG1969|consen  386 SRPVCLVIDEIDGA  399 (877)
T ss_pred             CCcceEEEecccCC
Confidence            68999999999843

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=97.41  E-value=0.00072  Score=64.71  Aligned_cols=116  Identities=15%  Similarity=0.148  Sum_probs=64.4

Q ss_pred             HHHHhhc-CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEe-echhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHH
Q 048064          101 EIQSLLG-AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLE-NIREESQKAGGLAFLQQKLLSEVLKDVNVIPHID  178 (429)
Q Consensus       101 ~l~~~l~-~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~  178 (429)
                      .+.+++. ....+.|+|++|+||||++..+...+.......++.. +-.+..  ....    ..+..+.........-.+
T Consensus       113 ~l~~~~~~~~g~ili~G~tGSGKTT~l~al~~~i~~~~~~~i~tiEdp~E~~--~~~~----~~~i~q~evg~~~~~~~~  186 (343)
T TIGR01420       113 VLRELAERPRGLILVTGPTGSGKSTTLASMIDYINKNAAGHIITIEDPIEYV--HRNK----RSLINQREVGLDTLSFAN  186 (343)
T ss_pred             HHHHHHhhcCcEEEEECCCCCCHHHHHHHHHHhhCcCCCCEEEEEcCChhhh--ccCc----cceEEccccCCCCcCHHH
Confidence            3444444 5689999999999999999999887765444444432 111100  0000    000000000001111223


Q ss_pred             HHHHHhcCCcEEEEecCCCCHHHHHHHhccCCCCCCCCEEEEEeCCh
Q 048064          179 LNFRRLSCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNK  225 (429)
Q Consensus       179 ~l~~~l~~~~~LlVlDdv~~~~~~~~l~~~l~~~~~~~~iiiTtR~~  225 (429)
                      .+...++..+-+|++|++.+.+.....+...   ..|..++.|.-..
T Consensus       187 ~l~~~lr~~pd~i~vgEird~~~~~~~l~aa---~tGh~v~~T~Ha~  230 (343)
T TIGR01420       187 ALRAALREDPDVILIGEMRDLETVELALTAA---ETGHLVFGTLHTN  230 (343)
T ss_pred             HHHHhhccCCCEEEEeCCCCHHHHHHHHHHH---HcCCcEEEEEcCC
Confidence            3777888899999999998887766544432   2344455555543

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.

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=97.40  E-value=0.012  Score=59.64  Aligned_cols=47  Identities=21%  Similarity=0.384  Sum_probs=40.4

Q ss_pred             CCCcccchhhHHHHHHHhhc----CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064           88 SKNELVGVESRVEEIQSLLG----AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus        88 ~~~~~vGR~~~~~~l~~~l~----~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ....++|+...++++.+.+.    ....|.|+|++|+|||++|+.+.+...
T Consensus       185 ~~~~iig~s~~~~~~~~~i~~~a~~~~pVlI~Ge~GtGK~~~A~~ih~~s~  235 (509)
T PRK05022        185 KEGEMIGQSPAMQQLKKEIEVVAASDLNVLILGETGVGKELVARAIHAASP  235 (509)
T ss_pred             cCCceeecCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhCC
Confidence            34679999999999888876    677899999999999999999988643

>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]

Probab=97.34  E-value=0.0078  Score=61.32  Aligned_cols=97  Identities=25%  Similarity=0.336  Sum_probs=57.0

Q ss_pred             cccCCCCCcccchhhHHHHHHHhhc--------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechh
Q 048064           83 VVPCDSKNELVGVESRVEEIQSLLG--------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIRE  148 (429)
Q Consensus        83 ~~p~~~~~~~vGR~~~~~~l~~~l~--------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~  148 (429)
                      ..|...-+++=|.++...+|.+-+.              +..-|.+||++|+|||-+|++++-...-.     |++.   
T Consensus       665 KIPnV~WdDVGGLeevK~eIldTIqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATEcsL~-----FlSV---  736 (953)
T KOG0736|consen  665 KIPNVSWDDVGGLEEVKTEILDTIQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATECSLN-----FLSV---  736 (953)
T ss_pred             CCCccchhcccCHHHHHHHHHHHhcCcccChhhhhccccccceeEEECCCCCchHHHHHHHHhhceee-----EEee---
Confidence            3442333556667776777776554              34569999999999999999999765322     2321   


Q ss_pred             hhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHh-cCCcEEEEecCCCCH
Q 048064          149 ESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRL-SCRKVLIVLDDVTCL  199 (429)
Q Consensus       149 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~~  199 (429)
                           .+.+-+-.-+       .....++.++.+.. ...+++|++|++|+.
T Consensus       737 -----KGPELLNMYV-------GqSE~NVR~VFerAR~A~PCVIFFDELDSl  776 (953)
T KOG0736|consen  737 -----KGPELLNMYV-------GQSEENVREVFERARSAAPCVIFFDELDSL  776 (953)
T ss_pred             -----cCHHHHHHHh-------cchHHHHHHHHHHhhccCCeEEEecccccc
Confidence                 1111111111       11122333333333 448999999999755

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=97.33  E-value=0.044  Score=51.13  Aligned_cols=162  Identities=10%  Similarity=0.125  Sum_probs=92.2

Q ss_pred             HHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhc---------Ccc-eeEEEeechhhhhhcCCHHHHHHHHHHH
Q 048064          100 EEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISR---------NFK-GSCFLENIREESQKAGGLAFLQQKLLSE  166 (429)
Q Consensus       100 ~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~---------~f~-~~~~~~~~~~~~~~~~~~~~~~~~l~~~  166 (429)
                      +.+.+.+.   -.++..++|+.|+||+++|..+++.+-.         ..+ ...++ +....   ......+. .+...
T Consensus         6 ~~l~~~i~~~~l~haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~-d~~g~---~i~vd~Ir-~l~~~   80 (299)
T PRK07132          6 KFLDNSATQNKISHSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILF-DIFDK---DLSKSEFL-SAINK   80 (299)
T ss_pred             HHHHHHHHhCCCCeEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEe-ccCCC---cCCHHHHH-HHHHH
Confidence            34444443   3567789999999999999999998621         112 12222 11010   11111111 12221


Q ss_pred             HhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEeCC-hhhhhh-cCCCeEEEcCCC
Q 048064          167 VLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITTRN-KQVLRN-CHINQIYEMKGL  242 (429)
Q Consensus       167 ~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTtR~-~~~~~~-~~~~~~~~l~~L  242 (429)
                      +.-.           ..-.+.+-++|+|+++..  .....++..+...++++.+|++|.+ ..+++. .+....+++.++
T Consensus        81 ~~~~-----------~~~~~~~KvvII~~~e~m~~~a~NaLLK~LEEPp~~t~~il~~~~~~kll~TI~SRc~~~~f~~l  149 (299)
T PRK07132         81 LYFS-----------SFVQSQKKILIIKNIEKTSNSLLNALLKTIEEPPKDTYFLLTTKNINKVLPTIVSRCQVFNVKEP  149 (299)
T ss_pred             hccC-----------CcccCCceEEEEecccccCHHHHHHHHHHhhCCCCCeEEEEEeCChHhChHHHHhCeEEEECCCC
Confidence            1110           000146678999999754  4577888888877777777765544 444443 345678999999


Q ss_pred             CHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHH
Q 048064          243 GDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKI  285 (429)
Q Consensus       243 ~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~  285 (429)
                      +.++..+.+....     .+   .+.+..++..++|.=-|+..
T Consensus       150 ~~~~l~~~l~~~~-----~~---~~~a~~~a~~~~~~~~a~~~  184 (299)
T PRK07132        150 DQQKILAKLLSKN-----KE---KEYNWFYAYIFSNFEQAEKY  184 (299)
T ss_pred             CHHHHHHHHHHcC-----CC---hhHHHHHHHHcCCHHHHHHH
Confidence            9999998876541     11   13345555556652234443

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=97.33  E-value=0.0018  Score=54.15  Aligned_cols=113  Identities=17%  Similarity=0.172  Sum_probs=60.8

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHH-----hcCC--CCCCCHH----
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEV-----LKDV--NVIPHID----  178 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~-----~~~~--~~~~~~~----  178 (429)
                      ..|-|++..|.||||+|...+-+...+-..+.++--+....  ..+-....+.+ ..+     +...  ......+    
T Consensus         3 G~i~vy~g~G~Gkt~~a~g~~~ra~~~g~~v~~vQFlKg~~--~~gE~~~l~~l-~~v~~~~~g~~~~~~~~~~~~~~~~   79 (159)
T cd00561           3 GLIQVYTGNGKGKTTAALGLALRALGHGYRVGVVQFLKGGW--KYGELKALERL-PNIEIHRMGRGFFWTTENDEEDIAA   79 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEEeCCCC--ccCHHHHHHhC-CCcEEEECCCCCccCCCChHHHHHH
Confidence            57889999999999999999988766644444433222210  11222222222 000     0000  0000111    


Q ss_pred             ------HHHHHhcC-CcEEEEecCCCCH-----HHHHHHhccCCCCCCCCEEEEEeCCh
Q 048064          179 ------LNFRRLSC-RKVLIVLDDVTCL-----NQIESLVGSLDRLLPESRILITTRNK  225 (429)
Q Consensus       179 ------~l~~~l~~-~~~LlVlDdv~~~-----~~~~~l~~~l~~~~~~~~iiiTtR~~  225 (429)
                            ...+.+.. .-=|||||++-..     -..+.+...+....++..+|+|.|+.
T Consensus        80 a~~~~~~a~~~~~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~~  138 (159)
T cd00561          80 AAEGWAFAKEAIASGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRNA  138 (159)
T ss_pred             HHHHHHHHHHHHhcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCCC
Confidence                  13333333 3459999999322     23344555555456678899999986

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.

>PRK06696 uridine kinase; Validated

Probab=97.31  E-value=0.00045  Score=61.92  Aligned_cols=42  Identities=24%  Similarity=0.270  Sum_probs=33.0

Q ss_pred             hhhHHHHHHHhhc-----CCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064           95 VESRVEEIQSLLG-----AAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus        95 R~~~~~~l~~~l~-----~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      |.+.+++|.+.+.     .+.+|+|.|.+|+||||||+.++..+...
T Consensus         3 ~~~~~~~la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~~~l~~~   49 (223)
T PRK06696          3 RKQLIKELAEHILTLNLTRPLRVAIDGITASGKTTFADELAEEIKKR   49 (223)
T ss_pred             HHHHHHHHHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            5555666666553     56789999999999999999999988544

>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.31  E-value=0.0074  Score=56.77  Aligned_cols=48  Identities=25%  Similarity=0.186  Sum_probs=33.9

Q ss_pred             EEEcCCCCHHHHHHHHHHhhhcCCCCC-hhHHHHHHHHHHHhCCChHHH
Q 048064          236 IYEMKGLGDDHALELFIRHAFRQNLVD-VDYKELSDKVINYAQGVPLAL  283 (429)
Q Consensus       236 ~~~l~~L~~~ea~~L~~~~~~~~~~~~-~~~~~~~~~i~~~~~G~PLai  283 (429)
                      ++++++++.+|+..++.-..-.+-... ...+...+++.-..+|||.-+
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            789999999999999987764333222 223445666777779999754

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).

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.29  E-value=0.0097  Score=60.15  Aligned_cols=170  Identities=16%  Similarity=0.192  Sum_probs=92.0

Q ss_pred             CcccchhhHHHHHHHhhc---------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcC
Q 048064           90 NELVGVESRVEEIQSLLG---------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAG  154 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~---------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~  154 (429)
                      .++-|..+..+.|.+.+.               -..-|.++|++|+|||.||.+++....-     -|+. +       .
T Consensus       667 ~digg~~~~k~~l~~~i~~P~kyp~if~~~plr~~~giLLyGppGcGKT~la~a~a~~~~~-----~fis-v-------K  733 (952)
T KOG0735|consen  667 EDIGGLFEAKKVLEEVIEWPSKYPQIFANCPLRLRTGILLYGPPGCGKTLLASAIASNSNL-----RFIS-V-------K  733 (952)
T ss_pred             eecccHHHHHHHHHHHHhccccchHHHhhCCcccccceEEECCCCCcHHHHHHHHHhhCCe-----eEEE-e-------c
Confidence            355566666666666654               2335899999999999999998875321     1222 1       2


Q ss_pred             CHHHHHHHHHHHHhcCCCCCCCHHHHH-HHhcCCcEEEEecCCCCHH-------------HHHHHhccCCCC--CCCCEE
Q 048064          155 GLAFLQQKLLSEVLKDVNVIPHIDLNF-RRLSCRKVLIVLDDVTCLN-------------QIESLVGSLDRL--LPESRI  218 (429)
Q Consensus       155 ~~~~~~~~l~~~~~~~~~~~~~~~~l~-~~l~~~~~LlVlDdv~~~~-------------~~~~l~~~l~~~--~~~~~i  218 (429)
                      +.+-+.+-+..       ....+..+. +.-..++++|++|++|+..             -...++..+...  ..|.-|
T Consensus       734 GPElL~KyIGa-------SEq~vR~lF~rA~~a~PCiLFFDEfdSiAPkRGhDsTGVTDRVVNQlLTelDG~Egl~GV~i  806 (952)
T KOG0735|consen  734 GPELLSKYIGA-------SEQNVRDLFERAQSAKPCILFFDEFDSIAPKRGHDSTGVTDRVVNQLLTELDGAEGLDGVYI  806 (952)
T ss_pred             CHHHHHHHhcc-------cHHHHHHHHHHhhccCCeEEEeccccccCcccCCCCCCchHHHHHHHHHhhccccccceEEE
Confidence            22222221111       112233333 3344589999999997542             345566555421  234445


Q ss_pred             EE-EeCChhhhhh----cCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHH
Q 048064          219 LI-TTRNKQVLRN----CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLA  282 (429)
Q Consensus       219 ii-TtR~~~~~~~----~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLa  282 (429)
                      +. |||-.-+-+.    -...+.+--+.-++.|-.++|+...-.-..+.   .-..+.++.+++|..-|
T Consensus       807 ~aaTsRpdliDpALLRpGRlD~~v~C~~P~~~eRl~il~~ls~s~~~~~---~vdl~~~a~~T~g~tgA  872 (952)
T KOG0735|consen  807 LAATSRPDLIDPALLRPGRLDKLVYCPLPDEPERLEILQVLSNSLLKDT---DVDLECLAQKTDGFTGA  872 (952)
T ss_pred             EEecCCccccCHhhcCCCccceeeeCCCCCcHHHHHHHHHHhhccCCcc---ccchHHHhhhcCCCchh
Confidence            54 6664422222    12233344455667777788766542211111   12356778888887654

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=97.29  E-value=0.0041  Score=63.00  Aligned_cols=46  Identities=22%  Similarity=0.239  Sum_probs=37.0

Q ss_pred             CCCCcccchhhHHHHHHHhhc----CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG----AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~----~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      .....++|....++++.+.+.    ....|.|+|.+|+||+++|+.+...
T Consensus       201 ~~f~~~ig~s~~~~~~~~~~~~~A~~~~pvlI~GE~GtGK~~lA~aiH~~  250 (520)
T PRK10820        201 SAFSQIVAVSPKMRQVVEQARKLAMLDAPLLITGDTGTGKDLLAYACHLR  250 (520)
T ss_pred             ccccceeECCHHHHHHHHHHHHHhCCCCCEEEECCCCccHHHHHHHHHHh
Confidence            344679999998888877664    5566899999999999999996553

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.26  E-value=0.00036  Score=57.31  Aligned_cols=30  Identities=30%  Similarity=0.377  Sum_probs=25.8

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhhcC-cce
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRISRN-FKG  139 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~~~-f~~  139 (429)
                      --++|.|++|+||||+++.+++.++++ |..
T Consensus         6 mki~ITG~PGvGKtTl~~ki~e~L~~~g~kv   36 (179)
T COG1618           6 MKIFITGRPGVGKTTLVLKIAEKLREKGYKV   36 (179)
T ss_pred             eEEEEeCCCCccHHHHHHHHHHHHHhcCcee
Confidence            358999999999999999999988766 543

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=97.26  E-value=0.0015  Score=57.17  Aligned_cols=111  Identities=15%  Similarity=0.218  Sum_probs=57.1

Q ss_pred             HHHHHhhc-CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHH
Q 048064          100 EEIQSLLG-AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHID  178 (429)
Q Consensus       100 ~~l~~~l~-~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~  178 (429)
                      +.+...+. +.+++.|.|++|+||||++..+...+...-..+++.....          .....+.......   ...+.
T Consensus         8 ~a~~~~l~~~~~~~~l~G~aGtGKT~~l~~~~~~~~~~g~~v~~~apT~----------~Aa~~L~~~~~~~---a~Ti~   74 (196)
T PF13604_consen    8 EAVRAILTSGDRVSVLQGPAGTGKTTLLKALAEALEAAGKRVIGLAPTN----------KAAKELREKTGIE---AQTIH   74 (196)
T ss_dssp             HHHHHHHHCTCSEEEEEESTTSTHHHHHHHHHHHHHHTT--EEEEESSH----------HHHHHHHHHHTS----EEEHH
T ss_pred             HHHHHHHhcCCeEEEEEECCCCCHHHHHHHHHHHHHhCCCeEEEECCcH----------HHHHHHHHhhCcc---hhhHH
Confidence            33444444 5679999999999999999998887766533333333111          1122222222111   11111


Q ss_pred             HHHHHh----------cCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEeCCh
Q 048064          179 LNFRRL----------SCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITTRNK  225 (429)
Q Consensus       179 ~l~~~l----------~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTtR~~  225 (429)
                      .+....          ....-+||+|++...  ..+..++....  ..++++|+.--..
T Consensus        75 ~~l~~~~~~~~~~~~~~~~~~vliVDEasmv~~~~~~~ll~~~~--~~~~klilvGD~~  131 (196)
T PF13604_consen   75 SFLYRIPNGDDEGRPELPKKDVLIVDEASMVDSRQLARLLRLAK--KSGAKLILVGDPN  131 (196)
T ss_dssp             HHTTEECCEECCSSCC-TSTSEEEESSGGG-BHHHHHHHHHHS---T-T-EEEEEE-TT
T ss_pred             HHHhcCCcccccccccCCcccEEEEecccccCHHHHHHHHHHHH--hcCCEEEEECCcc
Confidence            111000          123359999999744  46666666655  2577877765433

>KOG0737 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.26  E-value=0.0053  Score=57.36  Aligned_cols=51  Identities=25%  Similarity=0.389  Sum_probs=40.2

Q ss_pred             CCcccchhhHHHHHHHhhc----------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcce
Q 048064           89 KNELVGVESRVEEIQSLLG----------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKG  139 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~----------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~  139 (429)
                      ..++-|-+...+++.+...                .++-|.++||+|+|||-||++++.+....|-+
T Consensus        91 f~DIggLe~v~~~L~e~VilPlr~pelF~~g~Ll~p~kGiLL~GPpG~GKTmlAKA~Akeaga~fIn  157 (386)
T KOG0737|consen   91 FDDIGGLEEVKDALQELVILPLRRPELFAKGKLLRPPKGILLYGPPGTGKTMLAKAIAKEAGANFIN  157 (386)
T ss_pred             hhhccchHHHHHHHHHHHhhcccchhhhcccccccCCccceecCCCCchHHHHHHHHHHHcCCCcce
Confidence            3556677777777776543                56779999999999999999999998777654

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=97.26  E-value=0.018  Score=60.74  Aligned_cols=44  Identities=27%  Similarity=0.358  Sum_probs=37.7

Q ss_pred             CcccchhhHHHHHHHhhc----CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064           90 NELVGVESRVEEIQSLLG----AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~----~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ..++|+...++.+.+.+.    ....|.|+|++|+|||++|+.+.+..
T Consensus       376 ~~liG~S~~~~~~~~~~~~~a~~~~pVLI~GE~GTGK~~lA~~ih~~s  423 (686)
T PRK15429        376 GEIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLS  423 (686)
T ss_pred             cceeecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhc
Confidence            469999999998877665    56689999999999999999998754

>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.23  E-value=0.0098  Score=57.20  Aligned_cols=150  Identities=17%  Similarity=0.180  Sum_probs=79.7

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCc
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRK  188 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~  188 (429)
                      .|--.++||||.|||++..++++.+.  |+  ++--.+...   ..+..  ++.++...                  ..+
T Consensus       235 KRGYLLYGPPGTGKSS~IaAmAn~L~--yd--IydLeLt~v---~~n~d--Lr~LL~~t------------------~~k  287 (457)
T KOG0743|consen  235 KRGYLLYGPPGTGKSSFIAAMANYLN--YD--IYDLELTEV---KLDSD--LRHLLLAT------------------PNK  287 (457)
T ss_pred             hccceeeCCCCCCHHHHHHHHHhhcC--Cc--eEEeeeccc---cCcHH--HHHHHHhC------------------CCC
Confidence            35689999999999999999999763  32  222222111   11111  23333221                  235


Q ss_pred             EEEEecCCCCHHH--------------------HHHHhccCC---CCCCCCEEEE-EeCChhhhhh-----cCCCeEEEc
Q 048064          189 VLIVLDDVTCLNQ--------------------IESLVGSLD---RLLPESRILI-TTRNKQVLRN-----CHINQIYEM  239 (429)
Q Consensus       189 ~LlVlDdv~~~~~--------------------~~~l~~~l~---~~~~~~~iii-TtR~~~~~~~-----~~~~~~~~l  239 (429)
                      -+|||.|+|..-.                    +.-|+..+.   ..+.+-|||| ||...+-+..     -...-.+.+
T Consensus       288 SIivIEDIDcs~~l~~~~~~~~~~~~~~~~~VTlSGLLNfiDGlwSscg~ERIivFTTNh~EkLDPALlRpGRmDmhI~m  367 (457)
T KOG0743|consen  288 SILLIEDIDCSFDLRERRKKKKENFEGDLSRVTLSGLLNFLDGLWSSCGDERIIVFTTNHKEKLDPALLRPGRMDMHIYM  367 (457)
T ss_pred             cEEEEeecccccccccccccccccccCCcceeehHHhhhhhccccccCCCceEEEEecCChhhcCHhhcCCCcceeEEEc
Confidence            6888888864311                    111222222   2222346555 7765533221     123456778


Q ss_pred             CCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHHHhh
Q 048064          240 KGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYL  290 (429)
Q Consensus       240 ~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~~~l  290 (429)
                      ..=+.+....|+.+.+.... +.    .+..+|.+...+.-+.=..++..+
T Consensus       368 gyCtf~~fK~La~nYL~~~~-~h----~L~~eie~l~~~~~~tPA~V~e~l  413 (457)
T KOG0743|consen  368 GYCTFEAFKTLASNYLGIEE-DH----RLFDEIERLIEETEVTPAQVAEEL  413 (457)
T ss_pred             CCCCHHHHHHHHHHhcCCCC-Cc----chhHHHHHHhhcCccCHHHHHHHH
Confidence            88889999999988875433 22    234445444445433333444433

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=97.22  E-value=0.0049  Score=61.86  Aligned_cols=43  Identities=35%  Similarity=0.480  Sum_probs=34.3

Q ss_pred             cccchhhHHHHHHHhhc-------CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064           91 ELVGVESRVEEIQSLLG-------AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus        91 ~~vGR~~~~~~l~~~l~-------~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      +++--.+-++++..||.       ..+++.++||+|+||||.++.+++.+
T Consensus        20 eLavhkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~el   69 (519)
T PF03215_consen   20 ELAVHKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKEL   69 (519)
T ss_pred             HhhccHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHh
Confidence            34444566777888876       35789999999999999999999976

>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]

Probab=97.20  E-value=0.0022  Score=57.03  Aligned_cols=51  Identities=27%  Similarity=0.554  Sum_probs=38.2

Q ss_pred             cccchhhHHHHHHHhhc---------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeec
Q 048064           91 ELVGVESRVEEIQSLLG---------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENI  146 (429)
Q Consensus        91 ~~vGR~~~~~~l~~~l~---------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~  146 (429)
                      +.=|=.++++.|.+...               .++-|.++|++|.|||-+|++++++.     ..+|+..+
T Consensus       178 dvggckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravanrt-----dacfirvi  243 (435)
T KOG0729|consen  178 DVGGCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVANRT-----DACFIRVI  243 (435)
T ss_pred             cccchHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhccc-----CceEEeeh
Confidence            44566677777776543               56789999999999999999999874     45555533

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=97.19  E-value=0.0026  Score=59.13  Aligned_cols=29  Identities=24%  Similarity=0.357  Sum_probs=24.8

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ..++++|+|++|+||||++..++..+..+
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~~~~~~  221 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAARFVLE  221 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHH
Confidence            35689999999999999999999877543

>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=97.18  E-value=0.00067  Score=59.28  Aligned_cols=35  Identities=23%  Similarity=0.347  Sum_probs=26.6

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEE
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFL  143 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  143 (429)
                      ++++.++|+.|+||||.+..++.++..+-..+.++
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~li   35 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARLKLKGKKVALI   35 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHHHHTT--EEEE
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHHhhccccceee
Confidence            46899999999999999999998876663333444

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=97.18  E-value=0.015  Score=55.15  Aligned_cols=29  Identities=24%  Similarity=0.366  Sum_probs=25.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ++.++.++|++|+||||++..++..+..+
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~~l~~~  167 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAYYLKKN  167 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            35789999999999999999999877654

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=97.16  E-value=0.0041  Score=53.57  Aligned_cols=124  Identities=15%  Similarity=0.186  Sum_probs=63.6

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHH--------------HHHHHHhcCCCC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQ--------------KLLSEVLKDVNV  173 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~--------------~l~~~~~~~~~~  173 (429)
                      ....++|.|+.|.|||||++.++..... ....+++... ....  . .....+              .+...+....+.
T Consensus        27 ~Ge~~~i~G~nGsGKStLl~~l~G~~~~-~~G~i~~~g~-~~~~--~-~~~~~~~i~~~~q~~~~~~~tv~~~i~~~LS~  101 (178)
T cd03247          27 QGEKIALLGRSGSGKSTLLQLLTGDLKP-QQGEITLDGV-PVSD--L-EKALSSLISVLNQRPYLFDTTLRNNLGRRFSG  101 (178)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccCCC-CCCEEEECCE-EHHH--H-HHHHHhhEEEEccCCeeecccHHHhhcccCCH
Confidence            6789999999999999999999875432 2333443311 0000  0 000000              000000000000


Q ss_pred             CCCHH--HHHHHhcCCcEEEEecCCC---CHHHHHHHhccCCCCCCCCEEEEEeCChhhhhhcCCCeEEEc
Q 048064          174 IPHID--LNFRRLSCRKVLIVLDDVT---CLNQIESLVGSLDRLLPESRILITTRNKQVLRNCHINQIYEM  239 (429)
Q Consensus       174 ~~~~~--~l~~~l~~~~~LlVlDdv~---~~~~~~~l~~~l~~~~~~~~iiiTtR~~~~~~~~~~~~~~~l  239 (429)
                       ...+  .+.+.+-.++-++++|+..   +....+.+...+.....+..||++|.+......  ..+.+.+
T Consensus       102 -G~~qrv~laral~~~p~~lllDEP~~~LD~~~~~~l~~~l~~~~~~~tii~~sh~~~~~~~--~d~~~~l  169 (178)
T cd03247         102 -GERQRLALARILLQDAPIVLLDEPTVGLDPITERQLLSLIFEVLKDKTLIWITHHLTGIEH--MDKILFL  169 (178)
T ss_pred             -HHHHHHHHHHHHhcCCCEEEEECCcccCCHHHHHHHHHHHHHHcCCCEEEEEecCHHHHHh--CCEEEEE
Confidence             0001  1566667788899999984   333333333333222235678888887766543  3444444

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.

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=97.16  E-value=0.0023  Score=61.56  Aligned_cols=89  Identities=15%  Similarity=0.237  Sum_probs=52.4

Q ss_pred             HHHHhhc----CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCC-----
Q 048064          101 EIQSLLG----AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDV-----  171 (429)
Q Consensus       101 ~l~~~l~----~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-----  171 (429)
                      .|.+.|.    ...++.|.|++|+|||||+.+++..+......++|+. ..      .....+... ...++...     
T Consensus        70 eLD~vLgGGi~~GslvLI~G~pG~GKStLllq~a~~~a~~g~~VlYvs-~E------Es~~qi~~R-a~rlg~~~~~l~l  141 (372)
T cd01121          70 ELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVS-GE------ESPEQIKLR-ADRLGISTENLYL  141 (372)
T ss_pred             HHHHhhcCCccCCeEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEE-CC------cCHHHHHHH-HHHcCCCcccEEE
Confidence            4444444    5678999999999999999999988766544555554 21      122222211 12222111     


Q ss_pred             CCCCCHHHHHHHhc-CCcEEEEecCCC
Q 048064          172 NVIPHIDLNFRRLS-CRKVLIVLDDVT  197 (429)
Q Consensus       172 ~~~~~~~~l~~~l~-~~~~LlVlDdv~  197 (429)
                      .....++.+...+. .++-++|+|.+.
T Consensus       142 ~~e~~le~I~~~i~~~~~~lVVIDSIq  168 (372)
T cd01121         142 LAETNLEDILASIEELKPDLVIIDSIQ  168 (372)
T ss_pred             EccCcHHHHHHHHHhcCCcEEEEcchH
Confidence            11234455555544 366799999984

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.

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=97.15  E-value=0.016  Score=56.56  Aligned_cols=28  Identities=25%  Similarity=0.319  Sum_probs=24.6

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      +.+|.++|++|+||||++..++..++.+
T Consensus       100 ~~vi~lvG~~GvGKTTtaaKLA~~l~~~  127 (429)
T TIGR01425       100 QNVIMFVGLQGSGKTTTCTKLAYYYQRK  127 (429)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            5789999999999999999999877654

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.

>KOG0651 consensus 26S proteasome regulatory complex, ATPase RPT4 [Posttranslational modification, protein turnover, chaperones]

Probab=97.11  E-value=0.0066  Score=55.39  Aligned_cols=48  Identities=25%  Similarity=0.441  Sum_probs=36.0

Q ss_pred             CcccchhhHHHHHHHhhc---------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCc
Q 048064           90 NELVGVESRVEEIQSLLG---------------AAPLLGIWGIGGIGKTTIARVIFNRISRNF  137 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~---------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f  137 (429)
                      .++-|--....++.+.+.               .+..++|||++|.|||-+|+.++..+.-+|
T Consensus       132 ~~~ggl~~qirelre~ielpl~np~lf~rvgIk~Pkg~ll~GppGtGKTlla~~Vaa~mg~nf  194 (388)
T KOG0651|consen  132 ENVGGLFYQIRELREVIELPLTNPELFLRVGIKPPKGLLLYGPPGTGKTLLARAVAATMGVNF  194 (388)
T ss_pred             HHhCChHHHHHHHHhheEeeccCchhccccCCCCCceeEEeCCCCCchhHHHHHHHHhcCCce
Confidence            345555566666666553               466799999999999999999999876554

>PRK08118 topology modulation protein; Reviewed

Probab=97.09  E-value=0.00045  Score=58.79  Aligned_cols=25  Identities=32%  Similarity=0.533  Sum_probs=22.5

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      +.|.|+|++|+||||||+.+++.+.
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~l~   26 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEKLN   26 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4589999999999999999999864

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.07  E-value=0.0037  Score=59.85  Aligned_cols=29  Identities=24%  Similarity=0.357  Sum_probs=25.2

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ...+++++|++|+||||++..++.+....
T Consensus       136 ~g~ii~lvGptGvGKTTtiakLA~~~~~~  164 (374)
T PRK14722        136 RGGVFALMGPTGVGKTTTTAKLAARCVMR  164 (374)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHh
Confidence            46799999999999999999999876544

>TIGR00959 ffh signal recognition particle protein

Probab=97.07  E-value=0.024  Score=55.54  Aligned_cols=26  Identities=23%  Similarity=0.333  Sum_probs=23.3

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      +.++.++|++|+||||++..++..+.
T Consensus        99 p~vi~~vG~~GsGKTTtaakLA~~l~  124 (428)
T TIGR00959        99 PTVILMVGLQGSGKTTTCGKLAYYLK  124 (428)
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHHH
Confidence            56899999999999999999998865

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.

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=97.04  E-value=0.0027  Score=58.56  Aligned_cols=30  Identities=23%  Similarity=0.408  Sum_probs=25.6

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCc
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNF  137 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f  137 (429)
                      ..++++++|++|+||||++..++..+....
T Consensus        71 ~~~vi~l~G~~G~GKTTt~akLA~~l~~~g  100 (272)
T TIGR00064        71 KPNVILFVGVNGVGKTTTIAKLANKLKKQG  100 (272)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhcC
Confidence            457899999999999999999998876553

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.

>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB

Probab=97.03  E-value=0.0013  Score=62.97  Aligned_cols=102  Identities=13%  Similarity=0.050  Sum_probs=57.1

Q ss_pred             HHHhhc-CCCEEEEEcCCCcchHHHHHHHHHHhhcCcc---eeEEEeechhhhhhcCCHHHHHH--HHHHHHhcCCCCCC
Q 048064          102 IQSLLG-AAPLLGIWGIGGIGKTTIARVIFNRISRNFK---GSCFLENIREESQKAGGLAFLQQ--KLLSEVLKDVNVIP  175 (429)
Q Consensus       102 l~~~l~-~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~---~~~~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~  175 (429)
                      +.+++. ....|+|+|+.|+||||++..++..+....+   ..+.+.+..+     ........  ....+.........
T Consensus       126 ~~~~~~~~~glilI~GpTGSGKTTtL~aLl~~i~~~~~~~~~Ivt~EdpiE-----~~~~~~~~~~~~v~Q~~v~~~~~~  200 (358)
T TIGR02524       126 IIDAIAPQEGIVFITGATGSGKSTLLAAIIRELAEAPDSHRKILTYEAPIE-----FVYDEIETISASVCQSEIPRHLNN  200 (358)
T ss_pred             HHHHHhccCCEEEEECCCCCCHHHHHHHHHHHHhhcCCCCcEEEEeCCCce-----EeccccccccceeeeeeccccccC
Confidence            334444 6789999999999999999999987754332   2222221111     11111000  00000000001111


Q ss_pred             CHHHHHHHhcCCcEEEEecCCCCHHHHHHHhcc
Q 048064          176 HIDLNFRRLSCRKVLIVLDDVTCLNQIESLVGS  208 (429)
Q Consensus       176 ~~~~l~~~l~~~~~LlVlDdv~~~~~~~~l~~~  208 (429)
                      -...+...|+..+-.+++.++.+.+.....+..
T Consensus       201 ~~~~l~~aLR~~Pd~i~vGEiRd~et~~~al~a  233 (358)
T TIGR02524       201 FAAGVRNALRRKPHAILVGEARDAETISAALEA  233 (358)
T ss_pred             HHHHHHHHhccCCCEEeeeeeCCHHHHHHHHHH
Confidence            223377788889999999999888877654443

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.

>COG5635 Predicted NTPase (NACHT family) [Signal transduction mechanisms]

Probab=97.03  E-value=0.012  Score=63.09  Aligned_cols=215  Identities=19%  Similarity=0.173  Sum_probs=106.3

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCc----ceeEEEeec--hhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNF----KGSCFLENI--REESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNF  181 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f----~~~~~~~~~--~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~  181 (429)
                      ...-+.|+|.+|.||||+...++-....+.    ...+++...  .......... .+..-+...+..............
T Consensus       221 ~~~~~~Ilg~pGsGKTtfl~~lA~~~~~~~~~~~~vpi~~~l~~~~~~~~~~~q~-~~~~~l~~~~~~~~~~~~~~~~~~  299 (824)
T COG5635         221 KYAKLLILGAPGSGKTTFLQRLALWLAQRTLEPEDVPIFLLLNAFALARKFEKQL-SLIDYLAEELFSQGIAKQLIEAHQ  299 (824)
T ss_pred             hhhheeeecCCCCCceehHHHHHHHhccCcCCcccCceeeechhHHHhhhhHhhc-cHHHHHHHHHhccCCcchhhHHHH
Confidence            344799999999999999999887654332    122222211  1111100000 122222222222222222333346


Q ss_pred             HHhcCCcEEEEecCCCCHHH------HHHHhccCCCCCCCCEEEEEeCChhhhhhcCCCeEEEcCCCCHHHHHHHHHHh-
Q 048064          182 RRLSCRKVLIVLDDVTCLNQ------IESLVGSLDRLLPESRILITTRNKQVLRNCHINQIYEMKGLGDDHALELFIRH-  254 (429)
Q Consensus       182 ~~l~~~~~LlVlDdv~~~~~------~~~l~~~l~~~~~~~~iiiTtR~~~~~~~~~~~~~~~l~~L~~~ea~~L~~~~-  254 (429)
                      +.+...++++++|.+|....      ...+...++. -+...+|+|+|....-........+++..+.++.-....... 
T Consensus       300 e~l~~g~~llLlDGlDe~~~~~~~~~~~~i~~f~~~-~~~~~~iltcR~~~~~~~~~~f~~~ei~~~~~~~i~~~~~~~~  378 (824)
T COG5635         300 ELLKTGKLLLLLDGLDELEPKNQRALIREINKFLQE-YPDAQVLLTCRPDTYKEEFKGFAVFEIYKFLDLQINQFILYQW  378 (824)
T ss_pred             HHHhccchhhHhhccchhhhhhHHHHHHHHHHHhhh-ccCCeEEEEeccchhhhhhhhhhhccchhhhHHHHHHHHHHHH
Confidence            78889999999999985531      2222222222 457889999997744333333445556666655444333311 


Q ss_pred             -------hhcCCCCCh--hHH-HH---HHHHHHHhCCChHHHHHHHHhhcC------CCHHHHHHHHHHHhhCCCccHHH
Q 048064          255 -------AFRQNLVDV--DYK-EL---SDKVINYAQGVPLALKILGCYLFE------RKKEVWENAIKKLKNFLHQNILD  315 (429)
Q Consensus       255 -------~~~~~~~~~--~~~-~~---~~~i~~~~~G~PLai~~~~~~l~~------~~~~~~~~~l~~l~~~~~~~i~~  315 (429)
                             .+.. ....  .+. .+   ..+-.......|+.|.+.+.....      ....-++..++.+-...+..-..
T Consensus       379 ~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~ik~l~~~p~~L~l~c~~~~~~~~lP~~~~~ly~~~~~~~~~~~d~~~~~  457 (824)
T COG5635         379 LDAFIEDWFGD-SRLLAKKLLERLKLPENRRIKELALTPLLLALECLIWQAQGDLPESRAELYEQAVDALLGREDETRGI  457 (824)
T ss_pred             HHHHHHhhhcc-cchhhHHHHHHhcchhhHHHHHhccCHHHHHHHHHhhhHHhhCCCCcHHHHHHHHHHHHhccchhhhh
Confidence                   1111 1111  000 00   122233448889999888754431      33455666666554432222222


Q ss_pred             HHHHhhhcCC
Q 048064          316 VLKISYDDLD  325 (429)
Q Consensus       316 ~l~~s~~~L~  325 (429)
                      .+...|..+.
T Consensus       458 ~~~~~~~~~~  467 (824)
T COG5635         458 KWSKTYAKLT  467 (824)
T ss_pred             cchhhhcccc
Confidence            2334455443

>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=97.02  E-value=0.0039  Score=53.77  Aligned_cols=121  Identities=20%  Similarity=0.277  Sum_probs=62.5

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeec--hhhhh--hcCCHHHHHHHHHHHHhcC---CCCCCCH---
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENI--REESQ--KAGGLAFLQQKLLSEVLKD---VNVIPHI---  177 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~--~~~~~--~~~~~~~~~~~l~~~~~~~---~~~~~~~---  177 (429)
                      ...+++|.|+.|.|||||++.++.... .....+++...  .....  ....+..+. +++..++-.   ......+   
T Consensus        24 ~G~~~~l~G~nGsGKStLl~~i~G~~~-~~~G~v~~~g~~~~~~~~~~~~~~i~~~~-q~l~~~gl~~~~~~~~~~LS~G  101 (180)
T cd03214          24 AGEIVGILGPNGAGKSTLLKTLAGLLK-PSSGEILLDGKDLASLSPKELARKIAYVP-QALELLGLAHLADRPFNELSGG  101 (180)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCC-CCCcEEEECCEECCcCCHHHHHHHHhHHH-HHHHHcCCHhHhcCCcccCCHH
Confidence            677999999999999999999887543 23344444311  10000  000011111 122222111   0111111   


Q ss_pred             --H--HHHHHhcCCcEEEEecCCC---CHHHHHHHhccCCCC-CC-CCEEEEEeCChhhhhh
Q 048064          178 --D--LNFRRLSCRKVLIVLDDVT---CLNQIESLVGSLDRL-LP-ESRILITTRNKQVLRN  230 (429)
Q Consensus       178 --~--~l~~~l~~~~~LlVlDdv~---~~~~~~~l~~~l~~~-~~-~~~iiiTtR~~~~~~~  230 (429)
                        +  .+.+.+-..+-++++|+.-   +....+.+...+... .. +..||++|.+......
T Consensus       102 ~~qrl~laral~~~p~llllDEP~~~LD~~~~~~~~~~l~~~~~~~~~tiii~sh~~~~~~~  163 (180)
T cd03214         102 ERQRVLLARALAQEPPILLLDEPTSHLDIAHQIELLELLRRLARERGKTVVMVLHDLNLAAR  163 (180)
T ss_pred             HHHHHHHHHHHhcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHHHHHH
Confidence              1  1666677788899999983   333333333333222 22 5678888877665433

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.

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.02  E-value=0.0037  Score=60.41  Aligned_cols=25  Identities=24%  Similarity=0.207  Sum_probs=22.1

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ..+++++|++|+||||++..++...
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA~~~  247 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLAAKY  247 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            3578999999999999999999765

>PRK05973 replicative DNA helicase; Provisional

Probab=97.00  E-value=0.0027  Score=56.92  Aligned_cols=40  Identities=18%  Similarity=0.156  Sum_probs=30.6

Q ss_pred             hhcCCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEe
Q 048064          105 LLGAAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLE  144 (429)
Q Consensus       105 ~l~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  144 (429)
                      -+....++.|.|.+|+|||+++.+++.....+...++|++
T Consensus        60 Gl~~Gsl~LIaG~PG~GKT~lalqfa~~~a~~Ge~vlyfS   99 (237)
T PRK05973         60 QLKPGDLVLLGARPGHGKTLLGLELAVEAMKSGRTGVFFT   99 (237)
T ss_pred             CCCCCCEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            3346789999999999999999999887655544455543

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=97.00  E-value=0.0037  Score=52.94  Aligned_cols=115  Identities=19%  Similarity=0.072  Sum_probs=60.1

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCC-----CCC-------
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNV-----IPH-------  176 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-----~~~-------  176 (429)
                      ...|-|++..|.||||.|..++.+...+--.++++--+... . ..+-......+.-.+......     .+.       
T Consensus         5 ~Gli~v~~g~GkGKtt~a~g~a~ra~~~g~~v~ivQFlKg~-~-~~GE~~~l~~~~~~~~~~g~g~~~~~~~~~~~~~~~   82 (173)
T TIGR00708         5 RGIIIVHTGNGKGKTTAAFGMALRALGHGKKVGVIQFIKGA-W-PNGERAAFEPHGVEFQVMGTGFTWETQNREADTAIA   82 (173)
T ss_pred             ccEEEEECCCCCChHHHHHHHHHHHHHCCCeEEEEEEecCC-c-ccChHHHHHhcCcEEEECCCCCeecCCCcHHHHHHH
Confidence            35788899999999999999999876654444333222211 0 112122222210000000000     000       


Q ss_pred             ---HHHHHHHhcCC-cEEEEecCCC-----CHHHHHHHhccCCCCCCCCEEEEEeCCh
Q 048064          177 ---IDLNFRRLSCR-KVLIVLDDVT-----CLNQIESLVGSLDRLLPESRILITTRNK  225 (429)
Q Consensus       177 ---~~~l~~~l~~~-~~LlVlDdv~-----~~~~~~~l~~~l~~~~~~~~iiiTtR~~  225 (429)
                         .+...+.+... --++|||++-     ..-..+.+...+...+++..||+|.|+.
T Consensus        83 ~~~~~~a~~~l~~~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~rp~~~evVlTGR~~  140 (173)
T TIGR00708        83 KAAWQHAKEMLADPELDLVLLDELTYALKYGYLDVEEVVEALQERPGHQHVIITGRGC  140 (173)
T ss_pred             HHHHHHHHHHHhcCCCCEEEehhhHHHHHCCCcCHHHHHHHHHhCCCCCEEEEECCCC
Confidence               11133344443 4599999983     1222344444455456778999999986

Alternate name: corrinoid adenosyltransferase.

>PRK07667 uridine kinase; Provisional

Probab=96.99  E-value=0.0015  Score=57.09  Aligned_cols=29  Identities=28%  Similarity=0.384  Sum_probs=25.2

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ...+|+|.|.+|+||||+|..+...+...
T Consensus        16 ~~~iIgI~G~~gsGKStla~~L~~~l~~~   44 (193)
T PRK07667         16 NRFILGIDGLSRSGKTTFVANLKENMKQE   44 (193)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHhC
Confidence            45689999999999999999999987654

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=96.99  E-value=0.0041  Score=59.04  Aligned_cols=90  Identities=20%  Similarity=0.313  Sum_probs=56.4

Q ss_pred             HHHHHHhhc----CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcC----
Q 048064           99 VEEIQSLLG----AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKD----  170 (429)
Q Consensus        99 ~~~l~~~l~----~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----  170 (429)
                      +.++.+.|.    ...++.|-|.||||||||..+++.++.+.. .+.+++  .+     ....++... ...++..    
T Consensus        79 ~~EldRVLGGG~V~Gs~iLIgGdPGIGKSTLLLQva~~lA~~~-~vLYVs--GE-----ES~~QiklR-A~RL~~~~~~l  149 (456)
T COG1066          79 IEELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRG-KVLYVS--GE-----ESLQQIKLR-ADRLGLPTNNL  149 (456)
T ss_pred             hHHHHhhhcCCcccccEEEEccCCCCCHHHHHHHHHHHHHhcC-cEEEEe--CC-----cCHHHHHHH-HHHhCCCccce
Confidence            445666665    678999999999999999999999998776 455554  22     122222111 1222211    


Q ss_pred             -CCCCCCHHHHHHHhcC-CcEEEEecCCC
Q 048064          171 -VNVIPHIDLNFRRLSC-RKVLIVLDDVT  197 (429)
Q Consensus       171 -~~~~~~~~~l~~~l~~-~~~LlVlDdv~  197 (429)
                       .....+++.+...+.+ ++-++|+|-+.
T Consensus       150 ~l~aEt~~e~I~~~l~~~~p~lvVIDSIQ  178 (456)
T COG1066         150 YLLAETNLEDIIAELEQEKPDLVVIDSIQ  178 (456)
T ss_pred             EEehhcCHHHHHHHHHhcCCCEEEEeccc
Confidence             1223455556665554 67899999983

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=96.99  E-value=0.0027  Score=57.35  Aligned_cols=37  Identities=19%  Similarity=0.187  Sum_probs=29.2

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEe
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLE  144 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  144 (429)
                      ...++.|+|++|+|||+|+.+++.....+-..++|+.
T Consensus        24 ~g~~~~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~~   60 (234)
T PRK06067         24 FPSLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVIT   60 (234)
T ss_pred             CCcEEEEECCCCCChHHHHHHHHHHHHhCCCEEEEEE
Confidence            5789999999999999999999876544444555554

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=96.98  E-value=0.0061  Score=52.08  Aligned_cols=125  Identities=16%  Similarity=0.258  Sum_probs=63.7

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCC--CC-------CC--C
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDV--NV-------IP--H  176 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~-------~~--~  176 (429)
                      ....++|.|+.|.|||||.+.++.... .....+++.... ..  ........+.+ ..+....  ..       .+  .
T Consensus        27 ~G~~~~l~G~nGsGKstLl~~i~G~~~-~~~G~i~~~g~~-~~--~~~~~~~~~~i-~~~~~~~~~~~~t~~e~lLS~G~  101 (171)
T cd03228          27 PGEKVAIVGPSGSGKSTLLKLLLRLYD-PTSGEILIDGVD-LR--DLDLESLRKNI-AYVPQDPFLFSGTIRENILSGGQ  101 (171)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHcCCC-CCCCEEEECCEE-hh--hcCHHHHHhhE-EEEcCCchhccchHHHHhhCHHH
Confidence            678999999999999999999987543 223444443111 00  00000000000 0000000  00       00  0


Q ss_pred             HH--HHHHHhcCCcEEEEecCCC---CHHHHHHHhccCCCCCCCCEEEEEeCChhhhhhcCCCeEEEc
Q 048064          177 ID--LNFRRLSCRKVLIVLDDVT---CLNQIESLVGSLDRLLPESRILITTRNKQVLRNCHINQIYEM  239 (429)
Q Consensus       177 ~~--~l~~~l~~~~~LlVlDdv~---~~~~~~~l~~~l~~~~~~~~iiiTtR~~~~~~~~~~~~~~~l  239 (429)
                      ..  .+...+...+-++++|+-.   +....+.+...+.....+..||++|.+......  ..+++.+
T Consensus       102 ~~rl~la~al~~~p~llllDEP~~gLD~~~~~~l~~~l~~~~~~~tii~~sh~~~~~~~--~d~~~~l  167 (171)
T cd03228         102 RQRIAIARALLRDPPILILDEATSALDPETEALILEALRALAKGKTVIVIAHRLSTIRD--ADRIIVL  167 (171)
T ss_pred             HHHHHHHHHHhcCCCEEEEECCCcCCCHHHHHHHHHHHHHhcCCCEEEEEecCHHHHHh--CCEEEEE
Confidence            01  1556666788899999984   233333333333222235678888887766543  4455544

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.

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.98  E-value=0.0092  Score=57.64  Aligned_cols=27  Identities=22%  Similarity=0.236  Sum_probs=23.8

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      .++++.++|+.|+||||.+..++..+.
T Consensus       173 ~~~vi~lvGptGvGKTTT~aKLA~~~~  199 (388)
T PRK12723        173 KKRVFILVGPTGVGKTTTIAKLAAIYG  199 (388)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            357899999999999999999998765

>PRK05541 adenylylsulfate kinase; Provisional

Probab=96.97  E-value=0.0011  Score=56.94  Aligned_cols=36  Identities=31%  Similarity=0.598  Sum_probs=30.8

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEE
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFL  143 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  143 (429)
                      .+.+|.++|++|+||||+|+.++..+...+...+++
T Consensus         6 ~~~~I~i~G~~GsGKst~a~~l~~~l~~~~~~~~~~   41 (176)
T PRK05541          6 NGYVIWITGLAGSGKTTIAKALYERLKLKYSNVIYL   41 (176)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEE
Confidence            567899999999999999999999987766666665

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.97  E-value=0.0074  Score=59.32  Aligned_cols=26  Identities=27%  Similarity=0.409  Sum_probs=23.2

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      .++++++|++|+||||++..++..+.
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~~  246 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARYA  246 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHH
Confidence            56899999999999999999988765

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=96.97  E-value=0.0041  Score=53.29  Aligned_cols=24  Identities=25%  Similarity=0.347  Sum_probs=21.4

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ...+++|.|+.|+|||||.+.+..
T Consensus        20 ~G~~~~l~G~nG~GKSTLl~~il~   43 (176)
T cd03238          20 LNVLVVVTGVSGSGKSTLVNEGLY   43 (176)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhh
Confidence            567899999999999999998863

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.

>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C

Probab=96.97  E-value=0.00065  Score=54.84  Aligned_cols=22  Identities=55%  Similarity=0.830  Sum_probs=20.6

Q ss_pred             EEEEcCCCcchHHHHHHHHHHh
Q 048064          112 LGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      |+|.|.+|+||||+|+.+.+++
T Consensus         1 I~i~G~~GsGKtTia~~L~~~~   22 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAERL   22 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHHH
Confidence            6899999999999999999985

...

>CHL00206 ycf2 Ycf2; Provisional

Probab=96.96  E-value=0.0052  Score=68.81  Aligned_cols=27  Identities=11%  Similarity=0.164  Sum_probs=24.2

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      .++-|.++|++|+|||.||+++|....
T Consensus      1629 pPKGILLiGPPGTGKTlLAKALA~es~ 1655 (2281)
T CHL00206       1629 PSRGILVIGSIGTGRSYLVKYLATNSY 1655 (2281)
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHhcC
Confidence            677899999999999999999998753

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=96.96  E-value=0.033  Score=58.20  Aligned_cols=45  Identities=16%  Similarity=0.213  Sum_probs=36.9

Q ss_pred             CCcccchhhHHHHHHHhhc----CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064           89 KNELVGVESRVEEIQSLLG----AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~----~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ...++|....++++.+.+.    ....|.|+|++|+||+++|+.+.+..
T Consensus       324 ~~~l~g~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~~A~~ih~~s  372 (638)
T PRK11388        324 FDHMPQDSPQMRRLIHFGRQAAKSSFPVLLCGEEGVGKALLAQAIHNES  372 (638)
T ss_pred             ccceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCcCHHHHHHHHHHhC
Confidence            4568899888888877665    45568999999999999999988754

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=96.94  E-value=0.001  Score=66.33  Aligned_cols=47  Identities=28%  Similarity=0.408  Sum_probs=40.9

Q ss_pred             CcccchhhHHHHHHHhhc--------CCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064           90 NELVGVESRVEEIQSLLG--------AAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~--------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      .+++|.++.++++.+.|.        ..+++.++||+|+||||||+.+++-+.+.
T Consensus        76 ~d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~le~~  130 (644)
T PRK15455         76 EEFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSLMERV  130 (644)
T ss_pred             hcccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHHHHhC
Confidence            468999999999999883        67899999999999999999999866443

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=96.94  E-value=0.019  Score=53.02  Aligned_cols=123  Identities=7%  Similarity=0.037  Sum_probs=71.6

Q ss_pred             HHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhcC-------------cceeEEEeechhhhhhcCCHHHHHHHH
Q 048064          100 EEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISRN-------------FKGSCFLENIREESQKAGGLAFLQQKL  163 (429)
Q Consensus       100 ~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-------------f~~~~~~~~~~~~~~~~~~~~~~~~~l  163 (429)
                      ++|...+.   -.+...++|+.|+||+++|..++..+-..             ++...++...... . .-.+       
T Consensus         7 ~~L~~~i~~~rl~HAyLf~G~~G~Gk~~lA~~~A~~llC~~~~~~c~~~~~~~HPD~~~i~p~~~~-~-~I~i-------   77 (290)
T PRK05917          7 EALIQRVRDQKVPSAIILHGQDLSNLSARAYELASLILKETSPEAAYKISQKIHPDIHEFSPQGKG-R-LHSI-------   77 (290)
T ss_pred             HHHHHHHHcCCcCeeEeeECCCCCcHHHHHHHHHHHHhCCCCccHHHHHhcCCCCCEEEEecCCCC-C-cCcH-------
Confidence            44555554   35678899999999999999999875321             2222222100000 0 0001       


Q ss_pred             HHHHhcCCCCCCCHHHHHHHhc-----CCcEEEEecCCC--CHHHHHHHhccCCCCCCCCEEEEEeCC-hhhhhh-cCCC
Q 048064          164 LSEVLKDVNVIPHIDLNFRRLS-----CRKVLIVLDDVT--CLNQIESLVGSLDRLLPESRILITTRN-KQVLRN-CHIN  234 (429)
Q Consensus       164 ~~~~~~~~~~~~~~~~l~~~l~-----~~~~LlVlDdv~--~~~~~~~l~~~l~~~~~~~~iiiTtR~-~~~~~~-~~~~  234 (429)
                                 +.+..+...+.     +..-++|+|+++  +.+....++..+....+++.+|++|.+ ..+++. .+..
T Consensus        78 -----------dqiR~l~~~~~~~p~e~~~kv~ii~~ad~mt~~AaNaLLK~LEEPp~~~~fiL~~~~~~~ll~TI~SRc  146 (290)
T PRK05917         78 -----------ETPRAIKKQIWIHPYESPYKIYIIHEADRMTLDAISAFLKVLEDPPQHGVIILTSAKPQRLPPTIRSRS  146 (290)
T ss_pred             -----------HHHHHHHHHHhhCccCCCceEEEEechhhcCHHHHHHHHHHhhcCCCCeEEEEEeCChhhCcHHHHhcc
Confidence                       11111222222     345589999998  446788888888877777776666555 444444 2345


Q ss_pred             eEEEcCCC
Q 048064          235 QIYEMKGL  242 (429)
Q Consensus       235 ~~~~l~~L  242 (429)
                      ..+.+.++
T Consensus       147 q~~~~~~~  154 (290)
T PRK05917        147 LSIHIPME  154 (290)
T ss_pred             eEEEccch
Confidence            66777765

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=96.92  E-value=0.0063  Score=51.76  Aligned_cols=127  Identities=16%  Similarity=0.130  Sum_probs=61.9

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEee---chhhhhhc-CCHHHHHHHHHHHHhcCCC-CCCCHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLEN---IREESQKA-GGLAFLQQKLLSEVLKDVN-VIPHIDLNFR  182 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~---~~~~~~~~-~~~~~~~~~l~~~~~~~~~-~~~~~~~l~~  182 (429)
                      ....++|.|+.|.|||||++.++...... ...+++..   +....... .....+.+.+........+ .....-.+.+
T Consensus        26 ~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~-~G~i~~~~~~~i~~~~q~~~~~~~tv~~nl~~~~~~~LS~G~~~rv~lar  104 (166)
T cd03223          26 PGDRLLITGPSGTGKSSLFRALAGLWPWG-SGRIGMPEGEDLLFLPQRPYLPLGTLREQLIYPWDDVLSGGEQQRLAFAR  104 (166)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCCCC-CceEEECCCceEEEECCCCccccccHHHHhhccCCCCCCHHHHHHHHHHH
Confidence            67799999999999999999998754322 22222211   00000000 0000111111110000000 0000111666


Q ss_pred             HhcCCcEEEEecCCC---CHHHHHHHhccCCCCCCCCEEEEEeCChhhhhhcCCCeEEEc
Q 048064          183 RLSCRKVLIVLDDVT---CLNQIESLVGSLDRLLPESRILITTRNKQVLRNCHINQIYEM  239 (429)
Q Consensus       183 ~l~~~~~LlVlDdv~---~~~~~~~l~~~l~~~~~~~~iiiTtR~~~~~~~~~~~~~~~l  239 (429)
                      .+..++-++++|+--   +....+.+...+...  +..||++|.+......  ..+++.+
T Consensus       105 al~~~p~~lllDEPt~~LD~~~~~~l~~~l~~~--~~tiiivsh~~~~~~~--~d~i~~l  160 (166)
T cd03223         105 LLLHKPKFVFLDEATSALDEESEDRLYQLLKEL--GITVISVGHRPSLWKF--HDRVLDL  160 (166)
T ss_pred             HHHcCCCEEEEECCccccCHHHHHHHHHHHHHh--CCEEEEEeCChhHHhh--CCEEEEE
Confidence            677788899999883   333333333333322  3567777777655432  3455544

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

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

Probab=96.92  E-value=0.0014  Score=54.60  Aligned_cols=36  Identities=28%  Similarity=0.357  Sum_probs=29.0

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEe
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLE  144 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  144 (429)
                      +.+|.|+|.+|+||||||+++.+++........++.
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            457899999999999999999999987765555553

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 ....

>PF03969 AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654 ATPase family gene 1 (AFG1) ATPase is a 377 amino acid putative protein with an ATPase motif typical of the protein family including SEC18p PAS1, CDC48-VCP and TBP

Probab=96.92  E-value=0.0025  Score=61.11  Aligned_cols=101  Identities=15%  Similarity=0.168  Sum_probs=58.6

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCR  187 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~  187 (429)
                      .++-+-|||+.|.|||-|+-.+++.+...-...+.+.             .....+-..+.........+..+...+.++
T Consensus        61 ~~~GlYl~G~vG~GKT~Lmd~f~~~lp~~~k~R~HFh-------------~Fm~~vh~~l~~~~~~~~~l~~va~~l~~~  127 (362)
T PF03969_consen   61 PPKGLYLWGPVGRGKTMLMDLFYDSLPIKRKRRVHFH-------------EFMLDVHSRLHQLRGQDDPLPQVADELAKE  127 (362)
T ss_pred             CCceEEEECCCCCchhHHHHHHHHhCCcccccccccc-------------HHHHHHHHHHHHHhCCCccHHHHHHHHHhc
Confidence            4677999999999999999999997643322222222             112222222222123334455666777778


Q ss_pred             cEEEEecCCC--CHH---HHHHHhccCCCCCCCCEEEEEeC
Q 048064          188 KVLIVLDDVT--CLN---QIESLVGSLDRLLPESRILITTR  223 (429)
Q Consensus       188 ~~LlVlDdv~--~~~---~~~~l~~~l~~~~~~~~iiiTtR  223 (429)
                      ..||+||++.  +..   .+..++..+-  ..|..+|.||.
T Consensus       128 ~~lLcfDEF~V~DiaDAmil~rLf~~l~--~~gvvlVaTSN  166 (362)
T PF03969_consen  128 SRLLCFDEFQVTDIADAMILKRLFEALF--KRGVVLVATSN  166 (362)
T ss_pred             CCEEEEeeeeccchhHHHHHHHHHHHHH--HCCCEEEecCC
Confidence            8899999985  332   2344444332  34555555554

AFG1 also has substantial homology to these proteins outside the ATPase domain []. This family of proteins contains a P-loop motif.; GO: 0005524 ATP binding

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.91  E-value=0.005  Score=61.13  Aligned_cols=43  Identities=21%  Similarity=0.258  Sum_probs=31.9

Q ss_pred             chhhHHHHHHHhhc--------CCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064           94 GVESRVEEIQSLLG--------AAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus        94 GR~~~~~~l~~~l~--------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ++...+..|.+.+.        ...+++|+|++|+||||++..++..+...
T Consensus       327 ~~~~l~~~L~~~l~v~~~~~l~~G~vIaLVGPtGvGKTTtaakLAa~la~~  377 (559)
T PRK12727        327 GRGLMLGLLSKRLPVAPVDPLERGGVIALVGPTGAGKTTTIAKLAQRFAAQ  377 (559)
T ss_pred             HHHHHHHHHHHhcCcCccccccCCCEEEEECCCCCCHHHHHHHHHHHHHHh
Confidence            44455555555442        56899999999999999999998876544

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=96.90  E-value=0.0056  Score=50.70  Aligned_cols=105  Identities=19%  Similarity=0.203  Sum_probs=56.3

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCR  187 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~  187 (429)
                      ...+++|.|+.|.|||||++.++.... .....+++.......- ...+..-              ....-.+.+.+..+
T Consensus        25 ~Ge~~~i~G~nGsGKStLl~~l~G~~~-~~~G~i~~~~~~~i~~-~~~lS~G--------------~~~rv~laral~~~   88 (144)
T cd03221          25 PGDRIGLVGRNGAGKSTLLKLIAGELE-PDEGIVTWGSTVKIGY-FEQLSGG--------------EKMRLALAKLLLEN   88 (144)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcCCCC-CCceEEEECCeEEEEE-EccCCHH--------------HHHHHHHHHHHhcC
Confidence            678999999999999999999887543 2233343321100000 0000000              00000145556667


Q ss_pred             cEEEEecCCC---CHHHHHHHhccCCCCCCCCEEEEEeCChhhhhh
Q 048064          188 KVLIVLDDVT---CLNQIESLVGSLDRLLPESRILITTRNKQVLRN  230 (429)
Q Consensus       188 ~~LlVlDdv~---~~~~~~~l~~~l~~~~~~~~iiiTtR~~~~~~~  230 (429)
                      +-++++|+..   +......+...+...  +..||++|.+......
T Consensus        89 p~illlDEP~~~LD~~~~~~l~~~l~~~--~~til~~th~~~~~~~  132 (144)
T cd03221          89 PNLLLLDEPTNHLDLESIEALEEALKEY--PGTVILVSHDRYFLDQ  132 (144)
T ss_pred             CCEEEEeCCccCCCHHHHHHHHHHHHHc--CCEEEEEECCHHHHHH
Confidence            7899999983   333333333333322  2467777777655443

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.

>PRK11823 DNA repair protein RadA; Provisional

Probab=96.89  E-value=0.0054  Score=60.78  Aligned_cols=90  Identities=16%  Similarity=0.228  Sum_probs=53.0

Q ss_pred             HHHHHhhc----CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcC-----
Q 048064          100 EEIQSLLG----AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKD-----  170 (429)
Q Consensus       100 ~~l~~~l~----~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----  170 (429)
                      ..|.+.|.    ...++.|.|++|+|||||+.+++......-..++|+. ..      .....+... ...++..     
T Consensus        67 ~~LD~~LgGGi~~Gs~~lI~G~pG~GKTtL~lq~a~~~a~~g~~vlYvs-~E------es~~qi~~r-a~rlg~~~~~l~  138 (446)
T PRK11823         67 GELDRVLGGGLVPGSVVLIGGDPGIGKSTLLLQVAARLAAAGGKVLYVS-GE------ESASQIKLR-AERLGLPSDNLY  138 (446)
T ss_pred             HHHHHHhcCCccCCEEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE-cc------ccHHHHHHH-HHHcCCChhcEE
Confidence            44555554    5678999999999999999999998764434455554 21      122222222 1222211     


Q ss_pred             CCCCCCHHHHHHHhcC-CcEEEEecCCC
Q 048064          171 VNVIPHIDLNFRRLSC-RKVLIVLDDVT  197 (429)
Q Consensus       171 ~~~~~~~~~l~~~l~~-~~~LlVlDdv~  197 (429)
                      ......++.+.+.+.. +.-++|+|.+.
T Consensus       139 ~~~e~~l~~i~~~i~~~~~~lVVIDSIq  166 (446)
T PRK11823        139 LLAETNLEAILATIEEEKPDLVVIDSIQ  166 (446)
T ss_pred             EeCCCCHHHHHHHHHhhCCCEEEEechh
Confidence            1112345555555543 56799999984

>TIGR02533 type_II_gspE general secretory pathway protein E

Probab=96.89  E-value=0.0018  Score=64.67  Aligned_cols=99  Identities=14%  Similarity=0.142  Sum_probs=58.6

Q ss_pred             HHHHHHhhc-CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHh-cCCCCCCC
Q 048064           99 VEEIQSLLG-AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVL-KDVNVIPH  176 (429)
Q Consensus        99 ~~~l~~~l~-~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~~  176 (429)
                      ++.+..++. ...++.|+|+.|+||||+...+.+.+.......+-+.+-.+...  .+.        .+.. .......-
T Consensus       231 ~~~l~~~~~~~~GlilitGptGSGKTTtL~a~L~~l~~~~~~iiTiEDpvE~~~--~~~--------~q~~v~~~~g~~f  300 (486)
T TIGR02533       231 LSRFERLIRRPHGIILVTGPTGSGKTTTLYAALSRLNTPERNILTVEDPVEYQI--EGI--------GQIQVNPKIGLTF  300 (486)
T ss_pred             HHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHhccCCCCCcEEEEcCCeeeec--CCC--------ceEEEccccCccH
Confidence            344555554 56789999999999999999888776433223333332111100  000        0000 00111222


Q ss_pred             HHHHHHHhcCCcEEEEecCCCCHHHHHHHhc
Q 048064          177 IDLNFRRLSCRKVLIVLDDVTCLNQIESLVG  207 (429)
Q Consensus       177 ~~~l~~~l~~~~~LlVlDdv~~~~~~~~l~~  207 (429)
                      .+.+...|+..+=.|++.++.+.+.......
T Consensus       301 ~~~lr~~LR~dPDvI~vGEiRd~eta~~a~~  331 (486)
T TIGR02533       301 AAGLRAILRQDPDIIMVGEIRDLETAQIAIQ  331 (486)
T ss_pred             HHHHHHHHhcCCCEEEEeCCCCHHHHHHHHH
Confidence            3448888899999999999998886655443

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.

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=96.89  E-value=0.0009  Score=58.56  Aligned_cols=26  Identities=35%  Similarity=0.616  Sum_probs=23.6

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      +|+|.|++|+||||+|+.+...+...
T Consensus         1 IIgI~G~sgSGKTTla~~L~~~L~~~   26 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQILNKR   26 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHTTC
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhCcc
Confidence            68999999999999999999988644

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 ....

>PRK10923 glnG nitrogen regulation protein NR(I); Provisional

Probab=96.89  E-value=0.011  Score=59.33  Aligned_cols=45  Identities=18%  Similarity=0.403  Sum_probs=37.2

Q ss_pred             CCcccchhhHHHHHHHhhc----CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064           89 KNELVGVESRVEEIQSLLG----AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~----~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ...++|....++++.+.+.    ....+.|.|.+|+|||++|+.+....
T Consensus       137 ~~~lig~s~~~~~l~~~~~~~~~~~~~vli~Ge~GtGK~~lA~~ih~~s  185 (469)
T PRK10923        137 TTDIIGEAPAMQDVFRIIGRLSRSSISVLINGESGTGKELVAHALHRHS  185 (469)
T ss_pred             cccceecCHHHHHHHHHHHHHhccCCeEEEEeCCCCcHHHHHHHHHhcC
Confidence            3569999988888877665    66679999999999999999887753

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=96.89  E-value=0.0027  Score=54.47  Aligned_cols=29  Identities=31%  Similarity=0.478  Sum_probs=25.0

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhhcCcc
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRISRNFK  138 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~  138 (429)
                      +.|.+.|.||+||||+|+++++.++++..
T Consensus         2 pLiIlTGyPgsGKTtfakeLak~L~~~i~   30 (261)
T COG4088           2 PLIILTGYPGSGKTTFAKELAKELRQEIW   30 (261)
T ss_pred             ceEEEecCCCCCchHHHHHHHHHHHHhhh
Confidence            57889999999999999999998766543

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=96.89  E-value=0.006  Score=53.33  Aligned_cols=111  Identities=17%  Similarity=0.176  Sum_probs=59.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcC---c-ceeEEEeechh-hhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRN---F-KGSCFLENIRE-ESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFR  182 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~---f-~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~  182 (429)
                      +.--+.|.|+||+|||||.+.++.-+...   | +..+-+.+-+. ......+..+......-+....   ....+.+..
T Consensus       136 g~lntLiigpP~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDersEIag~~~gvpq~~~g~R~dVld~---cpk~~gmmm  212 (308)
T COG3854         136 GWLNTLIIGPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDERSEIAGCLNGVPQHGRGRRMDVLDP---CPKAEGMMM  212 (308)
T ss_pred             CceeeEEecCCCCChHHHHHHHHHHhhccccccCCceEEEEeccchhhccccCCchhhhhhhhhhccc---chHHHHHHH
Confidence            34448899999999999999999876544   2 23333332221 1111111111111111111111   111111333


Q ss_pred             Hhc-CCcEEEEecCCCCHHHHHHHhccCCCCCCCCEEEEEeCC
Q 048064          183 RLS-CRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRN  224 (429)
Q Consensus       183 ~l~-~~~~LlVlDdv~~~~~~~~l~~~l~~~~~~~~iiiTtR~  224 (429)
                      ..+ -.+=++|+|++-..+...++...+.   .|.+++.|.--
T Consensus       213 aIrsm~PEViIvDEIGt~~d~~A~~ta~~---~GVkli~TaHG  252 (308)
T COG3854         213 AIRSMSPEVIIVDEIGTEEDALAILTALH---AGVKLITTAHG  252 (308)
T ss_pred             HHHhcCCcEEEEeccccHHHHHHHHHHHh---cCcEEEEeecc
Confidence            333 3577999999987777666665543   57787777643

>TIGR00416 sms DNA repair protein RadA

Probab=96.88  E-value=0.0058  Score=60.60  Aligned_cols=91  Identities=18%  Similarity=0.203  Sum_probs=53.0

Q ss_pred             HHHHHHhhc----CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcC----
Q 048064           99 VEEIQSLLG----AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKD----  170 (429)
Q Consensus        99 ~~~l~~~l~----~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----  170 (429)
                      +..|.+.|.    ...++.|.|.+|+|||||+.+++.....+-..++|+. ..      .....+.... ..++..    
T Consensus        80 i~~LD~vLgGGi~~GsvilI~G~pGsGKTTL~lq~a~~~a~~g~kvlYvs-~E------Es~~qi~~ra-~rlg~~~~~l  151 (454)
T TIGR00416        80 FGELDRVLGGGIVPGSLILIGGDPGIGKSTLLLQVACQLAKNQMKVLYVS-GE------ESLQQIKMRA-IRLGLPEPNL  151 (454)
T ss_pred             cHHHHHHhcCCccCCeEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEE-Cc------CCHHHHHHHH-HHcCCChHHe
Confidence            345555554    6778999999999999999999988765534455554 21      1222222111 111111    


Q ss_pred             -CCCCCCHHHHHHHhcC-CcEEEEecCCC
Q 048064          171 -VNVIPHIDLNFRRLSC-RKVLIVLDDVT  197 (429)
Q Consensus       171 -~~~~~~~~~l~~~l~~-~~~LlVlDdv~  197 (429)
                       ......++.+...+.. +.-++|+|.+.
T Consensus       152 ~~~~e~~~~~I~~~i~~~~~~~vVIDSIq  180 (454)
T TIGR00416       152 YVLSETNWEQICANIEEENPQACVIDSIQ  180 (454)
T ss_pred             EEcCCCCHHHHHHHHHhcCCcEEEEecch
Confidence             1112344555555544 56689999884

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)).

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

Probab=96.88  E-value=0.00065  Score=53.13  Aligned_cols=26  Identities=31%  Similarity=0.594  Sum_probs=22.3

Q ss_pred             EEEEcCCCcchHHHHHHHHHHhhcCc
Q 048064          112 LGIWGIGGIGKTTIARVIFNRISRNF  137 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~~~~~~f  137 (429)
                      |.|+|++|+|||+||..++..+.+++
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~~~~   26 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLLKHI   26 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHHHHh
Confidence            57999999999999999998776543

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

>PRK07261 topology modulation protein; Provisional

Probab=96.87  E-value=0.00091  Score=57.21  Aligned_cols=23  Identities=35%  Similarity=0.538  Sum_probs=20.9

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHh
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      .|+|+|++|+||||||+.++...
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~   24 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHY   24 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHh
Confidence            48999999999999999998764

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

Probab=96.86  E-value=0.00093  Score=55.15  Aligned_cols=24  Identities=33%  Similarity=0.559  Sum_probs=21.3

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHhh
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      +|.++|++|+||||+|+.+.....
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            588999999999999999987653

...

>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=96.86  E-value=0.0011  Score=61.45  Aligned_cols=121  Identities=20%  Similarity=0.147  Sum_probs=65.8

Q ss_pred             CcccchhhHHHHHHHhhc----CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHH
Q 048064           90 NELVGVESRVEEIQSLLG----AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLS  165 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~----~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~  165 (429)
                      ..+.-.....+.+.++|.    ....+.|.|++|+||||++..+...+...-...+.+.+..+.......          
T Consensus       104 e~l~~~~~~~~~~~~~l~~~v~~~~~ili~G~tGSGKTT~l~all~~i~~~~~~iv~iEd~~E~~l~~~~----------  173 (270)
T PF00437_consen  104 EDLGESGSIPEEIAEFLRSAVRGRGNILISGPTGSGKTTLLNALLEEIPPEDERIVTIEDPPELRLPGPN----------  173 (270)
T ss_dssp             CCCCHTHHCHHHHHHHHHHCHHTTEEEEEEESTTSSHHHHHHHHHHHCHTTTSEEEEEESSS-S--SCSS----------
T ss_pred             hhccCchhhHHHHHHHHhhccccceEEEEECCCccccchHHHHHhhhccccccceEEeccccceeecccc----------
Confidence            344433444445555554    588999999999999999999998775552333444332221110000          


Q ss_pred             HHhcC--CCCCCCHHHHHHHhcCCcEEEEecCCCCHHHHHHHhccCCCCCCCCEE-EEEeCC
Q 048064          166 EVLKD--VNVIPHIDLNFRRLSCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRI-LITTRN  224 (429)
Q Consensus       166 ~~~~~--~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~~~~l~~~l~~~~~~~~i-iiTtR~  224 (429)
                      .....  .......+.+...|+..+=.++++++.+.+....+...    ..|..+ +-|...
T Consensus       174 ~~~~~~~~~~~~~~~~l~~~LR~~pD~iiigEiR~~e~~~~~~a~----~tGh~~~~tT~Ha  231 (270)
T PF00437_consen  174 QIQIQTRRDEISYEDLLKSALRQDPDVIIIGEIRDPEAAEAIQAA----NTGHLGSLTTLHA  231 (270)
T ss_dssp             EEEEEEETTTBSHHHHHHHHTTS--SEEEESCE-SCHHHHHHHHH----HTT-EEEEEEEE-
T ss_pred             eEEEEeecCcccHHHHHHHHhcCCCCcccccccCCHhHHHHHHhh----ccCCceeeeeeec
Confidence            00000  12222333477788888889999999888776663332    346566 445443

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 ....

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=96.85  E-value=0.0021  Score=54.49  Aligned_cols=115  Identities=15%  Similarity=0.193  Sum_probs=60.8

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCC--HH--HHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPH--ID--LNFRR  183 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~--~~--~l~~~  183 (429)
                      ....++|.|+.|.|||||.+.++.... .....+++.... ..  ........+   ..+..... .+.  .+  .+.+.
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~i~G~~~-~~~G~v~~~g~~-~~--~~~~~~~~~---~~i~~~~q-LS~G~~qrl~lara   96 (163)
T cd03216          25 RGEVHALLGENGAGKSTLMKILSGLYK-PDSGEILVDGKE-VS--FASPRDARR---AGIAMVYQ-LSVGERQMVEIARA   96 (163)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCC-CCCeEEEECCEE-CC--cCCHHHHHh---cCeEEEEe-cCHHHHHHHHHHHH
Confidence            678999999999999999999887543 233444443211 00  011110000   00100000 110  11  15566


Q ss_pred             hcCCcEEEEecCCC---CHHHHHHHhccCCCC-CCCCEEEEEeCChhhhhh
Q 048064          184 LSCRKVLIVLDDVT---CLNQIESLVGSLDRL-LPESRILITTRNKQVLRN  230 (429)
Q Consensus       184 l~~~~~LlVlDdv~---~~~~~~~l~~~l~~~-~~~~~iiiTtR~~~~~~~  230 (429)
                      +-..+-++++|+.-   +....+.+...+... ..+..||++|.+......
T Consensus        97 l~~~p~illlDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~~~~~  147 (163)
T cd03216          97 LARNARLLILDEPTAALTPAEVERLFKVIRRLRAQGVAVIFISHRLDEVFE  147 (163)
T ss_pred             HhcCCCEEEEECCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHHHH
Confidence            67788899999984   333333333333221 236678888888764443

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.

>KOG0726 consensus 26S proteasome regulatory complex, ATPase RPT2 [Posttranslational modification, protein turnover, chaperones]

Probab=96.84  E-value=0.0018  Score=58.32  Aligned_cols=47  Identities=28%  Similarity=0.464  Sum_probs=39.2

Q ss_pred             CcccchhhHHHHHHHhhc---------------CCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064           90 NELVGVESRVEEIQSLLG---------------AAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~---------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      .+.=|-+..+++|.+...               .++-|.+||++|.|||-||++++++...-
T Consensus       185 ~diGGle~QiQEiKEsvELPLthPE~YeemGikpPKGVIlyG~PGTGKTLLAKAVANqTSAT  246 (440)
T KOG0726|consen  185 ADIGGLESQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGEPGTGKTLLAKAVANQTSAT  246 (440)
T ss_pred             cccccHHHHHHHHHHhhcCCCCCHHHHHHcCCCCCCeeEEeCCCCCchhHHHHHHhcccchh
Confidence            456688999999998765               56789999999999999999999975433

>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]

Probab=96.83  E-value=0.011  Score=59.62  Aligned_cols=171  Identities=16%  Similarity=0.171  Sum_probs=94.6

Q ss_pred             CCCCcccchhhHHHHHHHhhc--------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhh
Q 048064           87 DSKNELVGVESRVEEIQSLLG--------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQK  152 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~--------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~  152 (429)
                      ....+.-|.+...+++.+.+.              -++-|.++||+|.|||.||++++....-.|-..   + .      
T Consensus       147 v~F~DVAG~dEakeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA~VPFf~i---S-G------  216 (596)
T COG0465         147 VTFADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSI---S-G------  216 (596)
T ss_pred             cChhhhcCcHHHHHHHHHHHHHHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhcccCCCceec---c-c------
Confidence            345678898888777777654              245699999999999999999998754333110   0 0      


Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCCCHHH-HHHHhcCCcEEEEecCCCCH----------------HHHHHHhccCCCCCCC
Q 048064          153 AGGLAFLQQKLLSEVLKDVNVIPHIDL-NFRRLSCRKVLIVLDDVTCL----------------NQIESLVGSLDRLLPE  215 (429)
Q Consensus       153 ~~~~~~~~~~l~~~~~~~~~~~~~~~~-l~~~l~~~~~LlVlDdv~~~----------------~~~~~l~~~l~~~~~~  215 (429)
                       .++..+    .-     .-....+.+ ..+..++-++++++|.+|..                ..+..++.....+..+
T Consensus       217 -S~FVem----fV-----GvGAsRVRdLF~qAkk~aP~IIFIDEiDAvGr~Rg~g~GggnderEQTLNQlLvEmDGF~~~  286 (596)
T COG0465         217 -SDFVEM----FV-----GVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGGN  286 (596)
T ss_pred             -hhhhhh----hc-----CCCcHHHHHHHHHhhccCCCeEEEehhhhcccccCCCCCCCchHHHHHHHHHHhhhccCCCC
Confidence             000000    00     011112222 34455667899999998532                1345555555544432


Q ss_pred             C-EEEE--EeCChhhh-----hhcCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChH
Q 048064          216 S-RILI--TTRNKQVL-----RNCHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPL  281 (429)
Q Consensus       216 ~-~iii--TtR~~~~~-----~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PL  281 (429)
                      . .|++  |.|. +++     ......+.+.++..+...-.+++.-++-.....  ...+ ...|++.+-|.-.
T Consensus       287 ~gviviaaTNRp-dVlD~ALlRpgRFDRqI~V~~PDi~gRe~IlkvH~~~~~l~--~~Vd-l~~iAr~tpGfsG  356 (596)
T COG0465         287 EGVIVIAATNRP-DVLDPALLRPGRFDRQILVELPDIKGREQILKVHAKNKPLA--EDVD-LKKIARGTPGFSG  356 (596)
T ss_pred             CceEEEecCCCc-ccchHhhcCCCCcceeeecCCcchhhHHHHHHHHhhcCCCC--CcCC-HHHHhhhCCCccc
Confidence            2 2333  4443 332     222345667788777788888887665332211  1111 2236777766543

>PF08433 KTI12: Chromatin associated protein KTI12 ; InterPro: IPR013641 This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II []

Probab=96.82  E-value=0.0025  Score=58.53  Aligned_cols=34  Identities=26%  Similarity=0.335  Sum_probs=23.6

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEE
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFL  143 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  143 (429)
                      +.|.|+|.||+||||+|+++...+.+.-..+.++
T Consensus         2 pLiil~G~P~SGKTt~a~~L~~~~~~~~~~v~~i   35 (270)
T PF08433_consen    2 PLIILCGLPCSGKTTRAKELKKYLEEKGKEVVII   35 (270)
T ss_dssp             -EEEEE--TTSSHHHHHHHHHHHHHHTT--EEEE
T ss_pred             EEEEEEcCCCCcHHHHHHHHHHHHHhcCCEEEEE
Confidence            4789999999999999999999877643333333

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>PRK10436 hypothetical protein; Provisional

Probab=96.81  E-value=0.0033  Score=62.22  Aligned_cols=100  Identities=14%  Similarity=0.137  Sum_probs=59.2

Q ss_pred             HHHHHHHhhc-CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcC-CCCCC
Q 048064           98 RVEEIQSLLG-AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKD-VNVIP  175 (429)
Q Consensus        98 ~~~~l~~~l~-~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~  175 (429)
                      .++.+.+++. ....|.|+|+.|+||||+...+...+.......+-+.+--+...  .+.        .+..-. .....
T Consensus       206 ~~~~l~~~~~~~~GliLvtGpTGSGKTTtL~a~l~~~~~~~~~i~TiEDPvE~~l--~gi--------~Q~~v~~~~g~~  275 (462)
T PRK10436        206 QLAQFRQALQQPQGLILVTGPTGSGKTVTLYSALQTLNTAQINICSVEDPVEIPL--AGI--------NQTQIHPKAGLT  275 (462)
T ss_pred             HHHHHHHHHHhcCCeEEEECCCCCChHHHHHHHHHhhCCCCCEEEEecCCccccC--CCc--------ceEeeCCccCcC
Confidence            3445555555 77899999999999999887777765433222333322111100  000        011001 11222


Q ss_pred             CHHHHHHHhcCCcEEEEecCCCCHHHHHHHhc
Q 048064          176 HIDLNFRRLSCRKVLIVLDDVTCLNQIESLVG  207 (429)
Q Consensus       176 ~~~~l~~~l~~~~~LlVlDdv~~~~~~~~l~~  207 (429)
                      -...++..|+..+=+|++.++.+.+.....+.
T Consensus       276 f~~~lr~~LR~dPDvI~vGEIRD~eta~~al~  307 (462)
T PRK10436        276 FQRVLRALLRQDPDVIMVGEIRDGETAEIAIK  307 (462)
T ss_pred             HHHHHHHHhcCCCCEEEECCCCCHHHHHHHHH
Confidence            33448888999999999999998887664443

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

Probab=96.80  E-value=0.0023  Score=55.62  Aligned_cols=98  Identities=18%  Similarity=0.139  Sum_probs=52.4

Q ss_pred             HHHhhcCCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcC--CCCCCCHHH
Q 048064          102 IQSLLGAAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKD--VNVIPHIDL  179 (429)
Q Consensus       102 l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~~  179 (429)
                      |...+.....++|+|+.|+||||+++.++..+... ...+.+.+..+.........    .+..+....  .......+.
T Consensus        18 l~~~v~~g~~i~I~G~tGSGKTTll~aL~~~i~~~-~~~i~ied~~E~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~   92 (186)
T cd01130          18 LWLAVEARKNILISGGTGSGKTTLLNALLAFIPPD-ERIITIEDTAELQLPHPNWV----RLVTRPGNVEGSGEVTMADL   92 (186)
T ss_pred             HHHHHhCCCEEEEECCCCCCHHHHHHHHHhhcCCC-CCEEEECCccccCCCCCCEE----EEEEecCCCCCCCccCHHHH
Confidence            33344478899999999999999999988866432 22333322211100000000    000000000  011122233


Q ss_pred             HHHHhcCCcEEEEecCCCCHHHHHH
Q 048064          180 NFRRLSCRKVLIVLDDVTCLNQIES  204 (429)
Q Consensus       180 l~~~l~~~~~LlVlDdv~~~~~~~~  204 (429)
                      +...++..+-.++++++.+.+.+..
T Consensus        93 l~~~lR~~pd~i~igEir~~ea~~~  117 (186)
T cd01130          93 LRSALRMRPDRIIVGEVRGGEALDL  117 (186)
T ss_pred             HHHHhccCCCEEEEEccCcHHHHHH
Confidence            5666777888999999988776543

The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.

>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=96.80  E-value=0.0071  Score=51.90  Aligned_cols=116  Identities=17%  Similarity=0.148  Sum_probs=59.8

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeec--hhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhc
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENI--REESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLS  185 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~--~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~  185 (429)
                      ...+++|.|+.|.|||||++.++.-... ....+.+...  ..... ...+..-+              ...-.+.+.+.
T Consensus        24 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p-~~G~i~~~g~~i~~~~q-~~~LSgGq--------------~qrv~laral~   87 (177)
T cd03222          24 EGEVIGIVGPNGTGKTTAVKILAGQLIP-NGDNDEWDGITPVYKPQ-YIDLSGGE--------------LQRVAIAAALL   87 (177)
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcCCCC-CCcEEEECCEEEEEEcc-cCCCCHHH--------------HHHHHHHHHHh
Confidence            6779999999999999999988875432 2233333210  00000 00000000              00111555666


Q ss_pred             CCcEEEEecCCC---CHHHHHHHhccCCCC--CCCCEEEEEeCChhhhhhcCCCeEEEcC
Q 048064          186 CRKVLIVLDDVT---CLNQIESLVGSLDRL--LPESRILITTRNKQVLRNCHINQIYEMK  240 (429)
Q Consensus       186 ~~~~LlVlDdv~---~~~~~~~l~~~l~~~--~~~~~iiiTtR~~~~~~~~~~~~~~~l~  240 (429)
                      .++-++++|+--   +....+.+...+...  ..+..||++|.+......+ ...++.+.
T Consensus        88 ~~p~lllLDEPts~LD~~~~~~l~~~l~~~~~~~~~tiiivsH~~~~~~~~-~d~i~~l~  146 (177)
T cd03222          88 RNATFYLFDEPSAYLDIEQRLNAARAIRRLSEEGKKTALVVEHDLAVLDYL-SDRIHVFE  146 (177)
T ss_pred             cCCCEEEEECCcccCCHHHHHHHHHHHHHHHHcCCCEEEEEECCHHHHHHh-CCEEEEEc
Confidence            778899999983   333333333222211  1235677777776555443 23444443

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.

>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB

Probab=96.78  E-value=0.0053  Score=57.42  Aligned_cols=96  Identities=21%  Similarity=0.212  Sum_probs=56.6

Q ss_pred             HHHHhhcCCCEEEEEcCCCcchHHHHHHHHHHhhcCc--ceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCH-
Q 048064          101 EIQSLLGAAPLLGIWGIGGIGKTTIARVIFNRISRNF--KGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHI-  177 (429)
Q Consensus       101 ~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f--~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~-  177 (429)
                      .|..++.....+.|+|++|+||||+++.++..+....  ...+.+.+..+......+..        .+. ........ 
T Consensus       124 ~L~~~v~~~~~ilI~G~tGSGKTTll~al~~~i~~~~~~~ri~tiEd~~El~~~~~~~v--------~~~-~~~~~~~~~  194 (299)
T TIGR02782       124 VLREAVLARKNILVVGGTGSGKTTLANALLAEIAKNDPTDRVVIIEDTRELQCAAPNVV--------QLR-TSDDAISMT  194 (299)
T ss_pred             HHHHHHHcCCeEEEECCCCCCHHHHHHHHHHHhhccCCCceEEEECCchhhcCCCCCEE--------EEE-ecCCCCCHH
Confidence            3444444677899999999999999999998875532  23333333322211000000        000 01111123 


Q ss_pred             HHHHHHhcCCcEEEEecCCCCHHHHHHH
Q 048064          178 DLNFRRLSCRKVLIVLDDVTCLNQIESL  205 (429)
Q Consensus       178 ~~l~~~l~~~~~LlVlDdv~~~~~~~~l  205 (429)
                      +.+...|+..+=.||+.++...+.+..+
T Consensus       195 ~~l~~aLR~~pD~iivGEiR~~ea~~~l  222 (299)
T TIGR02782       195 RLLKATLRLRPDRIIVGEVRGGEALDLL  222 (299)
T ss_pred             HHHHHHhcCCCCEEEEeccCCHHHHHHH
Confidence            3377778888889999999888765543

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.

>cd01394 radB RadB

Probab=96.78  E-value=0.0029  Score=56.50  Aligned_cols=44  Identities=25%  Similarity=0.410  Sum_probs=33.4

Q ss_pred             HHHHhhc----CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEe
Q 048064          101 EIQSLLG----AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLE  144 (429)
Q Consensus       101 ~l~~~l~----~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  144 (429)
                      .|..+|.    ...++.|+|++|+||||+|.+++.....+-..++|+.
T Consensus         7 ~LD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi~   54 (218)
T cd01394           7 GLDELLGGGVERGTVTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYID   54 (218)
T ss_pred             HHHHHhcCCccCCeEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            3444554    5778999999999999999999998765545556664

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

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

Probab=96.77  E-value=0.0013  Score=46.85  Aligned_cols=23  Identities=30%  Similarity=0.579  Sum_probs=21.2

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHh
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      +++|.|++|+||||+++.+.+.+
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999999986

Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.

>PRK06762 hypothetical protein; Provisional

Probab=96.77  E-value=0.0012  Score=56.10  Aligned_cols=25  Identities=44%  Similarity=0.606  Sum_probs=23.0

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      +.+|.|+|++|+||||+|+.+++++
T Consensus         2 ~~li~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          2 TTLIIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999999887

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=96.76  E-value=0.0014  Score=58.20  Aligned_cols=23  Identities=17%  Similarity=0.218  Sum_probs=20.9

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHH
Q 048064          109 APLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      .+.+.|+|+.|.|||||.+.++.
T Consensus        29 ~~~~~itGpNg~GKStlLk~i~~   51 (213)
T cd03281          29 PSIMVITGPNSSGKSVYLKQVAL   51 (213)
T ss_pred             ceEEEEECCCCCChHHHHHHHHH
Confidence            38899999999999999999875

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

>PRK10867 signal recognition particle protein; Provisional

Probab=96.76  E-value=0.059  Score=52.91  Aligned_cols=28  Identities=25%  Similarity=0.423  Sum_probs=24.7

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      +.++.++|++|+||||++..++..+...
T Consensus       100 p~vI~~vG~~GsGKTTtaakLA~~l~~~  127 (433)
T PRK10867        100 PTVIMMVGLQGAGKTTTAGKLAKYLKKK  127 (433)
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHHHHh
Confidence            5789999999999999999999877655

>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=96.74  E-value=0.0049  Score=60.27  Aligned_cols=113  Identities=16%  Similarity=0.146  Sum_probs=67.7

Q ss_pred             hHHHHHHHhhc-CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCC
Q 048064           97 SRVEEIQSLLG-AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIP  175 (429)
Q Consensus        97 ~~~~~l~~~l~-~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  175 (429)
                      ...+.+.+++. ...++.+.||.|+||||..-.+...+......++-+.+--+..  ..++.       .--.+..-...
T Consensus       245 ~~~~~~~~~~~~p~GliLvTGPTGSGKTTTLY~~L~~ln~~~~nI~TiEDPVE~~--~~gI~-------Q~qVN~k~glt  315 (500)
T COG2804         245 FQLARLLRLLNRPQGLILVTGPTGSGKTTTLYAALSELNTPERNIITIEDPVEYQ--LPGIN-------QVQVNPKIGLT  315 (500)
T ss_pred             HHHHHHHHHHhCCCeEEEEeCCCCCCHHHHHHHHHHHhcCCCceEEEeeCCeeee--cCCcc-------eeecccccCCC
Confidence            33455555665 7889999999999999999888887765555444433211110  00111       00011112222


Q ss_pred             CHHHHHHHhcCCcEEEEecCCCCHHHHHHHhccCCCCCCCCEEEEEe
Q 048064          176 HIDLNFRRLSCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITT  222 (429)
Q Consensus       176 ~~~~l~~~l~~~~~LlVlDdv~~~~~~~~l~~~l~~~~~~~~iiiTt  222 (429)
                      -...++..|++.|=+|.+.++.+.+..+-....-    --++.++||
T Consensus       316 fa~~LRa~LRqDPDvImVGEIRD~ETAeiavqAa----lTGHLVlST  358 (500)
T COG2804         316 FARALRAILRQDPDVIMVGEIRDLETAEIAVQAA----LTGHLVLST  358 (500)
T ss_pred             HHHHHHHHhccCCCeEEEeccCCHHHHHHHHHHH----hcCCeEeee
Confidence            3344888899999999999999888665544431    123455555

>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR

Probab=96.74  E-value=0.011  Score=59.68  Aligned_cols=45  Identities=24%  Similarity=0.446  Sum_probs=38.4

Q ss_pred             CCcccchhhHHHHHHHhhc----CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064           89 KNELVGVESRVEEIQSLLG----AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~----~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ...++|....++++.+.+.    ....|.|.|++|+||+.+|+.+.+.-
T Consensus       211 f~~iiG~S~~m~~~~~~i~~~A~~~~pVLI~GE~GTGKe~lA~~IH~~S  259 (526)
T TIGR02329       211 LDDLLGASAPMEQVRALVRLYARSDATVLILGESGTGKELVAQAIHQLS  259 (526)
T ss_pred             hhheeeCCHHHHHHHHHHHHHhCCCCcEEEECCCCcCHHHHHHHHHHhc
Confidence            3459999999998888775    66789999999999999999988753

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.

>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ

Probab=96.72  E-value=0.0066  Score=58.34  Aligned_cols=95  Identities=20%  Similarity=0.138  Sum_probs=55.8

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcc--eeEEEeechhhhhhcCCHHHHHHHHHHHHhcC-CCCCCCH-HHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFK--GSCFLENIREESQKAGGLAFLQQKLLSEVLKD-VNVIPHI-DLNFRR  183 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~--~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~-~~l~~~  183 (429)
                      ....+.|+|+.|+||||++..+.+.+....+  ..+.+.+..+...  .....+..  ..+  .+ ....... +.++..
T Consensus       148 ~~GlilI~G~TGSGKTT~l~al~~~i~~~~~~~~IvtiEdp~E~~~--~~~~~~~~--~~q--~evg~~~~~~~~~l~~a  221 (372)
T TIGR02525       148 AAGLGLICGETGSGKSTLAASIYQHCGETYPDRKIVTYEDPIEYIL--GSPDDLLP--PAQ--SQIGRDVDSFANGIRLA  221 (372)
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEecCchhcc--CCCceeec--ccc--cccCCCccCHHHHHHHh
Confidence            6678999999999999999999887754332  2333322222110  00000000  000  01 1112223 347788


Q ss_pred             hcCCcEEEEecCCCCHHHHHHHhcc
Q 048064          184 LSCRKVLIVLDDVTCLNQIESLVGS  208 (429)
Q Consensus       184 l~~~~~LlVlDdv~~~~~~~~l~~~  208 (429)
                      |+..+-.|+++++.+.+..+..+..
T Consensus       222 LR~~PD~I~vGEiRd~et~~~al~a  246 (372)
T TIGR02525       222 LRRAPKIIGVGEIRDLETFQAAVLA  246 (372)
T ss_pred             hccCCCEEeeCCCCCHHHHHHHHHH
Confidence            8999999999999988877754443

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).

>PTZ00301 uridine kinase; Provisional

Probab=96.72  E-value=0.0014  Score=57.76  Aligned_cols=28  Identities=25%  Similarity=0.539  Sum_probs=24.2

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ..+|+|.|++|+||||||+.+.+++...
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~~l~~~   30 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVSELMAH   30 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHHHHHhh
Confidence            4589999999999999999998887543

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=96.71  E-value=0.022  Score=51.53  Aligned_cols=24  Identities=21%  Similarity=0.376  Sum_probs=21.2

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHhh
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      +..|+|++|+|||+|+..++..+.
T Consensus         3 ~~ll~g~~G~GKS~lal~la~~va   26 (239)
T cd01125           3 VSALVAPGGTGKSSLLLVLALAMA   26 (239)
T ss_pred             eeEEEcCCCCCHHHHHHHHHHHHh
Confidence            567999999999999999998754

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.

>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=96.71  E-value=0.0081  Score=51.45  Aligned_cols=125  Identities=19%  Similarity=0.219  Sum_probs=62.6

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCC---------CC--C
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNV---------IP--H  176 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~---------~~--~  176 (429)
                      ...+++|.|+.|.|||||.+.++.... .....+.+.... ..  ........+.+. ........         .+  .
T Consensus        27 ~Ge~~~i~G~nGsGKStLl~~l~G~~~-~~~G~i~~~g~~-~~--~~~~~~~~~~i~-~~~q~~~~~~~tv~~~lLS~G~  101 (173)
T cd03246          27 PGESLAIIGPSGSGKSTLARLILGLLR-PTSGRVRLDGAD-IS--QWDPNELGDHVG-YLPQDDELFSGSIAENILSGGQ  101 (173)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhccC-CCCCeEEECCEE-cc--cCCHHHHHhheE-EECCCCccccCcHHHHCcCHHH
Confidence            677999999999999999999987543 223334432110 00  001111111000 00000000         00  0


Q ss_pred             HH--HHHHHhcCCcEEEEecCCC---CHHHHHHHhccCCCC-CCCCEEEEEeCChhhhhhcCCCeEEEc
Q 048064          177 ID--LNFRRLSCRKVLIVLDDVT---CLNQIESLVGSLDRL-LPESRILITTRNKQVLRNCHINQIYEM  239 (429)
Q Consensus       177 ~~--~l~~~l~~~~~LlVlDdv~---~~~~~~~l~~~l~~~-~~~~~iiiTtR~~~~~~~~~~~~~~~l  239 (429)
                      .+  .+.+.+-.++-++++|+..   +......+...+... ..+..||++|.+..... . ..+++.+
T Consensus       102 ~qrv~la~al~~~p~~lllDEPt~~LD~~~~~~l~~~l~~~~~~~~tii~~sh~~~~~~-~-~d~v~~l  168 (173)
T cd03246         102 RQRLGLARALYGNPRILVLDEPNSHLDVEGERALNQAIAALKAAGATRIVIAHRPETLA-S-ADRILVL  168 (173)
T ss_pred             HHHHHHHHHHhcCCCEEEEECCccccCHHHHHHHHHHHHHHHhCCCEEEEEeCCHHHHH-h-CCEEEEE
Confidence            01  1555666778899999984   333333333322211 23667888887776554 2 4455544

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

>PTZ00494 tuzin-like protein; Provisional

Probab=96.71  E-value=0.52  Score=45.87  Aligned_cols=157  Identities=12%  Similarity=0.067  Sum_probs=88.4

Q ss_pred             CCCCcccchhhHHHHHHHhhc-----CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG-----AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQ  161 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~-----~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~  161 (429)
                      .....+|.|+.+-+.+.+.|.     .++++.+.|.-|+|||+|++....+   .....+++. ++..   ++.+..+. 
T Consensus       368 a~~~~~V~R~~eE~~vRqvL~qld~aHPRIvV~TG~~GcGKSslcRsAvrk---E~~paV~VD-VRg~---EDtLrsVV-  439 (664)
T PTZ00494        368 AAEAFEVRREDEEALVRSVLTQMAPSHPRIVALAGGSGGGRCVPCRRAVRV---EGVALVHVD-VGGT---EDTLRSVV-  439 (664)
T ss_pred             cccccccchhhHHHHHHHHHhhccCCCCcEEEEecCCCCCchHHHHHHHHH---cCCCeEEEE-ecCC---cchHHHHH-
Confidence            556789999999888877775     8999999999999999999887654   223345554 3322   33344333 


Q ss_pred             HHHHHHhcCCCCC--CCHH---H----HHHHhcCCcEEEEec--CCCCHHH-HHHHhccCCCCCCCCEEEEEeCChhhhh
Q 048064          162 KLLSEVLKDVNVI--PHID---L----NFRRLSCRKVLIVLD--DVTCLNQ-IESLVGSLDRLLPESRILITTRNKQVLR  229 (429)
Q Consensus       162 ~l~~~~~~~~~~~--~~~~---~----l~~~l~~~~~LlVlD--dv~~~~~-~~~l~~~l~~~~~~~~iiiTtR~~~~~~  229 (429)
                         ..++-...+.  +.++   +    -.....++.-+||+-  +=.+..- ..+.. .|..-..-|+|++---.+.+-.
T Consensus       440 ---KALgV~nve~CGDlLdFI~ea~~~A~~~~~g~~P~lVlkLREGssL~RVYnE~v-aLacDrRlCHvv~EVplESLT~  515 (664)
T PTZ00494        440 ---RALGVSNVEVCGDLLGFVEEAMRGATVKASDGVPFLVMRLREGSDLGRVYGEVV-SLVSDCQACHIVLAVPMKALTP  515 (664)
T ss_pred             ---HHhCCCChhhhccHHHHHHHHHHHHHHhcCCCCCEEEEEeccCCcHHHHHHHHH-HHHccchhheeeeechHhhhch
Confidence               3333321111  1111   1    122234555566653  2223321 11111 1111134567777544332211


Q ss_pred             ---hcCCCeEEEcCCCCHHHHHHHHHHhh
Q 048064          230 ---NCHINQIYEMKGLGDDHALELFIRHA  255 (429)
Q Consensus       230 ---~~~~~~~~~l~~L~~~ea~~L~~~~~  255 (429)
                         .+..-..|.+++++.++|.++.+...
T Consensus       516 ~n~~LPRLDFy~VPnFSr~QAf~YtqH~l  544 (664)
T PTZ00494        516 LNVSSRRLDFYCIPPFSRRQAFAYAEHTL  544 (664)
T ss_pred             hhccCccceeEecCCcCHHHHHHHHhccc
Confidence               12234678899999999999886654

>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]

Probab=96.70  E-value=0.0066  Score=63.88  Aligned_cols=125  Identities=16%  Similarity=0.214  Sum_probs=70.3

Q ss_pred             hhHHHHHHHhhcCCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCC--
Q 048064           96 ESRVEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNV--  173 (429)
Q Consensus        96 ~~~~~~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~--  173 (429)
                      .....+|.+.+...+++.|+|++|+||||-.-+++....-.....+-+..-+...     ...++..+...++.....  
T Consensus        52 ~~~~~~i~~ai~~~~vvii~getGsGKTTqlP~~lle~g~~~~g~I~~tQPRRlA-----ArsvA~RvAeel~~~~G~~V  126 (845)
T COG1643          52 TAVRDEILKAIEQNQVVIIVGETGSGKTTQLPQFLLEEGLGIAGKIGCTQPRRLA-----ARSVAERVAEELGEKLGETV  126 (845)
T ss_pred             HHHHHHHHHHHHhCCEEEEeCCCCCChHHHHHHHHHhhhcccCCeEEecCchHHH-----HHHHHHHHHHHhCCCcCcee
Confidence            3556777777778999999999999999998888876433223344443333322     233444444444432110  


Q ss_pred             ---------C---CCH-----HHHHHHhcCCc-----EEEEecCCCCHH-HHHHHhcc----CCCCCCCCEEEEEeCCh
Q 048064          174 ---------I---PHI-----DLNFRRLSCRK-----VLIVLDDVTCLN-QIESLVGS----LDRLLPESRILITTRNK  225 (429)
Q Consensus       174 ---------~---~~~-----~~l~~~l~~~~-----~LlVlDdv~~~~-~~~~l~~~----l~~~~~~~~iiiTtR~~  225 (429)
                               .   ..+     ..+.+.+.+.+     -.+|+|++++-. +.+-++..    +....+..||||+|=+-
T Consensus       127 GY~iRfe~~~s~~Trik~mTdGiLlrei~~D~~Ls~ys~vIiDEaHERSl~tDilLgllk~~~~~rr~DLKiIimSATl  205 (845)
T COG1643         127 GYSIRFESKVSPRTRIKVMTDGILLREIQNDPLLSGYSVVIIDEAHERSLNTDILLGLLKDLLARRRDDLKLIIMSATL  205 (845)
T ss_pred             eEEEEeeccCCCCceeEEeccHHHHHHHhhCcccccCCEEEEcchhhhhHHHHHHHHHHHHHHhhcCCCceEEEEeccc
Confidence                     0   011     11555554333     479999998543 22222222    22223358999988543

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=96.70  E-value=0.0024  Score=56.52  Aligned_cols=37  Identities=24%  Similarity=0.409  Sum_probs=30.9

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEe
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLE  144 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  144 (429)
                      ..+++.|+|++|+|||+++.+++.........++|+.
T Consensus        11 ~g~i~~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~   47 (209)
T TIGR02237        11 RGTITQIYGPPGSGKTNICMILAVNAARQGKKVVYID   47 (209)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEE
Confidence            4678999999999999999999988766655667665

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

>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=96.70  E-value=0.015  Score=52.97  Aligned_cols=93  Identities=13%  Similarity=0.179  Sum_probs=59.2

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHH---HHHHHHhcCCCCCCCHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQ---KLLSEVLKDVNVIPHIDLNFRRL  184 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~---~l~~~~~~~~~~~~~~~~l~~~l  184 (429)
                      ....|.|.|+.|+||||....+.+.+-++++..+...        .+.++.+-+   .+..+-.-.....+-.+.|+..|
T Consensus       124 ~~GLILVTGpTGSGKSTTlAamId~iN~~~~~HIlTI--------EDPIE~vh~skkslI~QREvG~dT~sF~~aLraAL  195 (353)
T COG2805         124 PRGLILVTGPTGSGKSTTLAAMIDYINKHKAKHILTI--------EDPIEYVHESKKSLINQREVGRDTLSFANALRAAL  195 (353)
T ss_pred             CCceEEEeCCCCCcHHHHHHHHHHHHhccCCcceEEe--------cCchHhhhcchHhhhhHHHhcccHHHHHHHHHHHh
Confidence            7789999999999999887778877766666555433        222222211   12111111111122234488999


Q ss_pred             cCCcEEEEecCCCCHHHHHHHhcc
Q 048064          185 SCRKVLIVLDDVTCLNQIESLVGS  208 (429)
Q Consensus       185 ~~~~~LlVlDdv~~~~~~~~l~~~  208 (429)
                      +.-|=+|++-++.+.+.+..-+..
T Consensus       196 ReDPDVIlvGEmRD~ETi~~ALtA  219 (353)
T COG2805         196 REDPDVILVGEMRDLETIRLALTA  219 (353)
T ss_pred             hcCCCEEEEeccccHHHHHHHHHH
Confidence            999999999999988877655443

>PRK08233 hypothetical protein; Provisional

Probab=96.68  E-value=0.0015  Score=56.46  Aligned_cols=26  Identities=23%  Similarity=0.450  Sum_probs=23.1

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ..+|+|.|++|+||||||..++..+.
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~l~   28 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHKLK   28 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhCC
Confidence            46899999999999999999998764

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=96.67  E-value=0.02  Score=52.93  Aligned_cols=37  Identities=19%  Similarity=0.077  Sum_probs=29.2

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcC-cceeEEEe
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRN-FKGSCFLE  144 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-f~~~~~~~  144 (429)
                      ...++.|.|++|+||||++.+++.....+ -..++|++
T Consensus        29 ~g~~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS   66 (271)
T cd01122          29 KGELIILTAGTGVGKTTFLREYALDLITQHGVRVGTIS   66 (271)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEE
Confidence            56799999999999999999999886544 34455554

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated

Probab=96.67  E-value=0.0074  Score=51.90  Aligned_cols=115  Identities=22%  Similarity=0.109  Sum_probs=62.5

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHH-----hcC--CCCCCC----
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEV-----LKD--VNVIPH----  176 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~-----~~~--~~~~~~----  176 (429)
                      ....|.|+|..|-||||.|...+.+...+-..+.++--+....  ..+-....+.+. .+     +..  ......    
T Consensus        21 ~~g~v~v~~g~GkGKtt~a~g~a~ra~g~G~~V~ivQFlKg~~--~~GE~~~l~~l~-~v~~~~~g~~~~~~~~~~~e~~   97 (191)
T PRK05986         21 EKGLLIVHTGNGKGKSTAAFGMALRAVGHGKKVGVVQFIKGAW--STGERNLLEFGG-GVEFHVMGTGFTWETQDRERDI   97 (191)
T ss_pred             cCCeEEEECCCCCChHHHHHHHHHHHHHCCCeEEEEEEecCCC--ccCHHHHHhcCC-CcEEEECCCCCcccCCCcHHHH
Confidence            4578999999999999999999988765544443333232210  112222222210 00     000  000000    


Q ss_pred             ------HHHHHHHhcC-CcEEEEecCCCCH-----HHHHHHhccCCCCCCCCEEEEEeCCh
Q 048064          177 ------IDLNFRRLSC-RKVLIVLDDVTCL-----NQIESLVGSLDRLLPESRILITTRNK  225 (429)
Q Consensus       177 ------~~~l~~~l~~-~~~LlVlDdv~~~-----~~~~~l~~~l~~~~~~~~iiiTtR~~  225 (429)
                            ++...+.+.. .--+||||++-..     -..+++...+...+++..||+|-|+.
T Consensus        98 ~~~~~~~~~a~~~l~~~~ydlvVLDEi~~Al~~gli~~eevi~~L~~rp~~~evVlTGR~~  158 (191)
T PRK05986         98 AAAREGWEEAKRMLADESYDLVVLDELTYALKYGYLDVEEVLEALNARPGMQHVVITGRGA  158 (191)
T ss_pred             HHHHHHHHHHHHHHhCCCCCEEEEehhhHHHHCCCccHHHHHHHHHcCCCCCEEEEECCCC
Confidence                  1113334444 4459999999322     22344555555556778999999976

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=96.67  E-value=0.004  Score=64.05  Aligned_cols=60  Identities=18%  Similarity=0.263  Sum_probs=47.5

Q ss_pred             CCCCcccchhhHHHHHHHhhcCCCEEEEEcCCCcchHHHHHHHHHHhhcC-cceeEEEeec
Q 048064           87 DSKNELVGVESRVEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFNRISRN-FKGSCFLENI  146 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-f~~~~~~~~~  146 (429)
                      .....++|.++.++.+...+...+.+.++|++|+||||+|+.+++.+... |...+++.+.
T Consensus        15 ~~~~~viG~~~a~~~l~~a~~~~~~~ll~G~pG~GKT~la~~la~~l~~~~~~~~~~~~n~   75 (608)
T TIGR00764        15 RLIDQVIGQEEAVEIIKKAAKQKRNVLLIGEPGVGKSMLAKAMAELLPDEELEDILVYPNP   75 (608)
T ss_pred             hhHhhccCHHHHHHHHHHHHHcCCCEEEECCCCCCHHHHHHHHHHHcCchhheeEEEEeCC
Confidence            44578999999999888888866788899999999999999999987554 3444455444

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

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=96.66  E-value=0.0031  Score=64.75  Aligned_cols=59  Identities=19%  Similarity=0.296  Sum_probs=48.5

Q ss_pred             CCCCcccchhhHHHHHHHhhcCCCEEEEEcCCCcchHHHHHHHHHHhhcC-cceeEEEee
Q 048064           87 DSKNELVGVESRVEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFNRISRN-FKGSCFLEN  145 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-f~~~~~~~~  145 (429)
                      .....++|.++.++.|...+...+.+.++|++|+||||+|+.+++.+... +...+|..+
T Consensus        28 ~~~~~vigq~~a~~~L~~~~~~~~~~l~~G~~G~GKttla~~l~~~l~~~~~~~~~~~~n   87 (637)
T PRK13765         28 RLIDQVIGQEHAVEVIKKAAKQRRHVMMIGSPGTGKSMLAKAMAELLPKEELQDILVYPN   87 (637)
T ss_pred             ccHHHcCChHHHHHHHHHHHHhCCeEEEECCCCCcHHHHHHHHHHHcChHhHHHheEeeC
Confidence            55678999999999999888866789999999999999999999876433 355666665

>PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model

Probab=96.66  E-value=0.0014  Score=52.11  Aligned_cols=29  Identities=31%  Similarity=0.534  Sum_probs=21.0

Q ss_pred             EEEEcCCCcchHHHHHHHHHHhhcCccee
Q 048064          112 LGIWGIGGIGKTTIARVIFNRISRNFKGS  140 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~~~~~~f~~~  140 (429)
                      |.|.|.+|+||||+|+.++..+...|..+
T Consensus         2 vLleg~PG~GKT~la~~lA~~~~~~f~RI   30 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKALARSLGLSFKRI   30 (131)
T ss_dssp             EEEES---HHHHHHHHHHHHHTT--EEEE
T ss_pred             EeeECCCccHHHHHHHHHHHHcCCceeEE
Confidence            78999999999999999999887777543

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.

>PRK07276 DNA polymerase III subunit delta'; Validated

Probab=96.65  E-value=0.086  Score=48.84  Aligned_cols=91  Identities=15%  Similarity=0.247  Sum_probs=56.6

Q ss_pred             CCcEEEEecCCCC--HHHHHHHhccCCCCCCCCEEEEEeCCh-hhhhhc-CCCeEEEcCCCCHHHHHHHHHHhhhcCCCC
Q 048064          186 CRKVLIVLDDVTC--LNQIESLVGSLDRLLPESRILITTRNK-QVLRNC-HINQIYEMKGLGDDHALELFIRHAFRQNLV  261 (429)
Q Consensus       186 ~~~~LlVlDdv~~--~~~~~~l~~~l~~~~~~~~iiiTtR~~-~~~~~~-~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~  261 (429)
                      +++-++|||+++.  ......|+..+...++++.+|++|.+. .+++.+ +....+++.+ +.++..+++....     .
T Consensus       103 ~~~kV~II~~ad~m~~~AaNaLLKtLEEPp~~t~~iL~t~~~~~lLpTI~SRcq~i~f~~-~~~~~~~~L~~~g-----~  176 (290)
T PRK07276        103 GKQQVFIIKDADKMHVNAANSLLKVIEEPQSEIYIFLLTNDENKVLPTIKSRTQIFHFPK-NEAYLIQLLEQKG-----L  176 (290)
T ss_pred             CCcEEEEeehhhhcCHHHHHHHHHHhcCCCCCeEEEEEECChhhCchHHHHcceeeeCCC-cHHHHHHHHHHcC-----C
Confidence            3556999999984  457888999888777777777666554 455443 3456778876 7777777775432     1


Q ss_pred             ChhHHHHHHHHHHHhCCChHHHHHH
Q 048064          262 DVDYKELSDKVINYAQGVPLALKIL  286 (429)
Q Consensus       262 ~~~~~~~~~~i~~~~~G~PLai~~~  286 (429)
                      .   .+.+ +++..+.|.|-....+
T Consensus       177 ~---~~~a-~~la~~~~s~~~A~~l  197 (290)
T PRK07276        177 L---KTQA-ELLAKLAQSTSEAEKL  197 (290)
T ss_pred             C---hHHH-HHHHHHCCCHHHHHHH
Confidence            1   1122 3455556677544433

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=96.65  E-value=0.0037  Score=56.05  Aligned_cols=37  Identities=24%  Similarity=0.364  Sum_probs=30.8

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEe
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLE  144 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  144 (429)
                      ...++.|+|++|+|||++|.+++.........++|+.
T Consensus        22 ~g~i~~i~G~~GsGKT~l~~~la~~~~~~~~~v~yi~   58 (225)
T PRK09361         22 RGTITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYID   58 (225)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEE
Confidence            5678999999999999999999998766655666665

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=96.64  E-value=0.016  Score=54.68  Aligned_cols=29  Identities=21%  Similarity=0.360  Sum_probs=25.5

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      .+.+++++|++|+||||++..++..+...
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~~l~~~  141 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAHKYKAQ  141 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhc
Confidence            35789999999999999999999987654

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

Probab=96.62  E-value=0.02  Score=48.95  Aligned_cols=26  Identities=27%  Similarity=0.448  Sum_probs=23.3

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ++.+.|++|+||||++..++..+.+.
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~~~~~   27 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALYLKKK   27 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            57899999999999999999887665

SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.

>KOG0742 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.62  E-value=0.015  Score=55.00  Aligned_cols=29  Identities=24%  Similarity=0.276  Sum_probs=24.8

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ..+-|..|||||.|||-.|++++.+-.-+
T Consensus       383 pfRNilfyGPPGTGKTm~ArelAr~SGlD  411 (630)
T KOG0742|consen  383 PFRNILFYGPPGTGKTMFARELARHSGLD  411 (630)
T ss_pred             hhhheeeeCCCCCCchHHHHHHHhhcCCc
Confidence            56789999999999999999999875433

>KOG0740 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.62  E-value=0.08  Score=51.27  Aligned_cols=27  Identities=30%  Similarity=0.377  Sum_probs=23.2

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ..+-+.+.|++|.|||-|++.++-+..
T Consensus       185 p~rglLLfGPpgtGKtmL~~aiAsE~~  211 (428)
T KOG0740|consen  185 PVRGLLLFGPPGTGKTMLAKAIATESG  211 (428)
T ss_pred             ccchhheecCCCCchHHHHHHHHhhhc
Confidence            455678999999999999999998764

>PRK15115 response regulator GlrR; Provisional

Probab=96.61  E-value=0.12  Score=51.54  Aligned_cols=44  Identities=20%  Similarity=0.200  Sum_probs=34.5

Q ss_pred             CcccchhhHHHHHHHhhc----CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064           90 NELVGVESRVEEIQSLLG----AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~----~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ..++|....+.++.+...    ....+.|.|.+|+|||++|+.+.+..
T Consensus       134 ~~lig~s~~~~~~~~~~~~~a~~~~~vli~Ge~GtGk~~lA~~ih~~s  181 (444)
T PRK15115        134 EAIVTRSPLMLRLLEQARMVAQSDVSVLINGQSGTGKEILAQAIHNAS  181 (444)
T ss_pred             hcccccCHHHHHHHHHHHhhccCCCeEEEEcCCcchHHHHHHHHHHhc
Confidence            458888887777666543    55678899999999999999887754

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

Probab=96.61  E-value=0.0093  Score=53.76  Aligned_cols=122  Identities=22%  Similarity=0.209  Sum_probs=67.2

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCC-------CCC--CCHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDV-------NVI--PHID  178 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-------~~~--~~~~  178 (429)
                      ...+++|+|.+|+||||+++.+..-..-- ...+++..-.-.............+++...+...       ...  .+.+
T Consensus        38 ~ge~~glVGESG~GKSTlgr~i~~L~~pt-~G~i~f~g~~i~~~~~~~~~~~v~elL~~Vgl~~~~~~ryPhelSGGQrQ  116 (268)
T COG4608          38 EGETLGLVGESGCGKSTLGRLILGLEEPT-SGEILFEGKDITKLSKEERRERVLELLEKVGLPEEFLYRYPHELSGGQRQ  116 (268)
T ss_pred             CCCEEEEEecCCCCHHHHHHHHHcCcCCC-CceEEEcCcchhhcchhHHHHHHHHHHHHhCCCHHHhhcCCcccCchhhh
Confidence            67899999999999999999988754322 3334443111000001122233444444433211       011  1111


Q ss_pred             H--HHHHhcCCcEEEEecCCCCH------HHHHHHhccCCCCCCCCEEEEEeCChhhhhhc
Q 048064          179 L--NFRRLSCRKVLIVLDDVTCL------NQIESLVGSLDRLLPESRILITTRNKQVLRNC  231 (429)
Q Consensus       179 ~--l~~~l~~~~~LlVlDdv~~~------~~~~~l~~~l~~~~~~~~iiiTtR~~~~~~~~  231 (429)
                      .  +.+.+.-++-++|.|+.-+.      .+.-.++..+.. ..|...++.|-+-.+...+
T Consensus       117 Ri~IARALal~P~liV~DEpvSaLDvSiqaqIlnLL~dlq~-~~~lt~lFIsHDL~vv~~i  176 (268)
T COG4608         117 RIGIARALALNPKLIVADEPVSALDVSVQAQILNLLKDLQE-ELGLTYLFISHDLSVVRYI  176 (268)
T ss_pred             hHHHHHHHhhCCcEEEecCchhhcchhHHHHHHHHHHHHHH-HhCCeEEEEEEEHHhhhhh
Confidence            1  77788889999999998422      233344444432 3455566666666665554

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=96.60  E-value=0.0039  Score=50.48  Aligned_cols=33  Identities=21%  Similarity=0.277  Sum_probs=26.9

Q ss_pred             HHHhhcCCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          102 IQSLLGAAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       102 l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      |...+....++++.|.-|.||||+++.+++.+.
T Consensus        15 l~~~l~~~~~i~l~G~lGaGKTtl~~~l~~~lg   47 (133)
T TIGR00150        15 FAKPLDFGTVVLLKGDLGAGKTTLVQGLLQGLG   47 (133)
T ss_pred             HHHhCCCCCEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            333444677999999999999999999999753

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.

>PRK05480 uridine/cytidine kinase; Provisional

Probab=96.60  E-value=0.0018  Score=57.32  Aligned_cols=26  Identities=38%  Similarity=0.648  Sum_probs=23.7

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ...+|+|.|++|+|||||++.++..+
T Consensus         5 ~~~iI~I~G~sGsGKTTl~~~l~~~l   30 (209)
T PRK05480          5 KPIIIGIAGGSGSGKTTVASTIYEEL   30 (209)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            46689999999999999999999887

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=96.59  E-value=0.015  Score=49.47  Aligned_cols=31  Identities=13%  Similarity=0.105  Sum_probs=23.5

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEe
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLE  144 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  144 (429)
                      ++.|.|.+|+|||++|.+++..   .....+++.
T Consensus         1 ~~li~G~~~sGKS~~a~~~~~~---~~~~~~y~a   31 (169)
T cd00544           1 IILVTGGARSGKSRFAERLAAE---LGGPVTYIA   31 (169)
T ss_pred             CEEEECCCCCCHHHHHHHHHHh---cCCCeEEEE
Confidence            3689999999999999999876   223455554

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.

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]

Probab=96.59  E-value=0.02  Score=60.41  Aligned_cols=97  Identities=14%  Similarity=0.232  Sum_probs=62.8

Q ss_pred             CcccchhhHHHHHHHhhc-------C---CCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHH
Q 048064           90 NELVGVESRVEEIQSLLG-------A---APLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFL  159 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~-------~---~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~  159 (429)
                      ..++|.++.+..+.+.+.       +   .-...+.|+.|+|||-||++++..+-+..+.-+-+. +++          .
T Consensus       562 ~~V~gQ~eAv~aIa~AI~~sr~gl~~~~~~awflflGpdgvGKt~lAkaLA~~~Fgse~~~IriD-mse----------~  630 (898)
T KOG1051|consen  562 ERVIGQDEAVAAIAAAIRRSRAGLKDPNPDAWFLFLGPDGVGKTELAKALAEYVFGSEENFIRLD-MSE----------F  630 (898)
T ss_pred             hhccchHHHHHHHHHHHHhhhcccCCCCCCeEEEEECCCchhHHHHHHHHHHHHcCCccceEEec-hhh----------h
Confidence            356788888888877775       1   235678999999999999999998855544444332 221          1


Q ss_pred             HHHHHHHHhcCC---CCCCCHHHHHHHhcCCcE-EEEecCCCCH
Q 048064          160 QQKLLSEVLKDV---NVIPHIDLNFRRLSCRKV-LIVLDDVTCL  199 (429)
Q Consensus       160 ~~~l~~~~~~~~---~~~~~~~~l~~~l~~~~~-LlVlDdv~~~  199 (429)
                      ..  ...+....   -..+..+.+.+.++.+++ +|+||||+..
T Consensus       631 ~e--vskligsp~gyvG~e~gg~LteavrrrP~sVVLfdeIEkA  672 (898)
T KOG1051|consen  631 QE--VSKLIGSPPGYVGKEEGGQLTEAVKRRPYSVVLFEEIEKA  672 (898)
T ss_pred             hh--hhhccCCCcccccchhHHHHHHHHhcCCceEEEEechhhc
Confidence            11  22222221   223445568888988886 6778999733

>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment

Probab=96.59  E-value=0.0069  Score=52.16  Aligned_cols=26  Identities=31%  Similarity=0.464  Sum_probs=23.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ...+++|.|+.|.|||||++.++...
T Consensus        25 ~G~~~~i~G~nGsGKSTLl~~l~G~~   50 (178)
T cd03229          25 AGEIVALLGPSGSGKSTLLRCIAGLE   50 (178)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            67799999999999999999998643

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.

>PRK00131 aroK shikimate kinase; Reviewed

Probab=96.58  E-value=0.0022  Score=54.88  Aligned_cols=26  Identities=35%  Similarity=0.625  Sum_probs=23.6

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ....|.|+|++|+||||+|+.+++++
T Consensus         3 ~~~~i~l~G~~GsGKstla~~La~~l   28 (175)
T PRK00131          3 KGPNIVLIGFMGAGKSTIGRLLAKRL   28 (175)
T ss_pred             CCCeEEEEcCCCCCHHHHHHHHHHHh
Confidence            35689999999999999999999987

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=96.58  E-value=0.0035  Score=59.71  Aligned_cols=52  Identities=27%  Similarity=0.234  Sum_probs=43.7

Q ss_pred             CcccchhhHHHHHHHhhcCCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeE
Q 048064           90 NELVGVESRVEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSC  141 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~  141 (429)
                      ..++|+++.+..+...+...+.+.+.|++|+|||+||+.++..+.-.|..+-
T Consensus        24 ~~~~g~~~~~~~~l~a~~~~~~vll~G~PG~gKT~la~~lA~~l~~~~~~i~   75 (329)
T COG0714          24 KVVVGDEEVIELALLALLAGGHVLLEGPPGVGKTLLARALARALGLPFVRIQ   75 (329)
T ss_pred             CeeeccHHHHHHHHHHHHcCCCEEEECCCCccHHHHHHHHHHHhCCCeEEEe
Confidence            4489999988888888888889999999999999999999998875554333

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=96.58  E-value=0.003  Score=56.88  Aligned_cols=30  Identities=27%  Similarity=0.402  Sum_probs=25.9

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCc
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNF  137 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f  137 (429)
                      ...+++|.|++|.|||||++.++..+....
T Consensus        32 ~~~iigi~G~~GsGKTTl~~~L~~~l~~~~   61 (229)
T PRK09270         32 RRTIVGIAGPPGAGKSTLAEFLEALLQQDG   61 (229)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHhhhcc
Confidence            467899999999999999999998876543

>PRK06547 hypothetical protein; Provisional

Probab=96.57  E-value=0.0031  Score=53.84  Aligned_cols=26  Identities=35%  Similarity=0.321  Sum_probs=23.3

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ...+|+|.|++|+||||+|..+++..
T Consensus        14 ~~~~i~i~G~~GsGKTt~a~~l~~~~   39 (172)
T PRK06547         14 GMITVLIDGRSGSGKTTLAGALAART   39 (172)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            56789999999999999999999874

>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB

Probab=96.56  E-value=0.0053  Score=62.75  Aligned_cols=100  Identities=14%  Similarity=0.052  Sum_probs=58.5

Q ss_pred             HHHHHHHhhc-CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcC-CCCCC
Q 048064           98 RVEEIQSLLG-AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKD-VNVIP  175 (429)
Q Consensus        98 ~~~~l~~~l~-~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~  175 (429)
                      .++.+.+++. ....|.|+|+.|+||||+...+.+.+...-...+-+.+--+.     .+..    + .+..-. .....
T Consensus       304 ~~~~l~~~~~~~~Glilv~G~tGSGKTTtl~a~l~~~~~~~~~i~tiEdpvE~-----~~~~----~-~q~~v~~~~g~~  373 (564)
T TIGR02538       304 QKALFLEAIHKPQGMVLVTGPTGSGKTVSLYTALNILNTEEVNISTAEDPVEI-----NLPG----I-NQVNVNPKIGLT  373 (564)
T ss_pred             HHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHhhCCCCceEEEecCCcee-----cCCC----c-eEEEeccccCCC
Confidence            3445555555 678999999999999999888777663221122222211111     0000    0 011101 11122


Q ss_pred             CHHHHHHHhcCCcEEEEecCCCCHHHHHHHhc
Q 048064          176 HIDLNFRRLSCRKVLIVLDDVTCLNQIESLVG  207 (429)
Q Consensus       176 ~~~~l~~~l~~~~~LlVlDdv~~~~~~~~l~~  207 (429)
                      -.+.+...|+..+=+|++.++.+.+.......
T Consensus       374 ~~~~l~~~LR~dPDvI~vGEiRd~eta~~a~~  405 (564)
T TIGR02538       374 FAAALRSFLRQDPDIIMVGEIRDLETAEIAIK  405 (564)
T ss_pred             HHHHHHHHhccCCCEEEeCCCCCHHHHHHHHH
Confidence            33448888999999999999998887665443

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.

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

Probab=96.56  E-value=0.0069  Score=50.47  Aligned_cols=25  Identities=32%  Similarity=0.581  Sum_probs=22.2

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHhhc
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      ++.|+|.+|+||||+|+.+...+..
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~~l~~   25 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEKLFQ   25 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            4789999999999999999998753

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

>PRK04040 adenylate kinase; Provisional

Probab=96.56  E-value=0.0025  Score=55.29  Aligned_cols=26  Identities=23%  Similarity=0.506  Sum_probs=23.4

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ..+|+|+|++|+||||+++.+++.+.
T Consensus         2 ~~~i~v~G~pG~GKtt~~~~l~~~l~   27 (188)
T PRK04040          2 MKVVVVTGVPGVGKTTVLNKALEKLK   27 (188)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHhc
Confidence            45799999999999999999999874

>PRK09280 F0F1 ATP synthase subunit beta; Validated

Probab=96.56  E-value=0.011  Score=58.09  Aligned_cols=89  Identities=18%  Similarity=0.270  Sum_probs=54.0

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcC-------CCCCCCHHH-
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKD-------VNVIPHIDL-  179 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-------~~~~~~~~~-  179 (429)
                      ..+.++|.|.+|+|||||+..++.....+....+.+..+.+.   ......+.+.++..-...       ..+.+.... 
T Consensus       143 kGQR~gIfa~~GvGKt~Ll~~i~~~~~~~~~~v~V~~liGER---~rEv~efi~~~~~~~~l~rsvvV~atsd~p~~~r~  219 (463)
T PRK09280        143 KGGKIGLFGGAGVGKTVLIQELINNIAKEHGGYSVFAGVGER---TREGNDLYHEMKESGVLDKTALVFGQMNEPPGARL  219 (463)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHHHHhcCCCEEEEEEeccC---cHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHH
Confidence            678899999999999999999988776554444444444432   233444555554432111       011111111 


Q ss_pred             --------HHHHh---cCCcEEEEecCCCCH
Q 048064          180 --------NFRRL---SCRKVLIVLDDVTCL  199 (429)
Q Consensus       180 --------l~~~l---~~~~~LlVlDdv~~~  199 (429)
                              +.+++   .++++||++|++-..
T Consensus       220 ~a~~~a~tiAEyfrd~~G~~VLll~DslTR~  250 (463)
T PRK09280        220 RVALTGLTMAEYFRDVEGQDVLLFIDNIFRF  250 (463)
T ss_pred             HHHHHHHHHHHHHHHhcCCceEEEecchHHH
Confidence                    44444   678999999999543

>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor

Probab=96.53  E-value=0.013  Score=53.34  Aligned_cols=26  Identities=35%  Similarity=0.655  Sum_probs=22.8

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ...+++|.|+.|+|||||++.++...
T Consensus        24 ~Ge~~~i~G~NGsGKSTLlk~L~G~~   49 (246)
T cd03237          24 ESEVIGILGPNGIGKTTFIKMLAGVL   49 (246)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45789999999999999999988754

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.

>COG2401 ABC-type ATPase fused to a predicted acetyltransferase domain [General function prediction only]

Probab=96.53  E-value=0.0069  Score=57.51  Aligned_cols=144  Identities=17%  Similarity=0.221  Sum_probs=76.0

Q ss_pred             ccchhhHHHHHHHhhc-------------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcc-------eeEEEe-
Q 048064           92 LVGVESRVEEIQSLLG-------------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFK-------GSCFLE-  144 (429)
Q Consensus        92 ~vGR~~~~~~l~~~l~-------------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~-------~~~~~~-  144 (429)
                      ..|-..+++.|.+.+.                   ..-++.|+|.+|.||||+.+.+.......-.       ..+-+. 
T Consensus       373 ~~~lp~e~~~IleSFGv~~r~ieryvlr~vNL~ikpGdvvaVvGqSGaGKttllRmi~G~~~~~~ee~y~p~sg~v~vp~  452 (593)
T COG2401         373 IKGLPNEFQDILESFGVRQRVIERYVLRNLNLEIKPGDVVAVVGQSGAGKTTLLRMILGAQKGRGEEKYRPDSGKVEVPK  452 (593)
T ss_pred             cccCChHHHHHHHHhcchheeeeeeeeeceeeEecCCCeEEEEecCCCCcchHHHHHHHHhhcccccccCCCCCceeccc
Confidence            4555667777777653                   4458999999999999999998875432211       111110 


Q ss_pred             e-----chhhhhhcCCHHHHHHHHHHHHhc-------------CCCC----------CCCH--HHHHHHhcCCcEEEEec
Q 048064          145 N-----IREESQKAGGLAFLQQKLLSEVLK-------------DVNV----------IPHI--DLNFRRLSCRKVLIVLD  194 (429)
Q Consensus       145 ~-----~~~~~~~~~~~~~~~~~l~~~~~~-------------~~~~----------~~~~--~~l~~~l~~~~~LlVlD  194 (429)
                      |     +........+-..++.++.+..+.             .+..          ..+-  ..+...+.+++-++++|
T Consensus       453 nt~~a~iPge~Ep~f~~~tilehl~s~tGD~~~AveILnraGlsDAvlyRr~f~ELStGQKeR~KLAkllaerpn~~~iD  532 (593)
T COG2401         453 NTVSALIPGEYEPEFGEVTILEHLRSKTGDLNAAVEILNRAGLSDAVLYRRKFSELSTGQKERAKLAKLLAERPNVLLID  532 (593)
T ss_pred             cchhhccCcccccccCchhHHHHHhhccCchhHHHHHHHhhccchhhhhhccHhhcCcchHHHHHHHHHHhcCCCcEEhh
Confidence            0     111111112222344444433332             1000          0000  01667778888999999


Q ss_pred             CCCCH---HHHHHHhccCCCC--CCCCEEEEEeCChhhhhhcCCCe
Q 048064          195 DVTCL---NQIESLVGSLDRL--LPESRILITTRNKQVLRNCHINQ  235 (429)
Q Consensus       195 dv~~~---~~~~~l~~~l~~~--~~~~~iiiTtR~~~~~~~~~~~~  235 (429)
                      .+...   .....+...+...  ..|+.+++.|+.+++...+....
T Consensus       533 EF~AhLD~~TA~rVArkiselaRe~giTlivvThrpEv~~AL~PD~  578 (593)
T COG2401         533 EFAAHLDELTAVRVARKISELAREAGITLIVVTHRPEVGNALRPDT  578 (593)
T ss_pred             hhhhhcCHHHHHHHHHHHHHHHHHhCCeEEEEecCHHHHhccCCce
Confidence            98522   2222222222221  25777777777788877765443

>PRK03839 putative kinase; Provisional

Probab=96.53  E-value=0.0022  Score=55.39  Aligned_cols=24  Identities=29%  Similarity=0.715  Sum_probs=21.9

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHhh
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      .|.|.|++|+||||+++.+++++.
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~~   25 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKLG   25 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            588999999999999999999863

>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=96.52  E-value=0.0089  Score=51.18  Aligned_cols=26  Identities=31%  Similarity=0.653  Sum_probs=23.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ....++|.|+.|.|||||++.++...
T Consensus        25 ~Ge~~~i~G~nGsGKStLl~~l~G~~   50 (173)
T cd03230          25 KGEIYGLLGPNGAGKTTLIKIILGLL   50 (173)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            66799999999999999999988754

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.

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.52  E-value=0.026  Score=51.74  Aligned_cols=28  Identities=21%  Similarity=0.298  Sum_probs=24.4

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ...++++|++|+||||++..++..+..+
T Consensus        75 ~~~i~~~G~~g~GKTtl~~~l~~~l~~~  102 (270)
T PRK06731         75 VQTIALIGPTGVGKTTTLAKMAWQFHGK  102 (270)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHHHHHHc
Confidence            4799999999999999999998876544

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=96.52  E-value=0.0021  Score=52.87  Aligned_cols=24  Identities=38%  Similarity=0.627  Sum_probs=22.1

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHhh
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      +|+|.|++|+||||+|+.+++++.
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~g   25 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHLG   25 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHhC
Confidence            689999999999999999999864

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=96.52  E-value=0.0028  Score=54.45  Aligned_cols=26  Identities=23%  Similarity=0.373  Sum_probs=23.2

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      .++|.+.|++|+||||+|+.+.....
T Consensus         2 ~~~i~l~G~~gsGKst~a~~l~~~~~   27 (175)
T cd00227           2 GRIIILNGGSSAGKSSIARALQSVLA   27 (175)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhhC
Confidence            46899999999999999999988753

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

>KOG3928 consensus Mitochondrial ribosome small subunit component, mediator of apoptosis DAP3 [Translation, ribosomal structure and biogenesis]

Probab=96.51  E-value=0.048  Score=51.84  Aligned_cols=55  Identities=15%  Similarity=0.054  Sum_probs=37.6

Q ss_pred             CCeEEEcCCCCHHHHHHHHHHhhh----cCCCCChhHHHHHHHHHHHhCCChHHHHHHHHhh
Q 048064          233 INQIYEMKGLGDDHALELFIRHAF----RQNLVDVDYKELSDKVINYAQGVPLALKILGCYL  290 (429)
Q Consensus       233 ~~~~~~l~~L~~~ea~~L~~~~~~----~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~~~l  290 (429)
                      ...++++++++.+|+.+++.-..-    ....+.   ++.-+++.-..+|||-.++.++.++
T Consensus       402 pf~pi~v~nYt~~E~~~~i~YYl~~nwl~kkv~~---Ee~~kql~fLSngNP~l~~~lca~~  460 (461)
T KOG3928|consen  402 PFVPIEVENYTLDEFEALIDYYLQSNWLLKKVPG---EENIKQLYFLSNGNPSLMERLCAFL  460 (461)
T ss_pred             CcCccccCCCCHHHHHHHHHHHHHhhHHHhhcCc---ccchhhhhhhcCCCHHHHHHHHHhc
Confidence            355788999999999998765542    111221   3445677778899997777776654

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=96.51  E-value=0.0029  Score=60.89  Aligned_cols=49  Identities=22%  Similarity=0.343  Sum_probs=37.8

Q ss_pred             CCcccchhhHHHHHHHhhc----------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCc
Q 048064           89 KNELVGVESRVEEIQSLLG----------------AAPLLGIWGIGGIGKTTIARVIFNRISRNF  137 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~----------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f  137 (429)
                      ..+++|.+...+.+...+.                .++.+.++|++|+|||++|+.++..+...|
T Consensus        11 d~~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l~~~f   75 (441)
T TIGR00390        11 DKYIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLANAPF   75 (441)
T ss_pred             hhhccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHhCCeE
Confidence            3567888777777754443                247899999999999999999999875443

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.

>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=96.51  E-value=0.0033  Score=54.17  Aligned_cols=26  Identities=42%  Similarity=0.625  Sum_probs=23.0

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      +|+|.|.+|+||||||..+...+...
T Consensus         1 ii~i~G~sgsGKttla~~l~~~l~~~   26 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQLRVN   26 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            48999999999999999999987643

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>PRK13833 conjugal transfer protein TrbB; Provisional

Probab=96.51  E-value=0.011  Score=55.66  Aligned_cols=96  Identities=21%  Similarity=0.169  Sum_probs=54.5

Q ss_pred             HHHHhhcCCCEEEEEcCCCcchHHHHHHHHHHhhcCc--ceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHH
Q 048064          101 EIQSLLGAAPLLGIWGIGGIGKTTIARVIFNRISRNF--KGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHID  178 (429)
Q Consensus       101 ~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f--~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~  178 (429)
                      .|..++.....+.|+|.+|+||||++..+...+....  ...+-+.+..+......+...        +. ........+
T Consensus       136 ~L~~~v~~~~nilI~G~tGSGKTTll~aL~~~i~~~~~~~rivtiEd~~El~~~~~n~v~--------l~-~~~~~~~~~  206 (323)
T PRK13833        136 VIRSAIDSRLNIVISGGTGSGKTTLANAVIAEIVASAPEDRLVILEDTAEIQCAAENAVA--------LH-TSDTVDMAR  206 (323)
T ss_pred             HHHHHHHcCCeEEEECCCCCCHHHHHHHHHHHHhcCCCCceEEEecCCcccccCCCCEEE--------ec-cCCCcCHHH
Confidence            3344444667899999999999999999998764322  222333222221100000000        00 011122223


Q ss_pred             HHHHHhcCCcEEEEecCCCCHHHHHHH
Q 048064          179 LNFRRLSCRKVLIVLDDVTCLNQIESL  205 (429)
Q Consensus       179 ~l~~~l~~~~~LlVlDdv~~~~~~~~l  205 (429)
                      .+...|+..+-.+|+.++...+.+..+
T Consensus       207 lv~~aLR~~PD~IivGEiRg~ea~~~l  233 (323)
T PRK13833        207 LLKSTMRLRPDRIIVGEVRDGAALTLL  233 (323)
T ss_pred             HHHHHhCCCCCEEEEeecCCHHHHHHH
Confidence            367788889999999999887766543

>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes

Probab=96.50  E-value=0.027  Score=49.35  Aligned_cols=25  Identities=28%  Similarity=0.154  Sum_probs=21.9

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      .++++|.|+.|.|||||++.++..+
T Consensus        25 g~~~~ltGpNg~GKSTllr~i~~~~   49 (199)
T cd03283          25 KNGILITGSNMSGKSTFLRTIGVNV   49 (199)
T ss_pred             CcEEEEECCCCCChHHHHHHHHHHH
Confidence            4799999999999999999987643

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form slid

>PHA02244 ATPase-like protein

Probab=96.50  E-value=0.0092  Score=56.66  Aligned_cols=48  Identities=19%  Similarity=0.238  Sum_probs=35.2

Q ss_pred             CCCCcccchhhHHH----HHHHhhcCCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064           87 DSKNELVGVESRVE----EIQSLLGAAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus        87 ~~~~~~vGR~~~~~----~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      .....++|....+.    .+..++.....|.|+|++|+|||+||+.+++...
T Consensus        93 ~~d~~~ig~sp~~~~~~~ri~r~l~~~~PVLL~GppGtGKTtLA~aLA~~lg  144 (383)
T PHA02244         93 GIDTTKIASNPTFHYETADIAKIVNANIPVFLKGGAGSGKNHIAEQIAEALD  144 (383)
T ss_pred             hCCCcccCCCHHHHHHHHHHHHHHhcCCCEEEECCCCCCHHHHHHHHHHHhC
Confidence            33456777665554    4444445666789999999999999999999864

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

Probab=96.49  E-value=0.0035  Score=60.46  Aligned_cols=49  Identities=22%  Similarity=0.333  Sum_probs=39.5

Q ss_pred             CCcccchhhHHHHHHHhhc----------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCc
Q 048064           89 KNELVGVESRVEEIQSLLG----------------AAPLLGIWGIGGIGKTTIARVIFNRISRNF  137 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~----------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f  137 (429)
                      ...++|.+...+.+..++.                .++.+.++|++|+|||+||+.++..+...|
T Consensus        14 d~~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l~~~f   78 (443)
T PRK05201         14 DKYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLANAPF   78 (443)
T ss_pred             ccccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHhCChh
Confidence            4668888888888877663                147899999999999999999999875443

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=96.49  E-value=0.0026  Score=55.19  Aligned_cols=25  Identities=28%  Similarity=0.301  Sum_probs=22.7

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      .++++|.|++|+||||+|+.++..+
T Consensus         3 ~~ii~i~G~~GsGKsTl~~~l~~~~   27 (188)
T TIGR01360         3 CKIIFIVGGPGSGKGTQCEKIVEKY   27 (188)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            5789999999999999999999765

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.

>COG3910 Predicted ATPase [General function prediction only]

Probab=96.47  E-value=0.07  Score=45.37  Aligned_cols=34  Identities=29%  Similarity=0.376  Sum_probs=27.3

Q ss_pred             HHHHHHhhc-CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064           99 VEEIQSLLG-AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus        99 ~~~l~~~l~-~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ++.+...|. ..++..|+|..|+|||||...++-.
T Consensus        26 ~r~l~~~LeF~apIT~i~GENGsGKSTLLEaiA~~   60 (233)
T COG3910          26 FRHLEERLEFRAPITFITGENGSGKSTLLEAIAAG   60 (233)
T ss_pred             HHhhhhhccccCceEEEEcCCCccHHHHHHHHHhh
Confidence            344444555 8899999999999999999988763

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

Probab=96.47  E-value=0.02  Score=50.48  Aligned_cols=25  Identities=32%  Similarity=0.574  Sum_probs=22.8

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ...+++|.|+.|.|||||.+.++..
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~Gl   49 (205)
T cd03226          25 AGEIIALTGKNGAGKTTLAKILAGL   49 (205)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            6779999999999999999998874

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>PF13245 AAA_19: Part of AAA domain

Probab=96.47  E-value=0.0052  Score=44.60  Aligned_cols=26  Identities=31%  Similarity=0.446  Sum_probs=19.5

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      +.+++.|.|++|.|||+++......+
T Consensus         9 ~~~~~vv~g~pGtGKT~~~~~~i~~l   34 (76)
T PF13245_consen    9 GSPLFVVQGPPGTGKTTTLAARIAEL   34 (76)
T ss_pred             hCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            46778889999999996655555443

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=96.47  E-value=0.01  Score=54.46  Aligned_cols=112  Identities=18%  Similarity=0.149  Sum_probs=61.3

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCC-----CC---CCCHHHH
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDV-----NV---IPHIDLN  180 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-----~~---~~~~~~l  180 (429)
                      ...++|.|++|.|||||.+.++..+... ...+++... .... ......+...+ ..+....     ..   ......+
T Consensus       111 ~~~~~i~g~~g~GKttl~~~l~~~~~~~-~G~i~~~g~-~v~~-~d~~~ei~~~~-~~~~q~~~~~r~~v~~~~~k~~~~  186 (270)
T TIGR02858       111 VLNTLIISPPQCGKTTLLRDLARILSTG-ISQLGLRGK-KVGI-VDERSEIAGCV-NGVPQHDVGIRTDVLDGCPKAEGM  186 (270)
T ss_pred             eeEEEEEcCCCCCHHHHHHHHhCccCCC-CceEEECCE-Eeec-chhHHHHHHHh-cccccccccccccccccchHHHHH
Confidence            4689999999999999999999876543 222332110 0000 00111221110 0011100     00   0111123


Q ss_pred             HHHhc-CCcEEEEecCCCCHHHHHHHhccCCCCCCCCEEEEEeCChhh
Q 048064          181 FRRLS-CRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQV  227 (429)
Q Consensus       181 ~~~l~-~~~~LlVlDdv~~~~~~~~l~~~l~~~~~~~~iiiTtR~~~~  227 (429)
                      ...+. ..+-++++|++...+.+..+...+.   .|..+|+||-+..+
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            33333 5788999999987777776665543   47778999887654

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.

>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]

Probab=96.46  E-value=0.0053  Score=54.24  Aligned_cols=47  Identities=23%  Similarity=0.446  Sum_probs=37.1

Q ss_pred             cccchhhHHHHHHHhhc---------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCc
Q 048064           91 ELVGVESRVEEIQSLLG---------------AAPLLGIWGIGGIGKTTIARVIFNRISRNF  137 (429)
Q Consensus        91 ~~vGR~~~~~~l~~~l~---------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f  137 (429)
                      ++=|.+-..+++.+...               .++-|.++|++|+|||-||++++++....|
T Consensus       156 diggld~qkqeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~t~a~f  217 (408)
T KOG0727|consen  156 DIGGLDVQKQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANHTTAAF  217 (408)
T ss_pred             ccccchhhHHHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhccchhe
Confidence            45667777777776553               678899999999999999999998765444

>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=96.46  E-value=0.0038  Score=52.17  Aligned_cols=20  Identities=40%  Similarity=0.471  Sum_probs=18.7

Q ss_pred             EEcCCCcchHHHHHHHHHHh
Q 048064          114 IWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       114 I~G~~GiGKTtLa~~~~~~~  133 (429)
                      |.|+||+||||+|..++.++
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            68999999999999999976

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 ....

>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11

Probab=96.46  E-value=0.0049  Score=58.07  Aligned_cols=93  Identities=20%  Similarity=0.168  Sum_probs=51.7

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCR  187 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~  187 (429)
                      ....++|+|+.|+|||||++.++..+.... ..+.+.+..+......+...+   ...............+.+...++..
T Consensus       143 ~~~~ili~G~tGsGKTTll~al~~~~~~~~-~iv~ied~~El~~~~~~~~~l---~~~~~~~~~~~~~~~~~l~~~Lr~~  218 (308)
T TIGR02788       143 SRKNIIISGGTGSGKTTFLKSLVDEIPKDE-RIITIEDTREIFLPHPNYVHL---FYSKGGQGLAKVTPKDLLQSCLRMR  218 (308)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHccCCccc-cEEEEcCccccCCCCCCEEEE---EecCCCCCcCccCHHHHHHHHhcCC
Confidence            778999999999999999999887664332 233333322211100000000   0000000001122223366678888


Q ss_pred             cEEEEecCCCCHHHHHH
Q 048064          188 KVLIVLDDVTCLNQIES  204 (429)
Q Consensus       188 ~~LlVlDdv~~~~~~~~  204 (429)
                      +-.+++|++...+.+..
T Consensus       219 pd~ii~gE~r~~e~~~~  235 (308)
T TIGR02788       219 PDRIILGELRGDEAFDF  235 (308)
T ss_pred             CCeEEEeccCCHHHHHH
Confidence            88999999988765543

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.

>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs

Probab=96.46  E-value=0.0035  Score=54.28  Aligned_cols=34  Identities=21%  Similarity=0.070  Sum_probs=27.0

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEe
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLE  144 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  144 (429)
                      ++.|.|++|+|||+|+.+++.....+-..++|+.
T Consensus         1 ~~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s   34 (187)
T cd01124           1 STLLSGGPGTGKTTFALQFLYAGLARGEPGLYVT   34 (187)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEE
Confidence            3689999999999999999887655555566654

A related protein is found in archaea.

>PRK00625 shikimate kinase; Provisional

Probab=96.45  E-value=0.0025  Score=54.42  Aligned_cols=24  Identities=21%  Similarity=0.401  Sum_probs=21.7

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHhh
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      .|.|+|++|+||||+++.+++++.
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l~   25 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFLS   25 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            488999999999999999998864

>PRK12597 F0F1 ATP synthase subunit beta; Provisional

Probab=96.44  E-value=0.02  Score=56.46  Aligned_cols=89  Identities=20%  Similarity=0.241  Sum_probs=53.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcC-------CCCCCCHHH-
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKD-------VNVIPHIDL-  179 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-------~~~~~~~~~-  179 (429)
                      ..+.++|.|.+|+|||||+.+++.....+...++.+..+.+.   ......+...+...-...       ..+.+.... 
T Consensus       142 kGQR~gIfa~~G~GKt~Ll~~~~~~~~~~~~dv~V~~liGER---~rEv~ef~~~~~~~~~l~rsvvv~atsd~~~~~R~  218 (461)
T PRK12597        142 KGGKTGLFGGAGVGKTVLMMELIFNISKQHSGSSVFAGVGER---SREGHELYHEMKESGVLDKTVMVYGQMNEPPGARM  218 (461)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHHHHhhCCCEEEEEcCCcc---hHHHHHHHHHHHhcCCcceeEEEecCCCCCHHHHH
Confidence            678899999999999999999998876544444444444432   233444444444321111       011111111 


Q ss_pred             --------HHHHh---cCCcEEEEecCCCCH
Q 048064          180 --------NFRRL---SCRKVLIVLDDVTCL  199 (429)
Q Consensus       180 --------l~~~l---~~~~~LlVlDdv~~~  199 (429)
                              +.+++   .++++||++|++-..
T Consensus       219 ~a~~~a~tiAEyfrd~~G~~VLl~~DslTR~  249 (461)
T PRK12597        219 RVVLTGLTIAEYLRDEEKEDVLLFIDNIFRF  249 (461)
T ss_pred             HHHHHHHHHHHHHHHhcCCceEEEeccchHH
Confidence                    34444   378999999999533

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=96.44  E-value=0.0032  Score=55.04  Aligned_cols=28  Identities=32%  Similarity=0.513  Sum_probs=25.2

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      +.+|+|.|.+|+||||+|+.++..+..+
T Consensus         8 ~iiIgIaG~SgSGKTTva~~l~~~~~~~   35 (218)
T COG0572           8 VIIIGIAGGSGSGKTTVAKELSEQLGVE   35 (218)
T ss_pred             eEEEEEeCCCCCCHHHHHHHHHHHhCcC
Confidence            3589999999999999999999998765

>TIGR01069 mutS2 MutS2 family protein

Probab=96.44  E-value=0.0036  Score=66.06  Aligned_cols=25  Identities=24%  Similarity=0.134  Sum_probs=22.0

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      +.+.++|+|+.|.||||+.+.++-.
T Consensus       321 ~~~~liItGpNg~GKSTlLK~i~~~  345 (771)
T TIGR01069       321 EKRVLAITGPNTGGKTVTLKTLGLL  345 (771)
T ss_pred             CceEEEEECCCCCCchHHHHHHHHH
Confidence            3479999999999999999998764

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.

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=96.43  E-value=0.0047  Score=53.44  Aligned_cols=35  Identities=20%  Similarity=0.295  Sum_probs=29.9

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEE
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFL  143 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  143 (429)
                      .+++.|+|+.|+|||||+..++......|...+..
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~~~~~~~~~~v~~   36 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQEFPDKFGRVVSH   36 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHHHSTTTEEEEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcccccccceee
Confidence            58899999999999999999999988888644444

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 ....

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

Probab=96.43  E-value=0.014  Score=51.74  Aligned_cols=58  Identities=19%  Similarity=0.310  Sum_probs=36.7

Q ss_pred             HHHHhcCCcEEEEecCCC---CHH---HHHHHhccCCCCCCCCEEEEEeCChhhhhhcCCCeEEEcC
Q 048064          180 NFRRLSCRKVLIVLDDVT---CLN---QIESLVGSLDRLLPESRILITTRNKQVLRNCHINQIYEMK  240 (429)
Q Consensus       180 l~~~l~~~~~LlVlDdv~---~~~---~~~~l~~~l~~~~~~~~iiiTtR~~~~~~~~~~~~~~~l~  240 (429)
                      +.+.+-..|-+|+.|+--   +..   .+-.++..+.. ..|..||+.|-++.++...  .+++.+.
T Consensus       153 IARAL~~~P~iilADEPTgnLD~~t~~~V~~ll~~~~~-~~g~tii~VTHd~~lA~~~--dr~i~l~  216 (226)
T COG1136         153 IARALINNPKIILADEPTGNLDSKTAKEVLELLRELNK-ERGKTIIMVTHDPELAKYA--DRVIELK  216 (226)
T ss_pred             HHHHHhcCCCeEEeeCccccCChHHHHHHHHHHHHHHH-hcCCEEEEEcCCHHHHHhC--CEEEEEe
Confidence            777888899999999862   222   23333333221 3466788899999888763  4555543

>TIGR01967 DEAH_box_HrpA ATP-dependent helicase HrpA

Probab=96.42  E-value=0.0064  Score=66.83  Aligned_cols=38  Identities=26%  Similarity=0.295  Sum_probs=30.6

Q ss_pred             hhHHHHHHHhhcCCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064           96 ESRVEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus        96 ~~~~~~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      .....+|.+.+...+++.|+|++|+||||..-.++...
T Consensus        69 ~~~~~~Il~~l~~~~vvii~g~TGSGKTTqlPq~lle~  106 (1283)
T TIGR01967        69 SAKREDIAEAIAENQVVIIAGETGSGKTTQLPKICLEL  106 (1283)
T ss_pred             HHHHHHHHHHHHhCceEEEeCCCCCCcHHHHHHHHHHc
Confidence            34456777777778899999999999999888777654

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.

>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]

Probab=96.42  E-value=0.11  Score=53.48  Aligned_cols=166  Identities=18%  Similarity=0.226  Sum_probs=85.5

Q ss_pred             cccchhhHHHHHHHhhc-----------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhh-hhhcCCHHH
Q 048064           91 ELVGVESRVEEIQSLLG-----------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREE-SQKAGGLAF  158 (429)
Q Consensus        91 ~~vGR~~~~~~l~~~l~-----------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~-~~~~~~~~~  158 (429)
                      ...+++..+..+.+.+.           ...++.++|.+|+||||+++.++..+.-|+    +-.++.+. +........
T Consensus       402 ~~~~~~~~~~~l~~vl~p~~~~s~~~~~~~~~vLLhG~~g~GK~t~V~~vas~lg~h~----~evdc~el~~~s~~~~et  477 (953)
T KOG0736|consen  402 SPPGLEAKVLELVAVLSPQKQPSGALLTLNPSVLLHGPPGSGKTTVVRAVASELGLHL----LEVDCYELVAESASHTET  477 (953)
T ss_pred             CCccchHHHHHHHHHhCcccCcchhccccceEEEEeCCCCCChHHHHHHHHHHhCCce----EeccHHHHhhcccchhHH
Confidence            34566777777777776           345789999999999999999999875442    21111111 110111111


Q ss_pred             HHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCC-------HH------HHHHHhc--cCCCCCCCCEEEEEeC
Q 048064          159 LQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTC-------LN------QIESLVG--SLDRLLPESRILITTR  223 (429)
Q Consensus       159 ~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~-------~~------~~~~l~~--~l~~~~~~~~iiiTtR  223 (429)
                      -...+                +.+.-+..+.+|.|-|++-       .+      .++.++.  .....+++..++.|+.
T Consensus       478 kl~~~----------------f~~a~~~~pavifl~~~dvl~id~dgged~rl~~~i~~~ls~e~~~~~~~~~ivv~t~~  541 (953)
T KOG0736|consen  478 KLQAI----------------FSRARRCSPAVLFLRNLDVLGIDQDGGEDARLLKVIRHLLSNEDFKFSCPPVIVVATTS  541 (953)
T ss_pred             HHHHH----------------HHHHhhcCceEEEEeccceeeecCCCchhHHHHHHHHHHHhcccccCCCCceEEEEecc
Confidence            11111                1122223556666655531       11      1222222  1121233444444443


Q ss_pred             -ChhhhhhcC--CCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCC
Q 048064          224 -NKQVLRNCH--INQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGV  279 (429)
Q Consensus       224 -~~~~~~~~~--~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~  279 (429)
                       .+.+.....  ....+.++.+++++-.++|+.........   .....+.++.+|.|.
T Consensus       542 s~~~lp~~i~~~f~~ei~~~~lse~qRl~iLq~y~~~~~~n---~~v~~k~~a~~t~gf  597 (953)
T KOG0736|consen  542 SIEDLPADIQSLFLHEIEVPALSEEQRLEILQWYLNHLPLN---QDVNLKQLARKTSGF  597 (953)
T ss_pred             ccccCCHHHHHhhhhhccCCCCCHHHHHHHHHHHHhccccc---hHHHHHHHHHhcCCC
Confidence             333333221  23568899999999999998876332211   112234555555543

>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=96.41  E-value=0.0046  Score=53.80  Aligned_cols=42  Identities=26%  Similarity=0.351  Sum_probs=33.9

Q ss_pred             CcccchhhHHHHHHHhhcCCCEEEEEcCCCcchHHHHHHHHH
Q 048064           90 NELVGVESRVEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ..++|.+...+.|.-...+.+-+.+.|++|+|||++|+.+..
T Consensus         3 ~dI~GQe~aKrAL~iAAaG~h~lLl~GppGtGKTmlA~~l~~   44 (206)
T PF01078_consen    3 SDIVGQEEAKRALEIAAAGGHHLLLIGPPGTGKTMLARRLPS   44 (206)
T ss_dssp             CCSSSTHHHHHHHHHHHHCC--EEEES-CCCTHHHHHHHHHH
T ss_pred             hhhcCcHHHHHHHHHHHcCCCCeEEECCCCCCHHHHHHHHHH
Confidence            467888888888877777889999999999999999999886

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.

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=96.41  E-value=0.027  Score=50.69  Aligned_cols=49  Identities=20%  Similarity=0.269  Sum_probs=33.3

Q ss_pred             HHHHhcCCcEEEEecCC----C--CHHHHHHHhccCCCCCCCCEEEEEeCChhhhhh
Q 048064          180 NFRRLSCRKVLIVLDDV----T--CLNQIESLVGSLDRLLPESRILITTRNKQVLRN  230 (429)
Q Consensus       180 l~~~l~~~~~LlVlDdv----~--~~~~~~~l~~~l~~~~~~~~iiiTtR~~~~~~~  230 (429)
                      +.+.|.+.+=||+||+-    |  ....+-.++..+..  .|+-|++.|-+-.....
T Consensus       150 lARAL~~~p~lllLDEP~~gvD~~~~~~i~~lL~~l~~--eg~tIl~vtHDL~~v~~  204 (254)
T COG1121         150 LARALAQNPDLLLLDEPFTGVDVAGQKEIYDLLKELRQ--EGKTVLMVTHDLGLVMA  204 (254)
T ss_pred             HHHHhccCCCEEEecCCcccCCHHHHHHHHHHHHHHHH--CCCEEEEEeCCcHHhHh
Confidence            77788889999999986    2  22234455555553  38888888887755444

>PRK00889 adenylylsulfate kinase; Provisional

Probab=96.41  E-value=0.0049  Score=52.91  Aligned_cols=28  Identities=32%  Similarity=0.490  Sum_probs=24.6

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ..+++|.|++|+||||+|+.++..+...
T Consensus         4 g~~i~~~G~~GsGKST~a~~la~~l~~~   31 (175)
T PRK00889          4 GVTVWFTGLSGAGKTTIARALAEKLREA   31 (175)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            4689999999999999999999987543

>PRK11131 ATP-dependent RNA helicase HrpA; Provisional

Probab=96.41  E-value=0.017  Score=63.41  Aligned_cols=37  Identities=22%  Similarity=0.238  Sum_probs=29.2

Q ss_pred             hHHHHHHHhhcCCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064           97 SRVEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus        97 ~~~~~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ...++|...+.+.+++.|+|.+|+||||..-+++...
T Consensus        77 ~~r~~Il~ai~~~~VviI~GeTGSGKTTqlPq~lle~  113 (1294)
T PRK11131         77 QKKQDILEAIRDHQVVIVAGETGSGKTTQLPKICLEL  113 (1294)
T ss_pred             HHHHHHHHHHHhCCeEEEECCCCCCHHHHHHHHHHHc
Confidence            4455666677778999999999999999777676654

>TIGR00235 udk uridine kinase

Probab=96.40  E-value=0.0027  Score=56.14  Aligned_cols=26  Identities=42%  Similarity=0.710  Sum_probs=23.1

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ..+|+|+|++|+|||||++.++..+.
T Consensus         6 g~vi~I~G~sGsGKSTl~~~l~~~l~   31 (207)
T TIGR00235         6 GIIIGIGGGSGSGKTTVARKIYEQLG   31 (207)
T ss_pred             eEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            46899999999999999999998764

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

>PRK05818 DNA polymerase III subunit delta'; Validated

Probab=96.39  E-value=0.38  Score=43.60  Aligned_cols=56  Identities=16%  Similarity=0.161  Sum_probs=38.2

Q ss_pred             CcEEEEecCCCC--HHHHHHHhccCCCCCCCCEEEEEeCCh-hhhhhcC-CCeEEEcCCC
Q 048064          187 RKVLIVLDDVTC--LNQIESLVGSLDRLLPESRILITTRNK-QVLRNCH-INQIYEMKGL  242 (429)
Q Consensus       187 ~~~LlVlDdv~~--~~~~~~l~~~l~~~~~~~~iiiTtR~~-~~~~~~~-~~~~~~l~~L  242 (429)
                      +.-++|+|+++.  ......++..+....+++.+|++|.+. .+++... ....+.+.+.
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            456889999984  457889999998877788777766654 4444432 2345666665

>COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.39  E-value=0.033  Score=48.88  Aligned_cols=24  Identities=33%  Similarity=0.498  Sum_probs=21.7

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ..-+-+|-||.|.|||||+..+.-
T Consensus        29 ~GEvhaiMGPNGsGKSTLa~~i~G   52 (251)
T COG0396          29 EGEVHAIMGPNGSGKSTLAYTIMG   52 (251)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhC
Confidence            667889999999999999998875

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=96.39  E-value=0.0062  Score=55.84  Aligned_cols=37  Identities=16%  Similarity=0.209  Sum_probs=29.8

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEe
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLE  144 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  144 (429)
                      ...++.|.|++|+|||++|.+++.....+-..++|+.
T Consensus        35 ~gs~~lI~G~pGtGKT~l~~qf~~~~a~~Ge~vlyis   71 (259)
T TIGR03878        35 AYSVINITGVSDTGKSLMVEQFAVTQASRGNPVLFVT   71 (259)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEE
Confidence            5788999999999999999999887654545566655

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]

Probab=96.38  E-value=0.011  Score=59.28  Aligned_cols=31  Identities=26%  Similarity=0.292  Sum_probs=22.5

Q ss_pred             HHHHhhcCCCEEEEEcCCCcchHHHHHHHHH
Q 048064          101 EIQSLLGAAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       101 ~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      +|.+.+...++|.|+|..|+||||=..++.+
T Consensus       363 ~ll~~ir~n~vvvivgETGSGKTTQl~QyL~  393 (1042)
T KOG0924|consen  363 QLLSVIRENQVVVIVGETGSGKTTQLAQYLY  393 (1042)
T ss_pred             HHHHHHhhCcEEEEEecCCCCchhhhHHHHH
Confidence            3444444689999999999999975555444

>TIGR01039 atpD ATP synthase, F1 beta subunit

Probab=96.38  E-value=0.026  Score=55.33  Aligned_cols=89  Identities=18%  Similarity=0.270  Sum_probs=53.9

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcC-------CCCCCCHHH-
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKD-------VNVIPHIDL-  179 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-------~~~~~~~~~-  179 (429)
                      ..+.++|.|.+|+|||||+..++.....+....+.+..+.+.   ......+.+.+...-...       ..+.+.... 
T Consensus       142 ~GQr~~If~~~G~GKt~L~~~~~~~~~~~~~~v~V~alIGER---~rEv~ef~~~~~~~~~l~rtvvV~atsd~p~~~R~  218 (461)
T TIGR01039       142 KGGKIGLFGGAGVGKTVLIQELINNIAKEHGGYSVFAGVGER---TREGNDLYHEMKESGVIDKTALVYGQMNEPPGARM  218 (461)
T ss_pred             cCCEEEeecCCCCChHHHHHHHHHHHHhcCCCeEEEEEecCC---chHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHH
Confidence            678899999999999999999998776554444444445443   223444555554321111       111111111 


Q ss_pred             --------HHHHh---cCCcEEEEecCCCCH
Q 048064          180 --------NFRRL---SCRKVLIVLDDVTCL  199 (429)
Q Consensus       180 --------l~~~l---~~~~~LlVlDdv~~~  199 (429)
                              +.+++   +++++||++|++-..
T Consensus       219 ~a~~~a~tiAEyfrd~~G~~VLll~DslTR~  249 (461)
T TIGR01039       219 RVALTGLTMAEYFRDEQGQDVLLFIDNIFRF  249 (461)
T ss_pred             HHHHHHHHHHHHHHHhcCCeeEEEecchhHH
Confidence                    44444   468999999999544

The sequences of ATP synthase F1 alpha and beta subunits are related and both contain a nucleotide-binding site for ATP and ADP. They have a common amino terminal domain but vary at the C-terminus. The beta chain has catalytic activity, while the alpha chain is a regulatory subunit. Proton translocating ATP synthase, F1 beta subunit is homologous to proton translocating ATP synthase archaeal/vacuolar(V1), A subunit.

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=96.38  E-value=0.0025  Score=55.10  Aligned_cols=23  Identities=26%  Similarity=0.290  Sum_probs=21.1

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHh
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      +|.|.|++|+||||+|+.+++++
T Consensus         1 ~i~i~G~pGsGKst~a~~la~~~   23 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVENF   23 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            47899999999999999999876

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.

>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=0.0092  Score=52.79  Aligned_cols=29  Identities=31%  Similarity=0.533  Sum_probs=25.7

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ..+.++|.|.+|+|||+|+.++++.....
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            67889999999999999999999987533

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 ....

>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=96.36  E-value=0.0069  Score=57.06  Aligned_cols=53  Identities=26%  Similarity=0.267  Sum_probs=38.8

Q ss_pred             CCCCcccchhhHHHHHHHhhc-------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcce
Q 048064           87 DSKNELVGVESRVEEIQSLLG-------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKG  139 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~-------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~  139 (429)
                      .....+||.....+..--.+.       ..+.+.+.|++|.|||+||..+++.+..+.|.
T Consensus        21 ~~~~GlVGQ~~AReAagiiv~mIk~~K~aGr~iLiaGppGtGKTAlA~~ia~eLG~~~PF   80 (398)
T PF06068_consen   21 YIADGLVGQEKAREAAGIIVDMIKEGKIAGRAILIAGPPGTGKTALAMAIAKELGEDVPF   80 (398)
T ss_dssp             SEETTEES-HHHHHHHHHHHHHHHTT--TT-EEEEEE-TTSSHHHHHHHHHHHCTTTS-E
T ss_pred             eccccccChHHHHHHHHHHHHHHhcccccCcEEEEeCCCCCCchHHHHHHHHHhCCCCCe
Confidence            345789999887765543332       67999999999999999999999998876553

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.

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=96.35  E-value=0.007  Score=54.77  Aligned_cols=37  Identities=11%  Similarity=0.088  Sum_probs=29.8

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEe
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLE  144 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  144 (429)
                      ...++.|.|++|+|||+||.+++......-..++|+.
T Consensus        20 ~gs~~lI~G~pGsGKT~la~~~l~~~~~~ge~~lyvs   56 (237)
T TIGR03877        20 ERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVA   56 (237)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEE
Confidence            6789999999999999999998886544455566665

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.

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=96.35  E-value=0.0052  Score=53.92  Aligned_cols=38  Identities=29%  Similarity=0.436  Sum_probs=30.0

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechh
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIRE  148 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~  148 (429)
                      .|+|+|-||+||||+|..++.++.++-...+.+.+...
T Consensus         2 kIaI~GKGG~GKTtiaalll~~l~~~~~~~VLvVDaDp   39 (255)
T COG3640           2 KIAITGKGGVGKTTIAALLLKRLLSKGGYNVLVVDADP   39 (255)
T ss_pred             eEEEecCCCccHHHHHHHHHHHHHhcCCceEEEEeCCC
Confidence            58999999999999999988887666555566655554

>PRK14529 adenylate kinase; Provisional

Probab=96.35  E-value=0.017  Score=51.31  Aligned_cols=24  Identities=25%  Similarity=0.367  Sum_probs=21.4

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHhh
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      .|.|.|++|+||||+++.++..+.
T Consensus         2 ~I~l~G~PGsGK~T~a~~La~~~~   25 (223)
T PRK14529          2 NILIFGPNGSGKGTQGALVKKKYD   25 (223)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
Confidence            378999999999999999998764

>PTZ00088 adenylate kinase 1; Provisional

Probab=96.35  E-value=0.014  Score=52.29  Aligned_cols=24  Identities=25%  Similarity=0.477  Sum_probs=21.6

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHh
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ..|.|.|++|+||||+|+.+++.+
T Consensus         7 mrIvl~G~PGsGK~T~a~~La~~~   30 (229)
T PTZ00088          7 LKIVLFGAPGVGKGTFAEILSKKE   30 (229)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHh
Confidence            348999999999999999999875

>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=96.34  E-value=0.0059  Score=51.12  Aligned_cols=35  Identities=23%  Similarity=0.482  Sum_probs=29.6

Q ss_pred             hHHHHHHHhhcCCCEEEEEcCCCcchHHHHHHHHHH
Q 048064           97 SRVEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus        97 ~~~~~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ..+++|.+.+.+ +++++.|+.|+|||||...+...
T Consensus        24 ~g~~~l~~~l~~-k~~vl~G~SGvGKSSLiN~L~~~   58 (161)
T PF03193_consen   24 EGIEELKELLKG-KTSVLLGQSGVGKSSLINALLPE   58 (161)
T ss_dssp             TTHHHHHHHHTT-SEEEEECSTTSSHHHHHHHHHTS
T ss_pred             cCHHHHHHHhcC-CEEEEECCCCCCHHHHHHHHHhh
Confidence            446777777767 99999999999999999988764

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.

>PRK13543 cytochrome c biogenesis protein CcmA; Provisional

Probab=96.34  E-value=0.041  Score=48.85  Aligned_cols=25  Identities=40%  Similarity=0.446  Sum_probs=22.8

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ....++|.|+.|.|||||++.++..
T Consensus        36 ~Ge~~~i~G~nGsGKSTLl~~i~G~   60 (214)
T PRK13543         36 AGEALLVQGDNGAGKTTLLRVLAGL   60 (214)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCC
Confidence            6789999999999999999999864

>PRK12678 transcription termination factor Rho; Provisional

Probab=96.32  E-value=0.0082  Score=59.86  Aligned_cols=41  Identities=27%  Similarity=0.108  Sum_probs=31.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcc-eeEEEeechh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFK-GSCFLENIRE  148 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~-~~~~~~~~~~  148 (429)
                      ..+..+|+|++|+|||||++.+++.+..+++ ..+++..+.+
T Consensus       415 kGQR~LIvgpp~aGKTtLL~~IAn~i~~n~~~~~~ivvLIgE  456 (672)
T PRK12678        415 KGQRGLIVSPPKAGKTTILQNIANAITTNNPECHLMVVLVDE  456 (672)
T ss_pred             cCCEeEEeCCCCCCHHHHHHHHHHHHhhcCCCeEEEEEEEeC
Confidence            6788999999999999999999998765443 3344444443

>PRK14528 adenylate kinase; Provisional

Probab=96.32  E-value=0.017  Score=50.04  Aligned_cols=24  Identities=29%  Similarity=0.429  Sum_probs=21.5

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHh
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      +.+.|.|++|+||||+|+.++..+
T Consensus         2 ~~i~i~G~pGsGKtt~a~~la~~~   25 (186)
T PRK14528          2 KNIIFMGPPGAGKGTQAKILCERL   25 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            468999999999999999998775

>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=96.30  E-value=0.01  Score=49.94  Aligned_cols=123  Identities=19%  Similarity=0.174  Sum_probs=63.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcC---CCCCCCHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKD---VNVIPHIDLNFRRL  184 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~~~~~l~~~l  184 (429)
                      ...+++|.|+.|.|||||++.++..+. .....+++.... ..  .......    ...+.-.   .......-.+...+
T Consensus        24 ~g~~~~i~G~nGsGKStll~~l~g~~~-~~~G~i~~~~~~-~~--~~~~~~~----~~~i~~~~qlS~G~~~r~~l~~~l   95 (157)
T cd00267          24 AGEIVALVGPNGSGKSTLLRAIAGLLK-PTSGEILIDGKD-IA--KLPLEEL----RRRIGYVPQLSGGQRQRVALARAL   95 (157)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCC-CCccEEEECCEE-cc--cCCHHHH----HhceEEEeeCCHHHHHHHHHHHHH
Confidence            567999999999999999999987543 233444443211 00  0001110    0001000   00000011155556


Q ss_pred             cCCcEEEEecCCC---CHHHHHHHhccCCCC-CCCCEEEEEeCChhhhhhcCCCeEEEc
Q 048064          185 SCRKVLIVLDDVT---CLNQIESLVGSLDRL-LPESRILITTRNKQVLRNCHINQIYEM  239 (429)
Q Consensus       185 ~~~~~LlVlDdv~---~~~~~~~l~~~l~~~-~~~~~iiiTtR~~~~~~~~~~~~~~~l  239 (429)
                      ...+-++++|+..   +......+...+... ..+..++++|.+....... ..+.+.+
T Consensus        96 ~~~~~i~ilDEp~~~lD~~~~~~l~~~l~~~~~~~~tii~~sh~~~~~~~~-~d~i~~l  153 (157)
T cd00267          96 LLNPDLLLLDEPTSGLDPASRERLLELLRELAEEGRTVIIVTHDPELAELA-ADRVIVL  153 (157)
T ss_pred             hcCCCEEEEeCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHHHHh-CCEEEEE
Confidence            6678899999984   333333333333211 2246688888777665553 2344444

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.

>PRK13894 conjugal transfer ATPase TrbB; Provisional

Probab=96.30  E-value=0.022  Score=53.70  Aligned_cols=94  Identities=19%  Similarity=0.153  Sum_probs=53.9

Q ss_pred             HHHhhcCCCEEEEEcCCCcchHHHHHHHHHHhhcCc--ceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHH
Q 048064          102 IQSLLGAAPLLGIWGIGGIGKTTIARVIFNRISRNF--KGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDL  179 (429)
Q Consensus       102 l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f--~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~  179 (429)
                      |...+.....+.|+|++|+||||+++.++..+....  ...+.+.+..+......+..        ++ .........+.
T Consensus       141 L~~~v~~~~~ilI~G~tGSGKTTll~aL~~~~~~~~~~~rivtIEd~~El~~~~~~~v--------~~-~~~~~~~~~~l  211 (319)
T PRK13894        141 IIAAVRAHRNILVIGGTGSGKTTLVNAIINEMVIQDPTERVFIIEDTGEIQCAAENYV--------QY-HTSIDVNMTAL  211 (319)
T ss_pred             HHHHHHcCCeEEEECCCCCCHHHHHHHHHHhhhhcCCCceEEEEcCCCccccCCCCEE--------EE-ecCCCCCHHHH
Confidence            333344778999999999999999999998653211  22233332222110000000        00 00111222334


Q ss_pred             HHHHhcCCcEEEEecCCCCHHHHHH
Q 048064          180 NFRRLSCRKVLIVLDDVTCLNQIES  204 (429)
Q Consensus       180 l~~~l~~~~~LlVlDdv~~~~~~~~  204 (429)
                      +...|+..+=.||+.++...+.+..
T Consensus       212 l~~aLR~~PD~IivGEiR~~Ea~~~  236 (319)
T PRK13894        212 LKTTLRMRPDRILVGEVRGPEALDL  236 (319)
T ss_pred             HHHHhcCCCCEEEEeccCCHHHHHH
Confidence            7777888888999999988876653

>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]

Probab=96.30  E-value=0.04  Score=51.62  Aligned_cols=39  Identities=23%  Similarity=0.178  Sum_probs=28.7

Q ss_pred             ccchhhHHHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHH
Q 048064           92 LVGVESRVEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIF  130 (429)
Q Consensus        92 ~vGR~~~~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~  130 (429)
                      +-+|..+-.--.++|.  +...|.+.|.+|+|||-||.+..
T Consensus       226 i~prn~eQ~~ALdlLld~dI~lV~L~G~AGtGKTlLALaAg  266 (436)
T COG1875         226 IRPRNAEQRVALDLLLDDDIDLVSLGGKAGTGKTLLALAAG  266 (436)
T ss_pred             cCcccHHHHHHHHHhcCCCCCeEEeeccCCccHhHHHHHHH
Confidence            4455555555555555  78899999999999998887644

>TIGR03411 urea_trans_UrtD urea ABC transporter, ATP-binding protein UrtD

Probab=96.29  E-value=0.055  Score=49.07  Aligned_cols=25  Identities=40%  Similarity=0.478  Sum_probs=22.6

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ...+++|.|+.|.|||||.+.++-.
T Consensus        27 ~Ge~~~l~G~nGsGKSTLl~~l~G~   51 (242)
T TIGR03411        27 PGELRVIIGPNGAGKTTMMDVITGK   51 (242)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCC
Confidence            6678999999999999999998864

Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.

>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=96.29  E-value=0.0059  Score=51.91  Aligned_cols=24  Identities=29%  Similarity=0.537  Sum_probs=20.9

Q ss_pred             EEEEcCCCcchHHHHHHHHHHhhc
Q 048064          112 LGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      +.|.|++|+|||||++.+++.++.
T Consensus         2 i~iTG~pG~GKTTll~k~i~~l~~   25 (168)
T PF03266_consen    2 IFITGPPGVGKTTLLKKVIEELKK   25 (168)
T ss_dssp             EEEES-TTSSHHHHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHHhhc
Confidence            789999999999999999998754

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.

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A

Probab=96.28  E-value=0.009  Score=53.55  Aligned_cols=36  Identities=36%  Similarity=0.386  Sum_probs=24.9

Q ss_pred             HHHHHHHhhcCCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064           98 RVEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus        98 ~~~~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ..+.+...+....+..|+|++|+||||++..+...+
T Consensus         6 Q~~Ai~~~~~~~~~~~i~GpPGTGKT~~l~~~i~~~   41 (236)
T PF13086_consen    6 QREAIQSALSSNGITLIQGPPGTGKTTTLASIIAQL   41 (236)
T ss_dssp             HHHHHHHHCTSSE-EEEE-STTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCCEEEECCCCCChHHHHHHHHHHh
Confidence            344555555444469999999999998888877776

>PRK09544 znuC high-affinity zinc transporter ATPase; Reviewed

Probab=96.27  E-value=0.037  Score=50.53  Aligned_cols=26  Identities=31%  Similarity=0.634  Sum_probs=23.2

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ...+++|.|+.|.|||||++.++...
T Consensus        29 ~Ge~~~I~G~NGsGKSTLl~~i~Gl~   54 (251)
T PRK09544         29 PGKILTLLGPNGAGKSTLVRVVLGLV   54 (251)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            67889999999999999999988743

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

Probab=96.27  E-value=0.0069  Score=49.80  Aligned_cols=34  Identities=26%  Similarity=0.515  Sum_probs=25.8

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhhcC-cceeEEE
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRISRN-FKGSCFL  143 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~~~-f~~~~~~  143 (429)
                      ++|.|+|+.|+|||||++.+.+.+..+ +...++.
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~l~~~g~~v~~ik   35 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINELKRRGYRVAVIK   35 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHhHcCCceEEEE
Confidence            479999999999999999999998754 4433343

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

Probab=96.26  E-value=0.0078  Score=55.29  Aligned_cols=37  Identities=22%  Similarity=0.209  Sum_probs=32.8

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEe
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLE  144 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  144 (429)
                      ..+++.|+|.+|+|||+++.+++.....+...++|+.
T Consensus        22 ~g~~~lI~G~pGsGKT~f~~qfl~~~~~~ge~vlyvs   58 (260)
T COG0467          22 RGSVVLITGPPGTGKTIFALQFLYEGAREGEPVLYVS   58 (260)
T ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHHHhcCCcEEEEE
Confidence            6789999999999999999999999888866677765

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=96.26  E-value=0.0064  Score=59.37  Aligned_cols=47  Identities=17%  Similarity=0.206  Sum_probs=37.2

Q ss_pred             CCcccchhhHHHHHHHhhc------------------CCCEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064           89 KNELVGVESRVEEIQSLLG------------------AAPLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~------------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      ...++|.+..++.+...+.                  ....+.++|++|+|||++|+.++..+..
T Consensus        70 ~~~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l~~  134 (412)
T PRK05342         70 DQYVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARILDV  134 (412)
T ss_pred             hhHeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Confidence            3568999998888865541                  2356999999999999999999987643

>KOG0066 consensus eIF2-interacting protein ABC50 (ABC superfamily) [Translation, ribosomal structure and biogenesis]

Probab=96.25  E-value=0.041  Score=52.71  Aligned_cols=25  Identities=24%  Similarity=0.571  Sum_probs=21.9

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ....|+|+||.|+|||||.+.+.-.
T Consensus       612 mdSRiaIVGPNGVGKSTlLkLL~Gk  636 (807)
T KOG0066|consen  612 MDSRIAIVGPNGVGKSTLLKLLIGK  636 (807)
T ss_pred             ccceeEEECCCCccHHHHHHHHhcC
Confidence            4567999999999999999988864

>PRK13947 shikimate kinase; Provisional

Probab=96.24  E-value=0.0038  Score=53.28  Aligned_cols=24  Identities=29%  Similarity=0.457  Sum_probs=22.0

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHhh
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      .|.|+|++|+||||+|+.+++.+.
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~lg   26 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTLS   26 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhC
Confidence            489999999999999999999874

>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=96.23  E-value=0.0055  Score=54.68  Aligned_cols=24  Identities=42%  Similarity=0.613  Sum_probs=22.0

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHhh
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      +|+|.|++|+||||||+.+...+.
T Consensus         1 IigI~G~sGSGKTTla~~L~~~l~   24 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQALLS   24 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHHHh
Confidence            489999999999999999998875

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>TIGR03740 galliderm_ABC gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit

Probab=96.23  E-value=0.032  Score=49.91  Aligned_cols=25  Identities=28%  Similarity=0.533  Sum_probs=22.6

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ...+++|.|+.|.|||||++.++..
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~G~   49 (223)
T TIGR03740        25 KNSVYGLLGPNGAGKSTLLKMITGI   49 (223)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCC
Confidence            6779999999999999999998874

Model TIGR03731 represents the family of all lantibiotics related to gallidermin, including epidermin, mutatin, and nisin. This protein family describes the ATP-binding subunit of a gallidermin/epidermin class lantibiotic protection transporter. It is largely restricted to gallidermin-family lantibiotic biosynthesis and export cassettes, but also occurs in orphan transporter cassettes in species that lack candidate lantibiotic precursor and synthetase genes.

>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=96.22  E-value=0.0038  Score=51.67  Aligned_cols=23  Identities=30%  Similarity=0.650  Sum_probs=21.3

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHh
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      +|+|.|++|+||||+|+.++..+
T Consensus         1 ~I~i~G~~GsGKst~a~~la~~~   23 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAKKL   23 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999999876

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=96.22  E-value=0.031  Score=53.50  Aligned_cols=26  Identities=27%  Similarity=0.392  Sum_probs=20.5

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      .+++.++||.|+||||....++.++.
T Consensus       203 ~~vi~LVGPTGVGKTTTlAKLAar~~  228 (407)
T COG1419         203 KRVIALVGPTGVGKTTTLAKLAARYV  228 (407)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHHHH
Confidence            89999999999999965555555543

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

Probab=96.22  E-value=0.0035  Score=52.27  Aligned_cols=23  Identities=26%  Similarity=0.702  Sum_probs=20.6

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHh
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ++.|+|++|+||||+|+.+....
T Consensus         1 li~l~G~~GsGKST~a~~l~~~~   23 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAERL   23 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhhc
Confidence            47899999999999999998874

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

>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+)

Probab=96.19  E-value=0.0036  Score=54.11  Aligned_cols=23  Identities=35%  Similarity=0.645  Sum_probs=21.2

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHh
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      +|+|.|.+|+||||+|+.++..+
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~~   23 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRIL   23 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            58999999999999999999875

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.

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=96.18  E-value=0.02  Score=58.49  Aligned_cols=25  Identities=24%  Similarity=0.364  Sum_probs=22.8

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ....++|+|+.|+|||||++.+..-
T Consensus       360 ~G~~vaIvG~SGsGKSTLl~lL~g~  384 (529)
T TIGR02868       360 PGERVAILGPSGSGKSTLLMLLTGL  384 (529)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            7889999999999999999988763

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.

>PRK03846 adenylylsulfate kinase; Provisional

Probab=96.18  E-value=0.0073  Score=52.99  Aligned_cols=36  Identities=22%  Similarity=0.282  Sum_probs=28.3

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEE
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFL  143 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  143 (429)
                      .+.+++|+|++|+||||||+.+...+.......+++
T Consensus        23 ~~~~i~i~G~~GsGKSTla~~l~~~l~~~~~~~~~l   58 (198)
T PRK03846         23 KGVVLWFTGLSGSGKSTVAGALEEALHELGVSTYLL   58 (198)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHhCCCCEEEE
Confidence            567899999999999999999999875443334444

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=96.16  E-value=0.0039  Score=51.14  Aligned_cols=26  Identities=27%  Similarity=0.561  Sum_probs=21.9

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      .++|+|++|+|||||++.++..+...
T Consensus         1 ~i~i~GpsGsGKstl~~~L~~~~~~~   26 (137)
T cd00071           1 LIVLSGPSGVGKSTLLKRLLEEFDPN   26 (137)
T ss_pred             CEEEECCCCCCHHHHHHHHHhcCCcc
Confidence            37899999999999999999875433

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.

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=96.16  E-value=0.0047  Score=53.20  Aligned_cols=25  Identities=28%  Similarity=0.393  Sum_probs=22.3

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      .+++|.|++|+|||||++.++..+.
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.

>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional

Probab=96.14  E-value=0.025  Score=57.11  Aligned_cols=44  Identities=23%  Similarity=0.363  Sum_probs=38.3

Q ss_pred             CCcccchhhHHHHHHHhhc----CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064           89 KNELVGVESRVEEIQSLLG----AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~----~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ...++|....++++.+.+.    ....|.|+|++|+||+.+|+.+.+.
T Consensus       218 f~~iiG~S~~m~~~~~~i~~~A~s~~pVLI~GE~GTGKe~~A~~IH~~  265 (538)
T PRK15424        218 LGDLLGQSPQMEQVRQTILLYARSSAAVLIQGETGTGKELAAQAIHRE  265 (538)
T ss_pred             hhheeeCCHHHHHHHHHHHHHhCCCCcEEEECCCCCCHHHHHHHHHHh
Confidence            3459999999998888775    6678999999999999999999876

>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component

Probab=96.14  E-value=0.0085  Score=52.68  Aligned_cols=25  Identities=28%  Similarity=0.525  Sum_probs=22.8

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ....++|.|+.|.|||||.+.++..
T Consensus        25 ~Ge~~~i~G~nGsGKStLl~~l~G~   49 (200)
T cd03217          25 KGEVHALMGPNGSGKSTLAKTIMGH   49 (200)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCC
Confidence            6789999999999999999998875

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.

>cd01135 V_A-ATPase_B V/A-type ATP synthase (non-catalytic) subunit B

Probab=96.12  E-value=0.047  Score=49.86  Aligned_cols=90  Identities=14%  Similarity=0.188  Sum_probs=51.5

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhh---cCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcC-------CCCCCCH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRIS---RNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKD-------VNVIPHI  177 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~---~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-------~~~~~~~  177 (429)
                      ..+.++|.|.+|+|||+|+..++++..   ......+.+..+.+.   ......+...+...-...       .......
T Consensus        68 ~GQR~gIfgg~GvGKt~L~~~i~~~~~~~~~~~~~v~V~~~IGeR---~rev~e~~~~~~~~~~l~~tv~v~~t~~~~~~  144 (276)
T cd01135          68 RGQKIPIFSGSGLPHNELAAQIARQAGVVGEEENFAVVFAAMGIT---MEDARFFKDDFEETGALERVVLFLNLANDPTI  144 (276)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHhhhccccCCCCEEEEEEeccc---cHHHHHHHHHhhhcCCcceEEEEEecCCCCHH
Confidence            678899999999999999999888753   111233334334432   234555555554432111       0111111


Q ss_pred             HH---------HHHHh---cCCcEEEEecCCCCHH
Q 048064          178 DL---------NFRRL---SCRKVLIVLDDVTCLN  200 (429)
Q Consensus       178 ~~---------l~~~l---~~~~~LlVlDdv~~~~  200 (429)
                      ..         +.+++   .++++|+++||+-...
T Consensus       145 ~r~~a~~~a~aiAEyfrd~~g~~VLl~~D~ltr~A  179 (276)
T cd01135         145 ERIITPRMALTTAEYLAYEKGKHVLVILTDMTNYA  179 (276)
T ss_pred             HHHHHHHHHHHHHHHHHhccCCeEEEEEcChhHHH
Confidence            11         33443   3689999999996443

These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria. This subfamily consists of the non-catalytic beta subunit.

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=96.11  E-value=0.0041  Score=54.60  Aligned_cols=23  Identities=43%  Similarity=0.709  Sum_probs=21.1

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHh
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      +|+|.|++|+|||||++.+...+
T Consensus         1 iigi~G~~GsGKSTl~~~l~~~l   23 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIEQL   23 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999998876

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=96.11  E-value=0.0048  Score=51.54  Aligned_cols=20  Identities=40%  Similarity=0.740  Sum_probs=18.7

Q ss_pred             EEEEEcCCCcchHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIF  130 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~  130 (429)
                      .|+|+|.||+||||++..+.
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            58999999999999999887

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=96.10  E-value=0.005  Score=53.26  Aligned_cols=26  Identities=31%  Similarity=0.478  Sum_probs=23.8

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ..+|+|-||-|+||||||+.+++++.
T Consensus         4 ~~~IvI~G~IG~GKSTLa~~La~~l~   29 (216)
T COG1428           4 AMVIVIEGMIGAGKSTLAQALAEHLG   29 (216)
T ss_pred             ccEEEEecccccCHHHHHHHHHHHhC
Confidence            46899999999999999999999875

>TIGR03305 alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit beta

Probab=96.09  E-value=0.031  Score=54.81  Aligned_cols=89  Identities=17%  Similarity=0.223  Sum_probs=51.5

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcC-------CCCCCCHHH-
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKD-------VNVIPHIDL-  179 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-------~~~~~~~~~-  179 (429)
                      ..+.++|.|.+|+|||+|+.+++..........+.+..+.+.   ......+.+.+...-...       ....+.... 
T Consensus       137 kGQr~~Ifg~~G~GKt~l~~~~~~~~~~~~~~v~V~~~iGeR---~rEv~e~~~~~~~~~~l~rtvvv~~ts~~~~~~r~  213 (449)
T TIGR03305       137 RGGKAGLFGGAGVGKTVLLTEMIHNMVGQHQGVSIFCGIGER---CREGEELYREMKEAGVLDNTVMVFGQMNEPPGARF  213 (449)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHHHHhcCCCEEEEEEeccC---cHHHHHHHHHHhhccccceEEEEEeCCCCCHHHHH
Confidence            678899999999999999999988765332233333334332   223444444444321111       111111111 


Q ss_pred             --------HHHHh---cCCcEEEEecCCCCH
Q 048064          180 --------NFRRL---SCRKVLIVLDDVTCL  199 (429)
Q Consensus       180 --------l~~~l---~~~~~LlVlDdv~~~  199 (429)
                              +.+++   +++++||++||+-..
T Consensus       214 ~~~~~a~tiAEyfrd~~G~~VLl~~DslTR~  244 (449)
T TIGR03305       214 RVGHTALTMAEYFRDDEKQDVLLLIDNIFRF  244 (449)
T ss_pred             HHHHHHHHHHHHHHHhcCCceEEEecChHHH
Confidence                    44444   458999999999544

A small number of taxonomically diverse prokaryotic species have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 beta subunit of this apparent second ATP synthase.

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=96.09  E-value=0.018  Score=51.69  Aligned_cols=37  Identities=24%  Similarity=0.229  Sum_probs=29.0

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcC-cceeEEEe
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRN-FKGSCFLE  144 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-f~~~~~~~  144 (429)
                      ...++.|.|++|+|||+|+.+++.....+ -..++|+.
T Consensus        18 ~gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs   55 (226)
T PF06745_consen   18 KGSVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVS   55 (226)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEE
T ss_pred             CCcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEE
Confidence            67899999999999999999988766555 45566665

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 ....

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.09  E-value=0.071  Score=53.75  Aligned_cols=168  Identities=21%  Similarity=0.286  Sum_probs=90.9

Q ss_pred             CcccchhhHHHHHHHhhc---------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhh-c
Q 048064           90 NELVGVESRVEEIQSLLG---------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQK-A  153 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~---------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~-~  153 (429)
                      ..+-|-...+..+.....               .++-+.+||++|+|||-++++++++..    ..+|..+..+.-.. .
T Consensus       184 ~~~gg~~~~~~~i~e~v~~pl~~~~~~~s~g~~~prg~Ll~gppg~Gkt~l~~aVa~e~~----a~~~~i~~peli~k~~  259 (693)
T KOG0730|consen  184 DDIGGLKRQLSVIRELVELPLRHPALFKSIGIKPPRGLLLYGPPGTGKTFLVRAVANEYG----AFLFLINGPELISKFP  259 (693)
T ss_pred             cccchhHHHHHHHHHHHHhhhcchhhhhhcCCCCCCCccccCCCCCChHHHHHHHHHHhC----ceeEecccHHHHHhcc
Confidence            355666666666666543               567899999999999999999998764    33444433321110 0


Q ss_pred             CCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCC-cEEEEecCCCCHH------------HHHHHhccCCCCCCCCEEE-
Q 048064          154 GGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCR-KVLIVLDDVTCLN------------QIESLVGSLDRLLPESRIL-  219 (429)
Q Consensus       154 ~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~-~~LlVlDdv~~~~------------~~~~l~~~l~~~~~~~~ii-  219 (429)
                      .......+.                .+.+..+.+ +.++.+|+++...            ....++..+...++.+++| 
T Consensus       260 gEte~~LR~----------------~f~~a~k~~~psii~IdEld~l~p~r~~~~~~e~Rv~sqlltL~dg~~~~~~viv  323 (693)
T KOG0730|consen  260 GETESNLRK----------------AFAEALKFQVPSIIFIDELDALCPKREGADDVESRVVSQLLTLLDGLKPDAKVIV  323 (693)
T ss_pred             cchHHHHHH----------------HHHHHhccCCCeeEeHHhHhhhCCcccccchHHHHHHHHHHHHHhhCcCcCcEEE
Confidence            111111111                233445556 8899999986432            1223333333334444433 


Q ss_pred             -EEeCChhhhh-hc---CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCCh
Q 048064          220 -ITTRNKQVLR-NC---HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVP  280 (429)
Q Consensus       220 -iTtR~~~~~~-~~---~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  280 (429)
                       -||+.+.-+. ..   .....+.+.-.+..+-.++++...-.-...   .......++..+.|.-
T Consensus       324 l~atnrp~sld~alRRgRfd~ev~IgiP~~~~RldIl~~l~k~~~~~---~~~~l~~iA~~thGyv  386 (693)
T KOG0730|consen  324 LAATNRPDSLDPALRRGRFDREVEIGIPGSDGRLDILRVLTKKMNLL---SDVDLEDIAVSTHGYV  386 (693)
T ss_pred             EEecCCccccChhhhcCCCcceeeecCCCchhHHHHHHHHHHhcCCc---chhhHHHHHHHccchh
Confidence             3665543221 11   233456666667677777776654222222   1123556666776664

>PRK14530 adenylate kinase; Provisional

Probab=96.09  E-value=0.0059  Score=54.35  Aligned_cols=25  Identities=24%  Similarity=0.355  Sum_probs=22.4

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      .+.|+|.|++|+||||+|+.++..+
T Consensus         3 ~~~I~i~G~pGsGKsT~~~~La~~~   27 (215)
T PRK14530          3 QPRILLLGAPGAGKGTQSSNLAEEF   27 (215)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            3568999999999999999999876

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=96.08  E-value=0.013  Score=52.75  Aligned_cols=37  Identities=16%  Similarity=0.146  Sum_probs=29.4

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEe
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLE  144 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  144 (429)
                      ....+.|.|++|+|||+|+.+++.........++|+.
T Consensus        19 ~G~~~~i~G~~G~GKT~l~~~~~~~~~~~g~~~~~is   55 (229)
T TIGR03881        19 RGFFVAVTGEPGTGKTIFCLHFAYKGLRDGDPVIYVT   55 (229)
T ss_pred             CCeEEEEECCCCCChHHHHHHHHHHHHhcCCeEEEEE
Confidence            5788999999999999999998876544445566665

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.

>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]

Probab=96.07  E-value=0.014  Score=58.53  Aligned_cols=124  Identities=17%  Similarity=0.174  Sum_probs=67.0

Q ss_pred             hHHHHHHHhhcCCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCC-C---
Q 048064           97 SRVEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDV-N---  172 (429)
Q Consensus        97 ~~~~~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~---  172 (429)
                      +..++|...+...+++.|.|..|+||||=.-++..+..-.-...+-+..-+..     ....+++......+... .   
T Consensus        54 ~~r~~il~~ve~nqvlIviGeTGsGKSTQipQyL~eaG~~~~g~I~~TQPRRV-----AavslA~RVAeE~~~~lG~~VG  128 (674)
T KOG0922|consen   54 KYRDQILYAVEDNQVLIVIGETGSGKSTQIPQYLAEAGFASSGKIACTQPRRV-----AAVSLAKRVAEEMGCQLGEEVG  128 (674)
T ss_pred             HHHHHHHHHHHHCCEEEEEcCCCCCccccHhHHHHhcccccCCcEEeecCchH-----HHHHHHHHHHHHhCCCcCceee
Confidence            44556666666899999999999999987777776532111122333322222     12334444444443320 0   


Q ss_pred             -------CCCC---H----H--HHHHHhcC----CcEEEEecCCCCHHH----HHHHhccCCCCCCCCEEEEEeCCh
Q 048064          173 -------VIPH---I----D--LNFRRLSC----RKVLIVLDDVTCLNQ----IESLVGSLDRLLPESRILITTRNK  225 (429)
Q Consensus       173 -------~~~~---~----~--~l~~~l~~----~~~LlVlDdv~~~~~----~~~l~~~l~~~~~~~~iiiTtR~~  225 (429)
                             ..+.   +    +  .+++.+.+    +--+||||++++-..    +-.++..+....+..|+||+|-.-
T Consensus       129 Y~IRFed~ts~~TrikymTDG~LLRE~l~Dp~LskYsvIIlDEAHERsl~TDiLlGlLKki~~~R~~LklIimSATl  205 (674)
T KOG0922|consen  129 YTIRFEDSTSKDTRIKYMTDGMLLREILKDPLLSKYSVIILDEAHERSLHTDILLGLLKKILKKRPDLKLIIMSATL  205 (674)
T ss_pred             eEEEecccCCCceeEEEecchHHHHHHhcCCccccccEEEEechhhhhhHHHHHHHHHHHHHhcCCCceEEEEeeee
Confidence                   0000   0    0  05555544    345899999985542    222333333335667999977543

>PRK06217 hypothetical protein; Validated

Probab=96.07  E-value=0.0048  Score=53.39  Aligned_cols=24  Identities=29%  Similarity=0.482  Sum_probs=21.8

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHhh
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      .|.|.|.+|+||||+|+.++..+.
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l~   26 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERLD   26 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            589999999999999999998763

>PRK13949 shikimate kinase; Provisional

Probab=96.06  E-value=0.0059  Score=52.07  Aligned_cols=25  Identities=24%  Similarity=0.393  Sum_probs=22.4

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      +.|.|+|++|+||||+++.++..+.
T Consensus         2 ~~I~liG~~GsGKstl~~~La~~l~   26 (169)
T PRK13949          2 ARIFLVGYMGAGKTTLGKALARELG   26 (169)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcC
Confidence            3589999999999999999998864

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

Probab=96.05  E-value=0.012  Score=52.69  Aligned_cols=30  Identities=20%  Similarity=0.154  Sum_probs=25.7

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCc
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNF  137 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f  137 (429)
                      ...++.|+|++|+|||+||.+++.......
T Consensus        18 ~g~v~~I~G~~GsGKT~l~~~ia~~~~~~~   47 (226)
T cd01393          18 TGRITEIFGEFGSGKTQLCLQLAVEAQLPG   47 (226)
T ss_pred             CCcEEEEeCCCCCChhHHHHHHHHHhhccc
Confidence            578999999999999999999988765443

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.

>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA

Probab=96.04  E-value=0.042  Score=58.15  Aligned_cols=32  Identities=19%  Similarity=0.306  Sum_probs=26.0

Q ss_pred             hhcCCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          105 LLGAAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       105 ~l~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      .+.+.+++.|.|.+|+||||+++.+...+...
T Consensus       364 i~~s~~~~il~G~aGTGKTtll~~i~~~~~~~  395 (744)
T TIGR02768       364 VTGSGDIAVVVGRAGTGKSTMLKAAREAWEAA  395 (744)
T ss_pred             HhcCCCEEEEEecCCCCHHHHHHHHHHHHHhC
Confidence            33356799999999999999999988766543

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.

>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=96.03  E-value=0.067  Score=48.16  Aligned_cols=26  Identities=31%  Similarity=0.437  Sum_probs=23.3

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ....++|.|+.|.|||||.+.++...
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~g~~   50 (232)
T cd03300          25 EGEFFTLLGPSGCGKTTLLRLIAGFE   50 (232)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            67899999999999999999998753

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.

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

Probab=96.03  E-value=0.032  Score=47.47  Aligned_cols=52  Identities=10%  Similarity=0.090  Sum_probs=34.9

Q ss_pred             HHHHhcCCcEEEEecCC----CCHHHHHHHhccCC-CCCCCCEEEEEeCChhhhhhcC
Q 048064          180 NFRRLSCRKVLIVLDDV----TCLNQIESLVGSLD-RLLPESRILITTRNKQVLRNCH  232 (429)
Q Consensus       180 l~~~l~~~~~LlVlDdv----~~~~~~~~l~~~l~-~~~~~~~iiiTtR~~~~~~~~~  232 (429)
                      +.+.+-+++-+|+-|+-    |....|+- +..+. -...|..|+++|-+..+...+.
T Consensus       148 IARAiV~~P~vLlADEPTGNLDp~~s~~i-m~lfeeinr~GtTVl~ATHd~~lv~~~~  204 (223)
T COG2884         148 IARAIVNQPAVLLADEPTGNLDPDLSWEI-MRLFEEINRLGTTVLMATHDLELVNRMR  204 (223)
T ss_pred             HHHHHccCCCeEeecCCCCCCChHHHHHH-HHHHHHHhhcCcEEEEEeccHHHHHhcc
Confidence            67777789999999975    33333332 22222 1246888999999998887763

>cd03287 ABC_MSH3_euk MutS3 homolog in eukaryotes

Probab=96.03  E-value=0.0059  Score=54.43  Aligned_cols=24  Identities=21%  Similarity=-0.004  Sum_probs=21.6

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ..++++|.|+.|.||||+.+.++-
T Consensus        30 ~g~~~~itG~N~~GKStll~~i~~   53 (222)
T cd03287          30 GGYCQIITGPNMGGKSSYIRQVAL   53 (222)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            467899999999999999998877

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

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=96.02  E-value=0.014  Score=53.79  Aligned_cols=35  Identities=20%  Similarity=0.255  Sum_probs=29.2

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEE
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCF  142 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~  142 (429)
                      +..++.|.|.+|.|||||+..+...+.......+.
T Consensus       103 ~~~~v~l~G~pGsGKTTLl~~l~~~l~~~~~~~VI  137 (290)
T PRK10463        103 KQLVLNLVSSPGSGKTTLLTETLMRLKDSVPCAVI  137 (290)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhccCCCEEEE
Confidence            78899999999999999999999988766544443

>CHL00060 atpB ATP synthase CF1 beta subunit

Probab=96.02  E-value=0.036  Score=54.76  Aligned_cols=55  Identities=20%  Similarity=0.339  Sum_probs=36.0

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLS  165 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~  165 (429)
                      ..+.++|.|.+|+|||+|+..++..+.+.....+.+..+++.   ......+...++.
T Consensus       160 kGQR~gIfgg~GvGKs~L~~~~~~~~~~~~~dv~V~~lIGER---grEv~efi~~~~~  214 (494)
T CHL00060        160 RGGKIGLFGGAGVGKTVLIMELINNIAKAHGGVSVFGGVGER---TREGNDLYMEMKE  214 (494)
T ss_pred             cCCEEeeecCCCCChhHHHHHHHHHHHHhcCCeEEEEEeccC---chHHHHHHHHHHh
Confidence            678899999999999999999988754332334444444433   2234445554444

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=96.02  E-value=0.006  Score=53.30  Aligned_cols=25  Identities=36%  Similarity=0.436  Sum_probs=22.6

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ..++.|.|.+|+||||+|+.++.+.
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~~~   27 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIARHR   27 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999999999874

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=96.01  E-value=0.032  Score=58.30  Aligned_cols=24  Identities=25%  Similarity=0.506  Sum_probs=22.3

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ....|+|+|..|+|||||++.+..
T Consensus       498 ~Ge~vaIvG~SGsGKSTL~KLL~g  521 (709)
T COG2274         498 PGEKVAIVGRSGSGKSTLLKLLLG  521 (709)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            778999999999999999998876

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

Probab=95.99  E-value=0.011  Score=49.48  Aligned_cols=35  Identities=20%  Similarity=0.270  Sum_probs=28.7

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEE
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCF  142 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~  142 (429)
                      ...++.+.|.+|.||||+|.++.+.+....-....
T Consensus        22 ~~~viW~TGLSGsGKSTiA~ale~~L~~~G~~~y~   56 (197)
T COG0529          22 KGAVIWFTGLSGSGKSTIANALEEKLFAKGYHVYL   56 (197)
T ss_pred             CCeEEEeecCCCCCHHHHHHHHHHHHHHcCCeEEE
Confidence            45689999999999999999999998766544433

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=95.99  E-value=0.011  Score=47.08  Aligned_cols=26  Identities=27%  Similarity=0.494  Sum_probs=22.3

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      .+-++..+|++|+|||.+++.+++.+
T Consensus        52 KpLVlSfHG~tGtGKn~v~~liA~~l   77 (127)
T PF06309_consen   52 KPLVLSFHGWTGTGKNFVSRLIAEHL   77 (127)
T ss_pred             CCEEEEeecCCCCcHHHHHHHHHHHH
Confidence            34567899999999999999999874

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

>PRK13948 shikimate kinase; Provisional

Probab=95.98  E-value=0.0072  Score=52.05  Aligned_cols=27  Identities=19%  Similarity=0.305  Sum_probs=24.3

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ..+.|.++|+.|+||||+++.+++++.
T Consensus         9 ~~~~I~LiG~~GsGKSTvg~~La~~lg   35 (182)
T PRK13948          9 PVTWVALAGFMGTGKSRIGWELSRALM   35 (182)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHcC
Confidence            467899999999999999999998864

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=95.98  E-value=0.0076  Score=54.98  Aligned_cols=26  Identities=27%  Similarity=0.590  Sum_probs=22.8

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      .|.++|++|+||||+|+.++..+...
T Consensus         1 LIvl~G~pGSGKST~a~~La~~l~~~   26 (249)
T TIGR03574         1 LIILTGLPGVGKSTFSKELAKKLSEK   26 (249)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            37899999999999999999987543

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.

>PRK13764 ATPase; Provisional

Probab=95.98  E-value=0.033  Score=56.77  Aligned_cols=86  Identities=16%  Similarity=0.089  Sum_probs=50.3

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHH-HHHHhcC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDL-NFRRLSC  186 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~-l~~~l~~  186 (429)
                      ....+.|+|++|+||||+++.+++.+..+...+..+.+..+... ....        .+..   ........ ....|+.
T Consensus       256 ~~~~ILIsG~TGSGKTTll~AL~~~i~~~~riV~TiEDp~El~~-~~~i--------~q~~---~~~~~~~~~~~~lLR~  323 (602)
T PRK13764        256 RAEGILIAGAPGAGKSTFAQALAEFYADMGKIVKTMESPRDLQV-PPEI--------TQYS---KLEGSMEETADILLLV  323 (602)
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHHHhhCCCEEEEECCCccccC-CCcc--------eEEe---eccccHHHHHHHHHhh
Confidence            56779999999999999999999887644322223332222111 0000        0000   00011111 2233667


Q ss_pred             CcEEEEecCCCCHHHHHHH
Q 048064          187 RKVLIVLDDVTCLNQIESL  205 (429)
Q Consensus       187 ~~~LlVlDdv~~~~~~~~l  205 (429)
                      ++=.+++|++.+.+.++.+
T Consensus       324 rPD~IivGEiRd~Et~~~~  342 (602)
T PRK13764        324 RPDYTIYDEMRKTEDFKIF  342 (602)
T ss_pred             CCCEEEECCCCCHHHHHHH
Confidence            7889999999988887654

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=95.98  E-value=0.0047  Score=52.32  Aligned_cols=22  Identities=36%  Similarity=0.679  Sum_probs=20.0

Q ss_pred             EEEEcCCCcchHHHHHHHHHHh
Q 048064          112 LGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ++|+|++|+||||+|+.+...+
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.

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=95.98  E-value=0.0059  Score=52.38  Aligned_cols=23  Identities=30%  Similarity=0.501  Sum_probs=21.1

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHh
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      .|.|.|++|.||||+|+.+++++
T Consensus         2 riiilG~pGaGK~T~A~~La~~~   24 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKL   24 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999999984

>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants

Probab=95.98  E-value=0.0063  Score=50.84  Aligned_cols=22  Identities=32%  Similarity=0.611  Sum_probs=20.6

Q ss_pred             EEEEcCCCcchHHHHHHHHHHh
Q 048064          112 LGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      |.|+|++|+||||+|+.++..+
T Consensus         2 i~l~G~~GsGKstla~~la~~l   23 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKAL   23 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHh
Confidence            7899999999999999999876

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.

>PHA02774 E1; Provisional

Probab=95.97  E-value=0.025  Score=56.65  Aligned_cols=38  Identities=18%  Similarity=0.280  Sum_probs=30.0

Q ss_pred             hHHHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064           97 SRVEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus        97 ~~~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      .-+..|..++.   ...-+.|+||+|+|||.+|..+++-+.
T Consensus       419 ~fl~~lk~~l~~~PKknciv~~GPP~TGKS~fa~sL~~~L~  459 (613)
T PHA02774        419 SFLTALKDFLKGIPKKNCLVIYGPPDTGKSMFCMSLIKFLK  459 (613)
T ss_pred             HHHHHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHhC
Confidence            34566666666   345799999999999999999998764

>PRK14527 adenylate kinase; Provisional

Probab=95.96  E-value=0.0072  Score=52.68  Aligned_cols=26  Identities=23%  Similarity=0.268  Sum_probs=23.3

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ...++.|+|++|+||||+|+.++++.
T Consensus         5 ~~~~i~i~G~pGsGKsT~a~~La~~~   30 (191)
T PRK14527          5 KNKVVIFLGPPGAGKGTQAERLAQEL   30 (191)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            45789999999999999999998765

>PRK00300 gmk guanylate kinase; Provisional

Probab=95.96  E-value=0.0067  Score=53.49  Aligned_cols=26  Identities=27%  Similarity=0.474  Sum_probs=23.4

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ...+++|+|++|+|||||++.++...
T Consensus         4 ~g~~i~i~G~sGsGKstl~~~l~~~~   29 (205)
T PRK00300          4 RGLLIVLSGPSGAGKSTLVKALLERD   29 (205)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            45789999999999999999999865

>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop

Probab=95.95  E-value=0.011  Score=47.17  Aligned_cols=33  Identities=24%  Similarity=0.345  Sum_probs=27.2

Q ss_pred             HHHHhhcCCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          101 EIQSLLGAAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       101 ~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      .|.+.+....+|.+.|.=|.||||+++.++..+
T Consensus         7 ~l~~~l~~g~vi~L~GdLGaGKTtf~r~l~~~l   39 (123)
T PF02367_consen    7 KLAQILKPGDVILLSGDLGAGKTTFVRGLARAL   39 (123)
T ss_dssp             HHHHHHSS-EEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             HHHHhCCCCCEEEEECCCCCCHHHHHHHHHHHc
Confidence            445555578899999999999999999999865

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.

>TIGR03263 guanyl_kin guanylate kinase

Probab=95.95  E-value=0.006  Score=52.54  Aligned_cols=24  Identities=29%  Similarity=0.526  Sum_probs=21.8

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHh
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ++++|+|++|+|||||++.++...
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~~~   25 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLEED   25 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHccC
Confidence            579999999999999999999854

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.

>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=95.94  E-value=0.014  Score=54.30  Aligned_cols=52  Identities=29%  Similarity=0.290  Sum_probs=40.7

Q ss_pred             CCCCcccchhhHHHH---HHHhhc----CCCEEEEEcCCCcchHHHHHHHHHHhhcCcc
Q 048064           87 DSKNELVGVESRVEE---IQSLLG----AAPLLGIWGIGGIGKTTIARVIFNRISRNFK  138 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~---l~~~l~----~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~  138 (429)
                      .....|||.....+.   +.+++.    ..+.|.|+|++|.|||+||..+++.+...-+
T Consensus        36 ~~~dG~VGQ~~AReAaGvIv~mik~gk~aGrgiLi~GppgTGKTAlA~gIa~eLG~dvP   94 (450)
T COG1224          36 FIGDGLVGQEEAREAAGVIVKMIKQGKMAGRGILIVGPPGTGKTALAMGIARELGEDVP   94 (450)
T ss_pred             EcCCcccchHHHHHhhhHHHHHHHhCcccccEEEEECCCCCcHHHHHHHHHHHhCCCCC
Confidence            556789998876553   334443    6789999999999999999999999876543

>TIGR03522 GldA_ABC_ATP gliding motility-associated ABC transporter ATP-binding subunit GldA

Probab=95.94  E-value=0.087  Score=49.51  Aligned_cols=25  Identities=28%  Similarity=0.529  Sum_probs=22.5

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ...+++|.|+.|.|||||.+.++..
T Consensus        27 ~Gei~~l~G~NGaGKTTLl~~l~Gl   51 (301)
T TIGR03522        27 KGRIVGFLGPNGAGKSTTMKIITGY   51 (301)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCC
Confidence            5678999999999999999998864

Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldA is an ABC transporter ATP-binding protein (pfam00005) linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Knockouts of GldA abolish the gliding phenotype. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Bacteroidetes with members of this protein family appear to have all of the genes associated with gliding motility.

>PRK13946 shikimate kinase; Provisional

Probab=95.93  E-value=0.0076  Score=52.19  Aligned_cols=27  Identities=22%  Similarity=0.383  Sum_probs=24.0

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ..+.|++.|++|+||||+++.+++++.
T Consensus         9 ~~~~I~l~G~~GsGKsti~~~LA~~Lg   35 (184)
T PRK13946          9 GKRTVVLVGLMGAGKSTVGRRLATMLG   35 (184)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHcC
Confidence            356799999999999999999999873

>PRK04328 hypothetical protein; Provisional

Probab=95.93  E-value=0.014  Score=53.11  Aligned_cols=37  Identities=11%  Similarity=0.098  Sum_probs=29.5

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEe
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLE  144 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  144 (429)
                      ...++.|.|++|+|||+|+.+++.....+-..++|+.
T Consensus        22 ~gs~ili~G~pGsGKT~l~~~fl~~~~~~ge~~lyis   58 (249)
T PRK04328         22 ERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGVYVA   58 (249)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEE
Confidence            5788999999999999999998887544445556654

>PRK13657 cyclic beta-1,2-glucan ABC transporter; Provisional

Probab=95.92  E-value=0.037  Score=57.34  Aligned_cols=25  Identities=24%  Similarity=0.376  Sum_probs=22.8

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      +...++|+|+.|.|||||++.+...
T Consensus       360 ~G~~v~IvG~sGsGKSTLl~lL~gl  384 (588)
T PRK13657        360 PGQTVAIVGPTGAGKSTLINLLQRV  384 (588)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            7789999999999999999988863

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=95.92  E-value=0.012  Score=53.09  Aligned_cols=26  Identities=23%  Similarity=0.376  Sum_probs=23.2

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ...++.|+|++|+|||+||.+++...
T Consensus        18 ~g~i~~i~G~~GsGKT~l~~~l~~~~   43 (235)
T cd01123          18 TGSITEIFGEFGSGKTQLCHQLAVTV   43 (235)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHe
Confidence            56789999999999999999998654

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 .

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

Probab=95.92  E-value=0.0092  Score=53.44  Aligned_cols=31  Identities=19%  Similarity=0.318  Sum_probs=26.6

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcc
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFK  138 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~  138 (429)
                      .+..+.++||+|+||||+++.+..++..+..
T Consensus        18 ~p~~ilVvGMAGSGKTTF~QrL~~hl~~~~~   48 (366)
T KOG1532|consen   18 RPVIILVVGMAGSGKTTFMQRLNSHLHAKKT   48 (366)
T ss_pred             CCcEEEEEecCCCCchhHHHHHHHHHhhccC
Confidence            4667899999999999999999998876654

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=95.92  E-value=0.011  Score=50.17  Aligned_cols=25  Identities=24%  Similarity=0.486  Sum_probs=22.8

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ..++.|.||+|+|||||++.+..+.
T Consensus         4 G~l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           4 GLLIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhc
Confidence            4678999999999999999999876

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=95.90  E-value=0.013  Score=49.73  Aligned_cols=29  Identities=31%  Similarity=0.488  Sum_probs=25.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ..++++|+|+.|+|||||+..+...+...
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~~l~~~   33 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIPALCAR   33 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHHHHhhc
Confidence            35689999999999999999999887653

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=95.90  E-value=0.0096  Score=56.40  Aligned_cols=47  Identities=19%  Similarity=0.198  Sum_probs=38.5

Q ss_pred             CCCCcccchhhHHHHHHHhh-c-CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064           87 DSKNELVGVESRVEEIQSLL-G-AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l-~-~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      .+...++|.+..++.+.-.+ . +..-+.+.|++|+||||+|+.++.-+
T Consensus         5 ~~f~~i~Gq~~~~~~l~~~~~~~~~~~vLl~G~pG~gKT~lar~la~ll   53 (334)
T PRK13407          5 FPFSAIVGQEEMKQAMVLTAIDPGIGGVLVFGDRGTGKSTAVRALAALL   53 (334)
T ss_pred             CCHHHhCCHHHHHHHHHHHHhccCCCcEEEEcCCCCCHHHHHHHHHHHC
Confidence            44567899999999877544 3 55789999999999999999998854

>PRK14737 gmk guanylate kinase; Provisional

Probab=95.90  E-value=0.0069  Score=52.50  Aligned_cols=26  Identities=27%  Similarity=0.406  Sum_probs=23.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      +.+++.|+|++|+|||||++.+..+.
T Consensus         3 ~~~~ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          3 SPKLFIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhcC
Confidence            45789999999999999999998764

>TIGR02012 tigrfam_recA protein RecA

Probab=95.90  E-value=0.011  Score=55.47  Aligned_cols=37  Identities=22%  Similarity=0.346  Sum_probs=30.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEe
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLE  144 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  144 (429)
                      ..+++.|+|++|+||||||.+++......-..++|+.
T Consensus        54 ~G~iteI~G~~GsGKTtLaL~~~~~~~~~g~~v~yId   90 (321)
T TIGR02012        54 RGRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFID   90 (321)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEc
Confidence            5678999999999999999999888766555556653

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.

>cd03282 ABC_MSH4_euk MutS4 homolog in eukaryotes

Probab=95.90  E-value=0.013  Score=51.57  Aligned_cols=24  Identities=25%  Similarity=0.117  Sum_probs=21.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ..++++|.|+.|.||||+.+.++.
T Consensus        28 ~~~~~~l~G~n~~GKstll~~i~~   51 (204)
T cd03282          28 SSRFHIITGPNMSGKSTYLKQIAL   51 (204)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            347899999999999999998765

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

>PF08298 AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 This is entry is found at the N terminus of PrkA proteins - bacterial and archaeal serine kinases approximately 630 residues in length

Probab=95.89  E-value=0.012  Score=55.26  Aligned_cols=48  Identities=21%  Similarity=0.392  Sum_probs=42.2

Q ss_pred             CCcccchhhHHHHHHHhhc--------CCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064           89 KNELVGVESRVEEIQSLLG--------AAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~--------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ...|+|.++.++++.+.+.        ..+++.++||.|.|||||+..+.+-+.+.
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            3589999999999999886        67899999999999999999988876544

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

>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family

Probab=95.88  E-value=0.0032  Score=54.58  Aligned_cols=21  Identities=29%  Similarity=0.097  Sum_probs=18.8

Q ss_pred             EEEEEcCCCcchHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ++.|+|+.|.||||+.+.++-
T Consensus         1 ~~~ltG~N~~GKst~l~~i~~   21 (185)
T smart00534        1 VVIITGPNMGGKSTYLRQVGL   21 (185)
T ss_pred             CEEEECCCCCcHHHHHHHHHH
Confidence            468999999999999999884

>cd03243 ABC_MutS_homologs The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch

Probab=95.88  E-value=0.0047  Score=54.39  Aligned_cols=24  Identities=38%  Similarity=0.177  Sum_probs=21.5

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      +..+++|+|+.|.|||||.+.++.
T Consensus        28 ~~~~~~l~G~Ng~GKStll~~i~~   51 (202)
T cd03243          28 SGRLLLITGPNMGGKSTYLRSIGL   51 (202)
T ss_pred             CCeEEEEECCCCCccHHHHHHHHH
Confidence            347899999999999999999984

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

>cd00046 DEXDc DEAD-like helicases superfamily

Probab=95.87  E-value=0.022  Score=46.09  Aligned_cols=34  Identities=18%  Similarity=-0.019  Sum_probs=24.9

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHhhcC--cceeEEEe
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRISRN--FKGSCFLE  144 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~~~~--f~~~~~~~  144 (429)
                      .+.|+|++|+|||+.+..++.+....  ....+++.
T Consensus         2 ~~~i~~~~G~GKT~~~~~~~~~~~~~~~~~~~lv~~   37 (144)
T cd00046           2 DVLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLA   37 (144)
T ss_pred             CEEEECCCCCchhHHHHHHHHHHHhcccCCCEEEEc
Confidence            47899999999999999888876542  33444443

A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.

>PRK15453 phosphoribulokinase; Provisional

Probab=95.87  E-value=0.013  Score=53.53  Aligned_cols=28  Identities=29%  Similarity=0.516  Sum_probs=24.4

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      ...+|+|.|.+|+||||+|+.+++.+..
T Consensus         4 k~piI~ItG~SGsGKTTva~~l~~if~~   31 (290)
T PRK15453          4 KHPIIAVTGSSGAGTTTVKRAFEKIFRR   31 (290)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            3578999999999999999999987654

>PRK13900 type IV secretion system ATPase VirB11; Provisional

Probab=95.86  E-value=0.021  Score=54.27  Aligned_cols=94  Identities=20%  Similarity=0.115  Sum_probs=53.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhh-cCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQK-AGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSC  186 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~  186 (429)
                      ....+.|+|++|+||||++..+...+..+ ...+.+.+..+.... ..+...+   +..............+.+...|+.
T Consensus       159 ~~~nili~G~tgSGKTTll~aL~~~ip~~-~ri~tiEd~~El~l~~~~n~~~~---~~~~~~~~~~~~~~~~ll~~~LR~  234 (332)
T PRK13900        159 SKKNIIISGGTSTGKTTFTNAALREIPAI-ERLITVEDAREIVLSNHPNRVHL---LASKGGQGRAKVTTQDLIEACLRL  234 (332)
T ss_pred             cCCcEEEECCCCCCHHHHHHHHHhhCCCC-CeEEEecCCCccccccCCCEEEE---EecCCCCCcCcCcHHHHHHHHhcc
Confidence            78899999999999999999998876443 223333222221100 0000000   000000001112223347778888


Q ss_pred             CcEEEEecCCCCHHHHHHH
Q 048064          187 RKVLIVLDDVTCLNQIESL  205 (429)
Q Consensus       187 ~~~LlVlDdv~~~~~~~~l  205 (429)
                      .+=.+|++++...+.+..+
T Consensus       235 ~PD~IivGEiR~~ea~~~l  253 (332)
T PRK13900        235 RPDRIIVGELRGAEAFSFL  253 (332)
T ss_pred             CCCeEEEEecCCHHHHHHH
Confidence            8999999999988766543

>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX)

Probab=95.86  E-value=0.013  Score=56.91  Aligned_cols=47  Identities=17%  Similarity=0.222  Sum_probs=37.2

Q ss_pred             CCCcccchhhHHHHHHHhhc--------------------CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064           88 SKNELVGVESRVEEIQSLLG--------------------AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus        88 ~~~~~vGR~~~~~~l~~~l~--------------------~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ....++|.+...+.+...+.                    ....+.++|++|+|||++|+.++..+.
T Consensus        75 L~~~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~~l~  141 (413)
T TIGR00382        75 LDEYVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLARILN  141 (413)
T ss_pred             hcceecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHHhcC
Confidence            34668999988888866541                    135799999999999999999998764

A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=95.85  E-value=0.0069  Score=49.16  Aligned_cols=25  Identities=28%  Similarity=0.445  Sum_probs=21.9

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      .+-|.|+|-||+|||||+.+++...
T Consensus         7 ~PNILvtGTPG~GKstl~~~lae~~   31 (176)
T KOG3347|consen    7 RPNILVTGTPGTGKSTLAERLAEKT   31 (176)
T ss_pred             CCCEEEeCCCCCCchhHHHHHHHHh
Confidence            4568999999999999999999653

>PRK11174 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=95.84  E-value=0.03  Score=58.03  Aligned_cols=26  Identities=23%  Similarity=0.447  Sum_probs=23.5

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ....++|+|+.|.|||||++.+..-+
T Consensus       375 ~G~~vaIvG~SGsGKSTL~~lL~g~~  400 (588)
T PRK11174        375 AGQRIALVGPSGAGKTSLLNALLGFL  400 (588)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            77899999999999999999987754

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=95.84  E-value=0.05  Score=54.84  Aligned_cols=131  Identities=16%  Similarity=0.201  Sum_probs=68.0

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcc-------e-eEEEeechhhhhhcCCH------------HHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFK-------G-SCFLENIREESQKAGGL------------AFLQQKLLSEV  167 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~-------~-~~~~~~~~~~~~~~~~~------------~~~~~~l~~~~  167 (429)
                      ....|+|+|+.|+|||||.+.+.......-.       . ..++..-.........+            ....+..+..+
T Consensus       347 ~g~riaiiG~NG~GKSTLlk~l~g~~~~~~G~v~~g~~v~igyf~Q~~~~l~~~~t~~d~l~~~~~~~~e~~~r~~L~~f  426 (530)
T COG0488         347 RGDRIAIVGPNGAGKSTLLKLLAGELGPLSGTVKVGETVKIGYFDQHRDELDPDKTVLEELSEGFPDGDEQEVRAYLGRF  426 (530)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhhhcccCCceEEeCCceEEEEEEehhhhcCccCcHHHHHHhhCccccHHHHHHHHHHc
Confidence            6778999999999999999999765432210       0 11111110000000001            22222222222


Q ss_pred             hcCC-CCCCCHHH----------HHHHhcCCcEEEEecCCC---CHHHHHHHhccCCCCCCCCEEEEEeCChhhhhhcCC
Q 048064          168 LKDV-NVIPHIDL----------NFRRLSCRKVLIVLDDVT---CLNQIESLVGSLDRLLPESRILITTRNKQVLRNCHI  233 (429)
Q Consensus       168 ~~~~-~~~~~~~~----------l~~~l~~~~~LlVlDdv~---~~~~~~~l~~~l~~~~~~~~iiiTtR~~~~~~~~~~  233 (429)
                      +-.. .....+..          +...+-..+-+||||+--   +.+..+.+...+..  -.+.||+.|-++....... 
T Consensus       427 ~F~~~~~~~~v~~LSGGEk~Rl~La~ll~~~pNvLiLDEPTNhLDi~s~~aLe~aL~~--f~Gtvl~VSHDr~Fl~~va-  503 (530)
T COG0488         427 GFTGEDQEKPVGVLSGGEKARLLLAKLLLQPPNLLLLDEPTNHLDIESLEALEEALLD--FEGTVLLVSHDRYFLDRVA-  503 (530)
T ss_pred             CCChHHHhCchhhcCHhHHHHHHHHHHhccCCCEEEEcCCCccCCHHHHHHHHHHHHh--CCCeEEEEeCCHHHHHhhc-
Confidence            2211 01111111          555566788899999874   33444444444442  2334888888888877764 


Q ss_pred             CeEEEcCC
Q 048064          234 NQIYEMKG  241 (429)
Q Consensus       234 ~~~~~l~~  241 (429)
                      .+++.+.+
T Consensus       504 ~~i~~~~~  511 (530)
T COG0488         504 TRIWLVED  511 (530)
T ss_pred             ceEEEEcC
Confidence            45555554

>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=95.83  E-value=0.019  Score=51.56  Aligned_cols=29  Identities=28%  Similarity=0.507  Sum_probs=24.4

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ...+|+|.|+||.|||||...+...+.+.
T Consensus        28 ~a~~iGiTG~PGaGKSTli~~l~~~~~~~   56 (266)
T PF03308_consen   28 RAHVIGITGPPGAGKSTLIDALIRELRER   56 (266)
T ss_dssp             -SEEEEEEE-TTSSHHHHHHHHHHHHHHT
T ss_pred             CceEEEeeCCCCCcHHHHHHHHHHHHhhc
Confidence            56789999999999999999999988765

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.

>PLN02674 adenylate kinase

Probab=95.83  E-value=0.034  Score=50.12  Aligned_cols=25  Identities=28%  Similarity=0.266  Sum_probs=21.9

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ...|.|.|++|+||||+|+.++.++
T Consensus        31 ~~~i~l~G~PGsGKgT~a~~La~~~   55 (244)
T PLN02674         31 DKRLILIGPPGSGKGTQSPIIKDEY   55 (244)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHc
Confidence            3568899999999999999998865

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=95.83  E-value=0.016  Score=58.19  Aligned_cols=46  Identities=17%  Similarity=0.296  Sum_probs=35.9

Q ss_pred             HHHHHHhhc----CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEe
Q 048064           99 VEEIQSLLG----AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLE  144 (429)
Q Consensus        99 ~~~l~~~l~----~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  144 (429)
                      +..|.++|.    ...++.|.|++|+|||||+.++++....+-..++++.
T Consensus       249 i~~lD~~lgGG~~~gs~~li~G~~G~GKt~l~~~f~~~~~~~ge~~~y~s  298 (484)
T TIGR02655       249 VVRLDEMCGGGFFKDSIILATGATGTGKTLLVSKFLENACANKERAILFA  298 (484)
T ss_pred             hHhHHHHhcCCccCCcEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEE
Confidence            445666665    6789999999999999999999998766655555554

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.

>TIGR03375 type_I_sec_LssB type I secretion system ATPase, LssB family

Probab=95.83  E-value=0.084  Score=55.86  Aligned_cols=25  Identities=24%  Similarity=0.403  Sum_probs=22.6

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ....++|+|+.|+|||||++.++.-
T Consensus       490 ~G~~iaIvG~sGsGKSTLlklL~gl  514 (694)
T TIGR03375       490 PGEKVAIIGRIGSGKSTLLKLLLGL  514 (694)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            6789999999999999999988763

Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N-terminus, but rather carry signals located toward the extreme C-terminus to direct type I secretion. This model is related to models TIGR01842 and TIGR01846, and to bacteriocin ABC transporters that cleave their substrates during export.

>KOG0732 consensus AAA+-type ATPase containing the bromodomain [Posttranslational modification, protein turnover, chaperones]

Probab=95.82  E-value=0.23  Score=53.28  Aligned_cols=54  Identities=22%  Similarity=0.347  Sum_probs=39.6

Q ss_pred             CcccchhhHHHHHHHhhc---------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEE
Q 048064           90 NELVGVESRVEEIQSLLG---------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFL  143 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~---------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  143 (429)
                      +.+=|-+..+++|.++..               .++-|..+|++|.|||-.|++++.........+.|+
T Consensus       265 d~vggl~~~i~~LKEmVl~PLlyPE~f~~~~itpPrgvL~~GppGTGkTl~araLa~~~s~~~~kisff  333 (1080)
T KOG0732|consen  265 DSVGGLENYINQLKEMVLLPLLYPEFFDNFNITPPRGVLFHGPPGTGKTLMARALAAACSRGNRKISFF  333 (1080)
T ss_pred             cccccHHHHHHHHHHHHHhHhhhhhHhhhcccCCCcceeecCCCCCchhHHHHhhhhhhcccccccchh
Confidence            344556667777777653               577899999999999999999998766555444443

>KOG0927 consensus Predicted transporter (ABC superfamily) [General function prediction only]

Probab=95.82  E-value=0.037  Score=54.45  Aligned_cols=51  Identities=24%  Similarity=0.213  Sum_probs=33.7

Q ss_pred             HHHHhcCCcEEEEecCCC---CHHHHHHHhccCCCCCCCCEEEEEeCChhhhhhc
Q 048064          180 NFRRLSCRKVLIVLDDVT---CLNQIESLVGSLDRLLPESRILITTRNKQVLRNC  231 (429)
Q Consensus       180 l~~~l~~~~~LlVlDdv~---~~~~~~~l~~~l~~~~~~~~iiiTtR~~~~~~~~  231 (429)
                      |.+.|=.+|-||.||+--   +.+....+-..|..+..+ .++|++++.+.++.+
T Consensus       232 LAr~Lf~kP~LLLLDEPtnhLDleA~~wLee~L~k~d~~-~lVi~sh~QDfln~v  285 (614)
T KOG0927|consen  232 LARALFQKPDLLLLDEPTNHLDLEAIVWLEEYLAKYDRI-ILVIVSHSQDFLNGV  285 (614)
T ss_pred             HHHHHhcCCCEEEecCCccCCCHHHHHHHHHHHHhccCc-eEEEEecchhhhhhH
Confidence            334445688999999984   445555555555433333 688899998777664

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=95.81  E-value=0.0092  Score=51.03  Aligned_cols=25  Identities=28%  Similarity=0.359  Sum_probs=22.6

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ...|+|+|+.|.||||+++.++..+
T Consensus         4 ~~~I~liG~~GaGKStl~~~La~~l   28 (172)
T PRK05057          4 KRNIFLVGPMGAGKSTIGRQLAQQL   28 (172)
T ss_pred             CCEEEEECCCCcCHHHHHHHHHHHc
Confidence            4579999999999999999999875

>PRK10875 recD exonuclease V subunit alpha; Provisional

Probab=95.80  E-value=0.083  Score=54.35  Aligned_cols=28  Identities=25%  Similarity=0.265  Sum_probs=24.2

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      ..++..|.|.+|+||||++..+...+..
T Consensus       166 ~~~~~vItGgpGTGKTt~v~~ll~~l~~  193 (615)
T PRK10875        166 TRRISVISGGPGTGKTTTVAKLLAALIQ  193 (615)
T ss_pred             cCCeEEEEeCCCCCHHHHHHHHHHHHHH
Confidence            5689999999999999999998876643

>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]

Probab=95.80  E-value=0.051  Score=57.47  Aligned_cols=151  Identities=14%  Similarity=0.071  Sum_probs=80.2

Q ss_pred             HHHHHHhhcCCCEEEEEcCCCcchHHHHHHHHHHh--hcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCC-C--
Q 048064           99 VEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFNRI--SRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVN-V--  173 (429)
Q Consensus        99 ~~~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~--~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~--  173 (429)
                      .+++.+.+...+++.|.|..|+||||-+-++.-+.  ...-.+.+....-+..+     ...+++.+......... .  
T Consensus       178 r~~Il~~i~~~qVvvIsGeTGcGKTTQvpQfiLd~~~~~~~~~~IicTQPRRIs-----AIsvAeRVa~ER~~~~g~~VG  252 (924)
T KOG0920|consen  178 RDTILDAIEENQVVVISGETGCGKTTQVPQFILDEAIESGAACNIICTQPRRIS-----AISVAERVAKERGESLGEEVG  252 (924)
T ss_pred             HHHHHHHHHhCceEEEeCCCCCCchhhhhHHHHHHHHhcCCCCeEEecCCchHH-----HHHHHHHHHHHhccccCCeee
Confidence            44555555578999999999999998877765532  22222233333223222     22333333332211100 0  


Q ss_pred             --------C--------CCHHHHHHHhcCCcE-----EEEecCCCCHH----HHHHHhccCCCCCCCCEEEEE---eCCh
Q 048064          174 --------I--------PHIDLNFRRLSCRKV-----LIVLDDVTCLN----QIESLVGSLDRLLPESRILIT---TRNK  225 (429)
Q Consensus       174 --------~--------~~~~~l~~~l~~~~~-----LlVlDdv~~~~----~~~~l~~~l~~~~~~~~iiiT---tR~~  225 (429)
                              .        .....+.+.|.+.+.     -+|+|+|++-+    -+--++..+....++.+||+-   -..+
T Consensus       253 Yqvrl~~~~s~~t~L~fcTtGvLLr~L~~~~~l~~vthiivDEVHER~i~~DflLi~lk~lL~~~p~LkvILMSAT~dae  332 (924)
T KOG0920|consen  253 YQVRLESKRSRETRLLFCTTGVLLRRLQSDPTLSGVTHIIVDEVHERSINTDFLLILLKDLLPRNPDLKVILMSATLDAE  332 (924)
T ss_pred             EEEeeecccCCceeEEEecHHHHHHHhccCcccccCceeeeeeEEEccCCcccHHHHHHHHhhhCCCceEEEeeeecchH
Confidence                    0        011226666766543     69999996432    222222233333588898873   3333


Q ss_pred             hhhhhcCCCeEEEcCCCCHHHHHHHHHHh
Q 048064          226 QVLRNCHINQIYEMKGLGDDHALELFIRH  254 (429)
Q Consensus       226 ~~~~~~~~~~~~~l~~L~~~ea~~L~~~~  254 (429)
                      .....++...++.+++.+.+-..-++...
T Consensus       333 ~fs~YF~~~pvi~i~grtfpV~~~fLEDi  361 (924)
T KOG0920|consen  333 LFSDYFGGCPVITIPGRTFPVKEYFLEDI  361 (924)
T ss_pred             HHHHHhCCCceEeecCCCcchHHHHHHHH
Confidence            33444566667888887766555444443

>PRK14531 adenylate kinase; Provisional

Probab=95.79  E-value=0.0093  Score=51.61  Aligned_cols=24  Identities=29%  Similarity=0.192  Sum_probs=21.9

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHh
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      +.|.|+|++|+||||+++.++..+
T Consensus         3 ~~i~i~G~pGsGKsT~~~~la~~~   26 (183)
T PRK14531          3 QRLLFLGPPGAGKGTQAARLCAAH   26 (183)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            468999999999999999999875

>TIGR01287 nifH nitrogenase iron protein

Probab=95.78  E-value=0.013  Score=54.27  Aligned_cols=37  Identities=24%  Similarity=0.379  Sum_probs=28.0

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeech
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIR  147 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~  147 (429)
                      +.|+|+|-||+||||++..++..+...- ..+.+.+..
T Consensus         1 ~~ia~~gKGGVGKTT~a~nLA~~La~~G-~~VlliD~D   37 (275)
T TIGR01287         1 RQIAIYGKGGIGKSTTTQNIAAALAEMG-KKVMIVGCD   37 (275)
T ss_pred             CeeEEeCCCcCcHHHHHHHHHHHHHHCC-CeEEEEeCC
Confidence            5789999999999999999999876653 334444443

This model describes nitrogenase (EC 1.18.6.1) iron protein, also called nitrogenase reductase or nitrogenase component II. This model includes molybdenum-iron nitrogenase reductase (nifH), vanadium-iron nitrogenase reductase (vnfH), and iron-iron nitrogenase reductase (anfH). The model excludes the homologous protein from the light-independent protochlorophyllide reductase.

>PLN02200 adenylate kinase family protein

Probab=95.78  E-value=0.0088  Score=53.87  Aligned_cols=25  Identities=24%  Similarity=0.199  Sum_probs=22.4

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      +.+++|.|++|+||||+|+.++..+
T Consensus        43 ~~ii~I~G~PGSGKsT~a~~La~~~   67 (234)
T PLN02200         43 PFITFVLGGPGSGKGTQCEKIVETF   67 (234)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHh
Confidence            4678999999999999999998865

>PRK05439 pantothenate kinase; Provisional

Probab=95.77  E-value=0.015  Score=54.43  Aligned_cols=28  Identities=36%  Similarity=0.522  Sum_probs=24.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      .+-+|+|.|.+|+||||+|+.+...+..
T Consensus        85 ~~~iIgIaG~~gsGKSTla~~L~~~l~~  112 (311)
T PRK05439         85 VPFIIGIAGSVAVGKSTTARLLQALLSR  112 (311)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            4568999999999999999999886653

>TIGR01448 recD_rel helicase, putative, RecD/TraA family

Probab=95.76  E-value=0.062  Score=56.70  Aligned_cols=29  Identities=31%  Similarity=0.323  Sum_probs=25.0

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ..+++.|.|.+|+||||+++.+...+...
T Consensus       337 ~~~~~iitGgpGTGKTt~l~~i~~~~~~~  365 (720)
T TIGR01448       337 QHKVVILTGGPGTGKTTITRAIIELAEEL  365 (720)
T ss_pred             hCCeEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            56799999999999999999998876544

This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.

>PRK06761 hypothetical protein; Provisional

Probab=95.76  E-value=0.014  Score=53.79  Aligned_cols=28  Identities=36%  Similarity=0.561  Sum_probs=24.7

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      .+++.|.|++|+||||+++.+++.+...
T Consensus         3 ~~lIvI~G~~GsGKTTla~~L~~~L~~~   30 (282)
T PRK06761          3 TKLIIIEGLPGFGKSTTAKMLNDILSQN   30 (282)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhcCcC
Confidence            3679999999999999999999987654

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=95.76  E-value=0.016  Score=52.05  Aligned_cols=37  Identities=19%  Similarity=0.208  Sum_probs=28.3

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEe
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLE  144 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  144 (429)
                      ....+.|.|++|+||||||.+++.....+-..++++.
T Consensus        23 ~g~~~~i~G~~G~GKTtl~~~~~~~~~~~g~~~~yi~   59 (230)
T PRK08533         23 AGSLILIEGDESTGKSILSQRLAYGFLQNGYSVSYVS   59 (230)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEe
Confidence            5679999999999999999888776644434455554

>TIGR01818 ntrC nitrogen regulation protein NR(I)

Probab=95.76  E-value=0.25  Score=49.57  Aligned_cols=44  Identities=27%  Similarity=0.424  Sum_probs=34.9

Q ss_pred             CcccchhhHHHHHHHhhc----CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064           90 NELVGVESRVEEIQSLLG----AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~----~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ..++|....+.++.+.+.    ....+.|.|.+|+||+++|+.+....
T Consensus       134 ~~lig~s~~~~~v~~~i~~~a~~~~~vli~Ge~GtGK~~~A~~ih~~~  181 (463)
T TIGR01818       134 AELIGEAPAMQEVFRAIGRLSRSDITVLINGESGTGKELVARALHRHS  181 (463)
T ss_pred             cceeecCHHHHHHHHHHHHHhCcCCeEEEECCCCCCHHHHHHHHHHhC
Confidence            458888877777776654    55678999999999999998887754

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.

>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=95.76  E-value=0.25  Score=47.70  Aligned_cols=29  Identities=24%  Similarity=0.390  Sum_probs=25.5

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      .+.+|.++|.-|.||||.|..+++.++.+
T Consensus        99 ~P~vImmvGLQGsGKTTt~~KLA~~lkk~  127 (451)
T COG0541          99 PPTVILMVGLQGSGKTTTAGKLAKYLKKK  127 (451)
T ss_pred             CCeEEEEEeccCCChHhHHHHHHHHHHHc
Confidence            36789999999999999999999988763

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=95.75  E-value=0.042  Score=55.40  Aligned_cols=50  Identities=30%  Similarity=0.398  Sum_probs=35.1

Q ss_pred             HHHHhcCCcEEEEecCCC---CHHHHHHHhccCCCCCCCCEEEEEeCChhhhhhc
Q 048064          180 NFRRLSCRKVLIVLDDVT---CLNQIESLVGSLDRLLPESRILITTRNKQVLRNC  231 (429)
Q Consensus       180 l~~~l~~~~~LlVlDdv~---~~~~~~~l~~~l~~~~~~~~iiiTtR~~~~~~~~  231 (429)
                      |.+.|-.++=+|+||+--   +.+.+.+|-..+.. -+| .+||.|-++..+..+
T Consensus       164 LA~aL~~~pDlLLLDEPTNHLD~~~i~WLe~~L~~-~~g-tviiVSHDR~FLd~V  216 (530)
T COG0488         164 LARALLEEPDLLLLDEPTNHLDLESIEWLEDYLKR-YPG-TVIVVSHDRYFLDNV  216 (530)
T ss_pred             HHHHHhcCCCEEEEcCCCcccCHHHHHHHHHHHHh-CCC-cEEEEeCCHHHHHHH
Confidence            566667788899999985   33455555555543 334 788899999887775

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=95.75  E-value=0.014  Score=54.11  Aligned_cols=27  Identities=30%  Similarity=0.421  Sum_probs=23.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      .+.+|+|.|+.|+||||+|+.+...+.
T Consensus        61 ~p~IIGIaG~~GSGKSTlar~L~~ll~   87 (290)
T TIGR00554        61 IPYIISIAGSVAVGKSTTARILQALLS   87 (290)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            567899999999999999988776654

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.

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=95.75  E-value=0.008  Score=50.90  Aligned_cols=21  Identities=33%  Similarity=0.359  Sum_probs=17.9

Q ss_pred             EEEEcCCCcchHHHHHHHHHH
Q 048064          112 LGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      |+|.|.+|+|||||+..++.+
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

>TIGR01447 recD exodeoxyribonuclease V, alpha subunit

Probab=95.74  E-value=0.08  Score=54.30  Aligned_cols=28  Identities=25%  Similarity=0.236  Sum_probs=24.2

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      ..++..|.|.+|+||||++..+...+..
T Consensus       159 ~~~~~vitGgpGTGKTt~v~~ll~~l~~  186 (586)
T TIGR01447       159 KSNFSLITGGPGTGKTTTVARLLLALVK  186 (586)
T ss_pred             hCCeEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            5789999999999999999998876543

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.

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=95.73  E-value=0.014  Score=48.92  Aligned_cols=26  Identities=27%  Similarity=0.368  Sum_probs=23.3

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      +++|+|+.|+|||||+..+...++..
T Consensus         1 vi~i~G~~gsGKTtl~~~l~~~l~~~   26 (155)
T TIGR00176         1 VLQIVGPKNSGKTTLIERLVKALKAR   26 (155)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            47899999999999999999988655

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

>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=95.73  E-value=0.0092  Score=47.34  Aligned_cols=21  Identities=29%  Similarity=0.552  Sum_probs=19.4

Q ss_pred             EEEEcCCCcchHHHHHHHHHH
Q 048064          112 LGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      |.|.|.+|+|||||.+.++..
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            789999999999999999874

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.

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=95.73  E-value=0.014  Score=54.85  Aligned_cols=37  Identities=22%  Similarity=0.305  Sum_probs=30.2

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEe
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLE  144 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  144 (429)
                      ..+++-|+|++|+||||||.+++.........++|+.
T Consensus        54 ~G~iteI~Gp~GsGKTtLal~~~~~~~~~g~~~vyId   90 (325)
T cd00983          54 KGRIIEIYGPESSGKTTLALHAIAEAQKLGGTVAFID   90 (325)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEC
Confidence            4678999999999999999999987766555566664

RecA couples ATP hydrolysis to DNA strand exchange.

>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]

Probab=95.70  E-value=0.016  Score=49.54  Aligned_cols=37  Identities=22%  Similarity=0.356  Sum_probs=32.2

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeec
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENI  146 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~  146 (429)
                      ..|.|-|++|+|||+|..+.+..++++|...+...++
T Consensus        14 ~~i~v~Gp~GSGKTaLie~~~~~L~~~~~~aVI~~Di   50 (202)
T COG0378          14 LRIGVGGPPGSGKTALIEKTLRALKDEYKIAVITGDI   50 (202)
T ss_pred             EEEEecCCCCcCHHHHHHHHHHHHHhhCCeEEEecee
Confidence            5899999999999999999999999988876665544

>PF02456 Adeno_IVa2: Adenovirus IVa2 protein; InterPro: IPR003389 Va2 protein can interact with the adenoviral packaging signal and this interaction involves DNA sequences that have previously been demonstrated to be required for packaging []

Probab=95.70  E-value=0.23  Score=45.56  Aligned_cols=35  Identities=17%  Similarity=0.335  Sum_probs=24.3

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHH-HhhcCcceeEEE
Q 048064          109 APLLGIWGIGGIGKTTIARVIFN-RISRNFKGSCFL  143 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~-~~~~~f~~~~~~  143 (429)
                      +-+..|+|+.|+|||+|.+.+.. ++-+.-+..+|+
T Consensus        87 P~I~~VYGPTG~GKSqLlRNLis~~lI~P~PETVfF  122 (369)
T PF02456_consen   87 PFIGVVYGPTGSGKSQLLRNLISCQLIQPPPETVFF  122 (369)
T ss_pred             ceEEEEECCCCCCHHHHHHHhhhcCcccCCCCceEE
Confidence            34567899999999999998765 344444444433

During the course of lytic infection, the adenovirus major late promoter (MLP) is induced to high levels after replication of viral DNA has started. IVa2 is a transcriptional activator of the major late promoter [].; GO: 0019083 viral transcription

>PRK13975 thymidylate kinase; Provisional

Probab=95.70  E-value=0.01  Score=51.93  Aligned_cols=26  Identities=31%  Similarity=0.515  Sum_probs=23.6

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      ..|+|.|+.|+||||+++.+++.+..
T Consensus         3 ~~I~ieG~~GsGKtT~~~~L~~~l~~   28 (196)
T PRK13975          3 KFIVFEGIDGSGKTTQAKLLAEKLNA   28 (196)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            57999999999999999999998853

>PRK13808 adenylate kinase; Provisional

Probab=95.69  E-value=0.035  Score=52.28  Aligned_cols=23  Identities=30%  Similarity=0.338  Sum_probs=20.7

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHh
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      .|.|.|++|+||||++..++..+
T Consensus         2 rIiv~GpPGSGK~T~a~~LA~~y   24 (333)
T PRK13808          2 RLILLGPPGAGKGTQAQRLVQQY   24 (333)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            37899999999999999998865

>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins

Probab=95.68  E-value=0.026  Score=54.53  Aligned_cols=34  Identities=18%  Similarity=0.183  Sum_probs=27.9

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeE
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSC  141 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~  141 (429)
                      ....+.|.|+||+|||+|.+.+.+.++.....++
T Consensus        21 ~~~~~fv~G~~GtGKs~l~~~i~~~~~~~~~~~~   54 (364)
T PF05970_consen   21 EGLNFFVTGPAGTGKSFLIKAIIDYLRSRGKKVL   54 (364)
T ss_pred             CCcEEEEEcCCCCChhHHHHHHHHHhccccceEE
Confidence            6778999999999999999999998866533333

The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].

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

Probab=95.68  E-value=0.013  Score=51.91  Aligned_cols=24  Identities=42%  Similarity=0.634  Sum_probs=22.2

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ....++|+|++|+|||||++.++-
T Consensus        32 ~Ge~lgivGeSGsGKSTL~r~l~G   55 (252)
T COG1124          32 RGETLGIVGESGSGKSTLARLLAG   55 (252)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhc
Confidence            678899999999999999999886

>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator

Probab=95.68  E-value=0.19  Score=50.13  Aligned_cols=44  Identities=18%  Similarity=0.278  Sum_probs=35.8

Q ss_pred             CcccchhhHHHHHHHhhc----CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064           90 NELVGVESRVEEIQSLLG----AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~----~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ..++|....++.+...+.    ....+.|+|..|+||+++|+.+....
T Consensus       139 ~~lig~s~~~~~l~~~i~~~a~~~~~vli~Ge~GtGK~~lA~~ih~~s  186 (445)
T TIGR02915       139 RGLITSSPGMQKICRTIEKIAPSDITVLLLGESGTGKEVLARALHQLS  186 (445)
T ss_pred             cceeecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhC
Confidence            468999988888877665    44567899999999999999887653

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).

>TIGR03796 NHPM_micro_ABC1 NHPM bacteriocin system ABC transporter, peptidase/ATP-binding protein

Probab=95.68  E-value=0.075  Score=56.39  Aligned_cols=25  Identities=28%  Similarity=0.426  Sum_probs=22.7

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ....++|+|+.|+|||||++.++.-
T Consensus       504 ~Ge~vaIvG~sGsGKSTLlklL~gl  528 (710)
T TIGR03796       504 PGQRVALVGGSGSGKSTIAKLVAGL  528 (710)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            6789999999999999999988763

This protein describes an multidomain ABC transporter subunit that is one of three protein families associated with some regularity with a distinctive family of putative bacteriocins. It includes a bacteriocin-processing peptidase domain at the N-terminus. Model TIGR03793 describes a conserved propeptide region for this bacteriocin family, unusual because it shows obvious homology a region of the enzyme nitrile hydratase up to the classic Gly-Gly cleavage motif. This family is therefore predicted to be a subunit of a bacteriocin processing and export system characteristic to this system that we designate NHPM, Nitrile Hydratase Propeptide Microcin.

>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=95.67  E-value=0.012  Score=53.16  Aligned_cols=33  Identities=24%  Similarity=0.393  Sum_probs=22.2

Q ss_pred             EEcCCCcchHHHHHHHHHHhhcCcceeEEEeech
Q 048064          114 IWGIGGIGKTTIARVIFNRISRNFKGSCFLENIR  147 (429)
Q Consensus       114 I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~  147 (429)
                      |.||+|+||||+++.+.+.+.... ..+.+.|+.
T Consensus         1 ViGpaGSGKTT~~~~~~~~~~~~~-~~~~~vNLD   33 (238)
T PF03029_consen    1 VIGPAGSGKTTFCKGLSEWLESNG-RDVYIVNLD   33 (238)
T ss_dssp             -EESTTSSHHHHHHHHHHHHTTT--S-EEEEE--
T ss_pred             CCCCCCCCHHHHHHHHHHHHHhcc-CCceEEEcc
Confidence            689999999999999999876553 334444444

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>KOG2170 consensus ATPase of the AAA+ superfamily [General function prediction only]

Probab=95.67  E-value=0.047  Score=49.82  Aligned_cols=27  Identities=26%  Similarity=0.432  Sum_probs=23.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ++-++.+||.+|+||.-.++.+++.+.
T Consensus       109 KPLvLSfHG~tGTGKN~Va~iiA~n~~  135 (344)
T KOG2170|consen  109 KPLVLSFHGWTGTGKNYVAEIIAENLY  135 (344)
T ss_pred             CCeEEEecCCCCCchhHHHHHHHHHHH
Confidence            455788999999999999999998753

>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]

Probab=95.66  E-value=0.011  Score=49.71  Aligned_cols=28  Identities=29%  Similarity=0.434  Sum_probs=24.3

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhhcCc
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRISRNF  137 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f  137 (429)
                      +.|.++|+.|+||||+.+.+++.+.-+|
T Consensus         3 ~~IvLiG~mGaGKSTIGr~LAk~L~~~F   30 (172)
T COG0703           3 MNIVLIGFMGAGKSTIGRALAKALNLPF   30 (172)
T ss_pred             ccEEEEcCCCCCHhHHHHHHHHHcCCCc
Confidence            5689999999999999999999875554

>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=95.63  E-value=0.011  Score=45.87  Aligned_cols=23  Identities=35%  Similarity=0.331  Sum_probs=20.5

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIF  130 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~  130 (429)
                      ....++|.|++|+|||||+..+.
T Consensus        14 ~ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          14 GKVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             CCEEEEEEcCCCCCHHHHHHHhh
Confidence            45689999999999999999976

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

>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional

Probab=95.62  E-value=0.016  Score=53.33  Aligned_cols=34  Identities=26%  Similarity=0.330  Sum_probs=28.5

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEe
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLE  144 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  144 (429)
                      ++++|+|.+|+|||||+..++..+.++. .+..+.
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            5799999999999999999999988776 444443

>PRK06851 hypothetical protein; Provisional

Probab=95.62  E-value=0.092  Score=50.26  Aligned_cols=50  Identities=18%  Similarity=0.163  Sum_probs=34.6

Q ss_pred             cchhhHHHHHHHhhcCCCEEEEEcCCCcchHHHHHHHHHHhhcC-cceeEEEe
Q 048064           93 VGVESRVEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFNRISRN-FKGSCFLE  144 (429)
Q Consensus        93 vGR~~~~~~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-f~~~~~~~  144 (429)
                      -|.-.-+..+.+-  -.+.+.|.|++|+|||||++.++....++ +...++.+
T Consensus       200 ~G~~s~~~~l~~~--~~~~~~i~G~pG~GKstl~~~i~~~a~~~G~~v~~~hC  250 (367)
T PRK06851        200 KGAVDFVPSLTEG--VKNRYFLKGRPGTGKSTMLKKIAKAAEERGFDVEVYHC  250 (367)
T ss_pred             CcHHhhHHhHhcc--cceEEEEeCCCCCcHHHHHHHHHHHHHhCCCeEEEEeC
Confidence            3444444444422  46789999999999999999999987554 44444444

>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=95.61  E-value=0.017  Score=54.23  Aligned_cols=34  Identities=32%  Similarity=0.441  Sum_probs=26.8

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEE
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFL  143 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  143 (429)
                      +++.+.|-||+||||+|...+-...+.-.....+
T Consensus         2 r~~~~~GKGGVGKTT~aaA~A~~~A~~G~rtLlv   35 (305)
T PF02374_consen    2 RILFFGGKGGVGKTTVAAALALALARRGKRTLLV   35 (305)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHHHTTS-EEEE
T ss_pred             eEEEEecCCCCCcHHHHHHHHHHHhhCCCCeeEe
Confidence            6899999999999999999988876654434444

...

>KOG0058 consensus Peptide exporter, ABC superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.61  E-value=0.057  Score=55.10  Aligned_cols=24  Identities=29%  Similarity=0.566  Sum_probs=21.5

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ...+++++||+|.||||+|..+.+
T Consensus       493 pGe~vALVGPSGsGKSTiasLL~r  516 (716)
T KOG0058|consen  493 PGEVVALVGPSGSGKSTIASLLLR  516 (716)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
Confidence            677999999999999999987665

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=95.61  E-value=0.011  Score=51.39  Aligned_cols=24  Identities=25%  Similarity=0.389  Sum_probs=21.5

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHh
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ..++|+|+.|+|||||++.++...
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~~~   26 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQRE   26 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhccC
Confidence            578999999999999999997754

>PRK14532 adenylate kinase; Provisional

Probab=95.60  E-value=0.0097  Score=51.71  Aligned_cols=22  Identities=27%  Similarity=0.338  Sum_probs=20.2

Q ss_pred             EEEEcCCCcchHHHHHHHHHHh
Q 048064          112 LGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      |.|.|++|+||||+|+.++++.
T Consensus         3 i~~~G~pGsGKsT~a~~la~~~   24 (188)
T PRK14532          3 LILFGPPAAGKGTQAKRLVEER   24 (188)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            7899999999999999998765

>PRK13768 GTPase; Provisional

Probab=95.59  E-value=0.017  Score=52.74  Aligned_cols=27  Identities=22%  Similarity=0.416  Sum_probs=23.6

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      .++.|.|++|+||||++..++..+...
T Consensus         3 ~~i~v~G~~G~GKTt~~~~~~~~l~~~   29 (253)
T PRK13768          3 YIVFFLGTAGSGKTTLTKALSDWLEEQ   29 (253)
T ss_pred             EEEEEECCCCccHHHHHHHHHHHHHhc
Confidence            578999999999999999999877654

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	429
3jrn_A	176	Crystal Structure Of Tir Domain From Arabidopsis Th		4e-08
3ozi_A	204	Crystal Structure Of The Tir Domain From The Flax D		6e-07

>pdb|3JRN|A Chain A, Crystal Structure Of Tir Domain From Arabidopsis Thaliana Length = 176

Iteration: 1
 Score = 55.8 bits (133), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 32/74 (43%), Positives = 45/74 (60%), Gaps = 3/74 (4%)
Query: 7   VIPVFYRVDPSHVRKQIGSFGVSFSK-LKEKFPEKMQRWRSALTEAANLSGFDSFVIRNE 65
           V+P+FY V+P+HVR Q G     F K    + PEK+ +WR ALT  A LSG  S    ++
Sbjct: 98  VMPIFYGVEPNHVRWQTGVLAEQFKKHASREDPEKVLKWRQALTNFAQLSGDCSG--DDD 155
Query: 66  SELIKKVVNDILEK 79
           S+L+ K+ N+I  K
Sbjct: 156 SKLVDKIANEISNK 169

>pdb|3OZI|A Chain A, Crystal Structure Of The Tir Domain From The Flax Disease Resistance Protein L6 Length = 204

Iteration: 1
 Score = 52.0 bits (123), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 27/79 (34%), Positives = 42/79 (53%), Gaps = 1/79 (1%)
Query: 5   QIVIPVFYRVDPSHVRKQIGSFGVSFSKLKEKFP-EKMQRWRSALTEAANLSGFDSFVIR 63
           +I++P+FY VDPS VR Q G +  +F K   KF  + +Q W+ AL +  +L G+      
Sbjct: 124 RIILPIFYMVDPSDVRHQTGCYKKAFRKHANKFDGQTIQNWKDALKKVGDLKGWHIGKND 183
Query: 64  NESELIKKVVNDILEKLPK 82
            +  +  KV  DI   + K
Sbjct: 184 KQGAIADKVSADIWSHISK 202
  Database: pdbaa

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	429
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-40
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-07
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	1e-38
3ozi_A	204	L6TR; plant TIR domain, plant protein; 2.30A {Linu	5e-35
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	3e-34
3jrn_A	176	AT1G72930 protein; TIR domain arabidopsis thaliana	1e-33
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	2e-23
3h16_A	154	TIR protein; bacteria TIR domain, signaling protei	2e-12

>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 =  152 bits (384), Expect = 5e-40
 Identities = 77/413 (18%), Positives = 144/413 (34%), Gaps = 87/413 (21%)

Query: 62  IRNES---ELIKKVVNDILEKLPKVVPCDSKNELVGVESRVEEIQSL------LGAAPLL 112
           I+ E     ++ ++  +  ++L       +K  +    SR++    L      L  A  +
Sbjct: 98  IKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNV----SRLQPYLKLRQALLELRPAKNV 153

Query: 113 GIWGIGGIGKTTIA-RVIFN-RISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKD 170
            I G+ G GKT +A  V  + ++        F  N++  +     L  LQ KLL ++  +
Sbjct: 154 LIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQ-KLLYQIDPN 212

Query: 171 VNVIPHIDLN-----------FRRLSCRKV----LIVLDDVTCLNQIESLVGSLDRLLPE 215
                    N            RRL   K     L+VL +V    Q      + +     
Sbjct: 213 WTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNV----QNAKAWNAFN---LS 265

Query: 216 SRILITTRNKQV------LRNCHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELS 269
            +IL+TTR KQV          HI+  +    L  D    L +        +D   ++L 
Sbjct: 266 CKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLL------KYLDCRPQDLP 319

Query: 270 DKVINYAQGVPLALKILGCYLFERKKE---VWENAIKKLKNFLHQNILDVLKISYDDLDN 326
            +V+      P  L I+     E  ++    W+N     K+     +  +++ S + L+ 
Sbjct: 320 REVL---TTNPRRLSIIA----ESIRDGLATWDN----WKHVNCDKLTTIIESSLNVLEP 368

Query: 327 DE-KNIFLDVACFFKGEDI---YLVKKFFEASGFYPEIGISILVDKALIAINSYN-KITM 381
            E + +F  ++ F     I    L   +F+       + ++ L   +L+        I++
Sbjct: 369 AEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISI 428

Query: 382 HDLLQELG----------REIVRQESTNPGNRTRLWH----HED--IYEVLAY 418
             +  EL           R IV  +  N             + D   Y  + +
Sbjct: 429 PSIYLELKVKLENEYALHRSIV--DHYNIPKTFDSDDLIPPYLDQYFYSHIGH 479

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 51.8 bits (123), Expect = 3e-07
 Identities = 64/418 (15%), Positives = 134/418 (32%), Gaps = 131/418 (31%)

Query: 11  FYRVDPSHVRKQIGSFGV--SFSKLKEKFPEKMQRWRSA-----LTEAANLSGFDSFVI- 62
            Y++DP+   +   S  +      ++ +    ++          L    N   +++F + 
Sbjct: 206 LYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLS 265

Query: 63  -------RNESELIKKVVNDILEKLPKVVPCD------SKNELVGVESRV--EEIQSL-- 105
                  R      K+V + +       +  D      + +E+  +  +      Q L  
Sbjct: 266 CKILLTTRF-----KQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPR 320

Query: 106 --LGAAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCF--LENIREESQKAGGLAFLQQ 161
             L   P      +  I ++   R        N+K      L  I E S     L  L+ 
Sbjct: 321 EVLTTNPRR----LSIIAESI--RDGLATWD-NWKHVNCDKLTTIIESS-----LNVLEP 368

Query: 162 KLLSEVLKDVNVIP---HIDLNFRRLSCRKVLIVL-------DDVTCLNQIE--SLVGSL 209
               ++   ++V P   HI           +L ++       D +  +N++   SL   +
Sbjct: 369 AEYRKMFDRLSVFPPSAHIPT--------ILLSLIWFDVIKSDVMVVVNKLHKYSL---V 417

Query: 210 DRLLPESRILI---------TTRNKQVLRNCHINQ--------------------IYE-- 238
           ++   ES I I            N+  L    ++                      Y   
Sbjct: 418 EKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHI 477

Query: 239 ---MKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVIN--YAQGVPLA-------LKIL 286
              +K +     + LF R  F      +D++ L  K+ +   A     +       LK  
Sbjct: 478 GHHLKNIEHPERMTLF-RMVF------LDFRFLEQKIRHDSTAWNASGSILNTLQQLKFY 530

Query: 287 GCYLFERKKEVWENAIKKLKNFLHQ---NIL-----DVLKISYDDLDNDEKNIFLDVA 336
             Y+ +     +E  +  + +FL +   N++     D+L+I+   L  +++ IF +  
Sbjct: 531 KPYICD-NDPKYERLVNAILDFLPKIEENLICSKYTDLLRIA---LMAEDEAIFEEAH 584

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A* Length = 549

 Score =  145 bits (368), Expect = 1e-38
 Identities = 51/412 (12%), Positives = 124/412 (30%), Gaps = 51/412 (12%)

Query: 30  FSKLKEKFPEKMQRWRSALTEAANLSGFDSFVIRNESELIKKVVNDILEKLPKVVPCDSK 89
              L + F    Q   +   E       +   +     +  +    +L++   +     +
Sbjct: 68  LGPLIDFFNYNNQSHLADFLEDYIDFAINEPDLLRPVVIAPQFSRQMLDRKLLLGNVPKQ 127

Query: 90  NELVGVESRVEEIQSLL-----GAAPLLGIWGIGGIGKTTIARVIFNR----ISRNFKGS 140
                 E  V+ +   L       +  L + G  G GK+ IA    ++    I  N+   
Sbjct: 128 MTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSI 187

Query: 141 CFL----ENIREESQKAGGLAFLQQKLLSE-----VLKDVNVIPHIDLNFRRLSCRKVLI 191
            +L       +        +  + +          V    +V+    +    +     L 
Sbjct: 188 VWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLF 247

Query: 192 VLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQVLRNCHINQ-IYEMKGLGDDHALEL 250
           V DDV    Q E++  + +      R L+TTR+ ++           E+  L  D   + 
Sbjct: 248 VFDDV---VQEETIRWAQE---LRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDECYDF 301

Query: 251 FIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYLFERKKEVWENAIKKLK---- 306
              +     + +   +++ +K I  + G P  L +       +  E       KL+    
Sbjct: 302 LEAYGMPMPVGE-KEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESRGL 360

Query: 307 -------NFLHQNILDVLKISYDDLDNDEKNIFLDVACFFKGEDIYL--------VKKFF 351
                   + ++++   L+   + L +++++          G DI +        V    
Sbjct: 361 VGVECITPYSYKSLAMALQRCVEVLSDEDRSALAFAVVMPPGVDIPVKLWSCVIPVDICS 420

Query: 352 EASGFYPEIGISI---LVDKALIAINSYNKIT---MHDLLQELGREIVRQES 397
                  +        L  +  +       +    +  ++    + +V  ++
Sbjct: 421 NEEEQLDDEVADRLKRLSKRGALLSGKRMPVLTFKIDHIIHMFLKHVVDAQT 472

>3ozi_A L6TR; plant TIR domain, plant protein; 2.30A {Linum usitatissimum} Length = 204

 Score =  127 bits (322), Expect = 5e-35
 Identities = 27/79 (34%), Positives = 42/79 (53%), Gaps = 1/79 (1%)

Query: 5   QIVIPVFYRVDPSHVRKQIGSFGVSFSKLKEKF-PEKMQRWRSALTEAANLSGFDSFVIR 63
           +I++P+FY VDPS VR Q G +  +F K   KF  + +Q W+ AL +  +L G+      
Sbjct: 124 RIILPIFYMVDPSDVRHQTGCYKKAFRKHANKFDGQTIQNWKDALKKVGDLKGWHIGKND 183

Query: 64  NESELIKKVVNDILEKLPK 82
            +  +  KV  DI   + K
Sbjct: 184 KQGAIADKVSADIWSHISK 202

>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 =  133 bits (337), Expect = 3e-34
 Identities = 80/417 (19%), Positives = 147/417 (35%), Gaps = 66/417 (15%)

Query: 20  RKQIGSFGVSFSKLKEKFPEKMQRWRSALTEAANLSGFDSFVIRNESELIKKVVNDILEK 79
           +K   S+   ++ L  +  + +           + S     V    S +   +    + +
Sbjct: 62  KKDNDSYVSFYNALLHEGYKDLAALLHDGIPVVSSSSGKDSVSGITSYVRTVLCEGGVPQ 121

Query: 80  LPKVVPCDSKNELVGVESRVEEIQSLLGAA----PLLGIWGIGGIGKTTIARVIFNRISR 135
            P V         V  +  V  IQ  L         + I G+ G GK+ +A       S 
Sbjct: 122 RPVV--------FVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSL 173

Query: 136 NFKGSCFLENIR----EESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCR---- 187
                CF   +      +  K+G L  L Q L + + +D +    + LN      R    
Sbjct: 174 --LEGCFPGGVHWVSVGKQDKSGLLMKL-QNLCTRLDQDESFSQRLPLNIEEAKDRLRIL 230

Query: 188 ------KVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQVLRNC--HINQIYEM 239
                 + L++LDDV            L     + +IL+TTR+K V  +       +   
Sbjct: 231 MLRKHPRSLLILDDV-------WDSWVLKAFDSQCQILLTTRDKSVTDSVMGPKYVVPVE 283

Query: 240 KGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYLFERKKEVWE 299
             LG +  LE+       +     D  E +  +I   +G PL + ++G  L +     WE
Sbjct: 284 SSLGKEKGLEILSLFVNMK---KADLPEQAHSIIKECKGSPLVVSLIGALLRDFPNR-WE 339

Query: 300 NAIKKLKNFL-----------HQNILDVLKISYDDLDNDEKNIFLDVACFFKGEDIY--- 345
             +K+L+N             ++ + + + IS + L  D K+ + D++   K   +    
Sbjct: 340 YYLKQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKV 399

Query: 346 LVKKFFEASGFYPEIGISI---LVDKALIAINSYNKIT---MHDLLQELGREIVRQE 396
           L    ++      E    I    V+K+L+  +   K     +HDL  +   E    +
Sbjct: 400 LC-ILWDMET---EEVEDILQEFVNKSLLFCDRNGKSFRYYLHDLQVDFLTEKNCSQ 452

>3jrn_A AT1G72930 protein; TIR domain arabidopsis thaliana, plant protein; 2.00A {Arabidopsis thaliana} Length = 176

 Score =  123 bits (311), Expect = 1e-33
 Identities = 33/84 (39%), Positives = 47/84 (55%), Gaps = 3/84 (3%)

Query: 1   KVYAQIVIPVFYRVDPSHVRKQIGSFGVSFSKLKEKF-PEKMQRWRSALTEAANLSGFDS 59
           K  +  V+P+FY V+P+HVR Q G     F K   +  PEK+ +WR ALT  A LSG  S
Sbjct: 92  KKGSITVMPIFYGVEPNHVRWQTGVLAEQFKKHASREDPEKVLKWRQALTNFAQLSGDCS 151

Query: 60  FVIRNESELIKKVVNDILEKLPKV 83
               ++S+L+ K+ N+I  K    
Sbjct: 152 G--DDDSKLVDKIANEISNKKTIY 173

>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 =  102 bits (256), Expect = 2e-23
 Identities = 66/336 (19%), Positives = 131/336 (38%), Gaps = 49/336 (14%)

Query: 98  RVEEIQSLLGAA-------PLLGIWGIGGIGKTTIARVI---FNRISRNFKGSCFLENIR 147
           R + + ++             + I+G+ G GK+ +A       + +   F G     +I 
Sbjct: 129 RKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIG 188

Query: 148 EESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNF-------RRLSCRK---VLIVLDDVT 197
           ++     GL    Q L   + ++ +    + LN        R L  RK    L++LDDV 
Sbjct: 189 KQD--KSGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDV- 245

Query: 198 CLNQIESLVGSLDRLLPESRILITTRNKQVLRNC--HINQIYEMKGLGDDHALELFIRHA 255
                      L     + +IL+TTR+K V  +     + +    GLG +  LE+    +
Sbjct: 246 ------WDPWVLKAFDNQCQILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEIL---S 296

Query: 256 FRQNLVDVDYKELSDKVINYAQGVPLALKILGC----------YLFERKKEVWENAIKKL 305
              N+   D    +  +I   +G PL + ++G           Y   + +      I+K 
Sbjct: 297 LFVNMKKEDLPAEAHSIIKECKGSPLVVSLIGALLRDFPNRWAYYLRQLQNKQFKRIRKS 356

Query: 306 KNFLHQNILDVLKISYDDLDNDEKNIFLDVACFFKGEDI--YLVKKFFEASGFYPEIGIS 363
            ++ ++ + + + IS + L  D K+ + D++   K   +   ++   ++      E  + 
Sbjct: 357 SSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLWDLETEEVEDILQ 416

Query: 364 ILVDKALIAINSYNK---ITMHDLLQELGREIVRQE 396
             V+K+L+  N   K     +HDL  +   E  R +
Sbjct: 417 EFVNKSLLFCNRNGKSFCYYLHDLQVDFLTEKNRSQ 452

>3h16_A TIR protein; bacteria TIR domain, signaling protein; 2.50A {Paracoccus denitrificans PD1222} Length = 154

 Score = 63.5 bits (155), Expect = 2e-12
 Identities = 4/45 (8%), Positives = 16/45 (35%), Gaps = 1/45 (2%)

Query: 5   QIVIPVFYRVDPSHVRKQIGSFGVSFSKLKEKF-PEKMQRWRSAL 48
             ++P++++V    V     +     +        +++     A+
Sbjct: 107 SRILPIWHKVSKDEVASFSPTMADKLAFNTSTKSVDEIVADLMAI 151

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	429
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
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	100.0
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	100.0
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	99.84
2fna_A	357	Conserved hypothetical protein; structural genomic	99.83
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.78
3jrn_A	176	AT1G72930 protein; TIR domain arabidopsis thaliana	99.77
3ozi_A	204	L6TR; plant TIR domain, plant protein; 2.30A {Linu	99.73
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.69
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.66
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.65
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.65
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.52
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.46
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	99.33
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	99.3
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	99.28
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	99.2
2chq_A	319	Replication factor C small subunit; DNA-binding pr	99.19
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	99.08
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	99.05
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	99.04
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	99.04
3bos_A	242	Putative DNA replication factor; P-loop containing	99.01
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	98.99
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	98.98
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	98.97
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	98.96
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	98.93
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	98.91
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	98.91
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	98.9
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	98.9
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	98.88
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	98.86
3pvs_A	447	Replication-associated recombination protein A; ma	98.86
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	98.85
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	98.85
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	98.85
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	98.81
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	98.8
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	98.8
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	98.75
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	98.7
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	98.68
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	98.65
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	98.65
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	98.6
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	98.6
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	98.59
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	98.58
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	98.58
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	98.56
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	98.55
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	98.52
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	98.52
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	98.51
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	98.51
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	98.49
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	98.45
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	98.39
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	98.38
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	98.36
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	98.35
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	98.33
3co5_A	143	Putative two-component system transcriptional RES	98.32
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	98.32
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	98.32
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	98.32
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	98.31
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	98.29
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	98.28
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	98.27
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	98.24
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	98.21
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	98.14
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	98.09
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	98.09
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	98.08
2r44_A	331	Uncharacterized protein; putative ATPase, structur	98.06
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	98.03
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	97.88
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	97.84
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.74
2qgz_A	308	Helicase loader, putative primosome component; str	97.52
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	97.52
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	97.51
3h16_A	154	TIR protein; bacteria TIR domain, signaling protei	97.48
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	97.43
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	97.42
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	97.28
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	97.22
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	97.05
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	96.98
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	96.97
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	96.87
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.86
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.85
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	96.85
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	96.81
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	96.74
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	96.74
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	96.66
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	96.65
1tue_A	212	Replication protein E1; helicase, replication, E1E	96.65
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.64
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.61
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	96.6
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.58
3ice_A	422	Transcription termination factor RHO; transcriptio	96.55
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	96.54
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	96.53
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	96.5
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	96.5
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	96.48
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	96.47
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.46
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	96.45
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	96.42
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	96.42
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.42
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	96.4
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.39
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.38
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.38
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	96.38
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.37
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	96.34
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	96.34
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	96.33
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	96.33
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	96.3
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	96.29
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	96.27
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.27
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.26
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.23
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	96.23
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	96.23
1via_A	175	Shikimate kinase; structural genomics, transferase	96.22
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	96.2
2vli_A	183	Antibiotic resistance protein; transferase, tunica	96.19
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.19
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	96.19
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	96.18
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	96.16
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	96.15
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	96.15
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	96.13
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	96.12
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	96.12
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.12
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	96.1
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	96.09
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	96.07
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.07
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	96.05
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	96.05
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	96.04
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	96.03
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	96.02
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	96.01
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	96.01
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	95.99
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	95.98
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	95.97
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	95.96
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	95.95
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	95.95
2j9r_A	214	Thymidine kinase; TK1, DNK, lasso, transferase, AT	95.94
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	95.92
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	95.92
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	95.92
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	95.89
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	95.88
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	95.88
2ewv_A	372	Twitching motility protein PILT; pilus retraction	95.87
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	95.87
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	95.87
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	95.86
2xxa_A	433	Signal recognition particle protein; protein trans	95.83
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	95.83
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	95.82
2cvh_A	220	DNA repair and recombination protein RADB; filamen	95.82
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	95.81
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	95.81
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	95.81
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	95.79
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	95.77
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	95.77
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	95.77
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	95.77
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	95.76
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	95.76
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	95.75
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	95.72
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	95.72
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	95.71
1u94_A	356	RECA protein, recombinase A; homologous recombinat	95.71
2hf9_A	226	Probable hydrogenase nickel incorporation protein	95.7
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	95.7
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	95.7
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	95.69
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	95.68
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	95.67
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	95.67
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	95.66
3fwy_A	314	Light-independent protochlorophyllide reductase I	95.65
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	95.65
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	95.64
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	95.63
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	95.63
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	95.63
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	95.63
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	95.62
4a74_A	231	DNA repair and recombination protein RADA; hydrola	95.61
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	95.6
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	95.58
2eyu_A	261	Twitching motility protein PILT; pilus retraction	95.58
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	95.55
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	95.54
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	95.54
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	95.53
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	95.51
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	95.5
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	95.49
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	95.49
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	95.46
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	95.43
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	95.42
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	95.42
2z43_A	324	DNA repair and recombination protein RADA; archaea	95.42
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	95.4
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	95.4
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	95.4
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	95.36
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	95.35
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	95.35
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	95.34
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	95.34
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	95.33
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	95.33
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	95.32
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	95.31
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	95.3
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	95.3
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	95.28
2r6a_A	454	DNAB helicase, replicative helicase; replication,	95.24
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	95.23
3io5_A	333	Recombination and repair protein; storage dimer, i	95.22
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	95.22
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	95.22
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	95.21
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	95.2
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	95.2
1xp8_A	366	RECA protein, recombinase A; recombination, radior	95.19
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	95.16
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	95.16
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	95.13
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	95.11
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	95.08
2og2_A	359	Putative signal recognition particle receptor; nuc	95.05
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	94.95
3end_A	307	Light-independent protochlorophyllide reductase ir	94.94
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	94.93
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	94.92
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	94.91
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	94.89
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	94.88
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	94.87
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	94.85
3vr4_D	465	V-type sodium ATPase subunit D; V-ATPase, rotary m	94.84
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	94.83
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	94.82
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	94.79
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	94.79
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	94.79
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	94.74
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	94.71
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	94.7
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	94.69
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	94.67
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	94.67
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	94.67
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	94.62
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	94.61
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	94.58
2ged_A	193	SR-beta, signal recognition particle receptor beta	94.57
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	94.57
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	94.54
1b0u_A	262	Histidine permease; ABC transporter, transport pro	94.53
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	94.51
1sgw_A	214	Putative ABC transporter; structural genomics, P p	94.5
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	94.49
1ji0_A	240	ABC transporter; ATP binding protein, structural g	94.48
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	94.48
1g6h_A	257	High-affinity branched-chain amino acid transport	94.44
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	94.44
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	94.43
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	94.43
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	94.43
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	94.43
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	94.4
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	94.39
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	94.37
1p9r_A	418	General secretion pathway protein E; bacterial typ	94.35
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	94.34
2ghi_A	260	Transport protein; multidrug resistance protein, M	94.33
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	94.31
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	94.3
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	94.28
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	94.24
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	94.24
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	94.24
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	94.23
2wji_A	165	Ferrous iron transport protein B homolog; membrane	94.16
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	94.15
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	94.14
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	94.14
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	94.13
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	94.1
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	94.09
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	94.08
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	94.08
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	94.06
2iut_A	574	DNA translocase FTSK; nucleotide-binding, chromoso	94.04
2orv_A	234	Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2	94.03
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	94.02
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	94.01
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	93.98
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	93.96
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	93.93
3kta_A	182	Chromosome segregation protein SMC; structural mai	93.92
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	93.91
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	93.88
3e2i_A	219	Thymidine kinase; Zn-binding, ATP-binding, DNA syn	93.87
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	93.83
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	93.82
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	93.8
2oze_A	298	ORF delta'; para, walker type atpases, DNA segrega	93.77
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	93.77
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	93.76
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	93.72
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	93.71
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	93.7
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	93.68
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	93.65
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	93.63
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	93.62
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	93.6
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	93.59
2gk6_A	624	Regulator of nonsense transcripts 1; UPF1, helicas	93.59
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	93.58
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	93.55
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	93.55
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	93.52
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	93.52
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	93.5
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	93.5
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	93.49
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	93.47
1nrj_B	218	SR-beta, signal recognition particle receptor beta	93.47
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	93.45
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	93.45
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	93.44
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	93.44
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	93.44
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	93.43
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	93.43
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	93.41
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	93.4
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	93.39
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	93.39
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	93.38
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	93.37
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	93.37
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	93.36
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	93.35
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	93.34
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	93.33
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	93.33
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	93.33
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	93.32
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	93.32
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	93.31
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	93.3
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	93.3
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	93.26
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	93.25
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	93.24
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	93.22
3l0o_A	427	Transcription termination factor RHO; helicase, RH	93.21
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	93.16
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	93.16
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	93.16
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	93.14
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	93.13
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	93.12
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	93.11
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	93.11
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	93.09
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	93.08
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	93.08
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	93.07
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	93.07
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	93.07
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	92.98
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	92.97
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	92.95
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	92.95
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	92.94
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	92.91
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	92.9
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	92.88
3zq6_A	324	Putative arsenical pump-driving ATPase; tail-ancho	92.88
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	92.88
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	92.86
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	92.85
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	92.84
3bfv_A	271	CAPA1, CAPB2, membrane protein CAPA1, protein tyro	92.83
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	92.81
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	92.8
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	92.79
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	92.77
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	92.76
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	92.74
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	92.71
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	92.69
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	92.69
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	92.65
3thx_A	934	DNA mismatch repair protein MSH2; ABC family ATPas	92.64
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	92.63
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	92.63
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	92.61
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	92.61
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	92.61
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	92.6
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	92.59
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	92.59
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	92.58
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	92.58
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	92.57
3cio_A	299	ETK, tyrosine-protein kinase ETK; WZC, escherichia	92.57
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	92.56
3hdt_A	223	Putative kinase; structura genomics, PSI-2, protei	92.56
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	92.53
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	92.52
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	92.52
1xx6_A	191	Thymidine kinase; NESG, northeast structural genom	92.51
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	92.48
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	92.46
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	92.45
2fh5_B	214	SR-beta, signal recognition particle receptor beta	92.43
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	92.42
3ug7_A	349	Arsenical pump-driving ATPase; tail-anchored, memb	92.41
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	92.4
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	92.39
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	92.39
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	92.38
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	92.34
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	92.34
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	92.33
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	92.33
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	92.32
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	92.32
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	92.32
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	92.29
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	92.25
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	92.25
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	92.23
2woo_A	329	ATPase GET3; tail-anchored, membrane protein, targ	92.2
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	92.19
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	92.17
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	92.17
2xzl_A	802	ATP-dependent helicase NAM7; hydrolase-RNA complex	92.14
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	92.14
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	92.13
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	92.13
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	92.08
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	92.02
1ko7_A	314	HPR kinase/phosphatase; protein kinase, phosphotra	92.02
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	92.01
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	91.98
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	91.98
3la6_A	286	Tyrosine-protein kinase WZC; P-loop protein, nucle	91.95
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	91.95
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	91.92
1ihu_A	589	Arsenical pump-driving ATPase; aluminum fluoride,	91.92
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	91.89
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	91.88
1wcv_1	257	SOJ, segregation protein; ATPase, bacterial, chrom	91.87
2woj_A	354	ATPase GET3; tail-anchored, membrane protein, targ	91.85
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	91.84
2wjy_A	800	Regulator of nonsense transcripts 1; nonsense medi	91.83
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	91.82
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	91.82
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	91.81
2ph1_A	262	Nucleotide-binding protein; alpha-beta protein, st	91.78
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	91.78

>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=8.9e-42  Score=345.78  Aligned_cols=292  Identities=16%  Similarity=0.145  Sum_probs=220.0

Q ss_pred             cchhhHHHHHHHhhc-----CCCEEEEEcCCCcchHHHHHHHHH----HhhcCcceeEEEeechhhhhhcCCHHHHHHHH
Q 048064           93 VGVESRVEEIQSLLG-----AAPLLGIWGIGGIGKTTIARVIFN----RISRNFKGSCFLENIREESQKAGGLAFLQQKL  163 (429)
Q Consensus        93 vGR~~~~~~l~~~l~-----~~~~v~I~G~~GiGKTtLa~~~~~----~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l  163 (429)
                      +||+.++++|.++|.     ..++|+|+||||+||||||+++++    ++..+|+..+|+. ++....  .+...+...+
T Consensus       131 ~GR~~~~~~l~~~L~~~~~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~~~~wv~-vs~~~~--~~~~~~~~~i  207 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLK-DSGTAP--KSTFDLFTDI  207 (549)
T ss_dssp             CCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEE-CCCCST--THHHHHHHHH
T ss_pred             CCchHHHHHHHHHHhcccCCCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCCcEEEEE-ECCCCC--CCHHHHHHHH
Confidence            499999999999986     468999999999999999999996    6888898888884 443211  3577888888


Q ss_pred             HHHHhcCCC--C---CCC------HHHHHHHhcCC-cEEEEecCCCCHHHHHHHhccCCCCCCCCEEEEEeCChhhhhhc
Q 048064          164 LSEVLKDVN--V---IPH------IDLNFRRLSCR-KVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQVLRNC  231 (429)
Q Consensus       164 ~~~~~~~~~--~---~~~------~~~l~~~l~~~-~~LlVlDdv~~~~~~~~l~~~l~~~~~~~~iiiTtR~~~~~~~~  231 (429)
                      +.+++....  .   ...      ...+.+.+.++ ++||||||+|+.+++ .+..     .+||+||||||+..++..+
T Consensus       208 l~~l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~~~~-~~~~-----~~gs~ilvTTR~~~v~~~~  281 (549)
T 2a5y_B          208 LLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETI-RWAQ-----ELRLRCLVTTRDVEISNAA  281 (549)
T ss_dssp             HHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHH-HHHH-----HTTCEEEEEESBGGGGGGC
T ss_pred             HHHHhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCCchhh-cccc-----cCCCEEEEEcCCHHHHHHc
Confidence            888875421  1   111      34488889996 999999999998866 2221     2799999999999988876


Q ss_pred             C-CCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHHHhhcCCCHHHHHHHHHH-HhhCC
Q 048064          232 H-INQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYLFERKKEVWENAIKK-LKNFL  309 (429)
Q Consensus       232 ~-~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~~~l~~~~~~~~~~~l~~-l~~~~  309 (429)
                      + ...+|+|++|+.++|++||.++++.... .+...+.+.+|+++|+|+||||+.+|+.++.+. ..|...+.. +....
T Consensus       282 ~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~-~~~~~~~~~~I~~~c~GlPLAl~~~g~~l~~~~-w~~~~~l~~~l~~~~  359 (549)
T 2a5y_B          282 SQTCEFIEVTSLEIDECYDFLEAYGMPMPV-GEKEEDVLNKTIELSSGNPATLMMFFKSCEPKT-FEKMAQLNNKLESRG  359 (549)
T ss_dssp             CSCEEEEECCCCCHHHHHHHHHHTSCCCC---CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSS-HHHHHHHHHHHHHHC
T ss_pred             CCCCeEEECCCCCHHHHHHHHHHHhcCCCC-chhHHHHHHHHHHHhCCChHHHHHHHHHhccch-HHHHHHhHHHhhccc
Confidence            5 3467999999999999999999876532 356778899999999999999999999998764 233232322 22213


Q ss_pred             CccHHHHHHHhhhcCChhhHHHHh-----------hhhcccCCcCHHHHHHHHHHc--CCCh-----------hhhHHHH
Q 048064          310 HQNILDVLKISYDDLDNDEKNIFL-----------DVACFFKGEDIYLVKKFFEAS--GFYP-----------EIGISIL  365 (429)
Q Consensus       310 ~~~i~~~l~~s~~~L~~~~~~~l~-----------~la~f~~~~~~~~l~~~~~~~--~~~~-----------~~~l~~L  365 (429)
                      ...+..++..||+.|++..+.||+           +||+||++++++  ..+|.++  |+..           ..++++|
T Consensus       360 ~~~i~~~l~~Sy~~L~~~lk~~f~~Ls~~er~l~~~ls~fp~~~~i~--i~~w~a~~~G~i~~~~~~~~~~~~~~~l~~L  437 (549)
T 2a5y_B          360 LVGVECITPYSYKSLAMALQRCVEVLSDEDRSALAFAVVMPPGVDIP--VKLWSCVIPVDICSNEEEQLDDEVADRLKRL  437 (549)
T ss_dssp             SSTTCCCSSSSSSSHHHHHHHHHHTSCHHHHHHTTGGGSSCTTCCEE--HHHHHHHSCC-------CCCTHHHHHHHHHT
T ss_pred             HHHHHHHHhcccccccHHHHHHHhccchhhhhHhhheeeeCCCCeee--eeeeeeeccceeccCCCCCCHHHHHHHHHHH
Confidence            344555566666666666666666           999999987766  5677776  4432           2369999


Q ss_pred             HHcCceeEcc---CCeEEccHHHHHHHHHHHhhhc
Q 048064          366 VDKALIAINS---YNKITMHDLLQELGREIVRQES  397 (429)
Q Consensus       366 ~~~sLi~~~~---~~~~~mH~lv~~~a~~~~~~~~  397 (429)
                      +++||++...   ..+|+|||+||+||++++.+++
T Consensus       438 ~~rsLl~~~~~~~~~~~~mHdlv~~~a~~~~~~~~  472 (549)
T 2a5y_B          438 SKRGALLSGKRMPVLTFKIDHIIHMFLKHVVDAQT  472 (549)
T ss_dssp             TTBSSCSEEECSSSCEEECCHHHHHHHHTTSCTHH
T ss_pred             HHcCCeeEecCCCceEEEeChHHHHHHHHHHHHHH
Confidence            9999999754   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=1.4e-38  Score=352.75  Aligned_cols=297  Identities=21%  Similarity=0.292  Sum_probs=235.1

Q ss_pred             CCCCcccchhhHHHHHHHhhc----CCCEEEEEcCCCcchHHHHHHHHHH---hhcCcceeEEEeechhhhhhcCCHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG----AAPLLGIWGIGGIGKTTIARVIFNR---ISRNFKGSCFLENIREESQKAGGLAFL  159 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~----~~~~v~I~G~~GiGKTtLa~~~~~~---~~~~f~~~~~~~~~~~~~~~~~~~~~~  159 (429)
                      ..+..||||+.++++|.++|.    ..++|+|+||||+||||||++++++   ...+|+..+||.++.....  ......
T Consensus       121 ~~~~~~vgR~~~~~~l~~~l~~~~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~--~~~~~~  198 (1249)
T 3sfz_A          121 QRPVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDK--SGLLMK  198 (1249)
T ss_dssp             CCCSSCCCCHHHHHHHHHHHHTTTTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCH--HHHHHH
T ss_pred             CCCceeccHHHHHHHHHHHHhhccCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCc--hHHHHH
Confidence            667789999999999999993    7889999999999999999999987   3566888777766654221  123333


Q ss_pred             HHHHHHHHhcCC----CCCCCHHH----HHHHhcCC--cEEEEecCCCCHHHHHHHhccCCCCCCCCEEEEEeCChhhhh
Q 048064          160 QQKLLSEVLKDV----NVIPHIDL----NFRRLSCR--KVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQVLR  229 (429)
Q Consensus       160 ~~~l~~~~~~~~----~~~~~~~~----l~~~l~~~--~~LlVlDdv~~~~~~~~l~~~l~~~~~~~~iiiTtR~~~~~~  229 (429)
                      ...+...+....    ......+.    +...+.++  ++||||||+|+..+++.+       ++|++||||||++.++.
T Consensus       199 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~~~~~~~~-------~~~~~ilvTtR~~~~~~  271 (1249)
T 3sfz_A          199 LQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAF-------DNQCQILLTTRDKSVTD  271 (1249)
T ss_dssp             HHHHHHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCCHHHHTTT-------CSSCEEEEEESSTTTTT
T ss_pred             HHHHHHHhhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCCHHHHHhh-------cCCCEEEEEcCCHHHHH
Confidence            444555554432    12233444    44555555  999999999998776553       67999999999998874


Q ss_pred             h-cCCCeEEEcCC-CCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHHHhhcCCCHHHHHHHHHHHhh
Q 048064          230 N-CHINQIYEMKG-LGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYLFERKKEVWENAIKKLKN  307 (429)
Q Consensus       230 ~-~~~~~~~~l~~-L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~~~l~~~~~~~~~~~l~~l~~  307 (429)
                      . ......+.+++ |+.+|+++||...++...   ....+.+.+|+++|+|+||||+++|++|+.++ ..|..+++.+..
T Consensus       272 ~~~~~~~~~~~~~~l~~~~a~~l~~~~~~~~~---~~~~~~~~~i~~~~~glPLal~~~~~~l~~~~-~~~~~~l~~l~~  347 (1249)
T 3sfz_A          272 SVMGPKHVVPVESGLGREKGLEILSLFVNMKK---EDLPAEAHSIIKECKGSPLVVSLIGALLRDFP-NRWAYYLRQLQN  347 (1249)
T ss_dssp             TCCSCBCCEECCSSCCHHHHHHHHHHHHTSCS---TTCCTHHHHHHHHTTTCHHHHHHHHHHHHHSS-SCHHHHHHHHHS
T ss_pred             hhcCCceEEEecCCCCHHHHHHHHHHhhCCCh---hhCcHHHHHHHHHhCCCHHHHHHHHHHhhcCh-hHHHHHHHHHhh
Confidence            4 44567789996 999999999998874332   23345689999999999999999999998766 569999998865


Q ss_pred             CCC-----------ccHHHHHHHhhhcCChhhHHHHhhhhcccCC--cCHHHHHHHHHHcCCChhhhHHHHHHcCceeEc
Q 048064          308 FLH-----------QNILDVLKISYDDLDNDEKNIFLDVACFFKG--EDIYLVKKFFEASGFYPEIGISILVDKALIAIN  374 (429)
Q Consensus       308 ~~~-----------~~i~~~l~~s~~~L~~~~~~~l~~la~f~~~--~~~~~l~~~~~~~~~~~~~~l~~L~~~sLi~~~  374 (429)
                      ...           ..+..+|..||+.|++++|.||++||+||++  ++.+.+..+|..++......+++|+++||++..
T Consensus       348 ~~~~~~~~~~~~~~~~~~~~l~~s~~~L~~~~~~~~~~l~~f~~~~~i~~~~~~~~~~~~~~~~~~~l~~L~~~sl~~~~  427 (1249)
T 3sfz_A          348 KQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLWDLETEEVEDILQEFVNKSLLFCN  427 (1249)
T ss_dssp             CCCCCSSCTTCTTHHHHHHHHHHHHHTSCTTTHHHHHHGGGSCTTCCEEHHHHHHHHTCCHHHHHHHHHHHHHTTSCEEE
T ss_pred             hhhhhcccccccchHHHHHHHHHHHHhCCHHHHHHHHHhCccCCCCeeCHHHHHHHhCCCHHHHHHHHHHHHhccceEEe
Confidence            431           3589999999999999999999999999987  577899999977666677889999999999987


Q ss_pred             cCCe---EEccHHHHHHHHHHHhhh
Q 048064          375 SYNK---ITMHDLLQELGREIVRQE  396 (429)
Q Consensus       375 ~~~~---~~mH~lv~~~a~~~~~~~  396 (429)
                      .++.   |+||+++|+|+++.+.++
T Consensus       428 ~~~~~~~~~~h~l~~~~~~~~~~~~  452 (1249)
T 3sfz_A          428 RNGKSFCYYLHDLQVDFLTEKNRSQ  452 (1249)
T ss_dssp             ESSSSEEEECCHHHHHHHHHHTGGG
T ss_pred             cCCCceEEEecHHHHHHHHhhhhHH
Confidence            6664   999999999999987655

>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=1.5e-37  Score=321.00  Aligned_cols=296  Identities=17%  Similarity=0.152  Sum_probs=215.8

Q ss_pred             CcccchhhHHHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHH--HhhcCcceeEEEeechhhhhhcCCHHHHHHHHH
Q 048064           90 NELVGVESRVEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFN--RISRNFKGSCFLENIREESQKAGGLAFLQQKLL  164 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~--~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~  164 (429)
                      ...|||+.++++|.++|.   +.++|+|+||||+||||||+++++  +++.+|+..++|.+++..    .+...+...+.
T Consensus       128 k~~VGRe~eLeeL~elL~~~d~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs~~----~d~~~IL~~Ll  203 (1221)
T 1vt4_I          128 KYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNC----NSPETVLEMLQ  203 (1221)
T ss_dssp             CSCCCCHHHHHHHHHHHHHCCSSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEECCCS----SSHHHHHHHHH
T ss_pred             CCCCCcHHHHHHHHHHHhccCCCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeCCC----CCHHHHHHHHH
Confidence            345999999999999986   578999999999999999999997  478889986666556542    33445545544


Q ss_pred             HHHhc---C-CCCCC-------CH----HHHHHHh---cCCcEEEEecCCCCHHHHHHHhccCCCCCCCCEEEEEeCChh
Q 048064          165 SEVLK---D-VNVIP-------HI----DLNFRRL---SCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQ  226 (429)
Q Consensus       165 ~~~~~---~-~~~~~-------~~----~~l~~~l---~~~~~LlVlDdv~~~~~~~~l~~~l~~~~~~~~iiiTtR~~~  226 (429)
                      ..+..   . .....       ..    +.+...+   .++++||||||+|+.++++.+.       +||+||||||+..
T Consensus       204 ~lL~~i~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd~eqLe~f~-------pGSRILVTTRd~~  276 (1221)
T 1vt4_I          204 KLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFN-------LSCKILLTTRFKQ  276 (1221)
T ss_dssp             HHHHHHCSSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCCHHHHHHHH-------SSCCEEEECSCSH
T ss_pred             HHHhhcCcccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcChHHHHHhhC-------CCeEEEEeccChH
Confidence            43221   1 00100       11    1244444   6799999999999998888752       6999999999998


Q ss_pred             hhhhcCCCeEEEcC------CCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHHHhhcCC--CHHHH
Q 048064          227 VLRNCHINQIYEMK------GLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYLFER--KKEVW  298 (429)
Q Consensus       227 ~~~~~~~~~~~~l~------~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~~~l~~~--~~~~~  298 (429)
                      ++..+.....+.++      +|+.+||++||.+.. ...  .   .+...+   .|+|+||||+++|+.|+.+  +...|
T Consensus       277 Va~~l~g~~vy~LeL~d~dL~LS~eEA~eLF~~~~-g~~--~---eeL~~e---ICgGLPLALkLaGs~Lr~k~~s~eeW  347 (1221)
T 1vt4_I          277 VTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYL-DCR--P---QDLPRE---VLTTNPRRLSIIAESIRDGLATWDNW  347 (1221)
T ss_dssp             HHHHHHHHSSCEEEECSSSSCCCHHHHHHHHHHHH-CCC--T---TTHHHH---HCCCCHHHHHHHHHHHHHSCSSHHHH
T ss_pred             HHHhcCCCeEEEecCccccCCcCHHHHHHHHHHHc-CCC--H---HHHHHH---HhCCCHHHHHHHHHHHhCCCCCHHHH
Confidence            87543322345565      899999999999884 222  1   122333   3999999999999999876  66778


Q ss_pred             HHHHHHHhhCCCccHHHHHHHhhhcCChhh-HHHHhhhhcccCC--cCHHHHHHHHHHcCC-ChhhhHHHHHHcCceeEc
Q 048064          299 ENAIKKLKNFLHQNILDVLKISYDDLDNDE-KNIFLDVACFFKG--EDIYLVKKFFEASGF-YPEIGISILVDKALIAIN  374 (429)
Q Consensus       299 ~~~l~~l~~~~~~~i~~~l~~s~~~L~~~~-~~~l~~la~f~~~--~~~~~l~~~~~~~~~-~~~~~l~~L~~~sLi~~~  374 (429)
                      ...       ....+..+|..||+.|++++ |.||++||+||.+  ++.+.+..+|.+++. .....+++|+++||++.+
T Consensus       348 ~~~-------~~~~I~aaLelSYd~Lp~eelK~cFL~LAIFPed~~I~~elLa~LW~aeGeedAe~~L~eLvdRSLLq~d  420 (1221)
T 1vt4_I          348 KHV-------NCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQ  420 (1221)
T ss_dssp             HHC-------SCHHHHHHHHHHHHHSCTTHHHHHHHHTTSSCTTSCEEHHHHHHHHCSSCSHHHHHHHHHHHTSSSSSBC
T ss_pred             hcC-------ChhHHHHHHHHHHHhCCHHHHHHHHHHHhCCCCCCCCCHHHHHHHhcCCCHHHHHHHHHHHHhhCCEEEe
Confidence            653       35679999999999999999 9999999999986  456788899977642 356789999999999986


Q ss_pred             c-CCeEEccHHHHHHHHHHHhhhcCCCCCcccCCCcchHHHHH
Q 048064          375 S-YNKITMHDLLQELGREIVRQESTNPGNRTRLWHHEDIYEVL  416 (429)
Q Consensus       375 ~-~~~~~mH~lv~~~a~~~~~~~~~~~~~~~rl~~~~~i~~~l  416 (429)
                      + .++|+||+++++++.    .....+..+.|+..+..+.+++
T Consensus       421 ~~~~rYrMHDLllELr~----~~~e~~alHrRLvd~Y~~~~vf  459 (1221)
T 1vt4_I          421 PKESTISIPSIYLELKV----KLENEYALHRSIVDHYNIPKTF  459 (1221)
T ss_dssp             SSSSEEBCCCHHHHHHH----HHSCCTTHHHHHHHHHHHHHHC
T ss_pred             CCCCEEEehHHHHHHhc----CCCcHHHHHHHHHHHHHhhCcC
Confidence            3 568999999988431    1113344555555444444433

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=100.00  E-value=6.5e-37  Score=313.95  Aligned_cols=292  Identities=22%  Similarity=0.297  Sum_probs=219.4

Q ss_pred             CCCCcccchhhHHHHHHHhhc----CCCEEEEEcCCCcchHHHHHHHHHHh---hcCcceeEEEeechhhhhhcCCHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG----AAPLLGIWGIGGIGKTTIARVIFNRI---SRNFKGSCFLENIREESQKAGGLAFL  159 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~----~~~~v~I~G~~GiGKTtLa~~~~~~~---~~~f~~~~~~~~~~~~~~~~~~~~~~  159 (429)
                      ..+..||||+.++++|.+++.    +.++|+|+||||+||||||.+++++.   ..+|+..++|.++.....  ..+...
T Consensus       121 ~~~~~~vGR~~~l~~L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~~~~--~~~~~~  198 (591)
T 1z6t_A          121 QRPVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDK--SGLLMK  198 (591)
T ss_dssp             CCCSSCCCCHHHHHHHHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEESCCH--HHHHHH
T ss_pred             CCCCeecccHHHHHHHHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCCCch--HHHHHH
Confidence            567789999999999999986    57899999999999999999999864   677875555554543211  111122


Q ss_pred             HHHHHHHHhcC----CCCCCCHHH----HHHHhcC--CcEEEEecCCCCHHHHHHHhccCCCCCCCCEEEEEeCChhhhh
Q 048064          160 QQKLLSEVLKD----VNVIPHIDL----NFRRLSC--RKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQVLR  229 (429)
Q Consensus       160 ~~~l~~~~~~~----~~~~~~~~~----l~~~l~~--~~~LlVlDdv~~~~~~~~l~~~l~~~~~~~~iiiTtR~~~~~~  229 (429)
                      ...+...+...    .......+.    +...+.+  +++||||||+|+...++.+       +++++||||||+..++.
T Consensus       199 l~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~~~l~~l-------~~~~~ilvTsR~~~~~~  271 (591)
T 1z6t_A          199 LQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAF-------DSQCQILLTTRDKSVTD  271 (591)
T ss_dssp             HHHHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCHHHHHTT-------CSSCEEEEEESCGGGGT
T ss_pred             HHHHHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCHHHHHHh-------cCCCeEEEECCCcHHHH
Confidence            22233333321    112223333    4555554  7899999999998766542       57899999999998776


Q ss_pred             hcCCCeEEEc---CCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHHHhhcCCCHHHHHHHHHHHh
Q 048064          230 NCHINQIYEM---KGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYLFERKKEVWENAIKKLK  306 (429)
Q Consensus       230 ~~~~~~~~~l---~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~~~l~~~~~~~~~~~l~~l~  306 (429)
                      .+. ...+++   ++|+.+|+++||...++...   ....+.+.+|+++|+|+||||+++|++++... ..|...++.+.
T Consensus       272 ~~~-~~~~~v~~l~~L~~~ea~~L~~~~~~~~~---~~~~~~~~~i~~~~~G~PLal~~~a~~l~~~~-~~w~~~l~~l~  346 (591)
T 1z6t_A          272 SVM-GPKYVVPVESSLGKEKGLEILSLFVNMKK---ADLPEQAHSIIKECKGSPLVVSLIGALLRDFP-NRWEYYLKQLQ  346 (591)
T ss_dssp             TCC-SCEEEEECCSSCCHHHHHHHHHHHHTSCG---GGSCTHHHHHHHHHTTCHHHHHHHHHHHHHST-TCHHHHHHHHH
T ss_pred             hcC-CCceEeecCCCCCHHHHHHHHHHHhCCCc---ccccHHHHHHHHHhCCCcHHHHHHHHHHhcCc-hhHHHHHHHHH
Confidence            543 234444   58999999999999875421   12235688999999999999999999997754 36888888876


Q ss_pred             hCC-----------CccHHHHHHHhhhcCChhhHHHHhhhhcccCC--cCHHHHHHHHHHcCCChhhhHHHHHHcCceeE
Q 048064          307 NFL-----------HQNILDVLKISYDDLDNDEKNIFLDVACFFKG--EDIYLVKKFFEASGFYPEIGISILVDKALIAI  373 (429)
Q Consensus       307 ~~~-----------~~~i~~~l~~s~~~L~~~~~~~l~~la~f~~~--~~~~~l~~~~~~~~~~~~~~l~~L~~~sLi~~  373 (429)
                      ...           ..++..++..||+.|+++.+.||.++|+||.+  ++.+.+..+|..+.......++.|+++||+..
T Consensus       347 ~~~~~~~~~~~~~~~~~l~~~l~~s~~~L~~~~~~~l~~la~f~~~~~i~~~~l~~l~~~~~~~~~~~l~~L~~~~Ll~~  426 (591)
T 1z6t_A          347 NKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCILWDMETEEVEDILQEFVNKSLLFC  426 (591)
T ss_dssp             SCCCCCSSCCCSSCCHHHHHHHHHHHHTSCTTTHHHHHHGGGCCTTCCEEHHHHHHHHTCCHHHHHHHHHHHHHTTSSEE
T ss_pred             HhHHHHhhhccccchHHHHHHHHHHHHhCCHHHHHHHHHccccCCCCccCHHHHHHHhccCHHHHHHHHHHHHhCcCeEE
Confidence            532           24688999999999999999999999999875  67788888886654456678999999999997


Q ss_pred             ccC---CeEEccHHHHHHHHHH
Q 048064          374 NSY---NKITMHDLLQELGREI  392 (429)
Q Consensus       374 ~~~---~~~~mH~lv~~~a~~~  392 (429)
                      ..+   .+|+||+++|+++++.
T Consensus       427 ~~~~~~~~~~~H~lv~~~~~~~  448 (591)
T 1z6t_A          427 DRNGKSFRYYLHDLQVDFLTEK  448 (591)
T ss_dssp             EEETTEEEEECCHHHHHHHHHH
T ss_pred             ecCCCccEEEEcHHHHHHHHhh
Confidence            543   2699999999999987

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=99.84  E-value=3.7e-19  Score=169.83  Aligned_cols=286  Identities=16%  Similarity=0.192  Sum_probs=173.9

Q ss_pred             CCCCcccchhhHHHHHHHhhcCCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhh--hcCCHHHHHHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQ--KAGGLAFLQQKLL  164 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~--~~~~~~~~~~~l~  164 (429)
                      ..+..|+||+.++++|.+++...+++.|+|++|+|||||+++++++.    . .+|+ ++.....  .......+...+.
T Consensus         9 ~~~~~~~gR~~el~~L~~~l~~~~~v~i~G~~G~GKT~Ll~~~~~~~----~-~~~~-~~~~~~~~~~~~~~~~~~~~l~   82 (350)
T 2qen_A            9 TRREDIFDREEESRKLEESLENYPLTLLLGIRRVGKSSLLRAFLNER----P-GILI-DCRELYAERGHITREELIKELQ   82 (350)
T ss_dssp             CSGGGSCSCHHHHHHHHHHHHHCSEEEEECCTTSSHHHHHHHHHHHS----S-EEEE-EHHHHHHTTTCBCHHHHHHHHH
T ss_pred             CChHhcCChHHHHHHHHHHHhcCCeEEEECCCcCCHHHHHHHHHHHc----C-cEEE-EeecccccccCCCHHHHHHHHH
Confidence            55678999999999999998744899999999999999999999875    1 3443 3333210  0113333344333


Q ss_pred             HHHhc-----------------C-CCCCCCHHHHHHHh----c-CCcEEEEecCCCCHH--------HHHHHhccCCCCC
Q 048064          165 SEVLK-----------------D-VNVIPHIDLNFRRL----S-CRKVLIVLDDVTCLN--------QIESLVGSLDRLL  213 (429)
Q Consensus       165 ~~~~~-----------------~-~~~~~~~~~l~~~l----~-~~~~LlVlDdv~~~~--------~~~~l~~~l~~~~  213 (429)
                      ..+..                 . .........+...+    . .++++|||||++...        .+..++..+....
T Consensus        83 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~~~~~~~~~~~~~L~~~~~~~  162 (350)
T 2qen_A           83 STISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGSRGGKELLALFAYAYDSL  162 (350)
T ss_dssp             HHSCSHHHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGGBTTTTTHHHHHHHHHHHHHC
T ss_pred             HHHHHHHhHhhhceeEEEecceeeccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhccCccchhhHHHHHHHHHHhc
Confidence            32211                 0 00113344433333    2 138999999997633        2222222211112


Q ss_pred             CCCEEEEEeCChhhhhh----------c--CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChH
Q 048064          214 PESRILITTRNKQVLRN----------C--HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPL  281 (429)
Q Consensus       214 ~~~~iiiTtR~~~~~~~----------~--~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PL  281 (429)
                      ++..+|+|++....+..          +  .....+++.+|+.+|+.+++..........  ...+.+..+++.++|+|+
T Consensus       163 ~~~~~il~g~~~~~l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e~~~~l~~~~~~~~~~--~~~~~~~~i~~~tgG~P~  240 (350)
T 2qen_A          163 PNLKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDTSVEFLKRGFREVNLD--VPENEIEEAVELLDGIPG  240 (350)
T ss_dssp             TTEEEEEEESSHHHHHHHHCTTCTTSTTTTCCCEEEECCCCCHHHHHHHHHHHHHTTTCC--CCHHHHHHHHHHHTTCHH
T ss_pred             CCeEEEEECCcHHHHHHHHhhcCCCCccccCccceeeCCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHhCCCHH
Confidence            57889999887543221          1  123578999999999999998764322211  113567899999999999


Q ss_pred             HHHHHHHhhcC-CCHHHHHHHHHHHhhCCCccHHHHHHHhhhcC---ChhhHHHHhhhhcccCCcCHHHHHHHHHHc--C
Q 048064          282 ALKILGCYLFE-RKKEVWENAIKKLKNFLHQNILDVLKISYDDL---DNDEKNIFLDVACFFKGEDIYLVKKFFEAS--G  355 (429)
Q Consensus       282 ai~~~~~~l~~-~~~~~~~~~l~~l~~~~~~~i~~~l~~s~~~L---~~~~~~~l~~la~f~~~~~~~~l~~~~~~~--~  355 (429)
                      ++..++..+.. .+...+   ...+..    .+...+...+..+   ++..+.++..+|+  ...+...+...+...  +
T Consensus       241 ~l~~~~~~~~~~~~~~~~---~~~~~~----~~~~~~~~~l~~l~~~~~~~~~~l~~la~--g~~~~~~l~~~~~~~~~~  311 (350)
T 2qen_A          241 WLVVFGVEYLRNGDFGRA---MKRTLE----VAKGLIMGELEELRRRSPRYVDILRAIAL--GYNRWSLIRDYLAVKGTK  311 (350)
T ss_dssp             HHHHHHHHHHHHCCHHHH---HHHHHH----HHHHHHHHHHHHHHHHCHHHHHHHHHHHT--TCCSHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHhccccHhHH---HHHHHH----HHHHHHHHHHHHHHhCChhHHHHHHHHHh--CCCCHHHHHHHHHHHhCC
Confidence            99998875422 222211   111111    1112222223333   7888999999998  345666666655321  2


Q ss_pred             CC---hhhhHHHHHHcCceeEccCCeEEc-cHHHHHHHH
Q 048064          356 FY---PEIGISILVDKALIAINSYNKITM-HDLLQELGR  390 (429)
Q Consensus       356 ~~---~~~~l~~L~~~sLi~~~~~~~~~m-H~lv~~~a~  390 (429)
                      ..   ...+++.|.+.+||... ++.|.+ |++++.|.+
T Consensus       312 ~~~~~~~~~l~~L~~~gli~~~-~~~y~~~~p~~~~~~~  349 (350)
T 2qen_A          312 IPEPRLYALLENLKKMNWIVEE-DNTYKIADPVVATVLR  349 (350)
T ss_dssp             CCHHHHHHHHHHHHHTTSEEEE-TTEEEESSHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHhCCCEEec-CCEEEEecHHHHHHHc
Confidence            22   24579999999999886 466665 788888754

>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=99.83  E-value=1.4e-19  Score=173.16  Aligned_cols=286  Identities=17%  Similarity=0.201  Sum_probs=171.4

Q ss_pred             CCCCcccchhhHHHHHHHhhcCCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhh-hhcCCHHHHHHHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREES-QKAGGLAFLQQKLLS  165 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~-~~~~~~~~~~~~l~~  165 (429)
                      ..+..|+||+.+++.|.+ +.. +++.|+|++|+|||+|+++++++....   .+|+ ++.... ............+..
T Consensus        10 ~~~~~~~gR~~el~~L~~-l~~-~~v~i~G~~G~GKT~L~~~~~~~~~~~---~~~~-~~~~~~~~~~~~~~~~~~~l~~   83 (357)
T 2fna_A           10 DNRKDFFDREKEIEKLKG-LRA-PITLVLGLRRTGKSSIIKIGINELNLP---YIYL-DLRKFEERNYISYKDFLLELQK   83 (357)
T ss_dssp             CSGGGSCCCHHHHHHHHH-TCS-SEEEEEESTTSSHHHHHHHHHHHHTCC---EEEE-EGGGGTTCSCCCHHHHHHHHHH
T ss_pred             CCHHHhcChHHHHHHHHH-hcC-CcEEEECCCCCCHHHHHHHHHHhcCCC---EEEE-EchhhccccCCCHHHHHHHHHH
Confidence            456789999999999999 877 799999999999999999999887532   3444 333220 000122222222222


Q ss_pred             HHh-------------cCC-----C-----------CCCCHHHHHHHhcC---CcEEEEecCCCCHH-----HHHHHhcc
Q 048064          166 EVL-------------KDV-----N-----------VIPHIDLNFRRLSC---RKVLIVLDDVTCLN-----QIESLVGS  208 (429)
Q Consensus       166 ~~~-------------~~~-----~-----------~~~~~~~l~~~l~~---~~~LlVlDdv~~~~-----~~~~l~~~  208 (429)
                      .+.             ...     +           ....+..+...+..   ++++|||||++...     .+..++..
T Consensus        84 ~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~vlvlDe~~~~~~~~~~~~~~~l~~  163 (357)
T 2fna_A           84 EINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVKLRGVNLLPALAY  163 (357)
T ss_dssp             HHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGGGCTTCCCHHHHHH
T ss_pred             HHHHHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHhcCCCCeEEEEECHHHhhccCchhHHHHHHH
Confidence            111             000     0           12344455444432   48999999997532     11112221


Q ss_pred             CCCCCCCCEEEEEeCChhhhhh----------c-C-CCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHh
Q 048064          209 LDRLLPESRILITTRNKQVLRN----------C-H-INQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYA  276 (429)
Q Consensus       209 l~~~~~~~~iiiTtR~~~~~~~----------~-~-~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~  276 (429)
                      +....++..+|+|++.......          + + ....+.+.+|+.+|+.+++...+.........    ...+++.+
T Consensus       164 ~~~~~~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~l~~~~~~~~~~~~~----~~~i~~~t  239 (357)
T 2fna_A          164 AYDNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDFKD----YEVVYEKI  239 (357)
T ss_dssp             HHHHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCCCC----HHHHHHHH
T ss_pred             HHHcCCCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHHHHHHHHHHcCCCCCc----HHHHHHHh
Confidence            1111246789999997643221          1 1 13679999999999999998765321111111    27899999


Q ss_pred             CCChHHHHHHHHhhcC-CCHHHHHHHHHHHhhCCCccHHHHHHHhh---hcCChhhHHHHhhhhcccCCcCHHHHHHHHH
Q 048064          277 QGVPLALKILGCYLFE-RKKEVWENAIKKLKNFLHQNILDVLKISY---DDLDNDEKNIFLDVACFFKGEDIYLVKKFFE  352 (429)
Q Consensus       277 ~G~PLai~~~~~~l~~-~~~~~~~~~l~~l~~~~~~~i~~~l~~s~---~~L~~~~~~~l~~la~f~~~~~~~~l~~~~~  352 (429)
                      +|+|+++..++..+.. .+...|..   .+.......+...+...+   ..+++..+.++..+|+ . . +...+...+.
T Consensus       240 ~G~P~~l~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~l~~~~~~~~~l~~~~~~~l~~la~-g-~-~~~~l~~~~~  313 (357)
T 2fna_A          240 GGIPGWLTYFGFIYLDNKNLDFAIN---QTLEYAKKLILKEFENFLHGREIARKRYLNIMRTLSK-C-G-KWSDVKRALE  313 (357)
T ss_dssp             CSCHHHHHHHHHHHHHHCCHHHHHH---HHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHTT-C-B-CHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHccccchHHHHH---HHHHHHHHHHHHHHHHHhhccccccHHHHHHHHHHHc-C-C-CHHHHHHHHH
Confidence            9999999999876532 23322321   111100011111222111   1678889999999998 3 3 6666665432


Q ss_pred             -HcC--CC---hhhhHHHHHHcCceeEccCCeEE-ccHHHHHHH
Q 048064          353 -ASG--FY---PEIGISILVDKALIAINSYNKIT-MHDLLQELG  389 (429)
Q Consensus       353 -~~~--~~---~~~~l~~L~~~sLi~~~~~~~~~-mH~lv~~~a  389 (429)
                       ..+  ..   ....++.|.+.+||...+ +.|+ .|++++++.
T Consensus       314 ~~~g~~~~~~~~~~~L~~L~~~gli~~~~-~~y~f~~~~~~~~l  356 (357)
T 2fna_A          314 LEEGIEISDSEIYNYLTQLTKHSWIIKEG-EKYCPSEPLISLAF  356 (357)
T ss_dssp             HHHCSCCCHHHHHHHHHHHHHTTSEEESS-SCEEESSHHHHHHT
T ss_pred             HhcCCCCCHHHHHHHHHHHHhCCCEEecC-CEEEecCHHHHHhh
Confidence             223  22   345799999999999874 6676 588998874

>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=99.78  E-value=1.9e-17  Score=161.71  Aligned_cols=289  Identities=13%  Similarity=0.075  Sum_probs=170.7

Q ss_pred             CCCCcccchhhHHHHHHHhh-c--------CCCEEEE--EcCCCcchHHHHHHHHHHhhcC-----cceeEEEeechhhh
Q 048064           87 DSKNELVGVESRVEEIQSLL-G--------AAPLLGI--WGIGGIGKTTIARVIFNRISRN-----FKGSCFLENIREES  150 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l-~--------~~~~v~I--~G~~GiGKTtLa~~~~~~~~~~-----f~~~~~~~~~~~~~  150 (429)
                      ..+..|+||+.++++|.+++ .        ..+.+.|  +|++|+|||||++.+++.....     +...+.+.++..  
T Consensus        19 ~~p~~l~gR~~el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~--   96 (412)
T 1w5s_A           19 YIPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFN--   96 (412)
T ss_dssp             CCCSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGG--
T ss_pred             cCCCCCCChHHHHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCC--
Confidence            44578999999999999988 3        3567888  9999999999999999987543     233333333322  


Q ss_pred             hhcCCHHHHHHHHHHHHhcCCCC-CCCH----HHHHHHhc--CCcEEEEecCCCCH--------HHHHHHhccCCCC---
Q 048064          151 QKAGGLAFLQQKLLSEVLKDVNV-IPHI----DLNFRRLS--CRKVLIVLDDVTCL--------NQIESLVGSLDRL---  212 (429)
Q Consensus       151 ~~~~~~~~~~~~l~~~~~~~~~~-~~~~----~~l~~~l~--~~~~LlVlDdv~~~--------~~~~~l~~~l~~~---  212 (429)
                        ......+...++..++..... ....    ..+...+.  +++++|||||++..        +.+..+...+...   
T Consensus        97 --~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~~~~  174 (412)
T 1w5s_A           97 --APNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSR  174 (412)
T ss_dssp             --CCSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCT
T ss_pred             --CCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhccCcchHHHHHHHHHHHhcccC
Confidence              345667777777776544221 1112    22444443  67999999999754        3333333332211   


Q ss_pred             C--CCCEEEEEeCChhhhhhc---------CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhC----
Q 048064          213 L--PESRILITTRNKQVLRNC---------HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQ----  277 (429)
Q Consensus       213 ~--~~~~iiiTtR~~~~~~~~---------~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~----  277 (429)
                      +  .+..+|+||+...+...+         .....+.+++|+.+++.++|...+........-..+.+..+++.++    
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  344577788765432111         1123499999999999999976642111111112456888999999    


Q ss_pred             --CChHHHHHHHHhhc------C---CCHHHHHHHHHHHhhCCCccHHHHHHHhhhcCChhhHHHHhhhhccc----CCc
Q 048064          278 --GVPLALKILGCYLF------E---RKKEVWENAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFF----KGE  342 (429)
Q Consensus       278 --G~PLai~~~~~~l~------~---~~~~~~~~~l~~l~~~~~~~i~~~l~~s~~~L~~~~~~~l~~la~f~----~~~  342 (429)
                        |+|..+..++....      .   -+...+........   .   ...+..++..|++..+.++..++.+.    ..+
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              99977665543321      1   12233332222210   0   23344567889999999999888754    234


Q ss_pred             CHHHHHH----HH-HHcCCC------hhhhHHHHHHcCceeEcc-----CCeEEccHHH
Q 048064          343 DIYLVKK----FF-EASGFY------PEIGISILVDKALIAINS-----YNKITMHDLL  385 (429)
Q Consensus       343 ~~~~l~~----~~-~~~~~~------~~~~l~~L~~~sLi~~~~-----~~~~~mH~lv  385 (429)
                      +...+..    +. ...+..      ....++.|.+.|||....     .|+|++|.+.
T Consensus       329 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~~gli~~~~~~~~~~g~~~~~~l~  387 (412)
T 1w5s_A          329 NAGLLRQRYEDASLTMYNVKPRGYTQYHIYLKHLTSLGLVDAKPSGRGMRGRTTLFRLA  387 (412)
T ss_dssp             CHHHHHHHHHHHHHHHSCCCCCCHHHHHHHHHHHHHTTSEEEECC-------CCEEEEC
T ss_pred             cHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhCCCEEeecccCCCCCceeEEEeC
Confidence            5543322    23 222321      235689999999998642     3445555444

>3jrn_A AT1G72930 protein; TIR domain arabidopsis thaliana, plant protein; 2.00A {Arabidopsis thaliana}

Probab=99.77  E-value=2e-19  Score=150.81  Aligned_cols=82  Identities=38%  Similarity=0.560  Sum_probs=72.0

Q ss_pred             CCCcEEEeEeeecccccccccccchHHHHHHhhhh-CHHHHHHHHHHHHHHHhhcCCccCCCCchHHHHHHHhhhhhccC
Q 048064            2 VYAQIVIPVFYRVDPSHVRKQIGSFGVSFSKLKEK-FPEKMQRWRSALTEAANLSGFDSFVIRNESELIKKVVNDILEKL   80 (429)
Q Consensus         2 ~~~~~v~pvfy~v~p~~vr~~~~~~~~~~~~~~~~-~~~~~~~w~~al~~~~~~~~~~~~~~~~e~~~i~~i~~~~~~~~   80 (429)
                      ..|++||||||+|+|++||+|+|+||++|.+|..+ -.+++++|+.||+++|+++|++ . ..+|+++|++|++++.+.+
T Consensus        93 ~~~~~ViPIfy~V~ps~Vr~q~g~fg~af~~~~~~~~~~~~~~Wr~AL~~va~~~G~~-~-~~~e~~~i~~Iv~~v~~~l  170 (176)
T 3jrn_A           93 KGSITVMPIFYGVEPNHVRWQTGVLAEQFKKHASREDPEKVLKWRQALTNFAQLSGDC-S-GDDDSKLVDKIANEISNKK  170 (176)
T ss_dssp             TTSCEEEEEECSSCHHHHHHTCTHHHHHHHHHHTTSCHHHHHHHHHHHHHHTTSCCEE-C-CSCHHHHHHHHHHHHHTTC
T ss_pred             cCCCEEEEEEecCCHHHhhhccCcHHHHHHHHHhccCHHHHHHHHHHHHHHhccccee-c-CCCHHHHHHHHHHHHHHHh
Confidence            46899999999999999999999999999999887 4567999999999999999998 4 4779999999999999999


Q ss_pred             Ccccc
Q 048064           81 PKVVP   85 (429)
Q Consensus        81 ~~~~p   85 (429)
                      .+.+|
T Consensus       171 ~~~~~  175 (176)
T 3jrn_A          171 TIYAT  175 (176)
T ss_dssp             C----
T ss_pred             cCCCC
Confidence            87665

>3ozi_A L6TR; plant TIR domain, plant protein; 2.30A {Linum usitatissimum}

Probab=99.73  E-value=1.1e-18  Score=148.47  Aligned_cols=79  Identities=33%  Similarity=0.632  Sum_probs=71.9

Q ss_pred             CCcEEEeEeeecccccccccccchHHHHHHhhhhCH-HHHHHHHHHHHHHHhhcCCccCCCCchHHHHHHHhhhhhccCC
Q 048064            3 YAQIVIPVFYRVDPSHVRKQIGSFGVSFSKLKEKFP-EKMQRWRSALTEAANLSGFDSFVIRNESELIKKVVNDILEKLP   81 (429)
Q Consensus         3 ~~~~v~pvfy~v~p~~vr~~~~~~~~~~~~~~~~~~-~~~~~w~~al~~~~~~~~~~~~~~~~e~~~i~~i~~~~~~~~~   81 (429)
                      .|++||||||+|+|++||+|.|+||++|.+|..++. +++++|+.||+++|+++|++......+.+++++|++++..+++
T Consensus       122 ~~~~ViPIFY~VdPs~Vr~q~g~fg~af~~~~~~~~~~~v~~Wr~AL~~va~lsG~~~~~~~~e~~~i~~Iv~di~~kl~  201 (204)
T 3ozi_A          122 PRRIILPIFYMVDPSDVRHQTGCYKKAFRKHANKFDGQTIQNWKDALKKVGDLKGWHIGKNDKQGAIADKVSADIWSHIS  201 (204)
T ss_dssp             TTSEECCEEESSCHHHHHHTCTTHHHHHHHHTTTSCHHHHHHHHHHHHHHHTSCBEEECTTSCHHHHHHHHHHHHHHHHH
T ss_pred             CCeeeEEEEeecCHHHHHhccccHHHHHHHHHHhhCHHHHHHHHHHHHHHhccCceecCCCCCHHHHHHHHHHHHHHHhc
Confidence            578999999999999999999999999999998875 5699999999999999999956667789999999999987764

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=99.69  E-value=5.2e-15  Score=142.96  Aligned_cols=268  Identities=16%  Similarity=0.065  Sum_probs=167.3

Q ss_pred             CCcccchhhHHHHHHHhhc------CCCEEEEEcCCCcchHHHHHHHHHHhhcC------c-ceeEEEeechhhhhhcC-
Q 048064           89 KNELVGVESRVEEIQSLLG------AAPLLGIWGIGGIGKTTIARVIFNRISRN------F-KGSCFLENIREESQKAG-  154 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~------f-~~~~~~~~~~~~~~~~~-  154 (429)
                      +..|+||+.+++++..++.      ..+.+.|+|++|+|||+||+.+++.+...      + ...+.+.++..    .. 
T Consensus        19 p~~l~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~~----~~~   94 (384)
T 2qby_B           19 FKEIPFREDILRDAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCRE----VGG   94 (384)
T ss_dssp             CSSCTTCHHHHHHHHHHHHHHHTTCCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHHH----HCS
T ss_pred             CCCCCChHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECcc----CCC
Confidence            4789999999999998775      36789999999999999999999987443      2 33333333332    23 


Q ss_pred             CHHHHHHHHHHHHhcCCCC---C---CCHHHHHHHhcCCcEEEEecCCCCHHH-------HHHHhccCCCCCCCCEEEEE
Q 048064          155 GLAFLQQKLLSEVLKDVNV---I---PHIDLNFRRLSCRKVLIVLDDVTCLNQ-------IESLVGSLDRLLPESRILIT  221 (429)
Q Consensus       155 ~~~~~~~~l~~~~~~~~~~---~---~~~~~l~~~l~~~~~LlVlDdv~~~~~-------~~~l~~~l~~~~~~~~iiiT  221 (429)
                      ....+...++..+......   .   .....+...+..++.+|||||++....       +..+....    .+..+|+|
T Consensus        95 ~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~----~~~~iI~~  170 (384)
T 2qby_B           95 TPQAVLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVKRRGGDIVLYQLLRSD----ANISVIMI  170 (384)
T ss_dssp             CHHHHHHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSSSCEEEEEETTHHHHHSTTSHHHHHHHHTSS----SCEEEEEE
T ss_pred             CHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhccCCCEEEEECHHHhccCCCCceeHHHHhcCC----cceEEEEE
Confidence            5556666666666332111   1   113336666766666999999976532       22333222    67788888


Q ss_pred             eCChhhhhhc------CCCeEEEcCCCCHHHHHHHHHHhhhc---CCCCChhHHHHHHHHHHHhC---CChHHHH-HHHH
Q 048064          222 TRNKQVLRNC------HINQIYEMKGLGDDHALELFIRHAFR---QNLVDVDYKELSDKVINYAQ---GVPLALK-ILGC  288 (429)
Q Consensus       222 tR~~~~~~~~------~~~~~~~l~~L~~~ea~~L~~~~~~~---~~~~~~~~~~~~~~i~~~~~---G~PLai~-~~~~  288 (429)
                      |+.......+      .....+.+++++.++..+++...+..   ....+   .+..+.+++.++   |+|..+. .+-.
T Consensus       171 t~~~~~~~~l~~~l~sr~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~---~~~~~~i~~~~~~~~G~~r~a~~~l~~  247 (384)
T 2qby_B          171 SNDINVRDYMEPRVLSSLGPSVIFKPYDAEQLKFILSKYAEYGLIKGTYD---DEILSYIAAISAKEHGDARKAVNLLFR  247 (384)
T ss_dssp             CSSTTTTTTSCHHHHHTCCCEEEECCCCHHHHHHHHHHHHHHTSCTTSCC---SHHHHHHHHHHHTTCCCHHHHHHHHHH
T ss_pred             ECCCchHhhhCHHHHhcCCCeEEECCCCHHHHHHHHHHHHHhhcccCCcC---HHHHHHHHHHHHhccCCHHHHHHHHHH
Confidence            8865221111      11238999999999999999987532   12222   345677888888   9997443 3222


Q ss_pred             hh--c----CCCHHHHHHHHHHHhhCCCccHHHHHHHhhhcCChhhHHHHhhhhcccCCcCH-HHHHHHHHHcCCC----
Q 048064          289 YL--F----ERKKEVWENAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFFKGEDI-YLVKKFFEASGFY----  357 (429)
Q Consensus       289 ~l--~----~~~~~~~~~~l~~l~~~~~~~i~~~l~~s~~~L~~~~~~~l~~la~f~~~~~~-~~l~~~~~~~~~~----  357 (429)
                      ..  .    .-+.+.+...+....       ...+..++..|++..+.++..++....+-+. .....+....|..    
T Consensus       248 a~~~a~~~~~i~~~~v~~~~~~~~-------~~~~~~~~~~l~~~~~~~l~al~~~~~~~~~~~~~~~~~~~~g~~~~~~  320 (384)
T 2qby_B          248 AAQLASGGGIIRKEHVDKAIVDYE-------QERLIEAVKALPFHYKLALRSLIESEDVMSAHKMYTDLCNKFKQKPLSY  320 (384)
T ss_dssp             HHHHTTSSSCCCHHHHHHHHHHHH-------HHHHHHHHHSSCHHHHHHHHHHHTCCBHHHHHHHHHHHHHHTTCCCCCH
T ss_pred             HHHHhcCCCccCHHHHHHHHHHHh-------cchHHHHHHcCCHHHHHHHHHHHHhcccChHHHHHHHHHHHcCCCCCCH
Confidence            21  1    234566666665542       2346677889999999988888761110111 2333344332211    


Q ss_pred             --hhhhHHHHHHcCceeEc
Q 048064          358 --PEIGISILVDKALIAIN  374 (429)
Q Consensus       358 --~~~~l~~L~~~sLi~~~  374 (429)
                        ....++.|.+.|+++..
T Consensus       321 ~~~~~~l~~L~~~gli~~~  339 (384)
T 2qby_B          321 RRFSDIISELDMFGIVKIR  339 (384)
T ss_dssp             HHHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHHhCCCEEEE
Confidence              13468899999999964

>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=99.66  E-value=1.2e-14  Score=140.16  Aligned_cols=277  Identities=16%  Similarity=0.095  Sum_probs=163.8

Q ss_pred             CCCCcccchhhHHHHHHHhhc------CCCEEEEEcCCCcchHHHHHHHHHHhhcCc--ceeEEEeechhhhhhcCCHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG------AAPLLGIWGIGGIGKTTIARVIFNRISRNF--KGSCFLENIREESQKAGGLAF  158 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f--~~~~~~~~~~~~~~~~~~~~~  158 (429)
                      ..+..|+||+.+++.+.+++.      ..+.+.|+|++|+|||||++.+++.+...+  ...+.+.++..    ......
T Consensus        17 ~~p~~~~gr~~e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~----~~~~~~   92 (386)
T 2qby_A           17 YIPDELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQ----IDTPYR   92 (386)
T ss_dssp             CCCSCCTTCHHHHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHH----HCSHHH
T ss_pred             cCCCCCCChHHHHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCC----CCCHHH
Confidence            455889999999999999886      367899999999999999999999876543  22333333322    223444


Q ss_pred             HHHHHHHHHhcCCCC-CCCH----HHHHHHhc--CCcEEEEecCCCCH------HHHHHHhccCCC-CCCCCEEEEEeCC
Q 048064          159 LQQKLLSEVLKDVNV-IPHI----DLNFRRLS--CRKVLIVLDDVTCL------NQIESLVGSLDR-LLPESRILITTRN  224 (429)
Q Consensus       159 ~~~~l~~~~~~~~~~-~~~~----~~l~~~l~--~~~~LlVlDdv~~~------~~~~~l~~~l~~-~~~~~~iiiTtR~  224 (429)
                      +...+...+...... ....    +.+...+.  +++.+||||+++..      ..+..+...+.. ...+..+|+||+.
T Consensus        93 ~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~~~~~~~I~~~~~  172 (386)
T 2qby_A           93 VLADLLESLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITND  172 (386)
T ss_dssp             HHHHHTTTTSCCCCSSSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSCCC--EEEEEEESC
T ss_pred             HHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhccCcCHHHHHHhhchhhcCCCeEEEEEEECC
Confidence            455554444322111 1112    22444443  34899999999653      233344333321 1345567777776


Q ss_pred             hhhhhhcC-------CCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhC---CChHHHHHHHHhhc---
Q 048064          225 KQVLRNCH-------INQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQ---GVPLALKILGCYLF---  291 (429)
Q Consensus       225 ~~~~~~~~-------~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~---G~PLai~~~~~~l~---  291 (429)
                      ......+.       ....+.+++++.++..+++...+........-..+..+.+++.++   |+|..+..+.....   
T Consensus       173 ~~~~~~~~~~~~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~G~~r~~~~ll~~a~~~a  252 (386)
T 2qby_A          173 VKFVDLLDPRVKSSLSEEEIIFPPYNAEELEDILTKRAQMAFKPGVLPDNVIKLCAALAAREHGDARRALDLLRVSGEIA  252 (386)
T ss_dssp             GGGGGGCTTHHHHTTTTEEEEECCCCHHHHHHHHHHHHHHHBCSSCSCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHH
T ss_pred             CChHhhhCHHHhccCCCeeEEeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHH
Confidence            54322221       125899999999999999988653211111122455677777777   99985544333221   


Q ss_pred             ------CCCHHHHHHHHHHHhhCCCccHHHHHHHhhhcCChhhHHHHhhhhcccC----CcCHHHH----HHHHHHcCCC
Q 048064          292 ------ERKKEVWENAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFFK----GEDIYLV----KKFFEASGFY  357 (429)
Q Consensus       292 ------~~~~~~~~~~l~~l~~~~~~~i~~~l~~s~~~L~~~~~~~l~~la~f~~----~~~~~~l----~~~~~~~~~~  357 (429)
                            .-+...+..++....       ...+..++..+++..+.++..++.+..    .++...+    ..+....+..
T Consensus       253 ~~~~~~~i~~~~v~~a~~~~~-------~~~~~~~~~~l~~~~~~il~ai~~~~~~g~~~~~~~~l~~~~~~~~~~~g~~  325 (386)
T 2qby_A          253 ERMKDTKVKEEYVYMAKEEIE-------RDRVRDIILTLPFHSKLVLMAVVSISSEENVVSTTGAVYETYLNICKKLGVE  325 (386)
T ss_dssp             HHTTCSSCCHHHHHHHHHHHH-------HHHHHHHHHTSCHHHHHHHHHHHHHC-----CEEHHHHHHHHHHHHHHHTCC
T ss_pred             HhcCCCccCHHHHHHHHHHHh-------hchHHHHHHcCCHHHHHHHHHHHHHHhcCCCceeHHHHHHHHHHHHHhcCCC
Confidence                  123444444444432       235666788899999988888885432    2334322    2333322221


Q ss_pred             ------hhhhHHHHHHcCceeEc
Q 048064          358 ------PEIGISILVDKALIAIN  374 (429)
Q Consensus       358 ------~~~~l~~L~~~sLi~~~  374 (429)
                            ....++.|.+.|+|+..
T Consensus       326 ~~~~~~~~~~l~~L~~~gli~~~  348 (386)
T 2qby_A          326 AVTQRRVSDIINELDMVGILTAK  348 (386)
T ss_dssp             CCCHHHHHHHHHHHHHHTSEEEE
T ss_pred             CCCHHHHHHHHHHHHhCCCEEEE
Confidence                  23478999999999864

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=99.65  E-value=3.6e-14  Score=137.23  Aligned_cols=299  Identities=13%  Similarity=0.063  Sum_probs=178.0

Q ss_pred             CCCCcccchhhHHHHHHHhhc------CCC--EEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG------AAP--LLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAF  158 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~------~~~--~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~  158 (429)
                      ..+..++||+.+++++..++.      ...  .+.|+|++|+|||||++.+++.........+.+.++..    ......
T Consensus        14 ~~p~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~~~~~~~~~~~~i~~~~----~~~~~~   89 (389)
T 1fnn_A           14 YVPKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFI----YRNFTA   89 (389)
T ss_dssp             CCCSCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTT----CCSHHH
T ss_pred             cCCCCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHHHhhhcCeeEEEEeCcc----CCCHHH
Confidence            445789999999999999886      224  89999999999999999999987654222223333322    234556


Q ss_pred             HHHHHHHHHhcCCCC-CCCHHH----HHHHh--cCCcEEEEecCCCC--HHHHHHHhccCCCCC----CCCEEEEEeCCh
Q 048064          159 LQQKLLSEVLKDVNV-IPHIDL----NFRRL--SCRKVLIVLDDVTC--LNQIESLVGSLDRLL----PESRILITTRNK  225 (429)
Q Consensus       159 ~~~~l~~~~~~~~~~-~~~~~~----l~~~l--~~~~~LlVlDdv~~--~~~~~~l~~~l~~~~----~~~~iiiTtR~~  225 (429)
                      +...+...+...... ......    +...+  .+++.+|||||++.  ......+...+....    .+..+|++|+..
T Consensus        90 ~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~L~~~~~~~~~~~~~~~~iI~~~~~~  169 (389)
T 1fnn_A           90 IIGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHND  169 (389)
T ss_dssp             HHHHHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESST
T ss_pred             HHHHHHHHhCccCCCCCCCHHHHHHHHHHHHhhcCCeEEEEEECccccchHHHHHHHHHHHhCCCCCcCCEEEEEEECCc
Confidence            666666665443211 112222    33333  25688999999975  345555555544322    366788887766


Q ss_pred             hhhhhcC-------CCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHh---------CCChHHHHHHHHh
Q 048064          226 QVLRNCH-------INQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYA---------QGVPLALKILGCY  289 (429)
Q Consensus       226 ~~~~~~~-------~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~---------~G~PLai~~~~~~  289 (429)
                      .....+.       ....+.+++++.++..+++...+........-..+..+.+++.+         +|+|..+..+...
T Consensus       170 ~~~~~l~~~~~~r~~~~~i~~~pl~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~G~~r~~~~~l~~  249 (389)
T 1fnn_A          170 AVLNNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNRGDARLAIDILYR  249 (389)
T ss_dssp             HHHHTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHHSBSSTTCTTSCCHHHHHHHHHH
T ss_pred             hHHHHhCHHhhhcCCCceEEeCCCCHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHHH
Confidence            4332221       12369999999999999998876431101112246778899999         7998766555433


Q ss_pred             hc------C---CCHHHHHHHHHHHhhCCCccHHHHHHHhhhcCChhhHHHHhhhhccc---C--CcCHHHHHHHH----
Q 048064          290 LF------E---RKKEVWENAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFF---K--GEDIYLVKKFF----  351 (429)
Q Consensus       290 l~------~---~~~~~~~~~l~~l~~~~~~~i~~~l~~s~~~L~~~~~~~l~~la~f~---~--~~~~~~l~~~~----  351 (429)
                      ..      .   -+.+..........   ...    +...+..|+.+.+.++..++.+.   .  .++...+....    
T Consensus       250 a~~~a~~~~~~~i~~~~v~~~~~~~~---~~~----~~~~l~~l~~~~~~~L~~l~~~~~~~~~~~~~~~~i~~~~~~~~  322 (389)
T 1fnn_A          250 SAYAAQQNGRKHIAPEDVRKSSKEVL---FGI----SEEVLIGLPLHEKLFLLAIVRSLKISHTPYITFGDAEESYKIVC  322 (389)
T ss_dssp             HHHHHHHTTCSSCCHHHHHHHHHHHS---CCC----CHHHHHHSCHHHHHHHHHHHHHHHHHCSSCEEHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCCcCHHHHHHHHHHHh---hhh----HHHHHHcCCHHHHHHHHHHHHHHhhccCCCccHHHHHHHHHHHH
Confidence            21      1   12233333333221   111    23345678888898888888654   2  34444443332    


Q ss_pred             HHcCCC------hhhhHHHHHHcCceeEccC-------CeE-------EccHHHHHHHHHHHhhh
Q 048064          352 EASGFY------PEIGISILVDKALIAINSY-------NKI-------TMHDLLQELGREIVRQE  396 (429)
Q Consensus       352 ~~~~~~------~~~~l~~L~~~sLi~~~~~-------~~~-------~mH~lv~~~a~~~~~~~  396 (429)
                      ...+..      ....++.|...|+|.....       |++       ..|+++..+...++.++
T Consensus       323 ~~~~~~~~~~~~~~~~l~~L~~~gli~~~~~~~~~g~~g~~~~~~l~~~~~~v~~~~~~~~~~~~  387 (389)
T 1fnn_A          323 EEYGERPRVHSQLWSYLNDLREKGIVETRQNKRGEGVRGRTTLISIGTEPLDTLEAVITKLIKEE  387 (389)
T ss_dssp             HHTTCCCCCHHHHHHHHHHHHHTTSSEEEEC---------CEEEECCSSCHHHHHHHHHHHHHHH
T ss_pred             HHcCCCCCCHHHHHHHHHHHHhCCCeEEeeeccCCCCCCceeEEEeCCCHHHHHHHHHHHHHHHh
Confidence            222211      2247899999999997433       222       24566666666655543

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.65  E-value=9.3e-14  Score=134.10  Aligned_cols=273  Identities=15%  Similarity=0.085  Sum_probs=165.2

Q ss_pred             CCCCcccchhhHHHHHHHhhc------CCCEEEEEcCCCcchHHHHHHHHHHhhcCc-----ceeEEEeechhhhhhcCC
Q 048064           87 DSKNELVGVESRVEEIQSLLG------AAPLLGIWGIGGIGKTTIARVIFNRISRNF-----KGSCFLENIREESQKAGG  155 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f-----~~~~~~~~~~~~~~~~~~  155 (429)
                      ..+..|+||+.+++++..++.      ..+.+.|+|++|+||||+|+.+++......     ...+.+.++..    ...
T Consensus        16 ~~p~~~~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~----~~~   91 (387)
T 2v1u_A           16 YVPDVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARH----RET   91 (387)
T ss_dssp             CCCSCCTTCHHHHHHHHHTTGGGTSSCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTT----SCS
T ss_pred             cCCCCCCCHHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCc----CCC
Confidence            445789999999999999883      567899999999999999999999875431     33333333332    344


Q ss_pred             HHHHHHHHHHHHhcCCCCC-CCH----HHHHHHh--cCCcEEEEecCCCCHHH-------HHHHhccCCCC--CCCCEEE
Q 048064          156 LAFLQQKLLSEVLKDVNVI-PHI----DLNFRRL--SCRKVLIVLDDVTCLNQ-------IESLVGSLDRL--LPESRIL  219 (429)
Q Consensus       156 ~~~~~~~l~~~~~~~~~~~-~~~----~~l~~~l--~~~~~LlVlDdv~~~~~-------~~~l~~~l~~~--~~~~~ii  219 (429)
                      ...+...+...+....... ...    ..+...+  .+++.+|||||++....       +..+.......  ..+..+|
T Consensus        92 ~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~~~~~~~I  171 (387)
T 2v1u_A           92 PYRVASAIAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVSLV  171 (387)
T ss_dssp             HHHHHHHHHHHHSCCCCSSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC-----CEEE
T ss_pred             HHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhcCCCceEEEE
Confidence            5566667777665432211 112    2244444  34588999999986532       22223222221  3456677


Q ss_pred             EEeCChhh--------hhhcCCCeEEEcCCCCHHHHHHHHHHhhhc---CCCCChhHHHHHHHHHHHhC---CChHHHHH
Q 048064          220 ITTRNKQV--------LRNCHINQIYEMKGLGDDHALELFIRHAFR---QNLVDVDYKELSDKVINYAQ---GVPLALKI  285 (429)
Q Consensus       220 iTtR~~~~--------~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~---~~~~~~~~~~~~~~i~~~~~---G~PLai~~  285 (429)
                      +||+....        ...+ ....+.+++++.++..+++...+..   ....+   .+..+.+++.++   |+|..+..
T Consensus       172 ~~t~~~~~~~~l~~~l~~r~-~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~G~~r~~~~  247 (387)
T 2v1u_A          172 GITNSLGFVENLEPRVKSSL-GEVELVFPPYTAPQLRDILETRAEEAFNPGVLD---PDVVPLCAALAAREHGDARRALD  247 (387)
T ss_dssp             EECSCSTTSSSSCHHHHTTT-TSEECCBCCCCHHHHHHHHHHHHHHHBCTTTBC---SSHHHHHHHHHHSSSCCHHHHHH
T ss_pred             EEECCCchHhhhCHHHHhcC-CCeEEeeCCCCHHHHHHHHHHHHHhhccCCCCC---HHHHHHHHHHHHHhccCHHHHHH
Confidence            77776522        1111 1257899999999999999887532   12222   245677888888   99954433


Q ss_pred             HHHhh----c--C---CCHHHHHHHHHHHhhCCCccHHHHHHHhhhcCChhhHHHHhhhhcccCC---cCHHHHH----H
Q 048064          286 LGCYL----F--E---RKKEVWENAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFFKG---EDIYLVK----K  349 (429)
Q Consensus       286 ~~~~l----~--~---~~~~~~~~~l~~l~~~~~~~i~~~l~~s~~~L~~~~~~~l~~la~f~~~---~~~~~l~----~  349 (429)
                      +....    .  +   -+.+.+..++....       ...+..++..|++..+.++..++.+..+   +....+.    .
T Consensus       248 ~l~~a~~~a~~~~~~~i~~~~v~~a~~~~~-------~~~~~~~~~~l~~~~~~~l~a~~~~~~~~~~~~~~~~~~~~~~  320 (387)
T 2v1u_A          248 LLRVAGEIAERRREERVRREHVYSARAEIE-------RDRVSEVVRTLPLHAKLVLLSIMMLEDGGRPASTGEIYERYKE  320 (387)
T ss_dssp             HHHHHHHHHHHTTCSCBCHHHHHHHHHHHH-------HHHHHHHHHSSCHHHHHHHHHHHHHSSSSCCEEHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCcCHHHHHHHHHHHh-------hchHHHHHHcCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHH
Confidence            32221    1  1   23455555554432       2345667889999999888888754333   3333222    2


Q ss_pred             HHHHcCCC------hhhhHHHHHHcCceeEc
Q 048064          350 FFEASGFY------PEIGISILVDKALIAIN  374 (429)
Q Consensus       350 ~~~~~~~~------~~~~l~~L~~~sLi~~~  374 (429)
                      ++...+..      ....++.|...|+++..
T Consensus       321 ~~~~~~~~~~~~~~~~~~l~~L~~~gli~~~  351 (387)
T 2v1u_A          321 LTSTLGLEHVTLRRVSGIISELDMLGIVKSR  351 (387)
T ss_dssp             HHHHTTCCCCCHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHhcCCCCCCHHHHHHHHHHHHhCCCeEEE
Confidence            22222221      23468899999999874

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=99.52  E-value=5.7e-13  Score=119.71  Aligned_cols=185  Identities=16%  Similarity=0.129  Sum_probs=118.7

Q ss_pred             CCCCcccchhhHHHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhcCccee--------------------EEE
Q 048064           87 DSKNELVGVESRVEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGS--------------------CFL  143 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~--------------------~~~  143 (429)
                      .....++||+..++.|..++.   ..+.+.|+|++|+||||||+.+++.+...+...                    .+.
T Consensus        20 ~~~~~~~g~~~~~~~l~~~l~~~~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   99 (250)
T 1njg_A           20 QTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLIE   99 (250)
T ss_dssp             CSGGGCCSCHHHHHHHHHHHHHTCCCSEEEEECSTTSCHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHTTCCSSEEE
T ss_pred             ccHHHHhCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhccCCcceEE
Confidence            334679999999999999987   335899999999999999999998775432110                    000


Q ss_pred             eechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCC--HHHHHHHhccCCCCCCCCEEEEE
Q 048064          144 ENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTC--LNQIESLVGSLDRLLPESRILIT  221 (429)
Q Consensus       144 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~--~~~~~~l~~~l~~~~~~~~iiiT  221 (429)
                      .....    .. .......++..+...            ...+++.+|||||++.  ...++.+...+.....+..+|+|
T Consensus       100 ~~~~~----~~-~~~~~~~~~~~~~~~------------~~~~~~~vlviDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~  162 (250)
T 1njg_A          100 IDAAS----RT-KVEDTRDLLDNVQYA------------PARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLA  162 (250)
T ss_dssp             EETTC----GG-GHHHHHHHHHSCCCS------------CSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEE
T ss_pred             ecCcc----cc-cHHHHHHHHHHhhhc------------hhcCCceEEEEECcccccHHHHHHHHHHHhcCCCceEEEEE
Confidence            00000    00 000011111111000            0134678999999974  45566666666554567788888


Q ss_pred             eCChhhh-hh-cCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHHHhh
Q 048064          222 TRNKQVL-RN-CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYL  290 (429)
Q Consensus       222 tR~~~~~-~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~~~l  290 (429)
                      |+..... .. ......+.+++++.++..+++...+......  -..+....+++.++|+|..+..+...+
T Consensus       163 t~~~~~~~~~l~~r~~~i~l~~l~~~e~~~~l~~~~~~~~~~--~~~~~~~~l~~~~~G~~~~~~~~~~~~  231 (250)
T 1njg_A          163 TTDPQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIA--HEPRALQLLARAAEGSLRDALSLTDQA  231 (250)
T ss_dssp             ESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHTTCC--BCHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             eCChHhCCHHHHHHhhhccCCCCCHHHHHHHHHHHHHhcCCC--CCHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            8765321 11 1234689999999999999998877543321  123567889999999999988776543

>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=99.46  E-value=8.8e-13  Score=116.81  Aligned_cols=185  Identities=13%  Similarity=0.176  Sum_probs=116.6

Q ss_pred             CCCCcccchhhHHHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhcC-cceeEEEeechhhhhhcCCHHHHHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISRN-FKGSCFLENIREESQKAGGLAFLQQKL  163 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-f~~~~~~~~~~~~~~~~~~~~~~~~~l  163 (429)
                      .....++|++..++.+.+++.  ..+.+.|+|++|+|||++|+.+++.+... +...+...+...    ......+...+
T Consensus        14 ~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~   89 (226)
T 2chg_A           14 RTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASD----ERGIDVVRHKI   89 (226)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHTTCCCCEEEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEEETTC----TTCHHHHHHHH
T ss_pred             CCHHHHcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHhccccccceEEecccc----ccChHHHHHHH
Confidence            344679999999999999987  33459999999999999999999986433 222222222211    12222222211


Q ss_pred             HHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEeCChhh-hhh-cCCCeEEEc
Q 048064          164 LSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITTRNKQV-LRN-CHINQIYEM  239 (429)
Q Consensus       164 ~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTtR~~~~-~~~-~~~~~~~~l  239 (429)
                       ........          ...+++.+|||||++..  ...+.+...+.....++.+|+||+.... ... ......+.+
T Consensus        90 -~~~~~~~~----------~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~l~~r~~~i~~  158 (226)
T 2chg_A           90 -KEFARTAP----------IGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRF  158 (226)
T ss_dssp             -HHHHTSCC----------STTCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEEC
T ss_pred             -HHHhcccC----------CCccCceEEEEeChhhcCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcCHHHHHhCceeec
Confidence             11111100          01246789999999754  3445555544444567788888876532 111 123458899


Q ss_pred             CCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHHH
Q 048064          240 KGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGC  288 (429)
Q Consensus       240 ~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~~  288 (429)
                      ++++.++..+++...+......  -..+....+++.++|+|..+..+..
T Consensus       159 ~~~~~~~~~~~l~~~~~~~~~~--~~~~~~~~l~~~~~g~~r~l~~~l~  205 (226)
T 2chg_A          159 KPVPKEAMKKRLLEICEKEGVK--ITEDGLEALIYISGGDFRKAINALQ  205 (226)
T ss_dssp             CCCCHHHHHHHHHHHHHHHTCC--BCHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            9999999999998876432221  1235678899999999997655443

>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=99.33  E-value=3.1e-11  Score=113.39  Aligned_cols=182  Identities=14%  Similarity=0.238  Sum_probs=113.7

Q ss_pred             CCCCcccchhhHHHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhcC-cceeEEEeechhhhhhcCCHHHHHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISRN-FKGSCFLENIREESQKAGGLAFLQQKL  163 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-f~~~~~~~~~~~~~~~~~~~~~~~~~l  163 (429)
                      .....++|++..++.|..++.  ..+.+.|+|++|+|||++|+.+++.+... +...+...+...    ..+...+ +.+
T Consensus        18 ~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~----~~~~~~i-~~~   92 (323)
T 1sxj_B           18 QVLSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASD----DRGIDVV-RNQ   92 (323)
T ss_dssp             SSGGGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTS----CCSHHHH-HTH
T ss_pred             CCHHHHHCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCCEEEecCcc----ccChHHH-HHH
Confidence            334679999999999999987  33449999999999999999999986432 222222222211    1122221 222


Q ss_pred             HHHHhcCCCCCCCHHHHHHHh-cCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEeCChhh-hhh-cCCCeEEE
Q 048064          164 LSEVLKDVNVIPHIDLNFRRL-SCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITTRNKQV-LRN-CHINQIYE  238 (429)
Q Consensus       164 ~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTtR~~~~-~~~-~~~~~~~~  238 (429)
                      ...+.....          .+ .+++.++||||++..  ...+.+...+....+++.+|+||+...- .+. ......++
T Consensus        93 ~~~~~~~~~----------~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~~~~~~l~~~l~sr~~~i~  162 (323)
T 1sxj_B           93 IKHFAQKKL----------HLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILR  162 (323)
T ss_dssp             HHHHHHBCC----------CCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEE
T ss_pred             HHHHHhccc----------cCCCCCceEEEEECcccCCHHHHHHHHHHHhccCCCceEEEEeCChhhchhHHHhhceEEe
Confidence            222211000          01 345789999999753  4455555555444567788887766432 121 12345899


Q ss_pred             cCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHH
Q 048064          239 MKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKI  285 (429)
Q Consensus       239 l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~  285 (429)
                      +.+++.++..+++...+......  -..+.+..+++.++|+|..+..
T Consensus       163 ~~~~~~~~~~~~l~~~~~~~~~~--~~~~~~~~l~~~~~G~~r~a~~  207 (323)
T 1sxj_B          163 YSKLSDEDVLKRLLQIIKLEDVK--YTNDGLEAIIFTAEGDMRQAIN  207 (323)
T ss_dssp             CCCCCHHHHHHHHHHHHHHHTCC--BCHHHHHHHHHHHTTCHHHHHH
T ss_pred             ecCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHH
Confidence            99999999999998876432211  1135678899999999965433

>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=99.30  E-value=3.5e-10  Score=106.35  Aligned_cols=249  Identities=15%  Similarity=0.121  Sum_probs=146.0

Q ss_pred             CCCCcccchhhHHHHHHHhhc-------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG-------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFL  159 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~-------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~  159 (429)
                      .....|+|++..++.+..++.       ..+.+.|+|++|+|||++|+.+++.....    +.+.+....    ..... 
T Consensus         9 ~~~~~~ig~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~i~~~~~~~----~~~~~~~~~----~~~~~-   79 (324)
T 1hqc_A            9 KTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVN----LRVTSGPAI----EKPGD-   79 (324)
T ss_dssp             CSTTTCCSCHHHHHHHHHHHHHHHHHCSCCCCCEEECCTTCCCHHHHHHHHHHHTCC----EEEECTTTC----CSHHH-
T ss_pred             ccHHHhhCHHHHHHHHHHHHHHHHccCCCCCcEEEECCCCCCHHHHHHHHHHHhCCC----EEEEecccc----CChHH-
Confidence            445789999999999988875       34689999999999999999999877422    222222211    11111 


Q ss_pred             HHHHHHHHhcCCCCCCCHHHHHHHhc---CCcEEEEecCCCCHH--HHHHHhccCCCC------------------CCCC
Q 048064          160 QQKLLSEVLKDVNVIPHIDLNFRRLS---CRKVLIVLDDVTCLN--QIESLVGSLDRL------------------LPES  216 (429)
Q Consensus       160 ~~~l~~~~~~~~~~~~~~~~l~~~l~---~~~~LlVlDdv~~~~--~~~~l~~~l~~~------------------~~~~  216 (429)
                                          +...+.   ..+.+|+|||++...  ....+...+...                  .++.
T Consensus        80 --------------------l~~~l~~~~~~~~~l~lDEi~~l~~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~~  139 (324)
T 1hqc_A           80 --------------------LAAILANSLEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRF  139 (324)
T ss_dssp             --------------------HHHHHTTTCCTTCEEEETTTTSCCHHHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCCC
T ss_pred             --------------------HHHHHHHhccCCCEEEEECCcccccchHHHHHHHHHhhhhHHhccccccccccccCCCCE
Confidence                                111121   246799999997542  333333222111                  1235


Q ss_pred             EEEEEeCChh-hhhhc--CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHHHhhcC-
Q 048064          217 RILITTRNKQ-VLRNC--HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYLFE-  292 (429)
Q Consensus       217 ~iiiTtR~~~-~~~~~--~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~~~l~~-  292 (429)
                      .+|.||.... +...+  .....+.+++++.++..+++...+......  -..+....++..++|+|..+..+...+.. 
T Consensus       140 ~~i~~t~~~~~~~~~l~~R~~~~i~l~~~~~~e~~~~l~~~~~~~~~~--~~~~~~~~l~~~~~G~~r~l~~~l~~~~~~  217 (324)
T 1hqc_A          140 TLIGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGVR--ITEEAALEIGRRSRGTMRVAKRLFRRVRDF  217 (324)
T ss_dssp             EEEEEESCCSSCSCSTTTTCSCEEECCCCCHHHHHHHHHHHHHTTTCC--CCHHHHHHHHHHSCSCHHHHHHHHHHHTTT
T ss_pred             EEEEeCCCcccCCHHHHhcccEEEecCCCCHHHHHHHHHHHHHhcCCC--CCHHHHHHHHHHccCCHHHHHHHHHHHHHH
Confidence            5666665432 21111  123578999999999999998876433221  12466788999999999988777655432 


Q ss_pred             --------CCHHHHHHHHHHHhhCCCccHHHHHHHhhhcCChhhHHHHhhhhccc--CCcCHHHHHHHHHHcCCChhhhH
Q 048064          293 --------RKKEVWENAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFF--KGEDIYLVKKFFEASGFYPEIGI  362 (429)
Q Consensus       293 --------~~~~~~~~~l~~l~~~~~~~i~~~l~~s~~~L~~~~~~~l~~la~f~--~~~~~~~l~~~~~~~~~~~~~~l  362 (429)
                              -+.......+..+            ..+...+++.++..+..+....  ++++...+...++.+.......+
T Consensus       218 a~~~~~~~i~~~~~~~~~~~~------------~~~~~~l~~~e~~~i~~~~~~~~g~~~~~~~~a~~lgi~~~tl~~~l  285 (324)
T 1hqc_A          218 AQVAGEEVITRERALEALAAL------------GLDELGLEKRDREILEVLILRFGGGPVGLATLATALSEDPGTLEEVH  285 (324)
T ss_dssp             STTTSCSCCCHHHHHHHHHHH------------TCCTTCCCHHHHHHHHHHHHHSCSSCCCHHHHHHHTTSCHHHHHHHT
T ss_pred             HHHhcCCCCCHHHHHHHHHHh------------cccccCCCHHHHHHHHHHHHHhcCCCchHHHHHHHhCCCHHHHHHHH
Confidence                    1223333332222            1223456777777776655332  34566666665532111112223


Q ss_pred             HH-HHHcCceeEccCCe
Q 048064          363 SI-LVDKALIAINSYNK  378 (429)
Q Consensus       363 ~~-L~~~sLi~~~~~~~  378 (429)
                      +. +++.+++.....|+
T Consensus       286 ~~~~i~~~li~~~~~g~  302 (324)
T 1hqc_A          286 EPYLIRQGLLKRTPRGR  302 (324)
T ss_dssp             HHHHHHTTSEEEETTEE
T ss_pred             hHHHHHhcchhcCCccc
Confidence            33 88899998775554

>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=99.28  E-value=4.9e-11  Score=112.22  Aligned_cols=186  Identities=16%  Similarity=0.161  Sum_probs=115.7

Q ss_pred             CCCCcccchhhHHHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhcCc-ceeEEEeechhhhhhcCCHHHHHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISRNF-KGSCFLENIREESQKAGGLAFLQQKL  163 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f-~~~~~~~~~~~~~~~~~~~~~~~~~l  163 (429)
                      ....+++|++..++.+..++.  ..+.+.|+|++|+||||+|+.+++.+.... ...+...+...... ......    .
T Consensus        22 ~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~l~~~l~~~~~~~~~~~~~~~~~~~-~~~~~~----~   96 (327)
T 1iqp_A           22 QRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERG-INVIRE----K   96 (327)
T ss_dssp             CSTTTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHHH-HHTTHH----H
T ss_pred             CCHHHhhCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCceEEeeccccCc-hHHHHH----H
Confidence            445679999999999999887  444699999999999999999999864332 11122222211111 000111    1


Q ss_pred             HHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEeCChhh-hhhc-CCCeEEEc
Q 048064          164 LSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITTRNKQV-LRNC-HINQIYEM  239 (429)
Q Consensus       164 ~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTtR~~~~-~~~~-~~~~~~~l  239 (429)
                      ........+          ...+++.++|+||++..  .....+...+.....++++|+||..... ...+ .....+.+
T Consensus        97 ~~~~~~~~~----------~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~~~~~  166 (327)
T 1iqp_A           97 VKEFARTKP----------IGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRF  166 (327)
T ss_dssp             HHHHHHSCC----------GGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEEEEC
T ss_pred             HHHHHhhCC----------cCCCCCeEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCCccccCHHHHhhCcEEEe
Confidence            111100000          01256789999999743  4555565555544567788888876532 1111 12347899


Q ss_pred             CCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHHHh
Q 048064          240 KGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCY  289 (429)
Q Consensus       240 ~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~~~  289 (429)
                      .+++.++..+++...+......  -..+....+++.++|+|..+..+...
T Consensus       167 ~~l~~~~~~~~l~~~~~~~~~~--~~~~~~~~l~~~~~g~~r~~~~~l~~  214 (327)
T 1iqp_A          167 RPLRDEDIAKRLRYIAENEGLE--LTEEGLQAILYIAEGDMRRAINILQA  214 (327)
T ss_dssp             CCCCHHHHHHHHHHHHHTTTCE--ECHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             cCCCHHHHHHHHHHHHHhcCCC--CCHHHHHHHHHHCCCCHHHHHHHHHH
Confidence            9999999999998876433211  12456788999999999876555443

>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=99.20  E-value=8.9e-10  Score=105.64  Aligned_cols=190  Identities=13%  Similarity=0.101  Sum_probs=117.0

Q ss_pred             CCCCcccchhhHHHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKL  163 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l  163 (429)
                      .....++|++..++.|...+.   ..+.+.|+|++|+||||+|+.+++.+.......  ...+..       ... ...+
T Consensus        13 ~~~~~~vg~~~~~~~L~~~l~~~~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~--~~~~~~-------~~~-~~~~   82 (373)
T 1jr3_A           13 QTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGIT--ATPCGV-------CDN-CREI   82 (373)
T ss_dssp             CSTTTSCSCHHHHHHHHHHHHHTCCCSEEEEESCTTSSHHHHHHHHHHHHSCTTCSC--SSCCSS-------SHH-HHHH
T ss_pred             CchhhccCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCC--CCCCcc-------cHH-HHHH
Confidence            344679999999999999887   345789999999999999999998764322100  000000       000 0000


Q ss_pred             HHHH-------hcC-CCCCCCHHHHHHHhc-----CCcEEEEecCCCC--HHHHHHHhccCCCCCCCCEEEEEeCChh-h
Q 048064          164 LSEV-------LKD-VNVIPHIDLNFRRLS-----CRKVLIVLDDVTC--LNQIESLVGSLDRLLPESRILITTRNKQ-V  227 (429)
Q Consensus       164 ~~~~-------~~~-~~~~~~~~~l~~~l~-----~~~~LlVlDdv~~--~~~~~~l~~~l~~~~~~~~iiiTtR~~~-~  227 (429)
                      ....       ... ......+..+...+.     +++.++||||++.  ....+.+...+.....+..+|++|.... +
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            0000       000 011233444444433     4568999999974  3456666666655455667777766442 2


Q ss_pred             hhh-cCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHHH
Q 048064          228 LRN-CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGC  288 (429)
Q Consensus       228 ~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~~  288 (429)
                      ... ......+++.+++.++..+++...+......  -..+.+..+++.++|+|..+..+..
T Consensus       163 ~~~l~sr~~~i~~~~l~~~~~~~~l~~~~~~~~~~--~~~~a~~~l~~~~~G~~r~~~~~l~  222 (373)
T 1jr3_A          163 PVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIA--HEPRALQLLARAAEGSLRDALSLTD  222 (373)
T ss_dssp             CHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCC--BCHHHHHHHHHHSSSCHHHHHHHHH
T ss_pred             cHHHHhheeEeeCCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHCCCCHHHHHHHHH
Confidence            111 2234789999999999999998776332211  1235678899999999998866553

>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=99.19  E-value=4.7e-10  Score=105.06  Aligned_cols=185  Identities=12%  Similarity=0.140  Sum_probs=115.9

Q ss_pred             CCCCcccchhhHHHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhcC-cceeEEEeechhhhhhcCCHHHHHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISRN-FKGSCFLENIREESQKAGGLAFLQQKL  163 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-f~~~~~~~~~~~~~~~~~~~~~~~~~l  163 (429)
                      ....+++|++..++.+.+++.  ..+.+.|+|++|+|||++|+.+++.+... +...+...+...... ..........+
T Consensus        14 ~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~   92 (319)
T 2chq_A           14 RTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERG-IDVVRHKIKEF   92 (319)
T ss_dssp             SSGGGSCSCHHHHHHHHTTTTTTCCCCEEEESSSSSSHHHHHHHHHHHHHTTCHHHHCEEEETTSTTC-TTTSSHHHHHH
T ss_pred             CCHHHHhCCHHHHHHHHHHHhCCCCCeEEEECcCCcCHHHHHHHHHHHhcCCcccCCeEEEeCccccC-hHHHHHHHHHH
Confidence            344679999999999999987  33359999999999999999999986322 221112222211100 01111111111


Q ss_pred             HHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEeCChh-hhhh-cCCCeEEEc
Q 048064          164 LSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITTRNKQ-VLRN-CHINQIYEM  239 (429)
Q Consensus       164 ~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTtR~~~-~~~~-~~~~~~~~l  239 (429)
                      ..    ...          ...+++.++||||++..  ...+.+...+....+++.+|+||.... +.+. ......+.+
T Consensus        93 ~~----~~~----------~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~~i~~  158 (319)
T 2chq_A           93 AR----TAP----------IGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRF  158 (319)
T ss_dssp             HH----SCC----------SSSCCCEEEEEETGGGSCHHHHHTTGGGTSSSSSSEEEEEEESCGGGSCHHHHTTCEEEEC
T ss_pred             Hh----cCC----------CCCCCceEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcchHHHhhCeEEEe
Confidence            10    000          00246789999999744  456667777766566777887776543 2221 123458999


Q ss_pred             CCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHHH
Q 048064          240 KGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGC  288 (429)
Q Consensus       240 ~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~~  288 (429)
                      .+++.++..+++...+......  -..+....+++.++|++..+.....
T Consensus       159 ~~~~~~~~~~~l~~~~~~~~~~--i~~~~l~~l~~~~~G~~r~~~~~l~  205 (319)
T 2chq_A          159 KPVPKEAMKKRLLEICEKEGVK--ITEDGLEALIYISGGDFRKAINALQ  205 (319)
T ss_dssp             CCCCHHHHHHHHHHHHHTTCCC--BCHHHHHHHHHTTTTCHHHHHHHHH
T ss_pred             cCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            9999999999998876433321  1245678889999999987654433

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=99.08  E-value=6e-09  Score=98.50  Aligned_cols=254  Identities=14%  Similarity=0.128  Sum_probs=144.5

Q ss_pred             CCCCcccchhhHHHHHHHhhc-------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG-------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFL  159 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~-------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~  159 (429)
                      .....++|++..++.+..++.       ..+.+.|+|++|+|||++|+.+++.....|    ...+...    ......+
T Consensus        26 ~~~~~iiG~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~ia~~~~~~~----~~~~~~~----~~~~~~~   97 (338)
T 3pfi_A           26 SNFDGYIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISYEMSANI----KTTAAPM----IEKSGDL   97 (338)
T ss_dssp             CSGGGCCSCHHHHHHHHHHHHHHHHTTSCCCCEEEECSTTSSHHHHHHHHHHHTTCCE----EEEEGGG----CCSHHHH
T ss_pred             CCHHHhCChHHHHHHHHHHHHHHHhcCCCCCeEEEECcCCCCHHHHHHHHHHHhCCCe----EEecchh----ccchhHH
Confidence            345689999999999998886       335799999999999999999988864332    1222211    1111111


Q ss_pred             HHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH--HHHHHHhccCCCC------------------CCCCEEE
Q 048064          160 QQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL--NQIESLVGSLDRL------------------LPESRIL  219 (429)
Q Consensus       160 ~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~l~~~------------------~~~~~ii  219 (429)
                      . ..+.                 . ..+..+|+||+++..  .....+...+...                  .++..+|
T Consensus        98 ~-~~~~-----------------~-~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~i  158 (338)
T 3pfi_A           98 A-AILT-----------------N-LSEGDILFIDEIHRLSPAIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLPKFTLI  158 (338)
T ss_dssp             H-HHHH-----------------T-CCTTCEEEEETGGGCCHHHHHHHHHHHHTSCC---------CCCCCCCCCCCEEE
T ss_pred             H-HHHH-----------------h-ccCCCEEEEechhhcCHHHHHHHHHHHHhccchhhcccCccccceecCCCCeEEE
Confidence            1 1111                 1 135679999999744  3333333322211                  1234566


Q ss_pred             EEeCChh-hhhhc--CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHHHhhc-----
Q 048064          220 ITTRNKQ-VLRNC--HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYLF-----  291 (429)
Q Consensus       220 iTtR~~~-~~~~~--~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~~~l~-----  291 (429)
                      .+|.... +...+  .....+.+++++.++...++...+.....  .-..+....+++.+.|+|-.+..+...+.     
T Consensus       159 ~atn~~~~l~~~L~~R~~~~i~l~~~~~~e~~~il~~~~~~~~~--~~~~~~~~~l~~~~~G~~r~l~~~l~~~~~~a~~  236 (338)
T 3pfi_A          159 GATTRAGMLSNPLRDRFGMQFRLEFYKDSELALILQKAALKLNK--TCEEKAALEIAKRSRSTPRIALRLLKRVRDFADV  236 (338)
T ss_dssp             EEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTC--EECHHHHHHHHHTTTTCHHHHHHHHHHHHHHHHH
T ss_pred             EeCCCccccCHHHHhhcCEEeeCCCcCHHHHHHHHHHHHHhcCC--CCCHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHh
Confidence            5555432 11111  23468999999999999999877643321  12245678888899999976655544321     


Q ss_pred             -C---CCHHHHHHHHHHHhhCCCccHHHHHHHhhhcCChhhHHHHhhhhccc-CCcCHHHHHHHHHHcCCChhhhHH-HH
Q 048064          292 -E---RKKEVWENAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFF-KGEDIYLVKKFFEASGFYPEIGIS-IL  365 (429)
Q Consensus       292 -~---~~~~~~~~~l~~l~~~~~~~i~~~l~~s~~~L~~~~~~~l~~la~f~-~~~~~~~l~~~~~~~~~~~~~~l~-~L  365 (429)
                       .   -+.......+..            +..+...++..++.++..++-.. ...+...+...++.+.......++ .|
T Consensus       237 ~~~~~i~~~~~~~~~~~------------~~~~~~~l~~~e~~~l~~l~~~~~~~~~~~~~a~~lg~~~~tl~~~l~~~l  304 (338)
T 3pfi_A          237 NDEEIITEKRANEALNS------------LGVNELGFDAMDLRYLELLTAAKQKPIGLASIAAALSEDENTIEDVIEPYL  304 (338)
T ss_dssp             TTCSEECHHHHHHHHHH------------HTCCTTCCCHHHHHHHHHHHHSCSCCBCHHHHHHHTTCCHHHHHHTTHHHH
T ss_pred             hcCCccCHHHHHHHHHH------------hCCcccCCCHHHHHHHHHHHHhcCCCchHHHHHHHhCCCHHHHHHHHhHHH
Confidence             0   112222222221            12223345555566666555542 235566666655322112222445 89


Q ss_pred             HHcCceeEccCCeEEc
Q 048064          366 VDKALIAINSYNKITM  381 (429)
Q Consensus       366 ~~~sLi~~~~~~~~~m  381 (429)
                      ++.++|.....|+...
T Consensus       305 ~~~gli~~~~~g~~~t  320 (338)
T 3pfi_A          305 LANGYIERTAKGRIAS  320 (338)
T ss_dssp             HHTTSEEEETTEEEEC
T ss_pred             HHcCceecCCCccccc
Confidence            9999999876666543

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=99.05  E-value=6.1e-10  Score=95.83  Aligned_cols=149  Identities=13%  Similarity=0.102  Sum_probs=86.3

Q ss_pred             CCCCcccchhhHHHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhcCc------ceeEEEeechhhhhhcCCHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISRNF------KGSCFLENIREESQKAGGLAF  158 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f------~~~~~~~~~~~~~~~~~~~~~  158 (429)
                      .....++||+.+++++.+.+.  ..+.+.|+|++|+|||++|+.+++.+....      ...++..++............
T Consensus        19 ~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (195)
T 1jbk_A           19 GKLDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYRGE   98 (195)
T ss_dssp             TCSCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHTTTCSHHH
T ss_pred             ccccccccchHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCcEEEeeHHHHhccCCcccc
Confidence            445779999999999999987  557899999999999999999999864321      123333333222110111111


Q ss_pred             HHHHHHHHHhcCCCCCCCHHHHHHHh--cCCcEEEEecCCCCHH---------H-HHHHhccCCCCCCCCEEEEEeCChh
Q 048064          159 LQQKLLSEVLKDVNVIPHIDLNFRRL--SCRKVLIVLDDVTCLN---------Q-IESLVGSLDRLLPESRILITTRNKQ  226 (429)
Q Consensus       159 ~~~~l~~~~~~~~~~~~~~~~l~~~l--~~~~~LlVlDdv~~~~---------~-~~~l~~~l~~~~~~~~iiiTtR~~~  226 (429)
                      ....              +..+...+  .+++.+|||||++...         . ...+...+.  ..+..+|+||....
T Consensus        99 ~~~~--------------~~~~~~~~~~~~~~~vl~iDe~~~l~~~~~~~~~~~~~~~l~~~~~--~~~~~~i~~~~~~~  162 (195)
T 1jbk_A           99 FEER--------------LKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALA--RGELHCVGATTLDE  162 (195)
T ss_dssp             HHHH--------------HHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHH--TTSCCEEEEECHHH
T ss_pred             HHHH--------------HHHHHHHHhhcCCCeEEEEeCHHHHhccCcccchHHHHHHHHHhhc--cCCeEEEEeCCHHH
Confidence            1100              01111111  3467899999997542         1 222222221  23455677666543


Q ss_pred             hh------hh-cCCCeEEEcCCCCHHHHHHHH
Q 048064          227 VL------RN-CHINQIYEMKGLGDDHALELF  251 (429)
Q Consensus       227 ~~------~~-~~~~~~~~l~~L~~~ea~~L~  251 (429)
                      ..      .. ......+.+++++.++..+++
T Consensus       163 ~~~~~~~~~~l~~r~~~i~~~~p~~~~~~~il  194 (195)
T 1jbk_A          163 YRQYIEKDAALERRFQKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             HHHHTTTCHHHHTTEEEEECCCCCHHHHHTTC
T ss_pred             HHHHHhcCHHHHHHhceeecCCCCHHHHHHHh
Confidence            21      11 122346889999999887654

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=99.04  E-value=7.8e-09  Score=95.22  Aligned_cols=178  Identities=19%  Similarity=0.254  Sum_probs=104.8

Q ss_pred             CCCCcccchhhHHHHHHHhhc---------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhh
Q 048064           87 DSKNELVGVESRVEEIQSLLG---------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQ  151 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~---------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~  151 (429)
                      .....++|.+..+++|.+.+.               ..+.+.|+|++|+|||+||+.+++.....    +...+......
T Consensus        14 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~~~~----~~~v~~~~~~~   89 (285)
T 3h4m_A           14 VRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNAT----FIRVVGSELVK   89 (285)
T ss_dssp             CCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHTTCE----EEEEEGGGGCC
T ss_pred             CCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCC----EEEEehHHHHH
Confidence            445789999999999988763               45679999999999999999999886432    22222222111


Q ss_pred             hcCC-HHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH----------------HHHHHHhccCC--CC
Q 048064          152 KAGG-LAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL----------------NQIESLVGSLD--RL  212 (429)
Q Consensus       152 ~~~~-~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~----------------~~~~~l~~~l~--~~  212 (429)
                      ...+ .......+                +.......+.+|+|||++..                ..+..++..+.  ..
T Consensus        90 ~~~~~~~~~~~~~----------------~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~  153 (285)
T 3h4m_A           90 KFIGEGASLVKDI----------------FKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDA  153 (285)
T ss_dssp             CSTTHHHHHHHHH----------------HHHHHHTCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTTCS
T ss_pred             hccchHHHHHHHH----------------HHHHHHcCCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhCCCC
Confidence            0111 11111111                11223346789999999654                12223332222  11


Q ss_pred             CCCCEEEEEeCChhhhh-----hcCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCC-ChHHHHHH
Q 048064          213 LPESRILITTRNKQVLR-----NCHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQG-VPLALKIL  286 (429)
Q Consensus       213 ~~~~~iiiTtR~~~~~~-----~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G-~PLai~~~  286 (429)
                      ..+..||.||.....+.     .......+.+++++.++..+++...+........   .....++..+.| .|-.|..+
T Consensus       154 ~~~~~vI~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~---~~~~~l~~~~~g~~~~~i~~l  230 (285)
T 3h4m_A          154 RGDVKIIGATNRPDILDPAILRPGRFDRIIEVPAPDEKGRLEILKIHTRKMNLAED---VNLEEIAKMTEGCVGAELKAI  230 (285)
T ss_dssp             SSSEEEEEECSCGGGBCHHHHSTTSEEEEEECCCCCHHHHHHHHHHHHTTSCBCTT---CCHHHHHHHCTTCCHHHHHHH
T ss_pred             CCCEEEEEeCCCchhcCHHHcCCCcCCeEEEECCCCHHHHHHHHHHHHhcCCCCCc---CCHHHHHHHcCCCCHHHHHHH
Confidence            23556777777553322     1123357899999999999999887643322111   124667777777 56566554


Q ss_pred             H
Q 048064          287 G  287 (429)
Q Consensus       287 ~  287 (429)
                      .
T Consensus       231 ~  231 (285)
T 3h4m_A          231 C  231 (285)
T ss_dssp             H
T ss_pred             H
Confidence            3

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=99.04  E-value=9.4e-09  Score=95.23  Aligned_cols=162  Identities=10%  Similarity=0.050  Sum_probs=97.6

Q ss_pred             CcccchhhHHHHHHHhhc------CCCEEEEEcCCCcchHHHHHHHHHHhhcCc------ceeEEEeechhhhhhcCCHH
Q 048064           90 NELVGVESRVEEIQSLLG------AAPLLGIWGIGGIGKTTIARVIFNRISRNF------KGSCFLENIREESQKAGGLA  157 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f------~~~~~~~~~~~~~~~~~~~~  157 (429)
                      ..+.||+.++++|...|.      .++.+.|+|++|+|||++++.+++.+....      ...+...++..    ..+..
T Consensus        20 ~~L~~Re~E~~~i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~----~~t~~   95 (318)
T 3te6_A           20 ELLKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALE----LAGMD   95 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTC----CC--H
T ss_pred             cccCCHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccc----cCCHH
Confidence            348899999999998876      677899999999999999999999875432      11222222222    34455


Q ss_pred             HHHHHHHHHHhcCC-CCCCCHHH---HHHHh---cCCcEEEEecCCCCHH---HHHHHhccCCCCCCCCEEEEEeCChhh
Q 048064          158 FLQQKLLSEVLKDV-NVIPHIDL---NFRRL---SCRKVLIVLDDVTCLN---QIESLVGSLDRLLPESRILITTRNKQV  227 (429)
Q Consensus       158 ~~~~~l~~~~~~~~-~~~~~~~~---l~~~l---~~~~~LlVlDdv~~~~---~~~~l~~~l~~~~~~~~iiiTtR~~~~  227 (429)
                      .+...++.++.... ........   +...+   .+++++++||+++...   .+..+............||.++.+.+.
T Consensus        96 ~~~~~I~~~L~g~~~~~~~~~~~L~~~f~~~~~~~~~~~ii~lDE~d~l~~q~~L~~l~~~~~~~~s~~~vI~i~n~~d~  175 (318)
T 3te6_A           96 ALYEKIWFAISKENLCGDISLEALNFYITNVPKAKKRKTLILIQNPENLLSEKILQYFEKWISSKNSKLSIICVGGHNVT  175 (318)
T ss_dssp             HHHHHHHHHHSCCC--CCCCHHHHHHHHHHSCGGGSCEEEEEEECCSSSCCTHHHHHHHHHHHCSSCCEEEEEECCSSCC
T ss_pred             HHHHHHHHHhcCCCCCchHHHHHHHHHHHHhhhccCCceEEEEecHHHhhcchHHHHHHhcccccCCcEEEEEEecCccc
Confidence            66667777775442 12222333   33332   4567999999998653   222232211111112233334433211


Q ss_pred             ----h-----hhcCCCeEEEcCCCCHHHHHHHHHHhhh
Q 048064          228 ----L-----RNCHINQIYEMKGLGDDHALELFIRHAF  256 (429)
Q Consensus       228 ----~-----~~~~~~~~~~l~~L~~~ea~~L~~~~~~  256 (429)
                          +     ..+ ....+.++|++.+|..+++..++.
T Consensus       176 ~~~~L~~~v~SR~-~~~~i~F~pYt~~el~~Il~~Rl~  212 (318)
T 3te6_A          176 IREQINIMPSLKA-HFTEIKLNKVDKNELQQMIITRLK  212 (318)
T ss_dssp             CHHHHHTCHHHHT-TEEEEECCCCCHHHHHHHHHHHHH
T ss_pred             chhhcchhhhccC-CceEEEeCCCCHHHHHHHHHHHHH
Confidence                1     122 125789999999999999988873

>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=99.01  E-value=8e-10  Score=98.95  Aligned_cols=173  Identities=14%  Similarity=0.175  Sum_probs=102.6

Q ss_pred             CCCcccchh---hHHHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHH
Q 048064           88 SKNELVGVE---SRVEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQK  162 (429)
Q Consensus        88 ~~~~~vGR~---~~~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~  162 (429)
                      ....|+|..   ..++.+..+..  ..+.+.|+|++|+||||||+.+++..........++. ......   ...     
T Consensus        26 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~-~~~~~~---~~~-----   96 (242)
T 3bos_A           26 TFTSYYPAAGNDELIGALKSAASGDGVQAIYLWGPVKSGRTHLIHAACARANELERRSFYIP-LGIHAS---IST-----   96 (242)
T ss_dssp             STTTSCC--CCHHHHHHHHHHHHTCSCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE-GGGGGG---SCG-----
T ss_pred             ChhhccCCCCCHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEE-HHHHHH---HHH-----
Confidence            346788743   55666666665  5789999999999999999999998765533344443 222111   000     


Q ss_pred             HHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCHH--H--HHHHhccCCCC-CCCC-EEEEEeCChh---------h
Q 048064          163 LLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLN--Q--IESLVGSLDRL-LPES-RILITTRNKQ---------V  227 (429)
Q Consensus       163 l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~--~--~~~l~~~l~~~-~~~~-~iiiTtR~~~---------~  227 (429)
                                      .....+ .++.+|||||++...  .  .+.+...+... ..+. ++|+||+...         +
T Consensus        97 ----------------~~~~~~-~~~~vliiDe~~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~~~~~~~~~~~~~~~~l  159 (242)
T 3bos_A           97 ----------------ALLEGL-EQFDLICIDDVDAVAGHPLWEEAIFDLYNRVAEQKRGSLIVSASASPMEAGFVLPDL  159 (242)
T ss_dssp             ----------------GGGTTG-GGSSEEEEETGGGGTTCHHHHHHHHHHHHHHHHHCSCEEEEEESSCTTTTTCCCHHH
T ss_pred             ----------------HHHHhc-cCCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCCeEEEEcCCCHHHHHHhhhhh
Confidence                            000011 245699999996432  1  22333222111 1222 4777776431         1


Q ss_pred             hhhcCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHHH
Q 048064          228 LRNCHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGC  288 (429)
Q Consensus       228 ~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~~  288 (429)
                      ...+.....+.+++++.++..+++...+......  -..+....+++.++|++..+..+..
T Consensus       160 ~~r~~~~~~i~l~~~~~~~~~~~l~~~~~~~~~~--~~~~~~~~l~~~~~g~~r~l~~~l~  218 (242)
T 3bos_A          160 VSRMHWGLTYQLQPMMDDEKLAALQRRAAMRGLQ--LPEDVGRFLLNRMARDLRTLFDVLD  218 (242)
T ss_dssp             HHHHHHSEEEECCCCCGGGHHHHHHHHHHHTTCC--CCHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             hhHhhcCceEEeCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHccCCHHHHHHHHH
Confidence            1111123689999999999999998876432211  1245678899999999887765544

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.99  E-value=1.1e-08  Score=97.15  Aligned_cols=193  Identities=12%  Similarity=0.155  Sum_probs=112.9

Q ss_pred             CCCCcccchhhHHHHHHHhhcC--CCEEEEEcCCCcchHHHHHHHHHHhhcC--cceeEEEeechhhhhhcCCHHHHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLGA--APLLGIWGIGGIGKTTIARVIFNRISRN--FKGSCFLENIREESQKAGGLAFLQQK  162 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~~--~~~v~I~G~~GiGKTtLa~~~~~~~~~~--f~~~~~~~~~~~~~~~~~~~~~~~~~  162 (429)
                      .....++|++..++.+..++..  .+.+.|+|++|+||||+|+.+++.+...  +...+...+...    ..+...+.. 
T Consensus        34 ~~~~~i~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~----~~~~~~~~~-  108 (353)
T 1sxj_D           34 KNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASD----ERGISIVRE-  108 (353)
T ss_dssp             SSTTTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSS----CCCHHHHTT-
T ss_pred             CCHHHhhCCHHHHHHHHHHHhcCCCCEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEcccc----ccchHHHHH-
Confidence            4457899999999999999982  2459999999999999999999876421  221222122211    112222211 


Q ss_pred             HHHHHhcC-CCCCCCHHHHHHHhcCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEeCChh-hhhhc-CCCeEE
Q 048064          163 LLSEVLKD-VNVIPHIDLNFRRLSCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITTRNKQ-VLRNC-HINQIY  237 (429)
Q Consensus       163 l~~~~~~~-~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTtR~~~-~~~~~-~~~~~~  237 (429)
                      ........ ....... .....-...+-+|++|+++..  .....+...+.......++|++|.... +.+.+ .....+
T Consensus       109 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~l~sR~~~i  187 (353)
T 1sxj_D          109 KVKNFARLTVSKPSKH-DLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKF  187 (353)
T ss_dssp             HHHHHHHSCCCCCCTT-HHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHSEEE
T ss_pred             HHHHHhhhcccccchh-hcccCCCCCceEEEEECCCccCHHHHHHHHHHHHhcCCCceEEEEeCchhhCcchhhccCceE
Confidence            11111111 0000000 000111235579999999743  344555554444345667777665442 21211 123578


Q ss_pred             EcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHH
Q 048064          238 EMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILG  287 (429)
Q Consensus       238 ~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~  287 (429)
                      .+.+++.++...++...+......  -..+..+.+++.++|+|..+..+.
T Consensus       188 ~~~~~~~~~~~~~l~~~~~~~~~~--i~~~~l~~l~~~~~G~~r~~~~~l  235 (353)
T 1sxj_D          188 RFKALDASNAIDRLRFISEQENVK--CDDGVLERILDISAGDLRRGITLL  235 (353)
T ss_dssp             ECCCCCHHHHHHHHHHHHHTTTCC--CCHHHHHHHHHHTSSCHHHHHHHH
T ss_pred             EeCCCCHHHHHHHHHHHHHHhCCC--CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            999999999999998876433221  124568889999999998765443

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.98  E-value=1.4e-08  Score=101.59  Aligned_cols=187  Identities=15%  Similarity=0.230  Sum_probs=105.8

Q ss_pred             CCCCcccchhhHHHHHHHhhcC-------------------CCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeech
Q 048064           87 DSKNELVGVESRVEEIQSLLGA-------------------APLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIR  147 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~~-------------------~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~  147 (429)
                      ....+++|++..+++|.+++..                   .+.+.|+|++|+||||+|+.+++.+.    ..+...+..
T Consensus        36 ~~~~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l~----~~~i~in~s  111 (516)
T 1sxj_A           36 TNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELG----YDILEQNAS  111 (516)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTT----CEEEEECTT
T ss_pred             CCHHHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHcC----CCEEEEeCC
Confidence            3446899999999999998862                   37899999999999999999999872    222222222


Q ss_pred             hhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHH--HhcCCcEEEEecCCCCHH-----HHHHHhccCCCCCCCCEEEE
Q 048064          148 EESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFR--RLSCRKVLIVLDDVTCLN-----QIESLVGSLDRLLPESRILI  220 (429)
Q Consensus       148 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~--~l~~~~~LlVlDdv~~~~-----~~~~l~~~l~~~~~~~~iii  220 (429)
                      .    ..... .....+..................  ...+++.+||||+++...     .+..+...+..  .+..||+
T Consensus       112 ~----~~~~~-~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~vliIDEid~l~~~~~~~l~~L~~~l~~--~~~~iIl  184 (516)
T 1sxj_A          112 D----VRSKT-LLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRK--TSTPLIL  184 (516)
T ss_dssp             S----CCCHH-HHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHH--CSSCEEE
T ss_pred             C----cchHH-HHHHHHHHHhccccHHHHHhhhhhhhhccCCCeEEEEECCCccchhhHHHHHHHHHHHHh--cCCCEEE
Confidence            1    11111 111111111111000000000000  123567899999996431     12333332221  2334555


Q ss_pred             EeCChh---hhhhcCCCeEEEcCCCCHHHHHHHHHHhhhcCC-CCChhHHHHHHHHHHHhCCChHHHHHHH
Q 048064          221 TTRNKQ---VLRNCHINQIYEMKGLGDDHALELFIRHAFRQN-LVDVDYKELSDKVINYAQGVPLALKILG  287 (429)
Q Consensus       221 TtR~~~---~~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~-~~~~~~~~~~~~i~~~~~G~PLai~~~~  287 (429)
                      ++.+..   +.........+.+++++.++..+++...+.... ..+   .+....|++.++|.+-.+..+.
T Consensus       185 i~~~~~~~~l~~l~~r~~~i~f~~~~~~~~~~~L~~i~~~~~~~i~---~~~l~~la~~s~GdiR~~i~~L  252 (516)
T 1sxj_A          185 ICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLD---PNVIDRLIQTTRGDIRQVINLL  252 (516)
T ss_dssp             EESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCC---TTHHHHHHHHTTTCHHHHHHHH
T ss_pred             EEcCCCCccchhhHhceEEEEeCCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHcCCcHHHHHHHH
Confidence            444321   222223456799999999999999987664332 122   2357789999999766544443

>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=98.97  E-value=6.8e-08  Score=91.90  Aligned_cols=200  Identities=16%  Similarity=0.173  Sum_probs=116.5

Q ss_pred             chHHHHHHHhhhhhccCCccccCCCCCcccchhhHHHHHHHhhc--------------CCCEEEEEcCCCcchHHHHHHH
Q 048064           64 NESELIKKVVNDILEKLPKVVPCDSKNELVGVESRVEEIQSLLG--------------AAPLLGIWGIGGIGKTTIARVI  129 (429)
Q Consensus        64 ~e~~~i~~i~~~~~~~~~~~~p~~~~~~~vGR~~~~~~l~~~l~--------------~~~~v~I~G~~GiGKTtLa~~~  129 (429)
                      .+...++.+..++....+   + .....++|.+..++.|.+.+.              ..+.+.|+|++|+|||+||+.+
T Consensus        62 ~~~~~~~~i~~~i~~~~~---~-~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~ai  137 (357)
T 3d8b_A           62 LEPKMIELIMNEIMDHGP---P-VNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCI  137 (357)
T ss_dssp             SCHHHHHHHHHHTBCCSC---C-CCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHH
T ss_pred             CChHHHHHHHhhcccCCC---C-CCHHHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHH
Confidence            355666666666554432   2 445689999999999988763              4678999999999999999999


Q ss_pred             HHHhhcCcceeEEEeechhhhhhcCC-HHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH---------
Q 048064          130 FNRISRNFKGSCFLENIREESQKAGG-LAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL---------  199 (429)
Q Consensus       130 ~~~~~~~f~~~~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~---------  199 (429)
                      ++....    .++..+.........+ .....+.+.                .......+.+|+||+++..         
T Consensus       138 a~~~~~----~~~~i~~~~l~~~~~g~~~~~~~~~~----------------~~a~~~~~~vl~iDEid~l~~~~~~~~~  197 (357)
T 3d8b_A          138 ASQSGA----TFFSISASSLTSKWVGEGEKMVRALF----------------AVARCQQPAVIFIDEIDSLLSQRGDGEH  197 (357)
T ss_dssp             HHHTTC----EEEEEEGGGGCCSSTTHHHHHHHHHH----------------HHHHHTCSEEEEEETHHHHTBC------
T ss_pred             HHHcCC----eEEEEehHHhhccccchHHHHHHHHH----------------HHHHhcCCeEEEEeCchhhhccCCCCcc
Confidence            987632    2223333222110111 111111111                1122346789999999533         


Q ss_pred             ----HHHHHHhccCCC----CCCCCEEEEEeCChhhh-hh--cCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHH
Q 048064          200 ----NQIESLVGSLDR----LLPESRILITTRNKQVL-RN--CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKEL  268 (429)
Q Consensus       200 ----~~~~~l~~~l~~----~~~~~~iiiTtR~~~~~-~~--~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~  268 (429)
                          .....++..+..    ...+..||.||.....+ ..  -.....+.++..+.++..+++...+......  -..+.
T Consensus       198 ~~~~~~~~~lL~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~--l~~~~  275 (357)
T 3d8b_A          198 ESSRRIKTEFLVQLDGATTSSEDRILVVGATNRPQEIDEAARRRLVKRLYIPLPEASARKQIVINLMSKEQCC--LSEEE  275 (357)
T ss_dssp             CHHHHHHHHHHHHHHC----CCCCEEEEEEESCGGGBCHHHHTTCCEEEECCCCCHHHHHHHHHHHHHTSCBC--CCHHH
T ss_pred             hHHHHHHHHHHHHHhcccccCCCCEEEEEecCChhhCCHHHHhhCceEEEeCCcCHHHHHHHHHHHHhhcCCC--ccHHH
Confidence                112333333221    12344455566543221 11  1234578899999999999988776332211  11345


Q ss_pred             HHHHHHHhCC-ChHHHHHHHHh
Q 048064          269 SDKVINYAQG-VPLALKILGCY  289 (429)
Q Consensus       269 ~~~i~~~~~G-~PLai~~~~~~  289 (429)
                      ...+++.+.| .+..|..++..
T Consensus       276 l~~la~~t~G~s~~dl~~l~~~  297 (357)
T 3d8b_A          276 IEQIVQQSDAFSGADMTQLCRE  297 (357)
T ss_dssp             HHHHHHHTTTCCHHHHHHHHHH
T ss_pred             HHHHHHHcCCCCHHHHHHHHHH
Confidence            7788889988 56667666553

>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=98.96  E-value=4.2e-08  Score=88.97  Aligned_cols=180  Identities=16%  Similarity=0.188  Sum_probs=100.6

Q ss_pred             CCCcccchhhHHHHHHHhhc--------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhc
Q 048064           88 SKNELVGVESRVEEIQSLLG--------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKA  153 (429)
Q Consensus        88 ~~~~~vGR~~~~~~l~~~l~--------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~  153 (429)
                      ...+++|.+..++.+.+++.              ..+.+.|+|++|+|||++|+.+++.....|    +..+........
T Consensus         4 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~~~~~----~~~~~~~~~~~~   79 (262)
T 2qz4_A            4 SFKDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQVPF----LAMAGAEFVEVI   79 (262)
T ss_dssp             CTTSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHHTCCE----EEEETTTTSSSS
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCE----EEechHHHHhhc
Confidence            34678898888888876553              345689999999999999999999764322    222222111100


Q ss_pred             CCH-HHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCHH-----------------HHHHHhccCCCC--C
Q 048064          154 GGL-AFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLN-----------------QIESLVGSLDRL--L  213 (429)
Q Consensus       154 ~~~-~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~-----------------~~~~l~~~l~~~--~  213 (429)
                      .+. ......+                +.......+.+|+|||++...                 .+..++..+...  .
T Consensus        80 ~~~~~~~~~~~----------------~~~a~~~~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~  143 (262)
T 2qz4_A           80 GGLGAARVRSL----------------FKEARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGTT  143 (262)
T ss_dssp             TTHHHHHHHHH----------------HHHHHHTCSEEEEEECC-------------------CHHHHHHHHHHHTCCTT
T ss_pred             cChhHHHHHHH----------------HHHHHhcCCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCcCCC
Confidence            000 0111111                122223457899999998641                 123333322221  2


Q ss_pred             CCCEEEEEeCChhhhh-hc----CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChH-HHHHHH
Q 048064          214 PESRILITTRNKQVLR-NC----HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPL-ALKILG  287 (429)
Q Consensus       214 ~~~~iiiTtR~~~~~~-~~----~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PL-ai~~~~  287 (429)
                      .+..||.||.....+. .+    .....+.+++.+.++..+++...+...... .........++..+.|.+- .|..+.
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            3445666776543221 11    234678899999999999998876433222 1222234677888887654 555544


Q ss_pred             H
Q 048064          288 C  288 (429)
Q Consensus       288 ~  288 (429)
                      .
T Consensus       223 ~  223 (262)
T 2qz4_A          223 N  223 (262)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=98.93  E-value=6.7e-08  Score=91.82  Aligned_cols=178  Identities=15%  Similarity=0.096  Sum_probs=104.9

Q ss_pred             CCCCcccchhhHHHHHHHhhc--------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhh
Q 048064           87 DSKNELVGVESRVEEIQSLLG--------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQK  152 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~--------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~  152 (429)
                      .....++|.+..++.|.+.+.              ..+.+.|+|++|+|||+||+.+++.....    ++..+.......
T Consensus        48 ~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~~----~~~v~~~~l~~~  123 (355)
T 2qp9_X           48 VKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANST----FFSVSSSDLVSK  123 (355)
T ss_dssp             CCGGGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHHTCE----EEEEEHHHHHSC
T ss_pred             CCHHHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCCC----EEEeeHHHHhhh
Confidence            445789999999999988762              24569999999999999999999987422    222222211110


Q ss_pred             c-CCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCHH-------------HHHHHhccCC---CCCCC
Q 048064          153 A-GGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLN-------------QIESLVGSLD---RLLPE  215 (429)
Q Consensus       153 ~-~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~-------------~~~~l~~~l~---~~~~~  215 (429)
                      . .......+.+                +.......+.+|+||+++...             ....++..+.   ....+
T Consensus       124 ~~g~~~~~~~~~----------------f~~a~~~~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~~~~~~~~~  187 (355)
T 2qp9_X          124 WMGESEKLVKQL----------------FAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQG  187 (355)
T ss_dssp             C---CHHHHHHH----------------HHHHHHTSSEEEEEECGGGGTC------CTHHHHHHHHHHHHHHHCC---CC
T ss_pred             hcchHHHHHHHH----------------HHHHHHcCCeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhhcccccCCC
Confidence            0 0001111111                111223467899999997432             1233333222   11334


Q ss_pred             CEEEEEeCChh-----hhhhcCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCC-ChHHHHHHHH
Q 048064          216 SRILITTRNKQ-----VLRNCHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQG-VPLALKILGC  288 (429)
Q Consensus       216 ~~iiiTtR~~~-----~~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G-~PLai~~~~~  288 (429)
                      ..||.||....     +..  .....+.++..+.++..+++..++.......  .......|++.+.| .+-.|..++.
T Consensus       188 v~vI~atn~~~~ld~al~r--Rf~~~i~i~~P~~~~r~~il~~~l~~~~~~~--~~~~l~~la~~t~G~sg~dl~~l~~  262 (355)
T 2qp9_X          188 VLVLGATNIPWQLDSAIRR--RFERRIYIPLPDLAARTTMFEINVGDTPSVL--TKEDYRTLGAMTEGYSGSDIAVVVK  262 (355)
T ss_dssp             EEEEEEESCGGGSCHHHHH--TCCEEEECCCCCHHHHHHHHHHHHTTSCBCC--CHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             eEEEeecCCcccCCHHHHc--ccCEEEEeCCcCHHHHHHHHHHHHhhCCCCC--CHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            55565665442     222  3456788999999999999988764332111  13456788889988 5656666554

>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=98.91  E-value=7.6e-08  Score=90.24  Aligned_cols=180  Identities=14%  Similarity=0.102  Sum_probs=106.9

Q ss_pred             CCCCcccchhhHHHHHHHhhc--------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhh
Q 048064           87 DSKNELVGVESRVEEIQSLLG--------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQK  152 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~--------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~  152 (429)
                      ..-..++|.+..++.|.+.+.              ..+.+.|+|++|+|||+||+.+++.....    ++..+.......
T Consensus        15 ~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~~~----~~~v~~~~l~~~   90 (322)
T 3eie_A           15 VKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANST----FFSVSSSDLVSK   90 (322)
T ss_dssp             CCGGGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHHHTCE----EEEEEHHHHHTT
T ss_pred             CCHHHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHHCCC----EEEEchHHHhhc
Confidence            445789999999999998772              34679999999999999999999986432    222222221110


Q ss_pred             -cCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCHH-------------HHHHHhccCC---CCCCC
Q 048064          153 -AGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLN-------------QIESLVGSLD---RLLPE  215 (429)
Q Consensus       153 -~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~-------------~~~~l~~~l~---~~~~~  215 (429)
                       ........+.+.                .......+.+|+||+++...             ....++..+.   ....+
T Consensus        91 ~~g~~~~~~~~~f----------------~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~  154 (322)
T 3eie_A           91 WMGESEKLVKQLF----------------AMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQG  154 (322)
T ss_dssp             TGGGHHHHHHHHH----------------HHHHHTSSEEEEEECGGGGSCC------CCTHHHHHHHHHHHGGGGTSCCC
T ss_pred             ccchHHHHHHHHH----------------HHHHhcCCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhccccccCCc
Confidence             011111111111                11223467899999997431             1233332222   22345


Q ss_pred             CEEEEEeCChhhhhh---cCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCC-ChHHHHHHHH
Q 048064          216 SRILITTRNKQVLRN---CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQG-VPLALKILGC  288 (429)
Q Consensus       216 ~~iiiTtR~~~~~~~---~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G-~PLai~~~~~  288 (429)
                      ..||.||.....+..   -.....+.++..+.++-.+++...+.......  .......+++.+.| .+-.|..+..
T Consensus       155 v~vi~atn~~~~ld~al~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~--~~~~l~~la~~t~g~sg~di~~l~~  229 (322)
T 3eie_A          155 VLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPCVL--TKEDYRTLGAMTEGYSGSDIAVVVK  229 (322)
T ss_dssp             EEEEEEESCGGGSCHHHHHHCCEEEECCCCCHHHHHHHHHHHHTTCCCCC--CHHHHHHHHHTTTTCCHHHHHHHHH
T ss_pred             eEEEEecCChhhCCHHHHcccCeEEEeCCCCHHHHHHHHHHHhccCCCCC--CHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            556667765432111   02346788999999999999988774332211  13456778888887 5656655544

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=98.91  E-value=5.3e-08  Score=90.14  Aligned_cols=178  Identities=18%  Similarity=0.140  Sum_probs=103.3

Q ss_pred             CCCCcccchhhHHHHHHHhhc--------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhh
Q 048064           87 DSKNELVGVESRVEEIQSLLG--------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQK  152 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~--------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~  152 (429)
                      .....++|.+..++.|.+.+.              ..+.+.|+|++|+|||++|+.++......    ++..+.......
T Consensus        18 ~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~~~~----~~~i~~~~l~~~   93 (297)
T 3b9p_A           18 VEWTDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATECSAT----FLNISAASLTSK   93 (297)
T ss_dssp             CCGGGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHTTCE----EEEEESTTTSSS
T ss_pred             CCHHHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHhCCC----eEEeeHHHHhhc
Confidence            455789999999999988763              35789999999999999999999876422    222222211110


Q ss_pred             -cCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH-------------HHHHHHhccC---CCC--C
Q 048064          153 -AGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL-------------NQIESLVGSL---DRL--L  213 (429)
Q Consensus       153 -~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~-------------~~~~~l~~~l---~~~--~  213 (429)
                       ........+.+.                .......+.+|+||+++..             .....++..+   ...  +
T Consensus        94 ~~~~~~~~~~~~~----------------~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~  157 (297)
T 3b9p_A           94 YVGDGEKLVRALF----------------AVARHMQPSIIFIDEVDSLLSERSSSEHEASRRLKTEFLVEFDGLPGNPDG  157 (297)
T ss_dssp             SCSCHHHHHHHHH----------------HHHHHTCSEEEEEETGGGTSBCC-----CCSHHHHHHHHHHHHHCC-----
T ss_pred             ccchHHHHHHHHH----------------HHHHHcCCcEEEeccHHHhccccccCcchHHHHHHHHHHHHHhcccccCCC
Confidence             011111111111                1122346789999999643             1112222222   111  1


Q ss_pred             CCCEEEEEeCChh-----hhhhcCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChH-HHHHHH
Q 048064          214 PESRILITTRNKQ-----VLRNCHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPL-ALKILG  287 (429)
Q Consensus       214 ~~~~iiiTtR~~~-----~~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PL-ai~~~~  287 (429)
                      .+..||.||....     +..  .....+.++..+.++...++...+......  -..+....+++.+.|++- .|..+.
T Consensus       158 ~~v~vi~~tn~~~~l~~~l~~--R~~~~i~~~~p~~~~r~~il~~~~~~~~~~--~~~~~~~~la~~~~g~~~~~l~~l~  233 (297)
T 3b9p_A          158 DRIVVLAATNRPQELDEAALR--RFTKRVYVSLPDEQTRELLLNRLLQKQGSP--LDTEALRRLAKITDGYSGSDLTALA  233 (297)
T ss_dssp             -CEEEEEEESCGGGBCHHHHH--HCCEEEECCCCCHHHHHHHHHHHHGGGSCC--SCHHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             CcEEEEeecCChhhCCHHHHh--hCCeEEEeCCcCHHHHHHHHHHHHHhcCCC--CCHHHHHHHHHHcCCCCHHHHHHHH
Confidence            2345666776542     222  234567888888888888887765332211  113457788889998875 555554


Q ss_pred             H
Q 048064          288 C  288 (429)
Q Consensus       288 ~  288 (429)
                      .
T Consensus       234 ~  234 (297)
T 3b9p_A          234 K  234 (297)
T ss_dssp             H
T ss_pred             H
Confidence            3

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=98.90  E-value=3.4e-08  Score=94.40  Aligned_cols=195  Identities=11%  Similarity=0.007  Sum_probs=107.6

Q ss_pred             CCcccchhhHHHHHHHhhc-------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHH
Q 048064           89 KNELVGVESRVEEIQSLLG-------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQ  161 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~-------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~  161 (429)
                      ...|+|++..++.+..+..       ..+.+.|+|++|+|||++|+.+++.+....+..  ..+................
T Consensus        43 ~~~ivG~~~~~~~l~~l~~~~~~~~~~~~~vLl~GppGtGKT~la~~la~~l~~~~~~~--~~~~~~~~~~~~~~~~~~~  120 (368)
T 3uk6_A           43 SQGMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQALGPDTPFT--AIAGSEIFSLEMSKTEALT  120 (368)
T ss_dssp             ETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEEESTTSSHHHHHHHHHHHHCSSCCEE--EEEGGGGSCSSSCHHHHHH
T ss_pred             hhhccChHHHHHHHHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHHHHHHHhcccCCcc--cccchhhhhcccchhHHHH
Confidence            5689999999877555443       335899999999999999999999886433221  1111111111222222222


Q ss_pred             HHHHHHhcC---------------------C----CCCCC-----HHHHHHH---------hcCC----cEEEEecCCCC
Q 048064          162 KLLSEVLKD---------------------V----NVIPH-----IDLNFRR---------LSCR----KVLIVLDDVTC  198 (429)
Q Consensus       162 ~l~~~~~~~---------------------~----~~~~~-----~~~l~~~---------l~~~----~~LlVlDdv~~  198 (429)
                      ..+......                     .    .....     ...+...         ..++    +.+|+||+++.
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            222211000                     0    00000     1111111         1122    45999999974


Q ss_pred             H--HHHHHHhccCCCCCCCCEEEEEeCC------------h-hhhh-hcCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCC
Q 048064          199 L--NQIESLVGSLDRLLPESRILITTRN------------K-QVLR-NCHINQIYEMKGLGDDHALELFIRHAFRQNLVD  262 (429)
Q Consensus       199 ~--~~~~~l~~~l~~~~~~~~iiiTtR~------------~-~~~~-~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~  262 (429)
                      .  .....+...+...... .++++|..            . .+.+ .......+.+++++.++..+++...+...... 
T Consensus       201 l~~~~~~~L~~~le~~~~~-~~ii~t~~~~~~i~~t~~~~~~~l~~~l~sR~~~i~~~~~~~~e~~~il~~~~~~~~~~-  278 (368)
T 3uk6_A          201 LDIESFSFLNRALESDMAP-VLIMATNRGITRIRGTSYQSPHGIPIDLLDRLLIVSTTPYSEKDTKQILRIRCEEEDVE-  278 (368)
T ss_dssp             SBHHHHHHHHHHTTCTTCC-EEEEEESCSEEECBTSSCEEETTCCHHHHTTEEEEEECCCCHHHHHHHHHHHHHHTTCC-
T ss_pred             cChHHHHHHHHHhhCcCCC-eeeeecccceeeeeccCCCCcccCCHHHHhhccEEEecCCCHHHHHHHHHHHHHHcCCC-
Confidence            4  4455566555543333 34444431            1 1111 11223458999999999999998876443221 


Q ss_pred             hhHHHHHHHHHHHhC-CChHHHHHHHH
Q 048064          263 VDYKELSDKVINYAQ-GVPLALKILGC  288 (429)
Q Consensus       263 ~~~~~~~~~i~~~~~-G~PLai~~~~~  288 (429)
                       -..+....+++.+. |+|..+..+..
T Consensus       279 -~~~~~l~~l~~~~~~G~~r~~~~ll~  304 (368)
T 3uk6_A          279 -MSEDAYTVLTRIGLETSLRYAIQLIT  304 (368)
T ss_dssp             -BCHHHHHHHHHHHHHSCHHHHHHHHH
T ss_pred             -CCHHHHHHHHHHhcCCCHHHHHHHHH
Confidence             22456788999998 89877665544

>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=98.90  E-value=1.4e-08  Score=99.40  Aligned_cols=181  Identities=13%  Similarity=0.139  Sum_probs=106.0

Q ss_pred             CCccc-chhhHH--HHHHHhhc--C-CCEEEEEcCCCcchHHHHHHHHHHhhcCcce-eEEEeechhhhhhcCCHHHHHH
Q 048064           89 KNELV-GVESRV--EEIQSLLG--A-APLLGIWGIGGIGKTTIARVIFNRISRNFKG-SCFLENIREESQKAGGLAFLQQ  161 (429)
Q Consensus        89 ~~~~v-GR~~~~--~~l~~~l~--~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~-~~~~~~~~~~~~~~~~~~~~~~  161 (429)
                      ...|+ |....+  ..+.....  + ...+.|+|++|+||||||+.+++.+...++. .+.+.+...          +..
T Consensus       104 fd~fv~g~~n~~a~~~~~~~a~~~~~~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~~~~----------~~~  173 (440)
T 2z4s_A          104 FENFVVGPGNSFAYHAALEVAKHPGRYNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEK----------FLN  173 (440)
T ss_dssp             GGGCCCCTTTHHHHHHHHHHHHSTTSSCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEEHHH----------HHH
T ss_pred             hhhcCCCCchHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHH----------HHH
Confidence            34566 655443  23333333  2 5689999999999999999999987655432 222222211          122


Q ss_pred             HHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCHH----HHHHHhccCCC-CCCCCEEEEEeCCh---------hh
Q 048064          162 KLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLN----QIESLVGSLDR-LLPESRILITTRNK---------QV  227 (429)
Q Consensus       162 ~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~----~~~~l~~~l~~-~~~~~~iiiTtR~~---------~~  227 (429)
                      .+...+...     ....+...+...+-+|+|||++...    ..+.+...+.. ...+..||+||...         .+
T Consensus       174 ~~~~~~~~~-----~~~~~~~~~~~~~~vL~IDEi~~l~~~~~~q~~l~~~l~~l~~~~~~iIitt~~~~~~l~~l~~~L  248 (440)
T 2z4s_A          174 DLVDSMKEG-----KLNEFREKYRKKVDILLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRL  248 (440)
T ss_dssp             HHHHHHHTT-----CHHHHHHHHTTTCSEEEEECGGGGSSCHHHHHHHHHHHHHHHTTTCEEEEEESSCGGGCSSCCHHH
T ss_pred             HHHHHHHcc-----cHHHHHHHhcCCCCEEEEeCcccccCChHHHHHHHHHHHHHHHCCCeEEEEECCCHHHHHHHHHHH
Confidence            232222211     2333444555466799999996332    23333333211 13467788888753         12


Q ss_pred             hhhcCCCeEEEcCCCCHHHHHHHHHHhhhcCC-CCChhHHHHHHHHHHHhCCChHHHHHHH
Q 048064          228 LRNCHINQIYEMKGLGDDHALELFIRHAFRQN-LVDVDYKELSDKVINYAQGVPLALKILG  287 (429)
Q Consensus       228 ~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~-~~~~~~~~~~~~i~~~~~G~PLai~~~~  287 (429)
                      ...+.....+.+++++.++..+++...+.... ..+   .+....|+..++|++--+..+.
T Consensus       249 ~sR~~~g~~i~l~~p~~e~r~~iL~~~~~~~~~~i~---~e~l~~la~~~~gn~R~l~~~L  306 (440)
T 2z4s_A          249 VSRFQMGLVAKLEPPDEETRKSIARKMLEIEHGELP---EEVLNFVAENVDDNLRRLRGAI  306 (440)
T ss_dssp             HHHHHSSBCCBCCCCCHHHHHHHHHHHHHHHTCCCC---TTHHHHHHHHCCSCHHHHHHHH
T ss_pred             HhhccCCeEEEeCCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHhcCCCHHHHHHHH
Confidence            22233335788999999999999988764322 122   2456788899999997665443

>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=98.88  E-value=3e-08  Score=94.24  Aligned_cols=197  Identities=15%  Similarity=0.143  Sum_probs=110.2

Q ss_pred             CCCCcccchhhHHHHHHHhh-c--CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEe-------------------
Q 048064           87 DSKNELVGVESRVEEIQSLL-G--AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLE-------------------  144 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l-~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~-------------------  144 (429)
                      .....++|.+..++.+.+++ .  ..+.+.|+|++|+||||+++.++..+.......+.+.                   
T Consensus        11 ~~~~~~vg~~~~~~~l~~~~~~~~~~~~~ll~Gp~G~GKTtl~~~la~~l~~~~~g~i~~~~~~~~~~~~~~~~~~~~~~   90 (354)
T 1sxj_E           11 KSLNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVVSS   90 (354)
T ss_dssp             CSGGGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCEEC
T ss_pred             CCHHHhcCCHHHHHHHHHHHhhCCCCCeEEEECCCCCCHHHHHHHHHHHHcCCCCCeEEecceeecccccccceeeeecc
Confidence            34467999999999999998 5  2333999999999999999999986532211111110                   


Q ss_pred             ----echhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEE
Q 048064          145 ----NIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRI  218 (429)
Q Consensus       145 ----~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~i  218 (429)
                          ............ ...+..+..+.......... .+ ..+.+++-++|||+++..  ...+.+...+....++..+
T Consensus        91 ~~~~~~~~~~~~~~~~-~~~~~~i~~~~~~~~~~~~~-~l-s~l~~~~~vlilDE~~~L~~~~~~~L~~~le~~~~~~~~  167 (354)
T 1sxj_E           91 PYHLEITPSDMGNNDR-IVIQELLKEVAQMEQVDFQD-SK-DGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKNIRL  167 (354)
T ss_dssp             SSEEEECCC----CCH-HHHHHHHHHHTTTTC--------------CCEEEEEECTTSSCHHHHHHHHHHHHHSTTTEEE
T ss_pred             cceEEecHhhcCCcch-HHHHHHHHHHHHhccccccc-cc-cccCCCCeEEEEeCccccCHHHHHHHHHHHHhhcCCCEE
Confidence                000000000000 01222222221110000000 00 002346779999999854  3345555554444456777


Q ss_pred             EEEeCCh-hhhhh-cCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhH-HHHHHHHHHHhCCChHHHHHHHH
Q 048064          219 LITTRNK-QVLRN-CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDY-KELSDKVINYAQGVPLALKILGC  288 (429)
Q Consensus       219 iiTtR~~-~~~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~-~~~~~~i~~~~~G~PLai~~~~~  288 (429)
                      |++|.+. .+.+. ......+++.+++.++..+++...+......  -. .+.+..+++.++|.+..+..+..
T Consensus       168 Il~t~~~~~l~~~l~sR~~~~~~~~~~~~~~~~~l~~~~~~~~~~--~~~~~~l~~i~~~~~G~~r~a~~~l~  238 (354)
T 1sxj_E          168 IMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQ--LETKDILKRIAQASNGNLRVSLLMLE  238 (354)
T ss_dssp             EEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCE--ECCSHHHHHHHHHHTTCHHHHHHHHT
T ss_pred             EEEeCCHHHHHHHHHhhceEEecCCcCHHHHHHHHHHHHHHcCCC--CCcHHHHHHHHHHcCCCHHHHHHHHH
Confidence            7777653 22222 1234789999999999999998876432211  11 24578899999999977655443

>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=98.86  E-value=1.1e-07  Score=86.86  Aligned_cols=165  Identities=16%  Similarity=0.115  Sum_probs=91.3

Q ss_pred             CCcccchhhHHHHHHHh-------hc-----CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCH
Q 048064           89 KNELVGVESRVEEIQSL-------LG-----AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGL  156 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~-------l~-----~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~  156 (429)
                      ...++|....++.+...       +.     ..+.+.|+|++|+|||+||+.+++.....|   +.+ +...... ....
T Consensus        32 ~~~~i~~~~~~~~i~~~~~~l~~~l~~~~~~~~~~vLl~G~~GtGKT~la~~ia~~~~~~~---~~i-~~~~~~~-g~~~  106 (272)
T 1d2n_A           32 MNGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFPF---IKI-CSPDKMI-GFSE  106 (272)
T ss_dssp             TTCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTCSE---EEE-ECGGGCT-TCCH
T ss_pred             hcCCCCccHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCE---EEE-eCHHHhc-CCch
Confidence            34678887776666652       21     456799999999999999999999753221   112 1211000 0011


Q ss_pred             HHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH------------HHHHHHhccCCC---CCCCCEEEEE
Q 048064          157 AFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL------------NQIESLVGSLDR---LLPESRILIT  221 (429)
Q Consensus       157 ~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~------------~~~~~l~~~l~~---~~~~~~iiiT  221 (429)
                      ......+ ..            .+.......+.+|+|||++..            ..++.+...+..   ......||.|
T Consensus       107 ~~~~~~~-~~------------~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~ii~t  173 (272)
T 1d2n_A          107 TAKCQAM-KK------------IFDDAYKSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLLIIGT  173 (272)
T ss_dssp             HHHHHHH-HH------------HHHHHHTSSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEEEEEEE
T ss_pred             HHHHHHH-HH------------HHHHHHhcCCcEEEEEChhhhhccCCCChhHHHHHHHHHHHHhcCccCCCCCEEEEEe
Confidence            1100000 00            011222356789999998653            123333333332   2223446667


Q ss_pred             eCChhhhhhc----CCCeEEEcCCCCH-HHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCC
Q 048064          222 TRNKQVLRNC----HINQIYEMKGLGD-DHALELFIRHAFRQNLVDVDYKELSDKVINYAQG  278 (429)
Q Consensus       222 tR~~~~~~~~----~~~~~~~l~~L~~-~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G  278 (429)
                      |.....+...    .....+.+++++. ++...++....   . ..   .+....+++.+.|
T Consensus       174 tn~~~~l~~~~l~~rf~~~i~~p~l~~r~~i~~i~~~~~---~-~~---~~~~~~l~~~~~g  228 (272)
T 1d2n_A          174 TSRKDVLQEMEMLNAFSTTIHVPNIATGEQLLEALELLG---N-FK---DKERTTIAQQVKG  228 (272)
T ss_dssp             ESCHHHHHHTTCTTTSSEEEECCCEEEHHHHHHHHHHHT---C-SC---HHHHHHHHHHHTT
T ss_pred             cCChhhcchhhhhcccceEEcCCCccHHHHHHHHHHhcC---C-CC---HHHHHHHHHHhcC
Confidence            7776544431    1246789999998 66666665431   1 11   3457788888888

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=98.86  E-value=2.7e-08  Score=97.18  Aligned_cols=178  Identities=15%  Similarity=0.195  Sum_probs=106.9

Q ss_pred             CCCCcccchhhHH---HHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHH
Q 048064           87 DSKNELVGVESRV---EEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQ  161 (429)
Q Consensus        87 ~~~~~~vGR~~~~---~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~  161 (429)
                      .....++|.+..+   ..|...+.  ..+.+.|+|++|+||||||+.+++.....|.    ..+..     ..+...+. 
T Consensus        23 ~~l~~ivGq~~~~~~~~~L~~~i~~~~~~~vLL~GppGtGKTtlAr~ia~~~~~~f~----~l~a~-----~~~~~~ir-   92 (447)
T 3pvs_A           23 ENLAQYIGQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKTTLAEVIARYANADVE----RISAV-----TSGVKEIR-   92 (447)
T ss_dssp             CSTTTCCSCHHHHSTTSHHHHHHHHTCCCEEEEECSTTSSHHHHHHHHHHHTTCEEE----EEETT-----TCCHHHHH-
T ss_pred             CCHHHhCCcHHHHhchHHHHHHHHcCCCcEEEEECCCCCcHHHHHHHHHHHhCCCeE----EEEec-----cCCHHHHH-
Confidence            4457899999998   77777776  5567999999999999999999998743332    11111     12222211 


Q ss_pred             HHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCHH--HHHHHhccCCCCCCCCEEEE-EeCChh--hh-hhcCCCe
Q 048064          162 KLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLN--QIESLVGSLDRLLPESRILI-TTRNKQ--VL-RNCHINQ  235 (429)
Q Consensus       162 ~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~--~~~~l~~~l~~~~~~~~iii-TtR~~~--~~-~~~~~~~  235 (429)
                      .++....            .....+++.+|+||+++...  +.+.|+..+..  ....+|. ||.+..  +. .......
T Consensus        93 ~~~~~a~------------~~~~~~~~~iLfIDEI~~l~~~~q~~LL~~le~--~~v~lI~att~n~~~~l~~aL~sR~~  158 (447)
T 3pvs_A           93 EAIERAR------------QNRNAGRRTILFVDEVHRFNKSQQDAFLPHIED--GTITFIGATTENPSFELNSALLSRAR  158 (447)
T ss_dssp             HHHHHHH------------HHHHTTCCEEEEEETTTCC------CCHHHHHT--TSCEEEEEESSCGGGSSCHHHHTTEE
T ss_pred             HHHHHHH------------HhhhcCCCcEEEEeChhhhCHHHHHHHHHHHhc--CceEEEecCCCCcccccCHHHhCcee
Confidence            1111110            01123567899999998553  44445554442  2234444 554442  11 1123346


Q ss_pred             EEEcCCCCHHHHHHHHHHhhhcCC-----CCChhHHHHHHHHHHHhCCChHHHHHHHH
Q 048064          236 IYEMKGLGDDHALELFIRHAFRQN-----LVDVDYKELSDKVINYAQGVPLALKILGC  288 (429)
Q Consensus       236 ~~~l~~L~~~ea~~L~~~~~~~~~-----~~~~~~~~~~~~i~~~~~G~PLai~~~~~  288 (429)
                      ++.+.+++.++...++...+....     ....-..+..+.+++.++|++..+..+..
T Consensus       159 v~~l~~l~~edi~~il~~~l~~~~~~~~~~~~~i~~~al~~L~~~~~Gd~R~lln~Le  216 (447)
T 3pvs_A          159 VYLLKSLSTEDIEQVLTQAMEDKTRGYGGQDIVLPDETRRAIAELVNGDARRALNTLE  216 (447)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHCTTTSSTTSSEECCHHHHHHHHHHHCSCHHHHHHHHH
T ss_pred             EEeeCCcCHHHHHHHHHHHHHHHhhhhccccCcCCHHHHHHHHHHCCCCHHHHHHHHH
Confidence            788999999999999988764311     11112346778899999999976655443

>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=98.85  E-value=1.2e-07  Score=92.79  Aligned_cols=181  Identities=13%  Similarity=0.087  Sum_probs=108.0

Q ss_pred             CCCCcccchhhHHHHHHHhhc--------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhh
Q 048064           87 DSKNELVGVESRVEEIQSLLG--------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQK  152 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~--------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~  152 (429)
                      .....++|.+...+.|.+.+.              ..+.+.|+|++|+|||+||+.+++....   ..++..+.....  
T Consensus       131 ~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~~~---~~~~~v~~~~l~--  205 (444)
T 2zan_A          131 VKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANN---STFFSISSSDLV--  205 (444)
T ss_dssp             CCGGGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHCCS---SEEEEECCC-----
T ss_pred             CCHHHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHcCC---CCEEEEeHHHHH--
Confidence            455789999999999988762              3578999999999999999999998621   122222221100  


Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHh-cCCcEEEEecCCCCH-------------HHHHHHhccCCCC---CCC
Q 048064          153 AGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRL-SCRKVLIVLDDVTCL-------------NQIESLVGSLDRL---LPE  215 (429)
Q Consensus       153 ~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~~-------------~~~~~l~~~l~~~---~~~  215 (429)
                                  ....  ......+..+.... ...+.+|+||+++..             .....++..+...   ..+
T Consensus       206 ------------~~~~--g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~~  271 (444)
T 2zan_A          206 ------------SKWL--GESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDG  271 (444)
T ss_dssp             --------------------CCCTHHHHHHHHHHSCSEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTTTTCSSCCCSS
T ss_pred             ------------hhhc--chHHHHHHHHHHHHHHcCCeEEEEechHhhccCCCCccccHHHHHHHHHHHHHhCcccCCCC
Confidence                        0000  01112233333322 356789999999854             2234455544432   344


Q ss_pred             CEEEEEeCChhhhhh---cCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCC-ChHHHHHHHH
Q 048064          216 SRILITTRNKQVLRN---CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQG-VPLALKILGC  288 (429)
Q Consensus       216 ~~iiiTtR~~~~~~~---~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G-~PLai~~~~~  288 (429)
                      ..||.||..+..+..   -.....+.++..+.++...++..++......  ........|++.+.| .+-.|..++.
T Consensus       272 v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~--l~~~~l~~la~~t~G~sgadl~~l~~  346 (444)
T 2zan_A          272 ILVLGATNIPWVLDSAIRRRFEKRIYIPLPEAHARAAMFRLHLGSTQNS--LTEADFQELGRKTDGYSGADISIIVR  346 (444)
T ss_dssp             CEEEEEESCGGGSCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCEE--CCHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             EEEEecCCCccccCHHHHhhcceEEEeCCcCHHHHHHHHHHHHhcCCCC--CCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            556667765432111   1334678899999999999998876332211  113456788888888 4556665544

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=98.85  E-value=1.6e-07  Score=87.98  Aligned_cols=182  Identities=13%  Similarity=0.082  Sum_probs=104.2

Q ss_pred             CCCCcccchhhHHHHHHHhhc--------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhh
Q 048064           87 DSKNELVGVESRVEEIQSLLG--------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQK  152 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~--------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~  152 (429)
                      ..-.+++|.+..++.|.+.+.              ..+.+.|+|++|+|||+||+.+++....   ..++..+.......
T Consensus         9 ~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~---~~~~~i~~~~l~~~   85 (322)
T 1xwi_A            9 VKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANN---STFFSISSSDLVSK   85 (322)
T ss_dssp             CCGGGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHTTS---CEEEEEECCSSCCS
T ss_pred             CCHHHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHcCC---CcEEEEEhHHHHhh
Confidence            344678899888888877652              3478999999999999999999998621   12222222111000


Q ss_pred             -cCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCHH-------------HHHHHhccCCC---CCCC
Q 048064          153 -AGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLN-------------QIESLVGSLDR---LLPE  215 (429)
Q Consensus       153 -~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~-------------~~~~l~~~l~~---~~~~  215 (429)
                       ........+.+..                .....++.+|+||+++...             ....++..+..   ...+
T Consensus        86 ~~g~~~~~~~~lf~----------------~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~~  149 (322)
T 1xwi_A           86 WLGESEKLVKNLFQ----------------LARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDG  149 (322)
T ss_dssp             SCCSCHHHHHHHHH----------------HHHHTSSEEEEEETTTGGGCCSSSCCTTHHHHHHHHHHHHHHCSSSCCTT
T ss_pred             hhhHHHHHHHHHHH----------------HHHhcCCcEEEeecHHHhccccccccchHHHHHHHHHHHHHhcccccCCC
Confidence             0011111111111                1223467899999997541             12333332221   1234


Q ss_pred             CEEEEEeCChhhhh-hc--CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCC-hHHHHHHHHh
Q 048064          216 SRILITTRNKQVLR-NC--HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGV-PLALKILGCY  289 (429)
Q Consensus       216 ~~iiiTtR~~~~~~-~~--~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~-PLai~~~~~~  289 (429)
                      ..||.||.....+. .+  .....+.++..+.++..+++..++.......  .......+++.+.|. +-.|..++..
T Consensus       150 v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~l--~~~~l~~la~~t~G~sgadl~~l~~~  225 (322)
T 1xwi_A          150 ILVLGATNIPWVLDSAIRRRFEKRIYIPLPEPHARAAMFKLHLGTTQNSL--TEADFRELGRKTDGYSGADISIIVRD  225 (322)
T ss_dssp             EEEEEEESCTTTSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTCCBCC--CHHHHHHHHHTCTTCCHHHHHHHHHH
T ss_pred             EEEEEecCCcccCCHHHHhhcCeEEEeCCcCHHHHHHHHHHHHhcCCCCC--CHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence            45555665442211 10  3446788999999999999988763322111  134567888888886 5556665543

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=98.85  E-value=6.1e-08  Score=90.26  Aligned_cols=146  Identities=16%  Similarity=0.144  Sum_probs=88.2

Q ss_pred             cccchhhHHHHHHHhhc-----------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcc---eeEEEeechhhh
Q 048064           91 ELVGVESRVEEIQSLLG-----------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFK---GSCFLENIREES  150 (429)
Q Consensus        91 ~~vGR~~~~~~l~~~l~-----------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~---~~~~~~~~~~~~  150 (429)
                      .++|.+..++.|.+.+.                 ....+.|+|++|+|||++|+.+++.+.....   ..+...+.....
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~l~  111 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDLV  111 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEECGGGTC
T ss_pred             HccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEcHHHhh
Confidence            58888888888876543                 3346999999999999999999987654321   122222222111


Q ss_pred             hhcC-CHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCC-----------CHHHHHHHhccCCCCCCCCEE
Q 048064          151 QKAG-GLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVT-----------CLNQIESLVGSLDRLLPESRI  218 (429)
Q Consensus       151 ~~~~-~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~-----------~~~~~~~l~~~l~~~~~~~~i  218 (429)
                      .... ........                 +....  ++-+|+||+++           .......|+..+.....+..|
T Consensus       112 ~~~~g~~~~~~~~-----------------~~~~~--~~~vl~iDEid~l~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~~  172 (309)
T 3syl_A          112 GQYIGHTAPKTKE-----------------VLKRA--MGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENNRDDLVV  172 (309)
T ss_dssp             CSSTTCHHHHHHH-----------------HHHHH--TTSEEEEETGGGSCCCC---CCTHHHHHHHHHHHHHCTTTCEE
T ss_pred             hhcccccHHHHHH-----------------HHHhc--CCCEEEEEChhhhccCCCcccccHHHHHHHHHHHhcCCCCEEE
Confidence            0000 01111111                 11111  24599999998           334455566555544556777


Q ss_pred             EEEeCChh----------hhhhcCCCeEEEcCCCCHHHHHHHHHHhhhc
Q 048064          219 LITTRNKQ----------VLRNCHINQIYEMKGLGDDHALELFIRHAFR  257 (429)
Q Consensus       219 iiTtR~~~----------~~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~  257 (429)
                      |+||....          +...  ....+.+++++.++..+++...+..
T Consensus       173 i~~~~~~~~~~~~~~~~~l~~R--~~~~i~~~~~~~~~~~~il~~~l~~  219 (309)
T 3syl_A          173 ILAGYADRMENFFQSNPGFRSR--IAHHIEFPDYSDEELFEIAGHMLDD  219 (309)
T ss_dssp             EEEECHHHHHHHHHHSTTHHHH--EEEEEEECCCCHHHHHHHHHHHHHH
T ss_pred             EEeCChHHHHHHHhhCHHHHHh--CCeEEEcCCcCHHHHHHHHHHHHHH
Confidence            77776432          1122  2367899999999999999887643

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=98.81  E-value=2.5e-07  Score=89.14  Aligned_cols=180  Identities=16%  Similarity=0.090  Sum_probs=102.3

Q ss_pred             CCCCcccchhhHHHHHHHhhc--------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhh
Q 048064           87 DSKNELVGVESRVEEIQSLLG--------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQK  152 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~--------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~  152 (429)
                      .....++|.+..++.|.+++.              ..+.+.|+|++|+|||+||+.+++....    .++..++......
T Consensus       112 ~~~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~~~~----~~~~v~~~~l~~~  187 (389)
T 3vfd_A          112 VKFDDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAESNA----TFFNISAASLTSK  187 (389)
T ss_dssp             CCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHHTTC----EEEEECSCCC---
T ss_pred             CChHHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHhhcC----cEEEeeHHHhhcc
Confidence            455789999999999998872              3578999999999999999999887532    2222222211100


Q ss_pred             cC-CHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH-------------HHHHHHhccCC---C-CCC
Q 048064          153 AG-GLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL-------------NQIESLVGSLD---R-LLP  214 (429)
Q Consensus       153 ~~-~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~-------------~~~~~l~~~l~---~-~~~  214 (429)
                      .. ........+                +.......+.+|+||+++..             .....++..+.   . ...
T Consensus       188 ~~g~~~~~~~~~----------------~~~a~~~~~~il~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~  251 (389)
T 3vfd_A          188 YVGEGEKLVRAL----------------FAVARELQPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQSAGDD  251 (389)
T ss_dssp             ----CHHHHHHH----------------HHHHHHSSSEEEEEETGGGGC--------CTHHHHHHHHHHHHHHHC-----
T ss_pred             ccchHHHHHHHH----------------HHHHHhcCCeEEEEECchhhcccCCCccchHHHHHHHHHHHHhhcccccCCC
Confidence            00 001111111                11112335679999999744             11122222221   1 122


Q ss_pred             CCEEEEEeCChhhhh-h-c-CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChH-HHHHHHH
Q 048064          215 ESRILITTRNKQVLR-N-C-HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPL-ALKILGC  288 (429)
Q Consensus       215 ~~~iiiTtR~~~~~~-~-~-~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PL-ai~~~~~  288 (429)
                      ...||.||.....+. . . .....+.++..+.++..+++...+......  -..+....+++.+.|..- .|..+..
T Consensus       252 ~v~vI~atn~~~~l~~~l~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~~--l~~~~~~~la~~~~g~~~~~l~~L~~  327 (389)
T 3vfd_A          252 RVLVMGATNRPQELDEAVLRRFIKRVYVSLPNEETRLLLLKNLLCKQGSP--LTQKELAQLARMTDGYSGSDLTALAK  327 (389)
T ss_dssp             CEEEEEEESCGGGCCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCCC--SCHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             CEEEEEecCCchhcCHHHHcCcceEEEcCCcCHHHHHHHHHHHHHhcCCC--CCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            344555665432211 1 1 234568899999999999998776432221  113457788888888544 6655543

>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=98.80  E-value=2.3e-07  Score=86.96  Aligned_cols=178  Identities=16%  Similarity=0.184  Sum_probs=99.6

Q ss_pred             CCCccc-chhhH--HHHHHHhhc----CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHH
Q 048064           88 SKNELV-GVESR--VEEIQSLLG----AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQ  160 (429)
Q Consensus        88 ~~~~~v-GR~~~--~~~l~~~l~----~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~  160 (429)
                      ..+.|+ |....  ...+..+..    ....+.|+|++|+||||||+.+++.+...-...+++. ...          +.
T Consensus         9 ~f~~fv~g~~~~~a~~~~~~~~~~~~~~~~~lll~G~~GtGKT~la~~i~~~~~~~~~~~~~i~-~~~----------~~   77 (324)
T 1l8q_A            9 TLENFIVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSS-ADD----------FA   77 (324)
T ss_dssp             CSSSCCCCTTTHHHHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEE-HHH----------HH
T ss_pred             CcccCCCCCcHHHHHHHHHHHHhCcCCCCCeEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEE-HHH----------HH
Confidence            345565 54433  333444443    2368999999999999999999998754422233332 221          11


Q ss_pred             HHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCHH----HHHHHhccCCC-CCCCCEEEEEeCCh---------h
Q 048064          161 QKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLN----QIESLVGSLDR-LLPESRILITTRNK---------Q  226 (429)
Q Consensus       161 ~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~----~~~~l~~~l~~-~~~~~~iiiTtR~~---------~  226 (429)
                      ..+...+..     .....+...+. ++.+|+|||++...    ..+.+...+.. ...+..||+||...         .
T Consensus        78 ~~~~~~~~~-----~~~~~~~~~~~-~~~vL~iDEi~~l~~~~~~~~~l~~~l~~~~~~~~~iii~~~~~~~~l~~l~~~  151 (324)
T 1l8q_A           78 QAMVEHLKK-----GTINEFRNMYK-SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDR  151 (324)
T ss_dssp             HHHHHHHHH-----TCHHHHHHHHH-TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHH
T ss_pred             HHHHHHHHc-----CcHHHHHHHhc-CCCEEEEcCcccccCChHHHHHHHHHHHHHHHCCCeEEEEecCChHHHHHhhhH
Confidence            122222211     11223333333 35699999996432    22233322211 12456788877543         1


Q ss_pred             hhhhcCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHH
Q 048064          227 VLRNCHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKIL  286 (429)
Q Consensus       227 ~~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~  286 (429)
                      +...+.....+.+++ +.++..+++...+......  -..+....+++.+ |++-.+..+
T Consensus       152 L~sR~~~~~~i~l~~-~~~e~~~il~~~~~~~~~~--l~~~~l~~l~~~~-g~~r~l~~~  207 (324)
T 1l8q_A          152 LVSRFEGGILVEIEL-DNKTRFKIIKEKLKEFNLE--LRKEVIDYLLENT-KNVREIEGK  207 (324)
T ss_dssp             HHHHHHTSEEEECCC-CHHHHHHHHHHHHHHTTCC--CCHHHHHHHHHHC-SSHHHHHHH
T ss_pred             hhhcccCceEEEeCC-CHHHHHHHHHHHHHhcCCC--CCHHHHHHHHHhC-CCHHHHHHH
Confidence            122222346799999 9999999998877433221  1245678888888 887655443

>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=98.80  E-value=1.3e-07  Score=88.79  Aligned_cols=177  Identities=13%  Similarity=0.150  Sum_probs=105.0

Q ss_pred             CCCCcccchhhHHHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKL  163 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l  163 (429)
                      ....+++|.+..++.+.+++.   ..+.+.++|++|+|||++|+.+++.+.    ..+...+..     ......+ +..
T Consensus        23 ~~~~~ivg~~~~~~~l~~~l~~~~~~~~~L~~G~~G~GKT~la~~la~~l~----~~~~~i~~~-----~~~~~~i-~~~   92 (324)
T 3u61_B           23 STIDECILPAFDKETFKSITSKGKIPHIILHSPSPGTGKTTVAKALCHDVN----ADMMFVNGS-----DCKIDFV-RGP   92 (324)
T ss_dssp             CSTTTSCCCHHHHHHHHHHHHTTCCCSEEEECSSTTSSHHHHHHHHHHHTT----EEEEEEETT-----TCCHHHH-HTH
T ss_pred             CCHHHHhCcHHHHHHHHHHHHcCCCCeEEEeeCcCCCCHHHHHHHHHHHhC----CCEEEEccc-----ccCHHHH-HHH
Confidence            445789999999999999987   346788899999999999999998873    222222221     1222222 222


Q ss_pred             HHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCHH---HHHHHhccCCCCCCCCEEEEEeCChhh-hhh-cCCCeEEE
Q 048064          164 LSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLN---QIESLVGSLDRLLPESRILITTRNKQV-LRN-CHINQIYE  238 (429)
Q Consensus       164 ~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~---~~~~l~~~l~~~~~~~~iiiTtR~~~~-~~~-~~~~~~~~  238 (429)
                      +........           ..+++.+|||||++...   ..+.+...+.....+..+|+||....- .+. ......++
T Consensus        93 ~~~~~~~~~-----------~~~~~~vliiDEi~~l~~~~~~~~L~~~le~~~~~~~iI~~~n~~~~l~~~l~sR~~~i~  161 (324)
T 3u61_B           93 LTNFASAAS-----------FDGRQKVIVIDEFDRSGLAESQRHLRSFMEAYSSNCSIIITANNIDGIIKPLQSRCRVIT  161 (324)
T ss_dssp             HHHHHHBCC-----------CSSCEEEEEEESCCCGGGHHHHHHHHHHHHHHGGGCEEEEEESSGGGSCTTHHHHSEEEE
T ss_pred             HHHHHhhcc-----------cCCCCeEEEEECCcccCcHHHHHHHHHHHHhCCCCcEEEEEeCCccccCHHHHhhCcEEE
Confidence            221111100           12367899999998654   445555544433456778887765431 111 11235799


Q ss_pred             cCCCCHHHHHHHH-------HHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHH
Q 048064          239 MKGLGDDHALELF-------IRHAFRQNLVDVDYKELSDKVINYAQGVPLALKI  285 (429)
Q Consensus       239 l~~L~~~ea~~L~-------~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~  285 (429)
                      +++++.++-.+++       ...+...... ....+....+++.++|++..+..
T Consensus       162 ~~~~~~~e~~~il~~~~~~l~~~~~~~~~~-~~~~~~~~~l~~~~~gd~R~a~~  214 (324)
T 3u61_B          162 FGQPTDEDKIEMMKQMIRRLTEICKHEGIA-IADMKVVAALVKKNFPDFRKTIG  214 (324)
T ss_dssp             CCCCCHHHHHHHHHHHHHHHHHHHHHHTCC-BSCHHHHHHHHHHTCSCTTHHHH
T ss_pred             eCCCCHHHHHHHHHHHHHHHHHHHHHcCCC-CCcHHHHHHHHHhCCCCHHHHHH
Confidence            9999988854332       2222211111 11125677888999998765443

>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=98.75  E-value=4.8e-07  Score=85.17  Aligned_cols=164  Identities=13%  Similarity=0.134  Sum_probs=102.8

Q ss_pred             hhHHHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhcCcc---------------------eeEEEeechhhhh
Q 048064           96 ESRVEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISRNFK---------------------GSCFLENIREESQ  151 (429)
Q Consensus        96 ~~~~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~---------------------~~~~~~~~~~~~~  151 (429)
                      +...+.+...+.   -.+.+.++|++|+|||++|+.+++.+.....                     ...++. .... .
T Consensus         8 ~~~~~~l~~~i~~~~~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~-~~~~-~   85 (334)
T 1a5t_A            8 RPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLA-PEKG-K   85 (334)
T ss_dssp             HHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEEC-CCTT-C
T ss_pred             HHHHHHHHHHHHcCCcceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEe-cccc-C
Confidence            445666666665   3457999999999999999999997643221                     111111 0000 0


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHh-----cCCcEEEEecCCCC--HHHHHHHhccCCCCCCCCEEEEEeCC
Q 048064          152 KAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRL-----SCRKVLIVLDDVTC--LNQIESLVGSLDRLLPESRILITTRN  224 (429)
Q Consensus       152 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l-----~~~~~LlVlDdv~~--~~~~~~l~~~l~~~~~~~~iiiTtR~  224 (429)
                      .......                  +..+.+.+     .+++-++|+|+++.  ....+.++..+....++..+|++|.+
T Consensus        86 ~~~~i~~------------------ir~l~~~~~~~~~~~~~kvviIdead~l~~~a~naLLk~lEep~~~~~~Il~t~~  147 (334)
T 1a5t_A           86 NTLGVDA------------------VREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATRE  147 (334)
T ss_dssp             SSBCHHH------------------HHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESC
T ss_pred             CCCCHHH------------------HHHHHHHHhhccccCCcEEEEECchhhcCHHHHHHHHHHhcCCCCCeEEEEEeCC
Confidence            0011111                  11122222     24567999999984  45567777777765667777777665


Q ss_pred             hh-hhhh-cCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHH
Q 048064          225 KQ-VLRN-CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKIL  286 (429)
Q Consensus       225 ~~-~~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~  286 (429)
                      .. +.+. .+....+++.+++.++..+++....    ..+   .+.+..+++.++|.|..+..+
T Consensus       148 ~~~l~~ti~SRc~~~~~~~~~~~~~~~~L~~~~----~~~---~~~~~~l~~~s~G~~r~a~~~  204 (334)
T 1a5t_A          148 PERLLATLRSRCRLHYLAPPPEQYAVTWLSREV----TMS---QDALLAALRLSAGSPGAALAL  204 (334)
T ss_dssp             GGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHC----CCC---HHHHHHHHHHTTTCHHHHHHT
T ss_pred             hHhCcHHHhhcceeeeCCCCCHHHHHHHHHHhc----CCC---HHHHHHHHHHcCCCHHHHHHH
Confidence            53 3322 2345689999999999999998775    111   345678999999999876544

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=98.70  E-value=2.3e-07  Score=79.12  Aligned_cols=49  Identities=18%  Similarity=0.301  Sum_probs=42.8

Q ss_pred             CCCCcccchhhHHHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064           87 DSKNELVGVESRVEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      .....++||+.+++.+.+.+.  ..+.+.|+|++|+|||++|+.+++.+..
T Consensus        19 ~~~~~~~g~~~~~~~l~~~l~~~~~~~vll~G~~G~GKT~la~~~~~~~~~   69 (187)
T 2p65_A           19 GKLDPVIGRDTEIRRAIQILSRRTKNNPILLGDPGVGKTAIVEGLAIKIVQ   69 (187)
T ss_dssp             TCSCCCCSCHHHHHHHHHHHTSSSSCEEEEESCGGGCHHHHHHHHHHHHHT
T ss_pred             cccchhhcchHHHHHHHHHHhCCCCCceEEECCCCCCHHHHHHHHHHHHHh
Confidence            345679999999999999987  5678899999999999999999998754

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.68  E-value=4e-07  Score=86.54  Aligned_cols=168  Identities=20%  Similarity=0.275  Sum_probs=100.7

Q ss_pred             CCcccchhhHHHHHHHhhc---------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhc
Q 048064           89 KNELVGVESRVEEIQSLLG---------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKA  153 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~---------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~  153 (429)
                      -.++.|-+...++|.+.+.               .++-+.++||||+|||.||+++++.....|    +...........
T Consensus       147 ~~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~~~~f----~~v~~s~l~sk~  222 (405)
T 4b4t_J          147 YDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTDCKF----IRVSGAELVQKY  222 (405)
T ss_dssp             GGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHHTCEE----EEEEGGGGSCSS
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhhCCCc----eEEEhHHhhccc
Confidence            3568899999999888664               467899999999999999999999875433    222222221111


Q ss_pred             C-CHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCHH----------------HHHHHhccCCCC--CC
Q 048064          154 G-GLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLN----------------QIESLVGSLDRL--LP  214 (429)
Q Consensus       154 ~-~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~----------------~~~~l~~~l~~~--~~  214 (429)
                      . ......+.++..                .-...+.+|+||++|...                .+..++..+..+  ..
T Consensus       223 vGese~~vr~lF~~----------------Ar~~aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~  286 (405)
T 4b4t_J          223 IGEGSRMVRELFVM----------------AREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFETSK  286 (405)
T ss_dssp             TTHHHHHHHHHHHH----------------HHHTCSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTTCCC
T ss_pred             cchHHHHHHHHHHH----------------HHHhCCceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhccCCCC
Confidence            1 112222222221                223468999999996331                123344333322  23


Q ss_pred             CCEEEEEeCChhh-----hhhcCCCeEEEcCCCCHHHHHHHHHHhhhcCCCC-ChhHHHHHHHHHHHhCCCh
Q 048064          215 ESRILITTRNKQV-----LRNCHINQIYEMKGLGDDHALELFIRHAFRQNLV-DVDYKELSDKVINYAQGVP  280 (429)
Q Consensus       215 ~~~iiiTtR~~~~-----~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~-~~~~~~~~~~i~~~~~G~P  280 (429)
                      +..||.||..++.     ...-.....+.++..+.++-.++|..+...-... ..+    ...+++.+.|.-
T Consensus       287 ~V~vIaATNrpd~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~l~~dvd----l~~lA~~t~G~S  354 (405)
T 4b4t_J          287 NIKIIMATNRLDILDPALLRPGRIDRKIEFPPPSVAARAEILRIHSRKMNLTRGIN----LRKVAEKMNGCS  354 (405)
T ss_dssp             CEEEEEEESCSSSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSBCCSSCC----HHHHHHHCCSCC
T ss_pred             CeEEEeccCChhhCCHhHcCCCcCceEEEcCCcCHHHHHHHHHHHhcCCCCCccCC----HHHHHHHCCCCC
Confidence            3445556655432     2222456788999999999999998776332211 112    466778887754

>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=98.65  E-value=7.7e-07  Score=82.47  Aligned_cols=172  Identities=16%  Similarity=0.221  Sum_probs=99.8

Q ss_pred             CCCCcccchhhHHHHHHHhhc---------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhh
Q 048064           87 DSKNELVGVESRVEEIQSLLG---------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQ  151 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~---------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~  151 (429)
                      .....++|.+..+++|.+.+.               ..+.+.|+|++|+|||+||+.+++.....    ++..+...   
T Consensus        12 ~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~~~~----~i~v~~~~---   84 (301)
T 3cf0_A           12 VTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQAN----FISIKGPE---   84 (301)
T ss_dssp             CCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHTTCE----EEEECHHH---
T ss_pred             CCHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHhCCC----EEEEEhHH---
Confidence            344679999998888887653               45679999999999999999999876422    22221111   


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCCCCHHHH-HHHhcCCcEEEEecCCCCHHH----------------HHHHhccCCCC--
Q 048064          152 KAGGLAFLQQKLLSEVLKDVNVIPHIDLN-FRRLSCRKVLIVLDDVTCLNQ----------------IESLVGSLDRL--  212 (429)
Q Consensus       152 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~l-~~~l~~~~~LlVlDdv~~~~~----------------~~~l~~~l~~~--  212 (429)
                             +.    ......  ....+..+ .......+.+|+||+++....                ...++..+...  
T Consensus        85 -------l~----~~~~g~--~~~~~~~~f~~a~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~~~  151 (301)
T 3cf0_A           85 -------LL----TMWFGE--SEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMST  151 (301)
T ss_dssp             -------HH----HHHHTT--CTTHHHHHHHHHHHTCSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHSSCT
T ss_pred             -------HH----hhhcCc--hHHHHHHHHHHHHhcCCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhcccC
Confidence                   11    111111  11112222 223345678999999975321                23333333211  


Q ss_pred             CCCCEEEEEeCChhhhh-h-c---CCCeEEEcCCCCHHHHHHHHHHhhhcCCCC-ChhHHHHHHHHHHHhCCChHH
Q 048064          213 LPESRILITTRNKQVLR-N-C---HINQIYEMKGLGDDHALELFIRHAFRQNLV-DVDYKELSDKVINYAQGVPLA  282 (429)
Q Consensus       213 ~~~~~iiiTtR~~~~~~-~-~---~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~-~~~~~~~~~~i~~~~~G~PLa  282 (429)
                      ..+..||.||.....+. . .   .....+.++..+.++-.+++...+...... ...    ...++..+.|.|-+
T Consensus       152 ~~~v~vi~atn~~~~ld~al~r~gRf~~~i~i~~p~~~~r~~il~~~l~~~~~~~~~~----~~~la~~~~g~sg~  223 (301)
T 3cf0_A          152 KKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVD----LEFLAKMTNGFSGA  223 (301)
T ss_dssp             TSSEEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCSSCC----HHHHHHTCSSCCHH
T ss_pred             CCCEEEEEecCCccccChHHhcCCccceEEecCCcCHHHHHHHHHHHHccCCCCccch----HHHHHHHcCCCCHH
Confidence            23455666776553221 1 1   234678999999999999987766332211 111    34566667777654

>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=98.65  E-value=3.1e-07  Score=86.79  Aligned_cols=181  Identities=13%  Similarity=0.208  Sum_probs=107.3

Q ss_pred             CCcccchhhHHHHHHHhhcCCCE--EEEEcCCCcchHHHHHHHHHHhhcC-cceeEEEeechhhhhhcCCHHHHHHHHHH
Q 048064           89 KNELVGVESRVEEIQSLLGAAPL--LGIWGIGGIGKTTIARVIFNRISRN-FKGSCFLENIREESQKAGGLAFLQQKLLS  165 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~~~~~--v~I~G~~GiGKTtLa~~~~~~~~~~-f~~~~~~~~~~~~~~~~~~~~~~~~~l~~  165 (429)
                      -..++|.+..++.|...+...++  +.++|++|+||||+|+.++..+... +...+.-.+...    ..+...+. ....
T Consensus        24 ~~~~~g~~~~~~~L~~~i~~g~~~~~ll~Gp~G~GKTtla~~la~~l~~~~~~~~~~~~~~~~----~~~~~~ir-~~i~   98 (340)
T 1sxj_C           24 LDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASD----DRGIDVVR-NQIK   98 (340)
T ss_dssp             GGGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTS----CCSHHHHH-THHH
T ss_pred             HHHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHcCCCccceEEEEcCcc----cccHHHHH-HHHH
Confidence            35688999999999888873333  9999999999999999999986432 211111111111    11222221 1111


Q ss_pred             HHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEeCChh-hhhh-cCCCeEEEcCC
Q 048064          166 EVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITTRNKQ-VLRN-CHINQIYEMKG  241 (429)
Q Consensus       166 ~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTtR~~~-~~~~-~~~~~~~~l~~  241 (429)
                      ........          +.+.+-++|+|+++..  ...+.+...+........+|++|.... +.+. ......+.+.+
T Consensus        99 ~~~~~~~~----------~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~n~~~~i~~~i~sR~~~~~~~~  168 (340)
T 1sxj_C           99 DFASTRQI----------FSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQP  168 (340)
T ss_dssp             HHHHBCCS----------SSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCC
T ss_pred             HHHhhccc----------CCCCceEEEEeCCCCCCHHHHHHHHHHHhcCCCCeEEEEEecCccccchhHHhhceeEeccC
Confidence            11111000          1234679999999743  444555555444445667777665432 2211 12345789999


Q ss_pred             CCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHH
Q 048064          242 LGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKIL  286 (429)
Q Consensus       242 L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~  286 (429)
                      ++.++..+.+...+-.....  -..+....+++.++|.+--+..+
T Consensus       169 l~~~~~~~~l~~~~~~~~~~--i~~~~~~~i~~~s~G~~r~~~~~  211 (340)
T 1sxj_C          169 LPQEAIERRIANVLVHEKLK--LSPNAEKALIELSNGDMRRVLNV  211 (340)
T ss_dssp             CCHHHHHHHHHHHHHTTTCC--BCHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHH
Confidence            99999999887765322211  11356788999999998754433

>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=98.60  E-value=3.2e-06  Score=79.46  Aligned_cols=253  Identities=15%  Similarity=0.140  Sum_probs=133.8

Q ss_pred             CCcccchhhHHHHHHHhhc-------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHH
Q 048064           89 KNELVGVESRVEEIQSLLG-------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQ  161 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~-------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~  161 (429)
                      -..++|.+..++.+...+.       ....++|+|++|+||||||+.++..+...+.    ..... .   ......+. 
T Consensus        24 l~~~~g~~~~~~~l~~~i~~~~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l~~~~~----~~sg~-~---~~~~~~l~-   94 (334)
T 1in4_A           24 LDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTNIH----VTSGP-V---LVKQGDMA-   94 (334)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHTCCEE----EEETT-T---CCSHHHHH-
T ss_pred             HHHccCcHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEE----EEech-H---hcCHHHHH-
Confidence            3568898888888777664       2367999999999999999999998743321    11110 0   00111110 


Q ss_pred             HHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH--HHHHHHhccCCCC--------C----------CCCEEEE-
Q 048064          162 KLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL--NQIESLVGSLDRL--------L----------PESRILI-  220 (429)
Q Consensus       162 ~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~l~~~--------~----------~~~~iii-  220 (429)
                      .                 +...+ .++-++++|+++..  ...+.+...+...        +          +...++- 
T Consensus        95 ~-----------------~~~~~-~~~~v~~iDE~~~l~~~~~e~L~~~~~~~~~~i~~~~~~~~~~i~~~l~~~~li~a  156 (334)
T 1in4_A           95 A-----------------ILTSL-ERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGA  156 (334)
T ss_dssp             H-----------------HHHHC-CTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEEEEE
T ss_pred             H-----------------HHHHc-cCCCEEEEcchhhcCHHHHHHHHHHHHhcccceeeccCcccccccccCCCeEEEEe
Confidence            0                 11111 13457788988643  2222222211110        0          1122332 


Q ss_pred             EeCChhhhhhc--CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHHHhhc------C
Q 048064          221 TTRNKQVLRNC--HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYLF------E  292 (429)
Q Consensus       221 TtR~~~~~~~~--~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~~~l~------~  292 (429)
                      |++...+...+  .......+++++.++..+++.+.+......  -..+.+..|++.+.|.|-.+..+...+.      +
T Consensus       157 t~~~~~Ls~~l~sR~~l~~~Ld~~~~~~l~~iL~~~~~~~~~~--~~~~~~~~ia~~~~G~~R~a~~ll~~~~~~a~~~~  234 (334)
T 1in4_A          157 TTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMDVE--IEDAAAEMIAKRSRGTPRIAIRLTKRVRDMLTVVK  234 (334)
T ss_dssp             ESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTCC--BCHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHHT
T ss_pred             cCCcccCCHHHHHhcCceeeCCCCCHHHHHHHHHHHHHHcCCC--cCHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHcC
Confidence            44433222111  223468899999999999998876332211  2246688899999999976654433221      0


Q ss_pred             ---CCHHHHHHHHHHHhhCCCccHHHHHHHhhhcCChhhHHHHhhhhccc--CCcCHHHHHHHHHHcCCChhhhHH-HHH
Q 048064          293 ---RKKEVWENAIKKLKNFLHQNILDVLKISYDDLDNDEKNIFLDVACFF--KGEDIYLVKKFFEASGFYPEIGIS-ILV  366 (429)
Q Consensus       293 ---~~~~~~~~~l~~l~~~~~~~i~~~l~~s~~~L~~~~~~~l~~la~f~--~~~~~~~l~~~~~~~~~~~~~~l~-~L~  366 (429)
                         -+.+..+.++..+..            .-..++...+..+..++-..  .+...+.+....+.+....+...+ .|.
T Consensus       235 ~~~It~~~v~~al~~~~~------------~~~~l~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~t~~~~~~~~l~  302 (334)
T 1in4_A          235 ADRINTDIVLKTMEVLNI------------DDEGLDEFDRKILKTIIEIYRGGPVGLNALAASLGVEADTLSEVYEPYLL  302 (334)
T ss_dssp             CSSBCHHHHHHHHHHHTC------------CTTCCCHHHHHHHHHHHHHSTTCCBCHHHHHHHHTSCHHHHHHHTHHHHH
T ss_pred             CCCcCHHHHHHHHHHhCC------------CcCCCCHHHHHHHHHHHHHhCCCcchHHHHHHHhCCCcchHHHHHHHHHH
Confidence               112222222222211            11245555555555444332  235556555554322111112222 789


Q ss_pred             HcCceeEccCCeEEcc
Q 048064          367 DKALIAINSYNKITMH  382 (429)
Q Consensus       367 ~~sLi~~~~~~~~~mH  382 (429)
                      ..|+++....|+.-..
T Consensus       303 ~~g~i~~~~~gr~~~~  318 (334)
T 1in4_A          303 QAGFLARTPRGRIVTE  318 (334)
T ss_dssp             HTTSEEEETTEEEECH
T ss_pred             HcCCeecccccHHhhH
Confidence            9999999888876443

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.60  E-value=1.6e-06  Score=83.53  Aligned_cols=168  Identities=18%  Similarity=0.256  Sum_probs=98.8

Q ss_pred             CcccchhhHHHHHHHhhc---------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcC
Q 048064           90 NELVGVESRVEEIQSLLG---------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAG  154 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~---------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~  154 (429)
                      .++.|-+...++|.+.+.               .++-|.++|++|+|||.||+++++.....|    +............
T Consensus       209 ~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~~~~f----i~vs~s~L~sk~v  284 (467)
T 4b4t_H          209 SDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDATF----IRVIGSELVQKYV  284 (467)
T ss_dssp             SSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHHTCEE----EEEEGGGGCCCSS
T ss_pred             HHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhccCCCe----EEEEhHHhhcccC
Confidence            478899999998887642               578899999999999999999999875432    2222222211111


Q ss_pred             C-HHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCHH----------------HHHHHhccCCCC--CCC
Q 048064          155 G-LAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLN----------------QIESLVGSLDRL--LPE  215 (429)
Q Consensus       155 ~-~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~----------------~~~~l~~~l~~~--~~~  215 (429)
                      + .....+.++.                ..-...+.+|++|+++...                ....++..+...  ..+
T Consensus       285 Gesek~ir~lF~----------------~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~  348 (467)
T 4b4t_H          285 GEGARMVRELFE----------------MARTKKACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGFDPRGN  348 (467)
T ss_dssp             SHHHHHHHHHHH----------------HHHHTCSEEEEEECCTTTSBCCSSSSCGGGGHHHHHHHHHHHHHHSSCCTTT
T ss_pred             CHHHHHHHHHHH----------------HHHhcCCceEeecccccccccccCcCCCccHHHHHHHHHHHHHhhccCCCCc
Confidence            1 1222222222                2223568999999996331                122233333222  233


Q ss_pred             CEEEEEeCChhhh-----hhcCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCCh
Q 048064          216 SRILITTRNKQVL-----RNCHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVP  280 (429)
Q Consensus       216 ~~iiiTtR~~~~~-----~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  280 (429)
                      ..||.||.....+     ..-.....+.++..+.++-.++|..++..-. ...+.  -...|++.+.|.-
T Consensus       349 ViVIaATNrpd~LDpALlRpGRFD~~I~i~lPd~~~R~~Ilk~~l~~~~-l~~dv--dl~~LA~~T~GfS  415 (467)
T 4b4t_H          349 IKVMFATNRPNTLDPALLRPGRIDRKVEFSLPDLEGRANIFRIHSKSMS-VERGI--RWELISRLCPNST  415 (467)
T ss_dssp             EEEEEECSCTTSBCHHHHSTTTCCEEECCCCCCHHHHHHHHHHHHTTSC-BCSSC--CHHHHHHHCCSCC
T ss_pred             EEEEeCCCCcccCChhhhccccccEEEEeCCcCHHHHHHHHHHHhcCCC-CCCCC--CHHHHHHHCCCCC
Confidence            3455566544322     2123567889999999999999987763322 11111  1456777887753

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.59  E-value=1.3e-06  Score=84.29  Aligned_cols=168  Identities=17%  Similarity=0.312  Sum_probs=100.1

Q ss_pred             CCcccchhhHHHHHHHhhc---------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhc
Q 048064           89 KNELVGVESRVEEIQSLLG---------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKA  153 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~---------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~  153 (429)
                      -.++.|-+...++|.+.+.               .++-|.+|||+|+|||.||+++++.....    ++...........
T Consensus       180 ~~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~~~~----~~~v~~s~l~sk~  255 (437)
T 4b4t_L          180 FDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIGAN----FIFSPASGIVDKY  255 (437)
T ss_dssp             SGGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCE----EEEEEGGGTCCSS
T ss_pred             hhHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCC----EEEEehhhhcccc
Confidence            4577899999988887663               46889999999999999999999987533    2222232221111


Q ss_pred             CC-HHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCHH----------------HHHHHhccCCCC--CC
Q 048064          154 GG-LAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLN----------------QIESLVGSLDRL--LP  214 (429)
Q Consensus       154 ~~-~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~----------------~~~~l~~~l~~~--~~  214 (429)
                      .+ .....+.+..                ..-...+.+|+||++|...                .+..++..+..+  ..
T Consensus       256 ~Gese~~ir~~F~----------------~A~~~~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~  319 (437)
T 4b4t_L          256 IGESARIIREMFA----------------YAKEHEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFDNLG  319 (437)
T ss_dssp             SSHHHHHHHHHHH----------------HHHHSCSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSSCTT
T ss_pred             chHHHHHHHHHHH----------------HHHhcCCceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhcccCCC
Confidence            11 1222222222                2224578999999996321                123344333222  23


Q ss_pred             CCEEEEEeCChhhhhh-c----CCCeEEEcCCCCHHHHHHHHHHhhhcCCC-CChhHHHHHHHHHHHhCCCh
Q 048064          215 ESRILITTRNKQVLRN-C----HINQIYEMKGLGDDHALELFIRHAFRQNL-VDVDYKELSDKVINYAQGVP  280 (429)
Q Consensus       215 ~~~iiiTtR~~~~~~~-~----~~~~~~~l~~L~~~ea~~L~~~~~~~~~~-~~~~~~~~~~~i~~~~~G~P  280 (429)
                      +..||.||..+..+.. +    .....+.++..+.++-.++|..+...-.. ...+    ...+++.+.|.-
T Consensus       320 ~vivI~ATNrp~~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~d~d----l~~lA~~t~G~s  387 (437)
T 4b4t_L          320 QTKIIMATNRPDTLDPALLRPGRLDRKVEIPLPNEAGRLEIFKIHTAKVKKTGEFD----FEAAVKMSDGFN  387 (437)
T ss_dssp             SSEEEEEESSTTSSCTTTTSTTSEEEEECCCCCCHHHHHHHHHHHHHTSCBCSCCC----HHHHHHTCCSCC
T ss_pred             CeEEEEecCCchhhCHHHhCCCccceeeecCCcCHHHHHHHHHHHhcCCCCCcccC----HHHHHHhCCCCC
Confidence            4556667765543322 1    23557889888999888998877633221 1112    456777777754

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.58  E-value=7.2e-07  Score=85.92  Aligned_cols=168  Identities=18%  Similarity=0.253  Sum_probs=93.1

Q ss_pred             CCcccchhhHHHHHHHhhc---------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhc
Q 048064           89 KNELVGVESRVEEIQSLLG---------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKA  153 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~---------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~  153 (429)
                      -.++.|-+...++|.+.+.               .++-+.++||+|+|||+||+++++.....|    +..+........
T Consensus       171 ~~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~~~~~----~~v~~~~l~~~~  246 (428)
T 4b4t_K          171 YADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAAF----IRVNGSEFVHKY  246 (428)
T ss_dssp             GGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHHTCEE----EEEEGGGTCCSS
T ss_pred             HHHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCe----EEEecchhhccc
Confidence            3578899999988887653               467799999999999999999999875332    222222211111


Q ss_pred             CC-HHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCHH----------------HHHHHhccCCCC--CC
Q 048064          154 GG-LAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLN----------------QIESLVGSLDRL--LP  214 (429)
Q Consensus       154 ~~-~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~----------------~~~~l~~~l~~~--~~  214 (429)
                      .+ .....+.++.                ..-...+.++++|+++...                .+..|+..+..+  ..
T Consensus       247 ~Ge~e~~ir~lF~----------------~A~~~aP~IifiDEiD~i~~~R~~~~~~~~~~~~r~l~~lL~~ldg~~~~~  310 (428)
T 4b4t_K          247 LGEGPRMVRDVFR----------------LARENAPSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFDQST  310 (428)
T ss_dssp             CSHHHHHHHHHHH----------------HHHHTCSEEEEEECTHHHHCSCSSSCSCCCCHHHHHHHHHHHHHHHSCSSC
T ss_pred             cchhHHHHHHHHH----------------HHHHcCCCeeechhhhhhhccccCCCCCCChHHHHHHHHHHHHhhCCCCCC
Confidence            11 1222222222                1223468999999995221                123333332211  23


Q ss_pred             CCEEEEEeCChhh-----hhhcCCCeEEEcCCCC-HHHHHHHHHHhhhcCCC-CChhHHHHHHHHHHHhCCCh
Q 048064          215 ESRILITTRNKQV-----LRNCHINQIYEMKGLG-DDHALELFIRHAFRQNL-VDVDYKELSDKVINYAQGVP  280 (429)
Q Consensus       215 ~~~iiiTtR~~~~-----~~~~~~~~~~~l~~L~-~~ea~~L~~~~~~~~~~-~~~~~~~~~~~i~~~~~G~P  280 (429)
                      +..||.||...+.     .........+.++.++ .++-..+|..+...-.. ...+    ...+++.+.|.-
T Consensus       311 ~v~vI~aTN~~~~LD~AllRpGRfd~~I~~p~lPd~~~R~~Il~~~~~~~~l~~~~d----l~~lA~~t~G~s  379 (428)
T 4b4t_K          311 NVKVIMATNRADTLDPALLRPGRLDRKIEFPSLRDRRERRLIFGTIASKMSLAPEAD----LDSLIIRNDSLS  379 (428)
T ss_dssp             SEEEEEEESCSSSCCHHHHSSSSEEEEEECCSSCCHHHHHHHHHHHHHSSCBCTTCC----HHHHHHHTTTCC
T ss_pred             CEEEEEecCChhhcChhhhcCCcceEEEEcCCCCCHHHHHHHHHHHhcCCCCCcccC----HHHHHHHCCCCC
Confidence            4456667765432     2211234567787664 55555666555432221 1112    456777777753

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.58  E-value=5.4e-07  Score=86.90  Aligned_cols=168  Identities=17%  Similarity=0.217  Sum_probs=100.1

Q ss_pred             CCCcccchhhHHHHHHHhhc---------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhh
Q 048064           88 SKNELVGVESRVEEIQSLLG---------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQK  152 (429)
Q Consensus        88 ~~~~~vGR~~~~~~l~~~l~---------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~  152 (429)
                      .-.++.|-+...++|.+.+.               .++-|.+|||||+|||.||++++......    ++..+.......
T Consensus       179 t~~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~~~~----f~~v~~s~l~~~  254 (434)
T 4b4t_M          179 TYSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNAT----FLKLAAPQLVQM  254 (434)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCE----EEEEEGGGGCSS
T ss_pred             ChHhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHhCCC----EEEEehhhhhhc
Confidence            34678999999999887643               46789999999999999999999987533    223223222111


Q ss_pred             cCC-HHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCHH----------------HHHHHhccCCCCC--
Q 048064          153 AGG-LAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLN----------------QIESLVGSLDRLL--  213 (429)
Q Consensus       153 ~~~-~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~----------------~~~~l~~~l~~~~--  213 (429)
                      ..+ .....+.++..                .-...+.+|++|+++...                .+..++..+..+.  
T Consensus       255 ~vGese~~ir~lF~~----------------A~~~aP~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~~~~  318 (434)
T 4b4t_M          255 YIGEGAKLVRDAFAL----------------AKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFSSD  318 (434)
T ss_dssp             CSSHHHHHHHHHHHH----------------HHHHCSEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTSCSS
T ss_pred             ccchHHHHHHHHHHH----------------HHhcCCeEEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhccCCC
Confidence            111 12222222221                123468999999995321                1233444444322  


Q ss_pred             CCCEEEEEeCChhhhhh-c----CCCeEEEcCCCCHHHHHHHHHHhhhcCCC-CChhHHHHHHHHHHHhCCC
Q 048064          214 PESRILITTRNKQVLRN-C----HINQIYEMKGLGDDHALELFIRHAFRQNL-VDVDYKELSDKVINYAQGV  279 (429)
Q Consensus       214 ~~~~iiiTtR~~~~~~~-~----~~~~~~~l~~L~~~ea~~L~~~~~~~~~~-~~~~~~~~~~~i~~~~~G~  279 (429)
                      .+..||.||..+..+.. +    .....+.++..+.++-.++|..+...-.. ...+    ...+++.+.|.
T Consensus       319 ~~ViVIaaTNrp~~LD~AllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~dvd----l~~lA~~t~G~  386 (434)
T 4b4t_M          319 DRVKVLAATNRVDVLDPALLRSGRLDRKIEFPLPSEDSRAQILQIHSRKMTTDDDIN----WQELARSTDEF  386 (434)
T ss_dssp             CSSEEEEECSSCCCCCTTTCSTTSEEEEEECCCCCHHHHHHHHHHHHHHSCBCSCCC----HHHHHHHCSSC
T ss_pred             CCEEEEEeCCCchhcCHhHhcCCceeEEEEeCCcCHHHHHHHHHHHhcCCCCCCcCC----HHHHHHhCCCC
Confidence            33445557765543221 1    34567889999999999998776533221 1112    45677788775

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=98.56  E-value=1.3e-07  Score=77.57  Aligned_cols=109  Identities=17%  Similarity=0.103  Sum_probs=64.3

Q ss_pred             cccchhhHHHHHHHhhc----CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHH
Q 048064           91 ELVGVESRVEEIQSLLG----AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSE  166 (429)
Q Consensus        91 ~~vGR~~~~~~l~~~l~----~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~  166 (429)
                      .++|++..++++.+.+.    ....|.|+|++|+|||++|+.+++.........+ + ++..... ..            
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~~~~~vll~G~~GtGKt~lA~~i~~~~~~~~~~~v-~-~~~~~~~-~~------------   66 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSETDIAVWLYGAPGTGRMTGARYLHQFGRNAQGEFV-Y-RELTPDN-AP------------   66 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTTCCSCEEEESSTTSSHHHHHHHHHHSSTTTTSCCE-E-EECCTTT-SS------------
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCCHHHHHHHHHHhCCccCCCEE-E-ECCCCCc-ch------------
Confidence            57899999999988774    5667899999999999999999886432211122 2 2222111 10            


Q ss_pred             HhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEeCCh
Q 048064          167 VLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITTRNK  225 (429)
Q Consensus       167 ~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTtR~~  225 (429)
                               ....+....  ..-+|+||+++..  .....++..+.......++|.||...
T Consensus        67 ---------~~~~~~~~a--~~g~l~ldei~~l~~~~q~~Ll~~l~~~~~~~~~I~~t~~~  116 (145)
T 3n70_A           67 ---------QLNDFIALA--QGGTLVLSHPEHLTREQQYHLVQLQSQEHRPFRLIGIGDTS  116 (145)
T ss_dssp             ---------CHHHHHHHH--TTSCEEEECGGGSCHHHHHHHHHHHHSSSCSSCEEEEESSC
T ss_pred             ---------hhhcHHHHc--CCcEEEEcChHHCCHHHHHHHHHHHhhcCCCEEEEEECCcC
Confidence                     111111111  2247899999744  33444554444334566777777643

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=98.55  E-value=9.4e-07  Score=79.87  Aligned_cols=177  Identities=15%  Similarity=0.137  Sum_probs=95.9

Q ss_pred             CCCCcccchhhHHHHHHHhhc--------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhh
Q 048064           87 DSKNELVGVESRVEEIQSLLG--------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQK  152 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~--------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~  152 (429)
                      ....+++|.+..++++.+.+.              ..+-+.|+|++|+||||||+.+++.....|   +.+ +.......
T Consensus         9 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~~---~~i-~~~~~~~~   84 (257)
T 1lv7_A            9 TTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPF---FTI-SGSDFVEM   84 (257)
T ss_dssp             CCGGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCCE---EEE-CSCSSTTS
T ss_pred             CCHHHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHcCCCE---EEE-eHHHHHHH
Confidence            445678999988887766542              255799999999999999999998764322   222 22111100


Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCCCHHH-HHHHhcCCcEEEEecCCCCH----------------HHHHHHhccCCCC--C
Q 048064          153 AGGLAFLQQKLLSEVLKDVNVIPHIDL-NFRRLSCRKVLIVLDDVTCL----------------NQIESLVGSLDRL--L  213 (429)
Q Consensus       153 ~~~~~~~~~~l~~~~~~~~~~~~~~~~-l~~~l~~~~~LlVlDdv~~~----------------~~~~~l~~~l~~~--~  213 (429)
                      ..+                .....+.. +.......+.++++|+++..                .....++..+...  .
T Consensus        85 ~~~----------------~~~~~~~~~~~~a~~~~~~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~  148 (257)
T 1lv7_A           85 FVG----------------VGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGN  148 (257)
T ss_dssp             CCC----------------CCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSS
T ss_pred             hhh----------------hhHHHHHHHHHHHHHcCCeeehhhhhhhhccCCCCCcCCCchHHHHHHHHHHHHhhCcccC
Confidence            000                00000111 12222345789999998422                1223333322211  2


Q ss_pred             CCCEEEEEeCChhhh-hhc----CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCC-ChHHHHHH
Q 048064          214 PESRILITTRNKQVL-RNC----HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQG-VPLALKIL  286 (429)
Q Consensus       214 ~~~~iiiTtR~~~~~-~~~----~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G-~PLai~~~  286 (429)
                      .+..||.||...... ..+    .....+.++..+.++-.+++..........+ +  .....++..+.| ++--|..+
T Consensus       149 ~~~~vI~~tn~~~~l~~~l~r~~rf~~~i~i~~P~~~~r~~il~~~~~~~~l~~-~--~~~~~la~~~~G~~~~dl~~l  224 (257)
T 1lv7_A          149 EGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAP-D--IDAAIIARGTPGFSGADLANL  224 (257)
T ss_dssp             SCEEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCT-T--CCHHHHHHTCTTCCHHHHHHH
T ss_pred             CCEEEEEeeCCchhCCHHHcCCCcCCeEEEeCCCCHHHHHHHHHHHHhcCCCCc-c--ccHHHHHHHcCCCCHHHHHHH
Confidence            344566666654322 111    2345788888898888888876653221111 1  113446666777 66655544

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=98.52  E-value=5.1e-07  Score=88.94  Aligned_cols=145  Identities=14%  Similarity=0.157  Sum_probs=83.3

Q ss_pred             CCCcccchhhHHHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhcCc------ceeEEEeechhhhhhcCCHHHH
Q 048064           88 SKNELVGVESRVEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISRNF------KGSCFLENIREESQKAGGLAFL  159 (429)
Q Consensus        88 ~~~~~vGR~~~~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f------~~~~~~~~~~~~~~~~~~~~~~  159 (429)
                      ..+.++||+.+++.+...+.  ....+.|+|++|+|||++|+.+++.+....      ...++..++..  .        
T Consensus       178 ~ld~iiGr~~~i~~l~~~l~r~~~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~--~--------  247 (468)
T 3pxg_A          178 SLDPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMGT--K--------  247 (468)
T ss_dssp             CSCCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC---------------
T ss_pred             CCCCccCcHHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeCCc--c--------
Confidence            34579999999999999986  566789999999999999999999874432      12222222210  0        


Q ss_pred             HHHHHHHHhcCCCCCCCHHHHHHHh-cCCcEEEEecCCCCHHHHHHHhccCCCCCCCCEEEEEeCChhh------hhh-c
Q 048064          160 QQKLLSEVLKDVNVIPHIDLNFRRL-SCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQV------LRN-C  231 (429)
Q Consensus       160 ~~~l~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~~~~~~~l~~~l~~~~~~~~iiiTtR~~~~------~~~-~  231 (429)
                             .  .......+..+...+ ...+.+|++|  -..+....+...+.  ....++|.+|.....      ... .
T Consensus       248 -------~--~g~~e~~~~~~~~~~~~~~~~iLfiD--~~~~a~~~L~~~L~--~g~v~vI~at~~~e~~~~~~~~~al~  314 (468)
T 3pxg_A          248 -------Y--RGEFEDRLKKVMDEIRQAGNIILFID--AAIDASNILKPSLA--RGELQCIGATTLDEYRKYIEKDAALE  314 (468)
T ss_dssp             --------------CTTHHHHHHHHHTCCCCEEEEC--C--------CCCTT--SSSCEEEEECCTTTTHHHHTTCSHHH
T ss_pred             -------c--cchHHHHHHHHHHHHHhcCCeEEEEe--CchhHHHHHHHhhc--CCCEEEEecCCHHHHHHHhhcCHHHH
Confidence                   0  000112222222222 3467899999  22233333444433  223456655544321      111 1


Q ss_pred             CCCeEEEcCCCCHHHHHHHHHHhh
Q 048064          232 HINQIYEMKGLGDDHALELFIRHA  255 (429)
Q Consensus       232 ~~~~~~~l~~L~~~ea~~L~~~~~  255 (429)
                      .....+.+++++.++..+++....
T Consensus       315 ~Rf~~i~v~~p~~e~~~~iL~~~~  338 (468)
T 3pxg_A          315 RRFQPIQVDQPSVDESIQILQGLR  338 (468)
T ss_dssp             HSEEEEECCCCCHHHHHHHHHHTT
T ss_pred             HhCccceeCCCCHHHHHHHHHHHH
Confidence            123579999999999999998655

>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=98.52  E-value=5e-07  Score=95.81  Aligned_cols=149  Identities=13%  Similarity=0.096  Sum_probs=83.0

Q ss_pred             CCCCcccchhhHHHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhcCc------ceeEEEeechhhhhh---cCC
Q 048064           87 DSKNELVGVESRVEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISRNF------KGSCFLENIREESQK---AGG  155 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f------~~~~~~~~~~~~~~~---~~~  155 (429)
                      .....++||+.+++++.+.+.  ..+.+.|+|++|+|||++|+.+++.+....      ...++..++......   ...
T Consensus       167 ~~ld~viGr~~~i~~l~~~l~~~~~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~l~~g~~~~g~  246 (854)
T 1qvr_A          167 GKLDPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAKYRGE  246 (854)
T ss_dssp             TCSCCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-----------C
T ss_pred             CCCcccCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeehHHhhccCccchH
Confidence            334679999999999999887  455689999999999999999999874321      223333333221100   001


Q ss_pred             HHHHHHHHHHHHhcCCCCCCCHHHHHHHhc--CCcEEEEecCCCCHH----------HHHHHhccCCCCCCCCEEEEEeC
Q 048064          156 LAFLQQKLLSEVLKDVNVIPHIDLNFRRLS--CRKVLIVLDDVTCLN----------QIESLVGSLDRLLPESRILITTR  223 (429)
Q Consensus       156 ~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~--~~~~LlVlDdv~~~~----------~~~~l~~~l~~~~~~~~iiiTtR  223 (429)
                      ......                 .+...+.  +++.+|+||+++...          ....+...+.  ..+..+|.+|.
T Consensus       247 ~~~~l~-----------------~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~g~~~~~~~L~~~l~--~~~i~~I~at~  307 (854)
T 1qvr_A          247 FEERLK-----------------AVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALA--RGELRLIGATT  307 (854)
T ss_dssp             HHHHHH-----------------HHHHHHHTTCSSEEEEECCC-------------------HHHHH--TTCCCEEEEEC
T ss_pred             HHHHHH-----------------HHHHHHHhcCCCeEEEEecHHHHhccCCccchHHHHHHHHHHHh--CCCeEEEEecC
Confidence            111111                 1222222  367899999997543          1112222222  12344555554


Q ss_pred             Chhh-----hhh-cCCCeEEEcCCCCHHHHHHHHHHh
Q 048064          224 NKQV-----LRN-CHINQIYEMKGLGDDHALELFIRH  254 (429)
Q Consensus       224 ~~~~-----~~~-~~~~~~~~l~~L~~~ea~~L~~~~  254 (429)
                      ....     ... ......+.+++++.++..+++...
T Consensus       308 ~~~~~~~~~d~aL~rRf~~i~l~~p~~~e~~~iL~~~  344 (854)
T 1qvr_A          308 LDEYREIEKDPALERRFQPVYVDEPTVEETISILRGL  344 (854)
T ss_dssp             HHHHHHHTTCTTTCSCCCCEEECCCCHHHHHHHHHHH
T ss_pred             chHHhhhccCHHHHhCCceEEeCCCCHHHHHHHHHhh
Confidence            3322     111 122345889999999999998654

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.51  E-value=1.4e-06  Score=83.17  Aligned_cols=168  Identities=18%  Similarity=0.263  Sum_probs=98.4

Q ss_pred             CCcccchhhHHHHHHHhhc---------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhc
Q 048064           89 KNELVGVESRVEEIQSLLG---------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKA  153 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~---------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~  153 (429)
                      -.++.|.+...++|.+.+.               .++-|.++||+|+|||.||++++......|    +..+........
T Consensus       181 ~~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~~~~f----i~v~~s~l~sk~  256 (437)
T 4b4t_I          181 YSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSATF----LRIVGSELIQKY  256 (437)
T ss_dssp             GGGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHHTCEE----EEEESGGGCCSS
T ss_pred             ceecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHhCCCE----EEEEHHHhhhcc
Confidence            3567889999988887653               467899999999999999999999875433    222222221111


Q ss_pred             C-CHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH----------------HHHHHHhccCCCC--CC
Q 048064          154 G-GLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL----------------NQIESLVGSLDRL--LP  214 (429)
Q Consensus       154 ~-~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~----------------~~~~~l~~~l~~~--~~  214 (429)
                      . ......+.++..                .-...+.+|+||++|..                ..+..++..+...  ..
T Consensus       257 vGesek~ir~lF~~----------------Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~~~~~  320 (437)
T 4b4t_I          257 LGDGPRLCRQIFKV----------------AGENAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDDRG  320 (437)
T ss_dssp             SSHHHHHHHHHHHH----------------HHHTCSEEEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHCCCSS
T ss_pred             CchHHHHHHHHHHH----------------HHhcCCcEEEEehhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCcCCCC
Confidence            1 122222222222                22346899999999632                1122333322211  23


Q ss_pred             CCEEEEEeCChhhhhh-c----CCCeEEEcCCCCHHHHHHHHHHhhhcCCC-CChhHHHHHHHHHHHhCCCh
Q 048064          215 ESRILITTRNKQVLRN-C----HINQIYEMKGLGDDHALELFIRHAFRQNL-VDVDYKELSDKVINYAQGVP  280 (429)
Q Consensus       215 ~~~iiiTtR~~~~~~~-~----~~~~~~~l~~L~~~ea~~L~~~~~~~~~~-~~~~~~~~~~~i~~~~~G~P  280 (429)
                      +..||.||...+.+.. +    .....+.++..+.++-.++|..++..-.. ...+    ...+++.+.|.-
T Consensus       321 ~ViVIaATNrpd~LDpALlRpGRfD~~I~v~lPd~~~R~~Il~~~l~~~~l~~dvd----l~~LA~~T~GfS  388 (437)
T 4b4t_I          321 DVKVIMATNKIETLDPALIRPGRIDRKILFENPDLSTKKKILGIHTSKMNLSEDVN----LETLVTTKDDLS  388 (437)
T ss_dssp             SEEEEEEESCSTTCCTTSSCTTTEEEEECCCCCCHHHHHHHHHHHHTTSCBCSCCC----HHHHHHHCCSCC
T ss_pred             CEEEEEeCCChhhcCHHHhcCCceeEEEEcCCcCHHHHHHHHHHHhcCCCCCCcCC----HHHHHHhCCCCC
Confidence            4445557765544322 1    23456888888999989999877633221 1112    456777777653

>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=98.51  E-value=2.3e-06  Score=84.34  Aligned_cols=175  Identities=19%  Similarity=0.201  Sum_probs=100.8

Q ss_pred             CcccchhhHHHHHHHhhc---------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcC
Q 048064           90 NELVGVESRVEEIQSLLG---------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAG  154 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~---------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~  154 (429)
                      ..++|.+..+++|.+++.               ..+.+.|+|++|+|||++|+.+++...    ..++..++........
T Consensus       204 ~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~~----~~fv~vn~~~l~~~~~  279 (489)
T 3hu3_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG----AFFFLINGPEIMSKLA  279 (489)
T ss_dssp             GGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHCS----SEEEEEEHHHHHTSCT
T ss_pred             HHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHhC----CCEEEEEchHhhhhhc
Confidence            568999999999988763               346799999999999999999988763    2233333332221111


Q ss_pred             CH-HHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH-------------HHHHHHhccCCC--CCCCCEE
Q 048064          155 GL-AFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL-------------NQIESLVGSLDR--LLPESRI  218 (429)
Q Consensus       155 ~~-~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~-------------~~~~~l~~~l~~--~~~~~~i  218 (429)
                      +- ......+                +.....+.+.+|+||+++..             .....|+..+..  ...+..|
T Consensus       280 g~~~~~~~~~----------------f~~A~~~~p~iLfLDEId~l~~~~~~~~~~~~~~~~~~LL~~ld~~~~~~~v~v  343 (489)
T 3hu3_A          280 GESESNLRKA----------------FEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIV  343 (489)
T ss_dssp             THHHHHHHHH----------------HHHHHHTCSEEEEEESHHHHCBCTTSCCCHHHHHHHHHHHHHHHHSCTTSCEEE
T ss_pred             chhHHHHHHH----------------HHHHHhcCCcEEEecchhhhccccccccchHHHHHHHHHHHHhhccccCCceEE
Confidence            10 0111111                22333456789999999422             122333333321  1234455


Q ss_pred             EEEeCChhh-hhh----cCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCC-hHHHHHHH
Q 048064          219 LITTRNKQV-LRN----CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGV-PLALKILG  287 (429)
Q Consensus       219 iiTtR~~~~-~~~----~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~-PLai~~~~  287 (429)
                      |.||..... ...    ......+.++..+.++-.++|..++........   .....++..+.|. +-.|..+.
T Consensus       344 IaaTn~~~~Ld~al~r~gRf~~~i~i~~P~~~eR~~IL~~~~~~~~l~~~---~~l~~la~~t~g~s~~dL~~L~  415 (489)
T 3hu3_A          344 MAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADD---VDLEQVANETHGHVGADLAALC  415 (489)
T ss_dssp             EEEESCGGGBCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHTTTSCBCTT---CCHHHHHHTCTTCCHHHHHHHH
T ss_pred             EEecCCccccCHHHhCCCcCceEEEeCCCCHHHHHHHHHHHHhcCCCcch---hhHHHHHHHccCCcHHHHHHHH
Confidence            556665422 111    134457899999999999999887633221111   1135566667664 55555443

>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=98.49  E-value=2.3e-06  Score=79.40  Aligned_cols=45  Identities=22%  Similarity=0.321  Sum_probs=37.3

Q ss_pred             CcccchhhHHHHHHHhhc----------------CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064           90 NELVGVESRVEEIQSLLG----------------AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~----------------~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ..++|.+..++.+...+.                ....+.|+|++|+|||++|+.+++.+.
T Consensus        15 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l~   75 (310)
T 1ofh_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLAN   75 (310)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHhC
Confidence            458888888888876653                256799999999999999999999873

>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=98.45  E-value=3.7e-06  Score=88.16  Aligned_cols=150  Identities=15%  Similarity=0.158  Sum_probs=89.3

Q ss_pred             CCCCcccchhhHHHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhcC------cceeEEEeechhhhh---hcCC
Q 048064           87 DSKNELVGVESRVEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISRN------FKGSCFLENIREESQ---KAGG  155 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~------f~~~~~~~~~~~~~~---~~~~  155 (429)
                      .....++||+.+++++.+.+.  ....+.|+|++|+|||++|+.+++.+...      ....++..+......   ....
T Consensus       183 ~~~d~~iGr~~~i~~l~~~l~~~~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~~~~l~~~~~~~g~  262 (758)
T 1r6b_X          183 GGIDPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGD  262 (758)
T ss_dssp             TCSCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCCCSSC
T ss_pred             CCCCCccCCHHHHHHHHHHHhccCCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEcHHHHhccccccch
Confidence            344679999999999999987  56778999999999999999999986432      122333332221110   0011


Q ss_pred             HHHHHHHHHHHHhcCCCCCCCHHHHHHHh-cCCcEEEEecCCCCH----------HHH-HHHhccCCCCCCCCEEEEEeC
Q 048064          156 LAFLQQKLLSEVLKDVNVIPHIDLNFRRL-SCRKVLIVLDDVTCL----------NQI-ESLVGSLDRLLPESRILITTR  223 (429)
Q Consensus       156 ~~~~~~~l~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~~----------~~~-~~l~~~l~~~~~~~~iiiTtR  223 (429)
                      .....+.                 +...+ ..++.+|+|||++..          ... ..+...+.  .....+|.+|.
T Consensus       263 ~e~~l~~-----------------~~~~~~~~~~~iL~IDEi~~l~~~~~~~~~~~~~~~~L~~~l~--~~~~~~I~at~  323 (758)
T 1r6b_X          263 FEKRFKA-----------------LLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS--SGKIRVIGSTT  323 (758)
T ss_dssp             HHHHHHH-----------------HHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS--SCCCEEEEEEC
T ss_pred             HHHHHHH-----------------HHHHHHhcCCeEEEEechHHHhhcCCCCcchHHHHHHHHHHHh--CCCeEEEEEeC
Confidence            1212222                 22222 235689999999854          122 22333332  23455666665


Q ss_pred             Chhhhhh-------cCCCeEEEcCCCCHHHHHHHHHHhh
Q 048064          224 NKQVLRN-------CHINQIYEMKGLGDDHALELFIRHA  255 (429)
Q Consensus       224 ~~~~~~~-------~~~~~~~~l~~L~~~ea~~L~~~~~  255 (429)
                      .......       ......+.+++++.++..+++....
T Consensus       324 ~~~~~~~~~~d~aL~~Rf~~i~v~~p~~~e~~~il~~l~  362 (758)
T 1r6b_X          324 YQEFSNIFEKDRALARRFQKIDITEPSIEETVQIINGLK  362 (758)
T ss_dssp             HHHHHCCCCCTTSSGGGEEEEECCCCCHHHHHHHHHHHH
T ss_pred             chHHhhhhhcCHHHHhCceEEEcCCCCHHHHHHHHHHHH
Confidence            4332111       1123468899999999999987654

>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=98.39  E-value=1.7e-06  Score=73.51  Aligned_cols=40  Identities=23%  Similarity=0.277  Sum_probs=31.1

Q ss_pred             hhhHHHHHHHhhc-----CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064           95 VESRVEEIQSLLG-----AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus        95 R~~~~~~l~~~l~-----~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ....++.+.+++.     ....++|+|++|+|||||++.++..+.
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            4445555555543     467899999999999999999999875

>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=98.38  E-value=9.8e-06  Score=79.34  Aligned_cols=170  Identities=14%  Similarity=0.190  Sum_probs=97.9

Q ss_pred             CCCcccchhhHHHHHHHhhc--------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhc
Q 048064           88 SKNELVGVESRVEEIQSLLG--------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKA  153 (429)
Q Consensus        88 ~~~~~vGR~~~~~~l~~~l~--------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~  153 (429)
                      ...+++|.+..++++.+.+.              .++-+.|+|++|+|||+||+.++......|    +..+........
T Consensus        14 ~f~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~~~~f----~~is~~~~~~~~   89 (476)
T 2ce7_A           14 TFKDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVPF----FHISGSDFVELF   89 (476)
T ss_dssp             CGGGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHHTCCE----EEEEGGGTTTCC
T ss_pred             CHHHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHcCCCe----eeCCHHHHHHHH
Confidence            34678999988887777543              245699999999999999999999764332    222222221111


Q ss_pred             CCHH-HHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH----------------HHHHHHhccCCCC--CC
Q 048064          154 GGLA-FLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL----------------NQIESLVGSLDRL--LP  214 (429)
Q Consensus       154 ~~~~-~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~----------------~~~~~l~~~l~~~--~~  214 (429)
                      .+.. .-.+.                .+.....+.+.+|+||+++..                ..+..++..+..+  ..
T Consensus        90 ~g~~~~~~r~----------------lf~~A~~~~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~~~~  153 (476)
T 2ce7_A           90 VGVGAARVRD----------------LFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSKE  153 (476)
T ss_dssp             TTHHHHHHHH----------------HHHHHHHTCSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSCGGG
T ss_pred             hcccHHHHHH----------------HHHHHHhcCCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccCCCC
Confidence            1110 00111                123334457899999999642                1233343332211  23


Q ss_pred             CCEEEEEeCChhhhhh--c---CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCCh
Q 048064          215 ESRILITTRNKQVLRN--C---HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVP  280 (429)
Q Consensus       215 ~~~iiiTtR~~~~~~~--~---~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  280 (429)
                      +..||.||.....+..  .   .....+.+++.+.++-.+++..++....... ..  ....++..+.|+.
T Consensus       154 ~viVIaaTn~~~~Ld~allR~gRFd~~i~i~~Pd~~~R~~Il~~~~~~~~l~~-~v--~l~~la~~t~G~s  221 (476)
T 2ce7_A          154 GIIVMAATNRPDILDPALLRPGRFDKKIVVDPPDMLGRKKILEIHTRNKPLAE-DV--NLEIIAKRTPGFV  221 (476)
T ss_dssp             TEEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCT-TC--CHHHHHHTCTTCC
T ss_pred             CEEEEEecCChhhhchhhcccCcceeEeecCCCCHHHHHHHHHHHHHhCCCcc-hh--hHHHHHHhcCCCc
Confidence            4556667766543321  1   2345788999998888888877653322111 11  1345778888877

>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=98.36  E-value=2.8e-06  Score=78.62  Aligned_cols=144  Identities=8%  Similarity=0.067  Sum_probs=89.4

Q ss_pred             chhhHHHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhh---cCcceeEEEeechhhhhhcCCHHHHHHHHHHHHh
Q 048064           94 GVESRVEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRIS---RNFKGSCFLENIREESQKAGGLAFLQQKLLSEVL  168 (429)
Q Consensus        94 GR~~~~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~---~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  168 (429)
                      |-++.++.|...+.  ..+...++|++|+||||+|..+++...   ..++....+. ...   ...+...+ +.+.....
T Consensus         1 g~~~~~~~L~~~i~~~~~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~-~~~---~~~~id~i-r~li~~~~   75 (305)
T 2gno_A            1 GAKDQLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEID-PEG---ENIGIDDI-RTIKDFLN   75 (305)
T ss_dssp             ---CHHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEEC-CSS---SCBCHHHH-HHHHHHHT
T ss_pred             ChHHHHHHHHHHHHCCCCcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEc-CCc---CCCCHHHH-HHHHHHHh
Confidence            34556677777776  445889999999999999999988532   1233333332 110   01222222 22333222


Q ss_pred             cCCCCCCCHHHHHHHhcCCcEEEEecCCCC--HHHHHHHhccCCCCCCCCEEEEEeCCh-hhhhhcCCCeEEEcCCCCHH
Q 048064          169 KDVNVIPHIDLNFRRLSCRKVLIVLDDVTC--LNQIESLVGSLDRLLPESRILITTRNK-QVLRNCHINQIYEMKGLGDD  245 (429)
Q Consensus       169 ~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~--~~~~~~l~~~l~~~~~~~~iiiTtR~~-~~~~~~~~~~~~~l~~L~~~  245 (429)
                      ...            ..+++-++|+|+++.  ....+.|+..+....+.+.+|++|.++ .+.+.+... .+++.+++.+
T Consensus        76 ~~p------------~~~~~kvviIdead~lt~~a~naLLk~LEep~~~t~fIl~t~~~~kl~~tI~SR-~~~f~~l~~~  142 (305)
T 2gno_A           76 YSP------------ELYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSR-VFRVVVNVPK  142 (305)
T ss_dssp             SCC------------SSSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTT-SEEEECCCCH
T ss_pred             hcc------------ccCCceEEEeccHHHhCHHHHHHHHHHHhCCCCCeEEEEEECChHhChHHHHce-eEeCCCCCHH
Confidence            110            123467999999984  456677777777666777777766544 344444334 8999999999


Q ss_pred             HHHHHHHHhh
Q 048064          246 HALELFIRHA  255 (429)
Q Consensus       246 ea~~L~~~~~  255 (429)
                      +..+++....
T Consensus       143 ~i~~~L~~~~  152 (305)
T 2gno_A          143 EFRDLVKEKI  152 (305)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999998775

>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=98.35  E-value=2.7e-06  Score=77.16  Aligned_cols=45  Identities=24%  Similarity=0.251  Sum_probs=34.9

Q ss_pred             CcccchhhHHHHHHHhhc----CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064           90 NELVGVESRVEEIQSLLG----AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~----~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ..++|.+..++++.+.+.    ....+.|+|++|+|||++|+.+++...
T Consensus         6 ~~~ig~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKt~la~~i~~~~~   54 (265)
T 2bjv_A            6 DNLLGEANSFLEVLEQVSHLAPLDKPVLIIGERGTGKELIASRLHYLSS   54 (265)
T ss_dssp             ----CCCHHHHHHHHHHHHHTTSCSCEEEECCTTSCHHHHHHHHHHTST
T ss_pred             ccceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhcC
Confidence            468899999888876654    567789999999999999999998754

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=98.33  E-value=7.5e-06  Score=75.81  Aligned_cols=44  Identities=18%  Similarity=0.348  Sum_probs=37.5

Q ss_pred             CcccchhhHHHHHHHhhc----CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064           90 NELVGVESRVEEIQSLLG----AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~----~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ..++|++..++++.+.+.    ....|.|+|++|+|||++|+.+++..
T Consensus         2 ~~iig~s~~~~~~~~~~~~~a~~~~~vLi~Ge~GtGKt~lAr~i~~~~   49 (304)
T 1ojl_A            2 SHMIGSSPAMQHLLNEIAMVAPSDATVLIHGDSGTGKELVARALHACS   49 (304)
T ss_dssp             -CCCCCSHHHHHHHHHHHHHCSTTSCEEEESCTTSCHHHHHHHHHHHS
T ss_pred             CCcEECCHHHHHHHHHHHHHhCCCCcEEEECCCCchHHHHHHHHHHhC
Confidence            358899999998888775    56678999999999999999999865

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=98.32  E-value=3.6e-07  Score=74.71  Aligned_cols=44  Identities=16%  Similarity=0.163  Sum_probs=34.5

Q ss_pred             CcccchhhHHHHHHHhhc----CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064           90 NELVGVESRVEEIQSLLG----AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~----~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      -.++|++..++++.+.+.    ....|.|+|++|+|||++|+.+++..
T Consensus         4 ~~~iG~s~~~~~l~~~~~~~~~~~~~vll~G~~GtGKt~lA~~i~~~~   51 (143)
T 3co5_A            4 FDKLGNSAAIQEMNREVEAAAKRTSPVFLTGEAGSPFETVARYFHKNG   51 (143)
T ss_dssp             ----CCCHHHHHHHHHHHHHHTCSSCEEEEEETTCCHHHHHGGGCCTT
T ss_pred             cCceeCCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhC
Confidence            357899999998888775    56679999999999999999887754

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=98.32  E-value=2.6e-06  Score=73.87  Aligned_cols=57  Identities=18%  Similarity=0.180  Sum_probs=39.0

Q ss_pred             CCCCcccchhh----HHHHHHHhhcCC------CEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEE
Q 048064           87 DSKNELVGVES----RVEEIQSLLGAA------PLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFL  143 (429)
Q Consensus        87 ~~~~~~vGR~~----~~~~l~~~l~~~------~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  143 (429)
                      ....+|++...    .++.+..++...      +.+.|+|++|+|||+||+.+++.........+++
T Consensus        22 ~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~G~~GtGKT~la~~i~~~~~~~~~~~~~~   88 (202)
T 2w58_A           22 ASLSDVDLNDDGRIKAIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIANELAKRNVSSLIV   88 (202)
T ss_dssp             CCTTSSCCSSHHHHHHHHHHHHHHHHCCSSCCCCEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEE
T ss_pred             CCHhhccCCChhHHHHHHHHHHHHHHhhhccCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEE
Confidence            34456776543    344445555411      7899999999999999999999876554444444

>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=98.32  E-value=3.4e-07  Score=83.29  Aligned_cols=149  Identities=13%  Similarity=0.142  Sum_probs=84.9

Q ss_pred             CCCCcccchhhHHHHHHHhhc--------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhh
Q 048064           87 DSKNELVGVESRVEEIQSLLG--------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQK  152 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~--------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~  152 (429)
                      .....++|.+..++.+.+.+.              ..+.+.|+|++|+|||+||+.+++.....|-    ..+...... 
T Consensus         8 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~----~v~~~~~~~-   82 (268)
T 2r62_A            8 VRFKDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHVPFF----SMGGSSFIE-   82 (268)
T ss_dssp             CCSTTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHHTCCCC----CCCSCTTTT-
T ss_pred             CCHHHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEE----EechHHHHH-
Confidence            445789999998888887654              2456889999999999999999998654331    111111000 


Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCCCHHH-HHHHhcCCcEEEEecCCCCHHH-----------------HHHHhccCCCCC-
Q 048064          153 AGGLAFLQQKLLSEVLKDVNVIPHIDL-NFRRLSCRKVLIVLDDVTCLNQ-----------------IESLVGSLDRLL-  213 (429)
Q Consensus       153 ~~~~~~~~~~l~~~~~~~~~~~~~~~~-l~~~l~~~~~LlVlDdv~~~~~-----------------~~~l~~~l~~~~-  213 (429)
                                   .....  ....+.. +.......+.+|+|||++....                 +..++..+.... 
T Consensus        83 -------------~~~~~--~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~  147 (268)
T 2r62_A           83 -------------MFVGL--GASRVRDLFETAKKQAPSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGFGS  147 (268)
T ss_dssp             -------------SCSSS--CSSSSSTTHHHHHHSCSCEEEESCGGGTTC----------CCCSCSSTTTTTTTTTCSSC
T ss_pred             -------------hhcch--HHHHHHHHHHHHHhcCCeEEEEeChhhhcccccccccCCCchhHHHHHHHHHHHhhCccc
Confidence                         00000  0111111 2223334678999999964421                 222333332211 


Q ss_pred             --CCCEEEEEeCChhhhh-h-c---CCCeEEEcCCCCHHHHHHHHHHhh
Q 048064          214 --PESRILITTRNKQVLR-N-C---HINQIYEMKGLGDDHALELFIRHA  255 (429)
Q Consensus       214 --~~~~iiiTtR~~~~~~-~-~---~~~~~~~l~~L~~~ea~~L~~~~~  255 (429)
                        ....||.||.....+. . .   .....+.+++.+.++..+++...+
T Consensus       148 ~~~~v~vi~ttn~~~~ld~~l~r~~Rf~~~i~i~~p~~~~r~~il~~~~  196 (268)
T 2r62_A          148 ENAPVIVLAATNRPEILDPALMRPGRFDRQVLVDKPDFNGRVEILKVHI  196 (268)
T ss_dssp             SCSCCEEEECBSCCTTSCGGGGSSSSSCCCCBCCCCCTTTHHHHHHHHT
T ss_pred             CCCCEEEEEecCCchhcCHhHcCCCCCCeEEEecCcCHHHHHHHHHHHH
Confidence              1244666666553221 1 1   223467888899998888887765

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=98.32  E-value=3e-06  Score=78.68  Aligned_cols=47  Identities=17%  Similarity=0.335  Sum_probs=38.3

Q ss_pred             CcccchhhHHHHHHHhhcC-----------CCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064           90 NELVGVESRVEEIQSLLGA-----------APLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~~-----------~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ..++|.+..++.+...+..           ...+.|+|++|+|||++|+.+++.....
T Consensus        17 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~~~~   74 (311)
T 4fcw_A           17 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDT   74 (311)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHHHHSC
T ss_pred             hhcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHHHcCC
Confidence            4578888888888887751           2479999999999999999999987543

>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=98.31  E-value=2.7e-05  Score=76.39  Aligned_cols=95  Identities=8%  Similarity=0.006  Sum_probs=59.0

Q ss_pred             EEEEecCCC--CHHHHHHHhccCCCCCCCCEEEEEe---------CC----h-hhhh-hcCCCeEEEcCCCCHHHHHHHH
Q 048064          189 VLIVLDDVT--CLNQIESLVGSLDRLLPESRILITT---------RN----K-QVLR-NCHINQIYEMKGLGDDHALELF  251 (429)
Q Consensus       189 ~LlVlDdv~--~~~~~~~l~~~l~~~~~~~~iiiTt---------R~----~-~~~~-~~~~~~~~~l~~L~~~ea~~L~  251 (429)
                      -+++||+++  +.+..+.|+..+...... .+|+.|         .+    + .+.+ .......+.+++++.++..+++
T Consensus       297 ~VliIDEa~~l~~~a~~aLlk~lEe~~~~-~~il~tn~~~~~i~~~~~~~~~~~l~~~i~sR~~~~~~~~~~~~e~~~iL  375 (456)
T 2c9o_A          297 GVLFVDEVHMLDIECFTYLHRALESSIAP-IVIFASNRGNCVIRGTEDITSPHGIPLDLLDRVMIIRTMLYTPQEMKQII  375 (456)
T ss_dssp             CEEEEESGGGCBHHHHHHHHHHTTSTTCC-EEEEEECCSEEECBTTSSCEEETTCCHHHHTTEEEEECCCCCHHHHHHHH
T ss_pred             eEEEEechhhcCHHHHHHHHHHhhccCCC-EEEEecCCccccccccccccccccCChhHHhhcceeeCCCCCHHHHHHHH
Confidence            389999997  445677788777754444 344343         11    1 1111 1123355799999999999999


Q ss_pred             HHhhhcCCCCChhHHHHHHHHHHHh-CCChHHHHHH
Q 048064          252 IRHAFRQNLVDVDYKELSDKVINYA-QGVPLALKIL  286 (429)
Q Consensus       252 ~~~~~~~~~~~~~~~~~~~~i~~~~-~G~PLai~~~  286 (429)
                      ..++......  -..+....++..+ +|.|.....+
T Consensus       376 ~~~~~~~~~~--~~~~~~~~i~~~a~~g~~r~a~~l  409 (456)
T 2c9o_A          376 KIRAQTEGIN--ISEEALNHLGEIGTKTTLRYSVQL  409 (456)
T ss_dssp             HHHHHHHTCC--BCHHHHHHHHHHHHHSCHHHHHHT
T ss_pred             HHHHHHhCCC--CCHHHHHHHHHHccCCCHHHHHHH
Confidence            8776322211  1235567788888 8888765444

>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=98.29  E-value=7.2e-06  Score=84.93  Aligned_cols=167  Identities=20%  Similarity=0.254  Sum_probs=97.9

Q ss_pred             CcccchhhHHHHHHHhhc---------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcC
Q 048064           90 NELVGVESRVEEIQSLLG---------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAG  154 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~---------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~  154 (429)
                      .++.|.+..+++|.+.+.               .++-|.++|++|+|||+||+.+++....    .++..+.........
T Consensus       204 ~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~elg~----~~~~v~~~~l~sk~~  279 (806)
T 3cf2_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGA----FFFLINGPEIMSKLA  279 (806)
T ss_dssp             GGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTTTC----EEEEEEHHHHHSSCT
T ss_pred             hhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCC----eEEEEEhHHhhcccc
Confidence            567889998888887653               4678999999999999999999987642    333333332211111


Q ss_pred             C-HHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCHH-------------HHHHHhccCCCCC--CCCEE
Q 048064          155 G-LAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLN-------------QIESLVGSLDRLL--PESRI  218 (429)
Q Consensus       155 ~-~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~-------------~~~~l~~~l~~~~--~~~~i  218 (429)
                      + .....+.++                .......+.+|+||+++...             ....|+..+....  .+..|
T Consensus       280 gese~~lr~lF----------------~~A~~~~PsIIfIDEiDal~~~r~~~~~~~~~riv~~LL~~mdg~~~~~~V~V  343 (806)
T 3cf2_A          280 GESESNLRKAF----------------EEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIV  343 (806)
T ss_dssp             THHHHHHHHHH----------------HHHTTSCSEEEEEESGGGTCCTTTTCCCTTHHHHHHHHHTHHHHCCGGGCEEE
T ss_pred             hHHHHHHHHHH----------------HHHHHcCCeEEEEehhcccccccCCCCChHHHHHHHHHHHHHhcccccCCEEE
Confidence            1 122222222                22234578999999996331             1233333222111  23344


Q ss_pred             EEEeCChhhh-hhc----CCCeEEEcCCCCHHHHHHHHHHhhhcCC-CCChhHHHHHHHHHHHhCCCh
Q 048064          219 LITTRNKQVL-RNC----HINQIYEMKGLGDDHALELFIRHAFRQN-LVDVDYKELSDKVINYAQGVP  280 (429)
Q Consensus       219 iiTtR~~~~~-~~~----~~~~~~~l~~L~~~ea~~L~~~~~~~~~-~~~~~~~~~~~~i~~~~~G~P  280 (429)
                      |.||...+.+ +.+    .....+.++..+.++-.++|+.+..... ....+    ...++..+.|.-
T Consensus       344 IaaTN~~d~LD~ALrR~GRFd~~I~i~~Pd~~~R~~IL~~~l~~~~~~~dvd----l~~lA~~T~Gfs  407 (806)
T 3cf2_A          344 MAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVD----LEQVANETHGHV  407 (806)
T ss_dssp             EEECSSTTTSCTTTTSTTSSCEEEECCCCCHHHHHHHHHHTCSSSEECTTCC----HHHHHHHCCSCC
T ss_pred             EEecCChhhcCHHHhCCcccceEEecCCCCHHHHHHHHHHHhcCCCCCcccC----HHHHHHhcCCCC
Confidence            5566544322 111    3456789999999999999987763222 11111    456778887764

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=98.28  E-value=3.8e-06  Score=88.00  Aligned_cols=144  Identities=13%  Similarity=0.135  Sum_probs=83.2

Q ss_pred             CCcccchhhHHHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhcCc------ceeEEEeechhhhhhcCCHHHHH
Q 048064           89 KNELVGVESRVEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISRNF------KGSCFLENIREESQKAGGLAFLQ  160 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f------~~~~~~~~~~~~~~~~~~~~~~~  160 (429)
                      ...++||+.+++++...+.  ....+.++|++|+|||++|+.+++.+....      ...++..+...            
T Consensus       179 ld~iiG~~~~i~~l~~~l~~~~~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~~~~g~------------  246 (758)
T 3pxi_A          179 LDPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMGT------------  246 (758)
T ss_dssp             SCCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC----------------
T ss_pred             CCCccCchHHHHHHHHHHhCCCCCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEEecccc------------
Confidence            4579999999999999986  566799999999999999999999874321      12222221100            


Q ss_pred             HHHHHHHhcCCCCCCCHHHHHH-HhcCCcEEEEecCCCCHHHHHHHhccCCCCCCCCEEEEEeCChhh------hhh-cC
Q 048064          161 QKLLSEVLKDVNVIPHIDLNFR-RLSCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQV------LRN-CH  232 (429)
Q Consensus       161 ~~l~~~~~~~~~~~~~~~~l~~-~l~~~~~LlVlDdv~~~~~~~~l~~~l~~~~~~~~iiiTtR~~~~------~~~-~~  232 (429)
                           ..  .......+..+.. .....+.+|+||  ...+....+...+.  ....++|.||.....      .+. ..
T Consensus       247 -----~~--~G~~e~~l~~~~~~~~~~~~~iLfiD--~~~~~~~~L~~~l~--~~~v~~I~at~~~~~~~~~~~d~al~r  315 (758)
T 3pxi_A          247 -----KY--RGEFEDRLKKVMDEIRQAGNIILFID--AAIDASNILKPSLA--RGELQCIGATTLDEYRKYIEKDAALER  315 (758)
T ss_dssp             -------------CTTHHHHHHHHHTCCCCEEEEC--C--------CCCTT--SSSCEEEEECCTTTTHHHHTTCSHHHH
T ss_pred             -----cc--cchHHHHHHHHHHHHHhcCCEEEEEc--CchhHHHHHHHHHh--cCCEEEEeCCChHHHHHHhhccHHHHh
Confidence                 00  0011122233222 233567899999  22333333444433  234556666554431      000 11


Q ss_pred             CCeEEEcCCCCHHHHHHHHHHhh
Q 048064          233 INQIYEMKGLGDDHALELFIRHA  255 (429)
Q Consensus       233 ~~~~~~l~~L~~~ea~~L~~~~~  255 (429)
                      ....+.+++++.++..+++....
T Consensus       316 Rf~~i~v~~p~~~~~~~il~~~~  338 (758)
T 3pxi_A          316 RFQPIQVDQPSVDESIQILQGLR  338 (758)
T ss_dssp             SEEEEECCCCCHHHHHHHHHHTT
T ss_pred             hCcEEEeCCCCHHHHHHHHHHHH
Confidence            23679999999999999998654

>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=98.27  E-value=2.1e-05  Score=70.68  Aligned_cols=171  Identities=13%  Similarity=0.170  Sum_probs=90.5

Q ss_pred             CCCCcccchhhHHHHHHHhhc--------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhh
Q 048064           87 DSKNELVGVESRVEEIQSLLG--------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQK  152 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~--------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~  152 (429)
                      ....+++|.+....++.+...              -.+-++|+|++|+|||||++.++.....   ..+.+. .......
T Consensus        13 ~~~~~i~g~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~~~---~~i~~~-~~~~~~~   88 (254)
T 1ixz_A           13 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARV---PFITAS-GSDFVEM   88 (254)
T ss_dssp             CCGGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTC---CEEEEE-HHHHHHS
T ss_pred             CCHHHhCCcHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCC---CEEEee-HHHHHHH
Confidence            444678888877776665432              1345999999999999999999987642   122222 1111110


Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHh-cCCcEEEEecCCCCHH----------------HHHHHhccCCCCCC-
Q 048064          153 AGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRL-SCRKVLIVLDDVTCLN----------------QIESLVGSLDRLLP-  214 (429)
Q Consensus       153 ~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~~~----------------~~~~l~~~l~~~~~-  214 (429)
                      ....  ....              +..+.+.. ...+.++++||++...                ....++..+..... 
T Consensus        89 ~~~~--~~~~--------------i~~~~~~~~~~~~~i~~~Deid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~g~~~~  152 (254)
T 1ixz_A           89 FVGV--GAAR--------------VRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKD  152 (254)
T ss_dssp             CTTH--HHHH--------------HHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTT
T ss_pred             HhhH--HHHH--------------HHHHHHHHHhcCCeEEEehhhhhhhcccCccccccchHHHHHHHHHHHHHhCCCCC
Confidence            0110  0000              11122222 2356899999995321                12333333322121 


Q ss_pred             C-CEEEEEeCChhhhhh-----cCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCCh
Q 048064          215 E-SRILITTRNKQVLRN-----CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVP  280 (429)
Q Consensus       215 ~-~~iiiTtR~~~~~~~-----~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  280 (429)
                      . ..++.||..+..+..     ......+.++..+.++-.+++........... +  .....+++.+.|+-
T Consensus       153 ~~~i~~a~t~~p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~-~--~~~~~la~~~~G~~  221 (254)
T 1ixz_A          153 TAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAE-D--VDLALLAKRTPGFV  221 (254)
T ss_dssp             CCEEEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCT-T--CCHHHHHHTCTTCC
T ss_pred             CCEEEEEccCCchhCCHHHcCCCcCCeEEeeCCcCHHHHHHHHHHHHcCCCCCc-c--cCHHHHHHHcCCCC
Confidence            2 234446666544322     13456788999999988888876652211111 1  11345666676654

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=98.24  E-value=3.1e-05  Score=70.65  Aligned_cols=171  Identities=13%  Similarity=0.176  Sum_probs=92.0

Q ss_pred             CCCCcccchhhHHHHHHHhhc--------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhh
Q 048064           87 DSKNELVGVESRVEEIQSLLG--------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQK  152 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~--------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~  152 (429)
                      ....+++|.+....++.+...              -.+-++|+|++|+|||||++.++.....   ..+.+. .......
T Consensus        37 ~~~~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~~~---~~i~~~-~~~~~~~  112 (278)
T 1iy2_A           37 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARV---PFITAS-GSDFVEM  112 (278)
T ss_dssp             CCGGGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHTTC---CEEEEE-HHHHHHS
T ss_pred             CCHHHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHcCC---CEEEec-HHHHHHH
Confidence            455789999988777766543              1334899999999999999999987642   222222 1111110


Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHh-cCCcEEEEecCCCCH----------------HHHHHHhccCCCCCCC
Q 048064          153 AGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRL-SCRKVLIVLDDVTCL----------------NQIESLVGSLDRLLPE  215 (429)
Q Consensus       153 ~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~~----------------~~~~~l~~~l~~~~~~  215 (429)
                      ....  ....              +..+.+.. ...+.++++||++..                ..+..++..+......
T Consensus       113 ~~~~--~~~~--------------i~~~~~~~~~~~~~i~~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~lsgg~~~  176 (278)
T 1iy2_A          113 FVGV--GAAR--------------VRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKD  176 (278)
T ss_dssp             TTTH--HHHH--------------HHHHHHHHHTSCSEEEEEETHHHHHCC--------CHHHHHHHHHHHHHHTTCCTT
T ss_pred             HhhH--HHHH--------------HHHHHHHHHhcCCcEEehhhhHhhhcccccccCCcchHHHHHHHHHHHHHhCCCCC
Confidence            0000  0000              11122222 235689999999522                1123333333322222


Q ss_pred             --CEEEEEeCChhhhhh-----cCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCCh
Q 048064          216 --SRILITTRNKQVLRN-----CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVP  280 (429)
Q Consensus       216 --~~iiiTtR~~~~~~~-----~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  280 (429)
                        ..++.+|..+..+..     ......+.++..+.++-.+++...+....... +  .....++..+.|+.
T Consensus       177 ~~~i~~a~t~~p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~-~--~~~~~la~~~~G~~  245 (278)
T 1iy2_A          177 TAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAE-D--VDLALLAKRTPGFV  245 (278)
T ss_dssp             CCEEEEEEESCTTSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSCBCT-T--CCHHHHHHTCTTCC
T ss_pred             CCEEEEEecCCchhCCHhHcCCCcCCeEEEeCCcCHHHHHHHHHHHHccCCCCc-c--cCHHHHHHHcCCCC
Confidence              234446665543221     13456788999999998888876652221111 1  11345666776655

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=98.21  E-value=2.3e-05  Score=71.33  Aligned_cols=147  Identities=16%  Similarity=0.154  Sum_probs=79.9

Q ss_pred             CCcccchhhHHHHHHHhhc---------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhc
Q 048064           89 KNELVGVESRVEEIQSLLG---------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKA  153 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~---------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~  153 (429)
                      -.++.|-++..++|.+.+.               ..+-++|+|++|+|||||++.++.....   ..+.+. ......  
T Consensus         9 ~~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~GvlL~Gp~GtGKTtLakala~~~~~---~~i~i~-g~~l~~--   82 (274)
T 2x8a_A            9 WADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANESGL---NFISVK-GPELLN--   82 (274)
T ss_dssp             ---CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSEEEEESSTTSCHHHHHHHHHHHTTC---EEEEEE-TTTTCS--
T ss_pred             HHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCeEEEECCCCCcHHHHHHHHHHHcCC---CEEEEE-cHHHHh--
Confidence            3566777777777665432               2344999999999999999999987542   222232 211110  


Q ss_pred             CCHHHHHHHHHHHHhcCCCCCCCHHHHHHHh-cCCcEEEEecCCCCHH-------------HHHHHhccCCCC--CCCCE
Q 048064          154 GGLAFLQQKLLSEVLKDVNVIPHIDLNFRRL-SCRKVLIVLDDVTCLN-------------QIESLVGSLDRL--LPESR  217 (429)
Q Consensus       154 ~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~~~-------------~~~~l~~~l~~~--~~~~~  217 (429)
                      .......+.              +..+.+.. ...+.++++|+++...             ....++..+...  ....-
T Consensus        83 ~~~~~~~~~--------------i~~vf~~a~~~~p~i~~~Deid~~~~~r~~~~~~~~~~~~~~~l~~Lsgg~~~~~~i  148 (274)
T 2x8a_A           83 MYVGESERA--------------VRQVFQRAKNSAPCVIFFDEVDALCPRRSDRETGASVRVVNQLLTEMDGLEARQQVF  148 (274)
T ss_dssp             STTHHHHHH--------------HHHHHHHHHHTCSEEEEEETCTTTCC---------CTTHHHHHHHHHHTCCSTTCEE
T ss_pred             hhhhHHHHH--------------HHHHHHHHHhcCCCeEeeehhhhhhcccCCCcchHHHHHHHHHHHhhhcccccCCEE
Confidence            001111110              01111111 3457899999996421             122233222211  12233


Q ss_pred             EEEEeCChhhhhh-----cCCCeEEEcCCCCHHHHHHHHHHhh
Q 048064          218 ILITTRNKQVLRN-----CHINQIYEMKGLGDDHALELFIRHA  255 (429)
Q Consensus       218 iiiTtR~~~~~~~-----~~~~~~~~l~~L~~~ea~~L~~~~~  255 (429)
                      ++.+|..+.++..     ......+.++..+.++-.+++....
T Consensus       149 ~ia~tn~p~~LD~al~r~gRfd~~i~~~~P~~~~r~~il~~~~  191 (274)
T 2x8a_A          149 IMAATNRPDIIDPAILRPGRLDKTLFVGLPPPADRLAILKTIT  191 (274)
T ss_dssp             EEEEESCGGGSCHHHHSTTSSCEEEECCSCCHHHHHHHHHHHT
T ss_pred             EEeecCChhhCCHhhcCcccCCeEEEeCCcCHHHHHHHHHHHH
Confidence            4556666654322     1346778899999999999998765

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=98.14  E-value=7.3e-06  Score=85.82  Aligned_cols=143  Identities=15%  Similarity=0.225  Sum_probs=82.9

Q ss_pred             CcccchhhHHHHHHHhhc----C-----C--CEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHH
Q 048064           90 NELVGVESRVEEIQSLLG----A-----A--PLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAF  158 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~----~-----~--~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~  158 (429)
                      ..++|.+..++.+...+.    +     .  ..+.++|++|+|||++|+.+++.+.......+.+ ++..........  
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l~~~~~~~i~i-~~s~~~~~~~~~--  567 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESIFGDEESMIRI-DMSEYMEKHSTS--  567 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHHHSCTTCEEEE-EGGGGCSSCCCC--
T ss_pred             CcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCcceEEE-echhcccccccc--
Confidence            468999999988888775    1     1  1699999999999999999999874332223333 333322211110  


Q ss_pred             HHHHHHHHHhcCCCCCCCHHHHHHHhc-CCcEEEEecCCCCH--HHHHHHhccCCC-----------CCCCCEEEEEeCC
Q 048064          159 LQQKLLSEVLKDVNVIPHIDLNFRRLS-CRKVLIVLDDVTCL--NQIESLVGSLDR-----------LLPESRILITTRN  224 (429)
Q Consensus       159 ~~~~l~~~~~~~~~~~~~~~~l~~~l~-~~~~LlVlDdv~~~--~~~~~l~~~l~~-----------~~~~~~iiiTtR~  224 (429)
                                        ...+...++ ...-+|+||+++..  +....|+..+..           ...+..||+||..
T Consensus       568 ------------------~~~l~~~~~~~~~~vl~lDEi~~~~~~~~~~Ll~~le~g~~~~~~g~~~~~~~~~iI~ttn~  629 (758)
T 3pxi_A          568 ------------------GGQLTEKVRRKPYSVVLLDAIEKAHPDVFNILLQVLEDGRLTDSKGRTVDFRNTILIMTSNV  629 (758)
T ss_dssp             ---------------------CHHHHHHCSSSEEEEECGGGSCHHHHHHHHHHHHHSBCC-----CCBCTTCEEEEEESS
T ss_pred             ------------------cchhhHHHHhCCCeEEEEeCccccCHHHHHHHHHHhccCeEEcCCCCEeccCCeEEEEeCCC
Confidence                              000111111 22348999999733  334444433321           1235578888873


Q ss_pred             h-----------------hhhhhcCCCeEEEcCCCCHHHHHHHHHHhh
Q 048064          225 K-----------------QVLRNCHINQIYEMKGLGDDHALELFIRHA  255 (429)
Q Consensus       225 ~-----------------~~~~~~~~~~~~~l~~L~~~ea~~L~~~~~  255 (429)
                      .                 .+..  ....++.+++++.++..+++...+
T Consensus       630 ~~~~~~~~~~~~~~~f~p~l~~--Rl~~~i~~~~l~~~~~~~i~~~~l  675 (758)
T 3pxi_A          630 GASEKDKVMGELKRAFRPEFIN--RIDEIIVFHSLEKKHLTEIVSLMS  675 (758)
T ss_dssp             STTCCHHHHHHHHHHSCHHHHT--TSSEEEECC--CHHHHHHHHHHHH
T ss_pred             ChhhHHHHHHHHHhhCCHHHHh--hCCeEEecCCCCHHHHHHHHHHHH
Confidence            1                 1112  223688999999999888886654

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=98.09  E-value=7.6e-06  Score=67.21  Aligned_cols=45  Identities=13%  Similarity=0.218  Sum_probs=31.8

Q ss_pred             CcccchhhHHHHHHHhhcCCCEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064           90 NELVGVESRVEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      +.++|...+.-.....+ ....++|+|++|+|||||++.++.....
T Consensus        18 ~f~~g~n~~~~~~l~~~-~g~~~~l~G~~G~GKTtL~~~i~~~~~~   62 (149)
T 2kjq_A           18 KFLGTENAELVYVLRHK-HGQFIYVWGEEGAGKSHLLQAWVAQALE   62 (149)
T ss_dssp             CCCSCCTHHHHHHCCCC-CCSEEEEESSSTTTTCHHHHHHHHHHHT
T ss_pred             hcCcCccHHHHHHHHhc-CCCEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            44445544433222222 6788999999999999999999997754

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=98.09  E-value=2.6e-05  Score=71.82  Aligned_cols=28  Identities=32%  Similarity=0.701  Sum_probs=24.6

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      .++.+.++|++|+|||+||+.+++.+..
T Consensus        35 ~p~~lLl~GppGtGKT~la~aiA~~l~~   62 (293)
T 3t15_A           35 VPLILGIWGGKGQGKSFQCELVFRKMGI   62 (293)
T ss_dssp             CCSEEEEEECTTSCHHHHHHHHHHHHTC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            4568999999999999999999998843

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=98.08  E-value=6.3e-05  Score=74.09  Aligned_cols=171  Identities=13%  Similarity=0.201  Sum_probs=94.8

Q ss_pred             CCCCcccchhhHHHHHHHhhc--------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhh
Q 048064           87 DSKNELVGVESRVEEIQSLLG--------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQK  152 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~--------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~  152 (429)
                      ....+++|.+..+.++.+...              -.+-+.|+|++|+||||||+.++.....    .++..+.......
T Consensus        28 ~~f~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~~~----~~i~i~g~~~~~~  103 (499)
T 2dhr_A           28 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARV----PFITASGSDFVEM  103 (499)
T ss_dssp             CCTTSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHTTC----CEEEEEGGGGTSS
T ss_pred             CCHHHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCC----CEEEEehhHHHHh
Confidence            455789999988887776543              1345999999999999999999987642    2222222221110


Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHh-cCCcEEEEecCCCCH----------------HHHHHHhccCCCCC--
Q 048064          153 AGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRL-SCRKVLIVLDDVTCL----------------NQIESLVGSLDRLL--  213 (429)
Q Consensus       153 ~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~~----------------~~~~~l~~~l~~~~--  213 (429)
                      ..+.  .... ...+.             +.. ...+.++++|+++..                ..+..++..+....  
T Consensus       104 ~~g~--~~~~-v~~lf-------------q~a~~~~p~il~IDEId~l~~~r~~~~~~~~~e~~~~l~~LL~~Ldg~~~~  167 (499)
T 2dhr_A          104 FVGV--GAAR-VRDLF-------------ETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKD  167 (499)
T ss_dssp             CTTH--HHHH-HHHHT-------------TTSSSSSSCEEEEECGGGTCCCSSSSTTTSSHHHHHHHHHHHHHGGGCCSS
T ss_pred             hhhh--HHHH-HHHHH-------------HHHHhcCCCEEEEehHHHHHHhhccCcCCCcHHHHHHHHHHHHHhcccccC
Confidence            1111  0011 11111             111 124579999999522                12334443333222  


Q ss_pred             CCCEEEEEeCChhhhhh-c----CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCCh
Q 048064          214 PESRILITTRNKQVLRN-C----HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVP  280 (429)
Q Consensus       214 ~~~~iiiTtR~~~~~~~-~----~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  280 (429)
                      ....++.||..+..+.. +    .....+.++..+.++-.+++..++....... +  .....++..+.|+.
T Consensus       168 ~~viviAatn~p~~LD~aLlr~gRfdr~i~i~~Pd~~~R~~IL~~~~~~~~l~~-d--v~l~~lA~~t~G~~  236 (499)
T 2dhr_A          168 TAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAE-D--VDLALLAKRTPGFV  236 (499)
T ss_dssp             CCCEEEECCSCGGGSCTTTSSTTSSCCEEECCCCCHHHHHHHHHHTTSSSCCCC-S--STTHHHHTTSCSCC
T ss_pred             ccEEEEEecCChhhcCcccccccccceEEecCCCCHHHHHHHHHHHHhcCCCCh-H--HHHHHHHHhcCCCC
Confidence            23345556665544321 1    2345788999999999999987653221111 1  11445777777776

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=98.06  E-value=3.8e-05  Score=71.96  Aligned_cols=46  Identities=13%  Similarity=0.179  Sum_probs=40.2

Q ss_pred             CcccchhhHHHHHHHhhcCCCEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064           90 NELVGVESRVEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      ..++|++..++.+...+.....+.++|++|+|||+||+.+++.+..
T Consensus        27 ~~i~g~~~~~~~l~~~l~~~~~vll~G~pGtGKT~la~~la~~~~~   72 (331)
T 2r44_A           27 KVVVGQKYMINRLLIGICTGGHILLEGVPGLAKTLSVNTLAKTMDL   72 (331)
T ss_dssp             TTCCSCHHHHHHHHHHHHHTCCEEEESCCCHHHHHHHHHHHHHTTC
T ss_pred             cceeCcHHHHHHHHHHHHcCCeEEEECCCCCcHHHHHHHHHHHhCC
Confidence            5689999999988888776678999999999999999999987643

>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=8.4e-05  Score=74.44  Aligned_cols=154  Identities=19%  Similarity=0.282  Sum_probs=79.5

Q ss_pred             cccchhhHHHHHHHhhc--------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHH
Q 048064           91 ELVGVESRVEEIQSLLG--------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQK  162 (429)
Q Consensus        91 ~~vGR~~~~~~l~~~l~--------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~  162 (429)
                      .++|.+.....+.+.+.        ....++|+|++|+||||||+.++......|..   + ++..... ..........
T Consensus        82 di~G~~~vk~~i~~~~~l~~~~~~~~g~~vll~Gp~GtGKTtlar~ia~~l~~~~~~---i-~~~~~~~-~~~~~g~~~~  156 (543)
T 3m6a_A           82 EHHGLEKVKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAKSLGRKFVR---I-SLGGVRD-ESEIRGHRRT  156 (543)
T ss_dssp             HCSSCHHHHHHHHHHHHHHHHSSSCCSCEEEEESSSSSSHHHHHHHHHHHHTCEEEE---E-CCCC--------------
T ss_pred             HhccHHHHHHHHHHHHHHHHhcccCCCCEEEEECCCCCCHHHHHHHHHHhcCCCeEE---E-Eecccch-hhhhhhHHHH
Confidence            47888877777765443        46789999999999999999999887433221   1 1111000 0000000000


Q ss_pred             HHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCHHH------HHHHhccCCCCC---------------CCCEEEEE
Q 048064          163 LLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLNQ------IESLVGSLDRLL---------------PESRILIT  221 (429)
Q Consensus       163 l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~~------~~~l~~~l~~~~---------------~~~~iiiT  221 (429)
                      .   .   ......+...........-+++||+++....      ...++..+....               ....||.|
T Consensus       157 ~---i---g~~~~~~~~~~~~a~~~~~vl~lDEid~l~~~~~~~~~~~LL~~ld~~~~~~~~~~~~~~~~~~~~v~iI~t  230 (543)
T 3m6a_A          157 Y---V---GAMPGRIIQGMKKAGKLNPVFLLDEIDKMSSDFRGDPSSAMLEVLDPEQNSSFSDHYIEETFDLSKVLFIAT  230 (543)
T ss_dssp             -------------CHHHHHHTTCSSSEEEEEEESSSCC---------CCGGGTCTTTTTBCCCSSSCCCCBCSSCEEEEE
T ss_pred             H---h---ccCchHHHHHHHHhhccCCEEEEhhhhhhhhhhccCHHHHHHHHHhhhhcceeecccCCeeecccceEEEec
Confidence            0   0   0011112222222222344888999974421      234444442111               23456666


Q ss_pred             eCChhhhh-h-cCCCeEEEcCCCCHHHHHHHHHHhh
Q 048064          222 TRNKQVLR-N-CHINQIYEMKGLGDDHALELFIRHA  255 (429)
Q Consensus       222 tR~~~~~~-~-~~~~~~~~l~~L~~~ea~~L~~~~~  255 (429)
                      |....... . ......+.+++++.++-.+++..+.
T Consensus       231 tN~~~~l~~aL~~R~~vi~~~~~~~~e~~~Il~~~l  266 (543)
T 3m6a_A          231 ANNLATIPGPLRDRMEIINIAGYTEIEKLEIVKDHL  266 (543)
T ss_dssp             CSSTTTSCHHHHHHEEEEECCCCCHHHHHHHHHHTH
T ss_pred             cCccccCCHHHHhhcceeeeCCCCHHHHHHHHHHHH
Confidence            65432111 1 1122578999999999999988765

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=97.88  E-value=0.00013  Score=69.71  Aligned_cols=26  Identities=23%  Similarity=0.344  Sum_probs=23.3

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ...+.++|++|+|||++|+.+++.+.
T Consensus        72 ~~~ill~Gp~GtGKT~la~~la~~l~   97 (376)
T 1um8_A           72 KSNILLIGPTGSGKTLMAQTLAKHLD   97 (376)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHhC
Confidence            45799999999999999999998873

>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=97.74  E-value=0.00021  Score=74.85  Aligned_cols=44  Identities=16%  Similarity=0.262  Sum_probs=36.8

Q ss_pred             CcccchhhHHHHHHHhhc----C-------CCEEEEEcCCCcchHHHHHHHHHHh
Q 048064           90 NELVGVESRVEEIQSLLG----A-------APLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~----~-------~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ..++|.+..++.+...+.    +       ...+.++|++|+|||++|+.+++.+
T Consensus       458 ~~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l  512 (758)
T 1r6b_X          458 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL  512 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHh
Confidence            468899999988877665    1       1269999999999999999999987

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=97.52  E-value=0.00018  Score=66.61  Aligned_cols=55  Identities=16%  Similarity=0.199  Sum_probs=37.5

Q ss_pred             CCcccc----hhhHHHHHHHhhcC-----CCEEEEEcCCCcchHHHHHHHHHHhh-cCcceeEEE
Q 048064           89 KNELVG----VESRVEEIQSLLGA-----APLLGIWGIGGIGKTTIARVIFNRIS-RNFKGSCFL  143 (429)
Q Consensus        89 ~~~~vG----R~~~~~~l~~~l~~-----~~~v~I~G~~GiGKTtLa~~~~~~~~-~~f~~~~~~  143 (429)
                      ...|++    +...++.+.+++..     ...+.|+|++|+|||+||..+++.+. .....+.++
T Consensus       123 fd~f~~~~~~~~~~~~~~~~~i~~~~~~~~~~lll~G~~GtGKT~La~aia~~~~~~~g~~v~~~  187 (308)
T 2qgz_A          123 LSDIDVNNASRMEAFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHELSEKKGVSTTLL  187 (308)
T ss_dssp             GGGSCCCSHHHHHHHHHHHHHHHHCSCSSCCEEEEECSTTSSHHHHHHHHHHHHHHHSCCCEEEE
T ss_pred             HhhCcCCChHHHHHHHHHHHHHHhccccCCceEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEE
Confidence            355664    33344445555542     57899999999999999999999876 543334444

>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=97.52  E-value=0.00033  Score=72.67  Aligned_cols=169  Identities=17%  Similarity=0.226  Sum_probs=80.0

Q ss_pred             CCCCcccchhhHHHHHHHhhc---------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhh
Q 048064           87 DSKNELVGVESRVEEIQSLLG---------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQ  151 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~---------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~  151 (429)
                      .....+.|.+...++|.+.+.               ..+-+.++|++|+|||.+|++++......    ++.........
T Consensus       474 v~w~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~~~~----f~~v~~~~l~s  549 (806)
T 3cf2_A          474 VTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQAN----FISIKGPELLT  549 (806)
T ss_dssp             CCSTTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTTTCE----EEECCHHHHHT
T ss_pred             CCHHHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHhCCc----eEEeccchhhc
Confidence            334567788888888887654               34568999999999999999999986432    22221111100


Q ss_pred             h-cCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHh-cCCcEEEEecCCCCHH----------------HHHHHhccCCCCC
Q 048064          152 K-AGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRL-SCRKVLIVLDDVTCLN----------------QIESLVGSLDRLL  213 (429)
Q Consensus       152 ~-~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l-~~~~~LlVlDdv~~~~----------------~~~~l~~~l~~~~  213 (429)
                      . .......                 +..+.... ...+.+|+||++|...                ....|+..+....
T Consensus       550 ~~vGese~~-----------------vr~lF~~Ar~~~P~IifiDEiDsl~~~R~~~~~~~~~~~~rv~~~lL~~mdg~~  612 (806)
T 3cf2_A          550 MWFGESEAN-----------------VREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMS  612 (806)
T ss_dssp             TTCSSCHHH-----------------HHHHHHHHHTTCSEEEECSCGGGCC--------------CHHHHHHHHHHHSSC
T ss_pred             cccchHHHH-----------------HHHHHHHHHHcCCceeechhhhHHhhccCCCCCCCchHHHHHHHHHHHHHhCCC
Confidence            0 0011111                 22222222 4578999999996321                1334444443222


Q ss_pred             CCC-EEEE-EeCChh-----hhhhcCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCC
Q 048064          214 PES-RILI-TTRNKQ-----VLRNCHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGV  279 (429)
Q Consensus       214 ~~~-~iii-TtR~~~-----~~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~  279 (429)
                      ... .++| ||..+.     ++........+.++..+.++-.++|..+..... ...+.  -...+++.+.|+
T Consensus       613 ~~~~V~vi~aTN~p~~lD~AllRpgRfd~~i~v~lPd~~~R~~il~~~l~~~~-~~~~~--dl~~la~~t~g~  682 (806)
T 3cf2_A          613 TKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSP-VAKDV--DLEFLAKMTNGF  682 (806)
T ss_dssp             SSSSEEEECC-CCSSSSCHHHHSTTTSCCEEEC-----CHHHHTTTTTSSCC---CCC---------------
T ss_pred             CCCCEEEEEeCCCchhCCHhHcCCCcceEEEEECCcCHHHHHHHHHHHhcCCC-CCCCC--CHHHHHHhCCCC
Confidence            222 2333 444332     222113456777887777777788876653221 11111  134566666654

>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=97.51  E-value=0.00027  Score=74.89  Aligned_cols=46  Identities=17%  Similarity=0.346  Sum_probs=37.9

Q ss_pred             CcccchhhHHHHHHHhhc----C-------CCEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064           90 NELVGVESRVEEIQSLLG----A-------APLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~----~-------~~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      ..++|.+..++.+...+.    +       ...+.|+|++|+|||++|+.+++....
T Consensus       558 ~~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~~~  614 (854)
T 1qvr_A          558 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFD  614 (854)
T ss_dssp             HHSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHS
T ss_pred             cccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcC
Confidence            357999999998888775    1       147999999999999999999998744

>3h16_A TIR protein; bacteria TIR domain, signaling protein; 2.50A {Paracoccus denitrificans PD1222}

Probab=97.48  E-value=2.2e-05  Score=64.79  Aligned_cols=29  Identities=10%  Similarity=0.219  Sum_probs=26.0

Q ss_pred             CCcEEEeEeeecccccccccccchHHHHH
Q 048064            3 YAQIVIPVFYRVDPSHVRKQIGSFGVSFS   31 (429)
Q Consensus         3 ~~~~v~pvfy~v~p~~vr~~~~~~~~~~~   31 (429)
                      .++.|+||||+|+|++||+|.|.|++.|.
T Consensus       105 ~~~~iiPV~~~v~p~~v~~~~~~~~~~~~  133 (154)
T 3h16_A          105 GRSRILPIWHKVSKDEVASFSPTMADKLA  133 (154)
T ss_dssp             SCCCEEEEEESCCTGGGTTTCCCCCSSCC
T ss_pred             CCCEEEEEEecCCHHHHhhCCccHHHHHh
Confidence            45789999999999999999999998655

>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=97.43  E-value=0.0035  Score=58.76  Aligned_cols=156  Identities=10%  Similarity=-0.029  Sum_probs=100.8

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhh-cCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRIS-RNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSC  186 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~-~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~  186 (429)
                      -.++..++|+.|.||++.+..+.+.+. ..|.....+. ...    ..++..+...+...                -+-+
T Consensus        17 ~~~~yl~~G~e~~~~~~~~~~l~~~~~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~----------------plf~   75 (343)
T 1jr3_D           17 LRAAYLLLGNDPLLLQESQDAVRQVAAAQGFEEHHTFS-IDP----NTDWNAIFSLCQAM----------------SLFA   75 (343)
T ss_dssp             CCSEEEEEESCHHHHHHHHHHHHHHHHHHTCCEEEEEE-CCT----TCCHHHHHHHHHHH----------------HHCC
T ss_pred             CCcEEEEECCcHHHHHHHHHHHHHHHHhCCCCeeEEEE-ecC----CCCHHHHHHHhcCc----------------CCcc
Confidence            467899999999999999999998764 2343211111 111    23444443332111                1234


Q ss_pred             CcEEEEecCCCC-H--HHHHHHhccCCCCCCCCEEEEEeCC-------hhhhhh-cCCCeEEEcCCCCHHHHHHHHHHhh
Q 048064          187 RKVLIVLDDVTC-L--NQIESLVGSLDRLLPESRILITTRN-------KQVLRN-CHINQIYEMKGLGDDHALELFIRHA  255 (429)
Q Consensus       187 ~~~LlVlDdv~~-~--~~~~~l~~~l~~~~~~~~iiiTtR~-------~~~~~~-~~~~~~~~l~~L~~~ea~~L~~~~~  255 (429)
                      .+-++|+|+++. .  ...+.+...+....+++.+|+++..       ..+... ......++..+++.++...++...+
T Consensus        76 ~~kvvii~~~~~kl~~~~~~aLl~~le~p~~~~~~il~~~~~~~~~~~~k~~~~i~sr~~~~~~~~l~~~~l~~~l~~~~  155 (343)
T 1jr3_D           76 SRQTLLLLLPENGPNAAINEQLLTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQVTCQTPEQAQLPRWVAARA  155 (343)
T ss_dssp             SCEEEEEECCSSCCCTTHHHHHHHHHTTCBTTEEEEEEESCCCTTTTTSHHHHHHTTTCEEEEECCCCTTHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCChHHHHHHHHHHhcCCCCeEEEEEcCCCChhhHhhHHHHHHHhCceEEEeeCCCHHHHHHHHHHHH
Confidence            566889999875 3  4667777777766667777766543       233333 2345789999999999999888876


Q ss_pred             hcCCCCChhHHHHHHHHHHHhCCChHHHHHH
Q 048064          256 FRQNLVDVDYKELSDKVINYAQGVPLALKIL  286 (429)
Q Consensus       256 ~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~  286 (429)
                      -.....  -..+.+..+++.++|.+..+...
T Consensus       156 ~~~g~~--i~~~a~~~l~~~~~gdl~~~~~e  184 (343)
T 1jr3_D          156 KQLNLE--LDDAANQVLCYCYEGNLLALAQA  184 (343)
T ss_dssp             HHTTCE--ECHHHHHHHHHSSTTCHHHHHHH
T ss_pred             HHcCCC--CCHHHHHHHHHHhchHHHHHHHH
Confidence            443311  12466888999999999887654

>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=97.42  E-value=0.0026  Score=53.55  Aligned_cols=24  Identities=38%  Similarity=0.560  Sum_probs=21.4

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHhh
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      .++|+|+.|+|||||++.++..+.
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            589999999999999999988653

>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=97.28  E-value=0.00051  Score=58.39  Aligned_cols=115  Identities=20%  Similarity=0.150  Sum_probs=60.5

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHH---hcCCC-CC----------
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEV---LKDVN-VI----------  174 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~---~~~~~-~~----------  174 (429)
                      ...|.|++..|.||||+|...+-+...+--.+.++...... . ..+-..+...+.-.+   +.... ..          
T Consensus        28 ~g~i~v~tG~GkGKTTaA~GlalRA~g~G~rV~~vQF~Kg~-~-~~gE~~~l~~L~v~~~~~g~gf~~~~~~~~~~~~~a  105 (196)
T 1g5t_A           28 RGIIIVFTGNGKGKTTAAFGTAARAVGHGKNVGVVQFIKGT-W-PNGERNLLEPHGVEFQVMATGFTWETQNREADTAAC  105 (196)
T ss_dssp             CCCEEEEESSSSCHHHHHHHHHHHHHHTTCCEEEEESSCCS-S-CCHHHHHHGGGTCEEEECCTTCCCCGGGHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEeeCCC-C-CccHHHHHHhCCcEEEEcccccccCCCCcHHHHHHH
Confidence            45677788888999999999999877664445554322210 0 112222222220000   00000 00          


Q ss_pred             -CCHHHHHHHhcCCc-EEEEecCCCC-----HHHHHHHhccCCCCCCCCEEEEEeCCh
Q 048064          175 -PHIDLNFRRLSCRK-VLIVLDDVTC-----LNQIESLVGSLDRLLPESRILITTRNK  225 (429)
Q Consensus       175 -~~~~~l~~~l~~~~-~LlVlDdv~~-----~~~~~~l~~~l~~~~~~~~iiiTtR~~  225 (429)
                       ..+....+.+.+.+ =|||||++-.     .-..+.++..+........||+|+|..
T Consensus       106 ~~~l~~a~~~l~~~~yDlvILDEi~~al~~g~l~~~ev~~~l~~Rp~~~~vIlTGr~a  163 (196)
T 1g5t_A          106 MAVWQHGKRMLADPLLDMVVLDELTYMVAYDYLPLEEVISALNARPGHQTVIITGRGC  163 (196)
T ss_dssp             HHHHHHHHHHTTCTTCSEEEEETHHHHHHTTSSCHHHHHHHHHTSCTTCEEEEECSSC
T ss_pred             HHHHHHHHHHHhcCCCCEEEEeCCCccccCCCCCHHHHHHHHHhCcCCCEEEEECCCC
Confidence             01111444454444 4999999832     122334444444445677899999986

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=97.22  E-value=0.00013  Score=61.98  Aligned_cols=109  Identities=14%  Similarity=0.011  Sum_probs=53.6

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCc
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRK  188 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~  188 (429)
                      ..++.|+|+.|+||||++..++.+....-....++......   ..+...+...+.  .............+...+.+..
T Consensus         3 g~i~vi~G~~gsGKTT~ll~~~~~~~~~g~~v~~~~~~~d~---r~~~~~i~s~~g--~~~~~~~~~~~~~~~~~~~~~~   77 (184)
T 2orw_A            3 GKLTVITGPMYSGKTTELLSFVEIYKLGKKKVAVFKPKIDS---RYHSTMIVSHSG--NGVEAHVIERPEEMRKYIEEDT   77 (184)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHHHHTTCEEEEEEEC--------CCCEECC------CEECEEESSGGGGGGGCCTTE
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeecccc---ccCcccEEecCC--CceeeEEECCHHHHHHHhcCCC
Confidence            45789999999999999988888764432233333211100   000000000000  0000011122333444444455


Q ss_pred             EEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEeCCh
Q 048064          189 VLIVLDDVTCL--NQIESLVGSLDRLLPESRILITTRNK  225 (429)
Q Consensus       189 ~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTtR~~  225 (429)
                      -+|++|++...  +..+.+.....   .+..|++|.++.
T Consensus        78 dvviIDE~Q~~~~~~~~~l~~l~~---~~~~Vi~~Gl~~  113 (184)
T 2orw_A           78 RGVFIDEVQFFNPSLFEVVKDLLD---RGIDVFCAGLDL  113 (184)
T ss_dssp             EEEEECCGGGSCTTHHHHHHHHHH---TTCEEEEEEESB
T ss_pred             CEEEEECcccCCHHHHHHHHHHHH---CCCCEEEEeecc
Confidence            69999999643  33333322222   277888887743

>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=97.05  E-value=0.00071  Score=62.16  Aligned_cols=25  Identities=24%  Similarity=0.337  Sum_probs=22.4

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ..+++.|+|++|+|||+||.+++..
T Consensus       122 ~gsviLI~GpPGsGKTtLAlqlA~~  146 (331)
T 2vhj_A          122 ASGMVIVTGKGNSGKTPLVHALGEA  146 (331)
T ss_dssp             ESEEEEEECSCSSSHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHh
Confidence            4567899999999999999999987

>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=96.98  E-value=0.00037  Score=65.69  Aligned_cols=112  Identities=13%  Similarity=0.064  Sum_probs=63.5

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcce-eEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKG-SCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSC  186 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~  186 (429)
                      ....++|+|+.|+|||||.+.++..+...... .+.+.+..+...  ....    ....+.........-.+.+...|..
T Consensus       122 ~~g~i~I~GptGSGKTTlL~~l~g~~~~~~~~~i~t~ed~~e~~~--~~~~----~~v~q~~~~~~~~~~~~~La~aL~~  195 (356)
T 3jvv_A          122 PRGLVLVTGPTGSGKSTTLAAMLDYLNNTKYHHILTIEDPIEFVH--ESKK----CLVNQREVHRDTLGFSEALRSALRE  195 (356)
T ss_dssp             SSEEEEEECSTTSCHHHHHHHHHHHHHHHCCCEEEEEESSCCSCC--CCSS----SEEEEEEBTTTBSCHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcccCCCCcEEEEccCcHHhhh--hccc----cceeeeeeccccCCHHHHHHHHhhh
Confidence            55699999999999999999998876543222 222221111000  0000    0000000001111122347888889


Q ss_pred             CcEEEEecCCCCHHHHHHHhccCCCCCCCCEEEEEeCChhhh
Q 048064          187 RKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQVL  228 (429)
Q Consensus       187 ~~~LlVlDdv~~~~~~~~l~~~l~~~~~~~~iiiTtR~~~~~  228 (429)
                      .+-+|++|+..+.+.++.+....   ..|..||+|+-+....
T Consensus       196 ~PdvillDEp~d~e~~~~~~~~~---~~G~~vl~t~H~~~~~  234 (356)
T 3jvv_A          196 DPDIILVGEMRDLETIRLALTAA---ETGHLVFGTLHTTSAA  234 (356)
T ss_dssp             CCSEEEESCCCSHHHHHHHHHHH---HTTCEEEEEESCSSHH
T ss_pred             CcCEEecCCCCCHHHHHHHHHHH---hcCCEEEEEEccChHH
Confidence            99999999998877666554432   2355688888766443

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=96.87  E-value=0.00078  Score=63.85  Aligned_cols=44  Identities=18%  Similarity=0.225  Sum_probs=35.7

Q ss_pred             cccchhhHHHHHHHhhc-----------------CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064           91 ELVGVESRVEEIQSLLG-----------------AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus        91 ~~vGR~~~~~~l~~~l~-----------------~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      .++|.+..++.+...+.                 ..+.+.++|++|+|||++|+.+++...
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            36788888877777661                 346799999999999999999998873

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=96.86  E-value=0.00064  Score=57.11  Aligned_cols=26  Identities=19%  Similarity=0.302  Sum_probs=23.3

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ..+|.|+|++|+||||+|+.+++++.
T Consensus         3 ~~~i~l~G~~GsGKST~a~~La~~l~   28 (178)
T 1qhx_A            3 TRMIILNGGSSAGKSGIVRCLQSVLP   28 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHSS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhcC
Confidence            46799999999999999999998764

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.85  E-value=0.0014  Score=56.45  Aligned_cols=41  Identities=24%  Similarity=0.367  Sum_probs=30.6

Q ss_pred             hhhHHHHHHHhhc-----CCCEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064           95 VESRVEEIQSLLG-----AAPLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus        95 R~~~~~~l~~~l~-----~~~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      |++.++.|.+.+.     ...+++|.|++|+||||+++.+...+..
T Consensus         3 ~~~~~~~l~~~~~~~~~~~~~~i~i~G~~GsGKstl~~~l~~~~~~   48 (201)
T 1rz3_A            3 LRDRIDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQTLRE   48 (201)
T ss_dssp             HHHHHHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccCCCeEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            4445555555443     4568999999999999999999887643

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=96.85  E-value=0.00053  Score=67.55  Aligned_cols=45  Identities=18%  Similarity=0.071  Sum_probs=39.8

Q ss_pred             CcccchhhHHHHHHHhhcCCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064           90 NELVGVESRVEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ..++|++..++.+...+.....+.|+|++|+|||+||+.+++.+.
T Consensus        22 ~~ivGq~~~i~~l~~al~~~~~VLL~GpPGtGKT~LAraLa~~l~   66 (500)
T 3nbx_X           22 KGLYERSHAIRLCLLAALSGESVFLLGPPGIAKSLIARRLKFAFQ   66 (500)
T ss_dssp             TTCSSCHHHHHHHHHHHHHTCEEEEECCSSSSHHHHHHHGGGGBS
T ss_pred             hhhHHHHHHHHHHHHHHhcCCeeEeecCchHHHHHHHHHHHHHHh
Confidence            468999999998888877778899999999999999999998764

>2b8t_A Thymidine kinase; deoxyribonucleoside kinase, zinc-binding domain, TK1, UU-TK, transferase; HET: THM; 2.00A {Ureaplasma parvum} SCOP: c.37.1.24 g.39.1.14 PDB: 2uz3_A*

Probab=96.81  E-value=0.0018  Score=56.55  Aligned_cols=107  Identities=13%  Similarity=-0.003  Sum_probs=58.0

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcC--CCCCCCHHHHHHHhc
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKD--VNVIPHIDLNFRRLS  185 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~~l~~~l~  185 (429)
                      ...++.|+|+.|+||||++..++++...+...++++...-.... .       ..+...++..  .........+...+.
T Consensus        11 ~G~i~litG~mGsGKTT~ll~~~~r~~~~g~kVli~~~~~d~r~-~-------~~i~srlG~~~~~~~~~~~~~i~~~i~   82 (223)
T 2b8t_A           11 IGWIEFITGPMFAGKTAELIRRLHRLEYADVKYLVFKPKIDTRS-I-------RNIQSRTGTSLPSVEVESAPEILNYIM   82 (223)
T ss_dssp             CCEEEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEEECCCGGG-C-------SSCCCCCCCSSCCEEESSTHHHHHHHH
T ss_pred             CcEEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEEeccCchH-H-------HHHHHhcCCCccccccCCHHHHHHHHH
Confidence            45688999999999999999999988665444444421111000 0       0111111111  001122233444443


Q ss_pred             C-----CcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEeCCh
Q 048064          186 C-----RKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITTRNK  225 (429)
Q Consensus       186 ~-----~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTtR~~  225 (429)
                      .     +.-+||+|++...  ++++.+.. +..  .+..||+|.+..
T Consensus        83 ~~~~~~~~dvViIDEaQ~l~~~~ve~l~~-L~~--~gi~Vil~Gl~~  126 (223)
T 2b8t_A           83 SNSFNDETKVIGIDEVQFFDDRICEVANI-LAE--NGFVVIISGLDK  126 (223)
T ss_dssp             STTSCTTCCEEEECSGGGSCTHHHHHHHH-HHH--TTCEEEEECCSB
T ss_pred             HHhhCCCCCEEEEecCccCcHHHHHHHHH-HHh--CCCeEEEEeccc
Confidence            2     3459999999632  34433322 221  277899999854

>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=96.74  E-value=0.0034  Score=56.11  Aligned_cols=34  Identities=21%  Similarity=0.251  Sum_probs=26.3

Q ss_pred             HHHHHhhcC----CCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          100 EEIQSLLGA----APLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       100 ~~l~~~l~~----~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ..+..++.+    ...+.++|++|+|||.+|..+++.+
T Consensus        91 ~~l~~~l~~~~~~~n~~~l~GppgtGKt~~a~ala~~~  128 (267)
T 1u0j_A           91 SVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             HHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             HHHHHHHhCCCCCCcEEEEECCCCCCHHHHHHHHHhhh
Confidence            345555552    3479999999999999999999864

>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=96.74  E-value=0.0084  Score=58.60  Aligned_cols=52  Identities=15%  Similarity=0.198  Sum_probs=33.4

Q ss_pred             CCCCcccchh----hHHHHHHHhhc-CCCEEEEEcCCCcchHHHHHHHHHHhhcCcc
Q 048064           87 DSKNELVGVE----SRVEEIQSLLG-AAPLLGIWGIGGIGKTTIARVIFNRISRNFK  138 (429)
Q Consensus        87 ~~~~~~vGR~----~~~~~l~~~l~-~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~  138 (429)
                      ..+..|-+..    ..+..+...+. +.+.+.|.|++|+||||++..++..+.....
T Consensus        18 ~~p~~~~~Ln~~Q~~av~~~~~~i~~~~~~~li~G~aGTGKT~ll~~~~~~l~~~~~   74 (459)
T 3upu_A           18 GSHMTFDDLTEGQKNAFNIVMKAIKEKKHHVTINGPAGTGATTLTKFIIEALISTGE   74 (459)
T ss_dssp             ---CCSSCCCHHHHHHHHHHHHHHHSSSCEEEEECCTTSCHHHHHHHHHHHHHHTTC
T ss_pred             cCCCccccCCHHHHHHHHHHHHHHhcCCCEEEEEeCCCCCHHHHHHHHHHHHHhcCC
Confidence            3344444433    33444444444 3459999999999999999999988765543

>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=96.66  E-value=0.086  Score=49.73  Aligned_cols=46  Identities=30%  Similarity=0.429  Sum_probs=36.5

Q ss_pred             CCcccchhhHHHHHHHhhc----CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064           89 KNELVGVESRVEEIQSLLG----AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~----~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ...++|....+.++...+.    ....+.|.|++|+||+++|+.+.....
T Consensus       128 ~~~~ig~s~~~~~~~~~~~~~a~~~~~vli~GesGtGKe~lAr~ih~~s~  177 (368)
T 3dzd_A          128 EIEFVGEHPKILEIKRLIPKIAKSKAPVLITGESGTGKEIVARLIHRYSG  177 (368)
T ss_dssp             CCCCCCCSHHHHHHHHHHHHHHTSCSCEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             cccccccchHHHHHHhhhhhhhccchhheEEeCCCchHHHHHHHHHHhcc
Confidence            3568898888888777664    455688999999999999998876543

>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=96.65  E-value=0.0067  Score=55.74  Aligned_cols=28  Identities=21%  Similarity=0.302  Sum_probs=24.7

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ..+++|+|++|+||||++..++..+...
T Consensus       104 ~~vi~ivG~~GsGKTTl~~~LA~~l~~~  131 (306)
T 1vma_A          104 PFVIMVVGVNGTGKTTSCGKLAKMFVDE  131 (306)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CeEEEEEcCCCChHHHHHHHHHHHHHhc
Confidence            4689999999999999999999887654

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=96.65  E-value=0.0014  Score=55.92  Aligned_cols=39  Identities=18%  Similarity=0.214  Sum_probs=29.9

Q ss_pred             hHHHHHHHhhcC---CCEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064           97 SRVEEIQSLLGA---APLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus        97 ~~~~~l~~~l~~---~~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      .-+..+..++.+   ...+.|+|++|+||||+|..+++.+..
T Consensus        43 ~f~~~l~~~~~~iPkkn~ili~GPPGtGKTt~a~ala~~l~g   84 (212)
T 1tue_A           43 TFLGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFIQG   84 (212)
T ss_dssp             HHHHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            335556666653   347999999999999999999998743

>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=96.64  E-value=0.0012  Score=54.98  Aligned_cols=25  Identities=20%  Similarity=0.151  Sum_probs=22.5

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      .+|+|.|++|+||||+++.++.++.
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            4789999999999999999998764

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.61  E-value=0.0014  Score=56.19  Aligned_cols=26  Identities=27%  Similarity=0.363  Sum_probs=23.9

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ....|+|+|++|+||||+++.++..+
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            56789999999999999999999876

>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=96.60  E-value=0.003  Score=61.14  Aligned_cols=39  Identities=21%  Similarity=0.518  Sum_probs=29.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeec
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENI  146 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~  146 (429)
                      ..+.++|+|++|+|||||+..++.....++...+.+..+
T Consensus       150 kGq~~~i~G~sGvGKTtL~~~l~~~~~~~~~~i~V~~~i  188 (473)
T 1sky_E          150 KGGKIGLFGGAGVGKTVLIQELIHNIAQEHGGISVFAGV  188 (473)
T ss_dssp             TTCEEEEECCSSSCHHHHHHHHHHHHHHHTCCCEEEEEE
T ss_pred             cCCEEEEECCCCCCccHHHHHHHhhhhhccCcEEEEeee
Confidence            566799999999999999999998766544433333333

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.58  E-value=0.0014  Score=55.39  Aligned_cols=25  Identities=20%  Similarity=0.290  Sum_probs=22.8

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      .+.|.|+|++|+||||+|+.++.++
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            4679999999999999999999876

>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=96.55  E-value=0.0012  Score=62.10  Aligned_cols=30  Identities=23%  Similarity=0.072  Sum_probs=26.3

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCc
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNF  137 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f  137 (429)
                      ..+.++|+|++|+|||||++.+++.+..++
T Consensus       173 rGQr~~IvG~sG~GKTtLl~~Iar~i~~~~  202 (422)
T 3ice_A          173 RGQRGLIVAPPKAGKTMLLQNIAQSIAYNH  202 (422)
T ss_dssp             TTCEEEEECCSSSSHHHHHHHHHHHHHHHC
T ss_pred             CCcEEEEecCCCCChhHHHHHHHHHHhhcC
Confidence            788999999999999999999998775543

>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=96.54  E-value=0.0011  Score=62.16  Aligned_cols=48  Identities=19%  Similarity=0.146  Sum_probs=36.3

Q ss_pred             CCCCcccchhhHHHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064           87 DSKNELVGVESRVEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      .....++|.+..++.+...+.  ....+.|+|++|+|||++|+.+++...
T Consensus        21 ~~f~~i~G~~~~~~~l~~~~~~~~~~~vLl~G~~GtGKT~la~~la~~~~   70 (350)
T 1g8p_A           21 FPFSAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAALLP   70 (350)
T ss_dssp             CCGGGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHHHSC
T ss_pred             CCchhccChHHHHHHHHHHhhCCCCceEEEECCCCccHHHHHHHHHHhCc
Confidence            344679999886665544332  344599999999999999999998764

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=96.53  E-value=0.001  Score=56.32  Aligned_cols=28  Identities=29%  Similarity=0.489  Sum_probs=23.7

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhhcCc
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRISRNF  137 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f  137 (429)
                      |.|.|+||+|+|||||++.+..+....|
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            5689999999999999999988764444

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=96.50  E-value=0.004  Score=53.71  Aligned_cols=23  Identities=30%  Similarity=0.349  Sum_probs=20.9

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHh
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      +|.|.|+||+||||.|+.+++++
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~   24 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEK   24 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            57899999999999999999875

>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=96.50  E-value=0.0077  Score=58.03  Aligned_cols=28  Identities=29%  Similarity=0.386  Sum_probs=25.1

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      +.+|.++|++|+||||++..++..+...
T Consensus       100 p~vIlivG~~G~GKTTt~~kLA~~l~~~  127 (443)
T 3dm5_A          100 PTILLMVGIQGSGKTTTVAKLARYFQKR  127 (443)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHHHTT
T ss_pred             CeEEEEECcCCCCHHHHHHHHHHHHHHC
Confidence            6789999999999999999999887655

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=96.48  E-value=0.0026  Score=54.95  Aligned_cols=27  Identities=26%  Similarity=0.437  Sum_probs=24.0

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ...+++|.|++|+|||||++.++..+.
T Consensus        21 ~g~~v~I~G~sGsGKSTl~~~l~~~~~   47 (208)
T 3c8u_A           21 GRQLVALSGAPGSGKSTLSNPLAAALS   47 (208)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            456899999999999999999988765

>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=96.47  E-value=0.0035  Score=58.77  Aligned_cols=37  Identities=22%  Similarity=0.302  Sum_probs=29.5

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEe
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLE  144 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  144 (429)
                      ...++.|+|++|+|||||+.+++......-..++|+.
T Consensus        60 ~G~i~~I~GppGsGKSTLal~la~~~~~~gg~VlyId   96 (356)
T 3hr8_A           60 RGRIVEIFGQESSGKTTLALHAIAEAQKMGGVAAFID   96 (356)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEe
Confidence            5679999999999999999999988765434455554

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.46  E-value=0.0015  Score=54.85  Aligned_cols=22  Identities=32%  Similarity=0.392  Sum_probs=20.5

Q ss_pred             CEEEEEcCCCcchHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      .+|.|.|++|+||||+|+.++.
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

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=96.45  E-value=0.0041  Score=53.30  Aligned_cols=23  Identities=26%  Similarity=0.225  Sum_probs=19.2

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      -++.|+|.+|+|||++|......
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            36789999999999999876544

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=96.42  E-value=0.0019  Score=54.40  Aligned_cols=26  Identities=19%  Similarity=0.415  Sum_probs=23.0

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      .++++|+|++|+|||||++.+.....
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            46899999999999999999988653

>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=96.42  E-value=0.0017  Score=54.01  Aligned_cols=22  Identities=27%  Similarity=0.539  Sum_probs=19.7

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      .+|+|.|++|+||||+|+.+ ..
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

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.42  E-value=0.0031  Score=53.36  Aligned_cols=29  Identities=28%  Similarity=0.405  Sum_probs=24.9

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ...+|.|.|++|+||||+++.++..+...
T Consensus        12 ~~~~i~l~G~~GsGKsT~~~~L~~~l~~~   40 (186)
T 2yvu_A           12 KGIVVWLTGLPGSGKTTIATRLADLLQKE   40 (186)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHhc
Confidence            45689999999999999999999987543

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=96.40  E-value=0.0018  Score=54.07  Aligned_cols=26  Identities=27%  Similarity=0.356  Sum_probs=22.8

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ..+|+|+|++|+||||+++.++..+.
T Consensus         4 ~~~i~l~G~~GsGKSTl~~~La~~l~   29 (173)
T 1kag_A            4 KRNIFLVGPMGAGKSTIGRQLAQQLN   29 (173)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHHTT
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhC
Confidence            35799999999999999999998753

>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=96.39  E-value=0.0032  Score=54.03  Aligned_cols=27  Identities=22%  Similarity=0.351  Sum_probs=24.8

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ...+|+|.|++|+||||+++.++..+.
T Consensus        24 ~g~~i~l~G~sGsGKSTl~~~La~~l~   50 (200)
T 3uie_A           24 KGCVIWVTGLSGSGKSTLACALNQMLY   50 (200)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            677999999999999999999999875

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=96.38  E-value=0.002  Score=54.15  Aligned_cols=26  Identities=27%  Similarity=0.452  Sum_probs=23.0

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ..+.|.|+|++|+||||+++.+++.+
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            35679999999999999999999876

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.38  E-value=0.0028  Score=53.71  Aligned_cols=26  Identities=23%  Similarity=0.346  Sum_probs=23.3

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      ..|.|.|++|+||||+++.+++++..
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~~l~~   27 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKEILDN   27 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            36899999999999999999998764

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=96.38  E-value=0.0019  Score=55.45  Aligned_cols=25  Identities=20%  Similarity=0.413  Sum_probs=22.9

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ..+|+|.|++|+||||+|+.++..+
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            4689999999999999999999876

>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=96.37  E-value=0.0023  Score=54.27  Aligned_cols=27  Identities=19%  Similarity=0.491  Sum_probs=23.8

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      ...|+|.|++|+||||+++.++.++..
T Consensus         3 ~~~I~i~G~~GsGKsT~~~~L~~~l~~   29 (192)
T 1kht_A            3 NKVVVVTGVPGVGSTTSSQLAMDNLRK   29 (192)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            357999999999999999999998753

>2ck3_D ATP synthase subunit beta\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1cow_D* 1bmf_D* 1e1q_D* 1e1r_D* 1efr_D* 1e79_D* 1h8h_D* 1ohh_D* 1qo1_D 1w0j_D* 1w0k_D* 1h8e_D* 2jdi_D* 2jiz_D* 2jj1_D* 2jj2_D* 2v7q_D* 2wss_D* 2w6j_D 2w6e_D ...

Probab=96.34  E-value=0.0095  Score=57.54  Aligned_cols=55  Identities=18%  Similarity=0.382  Sum_probs=36.4

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLS  165 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~  165 (429)
                      ..+.++|.|.+|+|||+|+..+++.+.......+.+..+.+..   .....+.+.+..
T Consensus       152 kGQr~~Ifgg~G~GKT~L~~~i~~~~~~~~~~v~V~~~iGER~---rEv~e~~~~~~~  206 (482)
T 2ck3_D          152 KGGKIGLFGGAGVGKTVLIMELINNVAKAHGGYSVFAGVGERT---REGNDLYHEMIE  206 (482)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHHHTTTTCSSEEEEEEESCCH---HHHHHHHHHHHH
T ss_pred             cCCeeeeecCCCCChHHHHHHHHHhhHhhCCCEEEEEECCCcc---hHHHHHHHHhhh
Confidence            7889999999999999999999998654433333333444322   234445555544

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=96.34  E-value=0.0031  Score=53.67  Aligned_cols=27  Identities=22%  Similarity=0.245  Sum_probs=24.1

Q ss_pred             cCCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          107 GAAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       107 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      .....|+|.|++|+||||+|+.+++.+
T Consensus         7 ~~~~~I~l~G~~GsGKsT~~~~La~~l   33 (196)
T 2c95_A            7 KKTNIIFVVGGPGSGKGTQCEKIVQKY   33 (196)
T ss_dssp             TTSCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            356789999999999999999999876

>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=0.0036  Score=60.41  Aligned_cols=46  Identities=22%  Similarity=0.309  Sum_probs=35.6

Q ss_pred             CcccchhhHHHHHHHhhc----------------CCCEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064           90 NELVGVESRVEEIQSLLG----------------AAPLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~----------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      ..++|.+...+.|...+.                ..+.+.++|++|+||||+|+.++..+..
T Consensus        15 ~~IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~~l~~   76 (444)
T 1g41_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANA   76 (444)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTTC
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHHHcCC
Confidence            457777777777765541                2467999999999999999999998743

>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=96.33  E-value=0.0021  Score=54.54  Aligned_cols=25  Identities=24%  Similarity=0.379  Sum_probs=22.7

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ...|.|.|++|+||||+++.++..+
T Consensus         5 ~~~I~l~G~~GsGKST~~~~L~~~l   29 (193)
T 2rhm_A            5 PALIIVTGHPATGKTTLSQALATGL   29 (193)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHc
Confidence            4579999999999999999999876

>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=96.30  E-value=0.011  Score=56.95  Aligned_cols=28  Identities=25%  Similarity=0.293  Sum_probs=24.8

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ++++.++|++|+||||++..++..+...
T Consensus        97 ~~vI~lvG~~GsGKTTt~~kLA~~l~~~  124 (433)
T 3kl4_A           97 PFIIMLVGVQGSGKTTTAGKLAYFYKKR  124 (433)
T ss_dssp             SEEEEECCCTTSCHHHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            5689999999999999999999877654

>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=96.29  E-value=0.022  Score=57.22  Aligned_cols=40  Identities=18%  Similarity=0.123  Sum_probs=29.7

Q ss_pred             HHHhhcCCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeE
Q 048064          102 IQSLLGAAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSC  141 (429)
Q Consensus       102 l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~  141 (429)
                      ....+...+++.|.|++|+||||++..+...+......+.
T Consensus       197 Av~~~~~~~~~~I~G~pGTGKTt~i~~l~~~l~~~g~~Vl  236 (574)
T 3e1s_A          197 VLDQLAGHRLVVLTGGPGTGKSTTTKAVADLAESLGLEVG  236 (574)
T ss_dssp             HHHHHTTCSEEEEECCTTSCHHHHHHHHHHHHHHTTCCEE
T ss_pred             HHHHHHhCCEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEE
Confidence            3333336789999999999999999999987665433333

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=96.27  E-value=0.0028  Score=52.57  Aligned_cols=26  Identities=23%  Similarity=0.287  Sum_probs=22.9

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      .+.|+|.|++|+||||+++.++.++.
T Consensus         7 ~~~i~l~G~~GsGKSTva~~La~~lg   32 (168)
T 1zuh_A            7 MQHLVLIGFMGSGKSSLAQELGLALK   32 (168)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             cceEEEECCCCCCHHHHHHHHHHHhC
Confidence            46899999999999999999998764

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.27  E-value=0.0029  Score=54.28  Aligned_cols=26  Identities=31%  Similarity=0.449  Sum_probs=23.6

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ...+++|.|++|+|||||++.++..+
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            46789999999999999999998876

>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=96.26  E-value=0.0021  Score=54.60  Aligned_cols=25  Identities=36%  Similarity=0.433  Sum_probs=22.4

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ...+++|.|++|+|||||++.++..
T Consensus         8 ~g~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A            8 GGNILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhc
Confidence            4568999999999999999999875

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.23  E-value=0.0025  Score=54.85  Aligned_cols=27  Identities=26%  Similarity=0.529  Sum_probs=24.0

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ..++++|+|++|+||||+++.+.....
T Consensus        11 ~~~~i~l~G~sGsGKsTl~~~L~~~~~   37 (204)
T 2qor_A           11 RIPPLVVCGPSGVGKGTLIKKVLSEFP   37 (204)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHHHCT
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHhCc
Confidence            567899999999999999999988763

>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=96.23  E-value=0.0028  Score=54.81  Aligned_cols=27  Identities=26%  Similarity=0.459  Sum_probs=24.0

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ...+++|+|++|+|||||++.++....
T Consensus         7 ~g~~i~l~GpsGsGKsTl~~~L~~~~~   33 (208)
T 3tau_A            7 RGLLIVLSGPSGVGKGTVREAVFKDPE   33 (208)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHSTT
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHhhCC
Confidence            467899999999999999999988754

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=96.22  E-value=0.0024  Score=53.49  Aligned_cols=25  Identities=28%  Similarity=0.429  Sum_probs=22.2

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      +.|+|.|++|+||||+|+.++.++.
T Consensus         5 ~~i~i~G~~GsGKsTla~~La~~l~   29 (175)
T 1via_A            5 KNIVFIGFMGSGKSTLARALAKDLD   29 (175)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            3689999999999999999998763

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=96.20  E-value=0.0041  Score=63.09  Aligned_cols=48  Identities=19%  Similarity=0.324  Sum_probs=41.7

Q ss_pred             CCcccchhhHHHHHHHhhcCCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064           89 KNELVGVESRVEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ...++|.+..++.+...+.....++|+|++|+||||||+.++..+...
T Consensus        40 l~~i~G~~~~l~~l~~~i~~g~~vll~Gp~GtGKTtlar~ia~~l~~~   87 (604)
T 3k1j_A           40 IDQVIGQEHAVEVIKTAANQKRHVLLIGEPGTGKSMLGQAMAELLPTE   87 (604)
T ss_dssp             HHHCCSCHHHHHHHHHHHHTTCCEEEECCTTSSHHHHHHHHHHTSCCS
T ss_pred             cceEECchhhHhhccccccCCCEEEEEeCCCCCHHHHHHHHhccCCcc
Confidence            357899999999888888877899999999999999999999876433

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=96.19  E-value=0.0023  Score=53.87  Aligned_cols=26  Identities=35%  Similarity=0.579  Sum_probs=18.9

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ..+|.|.|++|+||||+|+.+++.+.
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            45799999999999999999988753

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.19  E-value=0.0028  Score=53.84  Aligned_cols=25  Identities=24%  Similarity=0.259  Sum_probs=22.3

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      +..|+|.|++|+||||+|+.++..+
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            4579999999999999999998875

>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=96.19  E-value=0.0028  Score=53.51  Aligned_cols=25  Identities=32%  Similarity=0.517  Sum_probs=22.3

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ++|+|.|++|+||||+|+.++.++.
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            4699999999999999999998763

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=96.18  E-value=0.0026  Score=56.87  Aligned_cols=25  Identities=32%  Similarity=0.248  Sum_probs=22.2

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      .+++|.|++|+||||||+.++.+..
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            4689999999999999999998763

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=96.16  E-value=0.0032  Score=53.73  Aligned_cols=27  Identities=22%  Similarity=0.274  Sum_probs=23.8

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ...+|+|.|++|+||||+|+.+++++.
T Consensus        11 ~~~~I~l~G~~GsGKsT~a~~L~~~l~   37 (199)
T 2bwj_A           11 KCKIIFIIGGPGSGKGTQCEKLVEKYG   37 (199)
T ss_dssp             HSCEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHhC
Confidence            357899999999999999999998763

>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=96.15  E-value=0.0035  Score=52.98  Aligned_cols=24  Identities=33%  Similarity=0.372  Sum_probs=22.1

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHH
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ...|+|+|++|+||||+++.+++.
T Consensus        10 ~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A           10 GINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh
Confidence            567999999999999999999887

>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=96.15  E-value=0.005  Score=53.21  Aligned_cols=29  Identities=21%  Similarity=0.362  Sum_probs=25.2

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ....|+|.|++|+||||+++.+++++...
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~L~~~l~~~   36 (215)
T 1nn5_A            8 RGALIVLEGVDRAGKSTQSRKLVEALCAA   36 (215)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            35689999999999999999999987544

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=96.13  E-value=0.0069  Score=53.52  Aligned_cols=37  Identities=14%  Similarity=0.108  Sum_probs=29.0

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEe
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLE  144 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  144 (429)
                      ...++.|.|++|+|||||+.+++......-..++|+.
T Consensus        22 ~G~~~~i~G~~GsGKTtl~~~~~~~~~~~~~~v~~~~   58 (247)
T 2dr3_A           22 ERNVVLLSGGPGTGKTIFSQQFLWNGLKMGEPGIYVA   58 (247)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            6789999999999999999998887654434455553

>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=96.12  E-value=0.0051  Score=54.58  Aligned_cols=26  Identities=19%  Similarity=0.065  Sum_probs=23.2

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      .+..|+|.|++|+||||+|+.+++++
T Consensus        28 ~~~~I~l~G~~GsGKsT~a~~L~~~~   53 (243)
T 3tlx_A           28 PDGRYIFLGAPGSGKGTQSLNLKKSH   53 (243)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            55679999999999999999998875

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=96.12  E-value=0.0035  Score=53.83  Aligned_cols=26  Identities=31%  Similarity=0.447  Sum_probs=22.9

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ...+++|.|+.|+|||||++.++...
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            35689999999999999999998764

>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=96.12  E-value=0.0035  Score=52.36  Aligned_cols=25  Identities=20%  Similarity=0.480  Sum_probs=22.4

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ..+++|.|++|+||||+++.++...
T Consensus         8 g~~i~l~G~~GsGKSTl~~~l~~~~   32 (175)
T 1knq_A            8 HHIYVLMGVSGSGKSAVASEVAHQL   32 (175)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHhh
Confidence            4579999999999999999998765

>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=96.10  E-value=0.0037  Score=53.40  Aligned_cols=27  Identities=19%  Similarity=0.432  Sum_probs=23.8

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ..++++|+|++|+|||||++.+.....
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            467899999999999999999987654

>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=96.09  E-value=0.0032  Score=52.37  Aligned_cols=25  Identities=24%  Similarity=0.335  Sum_probs=22.4

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ..|+|.|++|+||||+|+.++..+.
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            4689999999999999999998763

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=96.07  E-value=0.0038  Score=53.48  Aligned_cols=24  Identities=33%  Similarity=0.578  Sum_probs=22.0

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHhh
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      .|+|.|++|+||||+++.+++.+.
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            689999999999999999998764

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.07  E-value=0.0036  Score=53.97  Aligned_cols=28  Identities=29%  Similarity=0.430  Sum_probs=24.3

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ...|+|.|++|+||||+|+.+++.+...
T Consensus         4 ~~~I~i~G~~GsGKsT~~~~L~~~l~~~   31 (213)
T 2plr_A            4 GVLIAFEGIDGSGKSSQATLLKDWIELK   31 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHTTT
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHHhhc
Confidence            3579999999999999999999987543

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=96.05  E-value=0.0034  Score=53.01  Aligned_cols=25  Identities=24%  Similarity=0.252  Sum_probs=22.2

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ...|+|.|++|+||||+++.+++.+
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            3478999999999999999998875

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=96.05  E-value=0.0039  Score=53.53  Aligned_cols=26  Identities=31%  Similarity=0.492  Sum_probs=23.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ...+++|+|++|+||||+++.++...
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            45689999999999999999998765

>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=96.04  E-value=0.0043  Score=53.15  Aligned_cols=25  Identities=24%  Similarity=0.231  Sum_probs=22.6

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      +..|+|.|++|+||||+|+.++..+
T Consensus        20 ~~~I~l~G~~GsGKST~a~~La~~l   44 (201)
T 2cdn_A           20 HMRVLLLGPPGAGKGTQAVKLAEKL   44 (201)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4579999999999999999999876

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=96.03  E-value=0.0043  Score=53.54  Aligned_cols=29  Identities=17%  Similarity=0.357  Sum_probs=24.9

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ....|+|.|++|+||||+++.+++.+...
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            35689999999999999999999986543

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=96.02  E-value=0.0088  Score=52.23  Aligned_cols=36  Identities=17%  Similarity=0.218  Sum_probs=27.6

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEE
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFL  143 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  143 (429)
                      ...+++|.|++|+|||||++.++......-..++|+
T Consensus        22 ~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~v~~~   57 (235)
T 2w0m_A           22 QGFFIALTGEPGTGKTIFSLHFIAKGLRDGDPCIYV   57 (235)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHHHHHHHTCCEEEE
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEE
Confidence            567999999999999999999997664332334444

>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=96.01  E-value=0.072  Score=50.65  Aligned_cols=44  Identities=30%  Similarity=0.335  Sum_probs=34.4

Q ss_pred             CcccchhhHHHHHHHhhc----CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064           90 NELVGVESRVEEIQSLLG----AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~----~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ..++|....++++.+.+.    ....|.|.|.+|+|||++|+.+....
T Consensus       137 ~~~ig~s~~m~~l~~~i~~~a~~~~~vli~Ge~GtGK~~lAr~ih~~s  184 (387)
T 1ny5_A          137 EEYVFESPKMKEILEKIKKISCAECPVLITGESGVGKEVVARLIHKLS  184 (387)
T ss_dssp             CCCCCCSHHHHHHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             hhhhhccHHhhHHHHHHHHhcCCCCCeEEecCCCcCHHHHHHHHHHhc
Confidence            357888888888877665    44456999999999999998887653

>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=96.01  E-value=0.0043  Score=54.19  Aligned_cols=25  Identities=32%  Similarity=0.575  Sum_probs=22.4

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ..+|+|.|++|+||||+++.++..+
T Consensus         5 ~~~i~i~G~~GsGKSTl~~~L~~~~   29 (227)
T 1cke_A            5 APVITIDGPSGAGKGTLCKAMAEAL   29 (227)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3579999999999999999998865

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=95.99  E-value=0.0051  Score=56.10  Aligned_cols=25  Identities=28%  Similarity=0.416  Sum_probs=22.5

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      +.++.|.|++|+||||+|+.++.+.
T Consensus        33 ~~livl~G~sGsGKSTla~~L~~~~   57 (287)
T 1gvn_B           33 PTAFLLGGQPGSGKTSLRSAIFEET   57 (287)
T ss_dssp             CEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4679999999999999999998865

>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=95.98  E-value=0.0069  Score=55.25  Aligned_cols=28  Identities=21%  Similarity=0.294  Sum_probs=24.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      .+.+|+|.|++|+||||||+.+...+..
T Consensus        30 ~~~ii~I~G~sGsGKSTla~~L~~~l~~   57 (290)
T 1odf_A           30 CPLFIFFSGPQGSGKSFTSIQIYNHLME   57 (290)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhhh
Confidence            4568999999999999999999887653

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=95.97  E-value=0.0082  Score=49.82  Aligned_cols=34  Identities=18%  Similarity=0.202  Sum_probs=27.0

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcC-cceeEE
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRN-FKGSCF  142 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~-f~~~~~  142 (429)
                      .++++|.|+.|+|||||+..++..+... +...++
T Consensus         4 ~~~i~i~G~sGsGKTTl~~~L~~~l~~~g~~v~~i   38 (169)
T 1xjc_A            4 MNVWQVVGYKHSGKTTLMEKWVAAAVREGWRVGTV   38 (169)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhhHhcCCeeeEE
Confidence            4689999999999999999999987654 343333

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=95.96  E-value=0.005  Score=57.39  Aligned_cols=29  Identities=28%  Similarity=0.367  Sum_probs=23.7

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcCc
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRNF  137 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f  137 (429)
                      ...++|+|++|+||||+++.++..+.-.|
T Consensus        24 ~~~i~l~G~~G~GKTTl~~~la~~l~~~f   52 (359)
T 2ga8_A           24 RVCVILVGSPGSGKSTIAEELCQIINEKY   52 (359)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHHH
T ss_pred             eeEEEEECCCCCcHHHHHHHHHHHhCCCe
Confidence            34599999999999999999998765433

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=95.95  E-value=0.0044  Score=53.85  Aligned_cols=26  Identities=23%  Similarity=0.313  Sum_probs=24.0

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ..++|.|.|+||+||||.|+.+++++
T Consensus        28 k~kiI~llGpPGsGKgTqa~~L~~~~   53 (217)
T 3umf_A           28 KAKVIFVLGGPGSGKGTQCEKLVQKF   53 (217)
T ss_dssp             SCEEEEEECCTTCCHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            67899999999999999999999875

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=95.95  E-value=0.0049  Score=54.74  Aligned_cols=26  Identities=27%  Similarity=0.231  Sum_probs=23.5

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      .+..++|.|++|+|||||++.+++.+
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            45789999999999999999999776

>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=95.94  E-value=0.02  Score=49.34  Aligned_cols=110  Identities=12%  Similarity=0.020  Sum_probs=55.6

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCR  187 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~  187 (429)
                      ...+..++|+-|.||||.+...+.+....-..++.+......   ..+...+...+....  ..........+.....+.
T Consensus        27 ~G~l~vitG~MgsGKTT~lL~~a~r~~~~g~kVli~k~~~d~---R~ge~~i~s~~g~~~--~a~~~~~~~~~~~~~~~~  101 (214)
T 2j9r_A           27 NGWIEVICGSMFSGKSEELIRRVRRTQFAKQHAIVFKPCIDN---RYSEEDVVSHNGLKV--KAVPVSASKDIFKHITEE  101 (214)
T ss_dssp             SCEEEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEECC--------------------C--CEEECSSGGGGGGGCCSS
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEeccCC---cchHHHHHhhcCCee--EEeecCCHHHHHHHHhcC
Confidence            346788999999999999999999876554444444311110   111122222221111  101112222333334433


Q ss_pred             cEEEEecCCCC--HHHHHHHhccCCCCCCCCEEEEEeCCh
Q 048064          188 KVLIVLDDVTC--LNQIESLVGSLDRLLPESRILITTRNK  225 (429)
Q Consensus       188 ~~LlVlDdv~~--~~~~~~l~~~l~~~~~~~~iiiTtR~~  225 (429)
                      --+|++|++.-  .++++.+ ..+.  ..+..||+|.++.
T Consensus       102 ~dvViIDEaQF~~~~~V~~l-~~l~--~~~~~Vi~~Gl~~  138 (214)
T 2j9r_A          102 MDVIAIDEVQFFDGDIVEVV-QVLA--NRGYRVIVAGLDQ  138 (214)
T ss_dssp             CCEEEECCGGGSCTTHHHHH-HHHH--HTTCEEEEEECSB
T ss_pred             CCEEEEECcccCCHHHHHHH-HHHh--hCCCEEEEEeccc
Confidence            44999999953  3444333 2222  2377899999854

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=95.92  E-value=0.0042  Score=52.60  Aligned_cols=25  Identities=24%  Similarity=0.236  Sum_probs=22.4

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ..+|+|.|++|+||||+|+.++..+
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~~l   30 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            3579999999999999999998875

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=95.92  E-value=0.0042  Score=53.29  Aligned_cols=25  Identities=20%  Similarity=0.266  Sum_probs=22.4

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ...|+|.|++|+||||+++.+++.+
T Consensus        15 ~~~I~l~G~~GsGKsT~~~~L~~~~   39 (203)
T 1ukz_A           15 VSVIFVLGGPGAGKGTQCEKLVKDY   39 (203)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHc
Confidence            4579999999999999999998764

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=95.92  E-value=0.011  Score=54.69  Aligned_cols=39  Identities=18%  Similarity=0.034  Sum_probs=30.4

Q ss_pred             hcCCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEe
Q 048064          106 LGAAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLE  144 (429)
Q Consensus       106 l~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  144 (429)
                      +....++.|.|.+|+||||||.+++.....+...++|++
T Consensus        65 l~~G~l~li~G~pG~GKTtl~l~ia~~~a~~g~~vl~~s  103 (315)
T 3bh0_A           65 YKRRNFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHS  103 (315)
T ss_dssp             BCTTCEEEEECCTTSSHHHHHHHHHHHHHTTTCEEEEEE
T ss_pred             CCCCcEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEE
Confidence            347789999999999999999999987655434455553

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=95.89  E-value=0.004  Score=53.40  Aligned_cols=26  Identities=27%  Similarity=0.419  Sum_probs=22.3

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      .+.++|+|+.|+|||||++.+.....
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            46799999999999999999987653

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=95.88  E-value=0.0056  Score=53.31  Aligned_cols=25  Identities=28%  Similarity=0.274  Sum_probs=22.6

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ...|+|.|++|+||||+|+.++..+
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~~l   28 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQERF   28 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHc
Confidence            4579999999999999999999876

>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=95.88  E-value=0.014  Score=51.45  Aligned_cols=26  Identities=19%  Similarity=0.256  Sum_probs=23.8

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ...++.|+|++|+|||||+..++...
T Consensus        23 ~G~~~~i~G~~GsGKTtl~~~l~~~~   48 (243)
T 1n0w_A           23 TGSITEMFGEFRTGKTQICHTLAVTC   48 (243)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            67899999999999999999999864

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=95.87  E-value=0.0041  Score=58.99  Aligned_cols=110  Identities=14%  Similarity=0.080  Sum_probs=59.5

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeE-EEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSC-FLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSC  186 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~-~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~  186 (429)
                      ....++|+|+.|+|||||++.++..+.......+ +..+..+... .....     +..+..-......-...+...+..
T Consensus       135 ~g~~i~ivG~~GsGKTTll~~l~~~~~~~~~g~I~~~e~~~e~~~-~~~~~-----~v~Q~~~g~~~~~~~~~l~~~L~~  208 (372)
T 2ewv_A          135 KMGLILVTGPTGSGKSTTIASMIDYINQTKSYHIITIEDPIEYVF-KHKKS-----IVNQREVGEDTKSFADALRAALRE  208 (372)
T ss_dssp             SSEEEEEECSSSSSHHHHHHHHHHHHHHHSCCEEEEEESSCCSCC-CCSSS-----EEEEEEBTTTBSCSHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhcCcCCCcEEEEecccHhhhh-ccCce-----EEEeeecCCCHHHHHHHHHHHhhh
Confidence            6678999999999999999999887654322333 2221100000 00000     000000000111122347777777


Q ss_pred             CcEEEEecCCCCHHHHHHHhccCCCCCCCCEEEEEeCChh
Q 048064          187 RKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQ  226 (429)
Q Consensus       187 ~~~LlVlDdv~~~~~~~~l~~~l~~~~~~~~iiiTtR~~~  226 (429)
                      .+-+|++|++.+.+.+..++...   ..|..|+.|+-...
T Consensus       209 ~pd~illdE~~d~e~~~~~l~~~---~~g~~vi~t~H~~~  245 (372)
T 2ewv_A          209 DPDVIFVGEMRDLETVETALRAA---ETGHLVFGTLHTNT  245 (372)
T ss_dssp             CCSEEEESCCCSHHHHHHHHHHH---TTTCEEEECCCCCS
T ss_pred             CcCEEEECCCCCHHHHHHHHHHH---hcCCEEEEEECcch
Confidence            88899999998776655444332   23555666666543

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=95.87  E-value=0.0055  Score=50.70  Aligned_cols=24  Identities=17%  Similarity=0.289  Sum_probs=21.7

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHhh
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      .|+|.|++|+||||+|+.+++.+.
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            589999999999999999998763

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=95.87  E-value=0.021  Score=53.48  Aligned_cols=37  Identities=22%  Similarity=0.271  Sum_probs=29.8

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEe
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLE  144 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  144 (429)
                      ..+++.|+|++|+||||||.+++......-..++|+.
T Consensus        60 ~G~iv~I~G~pGsGKTtLal~la~~~~~~g~~vlyi~   96 (349)
T 2zr9_A           60 RGRVIEIYGPESSGKTTVALHAVANAQAAGGIAAFID   96 (349)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEE
Confidence            6789999999999999999999987665444455554

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=95.86  E-value=0.0055  Score=51.96  Aligned_cols=25  Identities=36%  Similarity=0.630  Sum_probs=22.5

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHhhc
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      .|+|.|++|+||||+++.+++++..
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            6899999999999999999998743

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=95.83  E-value=0.033  Score=53.74  Aligned_cols=28  Identities=21%  Similarity=0.267  Sum_probs=25.0

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      +++|.++|.+|+||||++..++..+...
T Consensus       100 ~~vI~ivG~~GvGKTT~a~~LA~~l~~~  127 (433)
T 2xxa_A          100 PAVVLMAGLQGAGKTTSVGKLGKFLREK  127 (433)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHh
Confidence            5689999999999999999999988765

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=95.83  E-value=0.005  Score=55.29  Aligned_cols=26  Identities=27%  Similarity=0.465  Sum_probs=23.1

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ...|.|+|++|+||||+|+.++..+.
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~~L~   29 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAKILS   29 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            45799999999999999999998754

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=95.82  E-value=0.0049  Score=54.02  Aligned_cols=26  Identities=27%  Similarity=0.236  Sum_probs=22.6

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ....|+|.|++|+||||+|+.+++.+
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            34679999999999999999999865

>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=95.82  E-value=0.011  Score=51.04  Aligned_cols=24  Identities=29%  Similarity=0.198  Sum_probs=22.5

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ...++.|+|++|+|||||+..++.
T Consensus        19 ~G~~~~i~G~~GsGKTtl~~~l~~   42 (220)
T 2cvh_A           19 PGVLTQVYGPYASGKTTLALQTGL   42 (220)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            667999999999999999999988

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=95.81  E-value=0.0055  Score=52.91  Aligned_cols=27  Identities=30%  Similarity=0.406  Sum_probs=23.4

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ...+++|.|+.|+|||||++.++..+.
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~~~~   31 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALARTLG   31 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHHG
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHhC
Confidence            346899999999999999999988754

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=95.81  E-value=0.0051  Score=52.08  Aligned_cols=22  Identities=32%  Similarity=0.428  Sum_probs=20.2

Q ss_pred             CEEEEEcCCCcchHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      .+++|.|++|+|||||++.++.
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            4789999999999999999986

>1fx0_B ATP synthase beta chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_B*

Probab=95.81  E-value=0.01  Score=57.62  Aligned_cols=55  Identities=20%  Similarity=0.339  Sum_probs=36.3

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLS  165 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~  165 (429)
                      ..+.++|.|.+|+|||+|+.++++.+.......+.+..+.+.   ......+.+.+..
T Consensus       164 kGqr~gIfgg~GvGKT~L~~~l~~~~a~~~~~v~V~~~iGER---~rEv~e~~~~~~~  218 (498)
T 1fx0_B          164 RGGKIGLFGGAGVGKTVLIMELINNIAKAHGGVSVFGGVGER---TREGNDLYMEMKE  218 (498)
T ss_dssp             TTCCEEEEECSSSSHHHHHHHHHHHTTTTCSSCEEEEEESCC---SHHHHHHHHHHHH
T ss_pred             cCCeEEeecCCCCCchHHHHHHHHHHHhhCCCEEEEEEcccC---cHHHHHHHHhhhc
Confidence            678899999999999999999999875433333333344432   2234455555544

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=95.79  E-value=0.0081  Score=55.50  Aligned_cols=43  Identities=23%  Similarity=0.317  Sum_probs=30.5

Q ss_pred             ccchhhHHHHHHHhhc------CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064           92 LVGVESRVEEIQSLLG------AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus        92 ~vGR~~~~~~l~~~l~------~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ++|-...+..+...+.      .+.+++|.|+.|+|||||++.+...+.
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            3455555555544443      234899999999999999999887665

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=95.77  E-value=0.012  Score=51.00  Aligned_cols=41  Identities=24%  Similarity=0.301  Sum_probs=30.7

Q ss_pred             hhHHHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064           96 ESRVEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus        96 ~~~~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      +...+.+...+.  ..+.++|+|.+|+|||||+..++......
T Consensus        15 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKTTl~~~l~~~~~~~   57 (221)
T 2wsm_A           15 KRLAEKNREALRESGTVAVNIMGAIGSGKTLLIERTIERIGNE   57 (221)
T ss_dssp             HHHHHHHHHHHHHHTCEEEEEEECTTSCHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHhhcccCceEEEEEcCCCCCHHHHHHHHHHHhccC
Confidence            334444444443  67789999999999999999999876544

>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=95.77  E-value=0.024  Score=51.79  Aligned_cols=28  Identities=25%  Similarity=0.310  Sum_probs=24.4

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ..+++++|++|+||||++..++..+...
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~~~~~  125 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYFYKKK  125 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            4589999999999999999999877654

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=95.77  E-value=0.0059  Score=52.93  Aligned_cols=23  Identities=30%  Similarity=0.442  Sum_probs=20.9

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHh
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      .|+|.|++|+||||+|+.++.++
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            47899999999999999998875

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=95.77  E-value=0.0043  Score=51.77  Aligned_cols=22  Identities=32%  Similarity=0.436  Sum_probs=19.4

Q ss_pred             CCCEEEEEcCCCcchHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVI  129 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~  129 (429)
                      ...+++|+|+.|+|||||++.+
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

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=95.76  E-value=0.0053  Score=52.71  Aligned_cols=22  Identities=32%  Similarity=0.483  Sum_probs=20.3

Q ss_pred             CEEEEEcCCCcchHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ..|+|.|+.|+||||+++.++.
T Consensus         2 ~~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            2 KRIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHH
Confidence            4689999999999999999987

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=95.76  E-value=0.0055  Score=53.43  Aligned_cols=26  Identities=23%  Similarity=0.171  Sum_probs=23.1

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ...|.|.|++|+||||+++.+++++.
T Consensus         5 ~~~I~l~G~~GsGKsT~~~~La~~l~   30 (222)
T 1zak_A            5 PLKVMISGAPASGKGTQCELIKTKYQ   30 (222)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            45799999999999999999998763

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=95.75  E-value=0.014  Score=51.47  Aligned_cols=26  Identities=27%  Similarity=0.231  Sum_probs=23.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ...++.|.|.+|+|||+||.+++...
T Consensus        29 ~G~l~~i~G~pG~GKT~l~l~~~~~~   54 (251)
T 2zts_A           29 EGTTVLLTGGTGTGKTTFAAQFIYKG   54 (251)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            57799999999999999999987654

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=95.72  E-value=0.0065  Score=54.26  Aligned_cols=27  Identities=30%  Similarity=0.346  Sum_probs=23.5

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      .+.++.|.|++|+||||+|+.++..+.
T Consensus        31 ~~~~i~l~G~~GsGKSTla~~L~~~l~   57 (253)
T 2p5t_B           31 QPIAILLGGQSGAGKTTIHRIKQKEFQ   57 (253)
T ss_dssp             SCEEEEEESCGGGTTHHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhcC
Confidence            356799999999999999999998763

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=95.72  E-value=0.0058  Score=52.32  Aligned_cols=25  Identities=32%  Similarity=0.367  Sum_probs=22.8

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ...|+|.|++|+||||+++.+++.+
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            4689999999999999999999876

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=95.71  E-value=0.03  Score=52.03  Aligned_cols=54  Identities=17%  Similarity=0.185  Sum_probs=37.3

Q ss_pred             hcCCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHH
Q 048064          106 LGAAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSE  166 (429)
Q Consensus       106 l~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~  166 (429)
                      +....++.|.|.+|+||||||..++..+...-..++|++ .      .-....+...++..
T Consensus        43 l~~G~LiiIaG~pG~GKTt~al~ia~~~a~~g~~Vl~fS-l------Ems~~ql~~Rlls~   96 (338)
T 4a1f_A           43 FNKGSLVIIGARPSMGKTSLMMNMVLSALNDDRGVAVFS-L------EMSAEQLALRALSD   96 (338)
T ss_dssp             BCTTCEEEEEECTTSCHHHHHHHHHHHHHHTTCEEEEEE-S------SSCHHHHHHHHHHH
T ss_pred             CCCCcEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEe-C------CCCHHHHHHHHHHH
Confidence            336789999999999999999999988765433444443 2      33455555555544

>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=95.71  E-value=0.011  Score=55.67  Aligned_cols=37  Identities=24%  Similarity=0.409  Sum_probs=30.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEe
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLE  144 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  144 (429)
                      ..+++.|+|++|+||||||.+++......-..++|+.
T Consensus        62 ~G~ii~I~G~pGsGKTtLal~la~~~~~~g~~vlyid   98 (356)
T 1u94_A           62 MGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID   98 (356)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEe
Confidence            6789999999999999999999987765444555654

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=95.70  E-value=0.018  Score=50.11  Aligned_cols=38  Identities=18%  Similarity=0.338  Sum_probs=28.3

Q ss_pred             HHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064           99 VEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus        99 ~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      .+.+...+.  ....|+|+|.+|+|||||+..++......
T Consensus        26 a~~~r~~~~~~~~~~i~ivG~~gvGKTtl~~~l~~~~~~~   65 (226)
T 2hf9_A           26 ADKNRKLLNKHGVVAFDFMGAIGSGKTLLIEKLIDNLKDK   65 (226)
T ss_dssp             HHHHHHHHHHTTCEEEEEEESTTSSHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHhCCCeEEEEEcCCCCCHHHHHHHHHHHhccC
Confidence            334444433  56789999999999999999999875443

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=95.70  E-value=0.011  Score=54.23  Aligned_cols=28  Identities=21%  Similarity=0.277  Sum_probs=24.6

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ..+++|+|++|+||||++..++..+...
T Consensus       102 g~vi~lvG~nGsGKTTll~~Lagll~~~  129 (304)
T 1rj9_A          102 GRVVLVVGVNGVGKTTTIAKLGRYYQNL  129 (304)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHHHHHHTT
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHHHhc
Confidence            5799999999999999999999876544

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=95.70  E-value=0.019  Score=53.42  Aligned_cols=87  Identities=18%  Similarity=0.066  Sum_probs=51.3

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcC-CCCCCCHHHHHHHhcC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKD-VNVIPHIDLNFRRLSC  186 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~l~~~l~~  186 (429)
                      ....++|+|+.|.|||||++.++..+.. ....+.+........ . ...       ..+.-- .........+...+..
T Consensus       170 ~g~~v~i~G~~GsGKTTll~~l~g~~~~-~~g~i~i~~~~e~~~-~-~~~-------~~i~~~~ggg~~~r~~la~aL~~  239 (330)
T 2pt7_A          170 IGKNVIVCGGTGSGKTTYIKSIMEFIPK-EERIISIEDTEEIVF-K-HHK-------NYTQLFFGGNITSADCLKSCLRM  239 (330)
T ss_dssp             HTCCEEEEESTTSCHHHHHHHGGGGSCT-TSCEEEEESSCCCCC-S-SCS-------SEEEEECBTTBCHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcC-CCcEEEECCeecccc-c-cch-------hEEEEEeCCChhHHHHHHHHhhh
Confidence            6779999999999999999998876533 234455543221100 0 000       000000 0122233347777888


Q ss_pred             CcEEEEecCCCCHHHHHH
Q 048064          187 RKVLIVLDDVTCLNQIES  204 (429)
Q Consensus       187 ~~~LlVlDdv~~~~~~~~  204 (429)
                      .+-+|++|+....+.++.
T Consensus       240 ~p~ilildE~~~~e~~~~  257 (330)
T 2pt7_A          240 RPDRIILGELRSSEAYDF  257 (330)
T ss_dssp             CCSEEEECCCCSTHHHHH
T ss_pred             CCCEEEEcCCChHHHHHH
Confidence            889999999987554443

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=95.68  E-value=0.0068  Score=53.79  Aligned_cols=26  Identities=27%  Similarity=0.411  Sum_probs=23.2

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ...+++|.|+.|+|||||++.++..+
T Consensus        24 ~g~iigI~G~~GsGKSTl~k~L~~~l   49 (245)
T 2jeo_A           24 RPFLIGVSGGTASGKSTVCEKIMELL   49 (245)
T ss_dssp             CSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            56689999999999999999998865

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=95.67  E-value=0.0062  Score=54.32  Aligned_cols=27  Identities=22%  Similarity=0.363  Sum_probs=23.5

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ...+|+|.|++|+||||+|+.++..+.
T Consensus        21 ~~~iI~I~G~~GSGKST~a~~L~~~lg   47 (252)
T 1uj2_A           21 EPFLIGVSGGTASGKSSVCAKIVQLLG   47 (252)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHhh
Confidence            455799999999999999999988754

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=95.67  E-value=0.0052  Score=52.92  Aligned_cols=26  Identities=31%  Similarity=0.531  Sum_probs=22.5

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ...+|+|+|++|+||||+++.+...+
T Consensus        20 ~~~~i~i~G~~GsGKSTl~~~L~~~~   45 (207)
T 2qt1_A           20 KTFIIGISGVTNSGKTTLAKNLQKHL   45 (207)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTTS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            45689999999999999999988753

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=95.66  E-value=0.0072  Score=53.93  Aligned_cols=27  Identities=26%  Similarity=0.532  Sum_probs=24.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ...+|+|.|+.|+||||+++.+++++.
T Consensus        26 ~g~~I~I~G~~GsGKSTl~k~La~~Lg   52 (252)
T 4e22_A           26 IAPVITVDGPSGAGKGTLCKALAESLN   52 (252)
T ss_dssp             TSCEEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhcC
Confidence            457899999999999999999998763

>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=95.65  E-value=0.01  Score=54.75  Aligned_cols=34  Identities=29%  Similarity=0.382  Sum_probs=27.9

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeE
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSC  141 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~  141 (429)
                      +.++|+|+|-|||||||.+..++.-+...-..+.
T Consensus        47 ~aKVIAIaGKGGVGKTTtavNLA~aLA~~GkkVl   80 (314)
T 3fwy_A           47 GAKVFAVYGKGGIGKSTTSSNLSAAFSILGKRVL   80 (314)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEE
T ss_pred             CceEEEEECCCccCHHHHHHHHHHHHHHCCCeEE
Confidence            7899999999999999999998887765533333

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=95.65  E-value=0.0062  Score=52.79  Aligned_cols=23  Identities=30%  Similarity=0.411  Sum_probs=20.6

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHh
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      .|+|.|++|+||||+|+.++.++
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            47899999999999999998765

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=95.64  E-value=0.0042  Score=53.71  Aligned_cols=26  Identities=27%  Similarity=0.436  Sum_probs=22.9

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      .+|+|.|+.|+||||+++.+...+..
T Consensus         1 ~~I~i~G~~GsGKsTl~~~L~~~l~~   26 (214)
T 1gtv_A            1 MLIAIEGVDGAGKRTLVEKLSGAFRA   26 (214)
T ss_dssp             CEEEEEEEEEEEHHHHHHHHHHHHHE
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHHHh
Confidence            36899999999999999999987753

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=95.63  E-value=0.0061  Score=52.12  Aligned_cols=25  Identities=32%  Similarity=0.443  Sum_probs=22.2

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ...+|+|.|+.|+||||+++.++..
T Consensus         7 ~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            7 HPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHC
Confidence            3568999999999999999999875

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=95.63  E-value=0.0064  Score=52.98  Aligned_cols=26  Identities=31%  Similarity=0.456  Sum_probs=23.4

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ...+++|+|+.|+|||||++.++...
T Consensus        22 ~G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           22 NIYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CCCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            56789999999999999999998755

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=95.63  E-value=0.045  Score=53.12  Aligned_cols=54  Identities=20%  Similarity=0.145  Sum_probs=37.1

Q ss_pred             cCCCEEEEEcCCCcchHHHHHHHHHHhhcC-cceeEEEeechhhhhhcCCHHHHHHHHHHHH
Q 048064          107 GAAPLLGIWGIGGIGKTTIARVIFNRISRN-FKGSCFLENIREESQKAGGLAFLQQKLLSEV  167 (429)
Q Consensus       107 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  167 (429)
                      ....++.|.|.+|+||||||..++..+... -..++|+. .      ..+...+...++...
T Consensus       198 ~~G~l~ii~G~pg~GKT~lal~ia~~~a~~~g~~vl~~s-l------E~~~~~l~~R~~~~~  252 (444)
T 2q6t_A          198 GPGSLNIIAARPAMGKTAFALTIAQNAALKEGVGVGIYS-L------EMPAAQLTLRMMCSE  252 (444)
T ss_dssp             CTTCEEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEEEE-S------SSCHHHHHHHHHHHH
T ss_pred             CCCcEEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEEE-C------CCCHHHHHHHHHHHH
Confidence            367799999999999999999999987643 22344443 2      234556666655443

>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=95.62  E-value=0.0072  Score=52.12  Aligned_cols=26  Identities=27%  Similarity=0.493  Sum_probs=23.6

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ...+++|.|+.|+|||||++.++.-.
T Consensus        19 ~Gei~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           19 VGRVVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            57899999999999999999998765

>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=95.61  E-value=0.017  Score=50.38  Aligned_cols=27  Identities=22%  Similarity=0.367  Sum_probs=23.9

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ...+++|+|++|+|||||++.++....
T Consensus        24 ~G~~~~l~G~nGsGKSTll~~l~g~~~   50 (231)
T 4a74_A           24 TQAITEVFGEFGSGKTQLAHTLAVMVQ   50 (231)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHh
Confidence            677999999999999999999987543

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=95.60  E-value=0.077  Score=54.17  Aligned_cols=40  Identities=30%  Similarity=0.267  Sum_probs=28.3

Q ss_pred             hHHHHHHHhhcCCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064           97 SRVEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus        97 ~~~~~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ...+.+...|....+..|+||||+|||+.+.++...+...
T Consensus       193 ~Q~~AV~~al~~~~~~lI~GPPGTGKT~ti~~~I~~l~~~  232 (646)
T 4b3f_X          193 SQKEAVLFALSQKELAIIHGPPGTGKTTTVVEIILQAVKQ  232 (646)
T ss_dssp             HHHHHHHHHHHCSSEEEEECCTTSCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhcCCCceEEECCCCCCHHHHHHHHHHHHHhC
Confidence            3455566666666789999999999997766666554333

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=95.58  E-value=0.0062  Score=52.35  Aligned_cols=22  Identities=41%  Similarity=0.517  Sum_probs=20.1

Q ss_pred             CEEEEEcCCCcchHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      .+|+|.|+.|+||||+++.++.
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            3689999999999999999976

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=95.58  E-value=0.011  Score=52.88  Aligned_cols=112  Identities=12%  Similarity=0.011  Sum_probs=59.8

Q ss_pred             hcCCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHH-HHHHHh
Q 048064          106 LGAAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHID-LNFRRL  184 (429)
Q Consensus       106 l~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~-~l~~~l  184 (429)
                      +....+++|+|+.|+|||||++.++..+...+...+.+....-... ......    +..+. .-......+. .+...+
T Consensus        22 i~~g~~v~i~Gp~GsGKSTll~~l~g~~~~~~~G~I~~~g~~i~~~-~~~~~~----~v~q~-~~gl~~~~l~~~la~aL   95 (261)
T 2eyu_A           22 HRKMGLILVTGPTGSGKSTTIASMIDYINQTKSYHIITIEDPIEYV-FKHKKS----IVNQR-EVGEDTKSFADALRAAL   95 (261)
T ss_dssp             GCSSEEEEEECSTTCSHHHHHHHHHHHHHHHCCCEEEEEESSCCSC-CCCSSS----EEEEE-EBTTTBSCHHHHHHHHH
T ss_pred             hCCCCEEEEECCCCccHHHHHHHHHHhCCCCCCCEEEEcCCcceee-cCCcce----eeeHH-HhCCCHHHHHHHHHHHH
Confidence            4467799999999999999999988866433233333321100000 000000    00000 0000111222 266666


Q ss_pred             cCCcEEEEecCCCCHHHHHHHhccCCCCCCCCEEEEEeCChh
Q 048064          185 SCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQ  226 (429)
Q Consensus       185 ~~~~~LlVlDdv~~~~~~~~l~~~l~~~~~~~~iiiTtR~~~  226 (429)
                      ...+-+|++|+..+.+....++...   ..|.-|++||-+..
T Consensus        96 ~~~p~illlDEp~D~~~~~~~l~~~---~~g~~vl~t~H~~~  134 (261)
T 2eyu_A           96 REDPDVIFVGEMRDLETVETALRAA---ETGHLVFGTLHTNT  134 (261)
T ss_dssp             HHCCSEEEESCCCSHHHHHHHHHHH---HTTCEEEEEECCSS
T ss_pred             hhCCCEEEeCCCCCHHHHHHHHHHH---ccCCEEEEEeCcch
Confidence            6677899999997666554444332   23556777776654

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=95.55  E-value=0.014  Score=53.22  Aligned_cols=38  Identities=13%  Similarity=0.116  Sum_probs=29.5

Q ss_pred             HHHHHHhhcCCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064           99 VEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus        99 ~~~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ++.+.--+....+++|.|++|+|||||++.++..+...
T Consensus        25 Ld~i~~~l~~G~~~~i~G~~G~GKTTl~~~ia~~~~~~   62 (296)
T 1cr0_A           25 INDKTLGARGGEVIMVTSGSGMGKSTFVRQQALQWGTA   62 (296)
T ss_dssp             HHHHHCSBCTTCEEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred             HHHHhcCCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHH
Confidence            44444233377899999999999999999999877644

>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=95.54  E-value=0.0084  Score=52.24  Aligned_cols=27  Identities=15%  Similarity=0.299  Sum_probs=24.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ...+++|+|+.|+|||||++.++....
T Consensus        15 ~G~ii~l~GpsGsGKSTLlk~L~g~~~   41 (219)
T 1s96_A           15 QGTLYIVSAPSGAGKSSLIQALLKTQP   41 (219)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhccCC
Confidence            567999999999999999999988654

>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=95.54  E-value=0.008  Score=51.18  Aligned_cols=25  Identities=28%  Similarity=0.531  Sum_probs=22.2

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ..+|+|+|+.|+||||+++.+.+.+
T Consensus        12 ~~iIgltG~~GSGKSTva~~L~~~l   36 (192)
T 2grj_A           12 HMVIGVTGKIGTGKSTVCEILKNKY   36 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc
Confidence            4579999999999999999998864

>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=95.53  E-value=0.013  Score=53.59  Aligned_cols=28  Identities=21%  Similarity=0.218  Sum_probs=24.9

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      ...+++|+|++|+||||++..++..+..
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~~l~~  131 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAAISML  131 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            4679999999999999999999988763

>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=95.51  E-value=0.011  Score=48.52  Aligned_cols=26  Identities=35%  Similarity=0.401  Sum_probs=23.7

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ...+++|.|+.|.|||||++.++.-+
T Consensus        32 ~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           32 KAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            56789999999999999999999876

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=95.50  E-value=0.0084  Score=51.83  Aligned_cols=27  Identities=19%  Similarity=0.266  Sum_probs=24.2

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ...+|.|.|++|+||||+++.++..+.
T Consensus        24 ~~~~i~~~G~~GsGKsT~~~~l~~~l~   50 (211)
T 1m7g_A           24 RGLTIWLTGLSASGKSTLAVELEHQLV   50 (211)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHhc
Confidence            567899999999999999999998764

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=95.49  E-value=0.0078  Score=53.58  Aligned_cols=26  Identities=23%  Similarity=0.445  Sum_probs=23.8

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ...|+|.|++|+||||+++.++..+.
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            78899999999999999999998763

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=95.49  E-value=0.0089  Score=50.08  Aligned_cols=26  Identities=23%  Similarity=0.335  Sum_probs=23.0

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ...|+|.|+.|+||||+++.++..+.
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~~l~   30 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEEYLV   30 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHh
Confidence            45789999999999999999998764

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=95.46  E-value=0.0074  Score=55.20  Aligned_cols=25  Identities=28%  Similarity=0.466  Sum_probs=22.4

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      .++|+|.||+|+||||||..++.++
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            4578999999999999999999865

>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=95.43  E-value=0.01  Score=50.90  Aligned_cols=25  Identities=24%  Similarity=0.373  Sum_probs=22.5

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ++|+|.|+.|+||||+++.++..+.
T Consensus         3 ~~i~i~G~~GsGKst~~~~la~~lg   27 (208)
T 3ake_A            3 GIVTIDGPSASGKSSVARRVAAALG   27 (208)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcC
Confidence            4899999999999999999988763

>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=95.42  E-value=0.0095  Score=52.29  Aligned_cols=27  Identities=19%  Similarity=0.416  Sum_probs=23.2

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      .+.+++|.|++|+||||+++.++..+.
T Consensus         8 ~~~~i~i~G~~GsGKsTla~~la~~lg   34 (233)
T 3r20_A            8 GSLVVAVDGPAGTGKSSVSRGLARALG   34 (233)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            346899999999999999999998763

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=95.42  E-value=0.043  Score=53.92  Aligned_cols=28  Identities=25%  Similarity=0.319  Sum_probs=24.0

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      .++|+|+|.+|+||||++..++..+...
T Consensus       101 ~~vI~ivG~~GvGKTTl~~kLA~~l~~~  128 (504)
T 2j37_W          101 QNVIMFVGLQGSGKTTTCSKLAYYYQRK  128 (504)
T ss_dssp             -EEEEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhC
Confidence            4589999999999999999999877654

>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A*

Probab=95.42  E-value=0.022  Score=52.76  Aligned_cols=28  Identities=18%  Similarity=0.273  Sum_probs=24.8

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      ...++.|+|++|+||||||.+++.....
T Consensus       106 ~G~i~~i~G~~GsGKT~la~~la~~~~~  133 (324)
T 2z43_A          106 TRTMTEFFGEFGSGKTQLCHQLSVNVQL  133 (324)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHTTS
T ss_pred             CCcEEEEECCCCCCHhHHHHHHHHHHhc
Confidence            6789999999999999999999987543

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=95.40  E-value=0.0067  Score=56.16  Aligned_cols=26  Identities=23%  Similarity=0.356  Sum_probs=23.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ..++|+|.|+.|+|||||+..+++++
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            34589999999999999999999865

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=95.40  E-value=0.015  Score=50.55  Aligned_cols=26  Identities=19%  Similarity=0.069  Sum_probs=22.8

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      .|.+.|.||+||||+|..++..+...
T Consensus         8 ~I~~~~kgGvGKTt~a~~la~~l~~~   33 (228)
T 2r8r_A            8 KVFLGAAPGVGKTYAMLQAAHAQLRQ   33 (228)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHC
Confidence            48899999999999999999987655

>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=95.40  E-value=0.011  Score=52.02  Aligned_cols=26  Identities=23%  Similarity=0.183  Sum_probs=23.2

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ...|.|.|++|+||||+|+.+++++.
T Consensus        16 ~~~I~l~G~~GsGKsT~a~~La~~l~   41 (233)
T 1ak2_A           16 GVRAVLLGPPGAGKGTQAPKLAKNFC   41 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            45799999999999999999998863

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=95.36  E-value=0.014  Score=53.56  Aligned_cols=29  Identities=28%  Similarity=0.398  Sum_probs=24.8

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ...+++|+|+.|+||||+++.++..+...
T Consensus        99 ~g~vi~lvG~nGsGKTTll~~Lag~l~~~  127 (302)
T 3b9q_A           99 KPAVIMIVGVNGGGKTTSLGKLAHRLKNE  127 (302)
T ss_dssp             SCEEEEEECCTTSCHHHHHHHHHHHHHHT
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            35689999999999999999999876543

>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=95.35  E-value=0.018  Score=52.15  Aligned_cols=28  Identities=25%  Similarity=0.350  Sum_probs=24.9

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      ...++.|+|++|+|||||+..++..+..
T Consensus        29 ~G~i~~i~G~~GsGKTtl~~~l~~~~~~   56 (279)
T 1nlf_A           29 AGTVGALVSPGGAGKSMLALQLAAQIAG   56 (279)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHT
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHhc
Confidence            6789999999999999999999986653

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=95.35  E-value=0.0073  Score=53.03  Aligned_cols=26  Identities=27%  Similarity=0.378  Sum_probs=17.3

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHH-HHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIF-NRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~-~~~  133 (429)
                      ...+++|+|+.|+|||||++.++ ...
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            56789999999999999999998 653

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=95.34  E-value=0.0085  Score=55.24  Aligned_cols=24  Identities=25%  Similarity=0.407  Sum_probs=22.1

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHh
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ++|+|+|++|+||||||..++.++
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~l   29 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADAL   29 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            479999999999999999999875

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=95.34  E-value=0.0089  Score=55.12  Aligned_cols=27  Identities=30%  Similarity=0.479  Sum_probs=23.9

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ...+++|.|+.|+|||||++.++..+.
T Consensus        89 ~g~ivgI~G~sGsGKSTL~~~L~gll~  115 (312)
T 3aez_A           89 VPFIIGVAGSVAVGKSTTARVLQALLA  115 (312)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCchHHHHHHHHHhhcc
Confidence            567899999999999999999988664

>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=95.33  E-value=0.0087  Score=54.62  Aligned_cols=25  Identities=20%  Similarity=0.190  Sum_probs=22.6

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      .++++|.|++|+||||||..+++++
T Consensus        10 ~~~i~i~GptgsGKt~la~~La~~~   34 (316)
T 3foz_A           10 PKAIFLMGPTASGKTALAIELRKIL   34 (316)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CcEEEEECCCccCHHHHHHHHHHhC
Confidence            4679999999999999999999875

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=95.33  E-value=0.01  Score=51.76  Aligned_cols=23  Identities=26%  Similarity=0.408  Sum_probs=21.2

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHh
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      .|+|.|++|+||||+++.++..+
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            58999999999999999999876

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=95.32  E-value=0.01  Score=51.59  Aligned_cols=24  Identities=29%  Similarity=0.236  Sum_probs=22.0

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHh
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ..|+|.|++|+||||+|+.++.++
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~~l   29 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKKEY   29 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            468999999999999999999876

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=95.31  E-value=0.021  Score=47.65  Aligned_cols=27  Identities=30%  Similarity=0.492  Sum_probs=23.9

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      .++++|.|+.|+|||||+..+...+..
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~~l~~   32 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIPALCA   32 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhccc
Confidence            578999999999999999999987654

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=95.30  E-value=0.0097  Score=55.21  Aligned_cols=25  Identities=24%  Similarity=0.278  Sum_probs=22.6

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      .+|+|.|++|+||||||..++..+.
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            4899999999999999999998763

>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=95.30  E-value=0.0082  Score=50.97  Aligned_cols=26  Identities=27%  Similarity=0.196  Sum_probs=23.2

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ..+.|.|.|++|+||||||.+++.+.
T Consensus        33 ~g~~ilI~GpsGsGKStLA~~La~~g   58 (205)
T 2qmh_A           33 YGLGVLITGDSGVGKSETALELVQRG   58 (205)
T ss_dssp             TTEEEEEECCCTTTTHHHHHHHHTTT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhC
Confidence            46779999999999999999998864

>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=95.28  E-value=0.01  Score=51.31  Aligned_cols=23  Identities=26%  Similarity=0.293  Sum_probs=21.1

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHh
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      .|+|.|++|+||||+|+.+++.+
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            47899999999999999999876

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=95.24  E-value=0.041  Score=53.56  Aligned_cols=39  Identities=15%  Similarity=0.204  Sum_probs=29.6

Q ss_pred             hcCCCEEEEEcCCCcchHHHHHHHHHHhhcCcc-eeEEEe
Q 048064          106 LGAAPLLGIWGIGGIGKTTIARVIFNRISRNFK-GSCFLE  144 (429)
Q Consensus       106 l~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~-~~~~~~  144 (429)
                      +....++.|.|.+|+|||||+..++..+..... .++|+.
T Consensus       200 l~~G~liiI~G~pG~GKTtl~l~ia~~~~~~~g~~Vl~~s  239 (454)
T 2r6a_A          200 FQRSDLIIVAARPSVGKTAFALNIAQNVATKTNENVAIFS  239 (454)
T ss_dssp             BCTTCEEEEECCTTSCHHHHHHHHHHHHHHHSSCCEEEEE
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHHHHHHhCCCcEEEEE
Confidence            336789999999999999999999998764322 344443

>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=95.23  E-value=0.023  Score=55.37  Aligned_cols=35  Identities=26%  Similarity=0.390  Sum_probs=27.4

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEE
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFL  143 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  143 (429)
                      ...+++|+|+.|+|||||++.++..+... ...+.+
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~~LAgll~~~-~G~V~l  326 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIGKLARQFEQQ-GKSVML  326 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHHHHHHHT-TCCEEE
T ss_pred             CCeEEEEECCCcccHHHHHHHHHHHhhhc-CCeEEE
Confidence            45689999999999999999999877544 334444

>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=95.22  E-value=0.015  Score=53.16  Aligned_cols=34  Identities=18%  Similarity=0.196  Sum_probs=26.7

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHhhcCc--ceeEEEe
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRISRNF--KGSCFLE  144 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~~~~f--~~~~~~~  144 (429)
                      ++.|+|++|+|||||+.+++......+  ..++|+.
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            789999999999999999998776542  3445543

>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=95.22  E-value=0.16  Score=44.49  Aligned_cols=40  Identities=20%  Similarity=0.087  Sum_probs=28.8

Q ss_pred             cchhhHHHHHHHhhcCCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064           93 VGVESRVEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus        93 vGR~~~~~~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      .=|....+.+..++.. +.+.|+|+.|.|||.+|..++...
T Consensus        93 ~l~~~Q~~ai~~~~~~-~~~ll~~~tG~GKT~~a~~~~~~~  132 (237)
T 2fz4_A           93 SLRDYQEKALERWLVD-KRGCIVLPTGSGKTHVAMAAINEL  132 (237)
T ss_dssp             CCCHHHHHHHHHHTTT-SEEEEEESSSTTHHHHHHHHHHHS
T ss_pred             CcCHHHHHHHHHHHhC-CCEEEEeCCCCCHHHHHHHHHHHc
Confidence            3344555555555544 348899999999999999888765

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=95.22  E-value=0.0084  Score=54.72  Aligned_cols=26  Identities=19%  Similarity=0.424  Sum_probs=20.2

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ..+|+|.|+.|+||||+|+.+.+.+.
T Consensus         5 ~~iIgItG~sGSGKSTva~~L~~~lg   30 (290)
T 1a7j_A            5 HPIISVTGSSGAGTSTVKHTFDQIFR   30 (290)
T ss_dssp             SCEEEEESCC---CCTHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHHh
Confidence            56899999999999999999988654

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=95.21  E-value=0.016  Score=53.70  Aligned_cols=29  Identities=24%  Similarity=0.315  Sum_probs=24.9

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      .+.+++|+|+.|+||||+++.++..+...
T Consensus       128 ~g~vi~lvG~nGaGKTTll~~Lag~l~~~  156 (328)
T 3e70_C          128 KPYVIMFVGFNGSGKTTTIAKLANWLKNH  156 (328)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            35689999999999999999999876544

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=95.20  E-value=0.012  Score=49.91  Aligned_cols=25  Identities=24%  Similarity=0.256  Sum_probs=22.1

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      .+++|+|+.|+|||||++.++..+.
T Consensus         2 ~~i~i~G~nG~GKTTll~~l~g~~~   26 (189)
T 2i3b_A            2 RHVFLTGPPGVGKTTLIHKASEVLK   26 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCChHHHHHHHHHhhcc
Confidence            4689999999999999999988664

>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=95.20  E-value=0.072  Score=62.37  Aligned_cols=154  Identities=10%  Similarity=0.009  Sum_probs=0.0

Q ss_pred             HHHhhcCCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHH
Q 048064          102 IQSLLGAAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNF  181 (429)
Q Consensus       102 l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~  181 (429)
                      +..++...+.+.++|++|+|||++|+.+...........+-..        ........+..+......           
T Consensus      1260 l~~~l~~~~~vLL~GPpGtGKT~la~~~l~~~~~~~~~~infs--------a~ts~~~~~~~i~~~~~~----------- 1320 (2695)
T 4akg_A         1260 FYDLLNSKRGIILCGPPGSGKTMIMNNALRNSSLYDVVGINFS--------KDTTTEHILSALHRHTNY----------- 1320 (2695)
T ss_dssp             HHHHHHHTCEEEEECSTTSSHHHHHHHHHHSCSSCEEEEEECC--------TTCCHHHHHHHHHHHBCC-----------
T ss_pred             HHHHHHCCCeEEEECCCCCCHHHHHHHHHhcCCCCceEEEEee--------cCCCHHHHHHHHHHHhhh-----------


Q ss_pred             HHh------------cCCcEEEEecCCCCH--------HHHHHHhccCCCCC------------CCCEEEEEeCChh---
Q 048064          182 RRL------------SCRKVLIVLDDVTCL--------NQIESLVGSLDRLL------------PESRILITTRNKQ---  226 (429)
Q Consensus       182 ~~l------------~~~~~LlVlDdv~~~--------~~~~~l~~~l~~~~------------~~~~iiiTtR~~~---  226 (429)
                        -            .+++.++++||++..        ...+.+...+...+            .+..+|.++....   
T Consensus      1321 --~~~~~g~~~~P~~~gk~~VlFiDEinmp~~d~yg~q~~lelLRq~le~gg~yd~~~~~~~~~~~i~lIaA~Npp~~gG 1398 (2695)
T 4akg_A         1321 --VTTSKGLTLLPKSDIKNLVLFCDEINLPKLDKYGSQNVVLFLRQLMEKQGFWKTPENKWVTIERIHIVGACNPPTDPG 1398 (2695)
T ss_dssp             --EEETTTEEEEEBSSSSCEEEEEETTTCSCCCSSSCCHHHHHHHHHHHTSSEECTTTCCEEEEESEEEEEEECCTTSTT
T ss_pred             --ccccCCccccCCCCCceEEEEecccccccccccCchhHHHHHHHHHhcCCEEEcCCCcEEEecCEEEEEecCCCccCC


Q ss_pred             ----hhhhcCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHh
Q 048064          227 ----VLRNCHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYA  276 (429)
Q Consensus       227 ----~~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~  276 (429)
                          -....+....+.++..+.++-..+|.......-...+.....+..++..+
T Consensus      1399 R~~l~~rllRrf~vi~i~~P~~~~l~~I~~~il~~~l~~~~~v~~~~~~lv~at 1452 (2695)
T 4akg_A         1399 RIPMSERFTRHAAILYLGYPSGKSLSQIYEIYYKAIFKLVPEFRSYTEPFARAS 1452 (2695)
T ss_dssp             CCCCCHHHHTTEEEEECCCCTTTHHHHHHHHHHHHHTTSSGGGGGGHHHHHHHH
T ss_pred             CccCChhhhheeeEEEeCCCCHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHH

>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=95.19  E-value=0.019  Score=54.12  Aligned_cols=37  Identities=24%  Similarity=0.340  Sum_probs=29.8

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEe
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLE  144 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  144 (429)
                      ...++.|+|++|+||||||.+++......-..++|+.
T Consensus        73 ~G~li~I~G~pGsGKTtlal~la~~~~~~g~~vlyi~  109 (366)
T 1xp8_A           73 RGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFID  109 (366)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCcEEEEEcCCCCChHHHHHHHHHHHHHCCCeEEEEE
Confidence            6779999999999999999999987755444455554

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=95.16  E-value=0.022  Score=55.24  Aligned_cols=37  Identities=19%  Similarity=0.034  Sum_probs=29.4

Q ss_pred             cCCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEE
Q 048064          107 GAAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFL  143 (429)
Q Consensus       107 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  143 (429)
                      ....++.|.|.+|+||||||.+++.....+-..++|+
T Consensus       195 ~~G~liiIaG~pG~GKTtlal~ia~~~a~~g~~vl~f  231 (444)
T 3bgw_A          195 KRRNFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLH  231 (444)
T ss_dssp             CSSCEEEEEECSSSSHHHHHHHHHHHHHHTTCEEEEE
T ss_pred             CCCcEEEEEeCCCCChHHHHHHHHHHHHHcCCEEEEE
Confidence            3678999999999999999999999876553344444

>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=95.16  E-value=0.011  Score=51.18  Aligned_cols=23  Identities=26%  Similarity=0.345  Sum_probs=20.7

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHH
Q 048064          109 APLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ..+|+|.|+.|+||||+++.++.
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            35799999999999999999876

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=95.13  E-value=0.019  Score=53.09  Aligned_cols=29  Identities=24%  Similarity=0.282  Sum_probs=25.2

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ..++++|+|++|+||||++..++..+...
T Consensus       104 ~~~vI~ivG~~G~GKTT~~~~LA~~l~~~  132 (320)
T 1zu4_A          104 RLNIFMLVGVNGTGKTTSLAKMANYYAEL  132 (320)
T ss_dssp             SCEEEEEESSTTSSHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            45689999999999999999999887654

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=95.11  E-value=0.035  Score=52.14  Aligned_cols=29  Identities=28%  Similarity=0.414  Sum_probs=25.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ...+|+|+|.+|+|||||+..++..+...
T Consensus        78 ~~~~I~i~G~~G~GKSTl~~~L~~~l~~~  106 (355)
T 3p32_A           78 NAHRVGITGVPGVGKSTAIEALGMHLIER  106 (355)
T ss_dssp             CSEEEEEECCTTSSHHHHHHHHHHHHHTT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHHHhC
Confidence            56789999999999999999998876544

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=95.08  E-value=0.01  Score=49.54  Aligned_cols=26  Identities=27%  Similarity=0.378  Sum_probs=23.1

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      ++++|+|+.|+|||||++.+...+..
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~~~   28 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPILRE   28 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhhh
Confidence            57999999999999999999887654

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=95.05  E-value=0.019  Score=53.83  Aligned_cols=29  Identities=28%  Similarity=0.398  Sum_probs=24.8

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ...+++|+|+.|+||||+++.++..+...
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            35689999999999999999999876543

>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=94.95  E-value=0.035  Score=51.93  Aligned_cols=27  Identities=15%  Similarity=0.213  Sum_probs=24.0

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ...++.|+|++|+||||||.+++....
T Consensus       121 ~G~i~~I~G~~GsGKTtla~~la~~~~  147 (343)
T 1v5w_A          121 SMAITEAFGEFRTGKTQLSHTLCVTAQ  147 (343)
T ss_dssp             SSEEEEEECCTTCTHHHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            567899999999999999999998753

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=94.93  E-value=0.021  Score=52.50  Aligned_cols=27  Identities=33%  Similarity=0.425  Sum_probs=23.8

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ...+++|.|+.|+|||||++.+...+.
T Consensus        79 ~g~iigI~G~~GsGKSTl~~~L~~~l~  105 (308)
T 1sq5_A           79 IPYIISIAGSVAVGKSTTARVLQALLS  105 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            456899999999999999999988764

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=94.92  E-value=0.013  Score=53.29  Aligned_cols=23  Identities=39%  Similarity=0.642  Sum_probs=20.8

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHH
Q 048064          109 APLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ..+|+|.|++|+||||+|+.+..
T Consensus        75 ~~iI~I~G~~GSGKSTva~~La~   97 (281)
T 2f6r_A           75 LYVLGLTGISGSGKSSVAQRLKN   97 (281)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999999983

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=94.91  E-value=0.0078  Score=60.78  Aligned_cols=44  Identities=18%  Similarity=0.087  Sum_probs=34.7

Q ss_pred             CcccchhhHHHHHHHhhcCCC-------------EEEEEcCCCcchHHHHHHHHHHh
Q 048064           90 NELVGVESRVEEIQSLLGAAP-------------LLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~~~~-------------~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ..++|.+...+.+...+.+..             .+.++|++|+|||+||+.+++..
T Consensus       295 ~~I~G~e~vk~al~~~l~~g~~~~~~~~~~r~~~~vLL~GppGtGKT~LAr~la~~~  351 (595)
T 3f9v_A          295 PSIYGHWELKEALALALFGGVPKVLEDTRIRGDIHILIIGDPGTAKSQMLQFISRVA  351 (595)
T ss_dssp             STTSCCHHHHHHHTTTTTCCCCEETTTTEECCSCCEEEEESSCCTHHHHHHSSSTTC
T ss_pred             chhcChHHHHHHHHHHHhCCCcccccCCCcCCCcceEEECCCchHHHHHHHHHHHhC
Confidence            568999987777655554332             69999999999999999988754

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=94.89  E-value=0.014  Score=53.49  Aligned_cols=23  Identities=30%  Similarity=0.414  Sum_probs=21.0

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      .+|.|.|++|+||||+|+.++.+
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

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=94.88  E-value=0.027  Score=50.20  Aligned_cols=27  Identities=26%  Similarity=0.306  Sum_probs=23.8

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ...++.+.|.||+||||++..++..+.
T Consensus        13 ~~~i~~~~GkgGvGKTTl~~~La~~l~   39 (262)
T 1yrb_A           13 ASMIVVFVGTAGSGKTTLTGEFGRYLE   39 (262)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            356788999999999999999998776

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=94.87  E-value=0.014  Score=51.48  Aligned_cols=24  Identities=29%  Similarity=0.444  Sum_probs=21.9

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ...+++|.|+.|+|||||.+.++.
T Consensus        30 ~Ge~~~iiG~nGsGKSTLl~~l~G   53 (235)
T 3tif_A           30 EGEFVSIMGPSGSGKSTMLNIIGC   53 (235)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhc
Confidence            577999999999999999998875

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=94.85  E-value=0.026  Score=53.31  Aligned_cols=26  Identities=23%  Similarity=0.136  Sum_probs=23.6

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ....++|+|++|+|||||++.++...
T Consensus       168 ~~~~i~l~G~~GsGKSTl~~~l~~~~  193 (377)
T 1svm_A          168 KKRYWLFKGPIDSGKTTLAAALLELC  193 (377)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            66799999999999999999999764

>3vr4_D V-type sodium ATPase subunit D; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_D* 3vr2_D* 3vr5_D 3vr6_D*

Probab=94.84  E-value=0.043  Score=52.67  Aligned_cols=28  Identities=14%  Similarity=0.201  Sum_probs=24.4

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      ..+.++|.|.+|+|||+|+.++++....
T Consensus       150 rGQr~~Ifgg~G~GKt~L~~~Ia~~~~~  177 (465)
T 3vr4_D          150 RGQKLPVFSGSGLPHKELAAQIARQATV  177 (465)
T ss_dssp             TTCBCCEEECTTSCHHHHHHHHHHHCBC
T ss_pred             cCCEEEEeCCCCcChHHHHHHHHHHHHh
Confidence            6677899999999999999999987654

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=94.83  E-value=0.016  Score=54.99  Aligned_cols=26  Identities=19%  Similarity=0.416  Sum_probs=23.0

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      .++|+|.|++|+||||||..++.++.
T Consensus         2 ~~~i~i~GptgsGKttla~~La~~~~   27 (409)
T 3eph_A            2 KKVIVIAGTTGVGKSQLSIQLAQKFN   27 (409)
T ss_dssp             CEEEEEEECSSSSHHHHHHHHHHHHT
T ss_pred             CcEEEEECcchhhHHHHHHHHHHHCC
Confidence            45789999999999999999998763

>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=94.82  E-value=0.025  Score=51.75  Aligned_cols=26  Identities=15%  Similarity=0.266  Sum_probs=23.9

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ....++|+|+.|.|||||++.++.-+
T Consensus       125 ~Ge~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          125 KKNCLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             TCSEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhhhc
Confidence            77899999999999999999988765

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=94.79  E-value=0.015  Score=50.11  Aligned_cols=26  Identities=23%  Similarity=0.167  Sum_probs=23.0

Q ss_pred             cCCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          107 GAAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       107 ~~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ....+++|.|+.|+|||||++.++.-
T Consensus        20 ~~Ge~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           20 DTNTIVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             HHCSEEEEECCTTSSTTHHHHHHHHH
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            35789999999999999999998865

>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=94.79  E-value=0.016  Score=56.03  Aligned_cols=28  Identities=32%  Similarity=0.408  Sum_probs=24.4

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      +++|+|+|++|+||||++..++..+...
T Consensus        99 ~~vI~ivG~~GvGKTTla~~La~~l~~~  126 (432)
T 2v3c_C           99 QNVILLVGIQGSGKTTTAAKLARYIQKR  126 (432)
T ss_dssp             CCCEEEECCSSSSTTHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            3589999999999999999999877644

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=94.79  E-value=0.014  Score=51.01  Aligned_cols=25  Identities=24%  Similarity=0.349  Sum_probs=22.3

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ...+++|.|+.|+|||||.+.++.-
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            6679999999999999999988763

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=94.74  E-value=0.015  Score=56.06  Aligned_cols=26  Identities=19%  Similarity=0.238  Sum_probs=23.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ...+|.|+|++|+||||+|+.++.+.
T Consensus       257 ~~~lIil~G~pGSGKSTla~~L~~~~  282 (416)
T 3zvl_A          257 NPEVVVAVGFPGAGKSTFIQEHLVSA  282 (416)
T ss_dssp             SCCEEEEESCTTSSHHHHHHHHTGGG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhc
Confidence            46789999999999999999998764

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=94.71  E-value=0.02  Score=50.19  Aligned_cols=28  Identities=25%  Similarity=0.515  Sum_probs=24.8

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      ....|+|.|++|+||||+++.+++.+..
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            3568999999999999999999998765

>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=94.70  E-value=0.016  Score=51.10  Aligned_cols=26  Identities=19%  Similarity=0.465  Sum_probs=23.0

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ...+++|+|+.|+|||||++.++.-+
T Consensus        30 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           30 EGALVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTCS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            67799999999999999999988643

>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=94.69  E-value=0.03  Score=51.16  Aligned_cols=28  Identities=29%  Similarity=0.230  Sum_probs=24.5

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ..+++|+|++|+||||++..++..+...
T Consensus        98 ~~~i~i~g~~G~GKTT~~~~la~~~~~~  125 (295)
T 1ls1_A           98 RNLWFLVGLQGSGKTTTAAKLALYYKGK  125 (295)
T ss_dssp             SEEEEEECCTTTTHHHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            5689999999999999999999877654

>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=94.67  E-value=0.063  Score=53.02  Aligned_cols=52  Identities=10%  Similarity=0.007  Sum_probs=36.2

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcC-cceeEEEeechhhhhhcCCHHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRN-FKGSCFLENIREESQKAGGLAFLQQKLLSE  166 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~  166 (429)
                      ...++.|.|.+|+||||||.+++...... -..++|++ .      ......+...++..
T Consensus       241 ~G~l~li~G~pG~GKT~lal~~a~~~a~~~g~~vl~~s-~------E~s~~~l~~r~~~~  293 (503)
T 1q57_A          241 GGEVIMVTSGSGMVMSTFVRQQALQWGTAMGKKVGLAM-L------EESVEETAEDLIGL  293 (503)
T ss_dssp             TTCEEEEEESSCHHHHHHHHHHHHHHTTTSCCCEEEEE-S------SSCHHHHHHHHHHH
T ss_pred             CCeEEEEeecCCCCchHHHHHHHHHHHHhcCCcEEEEe-c------cCCHHHHHHHHHHH
Confidence            56789999999999999999999987654 33445543 2      23345555555443

>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=94.67  E-value=0.022  Score=53.36  Aligned_cols=27  Identities=22%  Similarity=0.367  Sum_probs=24.5

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ...++.|+|++|+|||||+..++....
T Consensus       130 ~G~i~~I~G~~GsGKTTL~~~l~~~~~  156 (349)
T 1pzn_A          130 TQAITEVFGEFGSGKTQLAHTLAVMVQ  156 (349)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            678999999999999999999998763

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=94.67  E-value=0.019  Score=50.72  Aligned_cols=24  Identities=21%  Similarity=0.248  Sum_probs=21.9

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      . .+++|.|+.|+|||||.+.++.-
T Consensus        24 ~-e~~~liG~nGsGKSTLl~~l~Gl   47 (240)
T 2onk_A           24 R-DYCVLLGPTGAGKSVFLELIAGI   47 (240)
T ss_dssp             S-SEEEEECCTTSSHHHHHHHHHTS
T ss_pred             C-EEEEEECCCCCCHHHHHHHHhCC
Confidence            6 88999999999999999998863

>2c61_A A-type ATP synthase non-catalytic subunit B; hydrolase, H+ ATPase, A1AO, ATP synthesis, hydrogen ION transport, ION transport; 1.5A {Methanosarcina mazei GO1} PDB: 3dsr_A* 3b2q_A* 2rkw_A* 3eiu_A*

Probab=94.62  E-value=0.045  Score=52.82  Aligned_cols=86  Identities=15%  Similarity=0.154  Sum_probs=49.4

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCc---ceeEEEeechhhhhhcCCHHHHHHHHHHHHhcC-------CCCCCCH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNF---KGSCFLENIREESQKAGGLAFLQQKLLSEVLKD-------VNVIPHI  177 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f---~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-------~~~~~~~  177 (429)
                      ..+.++|.|.+|+|||+|+..+++....+.   ...+.+..+.+..   .....+.+.+...-...       ....+..
T Consensus       151 rGQr~~Ifgg~G~GKt~Ll~~Ia~~~~~n~~~~~~~~V~~~iGER~---~Ev~e~~~~~~~~g~m~rtvvV~~tsd~p~~  227 (469)
T 2c61_A          151 RGQKLPIFSASGLPHNEIALQIARQASVPGSESAFAVVFAAMGITN---EEAQYFMSDFEKTGALERAVVFLNLADDPAV  227 (469)
T ss_dssp             TTCBCCEEECTTSCHHHHHHHHHHHCBCTTCSSCEEEEEEEEEECH---HHHHHHHHHHHHHSGGGGEEEEEEETTSCHH
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHHHhhccCCCCcEEEEEEccCCc---HHHHHHHHHHHhccCccceEEEEECCCCCHH
Confidence            677889999999999999999998764322   1334444344322   22444555554321111       0111111


Q ss_pred             HH---------HHHHh---cCCcEEEEecCC
Q 048064          178 DL---------NFRRL---SCRKVLIVLDDV  196 (429)
Q Consensus       178 ~~---------l~~~l---~~~~~LlVlDdv  196 (429)
                      ..         +.+++   .++.+||++||+
T Consensus       228 ~r~~~~~~a~tiAEyfrdd~G~dVLl~~Dsl  258 (469)
T 2c61_A          228 ERIVTPRMALTAAEYLAYEHGMHVLVILTDI  258 (469)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCCEEEEEEECH
T ss_pred             HHHHHHHHHHHHHHHHHHhcCCeEEEEEeCH
Confidence            11         33344   468999999997

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=94.61  E-value=0.024  Score=49.84  Aligned_cols=26  Identities=27%  Similarity=0.380  Sum_probs=23.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ...+|+|.|+.|+||||+++.++..+
T Consensus        15 ~~~~i~i~G~~gsGKst~~~~l~~~l   40 (236)
T 1q3t_A           15 KTIQIAIDGPASSGKSTVAKIIAKDF   40 (236)
T ss_dssp             CCCEEEEECSSCSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            45689999999999999999998865

>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=94.58  E-value=0.052  Score=51.77  Aligned_cols=26  Identities=12%  Similarity=0.231  Sum_probs=22.8

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ...++.|+|++|+|||||+..++-..
T Consensus       177 ~Gei~~I~G~sGsGKTTLl~~la~~~  202 (400)
T 3lda_A          177 TGSITELFGEFRTGKSQLCHTLAVTC  202 (400)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCcEEEEEcCCCCChHHHHHHHHHHh
Confidence            67899999999999999999887543

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=94.57  E-value=0.038  Score=46.49  Aligned_cols=25  Identities=24%  Similarity=0.284  Sum_probs=21.7

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ....|+|+|.+|+|||||...+...
T Consensus        47 ~~~~i~vvG~~g~GKSsll~~l~~~   71 (193)
T 2ged_A           47 YQPSIIIAGPQNSGKTSLLTLLTTD   71 (193)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3457999999999999999998864

>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=94.57  E-value=0.022  Score=50.73  Aligned_cols=25  Identities=20%  Similarity=0.474  Sum_probs=22.6

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ...+++|.|+.|+|||||++.++.-
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            6779999999999999999998873

>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=94.54  E-value=0.018  Score=51.94  Aligned_cols=24  Identities=25%  Similarity=0.387  Sum_probs=22.0

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ...+++|.|+.|+|||||++.++-
T Consensus        33 ~Ge~~~iiGpnGsGKSTLl~~l~G   56 (275)
T 3gfo_A           33 RGEVTAILGGNGVGKSTLFQNFNG   56 (275)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHc
Confidence            678999999999999999998876

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=94.53  E-value=0.018  Score=51.59  Aligned_cols=25  Identities=36%  Similarity=0.445  Sum_probs=22.4

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ...+++|.|+.|+|||||.+.++.-
T Consensus        31 ~Ge~~~liG~nGsGKSTLlk~l~Gl   55 (262)
T 1b0u_A           31 AGDVISIIGSSGSGKSTFLRCINFL   55 (262)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            6779999999999999999988763

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=94.51  E-value=0.033  Score=49.94  Aligned_cols=36  Identities=25%  Similarity=0.392  Sum_probs=27.0

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeec
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENI  146 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~  146 (429)
                      ++|+|.|-||+||||+|..++..+...-. .+.+.++
T Consensus         2 ~vI~vs~KGGvGKTT~a~nLA~~la~~G~-~VlliD~   37 (269)
T 1cp2_A            2 RQVAIYGKGGIGKSTTTQNLTSGLHAMGK-TIMVVGC   37 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHTTTC-CEEEEEE
T ss_pred             cEEEEecCCCCcHHHHHHHHHHHHHHCCC-cEEEEcC
Confidence            46788999999999999999998875533 3333334

>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=94.50  E-value=0.017  Score=50.10  Aligned_cols=25  Identities=32%  Similarity=0.500  Sum_probs=22.4

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ...+++|.|+.|+|||||++.++.-
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            6678999999999999999998764

>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=94.49  E-value=0.019  Score=51.60  Aligned_cols=25  Identities=28%  Similarity=0.530  Sum_probs=22.5

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ...+++|.|+.|.|||||++.++.-
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            6789999999999999999988763

>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=94.48  E-value=0.019  Score=50.68  Aligned_cols=24  Identities=29%  Similarity=0.434  Sum_probs=22.0

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ...+++|.|+.|+|||||.+.++.
T Consensus        31 ~Ge~~~l~G~nGsGKSTLl~~l~G   54 (240)
T 1ji0_A           31 RGQIVTLIGANGAGKTTTLSAIAG   54 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhC
Confidence            667999999999999999998876

>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=94.48  E-value=0.02  Score=50.27  Aligned_cols=26  Identities=31%  Similarity=0.535  Sum_probs=23.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ...+++|.|+.|.|||||.+.++.-+
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            67799999999999999999988753

>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=94.44  E-value=0.02  Score=51.19  Aligned_cols=25  Identities=32%  Similarity=0.340  Sum_probs=22.4

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ...+++|.|+.|+|||||.+.++.-
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            6679999999999999999988763

>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=94.44  E-value=0.024  Score=51.01  Aligned_cols=25  Identities=28%  Similarity=0.476  Sum_probs=22.7

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ...+++|.|+.|+|||||++.++.-
T Consensus        45 ~Ge~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           45 PGEVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            6779999999999999999998874

>3gqb_B V-type ATP synthase beta chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_D* 3a5d_D 3j0j_D*

Probab=94.43  E-value=0.057  Score=51.82  Aligned_cols=27  Identities=22%  Similarity=0.251  Sum_probs=23.9

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ..+.++|.|.+|+|||+|+.++++...
T Consensus       146 rGQr~~Ifgg~G~GKt~L~~~Ia~~~~  172 (464)
T 3gqb_B          146 RGQKLPIFSGSGLPANEIAAQIARQAT  172 (464)
T ss_dssp             TTCBCCEEEETTSCHHHHHHHHHHHCB
T ss_pred             cCCEEEEecCCCCCchHHHHHHHHHHH
Confidence            677889999999999999999988754

>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=94.43  E-value=0.02  Score=50.81  Aligned_cols=25  Identities=32%  Similarity=0.561  Sum_probs=22.4

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ...+++|.|+.|+|||||++.++.-
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            6789999999999999999988763

>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=94.43  E-value=0.046  Score=51.06  Aligned_cols=28  Identities=29%  Similarity=0.328  Sum_probs=24.5

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      ...+++|+|.+|+|||||+..++..+..
T Consensus        55 ~~~~i~i~G~~g~GKSTl~~~l~~~~~~   82 (341)
T 2p67_A           55 NTLRLGVTGTPGAGKSTFLEAFGMLLIR   82 (341)
T ss_dssp             CSEEEEEEECTTSCHHHHHHHHHHHHHH
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHh
Confidence            6778999999999999999999876643

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=94.43  E-value=0.021  Score=50.45  Aligned_cols=26  Identities=23%  Similarity=0.316  Sum_probs=23.2

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      +..|+|.|..|+||||+++.+++.+.
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            45799999999999999999998764

>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=94.40  E-value=0.022  Score=48.15  Aligned_cols=23  Identities=17%  Similarity=0.250  Sum_probs=20.6

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      -.++|+|++|+|||||.+.+...
T Consensus        30 ~kv~lvG~~g~GKSTLl~~l~~~   52 (191)
T 1oix_A           30 FKVVLIGDSGVGKSNLLSRFTRN   52 (191)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHhcC
Confidence            46899999999999999998874

>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=94.39  E-value=0.021  Score=51.24  Aligned_cols=25  Identities=24%  Similarity=0.316  Sum_probs=22.5

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ...+++|.|+.|+|||||++.++.-
T Consensus        49 ~Gei~~liG~NGsGKSTLlk~l~Gl   73 (263)
T 2olj_A           49 EGEVVVVIGPSGSGKSTFLRCLNLL   73 (263)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEEcCCCCcHHHHHHHHHcC
Confidence            6779999999999999999988763

>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=94.37  E-value=0.037  Score=50.28  Aligned_cols=38  Identities=21%  Similarity=0.336  Sum_probs=28.0

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeech
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIR  147 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~  147 (429)
                      .++|+|.|-||+||||+|..++..+...- ..+.+.++.
T Consensus         2 MkvIavs~KGGvGKTT~a~nLA~~La~~G-~rVlliD~D   39 (289)
T 2afh_E            2 MRQCAIYGKGGIGKSTTTQNLVAALAEMG-KKVMIVGCD   39 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHHHTT-CCEEEEEEC
T ss_pred             ceEEEEeCCCcCcHHHHHHHHHHHHHHCC-CeEEEEecC
Confidence            35788899999999999999999876542 334443343

>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=94.35  E-value=0.06  Score=51.64  Aligned_cols=36  Identities=17%  Similarity=0.266  Sum_probs=28.0

Q ss_pred             HHHHhhc-CCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          101 EIQSLLG-AAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       101 ~l~~~l~-~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      .+.+.+. ...+++|+|+.|+|||||.+.++..+...
T Consensus       158 ~L~~l~~~~ggii~I~GpnGSGKTTlL~allg~l~~~  194 (418)
T 1p9r_A          158 NFRRLIKRPHGIILVTGPTGSGKSTTLYAGLQELNSS  194 (418)
T ss_dssp             HHHHHHTSSSEEEEEECSTTSCHHHHHHHHHHHHCCT
T ss_pred             HHHHHHHhcCCeEEEECCCCCCHHHHHHHHHhhcCCC
Confidence            3444444 56689999999999999999999876543

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=94.34  E-value=0.047  Score=50.88  Aligned_cols=28  Identities=29%  Similarity=0.428  Sum_probs=24.4

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      ...+++|.|++|+|||||.+.++..+..
T Consensus        54 ~g~~v~i~G~~GaGKSTLl~~l~g~~~~   81 (337)
T 2qm8_A           54 RAIRVGITGVPGVGKSTTIDALGSLLTA   81 (337)
T ss_dssp             CSEEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhhhh
Confidence            6778999999999999999999876543

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=94.33  E-value=0.022  Score=51.03  Aligned_cols=25  Identities=28%  Similarity=0.500  Sum_probs=22.6

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ...+++|+|+.|+|||||++.++.-
T Consensus        45 ~Ge~~~i~G~nGsGKSTLl~~l~Gl   69 (260)
T 2ghi_A           45 SGTTCALVGHTGSGKSTIAKLLYRF   69 (260)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcc
Confidence            6779999999999999999998764

>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=94.31  E-value=0.024  Score=48.27  Aligned_cols=22  Identities=18%  Similarity=0.318  Sum_probs=20.0

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      .++|.|++|+|||||.+.+...
T Consensus         7 kv~lvG~~g~GKSTLl~~l~~~   28 (199)
T 2f9l_A            7 KVVLIGDSGVGKSNLLSRFTRN   28 (199)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHhcC
Confidence            5899999999999999999874

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=94.30  E-value=0.046  Score=47.23  Aligned_cols=28  Identities=21%  Similarity=0.321  Sum_probs=24.8

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ...|+|.|+.|+||||+++.+++.+...
T Consensus         6 g~~i~~eG~~gsGKsT~~~~l~~~l~~~   33 (213)
T 4edh_A            6 GLFVTLEGPEGAGKSTNRDYLAERLRER   33 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHTT
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            4579999999999999999999988654

>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=94.28  E-value=0.023  Score=50.76  Aligned_cols=25  Identities=36%  Similarity=0.573  Sum_probs=22.4

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ...+++|.|+.|+|||||.+.++.-
T Consensus        40 ~Gei~~l~G~NGsGKSTLlk~l~Gl   64 (256)
T 1vpl_A           40 EGEIFGLIGPNGAGKTTTLRIISTL   64 (256)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcC
Confidence            6679999999999999999998763

>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=94.24  E-value=0.02  Score=50.64  Aligned_cols=24  Identities=25%  Similarity=0.372  Sum_probs=21.9

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ...+++|+|+.|+|||||++.++.
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~G   50 (243)
T 1mv5_A           27 PNSIIAFAGPSGGGKSTIFSLLER   50 (243)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            567899999999999999999876

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=94.24  E-value=0.023  Score=51.17  Aligned_cols=25  Identities=28%  Similarity=0.440  Sum_probs=22.5

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ...+++|.|+.|+|||||++.++.-
T Consensus        44 ~Ge~~~i~G~nGsGKSTLlk~l~Gl   68 (271)
T 2ixe_A           44 PGKVTALVGPNGSGKSTVAALLQNL   68 (271)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            6779999999999999999988763

>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=94.24  E-value=0.054  Score=50.06  Aligned_cols=26  Identities=23%  Similarity=0.267  Sum_probs=23.5

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ...++.|+|++|+|||+||.+++...
T Consensus        97 ~g~i~~i~G~~gsGKT~la~~la~~~  122 (322)
T 2i1q_A           97 SQSVTEFAGVFGSGKTQIMHQSCVNL  122 (322)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            66789999999999999999999764

>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=94.23  E-value=0.024  Score=50.41  Aligned_cols=26  Identities=27%  Similarity=0.377  Sum_probs=22.9

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ...+++|.|+.|+|||||.+.++.-+
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            56789999999999999999987654

>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=94.16  E-value=0.028  Score=46.14  Aligned_cols=22  Identities=23%  Similarity=0.320  Sum_probs=19.9

Q ss_pred             CEEEEEcCCCcchHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ..|+|.|.+|+|||||...+..
T Consensus         4 ~~v~lvG~~gvGKStL~~~l~~   25 (165)
T 2wji_A            4 YEIALIGNPNVGKSTIFNALTG   25 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHC
T ss_pred             cEEEEECCCCCCHHHHHHHHhC
Confidence            3589999999999999999876

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=94.15  E-value=0.025  Score=50.41  Aligned_cols=25  Identities=24%  Similarity=0.526  Sum_probs=22.6

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ...+++|.|+.|+|||||.+.++.-
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            6779999999999999999998864

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=94.14  E-value=0.028  Score=46.50  Aligned_cols=25  Identities=24%  Similarity=0.307  Sum_probs=22.3

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ..+-+.|.|++|+||||+|.++..+
T Consensus        15 ~G~gvli~G~SGaGKStlal~L~~r   39 (181)
T 3tqf_A           15 DKMGVLITGEANIGKSELSLALIDR   39 (181)
T ss_dssp             TTEEEEEEESSSSSHHHHHHHHHHT
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHc
Confidence            4567999999999999999999885

>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=94.14  E-value=0.021  Score=47.88  Aligned_cols=21  Identities=38%  Similarity=0.460  Sum_probs=19.3

Q ss_pred             EEEEEcCCCcchHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      -|+|+|.+|+|||||...++.
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            589999999999999999876

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=94.13  E-value=0.025  Score=50.79  Aligned_cols=25  Identities=24%  Similarity=0.323  Sum_probs=22.3

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ...+++|.|+.|+|||||.+.++.-
T Consensus        32 ~Ge~~~liG~nGsGKSTLl~~i~Gl   56 (266)
T 2yz2_A           32 EGECLLVAGNTGSGKSTLLQIVAGL   56 (266)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCC
Confidence            5679999999999999999988763

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=94.10  E-value=0.026  Score=51.11  Aligned_cols=25  Identities=24%  Similarity=0.428  Sum_probs=22.6

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ...+++|.|+.|+|||||.+.++.-
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            6779999999999999999988764

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=94.09  E-value=0.029  Score=45.53  Aligned_cols=23  Identities=17%  Similarity=0.330  Sum_probs=20.3

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      +.|+|.|.+|+|||||+..+...
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            45899999999999999998864

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=94.08  E-value=0.034  Score=47.65  Aligned_cols=26  Identities=15%  Similarity=0.153  Sum_probs=23.6

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ..+|+|.|+.|+||||+++.+++++.
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            46899999999999999999999874

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=94.08  E-value=0.13  Score=43.65  Aligned_cols=33  Identities=21%  Similarity=0.309  Sum_probs=26.4

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHhhcCcceeEEE
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRISRNFKGSCFL  143 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  143 (429)
                      .|+|-|.-|+||||.++.+++.+......+++.
T Consensus         2 fI~~EG~DGsGKsTq~~~L~~~L~~~g~~v~~t   34 (197)
T 3hjn_A            2 FITFEGIDGSGKSTQIQLLAQYLEKRGKKVILK   34 (197)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEE
Confidence            478899999999999999999887664444443

>2axn_A 6-phosphofructo-2-kinase/fructose-2,6- biphosphatase 3 (6PF-2-K/FRU- 2,6-P2ASE brain/placenta-type...; bifunctional enzyme, EDTA complex; HET: F6P EDT ADP; 2.10A {Homo sapiens} PDB: 2dwo_A* 2dwp_A* 2i1v_B* 3qpu_A* 3qpv_A* 3qpw_A*

Probab=94.06  E-value=0.045  Score=54.24  Aligned_cols=30  Identities=17%  Similarity=0.205  Sum_probs=25.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCc
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNF  137 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f  137 (429)
                      ...+|.++|++|.||||+|+.++..+.-.+
T Consensus        34 ~~~lIvlvGlpGSGKSTia~~La~~L~~~~   63 (520)
T 2axn_A           34 SPTVIVMVGLPARGKTYISKKLTRYLNWIG   63 (520)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhhcC
Confidence            456899999999999999999998765433

>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=94.04  E-value=0.55  Score=46.56  Aligned_cols=39  Identities=18%  Similarity=0.194  Sum_probs=29.1

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcCc---ceeEEEeech
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRNF---KGSCFLENIR  147 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f---~~~~~~~~~~  147 (429)
                      .+.+.|.|.+|+|||++++.+...+...+   ...+++.+..
T Consensus       214 ~pHlLIaG~TGSGKS~~L~tlI~sLl~~~sP~ev~lilIDpK  255 (574)
T 2iut_A          214 MPHLLVAGTTGSGKSVGVNAMLLSILFKSTPSEARLIMIDPK  255 (574)
T ss_dssp             SCCEEEECCTTSSHHHHHHHHHHHHHTTCCTTTEEEEEECSS
T ss_pred             CCeeEEECCCCCCHHHHHHHHHHHHHHhCCCcceEEEEeCCC
Confidence            46799999999999999999888765433   2456665544

>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=94.03  E-value=0.065  Score=46.60  Aligned_cols=107  Identities=8%  Similarity=-0.006  Sum_probs=55.0

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCc
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRK  188 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~  188 (429)
                      ..+..++|+-|.||||.+...+.+....-..++.+.....  . ..+ ..+...+......  .......++.... +.-
T Consensus        19 g~l~v~~G~MgsGKTT~lL~~~~r~~~~g~kvli~kp~~D--~-Ryg-~~i~sr~G~~~~a--~~i~~~~di~~~~-~~~   91 (234)
T 2orv_A           19 GQIQVILGPMFSGKSTELMRRVRRFQIAQYKCLVIKYAKD--T-RYS-SSFCTHDRNTMEA--LPACLLRDVAQEA-LGV   91 (234)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHHHTTTCCEEEEEETTC--C-CC------------CEE--EEESSGGGGHHHH-TTC
T ss_pred             eEEEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEeecCC--c-cch-HHHHhhcCCeeEE--EecCCHHHHHHHh-ccC
Confidence            4678999999999999988888877655443443332211  1 222 3333333111110  0011222333333 233


Q ss_pred             EEEEecCCCCHHHHHHHhccCCCCCCCCEEEEEeCC
Q 048064          189 VLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRN  224 (429)
Q Consensus       189 ~LlVlDdv~~~~~~~~l~~~l~~~~~~~~iiiTtR~  224 (429)
                      -+|++|++.-.....++...+..  .|..||+|.++
T Consensus        92 dvViIDEaQF~~~v~el~~~l~~--~gi~VI~~GL~  125 (234)
T 2orv_A           92 AVIGIDEGQFFPDIVEFCEAMAN--AGKTVIVAALD  125 (234)
T ss_dssp             SEEEESSGGGCTTHHHHHHHHHH--TTCEEEEECCS
T ss_pred             CEEEEEchhhhhhHHHHHHHHHh--CCCEEEEEecc
Confidence            49999998522224444444332  57789999998

>4hlc_A DTMP kinase, thymidylate kinase; TMK, MRSA, pipiridine, transfera transferase inhibitor complex; HET: T05; 1.55A {Staphylococcus aureus subsp} PDB: 2cck_A 4gfd_A* 4gsy_A* 4hdc_A* 4hej_A* 2ccj_A* 4hld_A* 2ccg_A*

Probab=94.02  E-value=0.052  Score=46.59  Aligned_cols=29  Identities=24%  Similarity=0.582  Sum_probs=25.0

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhhcCcc
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRISRNFK  138 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~  138 (429)
                      ..|+|-|.-|+||||+++.+++.+...++
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            46899999999999999999998865544

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=94.01  E-value=0.03  Score=48.41  Aligned_cols=25  Identities=28%  Similarity=0.371  Sum_probs=22.1

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      +.+|+|.|+.|+||||+++.++..+
T Consensus         3 ~~~i~i~G~~gsGkst~~~~l~~~~   27 (219)
T 2h92_A            3 AINIALDGPAAAGKSTIAKRVASEL   27 (219)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc
Confidence            3479999999999999999998865

>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A

Probab=93.98  E-value=0.053  Score=52.02  Aligned_cols=28  Identities=29%  Similarity=0.230  Sum_probs=24.6

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ..+++|+|++|+||||++..++..+...
T Consensus        98 ~~vi~i~G~~GsGKTT~~~~LA~~l~~~  125 (425)
T 2ffh_A           98 RNLWFLVGLQGSGKTTTAAKLALYYKGK  125 (425)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHHHTT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            5689999999999999999999887654

>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=93.96  E-value=0.077  Score=51.65  Aligned_cols=27  Identities=33%  Similarity=0.230  Sum_probs=22.3

Q ss_pred             CCCEEEEEcCCCcchHHHHH-HHHHHhh
Q 048064          108 AAPLLGIWGIGGIGKTTIAR-VIFNRIS  134 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~-~~~~~~~  134 (429)
                      ..+.++|.|.+|+|||+||. .++++..
T Consensus       161 rGQR~~I~g~~g~GKT~Lal~~I~~q~~  188 (510)
T 2ck3_A          161 RGQRELIIGDRQTGKTSIAIDTIINQKR  188 (510)
T ss_dssp             TTCBCEEEESTTSSHHHHHHHHHHHTHH
T ss_pred             cCCEEEEecCCCCCchHHHHHHHHHHHh
Confidence            77889999999999999954 6666654

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii}

Probab=93.93  E-value=0.067  Score=49.99  Aligned_cols=36  Identities=19%  Similarity=0.301  Sum_probs=28.2

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhh--cCcceeEEE
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRIS--RNFKGSCFL  143 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~--~~f~~~~~~  143 (429)
                      ..+++.+.|.||+||||+|..++..+.  ..-..+..+
T Consensus        17 ~~~i~~~~gkGGvGKTt~a~~lA~~la~~~~g~~vlli   54 (348)
T 3io3_A           17 SLKWIFVGGKGGVGKTTTSSSVAVQLALAQPNEQFLLI   54 (348)
T ss_dssp             TCSEEEEECSTTSSHHHHHHHHHHHHHHHCTTSCEEEE
T ss_pred             CcEEEEEeCCCCCcHHHHHHHHHHHHHHhcCCCeEEEE
Confidence            468999999999999999999999887  443333333

>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=93.92  E-value=0.036  Score=46.38  Aligned_cols=26  Identities=27%  Similarity=0.418  Sum_probs=22.4

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ...+.+|+|+.|+|||||+..++.-+
T Consensus        25 ~~g~~~i~G~NGsGKStll~ai~~~l   50 (182)
T 3kta_A           25 SKGFTAIVGANGSGKSNIGDAILFVL   50 (182)
T ss_dssp             CSSEEEEEECTTSSHHHHHHHHHHHT
T ss_pred             CCCcEEEECCCCCCHHHHHHHHHHHH
Confidence            34589999999999999999988754

>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=93.91  E-value=0.033  Score=45.50  Aligned_cols=22  Identities=18%  Similarity=0.368  Sum_probs=19.8

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      .|+|+|.+|+|||||+..+...
T Consensus         7 ~i~v~G~~~~GKssl~~~l~~~   28 (168)
T 1z2a_A            7 KMVVVGNGAVGKSSMIQRYCKG   28 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECcCCCCHHHHHHHHHcC
Confidence            4789999999999999998874

>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=93.88  E-value=0.031  Score=45.35  Aligned_cols=22  Identities=27%  Similarity=0.567  Sum_probs=19.7

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      .|++.|.+|+|||||+..+...
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            4889999999999999998864

>3e2i_A Thymidine kinase; Zn-binding, ATP-binding, DNA synthesis, nucleotide-B transferase; HET: MSE; 2.01A {Staphylococcus aureus}

Probab=93.87  E-value=0.057  Score=46.38  Aligned_cols=104  Identities=14%  Similarity=0.037  Sum_probs=51.2

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcC-cceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCC--CCCCHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRN-FKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVN--VIPHIDLNFRRL  184 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--~~~~~~~l~~~l  184 (429)
                      ...+..|+|+-|.||||.+...+++.... ....++-.....        ......+.+.++....  ......++...+
T Consensus        27 ~G~I~vitG~M~sGKTT~Llr~~~r~~~~g~kvli~kp~~D~--------R~~~~~I~Sr~G~~~~a~~v~~~~di~~~i   98 (219)
T 3e2i_A           27 SGWIECITGSMFSGKSEELIRRLRRGIYAKQKVVVFKPAIDD--------RYHKEKVVSHNGNAIEAINISKASEIMTHD   98 (219)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEEC-------------------CBTTBCCEEEEESSGGGGGGSC
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHHHHcCCceEEEEeccCC--------cchhhhHHHhcCCceeeEEeCCHHHHHHHH
Confidence            46788999999999999665556655443 333333221211        1111123333332211  122233344444


Q ss_pred             cCCcEEEEecCCC--CHHHHHHHhccCCCCCCCCEEEEEe
Q 048064          185 SCRKVLIVLDDVT--CLNQIESLVGSLDRLLPESRILITT  222 (429)
Q Consensus       185 ~~~~~LlVlDdv~--~~~~~~~l~~~l~~~~~~~~iiiTt  222 (429)
                      .++...|++|++.  +.++.+.+....   ..|..||+..
T Consensus        99 ~~~~dvV~IDEaQFf~~~~v~~l~~la---~~gi~Vi~~G  135 (219)
T 3e2i_A           99 LTNVDVIGIDEVQFFDDEIVSIVEKLS---ADGHRVIVAG  135 (219)
T ss_dssp             CTTCSEEEECCGGGSCTHHHHHHHHHH---HTTCEEEEEE
T ss_pred             hcCCCEEEEechhcCCHHHHHHHHHHH---HCCCEEEEee
Confidence            5566799999985  333333333221   1366777754

>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=93.83  E-value=0.026  Score=51.74  Aligned_cols=24  Identities=38%  Similarity=0.659  Sum_probs=22.0

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ....++|+|+.|.|||||++.++.
T Consensus        79 ~Ge~vaivG~sGsGKSTLl~ll~g  102 (306)
T 3nh6_A           79 PGQTLALVGPSGAGKSTILRLLFR  102 (306)
T ss_dssp             TTCEEEEESSSCHHHHHHHHHHTT
T ss_pred             CCCEEEEECCCCchHHHHHHHHHc
Confidence            678999999999999999998876

>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=93.82  E-value=0.064  Score=47.11  Aligned_cols=29  Identities=31%  Similarity=0.534  Sum_probs=25.4

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ....|+|.|+.|+||||+++.+++.+...
T Consensus        26 ~~~~i~~eG~~GsGKsT~~~~l~~~l~~~   54 (236)
T 3lv8_A           26 NAKFIVIEGLEGAGKSTAIQVVVETLQQN   54 (236)
T ss_dssp             CCCEEEEEESTTSCHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            35789999999999999999999987654

>3kjh_A CO dehydrogenase/acetyl-COA synthase complex, accessory protein COOC; Zn-bound dimer, nickel binding protein, ATPase; 1.90A {Carboxydothermus hydrogenoformans} PDB: 3kjg_A* 3kje_A 3kji_A*

Probab=93.80  E-value=0.052  Score=47.84  Aligned_cols=34  Identities=26%  Similarity=0.523  Sum_probs=25.8

Q ss_pred             EEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeec
Q 048064          112 LGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENI  146 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~  146 (429)
                      |+|.|-||+||||+|..++..+...-. .+.+.++
T Consensus         3 I~vs~kGGvGKTt~a~~LA~~la~~g~-~VlliD~   36 (254)
T 3kjh_A            3 LAVAGKGGVGKTTVAAGLIKIMASDYD-KIYAVDG   36 (254)
T ss_dssp             EEEECSSSHHHHHHHHHHHHHHTTTCS-CEEEEEE
T ss_pred             EEEecCCCCCHHHHHHHHHHHHHHCCC-eEEEEeC
Confidence            667999999999999999998876543 3444334

>2oze_A ORF delta'; para, walker type atpases, DNA segregation, PSM19035, plasmid, DNA binding protein; HET: AGS EPE; 1.83A {Streptococcus pyogenes}

Probab=93.77  E-value=0.063  Score=48.87  Aligned_cols=38  Identities=21%  Similarity=0.411  Sum_probs=27.4

Q ss_pred             HHHHHHhhc-CCCEEEEEc---CCCcchHHHHHHHHHHhhcC
Q 048064           99 VEEIQSLLG-AAPLLGIWG---IGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus        99 ~~~l~~~l~-~~~~v~I~G---~~GiGKTtLa~~~~~~~~~~  136 (429)
                      +.++.+.+. ..++++|.+   -||+||||+|..++..+...
T Consensus        23 ~~~~~r~~~~~~~~i~v~~~s~KGGvGKTT~a~nLA~~la~~   64 (298)
T 2oze_A           23 LEELRRILSNKNEAIVILNNYFKGGVGKSKLSTMFAYLTDKL   64 (298)
T ss_dssp             HHHHHHHHHHHCSCEEEEECCSSSSSSHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhcCCCcEEEEEeccCCCCchHHHHHHHHHHHHHhC
Confidence            344444443 456777775   99999999999999887654

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=93.77  E-value=0.034  Score=50.05  Aligned_cols=23  Identities=26%  Similarity=0.534  Sum_probs=20.5

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHh
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      .++|+|+.|+|||||.+.++...
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            47899999999999999998753

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=93.76  E-value=0.039  Score=48.17  Aligned_cols=24  Identities=33%  Similarity=0.340  Sum_probs=21.7

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHh
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      -.++|.|++|+||||+|+.+++.+
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            458999999999999999999876

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B

Probab=93.72  E-value=0.15  Score=49.55  Aligned_cols=26  Identities=38%  Similarity=0.254  Sum_probs=21.8

Q ss_pred             CCCEEEEEcCCCcchHHHHH-HHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIAR-VIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~-~~~~~~  133 (429)
                      ..+.++|.|.+|+|||+||. .++++.
T Consensus       161 rGQR~~Ifg~~g~GKT~Lal~~I~~~~  187 (502)
T 2qe7_A          161 RGQRELIIGDRQTGKTTIAIDTIINQK  187 (502)
T ss_dssp             TTCBCEEEECSSSCHHHHHHHHHHGGG
T ss_pred             cCCEEEEECCCCCCchHHHHHHHHHhh
Confidence            77889999999999999965 666654

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=93.71  E-value=0.032  Score=46.67  Aligned_cols=23  Identities=22%  Similarity=0.312  Sum_probs=20.5

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ..|+|+|.+|+|||||...+...
T Consensus         8 ~~i~lvG~~gvGKStL~~~l~~~   30 (188)
T 2wjg_A            8 YEIALIGNPNVGKSTIFNALTGE   30 (188)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            36899999999999999999863

>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=93.70  E-value=0.037  Score=51.82  Aligned_cols=24  Identities=38%  Similarity=0.526  Sum_probs=22.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ...+++|.|+.|+|||||.+.++-
T Consensus        29 ~Ge~~~llGpsGsGKSTLLr~iaG   52 (359)
T 3fvq_A           29 PGEILFIIGASGCGKTTLLRCLAG   52 (359)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCchHHHHHHHHhc
Confidence            567899999999999999999886

>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=93.68  E-value=0.035  Score=47.40  Aligned_cols=25  Identities=24%  Similarity=0.190  Sum_probs=20.9

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ..-.|+|+|.+|+|||||...+...
T Consensus        29 ~~~ki~vvG~~~~GKSsLi~~l~~~   53 (204)
T 4gzl_A           29 QAIKCVVVGDGAVGKTCLLISYTTN   53 (204)
T ss_dssp             -CEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             CeEEEEEECcCCCCHHHHHHHHHhC
Confidence            3456899999999999999988863

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=93.65  E-value=0.043  Score=47.93  Aligned_cols=29  Identities=28%  Similarity=0.430  Sum_probs=22.4

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ....|.|.|+.|+||||+++.+++.+...
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

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=93.63  E-value=0.042  Score=51.72  Aligned_cols=36  Identities=22%  Similarity=0.277  Sum_probs=27.7

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEe
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLE  144 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  144 (429)
                      ....++|+|+.|+|||||++.++..+.. ....+.+.
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            7789999999999999999999876532 23344444

>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=93.62  E-value=0.037  Score=45.57  Aligned_cols=22  Identities=27%  Similarity=0.481  Sum_probs=19.6

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      -|+|+|.+|+|||||...+...
T Consensus         6 ki~i~G~~~vGKSsl~~~l~~~   27 (175)
T 2nzj_A            6 RVVLLGDPGVGKTSLASLFAGK   27 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEECCCCccHHHHHHHHhcC
Confidence            5899999999999999988763

>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=93.60  E-value=0.04  Score=44.80  Aligned_cols=22  Identities=23%  Similarity=0.490  Sum_probs=19.7

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      .|+|+|.+|+|||||...+...
T Consensus         5 ~i~v~G~~~~GKSsli~~l~~~   26 (167)
T 1kao_A            5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4899999999999999988864

>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=93.59  E-value=0.04  Score=44.83  Aligned_cols=22  Identities=23%  Similarity=0.436  Sum_probs=19.8

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      -|+|.|.+|+|||||...+...
T Consensus         6 ~i~v~G~~~~GKssl~~~l~~~   27 (168)
T 1u8z_A            6 KVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            5899999999999999998864

>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=93.59  E-value=0.43  Score=48.40  Aligned_cols=46  Identities=28%  Similarity=0.409  Sum_probs=30.9

Q ss_pred             HHHHHHHhhcCCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEe
Q 048064           98 RVEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLE  144 (429)
Q Consensus        98 ~~~~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  144 (429)
                      ..+.+...+ ..+.+.|+|++|+|||+++.++...+.......+.++
T Consensus       185 Q~~av~~~l-~~~~~li~GppGTGKT~~~~~~i~~l~~~~~~~ilv~  230 (624)
T 2gk6_A          185 QVYAVKTVL-QRPLSLIQGPPGTGKTVTSATIVYHLARQGNGPVLVC  230 (624)
T ss_dssp             HHHHHHHHH-TCSEEEEECCTTSCHHHHHHHHHHHHHTSSSCCEEEE
T ss_pred             HHHHHHHHh-cCCCeEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEE
Confidence            333444444 4568899999999999998888877654333344443

>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=93.58  E-value=0.039  Score=46.26  Aligned_cols=22  Identities=27%  Similarity=0.567  Sum_probs=20.0

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      .|+|+|.+|+|||||+..+...
T Consensus        23 ki~vvG~~~~GKSsli~~l~~~   44 (190)
T 3con_A           23 KLVVVGAGGVGKSALTIQLIQN   44 (190)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHHcC
Confidence            5899999999999999999864

>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=93.55  E-value=0.074  Score=52.25  Aligned_cols=44  Identities=2%  Similarity=-0.031  Sum_probs=32.9

Q ss_pred             ccchhhHHHHHHHhhc----CCCEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064           92 LVGVESRVEEIQSLLG----AAPLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus        92 ~vGR~~~~~~l~~~l~----~~~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      ...|.+..+.+.+...    ...+|.+.|++|+||||+|+.++.++..
T Consensus       374 ~f~rpeV~~vLr~~~~~~~~~~~~I~l~GlsGsGKSTIa~~La~~L~~  421 (511)
T 1g8f_A          374 WFSYPEVVKILRESNPPRPKQGFSIVLGNSLTVSREQLSIALLSTFLQ  421 (511)
T ss_dssp             TTSCHHHHHHHHHHSCCGGGCCEEEEECTTCCSCHHHHHHHHHHHHTT
T ss_pred             cccChhhHHHHHHhcccccccceEEEecccCCCCHHHHHHHHHHHHHH
Confidence            3344444555666552    4468999999999999999999999864

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=93.55  E-value=0.043  Score=51.32  Aligned_cols=24  Identities=42%  Similarity=0.677  Sum_probs=22.2

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ...+++|.|+.|+|||||.+.++-
T Consensus        40 ~Ge~~~llGpnGsGKSTLLr~iaG   63 (355)
T 1z47_A           40 EGEMVGLLGPSGSGKTTILRLIAG   63 (355)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhC
Confidence            678999999999999999999886

>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=93.52  E-value=0.042  Score=44.98  Aligned_cols=22  Identities=23%  Similarity=0.339  Sum_probs=19.8

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      .|+|+|.+|+|||||...+...
T Consensus         8 ~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1z08_A            8 KVVLLGEGCVGKTSLVLRYCEN   29 (170)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEEECcCCCCHHHHHHHHHcC
Confidence            5899999999999999998864

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=93.52  E-value=0.037  Score=49.57  Aligned_cols=25  Identities=36%  Similarity=0.416  Sum_probs=21.9

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ..+++|.|+.|+|||||.+.++.-.
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            5689999999999999999988654

>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=93.50  E-value=0.036  Score=50.41  Aligned_cols=58  Identities=16%  Similarity=0.171  Sum_probs=35.3

Q ss_pred             HHHHhcCCcEEEEecCCC---CHHHHHHHhcc-CCCCCCCCEEEEEeCChhhhhhcCCCeEEEc
Q 048064          180 NFRRLSCRKVLIVLDDVT---CLNQIESLVGS-LDRLLPESRILITTRNKQVLRNCHINQIYEM  239 (429)
Q Consensus       180 l~~~l~~~~~LlVlDdv~---~~~~~~~l~~~-l~~~~~~~~iiiTtR~~~~~~~~~~~~~~~l  239 (429)
                      +.+.+-.++-+++||+--   +......+... +.....+..||++|.+...+..  ..+++.+
T Consensus       170 lAraL~~~p~lllLDEPts~LD~~~~~~i~~~ll~~~~~~~tviivtHd~~~~~~--~d~i~~l  231 (290)
T 2bbs_A          170 LARAVYKDADLYLLDSPFGYLDVLTEKEIFESCVCKLMANKTRILVTSKMEHLKK--ADKILIL  231 (290)
T ss_dssp             HHHHHHSCCSEEEEESTTTTCCHHHHHHHHHHCCCCCTTTSEEEEECCCHHHHHH--SSEEEEE
T ss_pred             HHHHHHCCCCEEEEECCcccCCHHHHHHHHHHHHHHhhCCCEEEEEecCHHHHHc--CCEEEEE
Confidence            666677788899999984   33444444443 2233346678888887765543  3444444

>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=93.50  E-value=0.043  Score=44.72  Aligned_cols=22  Identities=27%  Similarity=0.527  Sum_probs=19.7

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      -|+|+|.+|+|||||...+...
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            4889999999999999998873

>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=93.49  E-value=0.045  Score=44.49  Aligned_cols=22  Identities=27%  Similarity=0.227  Sum_probs=19.6

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      -|+|.|.+|+|||||...+...
T Consensus         2 ki~~~G~~~~GKssl~~~l~~~   23 (164)
T 1r8s_A            2 RILMVGLDAAGKTTILYKLKLG   23 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            3789999999999999998764

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=93.47  E-value=0.047  Score=45.07  Aligned_cols=24  Identities=33%  Similarity=0.418  Sum_probs=21.4

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ....|+|+|.+|+|||||...+..
T Consensus         7 ~~~~i~v~G~~~~GKssl~~~l~~   30 (178)
T 2lkc_A            7 RPPVVTIMGHVDHGKTTLLDAIRH   30 (178)
T ss_dssp             CCCEEEEESCTTTTHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhC
Confidence            456799999999999999999876

>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=93.47  E-value=0.051  Score=46.76  Aligned_cols=25  Identities=24%  Similarity=0.284  Sum_probs=21.8

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ....|+|+|++|+|||||+..+...
T Consensus        11 ~~~~i~~~G~~g~GKTsl~~~l~~~   35 (218)
T 1nrj_B           11 YQPSIIIAGPQNSGKTSLLTLLTTD   35 (218)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3457999999999999999998875

>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=93.45  E-value=0.026  Score=49.47  Aligned_cols=25  Identities=28%  Similarity=0.049  Sum_probs=21.9

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ....|+|.|+.|+||||+++.++..
T Consensus        19 ~g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           19 QPFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhc
Confidence            3568999999999999999988765

>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=93.45  E-value=0.046  Score=51.26  Aligned_cols=24  Identities=25%  Similarity=0.408  Sum_probs=22.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ...+++|.|+.|+|||||.+.++-
T Consensus        28 ~Ge~~~llGpnGsGKSTLLr~iaG   51 (359)
T 2yyz_A           28 DGEFVALLGPSGCGKTTTLLMLAG   51 (359)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCCEEEEEcCCCchHHHHHHHHHC
Confidence            567899999999999999999886

>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=93.44  E-value=0.046  Score=51.62  Aligned_cols=24  Identities=29%  Similarity=0.454  Sum_probs=22.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ...+++|.|+.|+|||||.+.++-
T Consensus        28 ~Ge~~~llGpsGsGKSTLLr~iaG   51 (381)
T 3rlf_A           28 EGEFVVFVGPSGCGKSTLLRMIAG   51 (381)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCCEEEEEcCCCchHHHHHHHHHc
Confidence            567899999999999999999886

>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=93.44  E-value=0.044  Score=44.73  Aligned_cols=22  Identities=23%  Similarity=0.360  Sum_probs=19.7

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      -|+|.|.+|+|||||...+...
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            4889999999999999998864

>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=93.44  E-value=0.044  Score=44.80  Aligned_cols=22  Identities=23%  Similarity=0.386  Sum_probs=19.9

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      .|+|+|.+|+|||||...+...
T Consensus         8 ~i~v~G~~~~GKSsli~~l~~~   29 (170)
T 1z0j_A            8 KVCLLGDTGVGKSSIMWRFVED   29 (170)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHHcC
Confidence            4899999999999999998874

>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=93.43  E-value=0.02  Score=51.30  Aligned_cols=27  Identities=19%  Similarity=0.165  Sum_probs=23.3

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ....|+|.|+.|+||||+++.+++.+.
T Consensus        23 ~~~~I~ieG~~GsGKST~~~~L~~~l~   49 (263)
T 1p5z_B           23 RIKKISIEGNIAAGKSTFVNILKQLCE   49 (263)
T ss_dssp             CCEEEEEECSTTSSHHHHHTTTGGGCT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHhcC
Confidence            456899999999999999999887653

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=93.43  E-value=0.071  Score=49.89  Aligned_cols=27  Identities=26%  Similarity=0.315  Sum_probs=23.5

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      ..+|+|+|++|+|||||...+......
T Consensus        74 ~~~v~lvG~pgaGKSTLln~L~~~~~~  100 (349)
T 2www_A           74 AFRVGLSGPPGAGKSTFIEYFGKMLTE  100 (349)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHhhh
Confidence            568999999999999999999876543

>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=93.41  E-value=0.069  Score=52.23  Aligned_cols=30  Identities=20%  Similarity=0.205  Sum_probs=25.0

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCc
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNF  137 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f  137 (429)
                      ....|.++|++|+||||+++.++..+...+
T Consensus        38 ~~~~IvlvGlpGsGKSTia~~La~~l~~~~   67 (469)
T 1bif_A           38 CPTLIVMVGLPARGKTYISKKLTRYLNFIG   67 (469)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHHTT
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHHhccC
Confidence            455789999999999999999998765444

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=93.40  E-value=0.047  Score=51.26  Aligned_cols=24  Identities=25%  Similarity=0.446  Sum_probs=22.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ...+++|.|+.|+|||||.+.++-
T Consensus        28 ~Ge~~~llGpnGsGKSTLLr~iaG   51 (362)
T 2it1_A           28 DGEFMALLGPSGSGKSTLLYTIAG   51 (362)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCchHHHHHHHHhc
Confidence            567899999999999999999886

>3iqw_A Tail-anchored protein targeting factor GET3; ATPase, Zn binding, protein transport; HET: ANP; 3.00A {Chaetomium thermophilum} PDB: 3iqx_A* 3ibg_A*

Probab=93.39  E-value=0.094  Score=48.68  Aligned_cols=36  Identities=22%  Similarity=0.325  Sum_probs=28.6

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEE
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFL  143 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  143 (429)
                      ..+++.+.|-||+||||+|..++..+...-..++.+
T Consensus        15 ~~~i~~~sgkGGvGKTt~a~~lA~~la~~g~~vlli   50 (334)
T 3iqw_A           15 SLRWIFVGGKGGVGKTTTSCSLAIQLAKVRRSVLLL   50 (334)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHHHHTTSSSCEEEE
T ss_pred             CeEEEEEeCCCCccHHHHHHHHHHHHHhCCCcEEEE
Confidence            467889999999999999999999887654444444

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=93.39  E-value=0.054  Score=47.10  Aligned_cols=28  Identities=29%  Similarity=0.436  Sum_probs=24.9

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      ....|.|.|+.|+||||+++.+.+.+..
T Consensus        20 ~~~~i~~~G~~g~GKst~~~~l~~~l~~   47 (223)
T 3ld9_A           20 GSMFITFEGIDGSGKTTQSHLLAEYLSE   47 (223)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            4668999999999999999999998765

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=93.38  E-value=0.071  Score=53.05  Aligned_cols=28  Identities=29%  Similarity=0.423  Sum_probs=25.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      ...+++|.|+.|+|||||++.++..+..
T Consensus       368 ~G~iI~LiG~sGSGKSTLar~La~~L~~  395 (552)
T 3cr8_A          368 QGFTVFFTGLSGAGKSTLARALAARLME  395 (552)
T ss_dssp             SCEEEEEEESSCHHHHHHHHHHHHHHHT
T ss_pred             cceEEEEECCCCChHHHHHHHHHHhhcc
Confidence            5678999999999999999999998754

>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=93.37  E-value=0.043  Score=44.88  Aligned_cols=21  Identities=29%  Similarity=0.392  Sum_probs=18.8

Q ss_pred             EEEEEcCCCcchHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      -|+|+|.+|+|||||...+..
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            488999999999999998864

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=93.37  E-value=0.04  Score=45.07  Aligned_cols=21  Identities=24%  Similarity=0.672  Sum_probs=19.3

Q ss_pred             EEEEEcCCCcchHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      .|+|+|.+|+|||||...+..
T Consensus         5 ~i~v~G~~~~GKssli~~l~~   25 (172)
T 2erx_A            5 RVAVFGAGGVGKSSLVLRFVK   25 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHc
Confidence            488999999999999999886

>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=93.36  E-value=0.038  Score=45.76  Aligned_cols=23  Identities=22%  Similarity=0.248  Sum_probs=20.3

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ..|+|+|.+|+|||||...+...
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            35899999999999999999864

>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=93.35  E-value=0.043  Score=45.88  Aligned_cols=22  Identities=23%  Similarity=0.255  Sum_probs=19.8

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      -|+|+|.+|+|||||+..+...
T Consensus         9 ki~v~G~~~vGKSsli~~l~~~   30 (184)
T 1m7b_A            9 KIVVVGDSQCGKTALLHVFAKD   30 (184)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999998874

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=93.34  E-value=0.088  Score=45.46  Aligned_cols=28  Identities=29%  Similarity=0.437  Sum_probs=24.7

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ...|.|.|+.|+||||+++.+++.+...
T Consensus         3 g~~i~~eG~~gsGKsT~~~~l~~~l~~~   30 (213)
T 4tmk_A            3 SKYIVIEGLEGAGKTTARNVVVETLEQL   30 (213)
T ss_dssp             CCEEEEEECTTSCHHHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            4679999999999999999999987654

>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=93.33  E-value=0.07  Score=45.43  Aligned_cols=36  Identities=25%  Similarity=0.241  Sum_probs=26.0

Q ss_pred             CEEEEE-cCCCcchHHHHHHHHHHhhcCcceeEEEeec
Q 048064          110 PLLGIW-GIGGIGKTTIARVIFNRISRNFKGSCFLENI  146 (429)
Q Consensus       110 ~~v~I~-G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~  146 (429)
                      ++|+|+ +-||+||||+|..++..+...-. .+.+.+.
T Consensus         2 ~vi~v~s~kgG~GKTt~a~~la~~la~~g~-~vlliD~   38 (206)
T 4dzz_A            2 KVISFLNPKGGSGKTTAVINIATALSRSGY-NIAVVDT   38 (206)
T ss_dssp             EEEEECCSSTTSSHHHHHHHHHHHHHHTTC-CEEEEEC
T ss_pred             eEEEEEeCCCCccHHHHHHHHHHHHHHCCC-eEEEEEC
Confidence            467776 68999999999999998876433 3334334

>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=93.33  E-value=0.042  Score=51.30  Aligned_cols=25  Identities=28%  Similarity=0.317  Sum_probs=22.4

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ...+++|.|+.|+|||||.+.++--
T Consensus        25 ~Ge~~~llGpnGsGKSTLLr~iaGl   49 (348)
T 3d31_A           25 SGEYFVILGPTGAGKTLFLELIAGF   49 (348)
T ss_dssp             TTCEEEEECCCTHHHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCccHHHHHHHHHcC
Confidence            5678999999999999999998863

>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=93.33  E-value=0.046  Score=45.25  Aligned_cols=23  Identities=30%  Similarity=0.385  Sum_probs=20.3

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ..|+|+|.+|+|||||...+...
T Consensus         9 ~~i~v~G~~~~GKSsli~~l~~~   31 (182)
T 1ky3_A            9 LKVIILGDSGVGKTSLMHRYVND   31 (182)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            45899999999999999998864

>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=93.32  E-value=0.046  Score=45.09  Aligned_cols=22  Identities=23%  Similarity=0.453  Sum_probs=19.8

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      -|+|+|.+|+|||||...+...
T Consensus         9 ~i~v~G~~~~GKSsli~~l~~~   30 (177)
T 1wms_A            9 KVILLGDGGVGKSSLMNRYVTN   30 (177)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5899999999999999998863

>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=93.32  E-value=0.046  Score=45.82  Aligned_cols=22  Identities=23%  Similarity=0.303  Sum_probs=19.7

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      -|+|+|.+|+|||||+..+...
T Consensus        22 ki~ivG~~~vGKSsL~~~~~~~   43 (184)
T 3ihw_A           22 KVGIVGNLSSGKSALVHRYLTG   43 (184)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5899999999999999888764

>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=93.31  E-value=0.049  Score=51.36  Aligned_cols=25  Identities=32%  Similarity=0.417  Sum_probs=22.5

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ...+++|.|+.|+|||||.+.++--
T Consensus        28 ~Ge~~~llGpnGsGKSTLLr~iaGl   52 (372)
T 1g29_1           28 DGEFMILLGPSGCGKTTTLRMIAGL   52 (372)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCcHHHHHHHHHHcC
Confidence            5678999999999999999998863

>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=93.30  E-value=0.045  Score=44.74  Aligned_cols=22  Identities=18%  Similarity=0.309  Sum_probs=19.6

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      -|+|+|.+|+|||||...+...
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1g16_A            5 KILLIGDSGVGKSCLLVRFVED   26 (170)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECcCCCCHHHHHHHHHhC
Confidence            4899999999999999998863

>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=93.30  E-value=0.05  Score=51.00  Aligned_cols=24  Identities=33%  Similarity=0.596  Sum_probs=22.0

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ...+++|.|+.|.|||||.+.++-
T Consensus        53 ~Gei~~IiGpnGaGKSTLlr~i~G   76 (366)
T 3tui_C           53 AGQIYGVIGASGAGKSTLIRCVNL   76 (366)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCCEEEEEcCCCchHHHHHHHHhc
Confidence            678999999999999999998876

>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=93.26  E-value=0.051  Score=51.23  Aligned_cols=24  Identities=38%  Similarity=0.498  Sum_probs=22.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ...+++|.|+.|+|||||.+.++-
T Consensus        36 ~Ge~~~llGpnGsGKSTLLr~iaG   59 (372)
T 1v43_A           36 DGEFLVLLGPSGCGKTTTLRMIAG   59 (372)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCChHHHHHHHHHc
Confidence            567999999999999999999886

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A*

Probab=93.25  E-value=0.049  Score=44.43  Aligned_cols=22  Identities=18%  Similarity=0.320  Sum_probs=19.7

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      .|+|+|.+|+|||||...+...
T Consensus         8 ~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1r2q_A            8 KLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4889999999999999998863

>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=93.24  E-value=0.078  Score=48.51  Aligned_cols=31  Identities=23%  Similarity=0.388  Sum_probs=24.9

Q ss_pred             HHHHHHhhcCCCEEEEEcCCCcchHHHHHHHH
Q 048064           99 VEEIQSLLGAAPLLGIWGIGGIGKTTIARVIF  130 (429)
Q Consensus        99 ~~~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~  130 (429)
                      +++|.+.+ ...+++|.|++|+|||||.+.+.
T Consensus       156 i~~L~~~l-~G~i~~l~G~sG~GKSTLln~l~  186 (302)
T 2yv5_A          156 IDELVDYL-EGFICILAGPSGVGKSSILSRLT  186 (302)
T ss_dssp             HHHHHHHT-TTCEEEEECSTTSSHHHHHHHHH
T ss_pred             HHHHHhhc-cCcEEEEECCCCCCHHHHHHHHH
Confidence            44555544 35789999999999999999988

>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=93.22  E-value=0.17  Score=49.15  Aligned_cols=85  Identities=25%  Similarity=0.176  Sum_probs=46.9

Q ss_pred             CCCEEEEEcCCCcchHHHHH-HHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcC-------CCCCCCHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIAR-VIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKD-------VNVIPHIDL  179 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~-~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-------~~~~~~~~~  179 (429)
                      ..+.++|.|.+|+|||+||. .++++..  .+..+.+..+.+.   ......+.+.+...-...       ....+....
T Consensus       174 rGQR~~I~g~~g~GKT~Lal~~I~~~~~--~dv~~V~~~IGeR---~~Ev~e~~~~~~~~g~m~rtvvV~atad~p~~~r  248 (515)
T 2r9v_A          174 RGQRELIIGDRQTGKTAIAIDTIINQKG--QGVYCIYVAIGQK---KSAIARIIDKLRQYGAMEYTTVVVASASDPASLQ  248 (515)
T ss_dssp             TTCBEEEEEETTSSHHHHHHHHHHTTTT--TTEEEEEEEESCC---HHHHHHHHHHHHHTTGGGGEEEEEECTTSCHHHH
T ss_pred             cCCEEEEEcCCCCCccHHHHHHHHHhhc--CCcEEEEEEcCCC---cHHHHHHHHHHHhCCCcceeEEEEECCCCCHHHH
Confidence            77889999999999999965 6666542  2333344434432   123444444444321111       111111111


Q ss_pred             ---------HHHHh--cCCcEEEEecCCC
Q 048064          180 ---------NFRRL--SCRKVLIVLDDVT  197 (429)
Q Consensus       180 ---------l~~~l--~~~~~LlVlDdv~  197 (429)
                               +-+++  .++.+||++||+.
T Consensus       249 ~~a~~~a~tiAEyfrd~G~dVLli~DslT  277 (515)
T 2r9v_A          249 YIAPYAGCAMGEYFAYSGRDALVVYDDLS  277 (515)
T ss_dssp             HHHHHHHHHHHHHHHTTTCEEEEEEETHH
T ss_pred             HHHHHHHHHHHHHHHHcCCcEEEEeccHH
Confidence                     22233  4689999999984

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=93.21  E-value=0.11  Score=48.89  Aligned_cols=36  Identities=31%  Similarity=0.239  Sum_probs=29.0

Q ss_pred             HHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhcCc
Q 048064          102 IQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISRNF  137 (429)
Q Consensus       102 l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f  137 (429)
                      ..+.+.   ..+.++|.|.+|+|||+|+.++++.+..++
T Consensus       165 aID~l~PigrGQR~lIfg~~g~GKT~Ll~~Ia~~i~~~~  203 (427)
T 3l0o_A          165 LIDLFAPIGKGQRGMIVAPPKAGKTTILKEIANGIAENH  203 (427)
T ss_dssp             HHHHHSCCBTTCEEEEEECTTCCHHHHHHHHHHHHHHHC
T ss_pred             hhhhcccccCCceEEEecCCCCChhHHHHHHHHHHhhcC
Confidence            444554   778999999999999999999999876433

>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=93.16  E-value=0.051  Score=45.72  Aligned_cols=25  Identities=24%  Similarity=0.525  Sum_probs=21.6

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ....|+|+|.+|+|||||...+...
T Consensus        22 ~~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 1svi_A           22 GLPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             CCCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3567999999999999999998763

>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=93.16  E-value=0.043  Score=44.74  Aligned_cols=21  Identities=29%  Similarity=0.515  Sum_probs=18.8

Q ss_pred             EEEEEcCCCcchHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      -|+|+|.+|+|||||...+..
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            589999999999999998764

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=93.16  E-value=0.065  Score=51.21  Aligned_cols=24  Identities=17%  Similarity=0.261  Sum_probs=22.3

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ....++|.|+.|+|||||.+.++.
T Consensus        68 ~~~~valvG~nGaGKSTLln~L~G   91 (413)
T 1tq4_A           68 SVLNVAVTGETGSGKSSFINTLRG   91 (413)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHhC
Confidence            667999999999999999999987

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=93.14  E-value=0.049  Score=44.99  Aligned_cols=22  Identities=23%  Similarity=0.376  Sum_probs=19.7

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      -|+|+|.+|+|||||...+...
T Consensus         8 ki~v~G~~~~GKssl~~~l~~~   29 (178)
T 2hxs_A            8 KIVVLGDGASGKTSLTTCFAQE   29 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHGG
T ss_pred             EEEEECcCCCCHHHHHHHHHhC
Confidence            4889999999999999998863

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens}

Probab=93.13  E-value=0.051  Score=45.62  Aligned_cols=22  Identities=27%  Similarity=0.480  Sum_probs=19.9

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      -|+|+|.+|+|||||...+...
T Consensus        23 ki~vvG~~~vGKTsLi~~l~~~   44 (187)
T 3c5c_A           23 NLAILGRRGAGKSALTVKFLTK   44 (187)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCcHHHHHHHHHhC
Confidence            5899999999999999988864

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=93.12  E-value=0.066  Score=46.32  Aligned_cols=28  Identities=25%  Similarity=0.472  Sum_probs=24.9

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      ....|.|.|+.|+||||+++.+++.+..
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            3568999999999999999999998865

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=93.11  E-value=0.043  Score=45.45  Aligned_cols=22  Identities=23%  Similarity=0.413  Sum_probs=19.8

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      -|+|+|.+|+|||||...+...
T Consensus         9 ki~~vG~~~vGKTsli~~l~~~   30 (178)
T 2iwr_A            9 RLGVLGDARSGKSSLIHRFLTG   30 (178)
T ss_dssp             EEEEECCGGGCHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4899999999999999998874

>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=93.11  E-value=0.049  Score=45.03  Aligned_cols=23  Identities=26%  Similarity=0.440  Sum_probs=20.5

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ..|+|+|.+|+|||||...+...
T Consensus        10 ~~i~v~G~~~~GKssli~~l~~~   32 (181)
T 2fn4_A           10 HKLVVVGGGGVGKSALTIQFIQS   32 (181)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            46899999999999999998874

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=93.09  E-value=0.053  Score=44.72  Aligned_cols=23  Identities=22%  Similarity=0.215  Sum_probs=20.4

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ..|+|+|.+|+|||||...+...
T Consensus        16 ~~i~v~G~~~~GKSsli~~l~~~   38 (179)
T 1z0f_A           16 FKYIIIGDMGVGKSCLLHQFTEK   38 (179)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            35899999999999999998874

>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=93.08  E-value=0.04  Score=51.61  Aligned_cols=24  Identities=42%  Similarity=0.620  Sum_probs=22.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ...+++|.|+.|+|||||.+.++-
T Consensus        30 ~Ge~~~llGpnGsGKSTLLr~iaG   53 (353)
T 1oxx_K           30 NGERFGILGPSGAGKTTFMRIIAG   53 (353)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhC
Confidence            567999999999999999999886

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*

Probab=93.08  E-value=0.054  Score=44.33  Aligned_cols=24  Identities=33%  Similarity=0.324  Sum_probs=20.7

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHH
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ...|+|.|.+|+|||||...+...
T Consensus         7 ~~~i~v~G~~~~GKssl~~~l~~~   30 (171)
T 1upt_A            7 EMRILILGLDGAGKTTILYRLQVG   30 (171)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcC
Confidence            346899999999999999998763

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=93.07  E-value=0.11  Score=48.56  Aligned_cols=34  Identities=35%  Similarity=0.550  Sum_probs=27.9

Q ss_pred             HHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          101 EIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       101 ~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      .|...+.  ....++|.|+.|+|||||.+.++....
T Consensus        61 ald~ll~i~~Gq~~gIiG~nGaGKTTLl~~I~g~~~   96 (347)
T 2obl_A           61 AIDGLLTCGIGQRIGIFAGSGVGKSTLLGMICNGAS   96 (347)
T ss_dssp             HHHHHSCEETTCEEEEEECTTSSHHHHHHHHHHHSC
T ss_pred             EEEeeeeecCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            3444444  788999999999999999999998764

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B*

Probab=93.07  E-value=0.05  Score=45.85  Aligned_cols=25  Identities=28%  Similarity=0.344  Sum_probs=20.6

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ....|+|+|.+|+|||||...+...
T Consensus        22 ~~~ki~~vG~~~vGKSsli~~l~~~   46 (190)
T 1m2o_B           22 KHGKLLFLGLDNAGKTTLLHMLKND   46 (190)
T ss_dssp             --CEEEEEESTTSSHHHHHHHHHHS
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcC
Confidence            3457899999999999999998863

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A*

Probab=93.07  E-value=0.053  Score=45.81  Aligned_cols=21  Identities=29%  Similarity=0.499  Sum_probs=19.2

Q ss_pred             EEEEEcCCCcchHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      -|+|+|.+|+|||||...+..
T Consensus         8 kv~lvG~~~vGKSsL~~~~~~   28 (192)
T 2cjw_A            8 RVVLIGEQGVGKSTLANIFAG   28 (192)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            489999999999999999875

>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=92.98  E-value=0.056  Score=45.27  Aligned_cols=22  Identities=23%  Similarity=0.268  Sum_probs=19.9

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      .|+|+|.+|+|||||...+...
T Consensus        13 ki~v~G~~~~GKSsli~~l~~~   34 (195)
T 3bc1_A           13 KFLALGDSGVGKTSVLYQYTDG   34 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5899999999999999998863

>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=92.97  E-value=0.22  Score=48.25  Aligned_cols=25  Identities=32%  Similarity=0.252  Sum_probs=20.9

Q ss_pred             CCCEEEEEcCCCcchHHHHH-HHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIAR-VIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~-~~~~~  132 (429)
                      ..+.++|.|.+|+|||+|+. .++++
T Consensus       161 rGQR~~Ifg~~g~GKT~l~l~~I~n~  186 (513)
T 3oaa_A          161 RGQRELIIGDRQTGKTALAIDAIINQ  186 (513)
T ss_dssp             TTCBCEEEESSSSSHHHHHHHHHHTT
T ss_pred             cCCEEEeecCCCCCcchHHHHHHHhh
Confidence            67889999999999999964 56554

>3geh_A MNME, tRNA modification GTPase MNME; G protein, U34, GTP-binding, HYDR magnesium, metal-binding, nucleotide-binding, potassium, TR processing; HET: GDP FON; 3.20A {Nostoc SP}

Probab=92.95  E-value=0.31  Score=47.40  Aligned_cols=22  Identities=18%  Similarity=0.280  Sum_probs=20.1

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      .|+|+|.+|+|||||...+...
T Consensus       226 kV~ivG~~nvGKSSLln~L~~~  247 (462)
T 3geh_A          226 KVAIVGRPNVGKSSLLNAWSQS  247 (462)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHhCC
Confidence            4899999999999999998875

>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=92.95  E-value=0.057  Score=44.88  Aligned_cols=23  Identities=30%  Similarity=0.550  Sum_probs=20.4

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      -.|+|+|.+|+|||||...+...
T Consensus        19 ~ki~v~G~~~~GKSsl~~~l~~~   41 (183)
T 3kkq_A           19 YKLVVVGDGGVGKSALTIQFFQK   41 (183)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            35899999999999999998864

>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=92.94  E-value=0.057  Score=45.42  Aligned_cols=23  Identities=22%  Similarity=0.280  Sum_probs=20.4

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      --|+|+|.+|+|||||...+...
T Consensus        26 ~ki~v~G~~~~GKSsLi~~l~~~   48 (193)
T 2oil_A           26 FKVVLIGESGVGKTNLLSRFTRN   48 (193)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHhcC
Confidence            35899999999999999998874

>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=92.91  E-value=0.052  Score=51.18  Aligned_cols=26  Identities=19%  Similarity=0.244  Sum_probs=23.0

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ...++|+|+.|+|||||++.++..+.
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            56899999999999999999987653

>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=92.90  E-value=0.058  Score=45.00  Aligned_cols=22  Identities=23%  Similarity=0.469  Sum_probs=19.8

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      -|+|+|.+|+|||||...+...
T Consensus         6 ki~v~G~~~~GKSsli~~l~~~   27 (189)
T 4dsu_A            6 KLVVVGADGVGKSALTIQLIQN   27 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4889999999999999999864

>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=92.88  E-value=0.14  Score=50.72  Aligned_cols=29  Identities=21%  Similarity=0.275  Sum_probs=25.4

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ...+++|.|++|+|||||++.++......
T Consensus       280 ~G~i~~i~G~~GsGKSTLl~~l~g~~~~~  308 (525)
T 1tf7_A          280 KDSIILATGATGTGKTLLVSRFVENACAN  308 (525)
T ss_dssp             SSCEEEEEECTTSSHHHHHHHHHHHHHTT
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHhC
Confidence            67899999999999999999999876543

>3zq6_A Putative arsenical pump-driving ATPase; tail-anchored, membrane protein; HET: ADP; 2.11A {Methanothermobacter thermautotrophicusorganism_taxid}

Probab=92.88  E-value=0.085  Score=48.80  Aligned_cols=35  Identities=31%  Similarity=0.392  Sum_probs=26.6

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEE
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFL  143 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  143 (429)
                      .+++...|.||+||||+|..++..+.+.-..+..+
T Consensus        14 ~~i~v~sgKGGvGKTTvA~~LA~~lA~~G~rVLlv   48 (324)
T 3zq6_A           14 TTFVFIGGKGGVGKTTISAATALWMARSGKKTLVI   48 (324)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             eEEEEEeCCCCchHHHHHHHHHHHHHHCCCcEEEE
Confidence            35677889999999999999999887663333333

>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=92.88  E-value=0.056  Score=44.58  Aligned_cols=22  Identities=23%  Similarity=0.302  Sum_probs=19.7

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      .|+|+|.+|+|||||...+...
T Consensus        16 ~i~v~G~~~~GKssli~~l~~~   37 (179)
T 2y8e_A           16 KLVFLGEQSVGKTSLITRFMYD   37 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5889999999999999998863

>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=92.86  E-value=0.06  Score=44.77  Aligned_cols=22  Identities=23%  Similarity=0.222  Sum_probs=19.5

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      -|+|+|.+|+|||||...+...
T Consensus         7 ~i~~~G~~~~GKssl~~~l~~~   28 (186)
T 1mh1_A            7 KCVVVGDGAVGKTCLLISYTTN   28 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4899999999999999998863

>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=92.85  E-value=0.056  Score=45.02  Aligned_cols=23  Identities=17%  Similarity=0.297  Sum_probs=20.3

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      -.|+|+|.+|+|||||...+...
T Consensus        11 ~ki~v~G~~~~GKSsli~~l~~~   33 (186)
T 2bme_A           11 FKFLVIGNAGTGKSCLLHQFIEK   33 (186)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            35899999999999999998864

>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=92.84  E-value=0.06  Score=51.10  Aligned_cols=24  Identities=25%  Similarity=0.493  Sum_probs=22.2

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ....++|.|+.|+|||||.+.++.
T Consensus        46 ~Ge~~~llGpsGsGKSTLLr~iaG   69 (390)
T 3gd7_A           46 PGQRVGLLGRTGSGKSTLLSAFLR   69 (390)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCChHHHHHHHHhC
Confidence            678999999999999999999886

>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=92.83  E-value=0.18  Score=45.27  Aligned_cols=47  Identities=21%  Similarity=0.142  Sum_probs=32.6

Q ss_pred             hHHHHHHHhhc------CCCEEEEEcC-CCcchHHHHHHHHHHhhcCcceeEEE
Q 048064           97 SRVEEIQSLLG------AAPLLGIWGI-GGIGKTTIARVIFNRISRNFKGSCFL  143 (429)
Q Consensus        97 ~~~~~l~~~l~------~~~~v~I~G~-~GiGKTtLa~~~~~~~~~~f~~~~~~  143 (429)
                      +.++.|...+.      ..++|+|+|. ||+||||+|..++..+...-..++.+
T Consensus        64 Ea~r~lrt~l~~~~~~~~~kvI~vts~kgG~GKTt~a~nLA~~lA~~G~rVLLI  117 (271)
T 3bfv_A           64 EKFRGIRSNIMFANPDSAVQSIVITSEAPGAGKSTIAANLAVAYAQAGYKTLIV  117 (271)
T ss_dssp             HHHHHHHHHHHHSSTTCCCCEEEEECSSTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             HHHHHHHHHHHhhccCCCCeEEEEECCCCCCcHHHHHHHHHHHHHhCCCeEEEE
Confidence            34455554443      5678999875 89999999999999887654344444

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=92.81  E-value=0.061  Score=45.10  Aligned_cols=24  Identities=25%  Similarity=0.516  Sum_probs=21.2

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHH
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ...|+|+|.+|+|||||...+...
T Consensus        23 ~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 3pqc_A           23 KGEVAFVGRSNVGKSSLLNALFNR   46 (195)
T ss_dssp             TCEEEEEEBTTSSHHHHHHHHHTS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcC
Confidence            457999999999999999998874

>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=92.80  E-value=0.061  Score=44.51  Aligned_cols=22  Identities=23%  Similarity=0.291  Sum_probs=19.8

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      .|+|+|.+|+|||||...+...
T Consensus        14 ki~v~G~~~~GKSsli~~l~~~   35 (181)
T 2efe_B           14 KLVLLGDVGAGKSSLVLRFVKD   35 (181)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEEECcCCCCHHHHHHHHHcC
Confidence            5899999999999999998864

>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=92.79  E-value=0.053  Score=45.31  Aligned_cols=22  Identities=18%  Similarity=0.277  Sum_probs=19.6

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      .|+|.|.+|+|||||...+...
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~   24 (190)
T 2cxx_A            3 TIIFAGRSNVGKSTLIYRLTGK   24 (190)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCc
Confidence            4789999999999999998863

>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=92.77  E-value=0.062  Score=44.65  Aligned_cols=23  Identities=22%  Similarity=0.401  Sum_probs=20.3

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ..|+|+|.+|+|||||...+...
T Consensus        19 ~ki~v~G~~~~GKSsli~~l~~~   41 (187)
T 2a9k_A           19 HKVIMVGSGGVGKSALTLQFMYD   41 (187)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHhhC
Confidence            45899999999999999998863

>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=92.76  E-value=0.063  Score=44.48  Aligned_cols=23  Identities=22%  Similarity=0.127  Sum_probs=20.0

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      --|+|+|.+|+|||||...+...
T Consensus         9 ~ki~v~G~~~~GKssl~~~~~~~   31 (182)
T 3bwd_D            9 IKCVTVGDGAVGKTCLLISYTSN   31 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            45899999999999999988763

>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=92.74  E-value=0.064  Score=44.35  Aligned_cols=22  Identities=23%  Similarity=0.268  Sum_probs=19.8

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      .|+|+|.+|+|||||...+...
T Consensus        12 ~i~v~G~~~~GKssli~~l~~~   33 (180)
T 2g6b_A           12 KVMLVGDSGVGKTCLLVRFKDG   33 (180)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHHhC
Confidence            5899999999999999998764

>1x6v_B Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthethase 1; transferase, ATP sulfurylase, APS kinase, PAPS; HET: ADP; 1.75A {Homo sapiens} SCOP: b.122.1.3 c.26.1.5 c.37.1.4 PDB: 1xjq_B* 1xnj_B* 2qjf_A* 2ofx_A* 2ofw_A*

Probab=92.71  E-value=0.066  Score=53.91  Aligned_cols=27  Identities=22%  Similarity=0.315  Sum_probs=23.9

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ...+|.|.|++|+||||+|+.+++++.
T Consensus        51 ~g~lIvLtGlsGSGKSTlAr~La~~L~   77 (630)
T 1x6v_B           51 RGCTVWLTGLSGAGKTTVSMALEEYLV   77 (630)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            345799999999999999999999874

>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=92.69  E-value=0.064  Score=45.30  Aligned_cols=24  Identities=25%  Similarity=0.551  Sum_probs=20.8

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHH
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      .--|+|+|.+|+|||||...+...
T Consensus        28 ~~ki~v~G~~~vGKSsli~~l~~~   51 (196)
T 2atv_A           28 EVKLAIFGRAGVGKSALVVRFLTK   51 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            345899999999999999998874

>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=92.69  E-value=0.058  Score=45.34  Aligned_cols=23  Identities=30%  Similarity=0.463  Sum_probs=19.3

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHh
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      -|+|+|.+|+|||||++.+....
T Consensus        16 ki~vvG~~~~GKssL~~~l~~~~   38 (198)
T 3t1o_A           16 KIVYYGPGLSGKTTNLKWIYSKV   38 (198)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhc
Confidence            58999999999999997666543

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=92.65  E-value=0.07  Score=52.63  Aligned_cols=27  Identities=26%  Similarity=0.091  Sum_probs=23.6

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ....++|+|+.|+||||+++.+...+.
T Consensus       259 ~g~~i~I~GptGSGKTTlL~aL~~~i~  285 (511)
T 2oap_1          259 HKFSAIVVGETASGKTTTLNAIMMFIP  285 (511)
T ss_dssp             TTCCEEEEESTTSSHHHHHHHHGGGSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhCC
Confidence            666799999999999999999887653

>3thx_A DNA mismatch repair protein MSH2; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 2o8c_A* 2o8d_A* 2o8f_A* 3thw_A* 2o8b_A* 3thy_A* 3thz_A* 2o8e_A*

Probab=92.64  E-value=0.23  Score=52.60  Aligned_cols=23  Identities=26%  Similarity=-0.009  Sum_probs=20.8

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIF  130 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~  130 (429)
                      ...+++|.|+.|.||||+.+.++
T Consensus       661 ~g~i~~ItGpNGsGKSTlLr~ia  683 (934)
T 3thx_A          661 KQMFHIITGPNMGGKSTYIRQTG  683 (934)
T ss_dssp             TBCEEEEECCTTSSHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHH
Confidence            46899999999999999999884

>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=92.63  E-value=0.049  Score=46.18  Aligned_cols=21  Identities=29%  Similarity=0.325  Sum_probs=18.9

Q ss_pred             CEEEEEcCCCcchHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIF  130 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~  130 (429)
                      -.|+|+|.+|+|||||...+.
T Consensus        24 ~ki~vvG~~~vGKSsLi~~l~   44 (195)
T 3cbq_A           24 FKVMLVGESGVGKSTLAGTFG   44 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHTC
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            368999999999999999885

>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=92.63  E-value=0.056  Score=45.18  Aligned_cols=21  Identities=19%  Similarity=0.216  Sum_probs=19.4

Q ss_pred             EEEEcCCCcchHHHHHHHHHH
Q 048064          112 LGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      +.|.|.+|+||||+|.+++..
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            789999999999999999865

>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=92.61  E-value=0.063  Score=44.50  Aligned_cols=22  Identities=18%  Similarity=0.400  Sum_probs=19.8

Q ss_pred             CEEEEEcCCCcchHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ..|+|+|.+|+|||||...+..
T Consensus         7 ~ki~~~G~~~~GKSsli~~l~~   28 (181)
T 3t5g_A            7 RKIAILGYRSVGKSSLTIQFVE   28 (181)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEECcCCCCHHHHHHHHHc
Confidence            3589999999999999999885

>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=92.61  E-value=0.066  Score=45.41  Aligned_cols=23  Identities=22%  Similarity=0.401  Sum_probs=20.2

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ..|+|+|.+|+|||||...+...
T Consensus        15 ~ki~v~G~~~~GKSsli~~l~~~   37 (206)
T 2bov_A           15 HKVIMVGSGGVGKSALTLQFMYD   37 (206)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            45899999999999999998863

>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=92.61  E-value=0.067  Score=44.96  Aligned_cols=22  Identities=27%  Similarity=0.224  Sum_probs=20.1

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      -|+|+|.+|+|||||...+...
T Consensus        25 ki~v~G~~~~GKSsli~~l~~~   46 (191)
T 3dz8_A           25 KLLIIGNSSVGKTSFLFRYADD   46 (191)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            5899999999999999998874

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=92.60  E-value=0.06  Score=44.46  Aligned_cols=22  Identities=27%  Similarity=0.303  Sum_probs=19.6

Q ss_pred             CEEEEEcCCCcchHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      --|+|+|.+|+|||||...+..
T Consensus        10 ~~i~v~G~~~~GKssl~~~l~~   31 (181)
T 3tw8_B           10 FKLLIIGDSGVGKSSLLLRFAD   31 (181)
T ss_dssp             EEEEEECCTTSCHHHHHHHHCS
T ss_pred             eEEEEECCCCCCHHHHHHHHhc
Confidence            3589999999999999998875

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=92.59  E-value=0.066  Score=45.15  Aligned_cols=22  Identities=18%  Similarity=0.259  Sum_probs=20.1

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      .|+|+|.+|+|||||...+...
T Consensus         9 ki~v~G~~~~GKSsli~~l~~~   30 (208)
T 3clv_A            9 KTVLLGESSVGKSSIVLRLTKD   30 (208)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            5899999999999999999874

>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=92.59  E-value=0.068  Score=44.81  Aligned_cols=23  Identities=35%  Similarity=0.316  Sum_probs=20.3

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      -.|+|+|.+|+|||||...+...
T Consensus        23 ~ki~v~G~~~~GKSsli~~l~~~   45 (188)
T 1zd9_A           23 MELTLVGLQYSGKTTFVNVIASG   45 (188)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHHcC
Confidence            35899999999999999999863

>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=92.58  E-value=0.063  Score=45.77  Aligned_cols=23  Identities=26%  Similarity=0.356  Sum_probs=20.3

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      -.|+|+|.+|+|||||+..+...
T Consensus        27 ~ki~lvG~~~vGKSsLi~~l~~~   49 (201)
T 2ew1_A           27 FKIVLIGNAGVGKTCLVRRFTQG   49 (201)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHhC
Confidence            46899999999999999998864

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*

Probab=92.58  E-value=0.057  Score=45.03  Aligned_cols=24  Identities=21%  Similarity=0.349  Sum_probs=20.6

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHH
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ...|+|+|.+|+|||||...+...
T Consensus        16 ~~ki~ivG~~~vGKSsL~~~l~~~   39 (181)
T 1fzq_A           16 EVRILLLGLDNAGKTTLLKQLASE   39 (181)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcC
Confidence            346899999999999999988754

>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=92.57  E-value=0.11  Score=43.35  Aligned_cols=30  Identities=30%  Similarity=0.248  Sum_probs=23.5

Q ss_pred             HHHhhc-CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          102 IQSLLG-AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       102 l~~~l~-~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      +.+++. ....|+|+|.+|+|||||...+..
T Consensus         8 ~~~~~~~~~~~i~v~G~~~~GKssl~~~l~~   38 (187)
T 1zj6_A            8 IWRLFNHQEHKVIIVGLDNAGKTTILYQFSM   38 (187)
T ss_dssp             HHHHHTTSCEEEEEEESTTSSHHHHHHHHHT
T ss_pred             HHHhcCCCccEEEEECCCCCCHHHHHHHHhc
Confidence            334333 455799999999999999999885

>3cio_A ETK, tyrosine-protein kinase ETK; WZC, escherichia coli tyrosine kinase domain, signaling protein, transferase, inner membrane, membrane; 2.50A {Escherichia coli}

Probab=92.57  E-value=0.18  Score=45.95  Aligned_cols=36  Identities=22%  Similarity=0.262  Sum_probs=27.7

Q ss_pred             CCCEEEEEcC-CCcchHHHHHHHHHHhhcCcceeEEE
Q 048064          108 AAPLLGIWGI-GGIGKTTIARVIFNRISRNFKGSCFL  143 (429)
Q Consensus       108 ~~~~v~I~G~-~GiGKTtLa~~~~~~~~~~f~~~~~~  143 (429)
                      ..++|.|+|. ||+||||+|..++..+...-..++.+
T Consensus       103 ~~kvI~vts~kgG~GKTtva~nLA~~lA~~G~rVLLI  139 (299)
T 3cio_A          103 ENNILMITGATPDSGKTFVSSTLAAVIAQSDQKVLFI  139 (299)
T ss_dssp             SCCEEEEEESSSSSCHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CCeEEEEECCCCCCChHHHHHHHHHHHHhCCCcEEEE
Confidence            5688999885 89999999999999877653334444

>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=92.56  E-value=0.064  Score=45.90  Aligned_cols=23  Identities=22%  Similarity=0.199  Sum_probs=20.6

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      --|+|+|.+|+|||||+..+...
T Consensus        29 ~ki~vvG~~~vGKSsLi~~l~~~   51 (205)
T 1gwn_A           29 CKIVVVGDSQCGKTALLHVFAKD   51 (205)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            46899999999999999999874

>3hdt_A Putative kinase; structura genomics, PSI-2, protein structure initiative, midwest CENT structural genomics, MCSG; 2.79A {Clostridium symbiosum atcc 14940}

Probab=92.56  E-value=0.072  Score=46.37  Aligned_cols=26  Identities=12%  Similarity=0.169  Sum_probs=23.4

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ..+|+|.|+.|+||||+|+.+++++.
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            45899999999999999999999873

>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=92.53  E-value=0.068  Score=45.41  Aligned_cols=23  Identities=30%  Similarity=0.432  Sum_probs=20.4

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ..|+|+|.+|+|||||...+...
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~   31 (207)
T 1vg8_A            9 LKVIILGDSGVGKTSLMNQYVNK   31 (207)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            35899999999999999998874

>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=92.52  E-value=0.07  Score=44.70  Aligned_cols=23  Identities=22%  Similarity=0.143  Sum_probs=20.4

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      --|+|+|.+|+|||||...+...
T Consensus        23 ~ki~vvG~~~~GKSsli~~l~~~   45 (189)
T 2gf9_A           23 FKLLLIGNSSVGKTSFLFRYADD   45 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            35899999999999999998864

>3gee_A MNME, tRNA modification GTPase MNME; G protein, cytoplasm, GTP- binding, hydrolase, magnesium, metal-binding, nucleotide- binding, potassium; HET: GDP FON; 2.95A {Chlorobium tepidum} PDB: 3gei_A*

Probab=92.52  E-value=0.16  Score=49.57  Aligned_cols=22  Identities=23%  Similarity=0.283  Sum_probs=18.5

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      .|+|+|.+|+|||||...+...
T Consensus       235 kV~ivG~~nvGKSSLln~L~~~  256 (476)
T 3gee_A          235 STVIAGKPNAGKSTLLNTLLGQ  256 (476)
T ss_dssp             EEEEECCTTSSHHHHHHHCC--
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4999999999999999987764

>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=92.51  E-value=0.13  Score=43.48  Aligned_cols=106  Identities=12%  Similarity=0.049  Sum_probs=55.3

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEe-echhhhhhcCCHHHHHHHHHHHHhcC--CCCCCCHHHHHHHhc
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLE-NIREESQKAGGLAFLQQKLLSEVLKD--VNVIPHIDLNFRRLS  185 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~~~~~l~~~l~  185 (429)
                      .++..++|+.|.||||.+...+++...+-..+..+. ......    +.    ..+...++..  .........+...+.
T Consensus         8 g~i~v~~G~mgsGKTT~ll~~a~r~~~~g~kV~v~k~~~d~r~----~~----~~i~s~~g~~~~a~~~~~~~~i~~~~~   79 (191)
T 1xx6_A            8 GWVEVIVGPMYSGKSEELIRRIRRAKIAKQKIQVFKPEIDNRY----SK----EDVVSHMGEKEQAVAIKNSREILKYFE   79 (191)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEEC---------------CEEECTTSCEEECEEESSSTHHHHHCC
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEeccCccc----hH----HHHHhhcCCceeeEeeCCHHHHHHHHh
Confidence            468899999999999999999998754433333332 111100    00    0111111100  001111234555554


Q ss_pred             CCcEEEEecCCCC--HHHHHHHhccCCCCCCCCEEEEEeCCh
Q 048064          186 CRKVLIVLDDVTC--LNQIESLVGSLDRLLPESRILITTRNK  225 (429)
Q Consensus       186 ~~~~LlVlDdv~~--~~~~~~l~~~l~~~~~~~~iiiTtR~~  225 (429)
                      +.--+|++|++..  .++++.+.. +.  ..+..||+|.++.
T Consensus        80 ~~~dvViIDEaqfl~~~~v~~l~~-l~--~~~~~Vi~~Gl~~  118 (191)
T 1xx6_A           80 EDTEVIAIDEVQFFDDEIVEIVNK-IA--ESGRRVICAGLDM  118 (191)
T ss_dssp             TTCSEEEECSGGGSCTHHHHHHHH-HH--HTTCEEEEEECSB
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHH-HH--hCCCEEEEEeccc
Confidence            4334999999853  334443322 22  2377899998854

>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=92.48  E-value=0.072  Score=44.76  Aligned_cols=22  Identities=23%  Similarity=0.296  Sum_probs=19.8

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      -|+|+|.+|+|||||...+...
T Consensus        23 ki~v~G~~~~GKSsli~~l~~~   44 (191)
T 2a5j_A           23 KYIIIGDTGVGKSCLLLQFTDK   44 (191)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHhcC
Confidence            5899999999999999998863

>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=92.46  E-value=0.067  Score=45.03  Aligned_cols=22  Identities=23%  Similarity=0.386  Sum_probs=20.0

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      .|+|+|.+|+|||||...+...
T Consensus        25 ki~vvG~~~~GKSsli~~l~~~   46 (192)
T 2fg5_A           25 KVCLLGDTGVGKSSIVCRFVQD   46 (192)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHC
T ss_pred             EEEEECcCCCCHHHHHHHHhcC
Confidence            5899999999999999998864

>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=92.45  E-value=0.072  Score=44.84  Aligned_cols=23  Identities=22%  Similarity=0.261  Sum_probs=20.4

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      --|+|+|.+|+|||||...+...
T Consensus        24 ~ki~~vG~~~~GKSsl~~~l~~~   46 (194)
T 3reg_A           24 LKIVVVGDGAVGKTCLLLAFSKG   46 (194)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHhcC
Confidence            35899999999999999998874

>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=92.43  E-value=0.072  Score=45.67  Aligned_cols=24  Identities=17%  Similarity=0.155  Sum_probs=20.6

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHH
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ...|+|+|.+|+|||||...+...
T Consensus         7 ~~ki~vvG~~~~GKTsli~~l~~~   30 (214)
T 2fh5_B            7 QRAVLFVGLCDSGKTLLFVRLLTG   30 (214)
T ss_dssp             -CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            356899999999999999998874

>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=92.42  E-value=0.068  Score=46.06  Aligned_cols=21  Identities=29%  Similarity=0.499  Sum_probs=19.0

Q ss_pred             EEEEEcCCCcchHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      -|+|+|.+|+|||||...+..
T Consensus        39 kVvlvG~~~vGKSSLl~r~~~   59 (211)
T 2g3y_A           39 RVVLIGEQGVGKSTLANIFAG   59 (211)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            589999999999999998873

>3ug7_A Arsenical pump-driving ATPase; tail-anchored, membrane protein, targeting factor, ATP-bindi TRC40, ARSA, nucleotide-binding; HET: ADP; 2.90A {Methanocaldococcus jannaschii} PDB: 3ug6_A*

Probab=92.41  E-value=0.12  Score=48.23  Aligned_cols=29  Identities=24%  Similarity=0.355  Sum_probs=24.2

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ..+++.+.|.||+||||+|..++..+...
T Consensus        25 ~~~i~v~sgKGGvGKTTvA~~LA~~lA~~   53 (349)
T 3ug7_A           25 GTKYIMFGGKGGVGKTTMSAATGVYLAEK   53 (349)
T ss_dssp             SCEEEEEECSSSTTHHHHHHHHHHHHHHS
T ss_pred             CCEEEEEeCCCCccHHHHHHHHHHHHHHC
Confidence            44566778999999999999999987665

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=92.40  E-value=0.09  Score=50.33  Aligned_cols=34  Identities=21%  Similarity=0.304  Sum_probs=25.5

Q ss_pred             HHHHHHhhcCCCE--EEEEcCCCcchHHHHHHHHHH
Q 048064           99 VEEIQSLLGAAPL--LGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus        99 ~~~l~~~l~~~~~--v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ++.+.--+....+  ++|+|+.|+|||||.+.++..
T Consensus        30 L~~vsl~i~~Gei~~vaLvG~nGaGKSTLln~L~G~   65 (427)
T 2qag_B           30 DQLVNKSVSQGFCFNILCVGETGLGKSTLMDTLFNT   65 (427)
T ss_dssp             HHHHHHSCC-CCEEEEEEECSTTSSSHHHHHHHHTS
T ss_pred             cCCCceEecCCCeeEEEEECCCCCCHHHHHHHHhCc
Confidence            4444443446667  999999999999999998763

>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=92.39  E-value=0.08  Score=49.51  Aligned_cols=34  Identities=15%  Similarity=0.340  Sum_probs=25.5

Q ss_pred             HHHHHHhhcCCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064           99 VEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus        99 ~~~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ++.|...+ ...+++|+|++|+|||||.+.+....
T Consensus       206 l~~L~~~~-~G~~~~lvG~sG~GKSTLln~L~g~~  239 (358)
T 2rcn_A          206 LKPLEEAL-TGRISIFAGQSGVGKSSLLNALLGLQ  239 (358)
T ss_dssp             HHHHHHHH-TTSEEEEECCTTSSHHHHHHHHHCCS
T ss_pred             HHHHHHhc-CCCEEEEECCCCccHHHHHHHHhccc
Confidence            33444433 46789999999999999999887543

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=92.39  E-value=0.069  Score=45.32  Aligned_cols=24  Identities=25%  Similarity=0.303  Sum_probs=21.0

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHH
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ..-|+|+|.+|+|||||...+...
T Consensus        24 ~~ki~vvG~~~~GKSsli~~l~~~   47 (201)
T 3oes_A           24 YRKVVILGYRCVGKTSLAHQFVEG   47 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             cEEEEEECCCCcCHHHHHHHHHhC
Confidence            346899999999999999998874

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=92.38  E-value=0.11  Score=58.83  Aligned_cols=37  Identities=24%  Similarity=0.409  Sum_probs=31.0

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEe
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLE  144 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  144 (429)
                      ..+.+.|+|++|+|||+||.+++.....+-..+.|+.
T Consensus      1426 ~g~~vll~GppGtGKT~LA~ala~ea~~~G~~v~Fi~ 1462 (2050)
T 3cmu_A         1426 MGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID 1462 (2050)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEE
Confidence            7889999999999999999999998766645556654

>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=92.34  E-value=0.067  Score=45.38  Aligned_cols=22  Identities=23%  Similarity=0.206  Sum_probs=19.8

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      -|+|+|.+|+|||||...+...
T Consensus        10 ki~v~G~~~~GKSsli~~l~~~   31 (203)
T 1zbd_A           10 KILIIGNSSVGKTSFLFRYADD   31 (203)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5899999999999999998864

>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=92.34  E-value=0.057  Score=45.88  Aligned_cols=24  Identities=25%  Similarity=0.375  Sum_probs=20.6

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ....|+|+|.+|+|||||...+..
T Consensus        24 ~~~ki~lvG~~~vGKSsLi~~l~~   47 (198)
T 1f6b_A           24 KTGKLVFLGLDNAGKTTLLHMLKD   47 (198)
T ss_dssp             CCEEEEEEEETTSSHHHHHHHHSC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhc
Confidence            345689999999999999998875

>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=92.33  E-value=0.076  Score=44.48  Aligned_cols=23  Identities=17%  Similarity=0.157  Sum_probs=20.3

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ..|+|+|.+|+|||||...+...
T Consensus        21 ~ki~v~G~~~~GKSsli~~l~~~   43 (189)
T 1z06_A           21 FKIIVIGDSNVGKTCLTYRFCAG   43 (189)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            46899999999999999998763

>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=92.33  E-value=0.076  Score=44.97  Aligned_cols=24  Identities=17%  Similarity=0.207  Sum_probs=20.9

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHH
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ...|+|+|.+|+|||||...+...
T Consensus        28 ~~ki~v~G~~~~GKSsli~~l~~~   51 (199)
T 2p5s_A           28 AYKIVLAGDAAVGKSSFLMRLCKN   51 (199)
T ss_dssp             CEEEEEESSTTSSHHHHHHHHHHC
T ss_pred             CeEEEEECcCCCCHHHHHHHHHhC
Confidence            456999999999999999998763

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=92.32  E-value=0.077  Score=44.60  Aligned_cols=23  Identities=22%  Similarity=0.239  Sum_probs=20.4

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      -.|+|+|.+|+|||||...+...
T Consensus        17 ~ki~v~G~~~~GKSsli~~l~~~   39 (196)
T 3tkl_A           17 FKLLLIGDSGVGKSCLLLRFADD   39 (196)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            35899999999999999998874

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=92.32  E-value=0.084  Score=42.68  Aligned_cols=26  Identities=23%  Similarity=0.326  Sum_probs=22.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ...+.+|+|+.|.||||+..+++.-+
T Consensus        22 ~~g~~~I~G~NGsGKStil~Ai~~~l   47 (149)
T 1f2t_A           22 KEGINLIIGQNGSGKSSLLDAILVGL   47 (149)
T ss_dssp             CSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            35688999999999999999887654

>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=92.32  E-value=0.076  Score=45.97  Aligned_cols=21  Identities=24%  Similarity=0.321  Sum_probs=19.0

Q ss_pred             EEEEEcCCCcchHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      -|+|+|.+|+|||+|+..+.+
T Consensus        15 KivlvGd~~VGKTsLi~r~~~   35 (216)
T 4dkx_A           15 KLVFLGEQSVGKTSLITRFMY   35 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECcCCcCHHHHHHHHHh
Confidence            388999999999999999876

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=92.29  E-value=0.22  Score=49.50  Aligned_cols=40  Identities=18%  Similarity=0.164  Sum_probs=29.5

Q ss_pred             hhHHHHHHHhhc----CCCEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064           96 ESRVEEIQSLLG----AAPLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus        96 ~~~~~~l~~~l~----~~~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      ....+.+.+...    ...+|.+.|++|+||||+|+.+...+..
T Consensus       355 ~eV~~~lr~~~~~~~~~~~~I~l~G~~GsGKSTia~~La~~L~~  398 (546)
T 2gks_A          355 PEVAEILAETYVPKHKQGFCVWLTGLPCAGKSTIAEILATMLQA  398 (546)
T ss_dssp             HHHHHHHHHHSCCGGGCCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHhhccccccceEEEccCCCCCCHHHHHHHHHHHhhh
Confidence            334444555442    3568999999999999999999987653

>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=92.25  E-value=0.079  Score=44.43  Aligned_cols=23  Identities=22%  Similarity=0.307  Sum_probs=20.4

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      -.|+|+|.+|+|||||...+...
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            35899999999999999998874

>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=92.25  E-value=0.11  Score=51.46  Aligned_cols=46  Identities=22%  Similarity=0.215  Sum_probs=30.1

Q ss_pred             HHHHHH-hhcCCCEEEEEcCCCcchHHHHHHHH-HHhhcCcceeEEEe
Q 048064           99 VEEIQS-LLGAAPLLGIWGIGGIGKTTIARVIF-NRISRNFKGSCFLE  144 (429)
Q Consensus        99 ~~~l~~-~l~~~~~v~I~G~~GiGKTtLa~~~~-~~~~~~f~~~~~~~  144 (429)
                      ++.+.- -+....+++|.|++|+|||||++.++ .-+...-...+++.
T Consensus        28 Ld~i~~G~i~~Ge~~~l~G~nGsGKSTL~~~~ll~Gl~~~~~g~i~v~   75 (525)
T 1tf7_A           28 FDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVT   75 (525)
T ss_dssp             HHHHTTSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHHHCCCEEEEE
T ss_pred             HHHhcCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEEE
Confidence            444433 33378899999999999999999963 33332223455554

>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=92.23  E-value=0.074  Score=44.82  Aligned_cols=22  Identities=23%  Similarity=0.537  Sum_probs=19.9

Q ss_pred             CEEEEEcCCCcchHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      --|+|+|.+|+|||||...+..
T Consensus         9 ~ki~vvG~~~~GKSsli~~l~~   30 (199)
T 2gf0_A            9 YRVVVFGAGGVGKSSLVLRFVK   30 (199)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHHc
Confidence            3589999999999999999886

>2woo_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; 3.01A {Schizosaccharomyces pombe}

Probab=92.20  E-value=0.17  Score=46.84  Aligned_cols=36  Identities=22%  Similarity=0.300  Sum_probs=27.5

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEE
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFL  143 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  143 (429)
                      ..+++.+.|.||+||||+|..++..+.+.-..+..+
T Consensus        18 ~~~i~v~sgkGGvGKTTva~~LA~~lA~~G~rVllv   53 (329)
T 2woo_A           18 SLKWIFVGGKGGVGKTTTSCSLAIQMSKVRSSVLLI   53 (329)
T ss_dssp             TCCEEEEECSSSSSHHHHHHHHHHHHHTSSSCEEEE
T ss_pred             CCEEEEEeCCCCCcHHHHHHHHHHHHHHCCCeEEEE
Confidence            356777899999999999999999887653333333

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=92.19  E-value=0.16  Score=44.56  Aligned_cols=39  Identities=21%  Similarity=0.213  Sum_probs=27.5

Q ss_pred             CCEEEEE-cCCCcchHHHHHHHHHHhhcCcceeEEEeech
Q 048064          109 APLLGIW-GIGGIGKTTIARVIFNRISRNFKGSCFLENIR  147 (429)
Q Consensus       109 ~~~v~I~-G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~  147 (429)
                      .++|+|+ +-||+||||+|..++..+.......+.+.++.
T Consensus         4 ~~vI~v~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D   43 (245)
T 3ea0_A            4 KRVFGFVSAKGGDGGSCIAANFAFALSQEPDIHVLAVDIS   43 (245)
T ss_dssp             CEEEEEEESSTTSSHHHHHHHHHHHHTTSTTCCEEEEECC
T ss_pred             CeEEEEECCCCCcchHHHHHHHHHHHHhCcCCCEEEEECC
Confidence            4567666 57999999999999998876623344444443

>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=92.17  E-value=0.084  Score=52.85  Aligned_cols=27  Identities=22%  Similarity=0.223  Sum_probs=23.8

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      ..+|.|.|++|+||||+|+.+.+.+..
T Consensus       396 ~~~I~l~GlsGSGKSTiA~~La~~L~~  422 (573)
T 1m8p_A          396 GFTIFLTGYMNSGKDAIARALQVTLNQ  422 (573)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             ceEEEeecCCCCCHHHHHHHHHHHhcc
Confidence            457999999999999999999998753

>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=92.17  E-value=0.042  Score=46.99  Aligned_cols=24  Identities=17%  Similarity=0.212  Sum_probs=20.6

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ....++|+|++|+|||||.+.++.
T Consensus        25 ~~~~v~lvG~~g~GKSTLl~~l~g   48 (210)
T 1pui_A           25 TGIEVAFAGRSNAGKSSALNTLTN   48 (210)
T ss_dssp             CSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhC
Confidence            455799999999999999987764

>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA degradation, allosteric REGU; HET: ADP 1PE; 2.40A {Saccharomyces cerevisiae}

Probab=92.14  E-value=0.81  Score=47.73  Aligned_cols=36  Identities=31%  Similarity=0.416  Sum_probs=26.0

Q ss_pred             HHHHHHHhhcCCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064           98 RVEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus        98 ~~~~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ..+.+...+ ..+.+.|+|++|+|||+++.++...+.
T Consensus       365 Q~~Av~~~l-~~~~~lI~GppGTGKT~~i~~~i~~l~  400 (802)
T 2xzl_A          365 QSNAVSHVL-QRPLSLIQGPPGTGKTVTSATIVYHLS  400 (802)
T ss_dssp             HHHHHHHHT-TCSEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHh-cCCCEEEECCCCCCHHHHHHHHHHHHH
Confidence            333444433 466889999999999998888776654

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=92.14  E-value=0.12  Score=49.94  Aligned_cols=34  Identities=21%  Similarity=0.428  Sum_probs=27.4

Q ss_pred             HHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          101 EIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       101 ~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      .|...+.  ....++|.|+.|+|||||++.++....
T Consensus       147 vld~vl~i~~Gq~~~IvG~sGsGKSTLl~~Iag~~~  182 (438)
T 2dpy_A          147 AINALLTVGRGQRMGLFAGSGVGKSVLLGMMARYTR  182 (438)
T ss_dssp             HHHHHSCCBTTCEEEEEECTTSSHHHHHHHHHHHSC
T ss_pred             EEeeeEEecCCCEEEEECCCCCCHHHHHHHHhcccC
Confidence            3444443  788999999999999999999988754

>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=92.13  E-value=0.061  Score=49.64  Aligned_cols=25  Identities=36%  Similarity=0.418  Sum_probs=21.9

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      .++++|.|+.|.|||||.+.+....
T Consensus         4 i~v~~i~G~~GaGKTTll~~l~~~~   28 (318)
T 1nij_A            4 IAVTLLTGFLGAGKTTLLRHILNEQ   28 (318)
T ss_dssp             EEEEEEEESSSSSCHHHHHHHHHSC
T ss_pred             ccEEEEEecCCCCHHHHHHHHHhhc
Confidence            4689999999999999999988653

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=92.13  E-value=0.41  Score=56.89  Aligned_cols=154  Identities=10%  Similarity=0.044  Sum_probs=0.0

Q ss_pred             HHHhhcCCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHH
Q 048064          102 IQSLLGAAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNF  181 (429)
Q Consensus       102 l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~  181 (429)
                      +..++...+.|.++|++|+|||.++..+......   ..+...+++.    ..+...++..+-..+...           
T Consensus      1297 l~~ll~~~~pvLL~GptGtGKT~li~~~L~~l~~---~~~~~infS~----~Tta~~l~~~~e~~~e~~----------- 1358 (3245)
T 3vkg_A         1297 LHAWLSEHRPLILCGPPGSGKTMTLTSTLRAFPD---FEVVSLNFSS----ATTPELLLKTFDHHCEYK----------- 1358 (3245)
T ss_dssp             HHHHHHTTCCCEEESSTTSSHHHHHHHHGGGCTT---EEEEEECCCT----TCCHHHHHHHHHHHEEEE-----------
T ss_pred             HHHHHHCCCcEEEECCCCCCHHHHHHHHHHhCCC---CceEEEEeeC----CCCHHHHHHHHhhcceEE-----------


Q ss_pred             HHhc-------------CCcEEEEecCCCCHH--------HHHHHhccCCCCC------------CCCEEEEE-------
Q 048064          182 RRLS-------------CRKVLIVLDDVTCLN--------QIESLVGSLDRLL------------PESRILIT-------  221 (429)
Q Consensus       182 ~~l~-------------~~~~LlVlDdv~~~~--------~~~~l~~~l~~~~------------~~~~iiiT-------  221 (429)
                         .             +++.++++||+..+.        .++-+...+...+            .+..+|.|       
T Consensus      1359 ---~~~~~G~~~~p~~~Gk~~VlFiDDiNmp~~D~yGtQ~~ielLrqlld~~g~yd~~~~~~~~i~d~~~vaamnPp~~g 1435 (3245)
T 3vkg_A         1359 ---RTPSGETVLRPTQLGKWLVVFCDEINLPSTDKYGTQRVITFIRQMVEKGGFWRTSDHTWIKLDKIQFVGACNPPTDA 1435 (3245)
T ss_dssp             ---ECTTSCEEEEESSTTCEEEEEETTTTCCCCCTTSCCHHHHHHHHHHHHSEEEETTTTEEEEESSEEEEEEECCTTST
T ss_pred             ---eccCCCcccCCCcCCceEEEEecccCCCCccccccccHHHHHHHHHHcCCeEECCCCeEEEecCeEEEEEcCCCCCC


Q ss_pred             eCChhhhhhcCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHh
Q 048064          222 TRNKQVLRNCHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYA  276 (429)
Q Consensus       222 tR~~~~~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~  276 (429)
                      .|..--........++.++..+.++-..+|......-....+.....+..+++.+
T Consensus      1436 Gr~~l~~Rf~r~F~vi~i~~ps~esL~~If~til~~~l~~~p~l~~~~~~lv~at 1490 (3245)
T 3vkg_A         1436 GRVQLTHRFLRHAPILLVDFPSTSSLTQIYGTFNRALMKLLPNLRSFADNLTDAM 1490 (3245)
T ss_dssp             TCCCCCHHHHTTCCEEECCCCCHHHHHHHHHHHHHHHTTSCGGGTTSHHHHHHHH
T ss_pred             CCccCCHHHHhhceEEEeCCCCHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHH

>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=92.08  E-value=0.064  Score=49.07  Aligned_cols=21  Identities=33%  Similarity=0.561  Sum_probs=18.5

Q ss_pred             EEEEEcCCCcchHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      -|+|+|++|+|||||.+.++.
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            359999999999999999764

>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=92.02  E-value=0.12  Score=48.75  Aligned_cols=36  Identities=19%  Similarity=0.219  Sum_probs=26.7

Q ss_pred             CCCEEEEEc-CCCcchHHHHHHHHHHhhcCcceeEEE
Q 048064          108 AAPLLGIWG-IGGIGKTTIARVIFNRISRNFKGSCFL  143 (429)
Q Consensus       108 ~~~~v~I~G-~~GiGKTtLa~~~~~~~~~~f~~~~~~  143 (429)
                      ..++|+|+| -||+||||+|..++..+...-..++.+
T Consensus       142 ~~kvIav~s~KGGvGKTT~a~nLA~~La~~g~rVlli  178 (373)
T 3fkq_A          142 KSSVVIFTSPCGGVGTSTVAAACAIAHANMGKKVFYL  178 (373)
T ss_dssp             SCEEEEEECSSTTSSHHHHHHHHHHHHHHHTCCEEEE
T ss_pred             CceEEEEECCCCCChHHHHHHHHHHHHHhCCCCEEEE
Confidence            457788875 999999999999999876653333333

>1ko7_A HPR kinase/phosphatase; protein kinase, phosphotransfer, protein phosphatase, dual activity, product, substrate, transferase, hydrolase; 1.95A {Staphylococcus xylosus} SCOP: c.98.2.1 c.91.1.2

Probab=92.02  E-value=0.092  Score=48.03  Aligned_cols=25  Identities=32%  Similarity=0.295  Sum_probs=22.4

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ..+.+.|.|++|+||||+|.++..+
T Consensus       143 ~g~~vl~~G~sG~GKSt~a~~l~~~  167 (314)
T 1ko7_A          143 YGVGVLITGDSGIGKSETALELIKR  167 (314)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHT
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHhc
Confidence            3668999999999999999999875

>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=92.01  E-value=0.082  Score=45.00  Aligned_cols=22  Identities=23%  Similarity=0.315  Sum_probs=19.8

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      -|+|+|.+|+|||||...+...
T Consensus        10 ki~v~G~~~~GKSsli~~l~~~   31 (206)
T 2bcg_Y           10 KLLLIGNSGVGKSCLLLRFSDD   31 (206)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5899999999999999998863

>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=91.98  E-value=0.066  Score=44.66  Aligned_cols=25  Identities=28%  Similarity=0.304  Sum_probs=21.2

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ....|+|.|.+|+|||||...+...
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            3456899999999999999998763

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=91.98  E-value=0.079  Score=51.53  Aligned_cols=26  Identities=27%  Similarity=0.378  Sum_probs=23.3

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ...+++|.|+.|+|||||++.++.-.
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            67899999999999999999988754

>3la6_A Tyrosine-protein kinase WZC; P-loop protein, nucleotide binding domain, walker A motif, B protein kinase, oligomerization; HET: ADP; 3.20A {Escherichia coli}

Probab=91.95  E-value=0.27  Score=44.51  Aligned_cols=47  Identities=19%  Similarity=0.223  Sum_probs=32.6

Q ss_pred             hHHHHHHHhhc------CCCEEEEEc-CCCcchHHHHHHHHHHhhcCcceeEEE
Q 048064           97 SRVEEIQSLLG------AAPLLGIWG-IGGIGKTTIARVIFNRISRNFKGSCFL  143 (429)
Q Consensus        97 ~~~~~l~~~l~------~~~~v~I~G-~~GiGKTtLa~~~~~~~~~~f~~~~~~  143 (429)
                      +.++.|...+.      ..++|+|+| .||+||||+|..++..+...-..++.+
T Consensus        74 Ea~r~lrt~l~~~~~~~~~kvI~vts~kgG~GKTtva~nLA~~lA~~G~rVLLI  127 (286)
T 3la6_A           74 EAIRSLRTSLHFAMMQAQNNVLMMTGVSPSIGMTFVCANLAAVISQTNKRVLLI  127 (286)
T ss_dssp             HHHHHHHHHHHHHSTTTTCCEEEEEESSSSSSHHHHHHHHHHHHHTTTCCEEEE
T ss_pred             HHHHHHHHHHhhhccCCCCeEEEEECCCCCCcHHHHHHHHHHHHHhCCCCEEEE
Confidence            44555555443      567888877 589999999999999887654334444

>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=91.95  E-value=0.13  Score=57.55  Aligned_cols=37  Identities=24%  Similarity=0.409  Sum_probs=0.0

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEe
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLE  144 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  144 (429)
                      ..+++.|+|++|+|||+||++++.+-..+-...+|+.
T Consensus      1081 ~g~~~l~~G~~g~GKT~la~~~~~~~~~~g~~~~fi~ 1117 (1706)
T 3cmw_A         1081 MGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID 1117 (1706)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEC
T ss_pred             CCCEEEEEcCCCCChHHHHHHHHHHhhhcCCceeEEE

>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=91.92  E-value=0.09  Score=44.88  Aligned_cols=24  Identities=17%  Similarity=0.239  Sum_probs=20.7

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHH
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ...|+|+|.+|+|||||...+...
T Consensus        20 ~~~i~v~G~~~~GKSsli~~l~~~   43 (213)
T 3cph_A           20 IMKILLIGDSGVGKSCLLVRFVED   43 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            346899999999999999998863

>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=91.92  E-value=0.16  Score=51.24  Aligned_cols=35  Identities=31%  Similarity=0.396  Sum_probs=27.5

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEE
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCF  142 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~  142 (429)
                      ..+++.+.|.||+||||+|..++..+.+.-..+..
T Consensus         7 ~~~i~~~sgkGGvGKTT~a~~lA~~lA~~G~rVLl   41 (589)
T 1ihu_A            7 IPPYLFFTGKGGVGKTSISCATAIRLAEQGKRVLL   41 (589)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEE
T ss_pred             CCEEEEEeCCCcCHHHHHHHHHHHHHHHCCCcEEE
Confidence            46789999999999999999999887655333333

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A*

Probab=91.89  E-value=0.07  Score=44.40  Aligned_cols=23  Identities=30%  Similarity=0.222  Sum_probs=20.4

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      -.|+|+|.+|+|||||...+...
T Consensus        22 ~~i~v~G~~~~GKSsli~~l~~~   44 (181)
T 2h17_A           22 HKVIIVGLDNAGKTTILYQFSMN   44 (181)
T ss_dssp             EEEEEEEETTSSHHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            46899999999999999998863

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=91.88  E-value=0.087  Score=44.57  Aligned_cols=24  Identities=21%  Similarity=0.232  Sum_probs=20.2

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHH
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      .--|+|+|.+|+|||||...+...
T Consensus        20 ~~ki~~~G~~~~GKssl~~~l~~~   43 (201)
T 2q3h_A           20 GVKCVLVGDGAVGKTSLVVSYTTN   43 (201)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHC-
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            346899999999999999988753

>1wcv_1 SOJ, segregation protein; ATPase, bacterial, chromosome segregation; 1.6A {Thermus thermophilus} PDB: 2bej_A* 2bek_A*

Probab=91.87  E-value=0.15  Score=45.36  Aligned_cols=38  Identities=24%  Similarity=0.273  Sum_probs=27.7

Q ss_pred             CCCEEEEE-cCCCcchHHHHHHHHHHhhcCcceeEEEeec
Q 048064          108 AAPLLGIW-GIGGIGKTTIARVIFNRISRNFKGSCFLENI  146 (429)
Q Consensus       108 ~~~~v~I~-G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~  146 (429)
                      ..++|+|+ +-||+||||+|..++..+...- ..+.+.++
T Consensus         5 ~~~vI~v~s~kGGvGKTt~a~~LA~~la~~g-~~VlliD~   43 (257)
T 1wcv_1            5 KVRRIALANQKGGVGKTTTAINLAAYLARLG-KRVLLVDL   43 (257)
T ss_dssp             CCCEEEECCSSCCHHHHHHHHHHHHHHHHTT-CCEEEEEC
T ss_pred             CCEEEEEEeCCCCchHHHHHHHHHHHHHHCC-CCEEEEEC
Confidence            45678886 6899999999999999886553 33444433

>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=91.85  E-value=0.18  Score=47.23  Aligned_cols=35  Identities=26%  Similarity=0.292  Sum_probs=26.7

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhh--cCcceeEEE
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRIS--RNFKGSCFL  143 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~--~~f~~~~~~  143 (429)
                      ..++...|-||+||||+|..++..+.  ..-..+..+
T Consensus        18 ~~i~v~sgKGGvGKTTvaanLA~~lA~~~~G~rVLLv   54 (354)
T 2woj_A           18 HKWIFVGGKGGVGKTTSSCSIAIQMALSQPNKQFLLI   54 (354)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHHHHHCTTSCEEEE
T ss_pred             cEEEEEeCCCCCcHHHHHHHHHHHHHHhcCCCeEEEE
Confidence            56677789999999999999999887  543333333

>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=91.84  E-value=0.087  Score=44.96  Aligned_cols=23  Identities=30%  Similarity=0.297  Sum_probs=20.3

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ..|+|+|.+|+|||||...+...
T Consensus        26 ~ki~vvG~~~~GKSsli~~l~~~   48 (207)
T 2fv8_A           26 KKLVVVGDGACGKTCLLIVFSKD   48 (207)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             cEEEEECcCCCCHHHHHHHHhcC
Confidence            46899999999999999998863

>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=91.83  E-value=1  Score=46.96  Aligned_cols=36  Identities=33%  Similarity=0.470  Sum_probs=26.8

Q ss_pred             HHHHHHhhcCCCEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064           99 VEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus        99 ~~~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      .+.+...+ ..++..|+|++|+|||+++..+...+..
T Consensus       362 ~~Av~~~l-~~~~~lI~GppGTGKT~ti~~~i~~l~~  397 (800)
T 2wjy_A          362 VYAVKTVL-QRPLSLIQGPPGTGKTVTSATIVYHLAR  397 (800)
T ss_dssp             HHHHHHHH-TSSEEEEECCTTSCHHHHHHHHHHHHHT
T ss_pred             HHHHHHhc-cCCeEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            33333334 4578899999999999998888877654

>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=91.82  E-value=0.086  Score=46.24  Aligned_cols=24  Identities=25%  Similarity=0.368  Sum_probs=21.0

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHH
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ...|+|+|.+|+|||||...+...
T Consensus        29 ~~~i~lvG~~g~GKStlin~l~g~   52 (239)
T 3lxx_A           29 QLRIVLVGKTGAGKSATGNSILGR   52 (239)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHTS
T ss_pred             ceEEEEECCCCCCHHHHHHHHcCC
Confidence            456999999999999999998863

>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=91.82  E-value=0.11  Score=47.43  Aligned_cols=33  Identities=24%  Similarity=0.507  Sum_probs=25.1

Q ss_pred             HHHHHHhhcCCCEEEEEcCCCcchHHHHHHHHHH
Q 048064           99 VEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus        99 ~~~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ++++...+ ...+++|.|++|+|||||.+.++..
T Consensus       160 v~~lf~~l-~geiv~l~G~sG~GKSTll~~l~g~  192 (301)
T 1u0l_A          160 IEELKEYL-KGKISTMAGLSGVGKSSLLNAINPG  192 (301)
T ss_dssp             HHHHHHHH-SSSEEEEECSTTSSHHHHHHHHSTT
T ss_pred             HHHHHHHh-cCCeEEEECCCCCcHHHHHHHhccc
Confidence            34444444 4578999999999999999988754

>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=91.81  E-value=0.084  Score=44.79  Aligned_cols=22  Identities=18%  Similarity=0.285  Sum_probs=19.7

Q ss_pred             CEEEEEcCCCcchHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      --|+|+|.+|+|||||...+..
T Consensus        26 ~ki~v~G~~~~GKSsLi~~l~~   47 (200)
T 2o52_A           26 FKFLVIGSAGTGKSCLLHQFIE   47 (200)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHh
Confidence            3589999999999999999875

>2ph1_A Nucleotide-binding protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; 2.70A {Archaeoglobus fulgidus dsm 4304} PDB: 3kb1_A*

Probab=91.78  E-value=0.29  Score=43.51  Aligned_cols=29  Identities=24%  Similarity=0.510  Sum_probs=23.2

Q ss_pred             CCCEEEE-EcCCCcchHHHHHHHHHHhhcC
Q 048064          108 AAPLLGI-WGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       108 ~~~~v~I-~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ..++|+| .|-||+||||+|..++..+...
T Consensus        17 ~~~vI~v~s~kGGvGKTT~a~nLA~~la~~   46 (262)
T 2ph1_A           17 IKSRIAVMSGKGGVGKSTVTALLAVHYARQ   46 (262)
T ss_dssp             CSCEEEEECSSSCTTHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEEcCCCCCCHHHHHHHHHHHHHHC
Confidence            4566766 5688999999999999987655

>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=91.78  E-value=0.09  Score=44.20  Aligned_cols=22  Identities=27%  Similarity=0.271  Sum_probs=20.1

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      -|+|+|.+|+|||||...+...
T Consensus        20 ki~v~G~~~~GKssli~~l~~~   41 (194)
T 2atx_A           20 KCVVVGDGAVGKTCLLMSYAND   41 (194)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5899999999999999999874

---

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	429
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	2e-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 =  132 bits (333), Expect = 2e-36
 Identities = 39/257 (15%), Positives = 83/257 (32%), Gaps = 14/257 (5%)

Query: 89  KNELVGVESRVEEIQSLL-----GAAPLLGIWGIGGIGKTTIARVIFNR----ISRNFKG 139
           +      E  V+ +   L       +  L + G  G GK+ IA    ++    I  N+  
Sbjct: 19  QMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDS 78

Query: 140 SCFLENIREESQKA---GGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDV 196
             +L++     +          L  K   ++L   +V     +  +R+ C  ++   + +
Sbjct: 79  IVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTL 138

Query: 197 TCLNQIESLVGSLDRLLPESRILITTRNKQVLRNCHINQ-IYEMKGLGDDHALELFIRHA 255
              + +              R L+TTR+ ++           E+  L  D   +    + 
Sbjct: 139 FVFDDVVQEETIRWAQELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDECYDFLEAYG 198

Query: 256 FRQNLVDVDYKELSDKVINYAQGVPLALKILGCYLFERKKEVWENAIKKLKNFLHQNILD 315
                V    +++ +K I  + G P  L +       +  E       KL++     +  
Sbjct: 199 MPMP-VGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESRGLVGVEC 257

Query: 316 VLKISYDDLDNDEKNIF 332
           +   SY  L    +   
Sbjct: 258 ITPYSYKSLAMALQRCV 274

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	429
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	100.0
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	99.55
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	99.2
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	99.13
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.12
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	99.11
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	99.09
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	99.07
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	99.05
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	99.03
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	99.02
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.92
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	98.89
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	98.88
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	98.86
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	98.84
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.83
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	98.78
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	98.78
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	98.74
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	98.7
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.68
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	98.65
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	97.97
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	97.95
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.67
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.47
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.45
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.44
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.39
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.38
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.36
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.33
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.28
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	97.26
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.26
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	97.26
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.24
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.23
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.18
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.14
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.13
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.1
d1ls1a2	207	GTPase domain of the signal sequence recognition p	97.08
d1okkd2	207	GTPase domain of the signal recognition particle r	97.07
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	96.99
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	96.99
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	96.98
d1vmaa2	213	GTPase domain of the signal recognition particle r	96.97
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	96.97
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	96.95
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	96.95
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.9
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.89
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	96.88
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	96.87
d1j8yf2	211	GTPase domain of the signal sequence recognition p	96.84
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.8
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	96.79
d2qy9a2	211	GTPase domain of the signal recognition particle r	96.79
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	96.77
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.74
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	96.69
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.65
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.62
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	96.61
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	96.56
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.53
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.51
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	96.51
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	96.43
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.41
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	96.41
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.4
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	96.36
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	96.34
d1xpua3	289	Transcription termination factor Rho, ATPase domai	96.32
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	96.32
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	96.31
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	96.3
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	96.28
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	96.26
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	96.24
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.22
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	96.21
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	96.19
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	96.11
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.1
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	96.08
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	96.08
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	96.07
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	96.02
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	95.99
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	95.84
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	95.82
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	95.8
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	95.79
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	95.72
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	95.67
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	95.61
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	95.54
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	95.51
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	95.49
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	95.45
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	95.44
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	95.41
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	95.41
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	95.4
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	95.38
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	95.22
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	95.18
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	95.17
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	95.09
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	95.08
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	95.03
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	94.88
d2awna2	232	Maltose transport protein MalK, N-terminal domain	94.87
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	94.86
d1g2912	240	Maltose transport protein MalK, N-terminal domain	94.86
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	94.84
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	94.78
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	94.71
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	94.7
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.68
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	94.66
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	94.63
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	94.59
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	94.57
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	94.57
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	94.52
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	94.5
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	94.43
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	94.4
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	94.39
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	94.39
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	94.39
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	94.38
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	94.32
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	94.31
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	94.29
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	94.28
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	94.28
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	94.22
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	94.21
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	94.21
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	94.2
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	94.18
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	94.17
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	94.14
d2fh5b1	207	Signal recognition particle receptor beta-subunit	94.14
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	94.12
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	94.09
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	94.08
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	94.04
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	94.04
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	94.02
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	94.02
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.0
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	93.99
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	93.99
d1nrjb_	209	Signal recognition particle receptor beta-subunit	93.99
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	93.97
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	93.93
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	93.92
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	93.92
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	93.91
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	93.88
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	93.87
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	93.87
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	93.84
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	93.82
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	93.81
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	93.81
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	93.8
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	93.8
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	93.78
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	93.71
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	93.7
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	93.7
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	93.7
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	93.66
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	93.66
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	93.66
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	93.61
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	93.55
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	93.51
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	93.41
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	93.39
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	93.38
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	93.35
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	93.33
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	93.33
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	93.33
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	93.31
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	93.31
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	93.28
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	93.26
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	93.19
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	93.13
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	93.13
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	93.1
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	93.03
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	92.97
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	92.93
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	92.9
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	92.88
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	92.84
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	92.77
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	92.76
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	92.7
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	92.63
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	92.57
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	92.53
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	92.52
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	92.39
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	92.04
d1tuea_	205	Replication protein E1 helicase domain {Human papi	92.03
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	91.98
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	91.93
d2bmfa2	305	Dengue virus helicase {Dengue virus type 2 [TaxId:	91.91
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	91.87
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	91.81
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	91.76
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	91.59
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	91.52
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	91.35
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	90.71
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	90.69
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	90.5
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	90.2
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	89.85
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	89.64
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	88.89
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	88.7
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	88.5
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	88.39
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	87.95
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	87.67
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	87.32
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	87.15
d1mkma1	75	Transcriptional regulator IclR, N-terminal domain	86.86
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	86.84
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	86.73
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	86.42
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	86.41
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	86.32
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	85.92
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	85.85
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	84.74
d1g5ta_	157	ATP:corrinoid adenosyltransferase CobA {Salmonella	84.36
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	84.34
d1hv8a1	208	Putative DEAD box RNA helicase {Archaeon Methanoco	83.74
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	83.27
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	82.01
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	81.96
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	81.78
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	80.73
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	80.56
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	80.48
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	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=1.4e-37  Score=284.92  Aligned_cols=238  Identities=18%  Similarity=0.169  Sum_probs=186.1

Q ss_pred             CCcccchhhHHHHHHHhhc-----CCCEEEEEcCCCcchHHHHHHHHHH----hhcCcceeEEEeechhhhhhcCCHHHH
Q 048064           89 KNELVGVESRVEEIQSLLG-----AAPLLGIWGIGGIGKTTIARVIFNR----ISRNFKGSCFLENIREESQKAGGLAFL  159 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~-----~~~~v~I~G~~GiGKTtLa~~~~~~----~~~~f~~~~~~~~~~~~~~~~~~~~~~  159 (429)
                      ...++||+.++++|.++|.     +.++|+|+||||+||||||++++++    ...+|+.++|+......+.  ..+...
T Consensus        19 ~~~~~gR~~~~~~i~~~L~~~~~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~--~~l~~~   96 (277)
T d2a5yb3          19 QMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPK--STFDLF   96 (277)
T ss_dssp             CCCSCCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTT--HHHHHH
T ss_pred             CCceeCcHHHHHHHHHHHHhccCCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCCH--HHHHHH
Confidence            3457899999999999985     5679999999999999999999987    4445777888764432221  122222


Q ss_pred             HHHHHHHHhcCC-----CCCCCHH------HHHHHhcCCcEEEEecCCCCHHHHHHHhccCCCCCCCCEEEEEeCChhhh
Q 048064          160 QQKLLSEVLKDV-----NVIPHID------LNFRRLSCRKVLIVLDDVTCLNQIESLVGSLDRLLPESRILITTRNKQVL  228 (429)
Q Consensus       160 ~~~l~~~~~~~~-----~~~~~~~------~l~~~l~~~~~LlVlDdv~~~~~~~~l~~~l~~~~~~~~iiiTtR~~~~~  228 (429)
                      ...++.......     ......+      .+...+.++++|+||||+|+..+++.+..      .+++||||||+..++
T Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlVLDDv~~~~~~~~~~~------~~srilvTTR~~~v~  170 (277)
T d2a5yb3          97 TDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWAQE------LRLRCLVTTRDVEIS  170 (277)
T ss_dssp             HHHHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHHHHHHH------TTCEEEEEESBGGGG
T ss_pred             HHHHHHHhcchhhcCCccchhhhhHHHHHHHHHHHhccCCeeEecchhhHHhhhhhhcc------cCceEEEEeehHHHH
Confidence            333333332221     1111111      15667889999999999999999887653      489999999999998


Q ss_pred             hhcCCC-eEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHHHHhhcCCCHHHHHHHHHHHhh
Q 048064          229 RNCHIN-QIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKILGCYLFERKKEVWENAIKKLKN  307 (429)
Q Consensus       229 ~~~~~~-~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~~~~l~~~~~~~~~~~l~~l~~  307 (429)
                      ..+... ..|++++|+.+||++||..+++...... ...+.+++|+++|+|+||||+.+|+.++.++.+.|....+.+..
T Consensus       171 ~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~-~~~~~~~~iv~~c~GlPLAl~~ig~~l~~k~~~~~~~~~~~L~~  249 (277)
T d2a5yb3         171 NAASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGE-KEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLES  249 (277)
T ss_dssp             GGCCSCEEEEECCCCCHHHHHHHHHHTSCCCC--C-HHHHHHHHHHHHHTTCHHHHHHHHTTCCSSSHHHHHHHHHHHHH
T ss_pred             HhcCCCCceEECCCCCHHHHHHHHHHHhCCccCch-hhHHHHHHHHHHhCCCHHHHHHHHHHhccCCHHHHHHHHHHHhc
Confidence            876544 6799999999999999999987655443 45788999999999999999999999999999999999998987


Q ss_pred             CCCccHHHHHHHhhhcCChhhHHHHhhh
Q 048064          308 FLHQNILDVLKISYDDLDNDEKNIFLDV  335 (429)
Q Consensus       308 ~~~~~i~~~l~~s~~~L~~~~~~~l~~l  335 (429)
                      .....+..++..||+.||++.|.||.++
T Consensus       250 ~~~~~v~~il~~sY~~L~~~lk~c~~~l  277 (277)
T d2a5yb3         250 RGLVGVECITPYSYKSLAMALQRCVEVL  277 (277)
T ss_dssp             HCSSTTCCCSSSSSSSHHHHHHHHHHTS
T ss_pred             CcHHHHHHHHHHHHhcccHHHHHHHHhC
Confidence            7778899999999999999999999764

>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=99.55  E-value=4.5e-14  Score=127.65  Aligned_cols=195  Identities=19%  Similarity=0.252  Sum_probs=115.2

Q ss_pred             CCCCcccchhhHHHHHHHhhcCCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSE  166 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~  166 (429)
                      ..+..|+||++++++|.+.  ..+.+.|+|++|+|||+|+++++++....+   .++...............+...+...
T Consensus         9 ~~~~~f~GR~~el~~l~~~--~~~~i~i~G~~G~GKTsLl~~~~~~~~~~~---~~i~~~~~~~~~~~~~~~~~~~~~~~   83 (283)
T d2fnaa2           9 DNRKDFFDREKEIEKLKGL--RAPITLVLGLRRTGKSSIIKIGINELNLPY---IYLDLRKFEERNYISYKDFLLELQKE   83 (283)
T ss_dssp             CSGGGSCCCHHHHHHHHHT--CSSEEEEEESTTSSHHHHHHHHHHHHTCCE---EEEEGGGGTTCSCCCHHHHHHHHHHH
T ss_pred             CChhhCCChHHHHHHHHhc--cCCEEEEEcCCCCcHHHHHHHHHHHCCCCe---EEEEeccccccccccHHHHHHHHHHH
Confidence            5578999999999999875  467899999999999999999998875432   22221111112122333333333332


Q ss_pred             HhcC-----------------------------CCCCCCHHHHH---HHhcCCcEEEEecCCCCHHH------HHHHhcc
Q 048064          167 VLKD-----------------------------VNVIPHIDLNF---RRLSCRKVLIVLDDVTCLNQ------IESLVGS  208 (429)
Q Consensus       167 ~~~~-----------------------------~~~~~~~~~l~---~~l~~~~~LlVlDdv~~~~~------~~~l~~~  208 (429)
                      ....                             ......+..+.   ....+++.++|+|+++....      ...+...
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~i~id~~~~~~~~~~~~~~~~l~~~  163 (283)
T d2fnaa2          84 INKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVKLRGVNLLPALAYA  163 (283)
T ss_dssp             HHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGGGCTTCCCHHHHHHH
T ss_pred             hhhhhhhhHHHHHHHHhhhcccccccccccccchhhhhHHHHHHHHHHhhcccccccccchhhhhcccchHHHHHHHHHH
Confidence            2110                             00011122222   23456889999999853211      1111111


Q ss_pred             CCCCCCCCEEEEEeCChhhhhhc------------CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHh
Q 048064          209 LDRLLPESRILITTRNKQVLRNC------------HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYA  276 (429)
Q Consensus       209 l~~~~~~~~iiiTtR~~~~~~~~------------~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~  276 (429)
                      .. .......+++++........            .....+.|.+++.+++.+++.+..........    ..+++++.+
T Consensus       164 ~~-~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~~l~~~e~~~~l~~~~~~~~~~~~----~~~~i~~~~  238 (283)
T d2fnaa2         164 YD-NLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDFK----DYEVVYEKI  238 (283)
T ss_dssp             HH-HCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCCC----CHHHHHHHH
T ss_pred             HH-hhhhhhhhhccccchHHHHHHHhhhhcchhcccceeEEeeCCCCHHHHHHHHHhhhhhcCCCHH----HHHHHHHHh
Confidence            11 12344555555443322111            12467889999999999999876533322221    257899999


Q ss_pred             CCChHHHHHHHHhhc
Q 048064          277 QGVPLALKILGCYLF  291 (429)
Q Consensus       277 ~G~PLai~~~~~~l~  291 (429)
                      +|+|.++..++..+.
T Consensus       239 ~G~P~~L~~~~~~~~  253 (283)
T d2fnaa2         239 GGIPGWLTYFGFIYL  253 (283)
T ss_dssp             CSCHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHH
Confidence            999999999987653

>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=99.20  E-value=1.9e-09  Score=96.16  Aligned_cols=165  Identities=18%  Similarity=0.167  Sum_probs=101.1

Q ss_pred             CCCCcccchhhHHHHHHHhhc--------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG--------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAF  158 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~--------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~  158 (429)
                      +.+..++||+.+++++.++|.        .++.+.|+|++|+|||++|+.+++.+.......+.+.+...    ......
T Consensus        13 y~p~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~----~~~~~~   88 (276)
T d1fnna2          13 YVPKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFI----YRNFTA   88 (276)
T ss_dssp             CCCSCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTT----CCSHHH
T ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHHhcccCCcEEEecchh----hhhhhh
Confidence            566789999999999999885        34789999999999999999999998776555544443332    344555


Q ss_pred             HHHHHHHHHhcCC-CCCCCHHH----HHHHh--cCCcEEEEecCCCCHH--H---HHHHhccCCCC-CCCCEEEEEeCCh
Q 048064          159 LQQKLLSEVLKDV-NVIPHIDL----NFRRL--SCRKVLIVLDDVTCLN--Q---IESLVGSLDRL-LPESRILITTRNK  225 (429)
Q Consensus       159 ~~~~l~~~~~~~~-~~~~~~~~----l~~~l--~~~~~LlVlDdv~~~~--~---~~~l~~~l~~~-~~~~~iiiTtR~~  225 (429)
                      ....+........ ........    +...+  .....++++|+++...  .   ...+....... .....+|.++...
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~  168 (276)
T d1fnna2          89 IIGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHND  168 (276)
T ss_dssp             HHHHHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESST
T ss_pred             hhhhhHHhhhhhhhhhccchhHHHHHHHHHHhhcccccccchhHHHHhhhhhhhhHHHHHhccccccccceEEeecCCch
Confidence            5555555544442 22222222    22222  2356677788776432  1   12222211111 2233455555554


Q ss_pred             hhhhhc-------CCCeEEEcCCCCHHHHHHHHHHhh
Q 048064          226 QVLRNC-------HINQIYEMKGLGDDHALELFIRHA  255 (429)
Q Consensus       226 ~~~~~~-------~~~~~~~l~~L~~~ea~~L~~~~~  255 (429)
                      .....+       .....+.+++++.++..+++.+++
T Consensus       169 ~~~~~~~~~~~~r~~~~~i~~~~~~~~e~~~il~~r~  205 (276)
T d1fnna2         169 AVLNNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRA  205 (276)
T ss_dssp             HHHHTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHH
T ss_pred             hhhhhcchhhhhhhcchhccccchhHHHHHHHHHHHH
Confidence            332221       123467899999999999998765

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.13  E-value=3.3e-10  Score=99.32  Aligned_cols=188  Identities=13%  Similarity=0.175  Sum_probs=112.9

Q ss_pred             CCCCcccchhhHHHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhcCc--ceeEEEeechhhhhhcCCHHHHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISRNF--KGSCFLENIREESQKAGGLAFLQQK  162 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f--~~~~~~~~~~~~~~~~~~~~~~~~~  162 (429)
                      ..-.+++|.+..++.|..++.  ..+.+.++|++|+||||+++.+++++....  .......+...    ..+.......
T Consensus         9 ~~~~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~----~~~~~~~~~~   84 (237)
T d1sxjd2           9 KNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASD----ERGISIVREK   84 (237)
T ss_dssp             SSTTTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSS----CCCHHHHTTH
T ss_pred             CCHHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheeccc----cccchHHHHH
Confidence            455789999999999999998  445689999999999999999999763321  11111122211    2222222222


Q ss_pred             HHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEeCCh-hhhhhc-CCCeEEE
Q 048064          163 LLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITTRNK-QVLRNC-HINQIYE  238 (429)
Q Consensus       163 l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTtR~~-~~~~~~-~~~~~~~  238 (429)
                      + ...............+......+.-++|+|+++..  .....+...+.......++++|+... .....+ .....++
T Consensus        85 ~-~~~~~~~~~~~~~~~~~~~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~l~sr~~~i~  163 (237)
T d1sxjd2          85 V-KNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKFR  163 (237)
T ss_dssp             H-HHHHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHSEEEE
T ss_pred             H-HHHhhhhhhhhhHHHHhhccccCceEEEEecccccCHHHHHHHhhccccccccccccccccccccccccccchhhhhc
Confidence            2 22222211222222233334445558999999744  33444444333334566666665543 222221 2346789


Q ss_pred             cCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChH
Q 048064          239 MKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPL  281 (429)
Q Consensus       239 l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PL  281 (429)
                      +.+++.++...++...+......  -..+..+.|++.++|.+.
T Consensus       164 f~~~~~~~~~~~L~~i~~~e~i~--i~~~~l~~ia~~s~gd~R  204 (237)
T d1sxjd2         164 FKALDASNAIDRLRFISEQENVK--CDDGVLERILDISAGDLR  204 (237)
T ss_dssp             CCCCCHHHHHHHHHHHHHTTTCC--CCHHHHHHHHHHTSSCHH
T ss_pred             cccccccccchhhhhhhhhhcCc--CCHHHHHHHHHHcCCCHH
Confidence            99999999999998876543321  124668889999988764

>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=99.12  E-value=1.2e-09  Score=96.29  Aligned_cols=148  Identities=16%  Similarity=0.185  Sum_probs=97.5

Q ss_pred             CcccchhhHHHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhcC------cceeEEEeechhhhhh---cCCHHH
Q 048064           90 NELVGVESRVEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISRN------FKGSCFLENIREESQK---AGGLAF  158 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~------f~~~~~~~~~~~~~~~---~~~~~~  158 (429)
                      +..+||+.+++++.+.|.  ....+.++|++|+|||+++..+++++...      ....+|..+.......   ...+..
T Consensus        18 d~~igRd~Ei~~l~~iL~r~~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~liag~~~~g~~e~   97 (268)
T d1r6bx2          18 DPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDFEK   97 (268)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCCCSSCHHH
T ss_pred             CcccChHHHHHHHHHHHhcCccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechHhccCccchhHHH
Confidence            468999999999999998  66789999999999999999999986542      2235665544332211   122333


Q ss_pred             HHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH----------HHHHHHh-ccCCCCCCCCEEEEEeCChhh
Q 048064          159 LQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL----------NQIESLV-GSLDRLLPESRILITTRNKQV  227 (429)
Q Consensus       159 ~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~----------~~~~~l~-~~l~~~~~~~~iiiTtR~~~~  227 (429)
                      -.+.++..+                -...++++++|+++..          .....++ +.+.  ....++|.||...+.
T Consensus        98 r~~~i~~~~----------------~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~--rg~i~vIgatT~eey  159 (268)
T d1r6bx2          98 RFKALLKQL----------------EQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS--SGKIRVIGSTTYQEF  159 (268)
T ss_dssp             HHHHHHHHH----------------SSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS--SCCCEEEEEECHHHH
T ss_pred             HHHHHHHHh----------------hccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHh--CCCCeEEEeCCHHHH
Confidence            333333322                1346789999998644          1233344 3333  345678887776654


Q ss_pred             hhhc-------CCCeEEEcCCCCHHHHHHHHHHhh
Q 048064          228 LRNC-------HINQIYEMKGLGDDHALELFIRHA  255 (429)
Q Consensus       228 ~~~~-------~~~~~~~l~~L~~~ea~~L~~~~~  255 (429)
                      ....       ...+.+.+++++.+++..++....
T Consensus       160 ~~~~e~d~al~rrF~~I~V~Eps~e~t~~IL~~~~  194 (268)
T d1r6bx2         160 SNIFEKDRALARRFQKIDITEPSIEETVQIINGLK  194 (268)
T ss_dssp             HCCCCCTTSSGGGEEEEECCCCCHHHHHHHHHHHH
T ss_pred             HHHHhhcHHHHhhhcccccCCCCHHHHHHHHHHhh
Confidence            3332       235789999999999999997643

>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=99.11  E-value=1.2e-09  Score=94.81  Aligned_cols=181  Identities=14%  Similarity=0.245  Sum_probs=114.1

Q ss_pred             CCCCcccchhhHHHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhcCc-ceeEEEeechhhhhhcCCHHHHHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISRNF-KGSCFLENIREESQKAGGLAFLQQKL  163 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f-~~~~~~~~~~~~~~~~~~~~~~~~~l  163 (429)
                      ....+++|.+..++.|..++.  ..+.+.++|++|+||||+|+.+++.+...+ ...++..+...    ..+...+...+
T Consensus        12 ~~~~d~ig~~~~~~~L~~~~~~~~~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n~~~----~~~~~~i~~~~   87 (224)
T d1sxjb2          12 QVLSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASD----DRGIDVVRNQI   87 (224)
T ss_dssp             SSGGGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTS----CCSHHHHHTHH
T ss_pred             CCHHHhcCCHHHHHHHHHHHHcCCCCeEEEECCCCCCchhhHHHHHHHHhccccccccccccccc----cCCceehhhHH
Confidence            455789999999999999997  455688999999999999999999865432 22233333222    23333332222


Q ss_pred             HHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEeCCh-hhhhh-cCCCeEEEc
Q 048064          164 LSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITTRNK-QVLRN-CHINQIYEM  239 (429)
Q Consensus       164 ~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTtR~~-~~~~~-~~~~~~~~l  239 (429)
                      ..........          ..++.-++|+|+++..  .....+...+......+++++++.+. .+... .+....+++
T Consensus        88 ~~~~~~~~~~----------~~~~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~~~i~~~l~sr~~~i~~  157 (224)
T d1sxjb2          88 KHFAQKKLHL----------PPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRY  157 (224)
T ss_dssp             HHHHHBCCCC----------CTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEEC
T ss_pred             HHHHHhhccC----------CCcceEEEEEecccccchhHHHHHhhhccccccceeeeeccCchhhhhhHHHHHHHHhhh
Confidence            2222111100          1235568999999744  33344444444345566666666544 33222 235678999


Q ss_pred             CCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHH
Q 048064          240 KGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLAL  283 (429)
Q Consensus       240 ~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai  283 (429)
                      ++++.++...++...+......-  ..+..+.|+..++|.+.-+
T Consensus       158 ~~~~~~~i~~~l~~i~~~e~~~i--~~~~l~~I~~~s~Gd~R~a  199 (224)
T d1sxjb2         158 SKLSDEDVLKRLLQIIKLEDVKY--TNDGLEAIIFTAEGDMRQA  199 (224)
T ss_dssp             CCCCHHHHHHHHHHHHHHHTCCB--CHHHHHHHHHHHTTCHHHH
T ss_pred             cccchhhhHHHHHHHHHhcccCC--CHHHHHHHHHHcCCcHHHH
Confidence            99999999999988764433221  2356789999999998654

>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=99.09  E-value=1.4e-09  Score=94.53  Aligned_cols=179  Identities=13%  Similarity=0.199  Sum_probs=112.8

Q ss_pred             CCCCcccchhhHHHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhcC-cceeEEEeechhhhhhcCCHHHHHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISRN-FKGSCFLENIREESQKAGGLAFLQQKL  163 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-f~~~~~~~~~~~~~~~~~~~~~~~~~l  163 (429)
                      ....++||.++.++.|..++.  ..+.+.++|++|+||||+|+.+++.+... +...+...+...    ..+........
T Consensus        11 ~~~~divg~~~~~~~L~~~i~~~~~~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~~~~----~~~~~~~~~~~   86 (227)
T d1sxjc2          11 ETLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASD----DRGIDVVRNQI   86 (227)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTS----CCSHHHHHTHH
T ss_pred             CCHHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEecccc----cCCeeeeecch
Confidence            445789999999999999997  44458899999999999999999986433 222222222211    22222222222


Q ss_pred             HHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEeCCh-hhhhh-cCCCeEEEc
Q 048064          164 LSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITTRNK-QVLRN-CHINQIYEM  239 (429)
Q Consensus       164 ~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTtR~~-~~~~~-~~~~~~~~l  239 (429)
                      ........           ...++.-++|+|+++..  .....++..+......+.++++|... .+.+. ......+++
T Consensus        87 ~~~~~~~~-----------~~~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~i~~~i~sr~~~i~~  155 (227)
T d1sxjc2          87 KDFASTRQ-----------IFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRF  155 (227)
T ss_dssp             HHHHHBCC-----------SSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEEC
T ss_pred             hhcccccc-----------ccCCCeEEEEEeccccchhhHHHHHHHHhhhcccceeeccccCcHHHhHHHHHHHHhhhcc
Confidence            11111110           01234568999999744  44455555555556677777777654 22222 234678899


Q ss_pred             CCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHH
Q 048064          240 KGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLA  282 (429)
Q Consensus       240 ~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLa  282 (429)
                      .+++.++...++.+.+......  -..+..+.|++.++|....
T Consensus       156 ~~~~~~~i~~~l~~I~~~e~i~--i~~~~l~~i~~~s~Gd~R~  196 (227)
T d1sxjc2         156 QPLPQEAIERRIANVLVHEKLK--LSPNAEKALIELSNGDMRR  196 (227)
T ss_dssp             CCCCHHHHHHHHHHHHHTTTCC--BCHHHHHHHHHHHTTCHHH
T ss_pred             cccccccccccccccccccccc--CCHHHHHHHHHHcCCcHHH
Confidence            9999999999998876443322  1245678899999997643

>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=99.07  E-value=6.3e-10  Score=92.74  Aligned_cols=146  Identities=14%  Similarity=0.122  Sum_probs=93.1

Q ss_pred             CcccchhhHHHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhcC------cceeEEEeechhhhhhcCCHHHHHH
Q 048064           90 NELVGVESRVEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISRN------FKGSCFLENIREESQKAGGLAFLQQ  161 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~------f~~~~~~~~~~~~~~~~~~~~~~~~  161 (429)
                      +..+||+.+++++.+.|.  ....+.++|++|+|||+++..+++++...      ....+|..+....-......-.+..
T Consensus        22 d~~igRd~Ei~~l~~iL~r~~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~~LiAg~~~rG~~E~  101 (195)
T d1jbka_          22 DPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYRGEFEE  101 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHTTTCSHHHHHH
T ss_pred             CCCcCcHHHHHHHHHHHhccCCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHHHHhccCCccHHHHH
Confidence            458999999999999998  66789999999999999999999987542      1345666555443322222222222


Q ss_pred             HHHHHHhcCCCCCCCHHHHHHHh--cCCcEEEEecCCCCHH----------HHHHHhccCCCCCCCCEEEEEeCChhhhh
Q 048064          162 KLLSEVLKDVNVIPHIDLNFRRL--SCRKVLIVLDDVTCLN----------QIESLVGSLDRLLPESRILITTRNKQVLR  229 (429)
Q Consensus       162 ~l~~~~~~~~~~~~~~~~l~~~l--~~~~~LlVlDdv~~~~----------~~~~l~~~l~~~~~~~~iiiTtR~~~~~~  229 (429)
                      .+..              +...+  ...+++|++||++..-          ..+-+.+.+.  ....++|.||...+...
T Consensus       102 rl~~--------------il~e~~~~~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~--rg~l~~IgatT~eey~~  165 (195)
T d1jbka_         102 RLKG--------------VLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALA--RGELHCVGATTLDEYRQ  165 (195)
T ss_dssp             HHHH--------------HHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHH--TTSCCEEEEECHHHHHH
T ss_pred             HHHH--------------HHHHHhcCCCcEEEEcchHHHHhcCCCCCCcccHHHHHHHHHh--CCCceEEecCCHHHHHH
Confidence            2111              22222  2357999999996441          1122333333  24456777776554433


Q ss_pred             hc-------CCCeEEEcCCCCHHHHHHHH
Q 048064          230 NC-------HINQIYEMKGLGDDHALELF  251 (429)
Q Consensus       230 ~~-------~~~~~~~l~~L~~~ea~~L~  251 (429)
                      ..       ...+.+.+++.+.+++..++
T Consensus       166 ~~e~d~aL~rrF~~I~V~Ep~~e~t~~IL  194 (195)
T d1jbka_         166 YIEKDAALERRFQKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             HTTTCHHHHTTEEEEECCCCCHHHHHTTC
T ss_pred             HHHcCHHHHhcCCEeecCCCCHHHHHHHh
Confidence            22       34678999999999987654

>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=99.05  E-value=1.5e-09  Score=94.60  Aligned_cols=179  Identities=17%  Similarity=0.230  Sum_probs=109.6

Q ss_pred             CCCCcccchhhHHHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhcC-cceeEEEeechhhhhhcCCHHHHHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISRN-FKGSCFLENIREESQKAGGLAFLQQKL  163 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-f~~~~~~~~~~~~~~~~~~~~~~~~~l  163 (429)
                      ....+++|.+..++.|..++.  ..+.+.++|++|+||||+|+.+++.+... +.......+......    ...+....
T Consensus        21 ~~~~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtla~~iak~l~~~~~~~~~~e~n~s~~~~----~~~~~~~~   96 (231)
T d1iqpa2          21 QRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERG----INVIREKV   96 (231)
T ss_dssp             CSTTTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHHH----HHTTHHHH
T ss_pred             CCHHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCcHHHHHHHHHHHHHhcccCCCeeEEecCcccc----hhHHHHHH
Confidence            556789999999999999998  56778999999999999999999976432 222222222222111    11111111


Q ss_pred             HHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEeCCh-hhhhhc-CCCeEEEc
Q 048064          164 LSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITTRNK-QVLRNC-HINQIYEM  239 (429)
Q Consensus       164 ~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTtR~~-~~~~~~-~~~~~~~l  239 (429)
                      .......           .....++.++++|+++..  .....+...+........+|+||... .+...+ .....+.+
T Consensus        97 ~~~~~~~-----------~~~~~~~~iilide~d~~~~~~~~~ll~~l~~~~~~~~~i~~~n~~~~i~~~l~sR~~~i~~  165 (231)
T d1iqpa2          97 KEFARTK-----------PIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRF  165 (231)
T ss_dssp             HHHHHSC-----------CGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEEEEC
T ss_pred             HHHHhhh-----------hccCCCceEEeehhhhhcchhHHHHHhhhcccCCcceEEEeccCChhhchHhHhCccccccc
Confidence            1111000           011235679999999633  34444544444334455556555443 332222 23467899


Q ss_pred             CCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHH
Q 048064          240 KGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLA  282 (429)
Q Consensus       240 ~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLa  282 (429)
                      .+.+.++....+.+.+......  -..+..+.|++.++|...-
T Consensus       166 ~~~~~~~~~~~l~~~~~~e~i~--i~~~~l~~I~~~~~gdiR~  206 (231)
T d1iqpa2         166 RPLRDEDIAKRLRYIAENEGLE--LTEEGLQAILYIAEGDMRR  206 (231)
T ss_dssp             CCCCHHHHHHHHHHHHHTTTCE--ECHHHHHHHHHHHTTCHHH
T ss_pred             cccchhhHHHHHHHHHHHhCCC--CCHHHHHHHHHHcCCCHHH
Confidence            9999999999998877543321  1245678899999997653

>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=99.03  E-value=6.5e-09  Score=91.01  Aligned_cols=184  Identities=15%  Similarity=0.162  Sum_probs=111.5

Q ss_pred             CCCCcccchhhHHHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKL  163 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l  163 (429)
                      ..-.+++|.+..++.|..++.   -++.+.|+|++|+||||+|+.+++.+.......  ..        ..........+
T Consensus         9 ~~~~dlig~~~~~~~L~~~i~~~~~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~--~~--------~~~~~~~~~~i   78 (239)
T d1njfa_           9 QTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGIT--AT--------PCGVCDNCREI   78 (239)
T ss_dssp             SSGGGSCSCHHHHHHHHHHHHTTCCCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSC--SS--------CCSCSHHHHHH
T ss_pred             CCHHHccChHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcCccccc--cC--------ccccchHHHHH
Confidence            445789999999999999987   356689999999999999999998764332100  00        00000000001


Q ss_pred             HHHHhcC-----CCCCCCHHHHHHHh--------cCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEEEEEeCCh-hh
Q 048064          164 LSEVLKD-----VNVIPHIDLNFRRL--------SCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRILITTRNK-QV  227 (429)
Q Consensus       164 ~~~~~~~-----~~~~~~~~~l~~~l--------~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~iiiTtR~~-~~  227 (429)
                      .......     ......++.++..+        .++..++|||+++..  +....|+..+....+++.+|++|.+. .+
T Consensus        79 ~~~~~~~~~~~~~~~~~~i~~ir~~~~~~~~~~~~~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il~tn~~~~i  158 (239)
T d1njfa_          79 EQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKL  158 (239)
T ss_dssp             HHTCCTTEEEEETTCSSSHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGS
T ss_pred             HcCCCCeEEEecchhcCCHHHHHHHHHHHHhccccCCCEEEEEECcccCCHHHHHHHHHHHhcCCCCeEEEEEcCCcccc
Confidence            0000000     00111122222111        234569999999854  44556666666556777777776654 33


Q ss_pred             hhhc-CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHH
Q 048064          228 LRNC-HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLA  282 (429)
Q Consensus       228 ~~~~-~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLa  282 (429)
                      ...+ +....+.+.+++.++....+...+......  -..+.++.|+..++|.+--
T Consensus       159 ~~~i~SRc~~i~~~~~~~~~i~~~l~~i~~~e~~~--~~~~~l~~i~~~s~Gd~R~  212 (239)
T d1njfa_         159 PVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIA--HEPRALQLLARAAEGSLRD  212 (239)
T ss_dssp             CHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCC--BCHHHHHHHHHHTTTCHHH
T ss_pred             ChhHhhhhcccccccCcHHHhhhHHHHHHhhhccC--CCHHHHHHHHHHcCCCHHH
Confidence            2222 345789999999999999888776433321  1245678899999999864

>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=99.02  E-value=1.1e-09  Score=96.83  Aligned_cols=192  Identities=15%  Similarity=0.194  Sum_probs=104.5

Q ss_pred             CCCCcccchhhHHHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhcCcce------eEEEe-------------
Q 048064           87 DSKNELVGVESRVEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISRNFKG------SCFLE-------------  144 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~------~~~~~-------------  144 (429)
                      ....+++|.+...+.|..++.   ..+.+.|+|++|+||||+|+.+++.+......      ..+..             
T Consensus         8 ~~~~diig~~~~~~~L~~~~~~~~~~~~lll~Gp~G~GKTt~~~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (252)
T d1sxje2           8 KSLNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVVSS   87 (252)
T ss_dssp             CSGGGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCEEC
T ss_pred             CCHHHccCcHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHhhcCccccccccccccccccccchhhhhhccC
Confidence            455789999999999999886   45568899999999999999999975221100      00000             


Q ss_pred             ----echhhhhhcCCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH--HHHHHHhccCCCCCCCCEE
Q 048064          145 ----NIREESQKAGGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL--NQIESLVGSLDRLLPESRI  218 (429)
Q Consensus       145 ----~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~l~~~~~~~~i  218 (429)
                          ............ .............. .. ....-.....++.-++|||+++..  .....+...+....+.+++
T Consensus        88 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~-~~-~~~~~~~~~~~~~~iiiide~d~l~~~~~~~l~~~~e~~~~~~~~  164 (252)
T d1sxje2          88 PYHLEITPSDMGNNDR-IVIQELLKEVAQME-QV-DFQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKNIRL  164 (252)
T ss_dssp             SSEEEECCC----CCH-HHHHHHHHHHTTTT-C-------------CCEEEEEECTTSSCHHHHHHHHHHHHHSTTTEEE
T ss_pred             CccceeeecccccCCc-ceeeehhhhhhhhh-hh-hhhhcccccCCCceEEEeccccccccccchhhhcccccccccccc
Confidence                000000000011 11111111111100 00 000011112334568999999854  3444444444444566777


Q ss_pred             EEEeCChh-hhhh-cCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHH
Q 048064          219 LITTRNKQ-VLRN-CHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLA  282 (429)
Q Consensus       219 iiTtR~~~-~~~~-~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLa  282 (429)
                      |+||.+.. +... .+....+++.+++.++..+++...+-..... ....+..+.|+..+.|.+..
T Consensus       165 Il~tn~~~~i~~~l~sR~~~i~~~~~~~~~~~~~l~~i~~~e~~~-~~~~~~l~~i~~~s~Gd~R~  229 (252)
T d1sxje2         165 IMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQ-LETKDILKRIAQASNGNLRV  229 (252)
T ss_dssp             EEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCE-ECCSHHHHHHHHHHTTCHHH
T ss_pred             eeeeccccchhhhhhcchheeeecccchhhHHHHHHHHHHHcCCC-CCcHHHHHHHHHHcCCcHHH
Confidence            77766542 2221 1234678999999999999997765332211 11135678899999998754

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=98.92  E-value=6.3e-08  Score=86.51  Aligned_cols=191  Identities=14%  Similarity=0.073  Sum_probs=104.0

Q ss_pred             CCCCcccchhhHHHHHHHhhc-------CCC----EEEEEcCCCcchHHHHHHHHHHhhcCc-----ceeEEEeechhhh
Q 048064           87 DSKNELVGVESRVEEIQSLLG-------AAP----LLGIWGIGGIGKTTIARVIFNRISRNF-----KGSCFLENIREES  150 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~-------~~~----~v~I~G~~GiGKTtLa~~~~~~~~~~f-----~~~~~~~~~~~~~  150 (429)
                      +.+..++||+.++++|.+++.       ...    ++.|+|++|+|||++++.+++.+.+..     ...+...+...  
T Consensus        13 ~~P~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~--   90 (287)
T d1w5sa2          13 YIPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFN--   90 (287)
T ss_dssp             CCCSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGG--
T ss_pred             cCCCCCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeecccc--
Confidence            566889999999999988763       111    456789999999999999999864331     22222222222  


Q ss_pred             hhcCCHHHHHHHHHHHHhcCC-CCCCCHHH----HHHHh--cCCcEEEEecCCCCHH--------HHHH---HhccCCCC
Q 048064          151 QKAGGLAFLQQKLLSEVLKDV-NVIPHIDL----NFRRL--SCRKVLIVLDDVTCLN--------QIES---LVGSLDRL  212 (429)
Q Consensus       151 ~~~~~~~~~~~~l~~~~~~~~-~~~~~~~~----l~~~l--~~~~~LlVlDdv~~~~--------~~~~---l~~~l~~~  212 (429)
                        ................... ........    +....  .+...++++|.++...        ....   +...+...
T Consensus        91 --~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iide~d~l~~~~~~~~~~~~~l~~l~~~l~~~  168 (287)
T d1w5sa2          91 --APNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSR  168 (287)
T ss_dssp             --CCSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCT
T ss_pred             --ccchhhHHHHHhhhcccccccccchHHHHHHHHHHHHHhccCccccceeEEEEeccccccchhHHHHHHHHHHhcchh
Confidence              3344444555555544432 11222222    22222  3466788889885332        1111   22222211


Q ss_pred             C--CCC-EEEEEeCChhhh-------h-hcCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHh-----
Q 048064          213 L--PES-RILITTRNKQVL-------R-NCHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYA-----  276 (429)
Q Consensus       213 ~--~~~-~iiiTtR~~~~~-------~-~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~-----  276 (429)
                      .  ... .|++++......       . .......+.+++++.++..+++..++-.......-..+..+.|++.+     
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            1  122 344444333111       0 11235678999999999999998876321111111234556666654     


Q ss_pred             -CCChH
Q 048064          277 -QGVPL  281 (429)
Q Consensus       277 -~G~PL  281 (429)
                       .|.|-
T Consensus       249 ~~gd~R  254 (287)
T d1w5sa2         249 GDGSAR  254 (287)
T ss_dssp             SCCCHH
T ss_pred             CCCCHH
Confidence             56663

>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=98.89  E-value=1.5e-08  Score=88.83  Aligned_cols=170  Identities=14%  Similarity=0.188  Sum_probs=96.5

Q ss_pred             CCCcccchhhHHHHHHHhhc--------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhc
Q 048064           88 SKNELVGVESRVEEIQSLLG--------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKA  153 (429)
Q Consensus        88 ~~~~~vGR~~~~~~l~~~l~--------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~  153 (429)
                      .-++++|-++..++|.+.+.              .++.+.++|++|+|||+||+.+++...-    .++..+........
T Consensus         7 ~~~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~~~----~~~~i~~~~l~~~~   82 (247)
T d1ixza_           7 TFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARV----PFITASGSDFVEMF   82 (247)
T ss_dssp             CGGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTC----CEEEEEHHHHHHSC
T ss_pred             cHHHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHcCC----CEEEEEhHHhhhcc
Confidence            34578888888777766442              3567999999999999999999987632    22332222221111


Q ss_pred             CC-HHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCHH----------------HHHHHhccCCCCC--C
Q 048064          154 GG-LAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLN----------------QIESLVGSLDRLL--P  214 (429)
Q Consensus       154 ~~-~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~----------------~~~~l~~~l~~~~--~  214 (429)
                      .+ .....+.++.                ..-...+.+|+|||++...                .+..|+..+....  +
T Consensus        83 ~g~~~~~l~~~f~----------------~a~~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~  146 (247)
T d1ixza_          83 VGVGAARVRDLFE----------------TAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDT  146 (247)
T ss_dssp             TTHHHHHHHHHHH----------------HHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTC
T ss_pred             ccHHHHHHHHHHH----------------HHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCC
Confidence            11 1111111211                1223568899999986321                1233333332222  2


Q ss_pred             CCEEEEEeCChhhh-hhc----CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCCh
Q 048064          215 ESRILITTRNKQVL-RNC----HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVP  280 (429)
Q Consensus       215 ~~~iiiTtR~~~~~-~~~----~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  280 (429)
                      +.-||.||.....+ +.+    .....+.+++.+.++..++++.......... +  .....+++.+.|..
T Consensus       147 ~vivi~tTn~~~~ld~al~R~~Rf~~~i~~~~P~~~eR~~il~~~l~~~~~~~-~--~~~~~la~~t~g~s  214 (247)
T d1ixza_         147 AIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAE-D--VDLALLAKRTPGFV  214 (247)
T ss_dssp             CEEEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCT-T--CCHHHHHHTCTTCC
T ss_pred             CEEEEEeCCCccccCHhHcCCCCCcEEEEECCcCHHHHHHHHHHHhcccCCcc-c--cCHHHHHHHCCCCC
Confidence            32333477655432 212    2456899999999999999987764332211 1  11456777777753

>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=98.88  E-value=5.9e-08  Score=82.65  Aligned_cols=173  Identities=12%  Similarity=0.094  Sum_probs=103.2

Q ss_pred             chhhHHHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcC
Q 048064           94 GVESRVEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKD  170 (429)
Q Consensus        94 GR~~~~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  170 (429)
                      +-+...+++...+.   -++.+.++|++|+||||+|+.+++.+...-....-.  .      .....  ...+.......
T Consensus         6 w~~~~~~~l~~~~~~~~l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~~--~------~~~~~--~~~i~~~~~~~   75 (207)
T d1a5ta2           6 WLRPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKS--C------GHCRG--CQLMQAGTHPD   75 (207)
T ss_dssp             GGHHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBC--C------SCSHH--HHHHHHTCCTT
T ss_pred             ccHHHHHHHHHHHHcCCcCeEEEEECCCCCcHHHHHHHHHHhccccccccccc--c------cccch--hhhhhhccccc
Confidence            34455667777665   355699999999999999999998763211000000  0      00000  00000000000


Q ss_pred             --------CCCCCCHHH---HHHHh-----cCCcEEEEecCCC--CHHHHHHHhccCCCCCCCCEEEEEeCChh-hhhhc
Q 048064          171 --------VNVIPHIDL---NFRRL-----SCRKVLIVLDDVT--CLNQIESLVGSLDRLLPESRILITTRNKQ-VLRNC  231 (429)
Q Consensus       171 --------~~~~~~~~~---l~~~l-----~~~~~LlVlDdv~--~~~~~~~l~~~l~~~~~~~~iiiTtR~~~-~~~~~  231 (429)
                              ....-..+.   +.+.+     .+++-++|+||++  +.+....++..+.....++.+|+||++.. +.+.+
T Consensus        76 ~~~~~~~~~~~~i~~~~ir~l~~~~~~~~~~~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~~ll~tI  155 (207)
T d1a5ta2          76 YYTLAPEKGKNTLGVDAVREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATL  155 (207)
T ss_dssp             EEEECCCTTCSSBCHHHHHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHH
T ss_pred             cchhhhhhcccccccchhhHHhhhhhhccccCccceEEechhhhhhhhhhHHHHHHHHhhcccceeeeeecChhhhhhhh
Confidence                    000001111   22222     2356699999998  44567778777777777888887777653 44432


Q ss_pred             -CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHH
Q 048064          232 -HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLAL  283 (429)
Q Consensus       232 -~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai  283 (429)
                       +....+.+.+++.++....+....    ..+   .+.+..+++.++|.|..+
T Consensus       156 ~SRc~~i~~~~~~~~~~~~~L~~~~----~~~---~~~~~~i~~~s~Gs~r~a  201 (207)
T d1a5ta2         156 RSRCRLHYLAPPPEQYAVTWLSREV----TMS---QDALLAALRLSAGSPGAA  201 (207)
T ss_dssp             HTTSEEEECCCCCHHHHHHHHHHHC----CCC---HHHHHHHHHHTTTCHHHH
T ss_pred             cceeEEEecCCCCHHHHHHHHHHcC----CCC---HHHHHHHHHHcCCCHHHH
Confidence             445789999999999999987654    111   356788899999998654

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=98.86  E-value=1.1e-07  Score=81.29  Aligned_cols=167  Identities=19%  Similarity=0.232  Sum_probs=93.9

Q ss_pred             CcccchhhHH--HHHHHhhc----CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHH
Q 048064           90 NELVGVESRV--EEIQSLLG----AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKL  163 (429)
Q Consensus        90 ~~~vGR~~~~--~~l~~~l~----~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l  163 (429)
                      +.++|-..++  ..+.++..    ....+.|+|++|+|||+|++++++.........+++...           .+...+
T Consensus        11 nF~vg~~N~~a~~~~~~~~~~~~~~~n~l~l~G~~G~GKTHLl~A~~~~~~~~~~~~~~~~~~-----------~~~~~~   79 (213)
T d1l8qa2          11 NFIVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSAD-----------DFAQAM   79 (213)
T ss_dssp             SCCCCTTTHHHHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEHH-----------HHHHHH
T ss_pred             hccCCCcHHHHHHHHHHHHhCcCCCCCcEEEECCCCCcHHHHHHHHHHHhccCccceEEechH-----------HHHHHH
Confidence            4456765543  22333333    234488999999999999999999987776656655411           112222


Q ss_pred             HHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH---HHHHH-HhccCCC-CCCCCEEEEEeCCh---------hhhh
Q 048064          164 LSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL---NQIES-LVGSLDR-LLPESRILITTRNK---------QVLR  229 (429)
Q Consensus       164 ~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~---~~~~~-l~~~l~~-~~~~~~iiiTtR~~---------~~~~  229 (429)
                      ...+...     ....+...+.+ --+|+|||++..   ..++. +...+.. ...|..||+||+..         ++..
T Consensus        80 ~~~~~~~-----~~~~~~~~~~~-~dll~iDDi~~i~~~~~~~~~lf~lin~~~~~~~~iiits~~~p~~l~~~~~dL~S  153 (213)
T d1l8qa2          80 VEHLKKG-----TINEFRNMYKS-VDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVS  153 (213)
T ss_dssp             HHHHHHT-----CHHHHHHHHHT-CSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHH
T ss_pred             HHHHHcc-----chhhHHHHHhh-ccchhhhhhhhhcCchHHHHHHHHHHHHHhhccceEEEecCCcchhccccchHHHH
Confidence            2222111     12223333333 348999999743   23322 2222221 13577899999864         2223


Q ss_pred             hcCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHh
Q 048064          230 NCHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYA  276 (429)
Q Consensus       230 ~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~  276 (429)
                      .+....++.++ ++.++..+++.+.+-.....-  ..+.++-|++++
T Consensus       154 RL~~g~~~~i~-p~d~~~~~iL~~~a~~rgl~l--~~~v~~yl~~~~  197 (213)
T d1l8qa2         154 RFEGGILVEIE-LDNKTRFKIIKEKLKEFNLEL--RKEVIDYLLENT  197 (213)
T ss_dssp             HHHTSEEEECC-CCHHHHHHHHHHHHHHTTCCC--CHHHHHHHHHHC
T ss_pred             HhhCceEEEEC-CCcHHHHHHHHHHHHHcCCCC--CHHHHHHHHHhc
Confidence            33456778886 578888888888774433221  134555566555

>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=98.84  E-value=1.4e-08  Score=94.38  Aligned_cols=149  Identities=15%  Similarity=0.147  Sum_probs=89.3

Q ss_pred             CcccchhhHHHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhcC------cceeEEEeechhhhhhc---CCHHH
Q 048064           90 NELVGVESRVEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISRN------FKGSCFLENIREESQKA---GGLAF  158 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~------f~~~~~~~~~~~~~~~~---~~~~~  158 (429)
                      +.++||+.+++++.+.|.  ....+.++|++|+|||+++..+++++...      ....+|..++...-...   ..+..
T Consensus        22 d~~~gr~~ei~~~~~~L~r~~k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~~g~~e~  101 (387)
T d1qvra2          22 DPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAKYRGEFEE  101 (387)
T ss_dssp             CCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-----------CHHH
T ss_pred             CCCcCcHHHHHHHHHHHhcCCCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhhhcccCcchhHHH
Confidence            458999999999999987  55667889999999999999999986443      23466666554432211   12222


Q ss_pred             HHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCHH----------HHHHHhccCCCCCCCCEEEEEeCChhhh
Q 048064          159 LQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLN----------QIESLVGSLDRLLPESRILITTRNKQVL  228 (429)
Q Consensus       159 ~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~----------~~~~l~~~l~~~~~~~~iiiTtR~~~~~  228 (429)
                      -...++..+..               ...+++|++|+++..-          ..+-|.+.|.  ....++|.+|...+..
T Consensus       102 r~~~i~~~~~~---------------~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~--rg~~~~I~~tT~~ey~  164 (387)
T d1qvra2         102 RLKAVIQEVVQ---------------SQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALA--RGELRLIGATTLDEYR  164 (387)
T ss_dssp             HHHHHHHHHHT---------------TCSSEEEEECCC-------------------HHHHH--TTCCCEEEEECHHHHH
T ss_pred             HHHHHHHHhcc---------------CCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHHh--CCCcceeeecCHHHHH
Confidence            22222222111               1247899999997552          1122223332  2345677766655432


Q ss_pred             hh------cCCCeEEEcCCCCHHHHHHHHHHhh
Q 048064          229 RN------CHINQIYEMKGLGDDHALELFIRHA  255 (429)
Q Consensus       229 ~~------~~~~~~~~l~~L~~~ea~~L~~~~~  255 (429)
                      ..      ...++.+.+++.+.+++..++....
T Consensus       165 ~~e~d~al~rrF~~v~v~ep~~~~~~~il~~~~  197 (387)
T d1qvra2         165 EIEKDPALERRFQPVYVDEPTVEETISILRGLK  197 (387)
T ss_dssp             HHTTCTTTCSCCCCEEECCCCHHHHHHHHHHHH
T ss_pred             HhcccHHHHHhcccccCCCCcHHHHHHHHHHHH
Confidence            21      1346789999999999999987554

>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=98.83  E-value=1.1e-07  Score=83.78  Aligned_cols=175  Identities=19%  Similarity=0.216  Sum_probs=100.8

Q ss_pred             CcccchhhHHHHHHHhhc---------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcC
Q 048064           90 NELVGVESRVEEIQSLLG---------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAG  154 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~---------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~  154 (429)
                      .++.|-++..++|.+.+.               .++-+.++||+|+|||++|+.+++....    .++..+.........
T Consensus         4 ~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~~~----~~~~i~~~~l~~~~~   79 (258)
T d1e32a2           4 DDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGA----FFFLINGPEIMSKLA   79 (258)
T ss_dssp             GGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHTTC----EEEEECHHHHTTSCT
T ss_pred             hhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHhCC----eEEEEEchhhccccc
Confidence            356777777777777532               3678999999999999999999997643    233332222111111


Q ss_pred             C-HHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCHH-------------HHHHHhccCC--CCCCCCEE
Q 048064          155 G-LAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLN-------------QIESLVGSLD--RLLPESRI  218 (429)
Q Consensus       155 ~-~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~-------------~~~~l~~~l~--~~~~~~~i  218 (429)
                      + .....+.+                +...-...+.+|+|||++...             ....+.....  ...++.-|
T Consensus        80 g~~~~~l~~~----------------f~~A~~~~p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~vlv  143 (258)
T d1e32a2          80 GESESNLRKA----------------FEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIV  143 (258)
T ss_dssp             THHHHHHHHH----------------HHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCCCSSCEEE
T ss_pred             ccHHHHHHHH----------------HHHHHhcCCeEEEehhhhhhccCCCCCCCchHHHHHHHhccccccccccCCccE
Confidence            1 11111111                122234578999999996431             1222222221  12334445


Q ss_pred             EEEeCChhhhhh-c----CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHH-HHHHH
Q 048064          219 LITTRNKQVLRN-C----HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLA-LKILG  287 (429)
Q Consensus       219 iiTtR~~~~~~~-~----~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLa-i~~~~  287 (429)
                      |.||........ +    .....+.++..+.++-.++|.......... .+  .....|++.+.|+-.+ |..+.
T Consensus       144 i~tTn~~~~ld~al~r~gRfd~~i~~~~P~~~~R~~il~~~l~~~~~~-~~--~~~~~la~~t~G~s~adl~~lv  215 (258)
T d1e32a2         144 MAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLA-DD--VDLEQVANETHGHVGADLAALC  215 (258)
T ss_dssp             EEEESCGGGSCGGGTSTTSSCEEEECCCCCHHHHHHHHHHTTTTSCBC-TT--CCHHHHHHHCTTCCHHHHHHHH
T ss_pred             EEeCCCccccchhhhhcccccceeECCCCCHHHHHHHhhhhccCcccc-cc--cchhhhhhcccCCCHHHHHHHH
Confidence            668876643221 1    356789999999999999998876332211 11  1156788888886433 44443

>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=98.78  E-value=6.7e-08  Score=84.24  Aligned_cols=171  Identities=18%  Similarity=0.167  Sum_probs=102.3

Q ss_pred             CCCCcccchhhHHHHHHHhhc-------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG-------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFL  159 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~-------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~  159 (429)
                      ..-++++|.+..+++|..++.       ..+.+.++||+|+||||+|+.+++.+..++-   .+. ...    ......+
T Consensus         6 ~~~~divGqe~~~~~l~~~i~~~~~~~~~~~~~L~~GPpGtGKT~lA~~la~~~~~~~~---~~~-~~~----~~~~~~~   77 (238)
T d1in4a2           6 KSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTNIH---VTS-GPV----LVKQGDM   77 (238)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHTCCEE---EEE-TTT----CCSHHHH
T ss_pred             CcHHHcCChHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHhccCCCcc---ccc-Ccc----cccHHHH
Confidence            345789999999999999885       3567899999999999999999998754422   111 111    1111111


Q ss_pred             HHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCHH--HHHHHhccC------------------CCCCCCCEEE
Q 048064          160 QQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLN--QIESLVGSL------------------DRLLPESRIL  219 (429)
Q Consensus       160 ~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~--~~~~l~~~l------------------~~~~~~~~ii  219 (429)
                      .. ++.                  ...++..+++|+++...  ..+.+....                  ....+...+|
T Consensus        78 ~~-~~~------------------~~~~~~~~~ide~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I  138 (238)
T d1in4a2          78 AA-ILT------------------SLERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLV  138 (238)
T ss_dssp             HH-HHH------------------HCCTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEEE
T ss_pred             HH-HHH------------------hhccCCchHHHHHHHhhhHHHhhcccceeeeeeeeeecCcccccccccCCCCeEEE
Confidence            11 111                  12345677888886442  111111100                  0012244455


Q ss_pred             EEeCCh-hhhh--hcCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHH
Q 048064          220 ITTRNK-QVLR--NCHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKIL  286 (429)
Q Consensus       220 iTtR~~-~~~~--~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~  286 (429)
                      ++|... ....  .......+.+++.+.++...++..........  ...+.+..+++.++|.+-.+..+
T Consensus       139 ~at~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~--~~~~~l~~i~~~s~gd~R~ai~~  206 (238)
T d1in4a2         139 GATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMDVE--IEDAAAEMIAKRSRGTPRIAIRL  206 (238)
T ss_dssp             EEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTCC--BCHHHHHHHHHTSTTCHHHHHHH
T ss_pred             EecCCCccccccceeeeeEEEEecCCCHHHHHHHHHHhhhhccch--hhHHHHHHHHHhCCCCHHHHHHH
Confidence            555444 2222  22345678899999999999998776444322  22456888999999988766443

>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=98.78  E-value=3.8e-08  Score=86.63  Aligned_cols=182  Identities=14%  Similarity=0.239  Sum_probs=101.3

Q ss_pred             CCCCcccchhhHHHHHHHhhc-------------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeech
Q 048064           87 DSKNELVGVESRVEEIQSLLG-------------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIR  147 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~-------------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~  147 (429)
                      ....+++|.+..+++|.+++.                   ..+.+.++||+|+||||+|+.+++.+..    .++..+..
T Consensus        11 ~~~~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~~----~~~~~~~~   86 (253)
T d1sxja2          11 TNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGY----DILEQNAS   86 (253)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTC----EEEEECTT
T ss_pred             CCHHHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHHHh----hhhccccc
Confidence            445789999999999998873                   2467999999999999999999997642    22233222


Q ss_pred             hhhhhcCCHHHHHHHHHHHHhcCCCCCCCH--HHHHHHhcCCcEEEEecCCCCHH-----HHHHHhccCCCCCCCCEEEE
Q 048064          148 EESQKAGGLAFLQQKLLSEVLKDVNVIPHI--DLNFRRLSCRKVLIVLDDVTCLN-----QIESLVGSLDRLLPESRILI  220 (429)
Q Consensus       148 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~--~~l~~~l~~~~~LlVlDdv~~~~-----~~~~l~~~l~~~~~~~~iii  220 (429)
                      .    ......+. ................  .........+..++++|+++...     .+..+.....  .....+++
T Consensus        87 ~----~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~ide~~~~~~~~~~~~~~~~~~~~--~~~~~ii~  159 (253)
T d1sxja2          87 D----VRSKTLLN-AGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCR--KTSTPLIL  159 (253)
T ss_dssp             S----CCCHHHHH-HTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHH--HCSSCEEE
T ss_pred             c----chhhHHHH-HHHHHHhhcchhhhhhhhhhhcccccccceEEEeeeccccccchhhhhHHHhhhhc--cccccccc
Confidence            2    11111111 1111111111101000  11112234467789999986321     2333332211  12223444


Q ss_pred             EeCC--hhhh-hhcCCCeEEEcCCCCHHHHHHHHHHhhhcCC-CCChhHHHHHHHHHHHhCCChHH
Q 048064          221 TTRN--KQVL-RNCHINQIYEMKGLGDDHALELFIRHAFRQN-LVDVDYKELSDKVINYAQGVPLA  282 (429)
Q Consensus       221 TtR~--~~~~-~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~-~~~~~~~~~~~~i~~~~~G~PLa  282 (429)
                      |+.+  .... ........+++.+++.++....+...+-... ..+   .+..+.|++.++|....
T Consensus       160 i~~~~~~~~~~~l~~~~~~i~f~~~~~~~i~~~l~~i~~~e~i~i~---~~~l~~i~~~s~GDiR~  222 (253)
T d1sxja2         160 ICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLD---PNVIDRLIQTTRGDIRQ  222 (253)
T ss_dssp             EESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCC---TTHHHHHHHHTTTCHHH
T ss_pred             ccccccccccccccceeeeeeccccchhHHHHHHHHHHHHhCCCCC---HHHHHHHHHhCCCcHHH
Confidence            4332  2222 2223457899999999999999887664322 122   23578899999997733

>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=98.74  E-value=6.4e-08  Score=84.99  Aligned_cols=170  Identities=15%  Similarity=0.138  Sum_probs=97.2

Q ss_pred             CCcccchhhHHHHHHHhhc--------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhc-
Q 048064           89 KNELVGVESRVEEIQSLLG--------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKA-  153 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~--------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~-  153 (429)
                      -.+++|.++..++|.+.+.              .++.+.++||+|+|||++|+.+++...-+    ++..+........ 
T Consensus        11 ~~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~~~~----~~~i~~~~l~~~~~   86 (256)
T d1lv7a_          11 FADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVP----FFTISGSDFVEMFV   86 (256)
T ss_dssp             GGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCC----EEEECSCSSTTSCC
T ss_pred             HHHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHcCCC----EEEEEhHHhhhcch
Confidence            3678888888877765432              35779999999999999999999877422    2222222111100 


Q ss_pred             CCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH-------------H---HHHHHhccCCCC--CCC
Q 048064          154 GGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL-------------N---QIESLVGSLDRL--LPE  215 (429)
Q Consensus       154 ~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~-------------~---~~~~l~~~l~~~--~~~  215 (429)
                      .......+.++                ...-...+.+|+|||+|..             .   .+..++..+...  ..+
T Consensus        87 g~~~~~l~~~f----------------~~A~~~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~  150 (256)
T d1lv7a_          87 GVGASRVRDMF----------------EQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEG  150 (256)
T ss_dssp             CCCHHHHHHHH----------------HHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSC
T ss_pred             hHHHHHHHHHH----------------HHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCC
Confidence            00111111221                1222457889999999521             1   123343333221  233


Q ss_pred             CEEEEEeCChhhh-hhc----CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChH
Q 048064          216 SRILITTRNKQVL-RNC----HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPL  281 (429)
Q Consensus       216 ~~iiiTtR~~~~~-~~~----~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PL  281 (429)
                      .-||.||..+..+ +.+    .....+.+++.+.++-.++|........... +  .....+++.+.|..-
T Consensus       151 v~vIatTn~~~~ld~al~R~gRfd~~i~i~~P~~~~R~~il~~~l~~~~~~~-~--~~~~~la~~t~G~s~  218 (256)
T d1lv7a_         151 IIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAP-D--IDAAIIARGTPGFSG  218 (256)
T ss_dssp             EEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCT-T--CCHHHHHHTCTTCCH
T ss_pred             EEEEEeCCCcccCCHhHcCCCCCCEEEECCCcCHHHHHHHHHHhccCCCcCc-c--cCHHHHHHhCCCCCH
Confidence            3455577765432 222    2457899999999999999987763332111 1  124567777877643

>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=98.70  E-value=1.5e-07  Score=82.06  Aligned_cols=172  Identities=19%  Similarity=0.171  Sum_probs=100.3

Q ss_pred             CCCCcccchhhHHHHHHHhhc-------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHH
Q 048064           87 DSKNELVGVESRVEEIQSLLG-------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFL  159 (429)
Q Consensus        87 ~~~~~~vGR~~~~~~l~~~l~-------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~  159 (429)
                      ..-+++||-++.+++|..++.       ..+.+.++||+|+||||+|+.+++....+|    ...+...    .......
T Consensus         6 ~~~ddivGq~~~~~~L~~~i~~~~~~~~~~~~~Ll~GPpG~GKTtla~~la~~~~~~~----~~~~~~~----~~~~~~~   77 (239)
T d1ixsb2           6 KTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNL----RVTSGPA----IEKPGDL   77 (239)
T ss_dssp             CSGGGSCSCHHHHHHHHHHHHHHTTSSSCCCCEEEECCTTSCHHHHHHHHHHHHTCCE----EEEETTT----CCSHHHH
T ss_pred             CCHHHhCCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCe----EeccCCc----cccchhh
Confidence            445789999999999988875       356789999999999999999998875432    1221111    1111111


Q ss_pred             HHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH--HHHHHHhccC--------CC----------CCCCCEEE
Q 048064          160 QQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL--NQIESLVGSL--------DR----------LLPESRIL  219 (429)
Q Consensus       160 ~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~--~~~~~l~~~l--------~~----------~~~~~~ii  219 (429)
                      .. ..                .. ..+...++++|+++..  ..-+.+....        ..          ..+...++
T Consensus        78 ~~-~~----------------~~-~~~~~~i~~iDe~~~~~~~~~~~l~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~i  139 (239)
T d1ixsb2          78 AA-IL----------------AN-SLEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLI  139 (239)
T ss_dssp             HH-HH----------------HT-TCCTTCEEEEETGGGCCHHHHHHHHHHHHHSEEEEECSCTTCCCEEEEECCCCEEE
T ss_pred             HH-HH----------------Hh-hccCCCeeeeecccccchhHHHhhhhhhhhhhhhhhhccchhhhhcccCCCCEEEE
Confidence            11 11                11 1223446778998633  1111111100        00          01223344


Q ss_pred             E-EeCChhh--hhhcCCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChHHHHHH
Q 048064          220 I-TTRNKQV--LRNCHINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPLALKIL  286 (429)
Q Consensus       220 i-TtR~~~~--~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PLai~~~  286 (429)
                      . |++....  .........+.+.+.+.++...++...+......  ...+....+++.++|.+-.+..+
T Consensus       140 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~i~--~~~~~l~~ia~~s~gd~R~a~~~  207 (239)
T d1ixsb2         140 GATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGVR--ITEEAALEIGRRSRGTMRVAKRL  207 (239)
T ss_dssp             EEESCCSSCSCGGGGGCSEEEECCCCCHHHHHHHHHHHHGGGCCC--BCHHHHHHHHHHTTSSHHHHHHH
T ss_pred             eeccCcccccchhhcccceeeEeeccChhhhhHHHHHHHHHhCCc--cchHHHHHHHHHcCCCHHHHHHH
Confidence            4 4443322  1222346678899999999999888766443322  22467889999999988665443

>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=98.68  E-value=5.9e-08  Score=85.97  Aligned_cols=170  Identities=14%  Similarity=0.187  Sum_probs=95.8

Q ss_pred             CCcccchhhHHHHHHHhhc---------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhc
Q 048064           89 KNELVGVESRVEEIQSLLG---------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKA  153 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~---------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~  153 (429)
                      -.+++|-++..++|.+.+.               ..+.|.++|++|+|||+||+.+++.+.-+    ++...........
T Consensus         6 f~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~~~~----~~~~~~~~l~~~~   81 (265)
T d1r7ra3           6 WEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQAN----FISIKGPELLTMW   81 (265)
T ss_dssp             CSSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHTTCE----EEEECHHHHHTSC
T ss_pred             HHHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHHhCCc----EEEEEHHHhhhcc
Confidence            3456777777666665442               35679999999999999999999987432    3333222211101


Q ss_pred             -CCHHHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCHH----------------HHHHHhccCCCC--CC
Q 048064          154 -GGLAFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCLN----------------QIESLVGSLDRL--LP  214 (429)
Q Consensus       154 -~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~~----------------~~~~l~~~l~~~--~~  214 (429)
                       .......+.++.                ..-...+.+|+|||++...                ....++..+...  .+
T Consensus        82 ~~~~~~~l~~~f~----------------~A~~~~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~  145 (265)
T d1r7ra3          82 FGESEANVREIFD----------------KARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKK  145 (265)
T ss_dssp             TTTHHHHHHHHHH----------------HHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC------
T ss_pred             ccchHHHHHHHHH----------------HHHhcCCcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCcCCCC
Confidence             111122222221                2234578999999996221                123445444422  23


Q ss_pred             CCEEEEEeCChhhh-hhc----CCCeEEEcCCCCHHHHHHHHHHhhhcCCCCChhHHHHHHHHHHHhCCChH
Q 048064          215 ESRILITTRNKQVL-RNC----HINQIYEMKGLGDDHALELFIRHAFRQNLVDVDYKELSDKVINYAQGVPL  281 (429)
Q Consensus       215 ~~~iiiTtR~~~~~-~~~----~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~i~~~~~G~PL  281 (429)
                      +.-||.||.....+ +.+    .....+++++.+.++-.++|...+..... ..+  .....+++.+.|...
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 NVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPV-AKD--VDLEFLAKMTNGFSG  214 (265)
T ss_dssp             CCEEEECCBSCTTTSCGGGSSTTSEEEEECCCCCCHHHHHHHHHHTTCC-----C--CCCHHHHHHHCSSCC
T ss_pred             CEEEEEeCCCchhCCHHHhCCCCccEEEEecchHHHHHHHHHHHHhccCCc-hhh--hhHHHHHhcCCCCCH
Confidence            34455577655432 211    24568999999999999999876532211 111  114667778877643

>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=98.65  E-value=1.1e-07  Score=82.99  Aligned_cols=144  Identities=17%  Similarity=0.125  Sum_probs=77.9

Q ss_pred             CCcccchhhHHHHHHHhhc------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCH
Q 048064           89 KNELVGVESRVEEIQSLLG------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGL  156 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~  156 (429)
                      .+.++|+.+.++.+.+-..            +.+.|.++|++|+|||++|+.+++.....|-   .+. ...... ...-
T Consensus         8 ~~~~i~~~~~i~~i~~~~~~~~~~~~~~~~~p~~~vLL~GppGtGKT~la~alA~~~~~~~~---~i~-~~~~~~-g~~~   82 (246)
T d1d2na_           8 MNGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFPFI---KIC-SPDKMI-GFSE   82 (246)
T ss_dssp             TTCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTCSEE---EEE-CGGGCT-TCCH
T ss_pred             ccCCcCcCHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECcCCCCHHHHHHHHhhccccccc---ccc-cccccc-cccc
Confidence            3557887777776655443            3456999999999999999999998643321   121 111100 0111


Q ss_pred             ---HHHHHHHHHHHhcCCCCCCCHHHHHHHhcCCcEEEEecCCCCH------------HHHHHHhccCCCCC-CCCE--E
Q 048064          157 ---AFLQQKLLSEVLKDVNVIPHIDLNFRRLSCRKVLIVLDDVTCL------------NQIESLVGSLDRLL-PESR--I  218 (429)
Q Consensus       157 ---~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~~~~LlVlDdv~~~------------~~~~~l~~~l~~~~-~~~~--i  218 (429)
                         ....+.++                ....+..+.+|+||+++..            ..+..++..+.... .+.+  |
T Consensus        83 ~~~~~~i~~if----------------~~A~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~v  146 (246)
T d1d2na_          83 TAKCQAMKKIF----------------DDAYKSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLLI  146 (246)
T ss_dssp             HHHHHHHHHHH----------------HHHHTSSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEEEE
T ss_pred             cchhhhhhhhh----------------hhhhhcccceeehhhhhhHhhhcccccchhHHHHHHHHHHhcCCCccccceee
Confidence               11122222                2233456789999998532            12344444443322 2333  4


Q ss_pred             EEEeCChhhhhhc----CCCeEEEcCCCCH-HHHHHHHHH
Q 048064          219 LITTRNKQVLRNC----HINQIYEMKGLGD-DHALELFIR  253 (429)
Q Consensus       219 iiTtR~~~~~~~~----~~~~~~~l~~L~~-~ea~~L~~~  253 (429)
                      |.||..+..+...    .....+.++.++. ++-...+..
T Consensus       147 i~tTn~~~~ld~~~~~~rF~~~i~~P~~~~r~~il~~l~~  186 (246)
T d1d2na_         147 IGTTSRKDVLQEMEMLNAFSTTIHVPNIATGEQLLEALEL  186 (246)
T ss_dssp             EEEESCHHHHHHTTCTTTSSEEEECCCEEEHHHHHHHHHH
T ss_pred             eeccCChhhccchhhcCccceEEecCCchhHHHHHHHHHh
Confidence            4477766554332    1345677766653 344444443

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=97.97  E-value=1.5e-05  Score=66.62  Aligned_cols=128  Identities=9%  Similarity=0.021  Sum_probs=77.9

Q ss_pred             HHHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhcC---cceeEEEeechhhhhhcCCHHHHHHHHHHHHhcCCC
Q 048064           98 RVEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISRN---FKGSCFLENIREESQKAGGLAFLQQKLLSEVLKDVN  172 (429)
Q Consensus        98 ~~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~---f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  172 (429)
                      +++.+.+++.  ..+.+.++|++|+|||++|..+++.+...   ++...++..-+.    .-+...+. .+...+.... 
T Consensus         2 ~~~~l~~~i~~~~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~~~i~~~~~----~I~Id~IR-~i~~~~~~~~-   75 (198)
T d2gnoa2           2 QLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGE----NIGIDDIR-TIKDFLNYSP-   75 (198)
T ss_dssp             HHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSS----CBCHHHHH-HHHHHHTSCC-
T ss_pred             HHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhccccCCCCEEEEeCCcC----CCCHHHHH-HHHHHHhhCc-
Confidence            4556666665  67789999999999999999999876433   234444431100    11233322 2333222110 


Q ss_pred             CCCCHHHHHHHhcCCcEEEEecCCC--CHHHHHHHhccCCCCCCCCEEEEEeCCh-hhhhhc-CCCeEEEcCCC
Q 048064          173 VIPHIDLNFRRLSCRKVLIVLDDVT--CLNQIESLVGSLDRLLPESRILITTRNK-QVLRNC-HINQIYEMKGL  242 (429)
Q Consensus       173 ~~~~~~~l~~~l~~~~~LlVlDdv~--~~~~~~~l~~~l~~~~~~~~iiiTtR~~-~~~~~~-~~~~~~~l~~L  242 (429)
                                 ..+++-++|+|+++  +.+...+|+..+....+++.+|++|.+. .+.+.. +....+.+.+.
T Consensus        76 -----------~~~~~KviIId~ad~l~~~aqNaLLK~LEEPp~~t~fiLit~~~~~ll~TI~SRC~~i~~~~p  138 (198)
T d2gnoa2          76 -----------ELYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSRVFRVVVNVP  138 (198)
T ss_dssp             -----------SSSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCC
T ss_pred             -----------ccCCCEEEEEeCccccchhhhhHHHHHHhCCCCCceeeeccCChhhCHHHHhcceEEEeCCCc
Confidence                       12345699999998  5567788888887767778777666554 344332 33456777644

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=97.95  E-value=0.00029  Score=60.67  Aligned_cols=43  Identities=30%  Similarity=0.336  Sum_probs=35.7

Q ss_pred             cccchhhHHHHHHHhhc----CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064           91 ELVGVESRVEEIQSLLG----AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus        91 ~~vGR~~~~~~l~~~l~----~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      +|||....++++.+.+.    ....|.|.|++|+|||++|+.+.+.-
T Consensus         1 ~~v~~S~~~~~~~~~~~~~a~~~~pvlI~Ge~GtGK~~~A~~ih~~s   47 (247)
T d1ny5a2           1 EYVFESPKMKEILEKIKKISCAECPVLITGESGVGKEVVARLIHKLS   47 (247)
T ss_dssp             CCCCCSHHHHHHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CeEecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhc
Confidence            47888888888888775    45568999999999999999987643

>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=97.67  E-value=0.00016  Score=64.90  Aligned_cols=46  Identities=17%  Similarity=0.275  Sum_probs=36.6

Q ss_pred             CCcccchhhHHHHHHHhhc-----------CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064           89 KNELVGVESRVEEIQSLLG-----------AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~-----------~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ...++|.+..++.+...+.           ...++.++||+|+|||.||+.+++.+.
T Consensus        21 ~~~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l~   77 (315)
T d1r6bx3          21 KMLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG   77 (315)
T ss_dssp             TTTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             CCeecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhhcc
Confidence            3568888888888876552           233788999999999999999998764

>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=97.47  E-value=3.8e-05  Score=62.62  Aligned_cols=30  Identities=20%  Similarity=0.139  Sum_probs=25.7

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcCcc
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRNFK  138 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~  138 (429)
                      ..+|.|+|++|+||||+|+.+++++...+-
T Consensus         6 g~~I~l~G~~GsGKTTia~~La~~L~~~~~   35 (183)
T d1m8pa3           6 GFTIFLTGYMNSGKDAIARALQVTLNQQGG   35 (183)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHHCS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhhcCC
Confidence            457889999999999999999999865543

>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=97.45  E-value=2.9e-05  Score=62.31  Aligned_cols=25  Identities=28%  Similarity=0.359  Sum_probs=22.7

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      .+.|.|.|++|+||||+|+.+++++
T Consensus         2 ~k~I~l~G~~GsGKSTvak~La~~L   26 (169)
T d1kaga_           2 KRNIFLVGPMGAGKSTIGRQLAQQL   26 (169)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHHT
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHh
Confidence            4678899999999999999999986

>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=97.44  E-value=4.5e-05  Score=62.46  Aligned_cols=28  Identities=21%  Similarity=0.176  Sum_probs=24.7

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhhcCc
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRISRNF  137 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f  137 (429)
                      +.|.|+|++|+|||||+++++..+..+.
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l~~~~   29 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVLKSSG   29 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHHHHTT
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHHHCC
Confidence            5799999999999999999999876553

>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=97.39  E-value=3.4e-05  Score=63.32  Aligned_cols=26  Identities=19%  Similarity=0.244  Sum_probs=23.5

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      .+.|+|.|++|+||||||+.+++++.
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~~~   32 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAVFN   32 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHTT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhC
Confidence            57899999999999999999999763

>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=97.38  E-value=0.00012  Score=65.63  Aligned_cols=45  Identities=18%  Similarity=0.348  Sum_probs=33.1

Q ss_pred             cccchhhHHHHHHHhhc----------CC-CEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064           91 ELVGVESRVEEIQSLLG----------AA-PLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus        91 ~~vGR~~~~~~l~~~l~----------~~-~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      .++|.++.++.+.+.+.          .+ .++.++|++|+|||.+|+.+++.+..
T Consensus        24 ~v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l~~   79 (315)
T d1qvra3          24 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFD   79 (315)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHS
T ss_pred             eEeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHHHhcC
Confidence            46677766666655442          12 26789999999999999999998743

>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=97.36  E-value=8.9e-05  Score=59.76  Aligned_cols=29  Identities=28%  Similarity=0.402  Sum_probs=25.7

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcCc
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRNF  137 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f  137 (429)
                      .++++|+|++|+|||||+.++...+..+.
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~~l~~~g   30 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIPALCARG   30 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHHHTT
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHHCC
Confidence            47899999999999999999999876653

>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=97.33  E-value=5.6e-05  Score=62.57  Aligned_cols=35  Identities=20%  Similarity=0.169  Sum_probs=28.8

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEE
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFL  143 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  143 (429)
                      ..+|.++|++|+||||+|+.++.++...+....++
T Consensus        19 g~vI~L~G~pGSGKTTiAk~La~~l~~~~~~~~~~   53 (195)
T d1x6va3          19 GCTVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTL   53 (195)
T ss_dssp             CEEEEEESSCHHHHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhcCCCccch
Confidence            45788999999999999999999887666555444

>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=97.28  E-value=0.00015  Score=59.92  Aligned_cols=36  Identities=28%  Similarity=0.413  Sum_probs=28.3

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEE
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFL  143 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  143 (429)
                      ++-+|+|.|++|+||||||+.+...+..........
T Consensus        21 ~~~iIgI~G~~GSGKSTla~~L~~~l~~~~~~~~~~   56 (198)
T d1rz3a_          21 GRLVLGIDGLSRSGKTTLANQLSQTLREQGISVCVF   56 (198)
T ss_dssp             SSEEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHhccccccceec
Confidence            445789999999999999999999877655444433

>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=97.26  E-value=0.00011  Score=64.30  Aligned_cols=29  Identities=28%  Similarity=0.406  Sum_probs=24.9

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      .++.|.++|++|+||||||+.++..+..+
T Consensus        31 ~P~~ilL~GpPGtGKT~la~~la~~~~~~   59 (273)
T d1gvnb_          31 SPTAFLLGGQPGSGKTSLRSAIFEETQGN   59 (273)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHTTTC
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHhhcc
Confidence            45679999999999999999999987544

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Polynucleotide kinase, kinase domain
species: Bacteriophage T4 [TaxId: 10665]

Probab=97.26  E-value=6.9e-05  Score=59.35  Aligned_cols=24  Identities=29%  Similarity=0.392  Sum_probs=20.9

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHH
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      .++|.|+|++|+||||+|+++...
T Consensus         2 kklIii~G~pGsGKTTla~~L~~~   25 (152)
T d1ly1a_           2 KKIILTIGCPGSGKSTWAREFIAK   25 (152)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHh
Confidence            357899999999999999988664

>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=97.26  E-value=0.00011  Score=65.72  Aligned_cols=45  Identities=22%  Similarity=0.311  Sum_probs=34.0

Q ss_pred             cccchhhHHHHHHHhh-------------c---CCCEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064           91 ELVGVESRVEEIQSLL-------------G---AAPLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus        91 ~~vGR~~~~~~l~~~l-------------~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      .++|.++.++.+...+             .   .++.+.++||+|+|||.||+.+++....
T Consensus        15 ~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~~~   75 (309)
T d1ofha_          15 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANA   75 (309)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTC
T ss_pred             cccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhcccc
Confidence            4667776666665433             0   4577899999999999999999997643

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=97.24  E-value=6.5e-05  Score=60.74  Aligned_cols=24  Identities=29%  Similarity=0.452  Sum_probs=22.0

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHh
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ++|.|.|++|+||||+|+.++..+
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            679999999999999999998865

>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=97.23  E-value=8.6e-05  Score=60.22  Aligned_cols=26  Identities=19%  Similarity=0.302  Sum_probs=23.8

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      .++|.|.|++|+||||+|+.+++++.
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~l~   28 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSVLP   28 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHSS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHcC
Confidence            57899999999999999999999864

>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=97.18  E-value=9e-05  Score=59.87  Aligned_cols=24  Identities=29%  Similarity=0.523  Sum_probs=21.7

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHh
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ..|+|.|++|+||||+|+.+++++
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

>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=97.14  E-value=0.0002  Score=58.54  Aligned_cols=29  Identities=17%  Similarity=0.392  Sum_probs=25.7

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhhcCcc
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRISRNFK  138 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~  138 (429)
                      ++|+|.|++|+||||+++.+++++.....
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l~~~~~   30 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNLRKEGV   30 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHTTTC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHcCC
Confidence            78999999999999999999998866543

>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=97.13  E-value=0.00011  Score=59.23  Aligned_cols=27  Identities=19%  Similarity=0.438  Sum_probs=24.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ..+++.|.|++|+||||+|+.++.++.
T Consensus         5 ~~~iivl~G~~GsGKsT~a~~La~~l~   31 (171)
T d1knqa_           5 DHHIYVLMGVSGSGKSAVASEVAHQLH   31 (171)
T ss_dssp             TSEEEEEECSTTSCHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            467899999999999999999998863

>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=97.10  E-value=0.00015  Score=58.36  Aligned_cols=27  Identities=26%  Similarity=0.450  Sum_probs=21.7

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      +++| +.|++|+||||+++.+++++.-.
T Consensus         2 p~Iv-liG~~G~GKSTig~~La~~l~~~   28 (165)
T d2iyva1           2 PKAV-LVGLPGSGKSTIGRRLAKALGVG   28 (165)
T ss_dssp             CSEE-EECSTTSSHHHHHHHHHHHHTCC
T ss_pred             CcEE-EECCCCCCHHHHHHHHHHHhCCC
Confidence            3444 55999999999999999987433

>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=97.08  E-value=0.00099  Score=55.38  Aligned_cols=36  Identities=22%  Similarity=0.170  Sum_probs=28.0

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEE
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFL  143 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  143 (429)
                      ..+++.++|++|+||||.+..++.++..+...+..+
T Consensus         9 ~~~vi~lvGp~GvGKTTTiaKLA~~~~~~g~kV~li   44 (207)
T d1ls1a2           9 DRNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLV   44 (207)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEE
Confidence            457889999999999999888888876654444443

>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=97.07  E-value=0.0019  Score=53.52  Aligned_cols=36  Identities=22%  Similarity=0.217  Sum_probs=27.9

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEE
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFL  143 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  143 (429)
                      .++++.++|+.|+||||.+..++.++..+-..+.++
T Consensus         5 ~~~vi~lvGptGvGKTTTiaKLA~~~~~~g~kV~li   40 (207)
T d1okkd2           5 KGRVVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFC   40 (207)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEE
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEE
Confidence            467899999999999998888888776554444444

>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=96.99  E-value=0.0014  Score=56.71  Aligned_cols=55  Identities=18%  Similarity=0.382  Sum_probs=36.2

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLS  165 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~  165 (429)
                      ..+.++|.|.+|+|||+|+..+++...+.....+.+..+.+..   .....+.+.+..
T Consensus        67 kGQr~~If~~~g~GKt~l~~~i~~~~~~~~~~v~V~~~iGer~---~ev~~~~~~~~~  121 (276)
T d2jdid3          67 KGGKIGLFGGAGVGKTVLIMELINNVAKAHGGYSVFAGVGERT---REGNDLYHEMIE  121 (276)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHHHHTTTCSSEEEEEEESCCH---HHHHHHHHHHHH
T ss_pred             CCCEEEeeCCCCCCHHHHHHHHHHHHHhhCCCeEEEEEeccCh---HHHHHHHHHHHh
Confidence            7788999999999999999999988654444334343444321   223444555544

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=96.99  E-value=0.00012  Score=59.29  Aligned_cols=26  Identities=35%  Similarity=0.383  Sum_probs=22.7

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      +.++|.|.|++|+||||+|+.+++++
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            45789999999999999999987754

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.98  E-value=0.00032  Score=56.34  Aligned_cols=28  Identities=21%  Similarity=0.156  Sum_probs=25.3

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhhcCc
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRISRNF  137 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f  137 (429)
                      ++++|+|..|+|||||+.++...+..+.
T Consensus         2 kii~I~G~~gSGKTTli~~l~~~L~~~g   29 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVAAAVREG   29 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHHTT
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHHhCC
Confidence            6899999999999999999999887654

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=96.97  E-value=0.0014  Score=54.63  Aligned_cols=36  Identities=19%  Similarity=0.221  Sum_probs=27.6

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEE
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFL  143 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  143 (429)
                      .+.++.++|+.|+||||.+..++.++..+...+..+
T Consensus        10 ~p~vi~lvGptGvGKTTTiAKLAa~~~~~~~kV~li   45 (213)
T d1vmaa2          10 PPFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLA   45 (213)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEE
Confidence            456899999999999998888888876554444444

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=96.97  E-value=0.00088  Score=59.46  Aligned_cols=30  Identities=20%  Similarity=0.265  Sum_probs=24.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCc
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNF  137 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f  137 (429)
                      ...++.++|+||+|||.||+.++..+..++
T Consensus       122 ~~g~~l~~G~pG~GKT~la~ala~~~~~~~  151 (321)
T d1w44a_         122 ASGMVIVTGKGNSGKTPLVHALGEALGGKD  151 (321)
T ss_dssp             ESEEEEEECSSSSCHHHHHHHHHHHHHTTS
T ss_pred             CCceEEEECCCCccHHHHHHHHHHHhcCCC
Confidence            334566699999999999999999986443

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=96.95  E-value=0.0002  Score=59.20  Aligned_cols=26  Identities=23%  Similarity=0.222  Sum_probs=23.3

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      .+.+|+|.|++|+||||+|+.+++++
T Consensus         5 kp~iI~i~G~pGSGKsT~a~~La~~~   30 (194)
T d1qf9a_           5 KPNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            45689999999999999999999875

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=96.95  E-value=0.00032  Score=58.62  Aligned_cols=28  Identities=21%  Similarity=0.275  Sum_probs=24.0

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      +.+|.++|.+|+||||+|+++++.+...
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~~l~~~   29 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTRYLNFI   29 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            3578999999999999999999877544

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=96.90  E-value=0.00023  Score=57.57  Aligned_cols=25  Identities=24%  Similarity=0.335  Sum_probs=22.1

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      +.|.+.|++|+||||+|+.+++++.
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            4577889999999999999999874

>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=96.89  E-value=0.00023  Score=57.06  Aligned_cols=23  Identities=30%  Similarity=0.468  Sum_probs=21.0

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHh
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      -|.|.|++|+||||+++.+++++
T Consensus         2 ~I~liG~~GsGKsTi~k~La~~l   24 (161)
T d1viaa_           2 NIVFIGFMGSGKSTLARALAKDL   24 (161)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHHHh
Confidence            37788999999999999999987

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=96.88  E-value=0.00028  Score=56.93  Aligned_cols=24  Identities=33%  Similarity=0.404  Sum_probs=21.7

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHh
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      -.|+|.|++|+||||+|+.+++++
T Consensus         6 ~~I~i~G~~GsGKTT~~~~La~~l   29 (174)
T d1y63a_           6 INILITGTPGTGKTSMAEMIAAEL   29 (174)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CEEEEEeCCCCCHHHHHHHHHHHh
Confidence            458999999999999999999875

>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=96.87  E-value=0.00035  Score=56.66  Aligned_cols=25  Identities=36%  Similarity=0.606  Sum_probs=22.1

Q ss_pred             EEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          112 LGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      |+|+|++|+|||||++.++..+...
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            8999999999999999999876543

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=96.84  E-value=0.002  Score=53.50  Aligned_cols=36  Identities=17%  Similarity=0.135  Sum_probs=23.4

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEE
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFL  143 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  143 (429)
                      .+.++.++|++|+||||.+..++.++..+-..+.++
T Consensus        11 ~p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~li   46 (211)
T d1j8yf2          11 IPYVIMLVGVQGTGKATTAGKLAYFYKKKGFKVGLV   46 (211)
T ss_dssp             SSEEEEEECSCCC----HHHHHHHHHHHTTCCEEEE
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEE
Confidence            467899999999999998888888776553334443

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=96.80  E-value=0.0005  Score=56.23  Aligned_cols=33  Identities=18%  Similarity=0.202  Sum_probs=26.6

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhhcCcceeEE
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRISRNFKGSCF  142 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~  142 (429)
                      ++|.|.|++|+||||+++.++.++..+.-....
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~L~~~~~~~~~   34 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEILDNQGINNKI   34 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHTTTCCEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHcCCCEEE
Confidence            578999999999999999999988665433333

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.79  E-value=0.00029  Score=57.15  Aligned_cols=25  Identities=20%  Similarity=0.258  Sum_probs=21.9

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      .+.+|.++|++|+||||+|+.++..
T Consensus        13 ~p~liil~G~pGsGKST~a~~l~~~   37 (172)
T d1yj5a2          13 NPEVVVAVGFPGAGKSTFIQEHLVS   37 (172)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHTGG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHh
Confidence            4678999999999999999988654

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=96.79  E-value=0.0052  Score=50.85  Aligned_cols=31  Identities=26%  Similarity=0.358  Sum_probs=25.4

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcc
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFK  138 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~  138 (429)
                      .+.++.++|+.|+||||.+..++.++..+-.
T Consensus         8 ~p~vi~lvGptGvGKTTTiAKLA~~~~~~g~   38 (211)
T d2qy9a2           8 APFVILMVGVNGVGKTTTIGKLARQFEQQGK   38 (211)
T ss_dssp             TTEEEEEECCTTSCHHHHHHHHHHHHHTTTC
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHCCC
Confidence            3578999999999999988888888765433

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=96.77  E-value=0.00095  Score=56.99  Aligned_cols=37  Identities=16%  Similarity=0.224  Sum_probs=32.5

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEe
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLE  144 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  144 (429)
                      ...++.|+|++|+|||+||.+++.....+...++|+.
T Consensus        25 ~gsl~li~G~pGsGKT~l~~qia~~~~~~~~~~~~is   61 (242)
T d1tf7a2          25 KDSIILATGATGTGKTLLVSRFVENACANKERAILFA   61 (242)
T ss_dssp             SSCEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHHHhccccceee
Confidence            6789999999999999999999999877777677765

>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=96.74  E-value=0.00043  Score=58.35  Aligned_cols=25  Identities=32%  Similarity=0.575  Sum_probs=23.4

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      .++|+|.||+|+||||+|+.+++++
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            4689999999999999999999987

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.69  E-value=0.00041  Score=57.39  Aligned_cols=26  Identities=19%  Similarity=0.253  Sum_probs=23.3

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ..++|+|.|++|+||||+|+.+++++
T Consensus         7 ~~~iI~i~GppGSGKsT~a~~La~~~   32 (196)
T d1ukza_           7 QVSVIFVLGGPGAGKGTQCEKLVKDY   32 (196)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            35789999999999999999999875

>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=96.65  E-value=0.00056  Score=57.20  Aligned_cols=30  Identities=20%  Similarity=0.281  Sum_probs=25.8

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCc
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNF  137 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f  137 (429)
                      ...+|.+.|++|+||||||+++..++...+
T Consensus        23 kg~vIwltGlsGsGKTTia~~L~~~l~~~~   52 (208)
T d1m7ga_          23 RGLTIWLTGLSASGKSTLAVELEHQLVRDR   52 (208)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHhc
Confidence            667899999999999999999998875433

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.62  E-value=0.00052  Score=56.28  Aligned_cols=29  Identities=28%  Similarity=0.460  Sum_probs=24.6

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhhcCcc
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRISRNFK  138 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~  138 (429)
                      |.|+|+||+|+|||||++.++++....|.
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~~~~~~~~   30 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFAEYPDSFG   30 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCTTTEE
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhCCccee
Confidence            56899999999999999999988655554

>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=96.61  E-value=0.00053  Score=56.52  Aligned_cols=25  Identities=24%  Similarity=0.259  Sum_probs=22.5

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      +.+|.|.|++|+||||.|+.+++++
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            3578999999999999999999876

>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=96.56  E-value=0.0006  Score=56.00  Aligned_cols=25  Identities=24%  Similarity=0.175  Sum_probs=22.2

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      +..|.|.|++|+||||+|+.+++++
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            4568899999999999999998876

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.53  E-value=0.00063  Score=56.02  Aligned_cols=29  Identities=28%  Similarity=0.406  Sum_probs=24.0

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhhcCcc
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRISRNFK  138 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~  138 (429)
                      |.|+|+||+|+|||||++.+++.....|.
T Consensus         1 rpIvl~GPsGsGK~tl~~~L~~~~~~~~~   29 (190)
T d1lvga_           1 RPVVLSGPSGAGKSTLLKKLFQEHSSIFG   29 (190)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHHTTTEE
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhCCCcee
Confidence            34789999999999999999988655543

>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=96.51  E-value=0.00069  Score=56.77  Aligned_cols=27  Identities=22%  Similarity=0.381  Sum_probs=23.6

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      +-+|+|.|++|+||||+|+.+.+.+..
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~~l~~   28 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQLLGQ   28 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHTTG
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhch
Confidence            447999999999999999999987654

>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=96.51  E-value=0.00048  Score=63.78  Aligned_cols=102  Identities=12%  Similarity=0.100  Sum_probs=62.0

Q ss_pred             hHHHHHHHhhc-CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhhcCCHHHHHHHHHHHHhcC-CCCC
Q 048064           97 SRVEEIQSLLG-AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQKAGGLAFLQQKLLSEVLKD-VNVI  174 (429)
Q Consensus        97 ~~~~~l~~~l~-~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~  174 (429)
                      ..++.+.+++. ...+|.|.|+.|+||||+...+.+.+.......+-+.+--+...  .+..        +.... ....
T Consensus       145 ~~~~~l~~l~~~~~GliLvtGpTGSGKSTTl~~~l~~~~~~~~~i~tiEdPiE~~~--~~~~--------q~~v~~~~~~  214 (401)
T d1p9ra_         145 HNHDNFRRLIKRPHGIILVTGPTGSGKSTTLYAGLQELNSSERNILTVEDPIEFDI--DGIG--------QTQVNPRVDM  214 (401)
T ss_dssp             HHHHHHHHHHTSSSEEEEEECSTTSCHHHHHHHHHHHHCCTTSCEEEEESSCCSCC--SSSE--------EEECBGGGTB
T ss_pred             HHHHHHHHHHhhhhceEEEEcCCCCCccHHHHHHhhhhcCCCceEEEeccCccccc--CCCC--------eeeecCCcCC
Confidence            45566777776 78899999999999999999999876443333333332211100  0000        00000 0111


Q ss_pred             CCHHHHHHHhcCCcEEEEecCCCCHHHHHHHhcc
Q 048064          175 PHIDLNFRRLSCRKVLIVLDDVTCLNQIESLVGS  208 (429)
Q Consensus       175 ~~~~~l~~~l~~~~~LlVlDdv~~~~~~~~l~~~  208 (429)
                      .-...+...++..+=+|++.++.+.+........
T Consensus       215 ~~~~~l~~~lR~dPDvi~igEiRd~~ta~~a~~a  248 (401)
T d1p9ra_         215 TFARGLRAILRQDPDVVMVGEIRDLETAQIAVQA  248 (401)
T ss_dssp             CHHHHHHHHGGGCCSEEEESCCCSHHHHHHHHHH
T ss_pred             CHHHHHHHHHhhcCCEEEecCcCChHHHHHHHHH
Confidence            1233377788888999999999988876655543

>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=96.43  E-value=0.0015  Score=57.01  Aligned_cols=38  Identities=29%  Similarity=0.452  Sum_probs=30.2

Q ss_pred             HHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064           99 VEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus        99 ~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      +..+.+.+.  +.++|.++|-||+||||++..++..+...
T Consensus         8 ~~~~~~~~~~~~~~iii~sGKGGVGKTT~a~nLA~~lA~~   47 (279)
T d1ihua2           8 LSALVDDIARNEHGLIMLMGKGGVGKTTMAAAIAVRLADM   47 (279)
T ss_dssp             HHHHHHHHHTTSCEEEEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            444555554  78899999999999999999998877655

>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=96.41  E-value=0.00087  Score=56.45  Aligned_cols=24  Identities=29%  Similarity=0.408  Sum_probs=21.8

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHh
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      -+|+|-||+|+||||+|+.++.++
T Consensus         4 i~IaIdGp~GsGKgT~ak~La~~l   27 (223)
T d1q3ta_           4 IQIAIDGPASSGKSTVAKIIAKDF   27 (223)
T ss_dssp             CEEEEECSSCSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            357899999999999999999987

>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=96.41  E-value=0.00084  Score=54.52  Aligned_cols=22  Identities=36%  Similarity=0.440  Sum_probs=20.5

Q ss_pred             EEEEcCCCcchHHHHHHHHHHh
Q 048064          112 LGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      |.|.|++|+||||+|+.+++++
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            7899999999999999999876

>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=96.40  E-value=0.00092  Score=55.09  Aligned_cols=26  Identities=23%  Similarity=0.278  Sum_probs=23.9

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ..++|.|.|++|+||||+|+.+++++
T Consensus         7 ~~~iI~l~G~pGSGKsT~a~~La~~~   32 (194)
T d3adka_           7 KSKIIFVVGGPGSGKGTQCEKIVQKY   32 (194)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            67899999999999999999998865

>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=96.36  E-value=0.00086  Score=54.51  Aligned_cols=31  Identities=19%  Similarity=0.377  Sum_probs=25.6

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcCcce
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRNFKG  139 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~  139 (429)
                      .+.|.|+||+|+|||||++.+..+..+.|..
T Consensus         3 ~k~ivl~Gpsg~GK~tl~~~L~~~~~~~~~~   33 (178)
T d1kgda_           3 RKTLVLLGAHGVGRRHIKNTLITKHPDRFAY   33 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHCTTTEEC
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHhCCcCeee
Confidence            4679999999999999999998876555543

>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=96.34  E-value=0.0014  Score=56.98  Aligned_cols=37  Identities=22%  Similarity=0.340  Sum_probs=28.8

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeech
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIR  147 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~  147 (429)
                      +.|+|+|-||+||||+|..++..+.... ..+.+.++.
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA~~LA~~G-~rVllID~D   38 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLTSGLHAMG-KTIMVVGCD   38 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHTTT-CCEEEEEEC
T ss_pred             CEEEEECCCcCCHHHHHHHHHHHHHhCC-CcEEEEecC
Confidence            5789999999999999999999887653 344444443

>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=96.32  E-value=0.0011  Score=57.81  Aligned_cols=37  Identities=22%  Similarity=0.109  Sum_probs=30.1

Q ss_pred             HHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhhcCc
Q 048064          101 EIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRISRNF  137 (429)
Q Consensus       101 ~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f  137 (429)
                      ++.+.+.   ..+.++|.|.+|+|||+|+.++++....+.
T Consensus        32 r~ID~l~PigrGQr~~I~g~~g~GKT~l~~~i~~~~~~~~   71 (289)
T d1xpua3          32 RVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNH   71 (289)
T ss_dssp             HHHHHHSCCBTTCEEEEEECSSSSHHHHHHHHHHHHHHHC
T ss_pred             eeeeecccccCCCeeeEeCCCCCCHHHHHHHHHHHHhhcC
Confidence            4556555   788999999999999999999998765443

>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=96.32  E-value=0.0058  Score=50.76  Aligned_cols=35  Identities=20%  Similarity=0.292  Sum_probs=27.6

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEE
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFL  143 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  143 (429)
                      ...|+|.|+.|+||||+++.+.+.+....-.++.+
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            46789999999999999999999886654334333

>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=0.00088  Score=60.39  Aligned_cols=45  Identities=20%  Similarity=0.190  Sum_probs=34.7

Q ss_pred             CCCcccchhhHHHHHHHhh-c-CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064           88 SKNELVGVESRVEEIQSLL-G-AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus        88 ~~~~~vGR~~~~~~l~~~l-~-~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      +...++|.+...+.|.-.. . +.+-+.|.|++|+||||||+.++.-
T Consensus         5 ~f~~I~Gq~~~kral~laa~~~~~h~vLl~G~pG~GKT~lar~~~~i   51 (333)
T d1g8pa_           5 PFSAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAAL   51 (333)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHHH
T ss_pred             ChhhccCcHHHHHHHHHHHhccCCCeEEEECCCCccHHHHHHHHHHh
Confidence            3467899987776554333 2 5567999999999999999999863

>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=96.30  E-value=0.0011  Score=53.99  Aligned_cols=23  Identities=26%  Similarity=0.297  Sum_probs=21.0

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHh
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      .|+|.|++|+||||+|+.+++++
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            37889999999999999999887

>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=96.28  E-value=0.0017  Score=59.03  Aligned_cols=28  Identities=21%  Similarity=0.119  Sum_probs=25.0

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      ..+.+.++||+|+|||++|..+++.+..
T Consensus       153 ~~~~~~~~g~~~~gk~~~~~~~~~~~~~  180 (362)
T d1svma_         153 KKRYWLFKGPIDSGKTTLAAALLELCGG  180 (362)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHHHHCC
T ss_pred             CcCeEEEECCCCCCHHHHHHHHHHHcCC
Confidence            5678999999999999999999998753

>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=96.26  E-value=0.0011  Score=53.87  Aligned_cols=23  Identities=30%  Similarity=0.411  Sum_probs=21.0

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHh
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      .|.|.|++|+||||+|+.+++++
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            37899999999999999999986

>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=96.24  E-value=0.0013  Score=53.44  Aligned_cols=26  Identities=27%  Similarity=0.497  Sum_probs=22.7

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      .++|.|+||+|+|||||++.+.++..
T Consensus         2 G~iivl~GpsG~GK~tl~~~L~~~~~   27 (182)
T d1znwa1           2 GRVVVLSGPSAVGKSTVVRCLRERIP   27 (182)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHST
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhhCC
Confidence            46899999999999999999887653

>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=96.22  E-value=0.0011  Score=54.45  Aligned_cols=23  Identities=30%  Similarity=0.385  Sum_probs=20.5

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHh
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      .|.|.|++|+||||+|+.+++++
T Consensus         8 rIiliG~PGSGKtT~a~~La~~~   30 (189)
T d2ak3a1           8 RAAIMGAPGSGKGTVSSRITKHF   30 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHB
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH
Confidence            46788999999999999999875

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=96.21  E-value=0.0049  Score=57.36  Aligned_cols=73  Identities=15%  Similarity=0.196  Sum_probs=46.9

Q ss_pred             CcccchhhHHHHHHHhhc----------------CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhh-
Q 048064           90 NELVGVESRVEEIQSLLG----------------AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQK-  152 (429)
Q Consensus        90 ~~~vGR~~~~~~l~~~l~----------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~-  152 (429)
                      .++||.+...+.|.-.+-                .++-|.+.||+|+|||-||+.++..+.    ..+...++...+.. 
T Consensus        14 ~yVvGQ~~AKk~lsvav~nhyrR~~~~~~~~~ei~ksNILliGPTGvGKTlLAr~LAk~l~----VPFv~~daT~fTeaG   89 (443)
T d1g41a_          14 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLAN----APFIKVEATKFTEVG   89 (443)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTT----CCEEEEEGGGGC---
T ss_pred             CcccCcHHHHHHHHHHHHHHHHHhhcccccccccccccEEEECCCCCCHHHHHHHHHHHhC----CCEEEeecceeeecc
Confidence            456777766666655441                356799999999999999999998762    33344444443332 


Q ss_pred             --cCCHHHHHHHHHHH
Q 048064          153 --AGGLAFLQQKLLSE  166 (429)
Q Consensus       153 --~~~~~~~~~~l~~~  166 (429)
                        ..++..+.+.++..
T Consensus        90 YvG~DVesii~~L~~~  105 (443)
T d1g41a_          90 YVGKEVDSIIRDLTDS  105 (443)
T ss_dssp             -CCCCTHHHHHHHHHH
T ss_pred             eeecchhHHHHHHHHH
Confidence              24556666666543

>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=96.19  E-value=0.0023  Score=58.16  Aligned_cols=26  Identities=23%  Similarity=0.351  Sum_probs=22.9

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ....+...||+|+|||.||+.++..+
T Consensus        67 p~~niLfiGPTGvGKTElAk~LA~~~   92 (364)
T d1um8a_          67 SKSNILLIGPTGSGKTLMAQTLAKHL   92 (364)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCcceeeeCCCCccHHHHHHHHHhhc
Confidence            45668999999999999999999865

>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=96.11  E-value=0.0028  Score=52.75  Aligned_cols=29  Identities=17%  Similarity=0.196  Sum_probs=25.2

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ...++.|.|++|+|||+||.+++......
T Consensus        22 ~G~v~~i~G~~GsGKT~l~l~la~~~~~~   50 (242)
T d1n0wa_          22 TGSITEMFGEFRTGKTQICHTLAVTCQLP   50 (242)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHTTSC
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHHHHHh
Confidence            67899999999999999999999875443

>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=96.10  E-value=0.0019  Score=52.83  Aligned_cols=22  Identities=27%  Similarity=0.267  Sum_probs=19.6

Q ss_pred             EEEEcCCCcchHHHHHHHHHHh
Q 048064          112 LGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      |.|.|++|+||||+|+.+++++
T Consensus         6 iil~G~pGSGKsT~a~~La~~~   27 (190)
T d1ak2a1           6 AVLLGPPGAGKGTQAPKLAKNF   27 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            4578999999999999999876

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=96.08  E-value=0.0039  Score=55.52  Aligned_cols=29  Identities=28%  Similarity=0.410  Sum_probs=25.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ...+|+|.|+||+|||||..++...+...
T Consensus        50 ~~~~igitG~pGaGKSTli~~l~~~~~~~   78 (323)
T d2qm8a1          50 RAIRVGITGVPGVGKSTTIDALGSLLTAA   78 (323)
T ss_dssp             CSEEEEEECCTTSCHHHHHHHHHHHHHHT
T ss_pred             CceEEeeeCCCCCCHHHHHHHHHHHHhhc
Confidence            56789999999999999999999876543

>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=96.08  E-value=0.0033  Score=55.20  Aligned_cols=35  Identities=31%  Similarity=0.396  Sum_probs=28.5

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEE
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCF  142 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~  142 (429)
                      .++++.+.|-||+||||+|..++..+.+.-..+..
T Consensus         7 ~p~~i~~sGKGGVGKTTvaa~lA~~lA~~G~rVLl   41 (296)
T d1ihua1           7 IPPYLFFTGKGGVGKTSISCATAIRLAEQGKRVLL   41 (296)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEE
T ss_pred             CCeEEEEECCCcChHHHHHHHHHHHHHHCCCCEEE
Confidence            57899999999999999999999988765433333

>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=96.07  E-value=0.0016  Score=52.83  Aligned_cols=23  Identities=30%  Similarity=0.319  Sum_probs=20.3

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHh
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      .|.|.|++|+||||+|+.+++++
T Consensus         4 rIvl~G~pGSGKtT~a~~La~~~   26 (180)
T d1akya1           4 RMVLIGPPGAGKGTQAPNLQERF   26 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            36678999999999999999876

>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=96.02  E-value=0.0038  Score=55.66  Aligned_cols=30  Identities=27%  Similarity=0.258  Sum_probs=26.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCc
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNF  137 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f  137 (429)
                      ...+|+|.|+||+|||||...+...+....
T Consensus        53 ~~~~IgitG~pGaGKSTLi~~l~~~~~~~g   82 (327)
T d2p67a1          53 NTLRLGVTGTPGAGKSTFLEAFGMLLIREG   82 (327)
T ss_dssp             CSEEEEEEECTTSCHHHHHHHHHHHHHHTT
T ss_pred             CceEEEeeCCCCCCHHHHHHHHHHHHHhcC
Confidence            567899999999999999999998776653

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=95.99  E-value=0.0018  Score=52.49  Aligned_cols=23  Identities=26%  Similarity=0.293  Sum_probs=20.6

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHh
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      .|.|.|++|+||||+|+.+++++
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~~~   24 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIMEKY   24 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            36789999999999999999875

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=95.84  E-value=0.0045  Score=54.55  Aligned_cols=30  Identities=33%  Similarity=0.353  Sum_probs=25.7

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCc
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNF  137 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f  137 (429)
                      .+-+|+|.|.+|+||||+|+.+...+...+
T Consensus        79 ~P~iIGIaG~sgSGKSTla~~L~~lL~~~~  108 (308)
T d1sq5a_          79 IPYIISIAGSVAVGKSTTARVLQALLSRWP  108 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHHTTST
T ss_pred             CCEEEEEeCCCCCCCcHHHHHHHHHHhhhc
Confidence            455899999999999999999998886543

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=95.82  E-value=0.0036  Score=53.43  Aligned_cols=28  Identities=21%  Similarity=0.328  Sum_probs=24.8

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      ..+++.|+|++|+|||++|.+++.....
T Consensus        35 ~G~~~li~G~pGsGKT~~~lq~~~~~~~   62 (254)
T d1pzna2          35 TQAITEVFGEFGSGKTQLAHTLAVMVQL   62 (254)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHTTS
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHhhc
Confidence            6779999999999999999999987543

>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=95.80  E-value=0.0033  Score=55.13  Aligned_cols=37  Identities=22%  Similarity=0.351  Sum_probs=28.3

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeech
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIR  147 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~  147 (429)
                      +.|+|+|-||+||||+|..++..+...- ..+.+.++.
T Consensus         3 r~IaisgKGGVGKTT~a~NLA~~LA~~G-~rVLlID~D   39 (289)
T d2afhe1           3 RQCAIYGKGGIGKSTTTQNLVAALAEMG-KKVMIVGCD   39 (289)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHHTT-CCEEEEEEC
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHCC-CCEEEEecC
Confidence            5788999999999999999998876653 344444454

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=95.79  E-value=0.0026  Score=55.36  Aligned_cols=29  Identities=21%  Similarity=0.440  Sum_probs=22.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      ..++|+|.|.+|+||||+++.+.+.+...
T Consensus         3 k~pIIgIaG~SGSGKTTva~~l~~i~~~~   31 (288)
T d1a7ja_           3 KHPIISVTGSSGAGTSTVKHTFDQIFRRE   31 (288)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHHhhc
Confidence            35699999999999999999998877644

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=95.72  E-value=0.0044  Score=52.51  Aligned_cols=28  Identities=29%  Similarity=0.423  Sum_probs=23.5

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHhhcCcc
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRISRNFK  138 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~~~~f~  138 (429)
                      +|+|.|+.|.|||||...+.+.......
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            6899999999999999999876654443

>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=95.67  E-value=0.0036  Score=51.92  Aligned_cols=26  Identities=15%  Similarity=0.313  Sum_probs=22.8

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ..++.|+||+|+|||||.+.+..+..
T Consensus         2 G~livi~GPSG~GK~tl~~~L~~~~p   27 (205)
T d1s96a_           2 GTLYIVSAPSGAGKSSLIQALLKTQP   27 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhhCC
Confidence            46899999999999999999988753

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=95.61  E-value=0.0054  Score=51.58  Aligned_cols=27  Identities=19%  Similarity=0.101  Sum_probs=23.4

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ...++.|+|++|+|||+||.+++....
T Consensus        25 ~G~~~~I~G~~G~GKT~la~~~~~~~~   51 (242)
T d1tf7a1          25 IGRSTLVSGTSGTGKTLFSIQFLYNGI   51 (242)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            678999999999999999998776543

>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=95.54  E-value=0.0033  Score=51.37  Aligned_cols=22  Identities=36%  Similarity=0.525  Sum_probs=18.9

Q ss_pred             CCEEEEEcCCCcchHHHHHHHH
Q 048064          109 APLLGIWGIGGIGKTTIARVIF  130 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~  130 (429)
                      +-+|+|+|+.|+||||+|..+.
T Consensus         3 p~IIgitG~~gSGKstva~~l~   24 (191)
T d1uf9a_           3 PIIIGITGNIGSGKSTVAALLR   24 (191)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH
Confidence            3478999999999999998763

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.51  E-value=0.0029  Score=55.05  Aligned_cols=28  Identities=21%  Similarity=0.298  Sum_probs=23.9

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      +-+|+|.|+.|+|||||+..+...+.+.
T Consensus        27 P~iIGi~G~qGSGKSTl~~~l~~~L~~~   54 (286)
T d1odfa_          27 PLFIFFSGPQGSGKSFTSIQIYNHLMEK   54 (286)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHH
T ss_pred             CEEEEeECCCCCCHHHHHHHHHHHHHHH
Confidence            3478999999999999999998877554

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.49  E-value=0.0044  Score=52.49  Aligned_cols=26  Identities=12%  Similarity=0.231  Sum_probs=23.5

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ..+++.|+|++|+||||||.+++...
T Consensus        33 ~G~~~li~G~pGsGKT~l~lq~~~~~   58 (251)
T d1szpa2          33 TGSITELFGEFRTGKSQLCHTLAVTC   58 (251)
T ss_dssp             SSSEEEEEESTTSSHHHHHHHHTTTT
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHh
Confidence            67899999999999999999988754

>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=95.45  E-value=0.023  Score=46.57  Aligned_cols=35  Identities=17%  Similarity=0.030  Sum_probs=22.5

Q ss_pred             CCEEEEEcCCCcchHHHHHHH-HHHhhcCcceeEEEe
Q 048064          109 APLLGIWGIGGIGKTTIARVI-FNRISRNFKGSCFLE  144 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~-~~~~~~~f~~~~~~~  144 (429)
                      .+-+.|+++.|.|||+.|... +..+. +....+++.
T Consensus        40 ~~~~il~apTGsGKT~~a~l~i~~~~~-~~~~vl~l~   75 (202)
T d2p6ra3          40 GKNLLLAMPTAAGKTLLAEMAMVREAI-KGGKSLYVV   75 (202)
T ss_dssp             CSCEEEECSSHHHHHHHHHHHHHHHHH-TTCCEEEEE
T ss_pred             CCCEEEEcCCCCchhHHHHHHHHHHhh-ccCcceeec
Confidence            445779999999999887543 33333 233455554

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.44  E-value=0.0065  Score=51.73  Aligned_cols=27  Identities=15%  Similarity=0.213  Sum_probs=24.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ..+++.|+|++|+|||++|.+++....
T Consensus        36 ~G~~~~i~G~~GsGKT~lalq~~~~~~   62 (258)
T d1v5wa_          36 SMAITEAFGEFRTGKTQLSHTLCVTAQ   62 (258)
T ss_dssp             SSEEEEEECCTTCTHHHHHHHHHHHTT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            567999999999999999999998654

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.41  E-value=0.0067  Score=50.06  Aligned_cols=26  Identities=27%  Similarity=0.463  Sum_probs=23.4

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      .|+|.|.-|+||||+++.+.+.+..+
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~l~~~   27 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGAFRAA   27 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            58899999999999999999988654

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.41  E-value=0.004  Score=52.90  Aligned_cols=28  Identities=21%  Similarity=0.304  Sum_probs=24.7

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      +++.|+|-|+-|+||||+++.+.+.+..
T Consensus         1 ~pk~IviEG~~GsGKST~~~~L~~~l~~   28 (241)
T d2ocpa1           1 GPRRLSIEGNIAVGKSTFVKLLTKTYPE   28 (241)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHCTT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHhh
Confidence            5788999999999999999999987643

>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=95.40  E-value=0.0081  Score=51.67  Aligned_cols=37  Identities=24%  Similarity=0.409  Sum_probs=31.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEe
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLE  144 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  144 (429)
                      ..+++-|+|++|+||||||.+++...+..-..++|+.
T Consensus        53 ~g~itei~G~~gsGKTtl~l~~~~~~q~~g~~~vyid   89 (263)
T d1u94a1          53 MGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID   89 (263)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CceEEEEecCCCcHHHHHHHHHHHHHHcCCCEEEEEc
Confidence            5679999999999999999999998876655566664

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=95.38  E-value=0.0047  Score=52.43  Aligned_cols=28  Identities=21%  Similarity=0.254  Sum_probs=24.7

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhc
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      ...++.|.|++|+|||++|.+++.....
T Consensus        33 ~G~l~~i~G~~G~GKT~~~l~~a~~~~~   60 (258)
T d2i1qa2          33 SQSVTEFAGVFGSGKTQIMHQSCVNLQN   60 (258)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHTTC
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHHh
Confidence            5789999999999999999999987543

>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=95.22  E-value=0.0064  Score=54.09  Aligned_cols=93  Identities=18%  Similarity=0.126  Sum_probs=54.7

Q ss_pred             HHhhcCCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeechhhhhh-cCCHHHHHHHHHHHHhcCCCCCCCHHHHH
Q 048064          103 QSLLGAAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENIREESQK-AGGLAFLQQKLLSEVLKDVNVIPHIDLNF  181 (429)
Q Consensus       103 ~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~~~~~l~  181 (429)
                      ..++...+.+.|+|+.|+||||++..++..+-.. ...+.+.+..+.... .....        ++ .........+.+.
T Consensus       160 ~~~v~~~~nili~G~tgSGKTT~l~al~~~i~~~-~rivtiEd~~El~l~~~~~~~--------~~-~~~~~~~~~~ll~  229 (323)
T d1g6oa_         160 KDGIAIGKNVIVCGGTGSGKTTYIKSIMEFIPKE-ERIISIEDTEEIVFKHHKNYT--------QL-FFGGNITSADCLK  229 (323)
T ss_dssp             HHHHHHTCCEEEEESTTSSHHHHHHHHGGGSCTT-CCEEEEESSCCCCCSSCSSEE--------EE-ECBTTBCHHHHHH
T ss_pred             HHHHHhCCCEEEEeeccccchHHHHHHhhhcccc-cceeeccchhhhhcccccccc--------ee-ccccchhHHHHHH
Confidence            3333366679999999999999999998765433 233444333321110 00000        00 0011222233477


Q ss_pred             HHhcCCcEEEEecCCCCHHHHHHH
Q 048064          182 RRLSCRKVLIVLDDVTCLNQIESL  205 (429)
Q Consensus       182 ~~l~~~~~LlVlDdv~~~~~~~~l  205 (429)
                      ..++..+-.+|+.++...+.+..+
T Consensus       230 ~~lR~~pd~iivgEiR~~ea~~~l  253 (323)
T d1g6oa_         230 SCLRMRPDRIILGELRSSEAYDFY  253 (323)
T ss_dssp             HHTTSCCSEEEESCCCSTHHHHHH
T ss_pred             HHhccCCCcccCCccCchhHHHHH
Confidence            788888889999999887776544

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=95.18  E-value=0.0031  Score=51.71  Aligned_cols=25  Identities=28%  Similarity=0.024  Sum_probs=21.6

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      +-+|+|-|..|+||||+++.+.+.+
T Consensus         9 p~~I~ieG~~GsGKTTl~~~L~~~l   33 (197)
T d2vp4a1           9 PFTVLIEGNIGSGKTTYLNHFEKYK   33 (197)
T ss_dssp             CEEEEEECSTTSCHHHHHHTTGGGT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHh
Confidence            3479999999999999999887654

>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=95.17  E-value=0.026  Score=48.61  Aligned_cols=29  Identities=17%  Similarity=0.179  Sum_probs=25.0

Q ss_pred             hcCCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          106 LGAAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       106 l~~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      +....++.|.|.+|+|||+++.+++.++.
T Consensus        32 ~~~G~l~vi~G~~G~GKT~~~~~la~~~a   60 (277)
T d1cr2a_          32 ARGGEVIMVTSGSGMGKSTFVRQQALQWG   60 (277)
T ss_dssp             BCTTCEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCCeEEEEEeCCCCCHHHHHHHHHHhhh
Confidence            33677999999999999999999998754

>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=95.09  E-value=0.006  Score=47.72  Aligned_cols=21  Identities=29%  Similarity=0.273  Sum_probs=19.0

Q ss_pred             EEEEcCCCcchHHHHHHHHHH
Q 048064          112 LGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      |.|+|++|+|||||...+...
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~   23 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLG   23 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            789999999999999998764

>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=95.08  E-value=0.0092  Score=50.06  Aligned_cols=34  Identities=24%  Similarity=0.263  Sum_probs=26.6

Q ss_pred             CEEEEE-cCCCcchHHHHHHHHHHhhcCcceeEEE
Q 048064          110 PLLGIW-GIGGIGKTTIARVIFNRISRNFKGSCFL  143 (429)
Q Consensus       110 ~~v~I~-G~~GiGKTtLa~~~~~~~~~~f~~~~~~  143 (429)
                      |+|+|+ |-||+||||+|..++..+.+....++.+
T Consensus         2 kvIav~s~KGGvGKTtia~nlA~~la~~g~~Vlli   36 (232)
T d1hyqa_           2 RTITVASGKGGTGKTTITANLGVALAQLGHDVTIV   36 (232)
T ss_dssp             EEEEEEESSSCSCHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             EEEEEECCCCCChHHHHHHHHHHHHHhCCCCEEEE
Confidence            567776 8999999999999999887664444444

>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=95.03  E-value=0.0048  Score=50.82  Aligned_cols=25  Identities=32%  Similarity=0.500  Sum_probs=22.8

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ...+++|.|+.|+|||||.+.++.-
T Consensus        26 ~Gei~~l~G~NGsGKSTLl~~i~gl   50 (200)
T d1sgwa_          26 KGNVVNFHGPNGIGKTTLLKTISTY   50 (200)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcc
Confidence            6788999999999999999999874

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=94.88  E-value=0.0066  Score=50.99  Aligned_cols=24  Identities=29%  Similarity=0.444  Sum_probs=21.3

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ...+++|.|+.|+|||||.+.++.
T Consensus        30 ~Ge~~~iiG~sGsGKSTLl~~i~g   53 (230)
T d1l2ta_          30 EGEFVSIMGPSGSGKSTMLNIIGC   53 (230)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCcchhhHhccC
Confidence            577999999999999999997665

>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=94.87  E-value=0.008  Score=50.49  Aligned_cols=24  Identities=29%  Similarity=0.454  Sum_probs=21.8

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ...+++|.|+.|+|||||.+.++-
T Consensus        25 ~Gei~~liGpsGsGKSTLl~~i~G   48 (232)
T d2awna2          25 EGEFVVFVGPSGCGKSTLLRMIAG   48 (232)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCChHHHHHHHHhc
Confidence            567999999999999999998876

>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=94.86  E-value=0.013  Score=48.55  Aligned_cols=34  Identities=26%  Similarity=0.452  Sum_probs=27.1

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcC-cceeEE
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRN-FKGSCF  142 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~-f~~~~~  142 (429)
                      .+.|+|-|+.|+||||++..+.+.+... +...++
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            4679999999999999999999987655 333443

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=94.86  E-value=0.008  Score=50.76  Aligned_cols=24  Identities=33%  Similarity=0.465  Sum_probs=22.0

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ...+++|.|+.|+|||||++.++-
T Consensus        28 ~Ge~~~liG~sGaGKSTll~~i~g   51 (240)
T d1g2912          28 DGEFMILLGPSGCGKTTTLRMIAG   51 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCChHHHHHHHHhc
Confidence            567999999999999999998876

>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=94.84  E-value=0.0067  Score=51.42  Aligned_cols=24  Identities=33%  Similarity=0.628  Sum_probs=22.2

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ....++|+|+.|.|||||++.+..
T Consensus        28 ~Ge~vaIvG~sGsGKSTLl~ll~g   51 (241)
T d2pmka1          28 QGEVIGIVGRSGSGKSTLTKLIQR   51 (241)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHh
Confidence            678899999999999999998876

>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=94.78  E-value=0.0066  Score=51.93  Aligned_cols=24  Identities=38%  Similarity=0.512  Sum_probs=22.0

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ....++|+|+.|+|||||++.++.
T Consensus        40 ~Ge~iaivG~sGsGKSTLl~ll~g   63 (253)
T d3b60a1          40 AGKTVALVGRSGSGKSTIASLITR   63 (253)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCChHHHHHHHHhc
Confidence            677999999999999999998875

>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=94.71  E-value=0.014  Score=49.03  Aligned_cols=35  Identities=23%  Similarity=0.321  Sum_probs=27.3

Q ss_pred             CCEEEEE-cCCCcchHHHHHHHHHHhhcCcceeEEE
Q 048064          109 APLLGIW-GIGGIGKTTIARVIFNRISRNFKGSCFL  143 (429)
Q Consensus       109 ~~~v~I~-G~~GiGKTtLa~~~~~~~~~~f~~~~~~  143 (429)
                      .++|+|+ +-||+||||+|..++..+.+....+..+
T Consensus         2 ~~vIav~~~kGGvGKTtia~nLA~~la~~g~~Vlli   37 (237)
T d1g3qa_           2 GRIISIVSGKGGTGKTTVTANLSVALGDRGRKVLAV   37 (237)
T ss_dssp             CEEEEEECSSTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CeEEEEECCCCCCcHHHHHHHHHHHHHhCCCCEEEE
Confidence            4678888 6899999999999999887654444444

>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=94.70  E-value=0.0073  Score=51.03  Aligned_cols=24  Identities=33%  Similarity=0.596  Sum_probs=21.7

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ...+++|.|+.|+|||||++.++-
T Consensus        30 ~Ge~~~iiG~sGsGKSTLl~~i~G   53 (240)
T d3dhwc1          30 AGQIYGVIGASGAGKSTLIRCVNL   53 (240)
T ss_dssp             SSCEEEEEESTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcC
Confidence            567999999999999999998875

>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=94.68  E-value=0.0084  Score=47.23  Aligned_cols=22  Identities=36%  Similarity=0.389  Sum_probs=19.6

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      -|+|+|.+|+|||||...+...
T Consensus         7 kI~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           7 RILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3789999999999999998774

>d1tmka_ c.37.1.1 (A:) Thymidylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.66  E-value=0.01  Score=49.34  Aligned_cols=28  Identities=29%  Similarity=0.525  Sum_probs=25.1

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcC
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRN  136 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  136 (429)
                      .+.|+|-|+-|+||||+++.+.+.+..+
T Consensus         3 Gk~I~iEG~DGsGKST~~~~L~~~L~~~   30 (214)
T d1tmka_           3 GKLILIEGLDRTGKTTQCNILYKKLQPN   30 (214)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHTTTS
T ss_pred             eEEEEEECCCCCcHHHHHHHHHHHHHhC
Confidence            5789999999999999999999988654

>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=94.63  E-value=0.0091  Score=50.94  Aligned_cols=24  Identities=29%  Similarity=0.490  Sum_probs=22.0

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ....++|+|+.|+|||||++.+..
T Consensus        39 ~Ge~vaivG~sGsGKSTLl~li~g   62 (251)
T d1jj7a_          39 PGEVTALVGPNGSGKSTVAALLQN   62 (251)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhc
Confidence            678999999999999999998875

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.59  E-value=0.0091  Score=47.21  Aligned_cols=20  Identities=20%  Similarity=0.456  Sum_probs=18.5

Q ss_pred             EEEEcCCCcchHHHHHHHHH
Q 048064          112 LGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~  131 (429)
                      |+++|.+|+|||||+..+.+
T Consensus         5 v~liG~~~vGKSsLi~rl~~   24 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCK   24 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999998886

>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=94.57  E-value=0.01  Score=49.97  Aligned_cols=24  Identities=38%  Similarity=0.498  Sum_probs=22.0

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ...+++|.|+.|+|||||.+.+..
T Consensus        31 ~Ge~~~liGpsGaGKSTLl~~i~G   54 (239)
T d1v43a3          31 DGEFLVLLGPSGCGKTTTLRMIAG   54 (239)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCChHHHHHHHHHc
Confidence            567899999999999999998886

>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=94.57  E-value=0.0095  Score=51.76  Aligned_cols=25  Identities=32%  Similarity=0.510  Sum_probs=22.7

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ....++|+|+.|+|||||++.++.-
T Consensus        61 ~Ge~vaivG~nGsGKSTLl~~i~Gl   85 (281)
T d1r0wa_          61 KGEMLAITGSTGSGKTSLLMLILGE   85 (281)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhCC
Confidence            6789999999999999999998864

>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=94.52  E-value=0.0078  Score=51.09  Aligned_cols=24  Identities=25%  Similarity=0.372  Sum_probs=21.8

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ....++|+|+.|+|||||++.+..
T Consensus        27 ~Ge~vaivG~sGsGKSTLl~ll~g   50 (242)
T d1mv5a_          27 PNSIIAFAGPSGGGKSTIFSLLER   50 (242)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
Confidence            567899999999999999998875

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.50  E-value=0.0098  Score=47.51  Aligned_cols=21  Identities=24%  Similarity=0.343  Sum_probs=18.8

Q ss_pred             EEEEcCCCcchHHHHHHHHHH
Q 048064          112 LGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      |+|+|.+|+|||||+..+.+.
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            779999999999999998763

>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=94.43  E-value=0.01  Score=49.71  Aligned_cols=24  Identities=29%  Similarity=0.375  Sum_probs=22.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ...+++|.|+.|+|||||.+.++-
T Consensus        25 ~Ge~~~liGpsGaGKSTll~~l~G   48 (229)
T d3d31a2          25 SGEYFVILGPTGAGKTLFLELIAG   48 (229)
T ss_dssp             TTCEEEEECCCTHHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhc
Confidence            567999999999999999999886

>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=94.40  E-value=0.0098  Score=50.93  Aligned_cols=24  Identities=38%  Similarity=0.494  Sum_probs=22.0

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ...+++|.|+.|+|||||++.++-
T Consensus        27 ~GEi~~iiG~sGsGKSTLl~~i~G   50 (258)
T d1b0ua_          27 AGDVISIIGSSGSGKSTFLRCINF   50 (258)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHc
Confidence            677999999999999999998875

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.39  E-value=0.011  Score=46.88  Aligned_cols=21  Identities=24%  Similarity=0.328  Sum_probs=18.9

Q ss_pred             EEEEcCCCcchHHHHHHHHHH
Q 048064          112 LGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      |+|+|.+|+|||+|+..+.+.
T Consensus         7 ivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           7 YIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998863

>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=94.39  E-value=0.011  Score=48.87  Aligned_cols=20  Identities=30%  Similarity=0.421  Sum_probs=17.9

Q ss_pred             EEEEEcCCCcchHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIF  130 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~  130 (429)
                      +|+|+|+.|+||||+|+.+.
T Consensus         5 iIgitG~igSGKStv~~~l~   24 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAFA   24 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHHH
Confidence            79999999999999998653

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=94.39  E-value=0.02  Score=44.71  Aligned_cols=25  Identities=36%  Similarity=0.423  Sum_probs=22.4

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      .-+|.+.|.=|.||||+++.+++.+
T Consensus        33 g~ii~L~G~LGaGKTtfvr~~~~~l   57 (158)
T d1htwa_          33 AIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CeEEEEecCCCccHHHHHHHHHhhc
Confidence            3479999999999999999999965

>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=94.38  E-value=0.0051  Score=52.05  Aligned_cols=26  Identities=19%  Similarity=0.179  Sum_probs=22.8

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      .+.|+|-|+-|+||||+++.+++.+.
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            46899999999999999999887653

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

Probab=94.32  E-value=0.037  Score=47.73  Aligned_cols=26  Identities=27%  Similarity=0.049  Sum_probs=22.9

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ..+.++|.|.+|+|||+|+..+....
T Consensus        67 ~GQr~~If~~~g~GKt~ll~~~~~~~   92 (285)
T d2jdia3          67 RGQRELIIGDRQTGKTSIAIDTIINQ   92 (285)
T ss_dssp             TTCBCEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCCEEEeecCCCCChHHHHHHHHHhH
Confidence            77889999999999999999887654

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.31  E-value=0.011  Score=46.58  Aligned_cols=21  Identities=19%  Similarity=0.265  Sum_probs=19.2

Q ss_pred             EEEEcCCCcchHHHHHHHHHH
Q 048064          112 LGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      |++.|.+|+|||||+..+.+.
T Consensus         5 v~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998863

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.29  E-value=0.012  Score=46.70  Aligned_cols=22  Identities=23%  Similarity=0.490  Sum_probs=19.5

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      -|+|+|.+|+|||+|+..+...
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999998874

>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=94.28  E-value=0.012  Score=46.94  Aligned_cols=25  Identities=28%  Similarity=0.263  Sum_probs=21.9

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ..+-|.|.|++|+||||+|.++..+
T Consensus        13 ~g~gvl~~G~sG~GKStlal~l~~~   37 (176)
T d1kkma_          13 YGLGVLITGDSGVGKSETALELVQR   37 (176)
T ss_dssp             TTEEEEEECCTTSCHHHHHHHHHHT
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHc
Confidence            4567999999999999999998875

>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=94.28  E-value=0.012  Score=49.62  Aligned_cols=22  Identities=23%  Similarity=0.315  Sum_probs=20.3

Q ss_pred             CEEEEEcCCCcchHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ..++|.|+.|+|||||.+.++.
T Consensus        25 e~~~liGpnGaGKSTll~~i~G   46 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAG   46 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHT
T ss_pred             EEEEEECCCCChHHHHHHHHHc
Confidence            4788999999999999999887

>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=94.22  E-value=0.011  Score=48.67  Aligned_cols=21  Identities=43%  Similarity=0.507  Sum_probs=18.1

Q ss_pred             CEEEEEcCCCcchHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIF  130 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~  130 (429)
                      -+|+|+|..|+||||+|+.+.
T Consensus         3 ~iIgITG~igSGKStv~~~l~   23 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFT   23 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            368999999999999988663

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=94.21  E-value=0.026  Score=48.44  Aligned_cols=37  Identities=22%  Similarity=0.282  Sum_probs=30.8

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEe
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLE  144 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  144 (429)
                      ..+++-|+|++|+||||||.+++...+..-..++|+.
T Consensus        59 ~g~i~e~~G~~~~GKT~l~l~~~~~~q~~g~~~vyID   95 (269)
T d1mo6a1          59 RGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFID   95 (269)
T ss_dssp             SSSEEEEECSSSSSHHHHHHHHHHHHHHTTCEEEEEE
T ss_pred             cceeEEEecCCCcHHHHHHHHHHHHHhcCCCEEEEEE
Confidence            5789999999999999999999987766655566664

>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=94.21  E-value=0.012  Score=46.56  Aligned_cols=20  Identities=25%  Similarity=0.403  Sum_probs=18.6

Q ss_pred             EEEEcCCCcchHHHHHHHHH
Q 048064          112 LGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~  131 (429)
                      |+|+|.+|+|||+|+..+..
T Consensus         6 ivlvG~~~vGKTsLi~r~~~   25 (167)
T d1z08a1           6 VVLLGEGCVGKTSLVLRYCE   25 (167)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999999876

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=94.20  E-value=0.012  Score=46.66  Aligned_cols=21  Identities=24%  Similarity=0.249  Sum_probs=19.0

Q ss_pred             EEEEcCCCcchHHHHHHHHHH
Q 048064          112 LGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      |+++|.+|+|||||...+...
T Consensus         8 i~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           8 ILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHcC
Confidence            789999999999999988763

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=94.18  E-value=0.021  Score=47.46  Aligned_cols=32  Identities=25%  Similarity=0.533  Sum_probs=25.5

Q ss_pred             HHHHHHhhcCCCEEEEEcCCCcchHHHHHHHHH
Q 048064           99 VEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus        99 ~~~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ++.|..+| ..+..++.|.+|+|||||...+..
T Consensus        86 ~~~L~~~l-~~kt~~~~G~SGVGKSTLiN~L~~  117 (225)
T d1u0la2          86 IEELKEYL-KGKISTMAGLSGVGKSSLLNAINP  117 (225)
T ss_dssp             HHHHHHHH-SSSEEEEECSTTSSHHHHHHHHST
T ss_pred             HhhHHHHh-cCCeEEEECCCCCCHHHHHHhhcc
Confidence            55666666 457889999999999999988754

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.17  E-value=0.013  Score=46.59  Aligned_cols=21  Identities=29%  Similarity=0.691  Sum_probs=19.2

Q ss_pred             EEEEcCCCcchHHHHHHHHHH
Q 048064          112 LGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      |+++|.+|+|||+|...+.+.
T Consensus         5 i~lvG~~~vGKTsli~r~~~~   25 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTK   25 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            689999999999999998874

>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=94.14  E-value=0.011  Score=46.91  Aligned_cols=20  Identities=25%  Similarity=0.742  Sum_probs=18.3

Q ss_pred             EEEEcCCCcchHHHHHHHHH
Q 048064          112 LGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~  131 (429)
                      |+|+|.+|+|||||...+..
T Consensus         5 i~viG~~~vGKTsLi~r~~~   24 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVK   24 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            67999999999999998876

>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=94.14  E-value=0.014  Score=48.00  Aligned_cols=23  Identities=17%  Similarity=0.164  Sum_probs=20.5

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      +.|+|+|.+|+|||||...+...
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            46899999999999999998863

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=94.12  E-value=0.025  Score=48.54  Aligned_cols=37  Identities=24%  Similarity=0.340  Sum_probs=30.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEe
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLE  144 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  144 (429)
                      ..+++-|+|++|+|||+||.+++......-..++|+.
T Consensus        56 ~g~itei~G~~~sGKT~l~l~~~~~aqk~g~~v~yiD   92 (268)
T d1xp8a1          56 RGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFID   92 (268)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CceEEEEecCCccchHHHHHHHHHHHHhCCCEEEEEE
Confidence            5679999999999999999999988766544456554

>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=94.09  E-value=0.013  Score=46.47  Aligned_cols=21  Identities=19%  Similarity=0.368  Sum_probs=19.0

Q ss_pred             EEEEcCCCcchHHHHHHHHHH
Q 048064          112 LGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      |+|+|.+|+|||+|+..+.+.
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~   29 (170)
T d1r2qa_           9 LVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998863

>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=94.08  E-value=0.013  Score=46.69  Aligned_cols=21  Identities=29%  Similarity=0.484  Sum_probs=19.1

Q ss_pred             EEEEcCCCcchHHHHHHHHHH
Q 048064          112 LGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      |.|+|.+|+|||||...+.+.
T Consensus         8 i~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           8 IVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998863

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=94.04  E-value=0.041  Score=47.29  Aligned_cols=36  Identities=17%  Similarity=0.015  Sum_probs=26.4

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEE
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFL  143 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  143 (429)
                      ..+.++|.|.+|+|||+|+.........+...+++.
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            567799999999999999998766544444344443

>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=94.04  E-value=0.011  Score=49.88  Aligned_cols=24  Identities=42%  Similarity=0.620  Sum_probs=22.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ...+++|.|+.|+|||||++.+..
T Consensus        30 ~Ge~~~iiG~sGsGKSTll~~i~g   53 (242)
T d1oxxk2          30 NGERFGILGPSGAGKTTFMRIIAG   53 (242)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHc
Confidence            567999999999999999999886

>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=94.02  E-value=0.013  Score=46.13  Aligned_cols=20  Identities=25%  Similarity=0.371  Sum_probs=18.6

Q ss_pred             EEEEcCCCcchHHHHHHHHH
Q 048064          112 LGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~  131 (429)
                      |+|+|.+|+|||+|+..+.+
T Consensus         3 v~vvG~~~vGKTsLi~r~~~   22 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMY   22 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78899999999999999886

>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=94.02  E-value=0.014  Score=46.18  Aligned_cols=20  Identities=25%  Similarity=0.465  Sum_probs=18.5

Q ss_pred             EEEEcCCCcchHHHHHHHHH
Q 048064          112 LGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~  131 (429)
                      |+|+|.+|+|||||...+.+
T Consensus         7 i~lvG~~~vGKTsli~rl~~   26 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVE   26 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78899999999999999886

>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=94.00  E-value=0.02  Score=45.49  Aligned_cols=31  Identities=29%  Similarity=0.245  Sum_probs=23.9

Q ss_pred             HHHHhhc-CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          101 EIQSLLG-AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       101 ~l~~~l~-~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      .+..++. ..--|.|+|.+|+|||||...+..
T Consensus         6 ~~~~~~~~k~~kI~vvG~~~~GKSsLi~rl~~   37 (177)
T d1zj6a1           6 RIWRLFNHQEHKVIIVGLDNAGKTTILYQFSM   37 (177)
T ss_dssp             HHHHHHTTSCEEEEEEESTTSSHHHHHHHHHT
T ss_pred             HHHHHhCCCeEEEEEECCCCCCHHHHHHHHhc
Confidence            4455555 345688999999999999998776

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=93.99  E-value=0.021  Score=47.22  Aligned_cols=34  Identities=12%  Similarity=0.025  Sum_probs=27.2

Q ss_pred             CEEEEEcCC-CcchHHHHHHHHHHhhcCcceeEEE
Q 048064          110 PLLGIWGIG-GIGKTTIARVIFNRISRNFKGSCFL  143 (429)
Q Consensus       110 ~~v~I~G~~-GiGKTtLa~~~~~~~~~~f~~~~~~  143 (429)
                      +.+.|+|-+ |+||||++..++..+.+.-..+.++
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aLa~~G~rVl~i   36 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAAKAAGYRTAGY   36 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHHHHCCCeEEEE
Confidence            467899997 9999999999999887664444444

>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=93.99  E-value=0.013  Score=46.25  Aligned_cols=21  Identities=33%  Similarity=0.401  Sum_probs=18.8

Q ss_pred             EEEEEcCCCcchHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      -|+|+|.+|+|||||...+..
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~   24 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNG   24 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHcC
Confidence            378999999999999998765

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.99  E-value=0.016  Score=47.60  Aligned_cols=23  Identities=26%  Similarity=0.343  Sum_probs=20.7

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      +.|+|+|.+|+|||||...+...
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            57999999999999999998864

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=93.97  E-value=0.016  Score=46.26  Aligned_cols=24  Identities=25%  Similarity=0.375  Sum_probs=20.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ...-|+|+|.+|+|||||...+..
T Consensus        12 k~~kI~lvG~~~vGKTsLl~~l~~   35 (186)
T d1f6ba_          12 KTGKLVFLGLDNAGKTTLLHMLKD   35 (186)
T ss_dssp             CCEEEEEEEETTSSHHHHHHHHSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhC
Confidence            445688999999999999988755

>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=93.93  E-value=0.015  Score=46.37  Aligned_cols=20  Identities=35%  Similarity=0.521  Sum_probs=18.5

Q ss_pred             EEEEcCCCcchHHHHHHHHH
Q 048064          112 LGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~  131 (429)
                      |+|+|.+|+|||||...+..
T Consensus         5 i~~vG~~~vGKSsLi~~~~~   24 (175)
T d1ky3a_           5 VIILGDSGVGKTSLMHRYVN   24 (175)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHc
Confidence            78999999999999999876

>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=93.92  E-value=0.014  Score=46.55  Aligned_cols=21  Identities=29%  Similarity=0.502  Sum_probs=19.1

Q ss_pred             EEEEEcCCCcchHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      -|+|+|.+|+|||+|+..+.+
T Consensus         8 Kv~lvG~~~vGKTsLi~r~~~   28 (173)
T d2fn4a1           8 KLVVVGGGGVGKSALTIQFIQ   28 (173)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            488999999999999998876

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=93.92  E-value=0.015  Score=46.11  Aligned_cols=21  Identities=24%  Similarity=0.322  Sum_probs=19.3

Q ss_pred             EEEEEcCCCcchHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      .|+|.|.+|+|||||...+..
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            589999999999999999875

>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=93.91  E-value=0.015  Score=45.96  Aligned_cols=21  Identities=29%  Similarity=0.585  Sum_probs=19.0

Q ss_pred             EEEEcCCCcchHHHHHHHHHH
Q 048064          112 LGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      |+|+|.+|+|||+|...+.+.
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            789999999999999998763

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=93.88  E-value=0.014  Score=46.70  Aligned_cols=25  Identities=28%  Similarity=0.290  Sum_probs=21.8

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ..+-|.|.|++|+||||+|.++..+
T Consensus        14 ~g~gvli~G~sG~GKS~lal~l~~~   38 (177)
T d1knxa2          14 FGVGVLLTGRSGIGKSECALDLINK   38 (177)
T ss_dssp             TTEEEEEEESSSSSHHHHHHHHHTT
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHc
Confidence            4567899999999999999998764

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=93.87  E-value=0.016  Score=47.23  Aligned_cols=23  Identities=22%  Similarity=0.495  Sum_probs=20.6

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHH
Q 048064          109 APLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      .+.|+|+|.+|+|||||...+..
T Consensus        23 ~~~I~lvG~~n~GKSTLin~L~g   45 (195)
T d1svia_          23 LPEIALAGRSNVGKSSFINSLIN   45 (195)
T ss_dssp             CCEEEEEEBTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHhcC
Confidence            45799999999999999999975

>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=93.87  E-value=0.013  Score=47.38  Aligned_cols=20  Identities=35%  Similarity=0.353  Sum_probs=18.3

Q ss_pred             EEEEcCCCcchHHHHHHHHH
Q 048064          112 LGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~  131 (429)
                      |+|+|.+|+|||||+..+.+
T Consensus         8 i~ivG~~~vGKTsLi~~l~~   27 (186)
T d2f7sa1           8 LLALGDSGVGKTTFLYRYTD   27 (186)
T ss_dssp             EEEESCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhc
Confidence            78999999999999998875

>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=93.84  E-value=0.015  Score=46.25  Aligned_cols=22  Identities=27%  Similarity=0.475  Sum_probs=19.5

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      -|+|+|.+|+|||+|...+...
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3889999999999999998763

>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=93.82  E-value=0.015  Score=45.89  Aligned_cols=20  Identities=20%  Similarity=0.380  Sum_probs=18.6

Q ss_pred             EEEEcCCCcchHHHHHHHHH
Q 048064          112 LGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~  131 (429)
                      |+++|.+|+|||||...+..
T Consensus         5 i~vvG~~~vGKTSli~~l~~   24 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVE   24 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999999876

>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=93.81  E-value=0.015  Score=45.93  Aligned_cols=21  Identities=19%  Similarity=0.433  Sum_probs=19.0

Q ss_pred             EEEEEcCCCcchHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      -|+|.|.+|+|||||...+.+
T Consensus         6 Kv~liG~~~vGKTsLl~~~~~   26 (167)
T d1xtqa1           6 KIAILGYRSVGKSSLTIQFVE   26 (167)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            478999999999999999876

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

Probab=93.81  E-value=0.021  Score=49.11  Aligned_cols=27  Identities=26%  Similarity=0.375  Sum_probs=23.7

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ...++.|+|++|+|||||+.+++..+.
T Consensus        28 pg~~~~i~G~~G~GKS~l~l~la~~ia   54 (274)
T d1nlfa_          28 AGTVGALVSPGGAGKSMLALQLAAQIA   54 (274)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            457899999999999999999988764

>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=93.80  E-value=0.017  Score=45.09  Aligned_cols=22  Identities=32%  Similarity=0.433  Sum_probs=19.5

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      -|+|+|.+|+|||||...+...
T Consensus         2 KI~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999988763

>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=93.80  E-value=0.015  Score=46.20  Aligned_cols=20  Identities=30%  Similarity=0.576  Sum_probs=18.2

Q ss_pred             EEEEcCCCcchHHHHHHHHH
Q 048064          112 LGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~  131 (429)
                      |+|+|.+|+|||+|+..+..
T Consensus         4 i~lvG~~~vGKTsLi~~~~~   23 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGG   23 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHT
T ss_pred             EEEECCCCcCHHHHHHHHhC
Confidence            78999999999999998875

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=93.78  E-value=0.016  Score=45.88  Aligned_cols=25  Identities=32%  Similarity=0.295  Sum_probs=22.0

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ..+-|.|.|.+|+||||+|.++..+
T Consensus        14 ~g~gvli~G~sg~GKS~la~~l~~~   38 (169)
T d1ko7a2          14 YGVGVLITGDSGIGKSETALELIKR   38 (169)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHT
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHc
Confidence            4567999999999999999998875

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.71  E-value=0.017  Score=45.76  Aligned_cols=20  Identities=25%  Similarity=0.346  Sum_probs=18.6

Q ss_pred             EEEEcCCCcchHHHHHHHHH
Q 048064          112 LGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~  131 (429)
                      |+|+|.+|+|||+|+..+..
T Consensus         9 i~vvG~~~vGKTsli~~~~~   28 (170)
T d2g6ba1           9 VMLVGDSGVGKTCLLVRFKD   28 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            88999999999999998876

>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=93.70  E-value=0.016  Score=46.11  Aligned_cols=20  Identities=20%  Similarity=0.395  Sum_probs=18.5

Q ss_pred             EEEEcCCCcchHHHHHHHHH
Q 048064          112 LGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~  131 (429)
                      |+++|.+|+|||||+..+..
T Consensus         8 I~lvG~~~vGKTsll~~~~~   27 (174)
T d2bmea1           8 FLVIGNAGTGKSCLLHQFIE   27 (174)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999998875

>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=93.70  E-value=0.016  Score=46.29  Aligned_cols=22  Identities=36%  Similarity=0.276  Sum_probs=19.2

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      -|.|+|.+|+|||+|...+.+.
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4788999999999999988764

>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=93.70  E-value=0.017  Score=45.70  Aligned_cols=21  Identities=29%  Similarity=0.627  Sum_probs=19.1

Q ss_pred             EEEEcCCCcchHHHHHHHHHH
Q 048064          112 LGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      |+|+|.+|+|||||...+.+.
T Consensus         6 i~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999998873

>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=93.66  E-value=0.018  Score=45.97  Aligned_cols=20  Identities=20%  Similarity=0.380  Sum_probs=18.6

Q ss_pred             EEEEcCCCcchHHHHHHHHH
Q 048064          112 LGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~  131 (429)
                      |+|+|.+|+|||||+..+..
T Consensus         7 i~vvG~~~vGKTsLi~~~~~   26 (175)
T d2f9la1           7 VVLIGDSGVGKSNLLSRFTR   26 (175)
T ss_dssp             EEEESSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999998876

>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=93.66  E-value=0.018  Score=45.65  Aligned_cols=21  Identities=24%  Similarity=0.411  Sum_probs=18.9

Q ss_pred             EEEEcCCCcchHHHHHHHHHH
Q 048064          112 LGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      |+|+|.+|+|||+|...+...
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            788999999999999998863

>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=93.66  E-value=0.017  Score=48.77  Aligned_cols=25  Identities=36%  Similarity=0.573  Sum_probs=22.4

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ...+++|.|+.|.|||||.+.++.-
T Consensus        27 ~Gei~glvG~nGaGKSTLl~~l~G~   51 (238)
T d1vpla_          27 EGEIFGLIGPNGAGKTTTLRIISTL   51 (238)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            5679999999999999999988863

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.61  E-value=0.018  Score=46.28  Aligned_cols=22  Identities=23%  Similarity=0.222  Sum_probs=19.6

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      -|.|+|.+|+|||+|...+.+.
T Consensus         7 KivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3789999999999999998874

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=93.55  E-value=0.019  Score=46.22  Aligned_cols=20  Identities=35%  Similarity=0.524  Sum_probs=18.7

Q ss_pred             EEEEcCCCcchHHHHHHHHH
Q 048064          112 LGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~  131 (429)
                      |+|+|.+|+|||||+..+.+
T Consensus         5 v~vvG~~~vGKSSLi~~l~~   24 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVN   24 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999999886

>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=93.51  E-value=0.018  Score=48.59  Aligned_cols=24  Identities=29%  Similarity=0.434  Sum_probs=22.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ...+++|.|+.|.|||||.+.++-
T Consensus        31 ~Gei~~liGpnGaGKSTl~~~i~G   54 (240)
T d1ji0a_          31 RGQIVTLIGANGAGKTTTLSAIAG   54 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhC
Confidence            677999999999999999998876

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=93.41  E-value=0.021  Score=48.23  Aligned_cols=23  Identities=30%  Similarity=0.392  Sum_probs=20.6

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ++|+|+|..|+||||+|..+.+.
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e~   24 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMSN   24 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            57999999999999999988765

>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=93.39  E-value=0.2  Score=44.67  Aligned_cols=35  Identities=23%  Similarity=0.203  Sum_probs=25.6

Q ss_pred             HHHHHHHhhcCCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064           98 RVEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus        98 ~~~~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      ....+...+ ..+++.|.|++|+||||++..+...+
T Consensus       153 Q~~A~~~al-~~~~~vI~G~pGTGKTt~i~~~l~~l  187 (359)
T d1w36d1         153 QKVAAAVAL-TRRISVISGGPGTGKTTTVAKLLAAL  187 (359)
T ss_dssp             HHHHHHHHH-TBSEEEEECCTTSTHHHHHHHHHHHH
T ss_pred             HHHHHHHHH-cCCeEEEEcCCCCCceehHHHHHHHH
Confidence            334444444 56899999999999999987766544

>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=93.38  E-value=0.022  Score=44.89  Aligned_cols=21  Identities=38%  Similarity=0.400  Sum_probs=18.5

Q ss_pred             EEEEEcCCCcchHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      -|++.|.+|+|||||...+..
T Consensus         4 ki~i~G~~~~GKTsLl~~l~~   24 (164)
T d1zd9a1           4 ELTLVGLQYSGKTTFVNVIAS   24 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHc
Confidence            367899999999999998876

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=93.35  E-value=0.022  Score=45.12  Aligned_cols=21  Identities=24%  Similarity=0.461  Sum_probs=19.0

Q ss_pred             EEEEEcCCCcchHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      -|.|+|.+|+|||||+..+..
T Consensus         6 KivlvG~~~vGKTsli~~~~~   26 (168)
T d1u8za_           6 KVIMVGSGGVGKSALTLQFMY   26 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            478999999999999999876

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.33  E-value=0.022  Score=45.36  Aligned_cols=20  Identities=25%  Similarity=0.527  Sum_probs=18.6

Q ss_pred             EEEEcCCCcchHHHHHHHHH
Q 048064          112 LGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~  131 (429)
                      |+|+|.+|+|||||+..+.+
T Consensus         9 I~vvG~~~vGKSSli~~~~~   28 (174)
T d1wmsa_           9 VILLGDGGVGKSSLMNRYVT   28 (174)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            78999999999999988876

>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=93.33  E-value=0.02  Score=48.79  Aligned_cols=25  Identities=32%  Similarity=0.340  Sum_probs=22.5

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ...+++|.|+.|.|||||++.++--
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            6779999999999999999988864

>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=93.33  E-value=0.017  Score=49.23  Aligned_cols=24  Identities=25%  Similarity=0.404  Sum_probs=21.5

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ....++|+|+.|+|||||++.+..
T Consensus        43 ~Ge~vaivG~sGsGKSTLl~ll~g   66 (255)
T d2hyda1          43 KGETVAFVGMSGGGKSTLINLIPR   66 (255)
T ss_dssp             TTCEEEEECSTTSSHHHHHTTTTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHh
Confidence            678999999999999999997764

>d1wb9a2 c.37.1.12 (A:567-800) DNA repair protein MutS, the C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=93.31  E-value=0.13  Score=42.99  Aligned_cols=25  Identities=28%  Similarity=0.066  Sum_probs=22.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      +.+++.|.|+...||||+.+.++--
T Consensus        40 ~~~~~iiTGpN~~GKSt~lk~i~l~   64 (234)
T d1wb9a2          40 QRRMLIITGPNMGGKSTYMRQTALI   64 (234)
T ss_dssp             SSCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CceEEEEeccCchhhHHHHHHHHHH
Confidence            4578999999999999999998763

>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=93.31  E-value=0.02  Score=46.52  Aligned_cols=21  Identities=24%  Similarity=0.363  Sum_probs=19.0

Q ss_pred             EEEEcCCCcchHHHHHHHHHH
Q 048064          112 LGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      |+|+|.+|+|||||+..+...
T Consensus         9 ivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           9 LLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhhC
Confidence            789999999999999998863

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=93.28  E-value=0.019  Score=45.76  Aligned_cols=21  Identities=24%  Similarity=0.420  Sum_probs=18.6

Q ss_pred             EEEEEcCCCcchHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      -|+|+|.+|+|||||...+..
T Consensus        18 kI~vvG~~~vGKSsLi~~l~~   38 (176)
T d1fzqa_          18 RILLLGLDNAGKTTLLKQLAS   38 (176)
T ss_dssp             EEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            488999999999999988755

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.26  E-value=0.021  Score=46.04  Aligned_cols=21  Identities=29%  Similarity=0.317  Sum_probs=19.1

Q ss_pred             EEEEcCCCcchHHHHHHHHHH
Q 048064          112 LGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      |.|+|.+|+|||+|...+.+.
T Consensus        12 i~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1          12 CVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             EEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhhC
Confidence            789999999999999998763

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.19  E-value=0.022  Score=45.27  Aligned_cols=20  Identities=30%  Similarity=0.561  Sum_probs=18.2

Q ss_pred             EEEEcCCCcchHHHHHHHHH
Q 048064          112 LGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~  131 (429)
                      |.++|.+|+|||+|+..+..
T Consensus         6 v~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           6 VVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEECCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999998875

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.13  E-value=0.023  Score=45.57  Aligned_cols=21  Identities=24%  Similarity=0.300  Sum_probs=19.1

Q ss_pred             EEEEcCCCcchHHHHHHHHHH
Q 048064          112 LGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      |.+.|.+|+|||+|+..+.+.
T Consensus         5 ivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            689999999999999988874

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.13  E-value=0.025  Score=45.21  Aligned_cols=20  Identities=25%  Similarity=0.431  Sum_probs=18.6

Q ss_pred             EEEEcCCCcchHHHHHHHHH
Q 048064          112 LGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~  131 (429)
                      |+|+|.+|+|||||...+..
T Consensus        10 i~vvG~~~vGKTsli~~l~~   29 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTD   29 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999998876

>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=93.10  E-value=0.021  Score=47.96  Aligned_cols=24  Identities=29%  Similarity=0.440  Sum_probs=22.1

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ...+++|.|+.|.|||||.+.++.
T Consensus        24 ~Gei~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          24 AGEILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             TTCEEECBCCTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhC
Confidence            678999999999999999998876

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.03  E-value=0.026  Score=44.71  Aligned_cols=21  Identities=33%  Similarity=0.684  Sum_probs=18.8

Q ss_pred             EEEEcCCCcchHHHHHHHHHH
Q 048064          112 LGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      |.++|.+|+|||+|+..+.+.
T Consensus         7 i~lvG~~~vGKTsll~~~~~~   27 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQK   27 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999998873

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=92.97  E-value=0.026  Score=45.10  Aligned_cols=23  Identities=22%  Similarity=0.395  Sum_probs=20.5

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ..|+|+|.+|+|||||...++..
T Consensus         6 ~~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           6 GFVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTS
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            46999999999999999998863

>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=92.93  E-value=0.024  Score=44.24  Aligned_cols=21  Identities=19%  Similarity=0.235  Sum_probs=18.9

Q ss_pred             EEEEEcCCCcchHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      -|+|+|.+|+|||||..++..
T Consensus         3 kI~lvG~~nvGKSsLin~l~~   23 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALAG   23 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            378999999999999999885

>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=92.90  E-value=0.026  Score=45.75  Aligned_cols=21  Identities=24%  Similarity=0.265  Sum_probs=18.8

Q ss_pred             EEEEcCCCcchHHHHHHHHHH
Q 048064          112 LGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      |+++|.+|+|||+|...+.+.
T Consensus         6 vvllG~~~vGKTSli~r~~~~   26 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTN   26 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988763

>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=92.88  E-value=0.024  Score=45.67  Aligned_cols=20  Identities=35%  Similarity=0.451  Sum_probs=18.0

Q ss_pred             EEEEcCCCcchHHHHHHHHH
Q 048064          112 LGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~  131 (429)
                      |.+.|.+|+|||+|...+..
T Consensus         5 ivllG~~~vGKTsl~~r~~~   24 (195)
T d1svsa1           5 LLLLGAGESGKSTIVKQMKI   24 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhh
Confidence            78999999999999988765

>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=92.84  E-value=0.025  Score=45.33  Aligned_cols=21  Identities=19%  Similarity=0.248  Sum_probs=19.3

Q ss_pred             EEEEEcCCCcchHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      .|+|+|.+|+|||||...+..
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~   22 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTG   22 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            489999999999999999876

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=92.77  E-value=0.029  Score=44.68  Aligned_cols=22  Identities=23%  Similarity=0.462  Sum_probs=20.0

Q ss_pred             CEEEEEcCCCcchHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ..|+|.|.+|+|||||...+..
T Consensus         6 ~~I~iiG~~nvGKSSLin~L~~   27 (179)
T d1egaa1           6 GFIAIVGRPNVGKSTLLNKLLG   27 (179)
T ss_dssp             EEEEEECSSSSSHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHhC
Confidence            3588999999999999999986

>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=92.76  E-value=0.026  Score=45.85  Aligned_cols=19  Identities=26%  Similarity=0.448  Sum_probs=17.4

Q ss_pred             EEEEEcCCCcchHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVI  129 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~  129 (429)
                      -|.|.|.+|+|||||...+
T Consensus         4 KivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            3789999999999999988

>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=92.70  E-value=0.022  Score=45.61  Aligned_cols=20  Identities=20%  Similarity=0.451  Sum_probs=18.5

Q ss_pred             EEEEcCCCcchHHHHHHHHH
Q 048064          112 LGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~  131 (429)
                      |+|+|.+|+|||||...+..
T Consensus         4 VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCS
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            89999999999999999875

>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=92.63  E-value=0.022  Score=45.83  Aligned_cols=21  Identities=29%  Similarity=0.539  Sum_probs=18.8

Q ss_pred             EEEEEcCCCcchHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      -|+|+|.+|+|||||...+..
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEE
T ss_pred             eEEEECCCCCCHHHHHHHHhC
Confidence            489999999999999998764

>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=92.57  E-value=0.033  Score=44.48  Aligned_cols=22  Identities=23%  Similarity=0.413  Sum_probs=19.6

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      -|++.|.+|+|||||...+.+.
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~~   28 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLTG   28 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3789999999999999988774

>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=92.53  E-value=0.015  Score=46.23  Aligned_cols=21  Identities=38%  Similarity=0.512  Sum_probs=17.3

Q ss_pred             EEEEcCCCcchHHHHHHHHHH
Q 048064          112 LGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      |+|+|.+|+|||+|...+.+.
T Consensus         6 i~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC--
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            788999999999999887653

>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=92.52  E-value=0.026  Score=47.10  Aligned_cols=24  Identities=38%  Similarity=0.462  Sum_probs=21.4

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHH
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      .+++.|.|.-|.|||||.+.+...
T Consensus         3 iPv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           3 IAVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             EEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CCEEEEeeCCCCCHHHHHHHHHhc
Confidence            468899999999999999998875

>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=92.39  E-value=0.033  Score=45.09  Aligned_cols=21  Identities=29%  Similarity=0.335  Sum_probs=18.9

Q ss_pred             EEEEcCCCcchHHHHHHHHHH
Q 048064          112 LGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      |.+.|.+|+|||+|...+...
T Consensus         5 iv~lG~~~vGKTsll~r~~~~   25 (200)
T d2bcjq2           5 LLLLGTGESGKSTFIKQMRII   25 (200)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999998664

>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=92.04  E-value=0.025  Score=45.30  Aligned_cols=21  Identities=38%  Similarity=0.414  Sum_probs=18.3

Q ss_pred             EEEEEcCCCcchHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      -|.++|.+|+|||||...+..
T Consensus        19 KI~lvG~~~vGKTsLi~~l~~   39 (182)
T d1moza_          19 RILILGLDGAGKTTILYRLQI   39 (182)
T ss_dssp             EEEEEEETTSSHHHHHHHTCC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            478999999999999988754

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=92.03  E-value=0.061  Score=43.49  Aligned_cols=37  Identities=19%  Similarity=0.213  Sum_probs=29.5

Q ss_pred             HHHHHHHhhc---CCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064           98 RVEEIQSLLG---AAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus        98 ~~~~l~~~l~---~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      -+..+..+|.   ....+.++|+++.|||.+|..+++-+.
T Consensus        39 Fl~~l~~~l~~~PKkn~i~~~GP~~TGKS~f~~sl~~~l~   78 (205)
T d1tuea_          39 FLGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFIQ   78 (205)
T ss_dssp             HHHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCCCceEEEEECCCCccHHHHHHHHHHHhC
Confidence            3555666665   667899999999999999999888653

>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=91.98  E-value=0.038  Score=44.31  Aligned_cols=22  Identities=32%  Similarity=0.530  Sum_probs=19.5

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      -|+|.|.+|+|||||...+...
T Consensus        10 kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            4899999999999999998863

>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=91.93  E-value=0.024  Score=45.07  Aligned_cols=20  Identities=30%  Similarity=0.353  Sum_probs=8.4

Q ss_pred             EEEEcCCCcchHHHHHHHHH
Q 048064          112 LGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~  131 (429)
                      |.|+|.+|+|||||...+..
T Consensus         9 i~vvG~~~vGKTsLi~~l~~   28 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSE   28 (173)
T ss_dssp             EEEECCCCC-----------
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78899999999999988775

>d2bmfa2 c.37.1.14 (A:178-482) Dengue virus helicase {Dengue virus type 2 [TaxId: 11060]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: Dengue virus helicase
species: Dengue virus type 2 [TaxId: 11060]

Probab=91.91  E-value=0.21  Score=43.13  Aligned_cols=28  Identities=21%  Similarity=0.118  Sum_probs=20.2

Q ss_pred             hhcCCCEEEEEcCCCcchHH-HHHHHHHH
Q 048064          105 LLGAAPLLGIWGIGGIGKTT-IARVIFNR  132 (429)
Q Consensus       105 ~l~~~~~v~I~G~~GiGKTt-La~~~~~~  132 (429)
                      ++.+.+.+.|.++.|+|||+ .+..+.+.
T Consensus         5 ~~~~~~~~lv~~~TGsGKT~~~l~~~~~~   33 (305)
T d2bmfa2           5 IFRKKRLTIMDLHPGAGKTKRYLPAIVRE   33 (305)
T ss_dssp             SSSTTCEEEECCCTTSSTTTTHHHHHHHH
T ss_pred             HhhcCCcEEEEECCCCCHHHHHHHHHHHH
Confidence            44477889999999999995 33344443

>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=91.87  E-value=0.027  Score=44.68  Aligned_cols=21  Identities=29%  Similarity=0.284  Sum_probs=18.7

Q ss_pred             EEEEEcCCCcchHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      -|.|+|.+|+|||||...+.+
T Consensus        14 kIvlvG~~~vGKTSli~rl~~   34 (173)
T d1e0sa_          14 RILMLGLDAAGKTTILYKLKL   34 (173)
T ss_dssp             EEEEEEETTSSHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            478999999999999998865

>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=91.81  E-value=0.064  Score=47.41  Aligned_cols=29  Identities=31%  Similarity=0.328  Sum_probs=24.6

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhhcCcc
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRISRNFK  138 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~~~f~  138 (429)
                      -.|.|-|+-|+||||+++.+.+.+..+..
T Consensus         7 ~rI~iEG~iGsGKSTl~~~L~~~l~~~~~   35 (333)
T d1p6xa_           7 VRIYLDGVYGIGKSTTGRVMASAASGGSP   35 (333)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHSGGGCSSC
T ss_pred             EEEEEECCccCCHHHHHHHHHHHhccCCC
Confidence            35889999999999999999998765543

>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=91.76  E-value=0.88  Score=37.51  Aligned_cols=50  Identities=22%  Similarity=0.090  Sum_probs=36.1

Q ss_pred             chhhHHHHHHHhhc--CCCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEE
Q 048064           94 GVESRVEEIQSLLG--AAPLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFL  143 (429)
Q Consensus        94 GR~~~~~~l~~~l~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  143 (429)
                      ......+++.+.+.  .+....|+|..|+|||-++...+.........++++
T Consensus        59 ~Q~~~~~~i~~~~~~~~~~~~LL~GdvGsGKT~V~~~a~~~~~~~g~qv~~l  110 (233)
T d2eyqa3          59 DQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVDNHKQVAVL  110 (233)
T ss_dssp             HHHHHHHHHHHHHHSSSCCEEEEECCCCTTTHHHHHHHHHHHHTTTCEEEEE
T ss_pred             hHHHHHHHHHHHHhccCccCeEEEcCCCCCcHHHHHHHHHHHHHcCCceEEE
Confidence            35566667776666  556789999999999999998887765544444444

>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=91.59  E-value=0.023  Score=44.41  Aligned_cols=21  Identities=29%  Similarity=0.477  Sum_probs=19.3

Q ss_pred             EEEEcCCCcchHHHHHHHHHH
Q 048064          112 LGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      |++.|.+|+|||||...+...
T Consensus         3 I~liG~~n~GKSSLin~l~g~   23 (160)
T d1xzpa2           3 MVIVGKPNVGKSTLLNRLLNE   23 (160)
T ss_dssp             EEEECCHHHHTCHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999998864

>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=91.52  E-value=0.047  Score=45.35  Aligned_cols=22  Identities=32%  Similarity=0.362  Sum_probs=19.0

Q ss_pred             CEEEEEcCCCcchHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      .-|.+.|.+|+|||||...+..
T Consensus         7 ~KilllG~~~vGKTsll~~~~~   28 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMRI   28 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            3579999999999999998754

>d1ewqa2 c.37.1.12 (A:542-765) DNA repair protein MutS, the C-terminal domain {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Thermus aquaticus [TaxId: 271]

Probab=91.35  E-value=0.31  Score=40.15  Aligned_cols=24  Identities=33%  Similarity=0.196  Sum_probs=21.2

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      +.+++.|.|+...||||+.+.++-
T Consensus        34 ~~~~~iiTGpN~~GKSt~lk~i~l   57 (224)
T d1ewqa2          34 AHELVLITGPNMAGKSTFLRQTAL   57 (224)
T ss_dssp             SSCEEEEESCSSSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCccccchhhhhhHH
Confidence            356899999999999999998776

>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=90.69  E-value=0.081  Score=46.69  Aligned_cols=33  Identities=24%  Similarity=0.244  Sum_probs=25.7

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHhhcCcceeEEE
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRISRNFKGSCFL  143 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~  143 (429)
                      .|.|-|.-|+||||+++.+.+.+..+....+++
T Consensus         7 rI~IEG~iGsGKSTl~~~L~~~l~~~g~~v~~~   39 (331)
T d1osna_           7 RIYLDGAYGIGKTTAAEEFLHHFAITPNRILLI   39 (331)
T ss_dssp             EEEEEESSSSCTTHHHHHHHHTTTTSGGGEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhhcCCceEEE
Confidence            488999999999999999998876543334433

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=90.50  E-value=0.037  Score=44.10  Aligned_cols=23  Identities=17%  Similarity=0.212  Sum_probs=19.7

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHH
Q 048064          109 APLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ...|+|+|.+++|||||...+..
T Consensus        16 ~~~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          16 GIEVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             SEEEEEEECTTSSHHHHHTTTCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            45699999999999999987754

>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=90.20  E-value=0.097  Score=44.46  Aligned_cols=25  Identities=24%  Similarity=0.480  Sum_probs=21.3

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ..-.|+|+|.+|+|||||...++.+
T Consensus        31 ~~l~I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          31 NSLTILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CCcEEEEECCCCCcHHHHHHHHhCC
Confidence            3446889999999999999999864

>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=89.85  E-value=0.094  Score=45.44  Aligned_cols=21  Identities=0%  Similarity=0.009  Sum_probs=16.9

Q ss_pred             CCeEEccHHHHHHHHHHHhhh
Q 048064          376 YNKITMHDLLQELGREIVRQE  396 (429)
Q Consensus       376 ~~~~~mH~lv~~~a~~~~~~~  396 (429)
                      ...|+.|+-|-++|..++...
T Consensus       273 ~~nyRs~~~I~~~an~l~~~n  293 (306)
T d1uaaa1         273 EQNYRSSGRILKAANILIANN  293 (306)
T ss_dssp             CCBSSSCHHHHHHHHHHHHTS
T ss_pred             CCCCCCCHHHHHHHHHHHHcC
Confidence            446999999999998887654

>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=89.64  E-value=0.052  Score=45.18  Aligned_cols=30  Identities=20%  Similarity=0.277  Sum_probs=22.4

Q ss_pred             HHHHhhcCCCEEEEEcCCCcchHHHHHHHHH
Q 048064          101 EIQSLLGAAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       101 ~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      +|..+|. .+...+.|.+|+|||||...+.-
T Consensus        90 ~L~~~l~-~~~~vl~G~SGVGKSSLiN~L~~  119 (231)
T d1t9ha2          90 DIIPHFQ-DKTTVFAGQSGVGKSSLLNAISP  119 (231)
T ss_dssp             TTGGGGT-TSEEEEEESHHHHHHHHHHHHCC
T ss_pred             HHHHhhc-cceEEEECCCCccHHHHHHhhcc
Confidence            3444443 45667899999999999988754

>d1u0ja_ c.37.1.20 (A:) Rep 40 protein helicase domain {Adeno-associated virus 2, AAV2 [TaxId: 10804]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Rep 40 protein helicase domain
species: Adeno-associated virus 2, AAV2 [TaxId: 10804]

Probab=88.89  E-value=0.21  Score=42.49  Aligned_cols=35  Identities=20%  Similarity=0.245  Sum_probs=27.4

Q ss_pred             HHHHHHhhc----CCCEEEEEcCCCcchHHHHHHHHHHh
Q 048064           99 VEEIQSLLG----AAPLLGIWGIGGIGKTTIARVIFNRI  133 (429)
Q Consensus        99 ~~~l~~~l~----~~~~v~I~G~~GiGKTtLa~~~~~~~  133 (429)
                      +..+..+|.    ....+.++|+|+.|||+++..+.+-+
T Consensus        90 ~~~l~~~L~~~~~k~n~~~l~G~~~tGKS~f~~~i~~~l  128 (267)
T d1u0ja_          90 ASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             HHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             HHHHHHHHcCCCCccEEEEEEcCCCCCHHHHHHHHHHHh
Confidence            344555564    46678999999999999999988765

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=88.70  E-value=0.11  Score=44.41  Aligned_cols=24  Identities=29%  Similarity=0.194  Sum_probs=21.6

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHH
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      .|-|+|+|..|.|||||+..+.+.
T Consensus         6 iRni~i~gh~~~GKTtL~e~ll~~   29 (276)
T d2bv3a2           6 LRNIGIAAHIDAGKTTTTERILYY   29 (276)
T ss_dssp             EEEEEEEECTTSCHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHh
Confidence            467999999999999999998774

>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=88.50  E-value=0.12  Score=45.15  Aligned_cols=22  Identities=5%  Similarity=0.128  Sum_probs=17.6

Q ss_pred             CCeEEccHHHHHHHHHHHhhhc
Q 048064          376 YNKITMHDLLQELGREIVRQES  397 (429)
Q Consensus       376 ~~~~~mH~lv~~~a~~~~~~~~  397 (429)
                      ...|++|+-|.++|..++....
T Consensus       283 ~~nyRs~~~I~~~an~ll~~~~  304 (318)
T d1pjra1         283 EQNYRSTKRILQAANEVIEHNV  304 (318)
T ss_dssp             CBCSSSCHHHHHHHHHHHTTCS
T ss_pred             CCCCCCcHHHHHHHHHHHHcCc
Confidence            3448999999999999887654

>d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: YFV helicase domain
species: Yellow fever virus [TaxId: 11089]

Probab=88.39  E-value=0.16  Score=37.82  Aligned_cols=38  Identities=21%  Similarity=0.015  Sum_probs=24.3

Q ss_pred             hcCCCEEEEEcCCCcchHHHHHH-HHHHhhcCcceeEEE
Q 048064          106 LGAAPLLGIWGIGGIGKTTIARV-IFNRISRNFKGSCFL  143 (429)
Q Consensus       106 l~~~~~v~I~G~~GiGKTtLa~~-~~~~~~~~f~~~~~~  143 (429)
                      |...+.+.|++++|.|||..+.. +.......-...+++
T Consensus         4 l~~~~~~il~~~tGsGKT~~~~~~~~~~~~~~~~~vli~   42 (140)
T d1yksa1           4 LKKGMTTVLDFHPGAGKTRRFLPQILAECARRRLRTLVL   42 (140)
T ss_dssp             TSTTCEEEECCCTTSSTTTTHHHHHHHHHHHTTCCEEEE
T ss_pred             HHcCCcEEEEcCCCCChhHHHHHHHHHHhhhcCceeeee
Confidence            44677889999999999977653 344443333334444

>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=87.67  E-value=0.15  Score=43.53  Aligned_cols=23  Identities=26%  Similarity=0.505  Sum_probs=20.5

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      |.|+|.|..|.|||||+..+.+.
T Consensus         3 RNv~iiGh~~~GKTtL~e~ll~~   25 (267)
T d2dy1a2           3 RTVALVGHAGSGKTTLTEALLYK   25 (267)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCcHHHHHHHHHHH
Confidence            67999999999999999998653

>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=87.32  E-value=0.11  Score=45.74  Aligned_cols=24  Identities=33%  Similarity=0.311  Sum_probs=19.3

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHhh
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      .|.|-|.-|+||||+++.+.+...
T Consensus         6 rI~IEG~iGsGKTTl~~~La~~l~   29 (329)
T d1e2ka_           6 RVYIDGPHGMGKTTTTQLLVALGS   29 (329)
T ss_dssp             EEEECSCTTSSHHHHHHHHTC---
T ss_pred             EEEEECCcCCCHHHHHHHHHHHhC
Confidence            488999999999999999887654

>d1mkma1 a.4.5.33 (A:1-75) Transcriptional regulator IclR, N-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Transcriptional regulator IclR, N-terminal domain
domain: Transcriptional regulator IclR, N-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=86.86  E-value=0.58  Score=30.94  Aligned_cols=66  Identities=14%  Similarity=0.019  Sum_probs=50.1

Q ss_pred             HHHHhhhhcccCCcCHHHHHHHHHHcCCChhhhHHHHHHcCceeEccCCeEEccHHHHHHHHHHHh
Q 048064          329 KNIFLDVACFFKGEDIYLVKKFFEASGFYPEIGISILVDKALIAINSYNKITMHDLLQELGREIVR  394 (429)
Q Consensus       329 ~~~l~~la~f~~~~~~~~l~~~~~~~~~~~~~~l~~L~~~sLi~~~~~~~~~mH~lv~~~a~~~~~  394 (429)
                      -.++..++--+.+.+...+....+.+.......+..|.+.|+++.+++++|.+-+-+-+++...++
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            344556666667778877777665544445668999999999999888899998888888877765

>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=86.84  E-value=0.47  Score=38.37  Aligned_cols=45  Identities=22%  Similarity=0.154  Sum_probs=33.5

Q ss_pred             CCcccchhhHHHHHHHhhcCCCEEEEEcCCCcchHHHHHHHHHHhh
Q 048064           89 KNELVGVESRVEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus        89 ~~~~vGR~~~~~~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      +..+-=|+...+.+..++...+ ..|+++.|.|||.+|..++.+..
T Consensus        66 ~~~~~Lr~yQ~eav~~~~~~~~-~ll~~~tG~GKT~~a~~~~~~~~  110 (206)
T d2fz4a1          66 DAEISLRDYQEKALERWLVDKR-GCIVLPTGSGKTHVAMAAINELS  110 (206)
T ss_dssp             CCCCCCCHHHHHHHHHHTTTSE-EEEEESSSTTHHHHHHHHHHHSC
T ss_pred             CCCCCcCHHHHHHHHHHHhCCC-cEEEeCCCCCceehHHhHHHHhc
Confidence            4456667778887777776544 45788999999999888877653

>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=86.73  E-value=0.15  Score=38.22  Aligned_cols=24  Identities=17%  Similarity=0.230  Sum_probs=19.6

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ..++..|+++.|.|||+++..++.
T Consensus         7 ~~~~~ll~apTGsGKT~~~~~~~~   30 (136)
T d1a1va1           7 SFQVAHLHAPTGSGKSTKVPAAYA   30 (136)
T ss_dssp             SCEEEEEECCTTSCTTTHHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHH
Confidence            457889999999999998866554

>d1e9ra_ c.37.1.11 (A:) Bacterial conjugative coupling protein TrwB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Bacterial conjugative coupling protein TrwB
species: Escherichia coli [TaxId: 562]

Probab=86.42  E-value=0.26  Score=45.03  Aligned_cols=37  Identities=16%  Similarity=0.076  Sum_probs=26.3

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHHhhcCcceeEEEeec
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNRISRNFKGSCFLENI  146 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~~~  146 (429)
                      .+.+.|.|.+|+|||+++..+..+....-. .+++.+.
T Consensus        50 ~~H~~I~G~tGsGKT~~l~~li~~~~~~g~-~~iiiD~   86 (433)
T d1e9ra_          50 PRHLLVNGATGTGKSVLLRELAYTGLLRGD-RMVIVDP   86 (433)
T ss_dssp             GGCEEEEECTTSSHHHHHHHHHHHHHHTTC-EEEEEEE
T ss_pred             cceEEEEeCCCCcHHHHHHHHHHHHHhCCC-CEEEEeC
Confidence            467999999999999998877776544433 3344443

>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=86.41  E-value=0.23  Score=41.07  Aligned_cols=24  Identities=29%  Similarity=0.421  Sum_probs=21.1

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHHH
Q 048064          109 APLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      .++|+|.|-++.|||||+..+...
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            467999999999999999988764

>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=86.32  E-value=0.85  Score=36.25  Aligned_cols=36  Identities=22%  Similarity=-0.037  Sum_probs=22.5

Q ss_pred             hhhHHHHHHHhhcCCCEEEEEcCCCcchHHHHHHHHHH
Q 048064           95 VESRVEEIQSLLGAAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus        95 R~~~~~~l~~~l~~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      |+-..+.+..+...  -+.|+++.|.|||.++..++..
T Consensus        11 r~~Q~~~~~~~~~~--n~lv~~pTGsGKT~i~~~~~~~   46 (200)
T d1wp9a1          11 RIYQEVIYAKCKET--NCLIVLPTGLGKTLIAMMIAEY   46 (200)
T ss_dssp             CHHHHHHHHHGGGS--CEEEECCTTSCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHhcC--CeEEEeCCCCcHHHHHHHHHHH
Confidence            34444444444322  2568899999999876665543

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=85.92  E-value=0.71  Score=39.14  Aligned_cols=23  Identities=26%  Similarity=0.326  Sum_probs=20.0

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHH
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      -.++|+|+|.+|||||+..+..+
T Consensus       113 ~~v~vvG~PNvGKSsliN~L~~~  135 (273)
T d1puja_         113 IRALIIGIPNVGKSTLINRLAKK  135 (273)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTS
T ss_pred             eEEEEEecCccchhhhhhhhhcc
Confidence            45899999999999999988753

>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=85.85  E-value=0.18  Score=39.89  Aligned_cols=21  Identities=43%  Similarity=0.624  Sum_probs=19.0

Q ss_pred             EEEEEcCCCcchHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      .|+|.|.++.|||||...+..
T Consensus         7 nIaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            489999999999999998874

>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=84.74  E-value=0.099  Score=42.03  Aligned_cols=25  Identities=20%  Similarity=0.254  Sum_probs=21.0

Q ss_pred             CEEEEEcCCCcchHHHHHHHHHHhh
Q 048064          110 PLLGIWGIGGIGKTTIARVIFNRIS  134 (429)
Q Consensus       110 ~~v~I~G~~GiGKTtLa~~~~~~~~  134 (429)
                      ++.+|+|+.|+||||+..++..-+.
T Consensus        25 ~~tvi~G~NGsGKStil~Ai~~~L~   49 (222)
T d1qhla_          25 LVTTLSGGNGAGKSTTMAAFVTALI   49 (222)
T ss_dssp             HHHHHHSCCSHHHHHHHHHHHHHHS
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhc
Confidence            4567899999999999999887553

>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=84.36  E-value=0.63  Score=35.78  Aligned_cols=33  Identities=24%  Similarity=0.134  Sum_probs=21.7

Q ss_pred             EEEEcCCCcchHHHHHHHHHHhhcCcceeEEEe
Q 048064          112 LGIWGIGGIGKTTIARVIFNRISRNFKGSCFLE  144 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~~~~~~f~~~~~~~  144 (429)
                      |-|+=-.|=||||-|.-.+=|...+--.++++-
T Consensus         5 i~vytG~GKGKTTAAlG~alRA~G~G~rV~ivQ   37 (157)
T d1g5ta_           5 IIVFTGNGKGKTTAAFGTAARAVGHGKNVGVVQ   37 (157)
T ss_dssp             EEEEESSSSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEeCCCCCcHHHHHHHHHHHhcCCCEEEEEE
Confidence            444444678999999988877665544444443

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=84.34  E-value=0.36  Score=43.65  Aligned_cols=24  Identities=17%  Similarity=0.261  Sum_probs=20.5

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      .+--|+|.|.+|+|||||...+..
T Consensus        55 ~~l~Iai~G~~n~GKSSLiNaL~G   78 (400)
T d1tq4a_          55 SVLNVAVTGETGSGKSSFINTLRG   78 (400)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhC
Confidence            344599999999999999999874

>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=83.74  E-value=1.5  Score=35.25  Aligned_cols=27  Identities=19%  Similarity=0.073  Sum_probs=19.5

Q ss_pred             hhcCCCEEEEEcCCCcchHHHHHHHHH
Q 048064          105 LLGAAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       105 ~l~~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      .+.+..-+.+..+.|.|||..+.....
T Consensus        38 ~l~g~~d~iv~a~TGsGKT~~~~l~~~   64 (208)
T d1hv8a1          38 FLNDEYNIVAQARTGSGKTASFAIPLI   64 (208)
T ss_dssp             HHHTCSEEEEECCSSSSHHHHHHHHHH
T ss_pred             HHcCCCCeeeechhcccccceeecccc
Confidence            344555788999999999976655443

>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=83.27  E-value=0.3  Score=42.10  Aligned_cols=24  Identities=29%  Similarity=0.327  Sum_probs=20.2

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      +.++.+|+|+-|+|||++..++..
T Consensus        23 ~~~lnvlvG~NgsGKS~iL~Ai~~   46 (308)
T d1e69a_          23 SDRVTAIVGPNGSGKSNIIDAIKW   46 (308)
T ss_dssp             CSSEEEEECCTTTCSTHHHHHHHH
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHH
Confidence            346889999999999999887754

>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=82.01  E-value=0.52  Score=34.32  Aligned_cols=25  Identities=0%  Similarity=0.041  Sum_probs=22.1

Q ss_pred             EEEEEcCCCcchHHHHHHHHHHhhc
Q 048064          111 LLGIWGIGGIGKTTIARVIFNRISR  135 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~~~~  135 (429)
                      .|.+.|..|.||+|||.++...+.+
T Consensus         8 ~i~~tg~~~~gk~~ia~al~~~l~q   32 (122)
T d1g8fa3           8 SIVLGNSLTVSREQLSIALLSTFLQ   32 (122)
T ss_dssp             EEEECTTCCSCHHHHHHHHHHHHTT
T ss_pred             EEEEeCCCCCCHHHHHHHHHHHHHH
Confidence            6889999999999999999887754

>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=81.96  E-value=0.41  Score=42.11  Aligned_cols=25  Identities=16%  Similarity=0.235  Sum_probs=22.3

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ..|-|+|.|-.|.|||||+-.+...
T Consensus        16 ~IRNI~iiGhvd~GKTTL~d~Ll~~   40 (341)
T d1n0ua2          16 NVRNMSVIAHVDHGKSTLTDSLVQR   40 (341)
T ss_dssp             GEEEEEEECCGGGTHHHHHHHHHHH
T ss_pred             cCcEEEEEeCCCCcHHHHHHHHHHH
Confidence            6678999999999999999998764

>d1jala1 c.37.1.8 (A:1-278) YchF GTP-binding protein N-terminal domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Haemophilus influenzae [TaxId: 727]

Probab=81.78  E-value=0.39  Score=41.02  Aligned_cols=21  Identities=29%  Similarity=0.506  Sum_probs=19.3

Q ss_pred             EEEEEcCCCcchHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      .|+|+|.|.+|||||-..+..
T Consensus         4 ~~GivG~Pn~GKSTlf~~lt~   24 (278)
T d1jala1           4 KCGIVGLPNVGKSTLFNALTK   24 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHC
Confidence            589999999999999998886

>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=80.73  E-value=0.5  Score=38.22  Aligned_cols=21  Identities=29%  Similarity=0.317  Sum_probs=19.1

Q ss_pred             EEEEcCCCcchHHHHHHHHHH
Q 048064          112 LGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       112 v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      |+|.|-.+.|||||+.++.+.
T Consensus         6 i~iiGhvd~GKSTL~~~Ll~~   26 (204)
T d2c78a3           6 VGTIGHVDHGKTTLTAALTYV   26 (204)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEeCCCCcHHHHHHHHHHH
Confidence            899999999999999998764

>d1ni3a1 c.37.1.8 (A:11-306) YchF GTP-binding protein N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=80.56  E-value=0.42  Score=41.20  Aligned_cols=22  Identities=36%  Similarity=0.536  Sum_probs=20.0

Q ss_pred             EEEEEcCCCcchHHHHHHHHHH
Q 048064          111 LLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       111 ~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      -++|+|.|.+|||||-..+...
T Consensus        12 kiGivG~Pn~GKSTlfnalT~~   33 (296)
T d1ni3a1          12 KTGIVGMPNVGKSTFFRAITKS   33 (296)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            4999999999999999999864

>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=80.48  E-value=0.5  Score=42.59  Aligned_cols=23  Identities=26%  Similarity=0.352  Sum_probs=20.3

Q ss_pred             CCEEEEEcCCCcchHHHHHHHHH
Q 048064          109 APLLGIWGIGGIGKTTIARVIFN  131 (429)
Q Consensus       109 ~~~v~I~G~~GiGKTtLa~~~~~  131 (429)
                      ..+.+|+|+.|+|||++..++..
T Consensus        25 ~~l~~i~G~NGsGKS~ileAi~~   47 (427)
T d1w1wa_          25 SNFTSIIGPNGSGKSNMMDAISF   47 (427)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            56789999999999999998865

>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=80.10  E-value=0.43  Score=40.71  Aligned_cols=25  Identities=16%  Similarity=0.279  Sum_probs=22.3

Q ss_pred             CCCEEEEEcCCCcchHHHHHHHHHH
Q 048064          108 AAPLLGIWGIGGIGKTTIARVIFNR  132 (429)
Q Consensus       108 ~~~~v~I~G~~GiGKTtLa~~~~~~  132 (429)
                      ...+|+|+|+.+.|||+|+..++..
T Consensus        31 ~v~vvsi~G~~~sGKS~llN~l~~~   55 (277)
T d1f5na2          31 PMVVVAIVGLYRTGKSYLMNKLAGK   55 (277)
T ss_dssp             BEEEEEEEEBTTSSHHHHHHHHTTC
T ss_pred             CEEEEEEECCCCCCHHHHHHHHcCC
Confidence            5678999999999999999998864