Citrus Sinensis ID: 043070

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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----
Protein Sequence
MVNSKSCMMKSIKGSGIQYKIVTCLDRQCHTDWKRYHNRLTKTEKWIPFCRVKRKQSNVRLDVVKMAEDLQSLVDEGKGLKKAADPLPQPVVEVQDMENTVDVSRLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILVKRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRRLGQRRFALLLDDLREPIDLKTAGASIQNGSKVKYAWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTGSAMTSIRNPAVWENAVNDLINYPAEFPGMGDRIFPRLKFSYDHLPVKPTKLIFYFMNFLIFIRKDDLVDLWTGEGLLRDYHNIAAARVQGKSIIEGLVLVCLLEEVEAYFGNFVKMHDMIRDLALWIASEDQENKILAAKSKDELIEEQE
Secondary Structure (PSIPRED)
cccHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccHHHHHHHHHHHHHHccccccEEEEEccccccHHHHHHHHHHHHccccccccEEEEEEcHHHHHHHHHcccccccccccHHHHHHHHHHHHccccEEEEEEccccccccccccccccccccHHHHHHHHHHHHccccccccccHHHHHHHHHHHccccHHHHHHHHHHHcccccHHHHHHHHHHHHccccccccccccccHHHHHcccccccccHHHHHHHccccccccHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHcccccEEccccccEEEEcccHHHHHHHHHccccccEEEEcccccccccccc
Secondary Structure Prediction (SSPRO)
cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccEEEEccccccccccccHHHHHHHHHHHHHHHHHHHHccccccEEcccccccccccccccccccHHHHHHHHHHHHccccEEEEEEccccccHHHHHHHHHcccccccccccEEEEEEEEHHHHHHHccccccccccccHHHHHHHHHHHHccccEEEEEEccccHccHHHHccccccccHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHccccHHHHHHHHHHHHccHHHccccccccHHHHEEcccccccHHHHHHHHHHHccccccHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHHHHHccccccccEEEEHHHHHHHHHHHHHHccccEEEEEccccccccccc
Coil and Loop (DISEMBL)
mvnskscmmksikgsgiqyKIVTCLDRQCHTDWKRYHnrltktekwipfcrvkrkqsnvrLDVVKMAEDLQSLVDEGkglkkaadplpqpvvevqdmentvdVSRLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNkkfndtrhnFGLVILVKRIQHVMGYRLAMsnevwddktkqgraidsSRRLGQRRFALLLDdlrepidlktagasiqngskvKYAWNLFQLKVTDDVLNSHRDIRKHAETVAglcgglplslittgsamtsirnpaVWENAVNDLinypaefpgmgdrifprlkfsydhlpvkptKLIFYFMNFLIFIRkddlvdlwtgegllrDYHNIAAARVQGKSIIEGLVLVCLLEEVEAYFGNFVKMHDMIRDLALWIASEDQENKILAAKSKDELIEEQE
Flexible Loop (DISEMBL)
mvnskscmMKSIKGSGIQYKIVTCLDRQCHTDWKRyhnrltktekwipfcrvkrkqsnvrldvvKMAEDLQSLVDEGkglkkaadplpqpvvevqdmentvdVSRLNEVWRLVEDNSVRIICLhgvsrlgktTLLYNLNKKFNDTRHNFGLVILVKRIQHVMGYRLAMsnevwddktkqgraidssrrlgQRRFALLLDDLREPIDLktagasiqngskvKYAWNLFQLKVTDDVLNSHRDIRKHAEtvaglcgglPLSLITTGSAMTSIRNPAVWENAVNDLINYPAEFPGMGDRIFPRLKFSYDHLPVKPTKLIFYFMNFLIFIRKDDLVDLWTGEGLLRDYHNIAAARVQGKSIIEGLVLVCLLEEVEAYFGNFVKMHDMIRDLALWIASEDQENKILAAKSKDELIEEQE
Low Complexity Region (SEG)
MVNSKSCMMKSIKGSGIQYKIVTCLDRQCHTDWKRYHNRLTKTEKWIPFCRVKRKQSNVRLDVVKMAEDLQSLVDEGKGLKKAADPLPQPVVEVQDMENTVDVSRLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILVKRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRRLGQRRFALLLDDLREPIDLKTAGASIQNGSKVKYAWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTGSAMTSIRNPAVWENAVNDLINYPAEFPGMGDRIFPRLKFSYDHLPVKPTKLIFYFMNFLIFIRKDDLVDLWTGEGLLRDYHNIAAARVQGKSIIeglvlvclleeveAYFGNFVKMHDMIRDLALWIASEDQENKILAAKSKDELIEEQE
Disordered region (IsUnstruct)
***********IKGSGIQYKIVTCLDRQCHTDWKRYHNRLTKTEKWIPFCRVKRKQSNVRLDVVKMAEDL***********************V*DMENTVDVSRLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILVKRIQHVMGYRLAMSNEVWDDK************LGQRRFALLLDDLREPIDLKTAGASIQNGSKVKYAWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTGSAMTSIRNPAVWENAVNDLINYPAEFPGMGDRIFPRLKFSYDHLPVKPTKLIFYFMNFLIFIRKDDLVDLWTGEGLLRDYHNIAAARVQGKSIIEGLVLVCLLEEVEAYFGNFVKMHDMIRDLALWIAS*********************
Disordered Region (DISOPRED)
******C***SIKGSGIQYKIVTCLDRQCH*************EKWIPFCRVK************MAEDLQ********************************SRLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILVKRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRRLGQRRFALLLDDLREPIDLKTAGAS**NGSKVKYAWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTGSAMTSIRNPAVWENAVNDLIN******G**DRIFPRLKFSYDHLPVKPTKLIFYFMNFLIFIRKDDLVDLWTGEGLLRDYHNIAAARVQGKSIIEGLVLVCLLEEVEAYFGNFVKMHDMIRDLALWIASEDQENKILAA***********
Disordered Region (DISEMBL)
*********KSIKGSGIQYKIVTCLDRQCHTDWKRYHNRLTKTEKWIPFCRVKRKQSNVRLDVVKMAEDLQSLVDEGKGLKKAADPLPQPVVEVQDMENTVDVSRLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILVKRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRRLGQRRFALLLDDLREPIDLKTAGASIQNGSKVKYAWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTGSAMTSIRNPAVWENAVNDLINYPAEFPGMGDRIFPRLKFSYDHLPVKPTKLIFYFMNFLIFIRKDDLVDLWTGEGLLRDYHNIAAARVQGKSIIEGLVLVCLLEEVEAYFGNFVKMHDMIRDLALWIASEDQENKILAAKSK********
Disordered Region (DISPRO)
*VNSKSCMMKSIKGSGIQYKIVTCLDRQCHTDWKRYHNRLTKTEKWIPFCRVKRKQSNVRLDVVKMAEDLQSLVDEGKGLKKAADPLPQ****VQDMENTVDVSRLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILVKRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRRLGQRRFALLLDDLREPIDLKTAGASIQNGSKVKYAWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTGSAMTSIRNPAVWENAVNDLINYPAEFPGMGDRIFPRLKFSYDHLPVKPTKLIFYFMNFLIFIRKDDLVDLWTGEGLLRDYHNIAAARVQGKSIIEGLVLVCLLEEVEAYFGNFVKMHDMIRDLALWIASEDQENKILAAKSKD*******
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MVNSKSCMMKSIKGSGIQYKIVTCLDRQCHTDWKRYHNRLTKTEKWIPFCRVKRKQSNVRLDVVKMAEDLQSLVDEGKGLKKAADPLPQPVVEVQDMENTVDVSRLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILVKRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRRLGQRRFALLLDDLREPIDLKTAGASIQNGSKVKYAWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTGSAMTSIRNPAVWENAVNDLINYPAEFPGMGDRIFPRLKFSYDHLPVKPTKLIFYFMNFLIFIRKDDLVDLWTGEGLLRDYHNIAAARVQGKSIIEGLVLVCLLEEVEAYFGNFVKMHDMIRDLALWIASEDQENKILAAKSKDELIEEQE
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	414	2.2.26 [Sep-21-2011]
P60838	894	Probable disease resistan	yes	no	0.799	0.370	0.366	5e-51
Q8RXS5	888	Probable disease resistan	no	no	0.835	0.389	0.343	2e-43
P60839	884	Probable disease resistan	no	no	0.799	0.374	0.316	8e-43
Q9C8K0	854	Probable disease resistan	no	no	0.816	0.395	0.330	1e-42
Q8L3R3	885	Disease resistance protei	no	no	0.772	0.361	0.329	4e-42
O64973	889	Disease resistance protei	no	no	0.780	0.363	0.335	6e-41
Q9LMP6	851	Probable disease resistan	no	no	0.801	0.390	0.323	3e-40
O82484	892	Putative disease resistan	no	no	0.746	0.346	0.337	5e-40
Q9FG91	848	Probable disease resistan	no	no	0.729	0.356	0.346	8e-40
Q9LVT4	843	Probable disease resistan	no	no	0.818	0.402	0.322	2e-39

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

 Score =  202 bits (513), Expect = 5e-51,   Method: Compositional matrix adjust.
 Identities = 140/382 (36%), Positives = 199/382 (52%), Gaps = 51/382 (13%)

Query: 63  VVKMAEDLQSLVDEGKGLKKAADPLPQPVVEVQDMENTVDV----SRLNEVW-RLVEDNS 117
           VV M ++++SL  +G         L  P+  +++M     +    + L  VW RL ED  
Sbjct: 120 VVLMLKEIESLSSQGDF---DTVTLATPIARIEEMPIQPTIVGQETMLERVWTRLTEDGD 176

Query: 118 VRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV--------KRIQHVMGYRLAMS 169
             I+ L+G+  +GKTTLL  +N KF++    FG+VI V         RIQ  +G RL + 
Sbjct: 177 -EIVGLYGMGGVGKTTLLTRINNKFSEKCSGFGVVIWVVVSKSPDIHRIQGDIGKRLDLG 235

Query: 170 NEVWDDKTKQGRAIDSSRRLGQRRFALLLDDLREPIDLKTAGA---SIQNGSKVKY---- 222
            E WD+  +  RA+D    LG+++F LLLDD+ E ++L+  G    S QNG KV +    
Sbjct: 236 GEEWDNVNENQRALDIYNVLGKQKFVLLLDDIWEKVNLEVLGVPYPSRQNGCKVVFTTRS 295

Query: 223 ----------------------AWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSL 260
                                 AW LFQ+KV ++ L  H DI + A  VAG C GLPL+L
Sbjct: 296 RDVCGRMRVDDPMEVSCLEPNEAWELFQMKVGENTLKGHPDIPELARKVAGKCCGLPLAL 355

Query: 261 ITTGSAMTSIRNPAVWENAVNDLINYPAEFPGMGDRIFPRLKFSYDHLPVKPTKLIFYFM 320
              G  M   R    W NA++ L +Y AEFPGM ++I P LK+SYD+L  +  K  F + 
Sbjct: 356 NVIGETMACKRMVQEWRNAIDVLSSYAAEFPGM-EQILPILKYSYDNLNKEQVKPCFLYC 414

Query: 321 NFL---IFIRKDDLVDLWTGEGLLRDYHNIAAARVQGKSIIEGLVLVCLLEEVEAYFGNF 377
           +       + K+ L+D W  EG + +  +   A  QG  II  LV  CLL E EA     
Sbjct: 415 SLFPEDYRMEKERLIDYWICEGFIDENESRERALSQGYEIIGILVRACLLLE-EAINKEQ 473

Query: 378 VKMHDMIRDLALWIASEDQENK 399
           VKMHD++R++ALWIAS+  E+K
Sbjct: 474 VKMHDVVREMALWIASDLGEHK 495

Probable disease resistance protein.
Arabidopsis thaliana (taxid: 3702)

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

 Score =  177 bits (449), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 136/396 (34%), Positives = 192/396 (48%), Gaps = 50/396 (12%)

Query: 63  VVKMAEDLQSLVDEGKGLKKAADPLPQPVVEVQDMENTVDV-SRLNEVWRLVEDNSVRII 121
           V+KM E+++ L  +G      A+ +    VE +     V +   L   W  + ++ + I+
Sbjct: 119 VMKMIEEVEVLRYQGD-FAVVAERVDAARVEERPTRPMVAMDPMLESAWNRLMEDEIGIL 177

Query: 122 CLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV--------KRIQHVMGYRLAMSNEVW 173
            LHG+  +GKTTLL ++N +F+     F +VI +        +RIQ  +  +L   NE W
Sbjct: 178 GLHGMGGVGKTTLLSHINNRFSRVGGEFDIVIWIVVSKELQIQRIQDEIWEKLRSDNEKW 237

Query: 174 DDKTKQGRAIDSSRRLGQRRFALLLDDLREPIDLKTAGA---SIQNGSKVKY-------- 222
             KT+  +A +    L  +RF LLLDD+   +DL   G    S +NG K+ +        
Sbjct: 238 KQKTEDIKASNIYNVLKHKRFVLLLDDIWSKVDLTEVGVPFPSRENGCKIVFTTRLKEIC 297

Query: 223 ------------------AWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTG 264
                             AW+LF  KV +  L SH +I   A TVA  C GLPL+L   G
Sbjct: 298 GRMGVDSDMEVRCLAPDDAWDLFTKKVGEITLGSHPEIPTVARTVAKKCRGLPLALNVIG 357

Query: 265 SAMTSIRNPAVWENAVNDLINYPAEFPGMGDRIFPRLKFSYDHLPVKPTKLIFYFMNFLI 324
             M   R    W +A++ L +  AEF GM D I P LK+SYD+L  +  KL F +     
Sbjct: 358 ETMAYKRTVQEWRSAIDVLTSSAAEFSGMEDEILPILKYSYDNLKSEQLKLCFQYCALFP 417

Query: 325 ---FIRKDDLVDLWTGEGLLRDYHNIAAARVQGKSIIEGLVLVCLLEEVEAYFGNFVKMH 381
               I K+DLVD W GEG +    N   A  QG  II  LV  CLL E        VKMH
Sbjct: 418 EDHNIEKNDLVDYWIGEGFID--RNKGKAENQGYEIIGILVRSCLLMEENQ---ETVKMH 472

Query: 382 DMIRDLALWIASE---DQENKILAAKSKDELIEEQE 414
           D++R++ALWIAS+    +EN I+ A  +   I E E
Sbjct: 473 DVVREMALWIASDFGKQKENFIVQAGLQSRNIPEIE 508

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|P60839|DRL2_ARATH Probable disease resistance protein At1g12290 OS=Arabidopsis thaliana GN=At1g12290 PE=2 SV=1

 Score =  174 bits (442), Expect = 8e-43,   Method: Compositional matrix adjust.
 Identities = 121/382 (31%), Positives = 193/382 (50%), Gaps = 51/382 (13%)

Query: 63  VVKMAEDLQSLVDEGKGL-KKAADPLPQPVVEVQDMENTV--DVSRLNEVWRLVEDNSVR 119
           ++ + EDL+S     KG+ ++ A P  + V E + ++ T+    + L + W  + D+  +
Sbjct: 122 MLNIVEDLKS-----KGIFEEVAHPATRAVGEERPLQPTIVGQETILEKAWDHLMDDGTK 176

Query: 120 IICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV--------KRIQHVMGYRLAMSNE 171
           I+ L+G+  +GKTTLL  +N +F DT     +VI V         +IQ  +G ++     
Sbjct: 177 IMGLYGMGGVGKTTLLTQINNRFCDTDDGVEIVIWVVVSGDLQIHKIQKEIGEKIGFIGV 236

Query: 172 VWDDKTKQGRAIDSSRRLGQRRFALLLDDLREPIDLKTAG---ASIQNGSKVKY------ 222
            W+ K++  +A+D    L ++RF LLLDD+ + ++L   G    + +NG K+ +      
Sbjct: 237 EWNQKSENQKAVDILNFLSKKRFVLLLDDIWKRVELTEIGIPNPTSENGCKIAFTTRCQS 296

Query: 223 --------------------AWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLIT 262
                               AW+LF+ KV D  L+SH DI + A  VA  C GLPL+L  
Sbjct: 297 VCASMGVHDPMEVRCLGADDAWDLFKKKVGDITLSSHPDIPEIARKVAQACCGLPLALNV 356

Query: 263 TGSAMTSIRNPAVWENAVNDLINYPAEFPGMGDRIFPRLKFSYDHLPVKPTKLIFYFMNF 322
            G  M   +    W+ AV+    Y A F  + +RI P LK+SYD+L  +  K  F + + 
Sbjct: 357 IGETMACKKTTQEWDRAVDVSTTYAANFGAVKERILPILKYSYDNLESESVKTCFLYCSL 416

Query: 323 LI---FIRKDDLVDLWTGEGLLRDYHNIAAARVQGKSIIEGLVLVCLLEEVEAYFGN--F 377
                 I K+ L+D W  EG +    N   A  +G  I+  LV   LL E    F N  +
Sbjct: 417 FPEDDLIEKERLIDYWICEGFIDGDENKKGAVGEGYEILGTLVCASLLVE-GGKFNNKSY 475

Query: 378 VKMHDMIRDLALWIASEDQENK 399
           VKMHD++R++ALWIAS+ +++K
Sbjct: 476 VKMHDVVREMALWIASDLRKHK 497

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C8K0|DRL5_ARATH Probable disease resistance protein At1g51480 OS=Arabidopsis thaliana GN=At1g51480 PE=2 SV=2

 Score =  174 bits (441), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 128/387 (33%), Positives = 196/387 (50%), Gaps = 49/387 (12%)

Query: 63  VVKMAEDLQSLVDEGKGLKKAADPLPQPVVEVQDMENTVDVSRLNEV-WRLVEDNSVRII 121
           V+K  E+++ L+ + K  +  A  +P P VE +++  TV +  + E+ W+ + ++ +R +
Sbjct: 118 VMKNLEEVKELLSK-KHFEVVAHKIPVPKVEEKNIHTTVGLYAMVEMAWKSLMNDEIRTL 176

Query: 122 CLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV--------KRIQHVMGYRLAMSNEVW 173
           CLHG+  +GKTTLL  +N KF +    F +VI V        + IQ  +  RL +  E W
Sbjct: 177 CLHGMGGVGKTTLLACINNKFVELESEFDVVIWVVVSKDFQLEGIQDQILGRLRLDKE-W 235

Query: 174 DDKTKQGRAIDSSRRLGQRRFALLLDDLREPIDLKTAGA---SIQNGSKVKY-------- 222
           + +T+  +A   +  L +++F LLLDDL   +DL   G    + +NG+K+ +        
Sbjct: 236 ERETENKKASLINNNLKRKKFVLLLDDLWSEVDLNKIGVPPPTRENGAKIVFTKRSKEVS 295

Query: 223 ------------------AWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTG 264
                             AW LF++ V D +L+SH DI   A  VA  C GLPL+LI  G
Sbjct: 296 KYMKADMQIKVSCLSPDEAWELFRITVDDVILSSHEDIPALARIVAAKCHGLPLALIVIG 355

Query: 265 SAMTSIRNPAVWENAVNDLINYPA--EFPGMGDRIFPRLKFSYDHLPVKPTKLIFYFMNF 322
            AM        W +A+N ++N PA  +FPGM +RI   LKFSYD L     KL F + + 
Sbjct: 356 EAMACKETIQEWHHAIN-VLNSPAGHKFPGMEERILLVLKFSYDSLKNGEIKLCFLYCSL 414

Query: 323 L---IFIRKDDLVDLWTGEGLLRDYHNIAAARVQGKSIIEGLVLVCLLEEVEAYFGNFVK 379
                 I K+ L++ W  EG +           QG  II  LV   LL  +E      VK
Sbjct: 415 FPEDFEIEKEKLIEYWICEGYINPNRYEDGGTNQGYDIIGLLVRAHLL--IECELTTKVK 472

Query: 380 MHDMIRDLALWIASE-DQENKILAAKS 405
           MH +IR++ALWI S+  ++ + +  KS
Sbjct: 473 MHYVIREMALWINSDFGKQQETICVKS 499

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  172 bits (437), Expect = 4e-42,   Method: Compositional matrix adjust.
 Identities = 122/370 (32%), Positives = 186/370 (50%), Gaps = 50/370 (13%)

Query: 90  PVVEVQDMENTVDV----SRLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKFNDT 145
           P+ EV+++     +    S L++VW  + ++ V I+ L+G+  +GKTTLL  +N KF+  
Sbjct: 144 PIAEVEELPIQSTIVGQDSMLDKVWNCLMEDKVWIVGLYGMGGVGKTTLLTQINNKFSKL 203

Query: 146 RHNFGLVI--------LVKRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRRLGQRRFALL 197
              F +VI         V +IQ  +G +L +  + WD+K K  RA+D    L +++F LL
Sbjct: 204 GGGFDVVIWVVVSKNATVHKIQKSIGEKLGLVGKNWDEKNKNQRALDIHNVLRRKKFVLL 263

Query: 198 LDDLREPIDLKTAGA---SIQNGSKVKY--------------------------AWNLFQ 228
           LDD+ E ++LK  G    S +NG KV +                          AW+L +
Sbjct: 264 LDDIWEKVELKVIGVPYPSGENGCKVAFTTHSKEVCGRMGVDNPMEISCLDTGNAWDLLK 323

Query: 229 LKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTGSAMTSIRNPAVWENAVNDLINYPA 288
            KV ++ L SH DI + A  V+  C GLPL+L   G  M+  R    W +A  +++    
Sbjct: 324 KKVGENTLGSHPDIPQLARKVSEKCCGLPLALNVIGETMSFKRTIQEWRHA-TEVLTSAT 382

Query: 289 EFPGMGDRIFPRLKFSYDHLPVKPTKLIFYFMNFL---IFIRKDDLVDLWTGEGLLRDYH 345
           +F GM D I P LK+SYD L  +  K  F + +       IRK+ L++ W  EG +++  
Sbjct: 383 DFSGMEDEILPILKYSYDSLNGEDAKSCFLYCSLFPEDFEIRKEMLIEYWICEGFIKEKQ 442

Query: 346 NIAAARVQGKSIIEGLVLVCLLEEVEAYFGNFVKMHDMIRDLALWIASEDQENK----IL 401
               A  QG  I+  LV   LL E  A   + V MHDM+R++ALWI S+  ++K    + 
Sbjct: 443 GREKAFNQGYDILGTLVRSSLLLE-GAKDKDVVSMHDMVREMALWIFSDLGKHKERCIVQ 501

Query: 402 AAKSKDELIE 411
           A    DEL E
Sbjct: 502 AGIGLDELPE 511

Disease resistance (R) protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  168 bits (426), Expect = 6e-41,   Method: Compositional matrix adjust.
 Identities = 128/381 (33%), Positives = 187/381 (49%), Gaps = 58/381 (15%)

Query: 63  VVKMAEDLQSLVDEG--KGLKKAA-----DPLP-QPVVEVQDMENTVDVSRLNEVW-RLV 113
           V+ M ++++SL  +G    + +A      D +P QP +  Q++        L + W RL+
Sbjct: 120 VIMMLKEVESLSSQGFFDVVSEATPFADVDEIPFQPTIVGQEI-------MLEKAWNRLM 172

Query: 114 EDNSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVI--------LVKRIQHVMGYR 165
           ED S  I+ L+G+  +GKTTLL  +N KF+     F +VI         V++IQ  +  +
Sbjct: 173 EDGS-GILGLYGMGGVGKTTLLTKINNKFSKIDDRFDVVIWVVVSRSSTVRKIQRDIAEK 231

Query: 166 LAMSNEVWDDKTKQGRAIDSSRRLGQRRFALLLDDLREPIDLKTAGA---SIQNGSKVKY 222
           + +    W +K     A+D    L +R+F LLLDD+ E ++LK  G    S  NG KV +
Sbjct: 232 VGLGGMEWSEKNDNQIAVDIHNVLRRRKFVLLLDDIWEKVNLKAVGVPYPSKDNGCKVAF 291

Query: 223 --------------------------AWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGL 256
                                     +W+LFQ+KV  + L SH DI   A  VA  C GL
Sbjct: 292 TTRSRDVCGRMGVDDPMEVSCLQPEESWDLFQMKVGKNTLGSHPDIPGLARKVARKCRGL 351

Query: 257 PLSLITTGSAMTSIRNPAVWENAVNDLINYPAEFPGMGDRIFPRLKFSYDHLPVKPTKLI 316
           PL+L   G AM   R    W +A++ L +   +F GM D I   LK+SYD+L  +  K  
Sbjct: 352 PLALNVIGEAMACKRTVHEWCHAIDVLTSSAIDFSGMEDEILHVLKYSYDNLNGELMKSC 411

Query: 317 FYFMNFL---IFIRKDDLVDLWTGEGLLRDYHNIAAARVQGKSIIEGLVLVCLLEEVEAY 373
           F + +       I K+ LVD W  EG + +         QG  II  LV  CLL E E  
Sbjct: 412 FLYCSLFPEDYLIDKEGLVDYWISEGFINEKEGRERNINQGYEIIGTLVRACLLLEEERN 471

Query: 374 FGNFVKMHDMIRDLALWIASE 394
             N VKMHD++R++ALWI+S+
Sbjct: 472 KSN-VKMHDVVREMALWISSD 491

Disease resistance (R) protein that specifically recognizes the avrPphB type III effector avirulence protein from Pseudomonas syringae. Also confers resistance against Hyaloperonospora parasitica (downy mildew). Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via an indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth. Requires PBS1 to trigger the defense reaction against avrPphB. Probably triggers the defense mechanism when PBS1 is cleaved by avrPphB, suggesting that it detects indirectly the protease activity of avrPphB, and possibly binds to the cleaved RPS5.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LMP6|DRL3_ARATH Probable disease resistance protein At1g15890 OS=Arabidopsis thaliana GN=At1g15890 PE=3 SV=2

 Score =  166 bits (420), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 122/377 (32%), Positives = 188/377 (49%), Gaps = 45/377 (11%)

Query: 58  NVRLDVVKMAEDLQSLVDEGKGLKKAADPLPQPVVEVQDMENTVDV-SRLNEVWRLVEDN 116
           N  ++V+K  + ++ L+ +G   +  A+ +P P VE + ++ TV + + +   W  +  +
Sbjct: 114 NYGINVLKKLKHVEGLLAKGV-FEVVAEKIPAPKVEKKHIQTTVGLDAMVGRAWNSLMKD 172

Query: 117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV--------KRIQHVMGYRLAM 168
             R + L+G+  +GKTTLL ++N KF +  + F LVI V        + IQ  +  RL +
Sbjct: 173 ERRTLGLYGMGGVGKTTLLASINNKFLEGMNGFDLVIWVVVSKDLQNEGIQEQILGRLGL 232

Query: 169 SNEVWDDKTKQGRAIDSSRRLGQRRFALLLDDLREPIDLKTAGA---SIQNGSKVKY--- 222
            +  W   T++ +A      L  ++F LLLDDL   +DL+  G    + +NGSK+ +   
Sbjct: 233 -HRGWKQVTEKEKASYICNILNVKKFVLLLDDLWSEVDLEKIGVPPLTRENGSKIVFTTR 291

Query: 223 -----------------------AWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLS 259
                                  AW LFQ KV    L SH DI   A  VA  C GLPL+
Sbjct: 292 SKDVCRDMEVDGEMKVDCLPPDEAWELFQKKVGPIPLQSHEDIPTLARKVAEKCCGLPLA 351

Query: 260 LITTGSAMTSIRNPAVWENAVNDLINYPAEFPGMGDRIFPRLKFSYDHLPVKPTKLIFYF 319
           L   G AM S      W++ ++ L +   EFP M ++I P LKFSYD L  +  KL F +
Sbjct: 352 LSVIGKAMASRETVQEWQHVIHVLNSSSHEFPSMEEKILPVLKFSYDDLKDEKVKLCFLY 411

Query: 320 MNFL---IFIRKDDLVDLWTGEGLLRDYHNIAAARVQGKSIIEGLVLVCLLEEVEAYFGN 376
            +       +RK++L++ W  EG +    +   A  +G  II  LV   LL  ++     
Sbjct: 412 CSLFPEDYEVRKEELIEYWMCEGFIDGNEDEDGANNKGHDIIGSLVRAHLL--MDGELTT 469

Query: 377 FVKMHDMIRDLALWIAS 393
            VKMHD+IR++ALWIAS
Sbjct: 470 KVKMHDVIREMALWIAS 486

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O82484|DRL23_ARATH Putative disease resistance protein At4g10780 OS=Arabidopsis thaliana GN=At4g10780 PE=2 SV=1

 Score =  165 bits (418), Expect = 5e-40,   Method: Compositional matrix adjust.
 Identities = 120/356 (33%), Positives = 173/356 (48%), Gaps = 47/356 (13%)

Query: 88  PQPVVEVQDMENTV--DVSRLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKFNDT 145
           P P +E++ ++ T+    +     W  + D+ V  + L+G+  +GKTTLL  ++   +DT
Sbjct: 141 PAPKLEMRPIQPTIMGRETIFQRAWNRLMDDGVGTMGLYGMGGVGKTTLLTQIHNTLHDT 200

Query: 146 RHNFGLVILV--------KRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRRLGQRRFALL 197
           ++   +VI V         +IQ  +G +L    + W+ K +  +A+D    L ++RF LL
Sbjct: 201 KNGVDIVIWVVVSSDLQIHKIQEDIGEKLGFIGKEWNKKQESQKAVDILNCLSKKRFVLL 260

Query: 198 LDDLREPIDLKTAGASIQ---NGSKVKY--------------------------AWNLFQ 228
           LDD+ + +DL   G   Q   N  KV +                          AW LFQ
Sbjct: 261 LDDIWKKVDLTKIGIPSQTRENKCKVVFTTRSLDVCARMGVHDPMEVQCLSTNDAWELFQ 320

Query: 229 LKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTGSAMTSIRNPAVWENAVNDLINYPA 288
            KV    L SH DI + A+ VAG C GLPL+L   G  M   R    W +AV+ L +Y A
Sbjct: 321 EKVGQISLGSHPDILELAKKVAGKCRGLPLALNVIGETMAGKRAVQEWHHAVDVLTSYAA 380

Query: 289 EFPGMGDRIFPRLKFSYDHLPVKPTKLIFYFMNFL---IFIRKDDLVDLWTGEGLLRDYH 345
           EF GM D I   LK+SYD+L  K  +  F +         I+K  L+D W  EG +    
Sbjct: 381 EFSGMDDHILLILKYSYDNLNDKHVRSCFQYCALYPEDYSIKKYRLIDYWICEGFIDG-- 438

Query: 346 NIAAARV--QGKSIIEGLVLVCLLEEVEAYFGNFVKMHDMIRDLALWIASEDQENK 399
           NI   R   QG  I+  LV  CLL E E      VKMHD++R++ALW  S+  +NK
Sbjct: 439 NIGKERAVNQGYEILGTLVRACLLSE-EGKNKLEVKMHDVVREMALWTLSDLGKNK 493

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  164 bits (416), Expect = 8e-40,   Method: Compositional matrix adjust.
 Identities = 120/346 (34%), Positives = 170/346 (49%), Gaps = 44/346 (12%)

Query: 90  PVVEVQDMENTVDVSRLNEV-WRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHN 148
           P  E + ++ TV +  +  + W  + D+ +R + L+G+  +GKTTLL +LN KF +    
Sbjct: 143 PKAEKKHIQTTVGLDTMVGIAWESLIDDEIRTLGLYGMGGIGKTTLLESLNNKFVELESE 202

Query: 149 FGLVILV--------KRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRRLGQRRFALLLDD 200
           F +VI V        + IQ  +  RL    E W+ +T+  +A   +  L +++F LLLDD
Sbjct: 203 FDVVIWVVVSKDFQLEGIQDQILGRLRPDKE-WERETESKKASLINNNLKRKKFVLLLDD 261

Query: 201 LREPIDLKTAGA---SIQNGSKVKY--------------------------AWNLFQLKV 231
           L   +DL   G    S +NGSK+ +                          AW LF+L V
Sbjct: 262 LWSEVDLIKIGVPPPSRENGSKIVFTTRSKEVCKHMKADKQIKVDCLSPDEAWELFRLTV 321

Query: 232 TDDVLNSHRDIRKHAETVAGLCGGLPLSLITTGSAMTSIRNPAVWENAVNDLINYPAEFP 291
            D +L SH+DI   A  VA  C GLPL+L   G AM        W +A+N L +   +FP
Sbjct: 322 GDIILRSHQDIPALARIVAAKCHGLPLALNVIGKAMVCKETVQEWRHAINVLNSPGHKFP 381

Query: 292 GMGDRIFPRLKFSYDHLPVKPTKLIFYFMNFL---IFIRKDDLVDLWTGEGLLRDYHNIA 348
           GM +RI P LKFSYD L     KL F + +       I KD L++ W  EG +       
Sbjct: 382 GMEERILPILKFSYDSLKNGEIKLCFLYCSLFPEDFEIEKDKLIEYWICEGYINPNRYED 441

Query: 349 AARVQGKSIIEGLVLVCLLEEVEAYFGNFVKMHDMIRDLALWIASE 394
               QG  II  LV   LL  +E    + VKMHD+IR++ALWI S+
Sbjct: 442 GGTNQGYDIIGLLVRAHLL--IECELTDKVKMHDVIREMALWINSD 485

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LVT4|DRL37_ARATH Probable disease resistance protein At5g47250 OS=Arabidopsis thaliana GN=At5g47250 PE=2 SV=1

 Score =  164 bits (414), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 128/397 (32%), Positives = 187/397 (47%), Gaps = 58/397 (14%)

Query: 39  RLTKTEKWIPFCRVKRKQSNVRLDVVKMAEDLQSLVDEGKGLKKAADPLPQPVVEVQDME 98
           RL+ +  W   C +  K       V K   +++SL   GK  ++  +  P PVVEV+  +
Sbjct: 105 RLSTSGCWFSTCNLGEK-------VFKKLTEVKSL--SGKDFQEVTEQPPPPVVEVRLCQ 155

Query: 99  NTVDV-SRLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILVK- 156
            TV + + L + W  +  +  R++ + G+  +GKTTLL  +N KF +   ++ +VI V+ 
Sbjct: 156 QTVGLDTTLEKTWESLRKDENRMLGIFGMGGVGKTTLLTLINNKFVEVSDDYDVVIWVES 215

Query: 157 -------RIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRRLG--QRRFALLLDDLREPIDL 207
                  +IQ  +G RL + +  W   ++  +A + SR L   + RF LLLDDL E + L
Sbjct: 216 SKDADVGKIQDAIGERLHICDNNWSTYSRGKKASEISRVLRDMKPRFVLLLDDLWEDVSL 275

Query: 208 KTAGASIQNGSKVKY----------------------------AWNLFQLKVTDDVLNSH 239
              G  +  G K K                             AW+LF +KV  D LN  
Sbjct: 276 TAIGIPVL-GKKYKVVFTTRSKDVCSVMRANEDIEVQCLSENDAWDLFDMKVHCDGLNEI 334

Query: 240 RDIRKHAETVAGLCGGLPLSLITTGSAMTSIRNPAVWENAVNDLINYPAEFPGMGDRIFP 299
            DI   A+ +   C GLPL+L      M S      W  A++ L +Y +E  G    IF 
Sbjct: 335 SDI---AKKIVAKCCGLPLALEVIRKTMASKSTVIQWRRALDTLESYRSEMKGTEKGIFQ 391

Query: 300 RLKFSYDHLPVKPTKLIFYFMNF--LIFIRKDDLVDLWTGEGLLRDYHNIAAARVQGKSI 357
            LK SYD+L  K  K   Y   F    +I++D+LV+ W GEG + +      A+ +G  I
Sbjct: 392 VLKLSYDYLKTKNAKCFLYCALFPKAYYIKQDELVEYWIGEGFIDEKDGRERAKDRGYEI 451

Query: 358 IEGLVLVCLLEEVEAYFGNFVKMHDMIRDLALWIASE 394
           I+ LV   LL E        V MHDMIRD+ALWI SE
Sbjct: 452 IDNLVGAGLLLESNKK----VYMHDMIRDMALWIVSE 484

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	414
225465083	920	PREDICTED: probable disease resistance p	0.792	0.356	0.384	5e-60
147794278	955	hypothetical protein VITISV_031554 [Viti	0.765	0.331	0.389	7e-56
225443158	903	PREDICTED: probable disease resistance p	0.792	0.363	0.372	1e-55
225442519	937	PREDICTED: disease resistance protein RF	0.770	0.340	0.383	2e-55
147858210	892	hypothetical protein VITISV_011750 [Viti	0.782	0.363	0.372	2e-55
359494493	855	PREDICTED: probable disease resistance p	0.782	0.378	0.372	2e-55
24461861	890	NBS-LRR type disease resistance protein	0.801	0.373	0.363	3e-55
359483035	897	PREDICTED: probable disease resistance p	0.809	0.373	0.365	1e-53
225462595	897	PREDICTED: probable disease resistance p	0.809	0.373	0.365	1e-53
451799000	895	disease resistance protein RPS5-like pro	0.782	0.362	0.364	2e-53

>gi|225465083|ref|XP_002266249.1| PREDICTED: probable disease resistance protein At5g63020-like [Vitis vinifera]

 Score =  238 bits (606), Expect = 5e-60,   Method: Compositional matrix adjust.
 Identities = 142/369 (38%), Positives = 198/369 (53%), Gaps = 41/369 (11%)

Query: 72  SLVDEGKGLKKAADPLPQPVVEVQDMENTVDV-SRLNEVWRLVEDNSVRIICLHGVSRLG 130
           +L  +     + A PLP P V  +  E TV + S   EVWR ++D  VR I ++G+  +G
Sbjct: 124 ALRSKANHFHEVAVPLPSPPVIERPSEKTVGLDSPFLEVWRWLQDEQVRTIGIYGMGGVG 183

Query: 131 KTTLLYNLNKKFNDTRHNFGLVILV--------KRIQHVMGYRLAMSNEVWDDKTKQGRA 182
           KT LL  +N KF    H+F +VI V        +R+   +  +L + +  W ++++  +A
Sbjct: 184 KTALLKKINNKFLQPSHDFDVVIWVVVSKPTNLQRVHETLRNKLEIPDGRWKNRSEDEKA 243

Query: 183 IDSSRRLGQRRFALLLDDLREPIDLKTAG---ASIQNGSKVKY----------------- 222
            +    L  ++F LLLDD+ EP+DL   G   +++ N SK+ +                 
Sbjct: 244 AEIFAVLKTKKFVLLLDDIWEPLDLLKVGIPLSTVGNKSKIVFTTRSADVCRDMEAQNSI 303

Query: 223 -----AW----NLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTGSAMTSIRNP 273
                AW     LF  KV +D LNSH DI K +E V G C GLPL+LI  G AM   R P
Sbjct: 304 KVECLAWEEALTLFWAKVGEDALNSHPDIPKLSEIVVGECKGLPLALIIIGRAMAGARTP 363

Query: 274 AVWENAVNDLINYPAEFPGMGDRIFPRLKFSYDHLPVKPTKLIFYFMNFL---IFIRKDD 330
             WE  +  L NYPA+FPGMGD +FP L FSYD LP +  K  F + +       I    
Sbjct: 364 EDWEKKIKMLKNYPAKFPGMGDSLFPVLAFSYDSLPDEAVKSCFLYCSLFPEDYEISPQH 423

Query: 331 LVDLWTGEGLLRDYHNIAAARVQGKSIIEGLVLVCLLEEVEAYFGNFVKMHDMIRDLALW 390
           L++LW GEG L +Y  I  AR QG+ IIE L  VCLLE   +    ++KMHD+IRD+ALW
Sbjct: 424 LIELWLGEGFLDEYDGIREARNQGEEIIERLKDVCLLENGRSQKQEYLKMHDVIRDMALW 483

Query: 391 IASEDQENK 399
           +ASE+ + K
Sbjct: 484 LASENGKKK 492

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147794278|emb|CAN69161.1| hypothetical protein VITISV_031554 [Vitis vinifera]

 Score =  224 bits (570), Expect = 7e-56,   Method: Compositional matrix adjust.
 Identities = 143/367 (38%), Positives = 202/367 (55%), Gaps = 50/367 (13%)

Query: 83  AADPLPQPVVEVQDMENTVDVSRL-NEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKK 141
            AD LPQ  V+ + ME TV +  +  EV R ++D  + II L+G+   GKTTL+  +N +
Sbjct: 134 VADGLPQAPVDERPMEKTVGLDLMFTEVCRCIQDEELGIIGLYGMGGAGKTTLMTKVNNE 193

Query: 142 FNDTRHNFGLVILV--------KRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRRLGQRR 193
           +  T ++F + I V        +++Q V+  +L + +  W ++T+  +AI     L  +R
Sbjct: 194 YFKTCNDFEVAIWVVVSRPASVEKVQEVIRNKLDIPDNRWRNRTEDEKAIAIFNVLKAKR 253

Query: 194 FALLLDDLREPIDLKTAGASI---QNGSKV--------------------------KYAW 224
           F +LLDD+ E +DL+  G      QN SKV                          + A 
Sbjct: 254 FVMLLDDVWERLDLQKVGVPYPNSQNKSKVILTTRSLDVCRDMEAQKSIKVECLTEEEAI 313

Query: 225 NLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTGSAMTSIRNPAVWENAVNDLI 284
           NLF+ KV +  LNSH DI + AE  A  C GLPL+LIT G AM     P  WE A+  L 
Sbjct: 314 NLFKEKVGETTLNSHPDIPQFAEIAAKECKGLPLALITIGRAMVGKSTPQEWERAIQMLK 373

Query: 285 NYPAEFPGMGDRIFPRLKFSYDHLPVKPTKLIFYFMNFLIF-----IRKDDLVDLWTGEG 339
            YP++F G+GD +FP LKFSYD+L     K  F ++   IF     I  DDL++LW GEG
Sbjct: 374 TYPSKFSGLGDHVFPILKFSYDNLKNDTIKSCFLYL--AIFQEDYEIMNDDLINLWIGEG 431

Query: 340 LLRDYHNIAAARVQGKSIIEGLVLVCLLEEVEAYFGNFVKMHDMIRDLALWIASE--DQE 397
              ++ NI  A+ QG++IIE L +VCL E V+    N VKMHD+IRD+ALW+ASE    +
Sbjct: 432 FFDEFDNIQEAQNQGRNIIEHLKVVCLFESVK---DNQVKMHDVIRDMALWLASEYSGNK 488

Query: 398 NKILAAK 404
           NKIL  +
Sbjct: 489 NKILVVE 495

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225443158|ref|XP_002263674.1| PREDICTED: probable disease resistance protein At5g63020-like [Vitis vinifera]

 Score =  223 bits (568), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 139/373 (37%), Positives = 200/373 (53%), Gaps = 45/373 (12%)

Query: 63  VVKMAEDLQSLVDEGKGLKKAADPLPQPVVEVQDMENTVDV-SRLNEVWRLVEDNSVRII 121
           +VK A+D+ +L    +     AD LP P V+ +  E TV   S ++EVW  + +  V+II
Sbjct: 119 LVKKADDVATL-RSTRLFDGLADRLPPPAVDERPSEPTVGFESTIDEVWSCLREEQVQII 177

Query: 122 CLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV--------KRIQHVMGYRLAMSNEVW 173
            L+G+  +GKTTL+  +N +F  T H F +VI V        +++Q  +  ++   ++ W
Sbjct: 178 GLYGMGGVGKTTLMTQVNNEFLKTIHQFDIVIWVVVSRDPNPEKVQDEIWKKVGFCDDKW 237

Query: 174 DDKTKQGRAIDSSRRLGQRRFALLLDDLREPIDLKTAGASI---QNGSKV---------- 220
             K++  +AI   R LG+++F L LDD+ E  DL   G  +   QN SK+          
Sbjct: 238 KSKSQDEKAISIFRILGKKKFVLFLDDVWERFDLLKVGIPLPNQQNNSKLVFTTRSEEVC 297

Query: 221 ----------------KYAWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTG 264
                           K AW+LFQ  V +D LNSH +I + AET+   C GLPL+L+TTG
Sbjct: 298 GRMGAHRRIKVECLAWKQAWDLFQNMVGEDTLNSHPEIPQLAETIVKECLGLPLALVTTG 357

Query: 265 SAMTSIRNPAVWENAVNDLINYPAEFPGMGDRIFPRLKFSYDHLPVKPTKLIFYFMNFLI 324
             M   + P  W+ A+  L +  + FPGM D +F  LKFSYD+LP    +  F + +   
Sbjct: 358 RTMACKKAPQEWKFAIKMLQSSSSSFPGMRDEVFSLLKFSYDNLPSDTARSCFLYCSLYP 417

Query: 325 F---IRKDDLVDLWTGEGLLRDYHNIAAARVQGKSIIEGLVLVCLLEEVEAYFGNFVKMH 381
               I K+DL+D W  EG L ++ +   AR QG  II  L+  CLLEE   Y   FVKMH
Sbjct: 418 EDNDIFKEDLIDCWICEGFLDEFDDRDGARNQGFDIIGSLIRACLLEESREY---FVKMH 474

Query: 382 DMIRDLALWIASE 394
           D+IRD+ALWIA E
Sbjct: 475 DVIRDMALWIACE 487

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225442519|ref|XP_002278659.1| PREDICTED: disease resistance protein RFL1 [Vitis vinifera]

 Score =  223 bits (568), Expect = 2e-55,   Method: Compositional matrix adjust.
 Identities = 140/365 (38%), Positives = 200/365 (54%), Gaps = 46/365 (12%)

Query: 83  AADPLPQPVVEVQDMENTVDVSRL-NEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKK 141
            AD LPQ  V+ + ME TV +  +  EV R ++D  + II L+G+   GKTT++  +N +
Sbjct: 134 VADGLPQAPVDERPMEKTVGLDLMFTEVCRCIQDEELGIIGLYGMGGAGKTTIMTKINNE 193

Query: 142 FNDTRHNFGLVILV--------KRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRRLGQRR 193
           +  T ++F + I V        +++Q V+  +L + +  W ++T+  +AI     L  +R
Sbjct: 194 YFKTCNDFEVAIWVVVSRPASVEKVQEVIRNKLDIPDNRWRNRTEDEKAIAIFNVLKAKR 253

Query: 194 FALLLDDLREPIDLKTAGASI---QNGSKV--------------------------KYAW 224
           F +LLDD+ E +DL+  G      QN SKV                          + A 
Sbjct: 254 FVMLLDDVWERLDLQKVGVPYPNSQNKSKVILTTRSLDVCRDMEAQKSIKVECLTEEEAI 313

Query: 225 NLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTGSAMTSIRNPAVWENAVNDLI 284
           NLF+ KV +  LNSH DI + AE  A  C GLPL+LIT G AM     P  WE A+  L 
Sbjct: 314 NLFKEKVGETTLNSHPDIPQFAEIAAKECKGLPLALITIGRAMVGKSTPQEWERAIQMLK 373

Query: 285 NYPAEFPGMGDRIFPRLKFSYDHLPVKPTKLIFYFMNFL---IFIRKDDLVDLWTGEGLL 341
            YP++F G+GD +FP LKFSYD+L     K  F ++        I  DDL++LW GEG  
Sbjct: 374 TYPSKFSGLGDHVFPILKFSYDNLKNDTIKSCFLYLAIFQEDYEIMNDDLINLWIGEGFF 433

Query: 342 RDYHNIAAARVQGKSIIEGLVLVCLLEEVEAYFGNFVKMHDMIRDLALWIASE--DQENK 399
            ++ NI  A+ QG++IIE L +VCL E V+    N VKMHD+IRD+ALW+ASE    +NK
Sbjct: 434 DEFDNIHEAQNQGRNIIEHLKVVCLFESVK---DNQVKMHDVIRDMALWLASEYSGNKNK 490

Query: 400 ILAAK 404
           IL  +
Sbjct: 491 ILVVE 495

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147858210|emb|CAN79676.1| hypothetical protein VITISV_011750 [Vitis vinifera] gi|451799002|gb|AGF69199.1| disease resistance protein RPS5-like protein 3 [Vitis labrusca]

 Score =  223 bits (567), Expect = 2e-55,   Method: Compositional matrix adjust.
 Identities = 138/370 (37%), Positives = 195/370 (52%), Gaps = 46/370 (12%)

Query: 76  EGKGLKKAADPLPQPVVEVQDMENTVDVSRL-NEVWRLVEDNSVRI--ICLHGVSRLGKT 132
           EG      A+PLP P V  + +E TV    L  +VW+ ++D   ++  I L+G+  +GKT
Sbjct: 128 EGSNFSVVAEPLPSPPVMERQLEKTVGQDLLFGKVWKWLQDGGEQVSSIGLYGMGGVGKT 187

Query: 133 TLLYNLNKKFNDTRHNFGLVILV--------KRIQHVMGYRLAMSNEVWDDKTKQGRAID 184
           TLL  +N +   TR  F  VI V        +++Q V+  ++ +  + W+ +++  RA +
Sbjct: 188 TLLTRINNELLKTRLEFDAVIWVTVSRPANVEKVQRVLFNKVEIPQDKWEGRSEDERAEE 247

Query: 185 SSRRLGQRRFALLLDDLREPIDLKTAGASIQNGS-KVKY--------------------- 222
               L  ++F LLLDD+ E +DL   G    N   K+K                      
Sbjct: 248 IFNVLKTKKFVLLLDDIWERLDLSKVGIPPLNPQDKLKMVLTTRSKDVCQDMEVTESIEM 307

Query: 223 -------AWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTGSAMTSIRNPAV 275
                  A+ LFQ KV  D +NSH DI K AE VA  C GLPL+LIT G AM   + P  
Sbjct: 308 NCLPWEDAFALFQTKVGADTINSHPDIPKLAEMVAKECCGLPLALITIGRAMAGTKTPEE 367

Query: 276 WENAVNDLINYPAEFPGMGDRIFPRLKFSYDHLPVKPTKLIFYFMNFL---IFIRKDDLV 332
           WE  +  L NYPA+FPGM +R+F RL FSYD LP +  KL F + +       I   +L+
Sbjct: 368 WEKKIKMLKNYPAKFPGMENRLFSRLAFSYDSLPDETIKLCFLYCSLFPEDYEISHRNLI 427

Query: 333 DLWTGEGLLRDYHNIAAARVQGKSIIEGLVLVCLLEEVEAYFGN---FVKMHDMIRDLAL 389
            LW GEG L +Y NI  AR QG+ +I+ L L CLLE   +       ++KMHD+IRD+AL
Sbjct: 428 QLWIGEGFLDEYDNIQQARNQGEEVIKSLQLACLLENGRSPLDEKDKYLKMHDVIRDMAL 487

Query: 390 WIASEDQENK 399
           W+A E+ + K
Sbjct: 488 WLARENGKKK 497

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359494493|ref|XP_002265648.2| PREDICTED: probable disease resistance protein At5g63020 [Vitis vinifera]

 Score =  222 bits (566), Expect = 2e-55,   Method: Compositional matrix adjust.
 Identities = 138/370 (37%), Positives = 195/370 (52%), Gaps = 46/370 (12%)

Query: 76  EGKGLKKAADPLPQPVVEVQDMENTVDVSRL-NEVWRLVEDNSVRI--ICLHGVSRLGKT 132
           EG      A+PLP P V  + +E TV    L  +VW+ ++D   ++  I L+G+  +GKT
Sbjct: 128 EGSNFSVVAEPLPSPPVMERQLEKTVGQDLLFGKVWKWLQDGGEQVSSIGLYGMGGVGKT 187

Query: 133 TLLYNLNKKFNDTRHNFGLVILV--------KRIQHVMGYRLAMSNEVWDDKTKQGRAID 184
           TLL  +N +   TR  F  VI V        +++Q V+  ++ +  + W+ +++  RA +
Sbjct: 188 TLLTRINNELLKTRLEFDAVIWVTVSRPANVEKVQRVLFNKVEIPQDKWEGRSEDERAEE 247

Query: 185 SSRRLGQRRFALLLDDLREPIDLKTAGASIQNGS-KVKY--------------------- 222
               L  ++F LLLDD+ E +DL   G    N   K+K                      
Sbjct: 248 IFNVLKTKKFVLLLDDIWERLDLSKVGIPPLNPQDKLKMVLTTRSKDVCQDMEVTESIEM 307

Query: 223 -------AWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTGSAMTSIRNPAV 275
                  A+ LFQ KV  D +NSH DI K AE VA  C GLPL+LIT G AM   + P  
Sbjct: 308 NCLPWEDAFALFQTKVGADTINSHPDIPKLAEMVAKECCGLPLALITIGRAMAGTKTPEE 367

Query: 276 WENAVNDLINYPAEFPGMGDRIFPRLKFSYDHLPVKPTKLIFYFMNFL---IFIRKDDLV 332
           WE  +  L NYPA+FPGM +R+F RL FSYD LP +  KL F + +       I   +L+
Sbjct: 368 WEKKIKMLKNYPAKFPGMENRLFSRLAFSYDSLPDETIKLCFLYCSLFPEDYEISHRNLI 427

Query: 333 DLWTGEGLLRDYHNIAAARVQGKSIIEGLVLVCLLEEVEAYFGN---FVKMHDMIRDLAL 389
            LW GEG L +Y NI  AR QG+ +I+ L L CLLE   +       ++KMHD+IRD+AL
Sbjct: 428 QLWIGEGFLDEYDNIQQARNQGEEVIKSLQLACLLENGRSPLDEKDKYLKMHDVIRDMAL 487

Query: 390 WIASEDQENK 399
           W+A E+ + K
Sbjct: 488 WLARENGKKK 497

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|24461861|gb|AAN62348.1|AF506028_15 NBS-LRR type disease resistance protein [Citrus trifoliata]

 Score =  222 bits (565), Expect = 3e-55,   Method: Compositional matrix adjust.
 Identities = 138/380 (36%), Positives = 206/380 (54%), Gaps = 48/380 (12%)

Query: 63  VVKMAEDLQSLVDEGKGLKKAADPLPQPVVEVQDMENTVD--VSRLNEVWRLVEDNSVRI 120
           V +   D+++L+ EG   +  AD +P+P V+ +  E TV    S+L EVWR + +  V I
Sbjct: 120 VARKLRDIKTLMGEGV-FEVVADKVPEPAVDERPTEPTVVGLQSQLEEVWRCLVEEPVGI 178

Query: 121 ICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV--------KRIQHVMGYRLAMSNEV 172
           + L+G+  +GKTTLL ++N KF  +  NF LVILV        + IQ V+G ++ + N+ 
Sbjct: 179 VGLYGMGGVGKTTLLTHINNKFLGSPTNFDLVILVVVSKDLRLESIQEVIGEKIGLLNDA 238

Query: 173 WDDKTKQGRAIDSSRRLGQRRFALLLDDLREPIDLKTAGASIQN----GSKVKY------ 222
           W  +  + +A+D  R L  + F +LLDD+ + +DL   G  + N     SKV +      
Sbjct: 239 WKSRRIEQKALDIFRILRGKNFVVLLDDIWQRVDLAKVGIPLPNSQTSASKVVFTTRSEE 298

Query: 223 --------------------AWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLIT 262
                               AW LF+ KV ++ LN H DI + A+TV   CGGLPL+LIT
Sbjct: 299 VCGLMEAHKKFKVECLSGNDAWELFRQKVGEETLNCHHDILELAQTVTKECGGLPLALIT 358

Query: 263 TGSAMTSIRNPAVWENAVNDLINYPAEFPGMGDRIFPRLKFSYDHLPVKPTKLIFYFMNF 322
            G AM   + P  W  A+  L    ++FPG+G+ ++P LKFSYD+LP    +    +   
Sbjct: 359 IGRAMACKKTPEEWSYAIQVLRTSSSQFPGLGNEVYPLLKFSYDNLPNDTIRSCLLYCCL 418

Query: 323 L---IFIRKDDLVDLWTGEGLLRDYHNIAAARVQGKSIIEGLVLVCLLEEVEAYFGNFVK 379
                 I K++LVD W GEGLL     + +   QG  ++  LV  CLLEEV+    + VK
Sbjct: 419 YPEDCCISKENLVDCWIGEGLLNGSVTLGSHE-QGYHVVGILVHSCLLEEVDE---DEVK 474

Query: 380 MHDMIRDLALWIASEDQENK 399
           MHD+IRD+ALW+A + ++ K
Sbjct: 475 MHDVIRDMALWLACDAEKEK 494

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359483035|ref|XP_003632886.1| PREDICTED: probable disease resistance protein At5g63020-like [Vitis vinifera]

 Score =  217 bits (552), Expect = 1e-53,   Method: Compositional matrix adjust.
 Identities = 138/378 (36%), Positives = 201/378 (53%), Gaps = 43/378 (11%)

Query: 63  VVKMAEDLQSLVDEGKGLKKAADPLPQPVVEVQDMENTVDV-SRLNEVWRLVEDNSVRII 121
           V +  +D  +L+ EG+  +  AD +P   VE      TV + S  ++VWR +E+  V +I
Sbjct: 119 VARKLQDTATLMSEGRNFEVVADIVPPAPVEEIPGRPTVGLESTFDKVWRSLEEEHVGMI 178

Query: 122 CLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV--------KRIQHVMGYRLAMSNEVW 173
            L+G+  +GKTTLL  +N  F  T HNF +VI V        +R+Q+ +  ++   ++ W
Sbjct: 179 GLYGLGGVGKTTLLAQINNHFLRTSHNFDVVIWVVVSKTPNLERVQNEIWEKVGFCDDKW 238

Query: 174 DDKTKQGRAIDSSRRLGQRRFALLLDDLREPIDLKTAG---ASIQNGSKV---------- 220
             K++  +A D  R L ++RF +LLDD+ E +DL   G      QN S++          
Sbjct: 239 KSKSRHEKANDIWRALSKKRFVMLLDDMWEQMDLLEVGIPPPDQQNKSRLIFTTRSQDLC 298

Query: 221 ----------------KYAWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTG 264
                           K +W+LFQ  V  D LNS  +I + AE VA  C GLPL++IT G
Sbjct: 299 GQMGAHKKIQVKSLAWKDSWDLFQKYVGKDALNSDPEIPELAEMVAKECCGLPLAIITIG 358

Query: 265 SAMTSIRNPAVWENAVNDLINYPAEFPGMGDRIFPRLKFSYDHLPVKPTKLIFYFMNFL- 323
            AM S      W++A+  L    + FPGMG R++P LK+SYD LP K  +  F + +   
Sbjct: 359 RAMASKVASQDWKHAIRVLQTCASNFPGMGQRVYPLLKYSYDSLPSKIVQSCFLYCSLFP 418

Query: 324 --IFIRKDDLVDLWTGEGLLRDYHNIAAARVQGKSIIEGLVLVCLLEEVEAYFGNFVKMH 381
              FI K+ L++ W  EG L ++ +   AR QG +II  LV  CLLE  E+    FVK H
Sbjct: 419 EDFFIFKELLINQWICEGFLDEFDDPDGARNQGFNIISTLVHACLLE--ESSNSRFVKFH 476

Query: 382 DMIRDLALWIASEDQENK 399
           D++RD+ALWI SE  E K
Sbjct: 477 DVVRDMALWITSEMGEMK 494

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225462595|ref|XP_002270572.1| PREDICTED: probable disease resistance protein At5g63020-like [Vitis vinifera]

 Score =  217 bits (552), Expect = 1e-53,   Method: Compositional matrix adjust.
 Identities = 138/378 (36%), Positives = 202/378 (53%), Gaps = 43/378 (11%)

Query: 63  VVKMAEDLQSLVDEGKGLKKAADPLPQPVVEVQDMENTVDV-SRLNEVWRLVEDNSVRII 121
           V +  +D  +L+ EG+  +  AD +P   VE      TV + S  ++VWR +E+  V +I
Sbjct: 119 VARKLQDTATLMSEGRNFEVVADIVPPAPVEEIPGRPTVGLESTFDKVWRSLEEEHVGMI 178

Query: 122 CLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV--------KRIQHVMGYRLAMSNEVW 173
            L+G+  +GKTTLL  +N  F  T HNF +VI V        +R+Q+ +  ++   ++ W
Sbjct: 179 GLYGLGGVGKTTLLAQINNHFLRTSHNFDVVIWVVVSKTPNLERVQNEIWEKVGFCDDKW 238

Query: 174 DDKTKQGRAIDSSRRLGQRRFALLLDDLREPIDLKTAG---ASIQNGSKV---------- 220
             K++  +A +  R L ++RFA+LLDD+ E +DL   G      QN SK+          
Sbjct: 239 KSKSRHEKANNIWRALSKKRFAMLLDDMWEQMDLLEVGNPPPDQQNKSKLIFTTRSQDLC 298

Query: 221 ----------------KYAWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTG 264
                           K +W+LF+  V  D LNS  +I + AE VA  C GLPL++IT G
Sbjct: 299 GQMGAHKKIQVKSLAWKDSWDLFKKYVGKDALNSDPEISELAEMVAKECCGLPLAIITVG 358

Query: 265 SAMTSIRNPAVWENAVNDLINYPAEFPGMGDRIFPRLKFSYDHLPVKPTKLIFYFMNFL- 323
            AM S   P  W++A+  L    + FPGMG R++P LK+SYD LP K  +  F + +   
Sbjct: 359 RAMASKVTPQDWKHAIRVLQTCASNFPGMGLRVYPLLKYSYDSLPSKIVQSCFLYCSLFP 418

Query: 324 --IFIRKDDLVDLWTGEGLLRDYHNIAAARVQGKSIIEGLVLVCLLEEVEAYFGNFVKMH 381
              FI K+ L+  W  EG L ++ +   A+ QG +II  LV  CLLE  E+    FVK H
Sbjct: 419 EDFFIIKELLIYQWICEGFLDEFDDTDGAKNQGFNIISTLVHACLLE--ESSNTRFVKFH 476

Query: 382 DMIRDLALWIASEDQENK 399
           D++RD+ALWI SE  E K
Sbjct: 477 DVVRDMALWITSEMGEMK 494

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|451799000|gb|AGF69198.1| disease resistance protein RPS5-like protein 2 [Vitis labrusca]

 Score =  216 bits (550), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 135/370 (36%), Positives = 192/370 (51%), Gaps = 46/370 (12%)

Query: 76  EGKGLKKAADPLPQPVVEVQDMENTVDVSRL-NEVWRLVEDNSVRI--ICLHGVSRLGKT 132
           EG      A+PLP P V  + ++ TV    L  +VW+ ++D   ++  I L+G+  +GKT
Sbjct: 128 EGSNFSVVAEPLPSPPVMERQLDKTVGQDLLFGKVWKWLQDGGEQVSSIGLYGMGGVGKT 187

Query: 133 TLLYNLNKKFNDTRHNFGLVILV--------KRIQHVMGYRLAMSNEVWDDKTKQGRAID 184
           TLL  +N +   TR  F  VI V        +++Q V+  ++ +  + W+ +++  RA +
Sbjct: 188 TLLTRINNELLKTRLEFDAVIWVTVSRPANVEKVQRVLFNKVEIPQDKWEGRSEDERAEE 247

Query: 185 SSRRLGQRRFALLLDDLREPIDLKTAGASIQNGS-KVKY--------------------- 222
               L  ++F LLLDD+ E +DL   G    N   K+K                      
Sbjct: 248 IFNVLKTKKFVLLLDDIWERLDLSKVGIPPLNPQDKLKMVLTTRSKDVCQDMEVTESIEV 307

Query: 223 -------AWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTGSAMTSIRNPAV 275
                  A+ LFQ KV  D +NSH DI K AE VA  C GLPL+LIT G AM   + P  
Sbjct: 308 NCLPWEDAFALFQTKVGADTINSHPDIPKLAEMVAKECCGLPLALITIGRAMAGTKTPEE 367

Query: 276 WENAVNDLINYPAEFPGMGDRIFPRLKFSYDHLPVKPTKLIFYFMNFL---IFIRKDDLV 332
           WE  +  L NYPA+FPGM + +F RL FSYD LP +  K  F + +       I   +L+
Sbjct: 368 WEKKIQMLKNYPAKFPGMENHLFSRLAFSYDRLPDEAIKSCFLYCSLFPEDYEISHRNLI 427

Query: 333 DLWTGEGLLRDYHNIAAARVQGKSIIEGLVLVCLLEEVEAYF---GNFVKMHDMIRDLAL 389
            LW GEG L +Y NI  AR QG+ +I+ L L CLLE   +       + KMHD+IRD+AL
Sbjct: 428 QLWIGEGFLDEYDNIQEARYQGEEVIKSLQLACLLENGRSRLDKKDEYSKMHDVIRDMAL 487

Query: 390 WIASEDQENK 399
           W+A E+ + K
Sbjct: 488 WLARENGKKK 497

Source: Vitis labrusca

Species: Vitis labrusca

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	414
TAIR|locus:2034770	894	SUMM2 "AT1G12280" [Arabidopsis	0.422	0.195	0.394	6.1e-46
TAIR|locus:2166320	888	AT5G63020 [Arabidopsis thalian	0.451	0.210	0.398	2e-39
TAIR|locus:2034765	884	AT1G12290 [Arabidopsis thalian	0.427	0.200	0.353	3.2e-36
TAIR|locus:2170892	848	AT5G43730 [Arabidopsis thalian	0.434	0.212	0.377	4.6e-36
TAIR|locus:2201986	885	RFL1 "AT1G12210" [Arabidopsis	0.451	0.211	0.336	7.8e-36
TAIR|locus:2036214	851	AT1G15890 [Arabidopsis thalian	0.434	0.211	0.365	1.2e-35
TAIR|locus:2171579	843	AT5G47250 [Arabidopsis thalian	0.425	0.208	0.362	3.6e-34
TAIR|locus:2171589	948	AT5G47260 [Arabidopsis thalian	0.408	0.178	0.394	1.4e-33
TAIR|locus:2201996	889	RPS5 "AT1G12220" [Arabidopsis	0.413	0.192	0.365	1.8e-33
TAIR|locus:2170902	862	AT5G43740 [Arabidopsis thalian	0.437	0.209	0.363	6e-33

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

 Score = 296 (109.3 bits), Expect = 6.1e-46, Sum P(2) = 6.1e-46
 Identities = 71/180 (39%), Positives = 98/180 (54%)

Query:   223 AWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTGSAMTSIRNPAVWENAVND 282
             AW LFQ+KV ++ L  H DI + A  VAG C GLPL+L   G  M   R    W NA++ 
Sbjct:   318 AWELFQMKVGENTLKGHPDIPELARKVAGKCCGLPLALNVIGETMACKRMVQEWRNAIDV 377

Query:   283 LINYPAEFPGMGDRIFPRLKFSYDHLPVKPTKLIFYFMNFL---IFIRKDDLVDLWTGEG 339
             L +Y AEFPGM ++I P LK+SYD+L  +  K  F + +       + K+ L+D W  EG
Sbjct:   378 LSSYAAEFPGM-EQILPILKYSYDNLNKEQVKPCFLYCSLFPEDYRMEKERLIDYWICEG 436

Query:   340 LLRDYHNIAAARVQGKSIIXXXXXXXXXXXXXAYFGNFVKMHDMIRDLALWIASEDQENK 399
              + +  +   A  QG  II             A     VKMHD++R++ALWIAS+  E+K
Sbjct:   437 FIDENESRERALSQGYEIIGILVRACLLLEE-AINKEQVKMHDVVREMALWIASDLGEHK 495

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 289 (106.8 bits), Expect = 2.0e-39, Sum P(2) = 2.0e-39
 Identities = 79/198 (39%), Positives = 101/198 (51%)

Query:   223 AWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTGSAMTSIRNPAVWENAVND 282
             AW+LF  KV +  L SH +I   A TVA  C GLPL+L   G  M   R    W +A++ 
Sbjct:   316 AWDLFTKKVGEITLGSHPEIPTVARTVAKKCRGLPLALNVIGETMAYKRTVQEWRSAIDV 375

Query:   283 LINYPAEFPGMGDRIFPRLKFSYDHLPVKPTKLIFYFMNFLIF---IRKDDLVDLWTGEG 339
             L +  AEF GM D I P LK+SYD+L  +  KL F +         I K+DLVD W GEG
Sbjct:   376 LTSSAAEFSGMEDEILPILKYSYDNLKSEQLKLCFQYCALFPEDHNIEKNDLVDYWIGEG 435

Query:   340 LLRDYHNIAAARVQGKSIIXXXXXXXXXXXXXAYFGNFVKMHDMIRDLALWIASE---DQ 396
              + D  N   A  QG  II                   VKMHD++R++ALWIAS+    +
Sbjct:   436 FI-D-RNKGKAENQGYEIIGILVRSCLLMEENQ---ETVKMHDVVREMALWIASDFGKQK 490

Query:   397 ENKILAAKSKDELIEEQE 414
             EN I+ A  +   I E E
Sbjct:   491 ENFIVQAGLQSRNIPEIE 508

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2034765 AT1G12290 [Arabidopsis thaliana (taxid:3702)]

 Score = 275 (101.9 bits), Expect = 3.2e-36, Sum P(2) = 3.2e-36
 Identities = 64/181 (35%), Positives = 95/181 (52%)

Query:   223 AWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTGSAMTSIRNPAVWENAVND 282
             AW+LF+ KV D  L+SH DI + A  VA  C GLPL+L   G  M   +    W+ AV+ 
Sbjct:   317 AWDLFKKKVGDITLSSHPDIPEIARKVAQACCGLPLALNVIGETMACKKTTQEWDRAVDV 376

Query:   283 LINYPAEFPGMGDRIFPRLKFSYDHLPVKPTKLIFYFMNFLI---FIRKDDLVDLWTGEG 339
                Y A F  + +RI P LK+SYD+L  +  K  F + +       I K+ L+D W  EG
Sbjct:   377 STTYAANFGAVKERILPILKYSYDNLESESVKTCFLYCSLFPEDDLIEKERLIDYWICEG 436

Query:   340 LLRDYHNIAAARVQGKSIIXXXXXXXXXXXXXAYFG-NFVKMHDMIRDLALWIASEDQEN 398
              +    N   A  +G  I+              +   ++VKMHD++R++ALWIAS+ +++
Sbjct:   437 FIDGDENKKGAVGEGYEILGTLVCASLLVEGGKFNNKSYVKMHDVVREMALWIASDLRKH 496

Query:   399 K 399
             K
Sbjct:   497 K 497

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

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

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

 Score = 277 (102.6 bits), Expect = 4.6e-36, Sum P(2) = 4.6e-36
 Identities = 71/188 (37%), Positives = 94/188 (50%)

Query:   223 AWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTGSAMTSIRNPAVWENAVND 282
             AW LF+L V D +L SH+DI   A  VA  C GLPL+L   G AM        W +A+N 
Sbjct:   313 AWELFRLTVGDIILRSHQDIPALARIVAAKCHGLPLALNVIGKAMVCKETVQEWRHAIN- 371

Query:   283 LINYPA-EFPGMGDRIFPRLKFSYDHLPVKPTKLIFYFMNFL---IFIRKDDLVDLWTGE 338
             ++N P  +FPGM +RI P LKFSYD L     KL F + +       I KD L++ W  E
Sbjct:   372 VLNSPGHKFPGMEERILPILKFSYDSLKNGEIKLCFLYCSLFPEDFEIEKDKLIEYWICE 431

Query:   339 GLLRDYHNIAAARVQGKSIIXXXXXXXXXXXXXAYFGNFVKMHDMIRDLALWIASE-DQE 397
             G +           QG  II                 + VKMHD+IR++ALWI S+   +
Sbjct:   432 GYINPNRYEDGGTNQGYDIIGLLVRAHLLIE--CELTDKVKMHDVIREMALWINSDFGNQ 489

Query:   398 NKILAAKS 405
              + +  KS
Sbjct:   490 QETICVKS 497

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 247 (92.0 bits), Expect = 7.8e-36, Sum P(2) = 7.8e-36
 Identities = 66/196 (33%), Positives = 98/196 (50%)

Query:   223 AWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTGSAMTSIRNPAVWENAVND 282
             AW+L + KV ++ L SH DI + A  V+  C GLPL+L   G  M+  R    W +A  +
Sbjct:   318 AWDLLKKKVGENTLGSHPDIPQLARKVSEKCCGLPLALNVIGETMSFKRTIQEWRHAT-E 376

Query:   283 LINYPAEFPGMGDRIFPRLKFSYDHLPVKPTKLIFYFMNFL---IFIRKDDLVDLWTGEG 339
             ++    +F GM D I P LK+SYD L  +  K  F + +       IRK+ L++ W  EG
Sbjct:   377 VLTSATDFSGMEDEILPILKYSYDSLNGEDAKSCFLYCSLFPEDFEIRKEMLIEYWICEG 436

Query:   340 LLRDYHNIAAARVQGKSIIXXXXXXXXXXXXXAYFGNFVKMHDMIRDLALWIASEDQENK 399
              +++      A  QG  I+             A   + V MHDM+R++ALWI S+  ++K
Sbjct:   437 FIKEKQGREKAFNQGYDILGTLVRSSLLLEG-AKDKDVVSMHDMVREMALWIFSDLGKHK 495

Query:   400 ----ILAAKSKDELIE 411
                 + A    DEL E
Sbjct:   496 ERCIVQAGIGLDELPE 511

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

GO:0009617 "response to bacterium" evidence=ISS

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

TAIR|locus:2036214 AT1G15890 [Arabidopsis thaliana (taxid:3702)]

 Score = 270 (100.1 bits), Expect = 1.2e-35, Sum P(2) = 1.2e-35
 Identities = 68/186 (36%), Positives = 93/186 (50%)

Query:   223 AWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTGSAMTSIRNPAVWENAVND 282
             AW LFQ KV    L SH DI   A  VA  C GLPL+L   G AM S      W++ ++ 
Sbjct:   315 AWELFQKKVGPIPLQSHEDIPTLARKVAEKCCGLPLALSVIGKAMASRETVQEWQHVIHV 374

Query:   283 LINYPAEFPGMGDRIFPRLKFSYDHLPVKPTKLIFYFMNFL---IFIRKDDLVDLWTGEG 339
             L +   EFP M ++I P LKFSYD L  +  KL F + +       +RK++L++ W  EG
Sbjct:   375 LNSSSHEFPSMEEKILPVLKFSYDDLKDEKVKLCFLYCSLFPEDYEVRKEELIEYWMCEG 434

Query:   340 LLRDYHNIAAARVQGKSIIXXXXXXXXXXXXXAYFGNFVKMHDMIRDLALWIASE-DQEN 398
              +    +   A  +G  II                   VKMHD+IR++ALWIAS   ++ 
Sbjct:   435 FIDGNEDEDGANNKGHDIIGSLVRAHLLMDGE--LTTKVKMHDVIREMALWIASNFGKQK 492

Query:   399 KILAAK 404
             + L  K
Sbjct:   493 ETLCVK 498

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2171579 AT5G47250 [Arabidopsis thaliana (taxid:3702)]

 Score = 249 (92.7 bits), Expect = 3.6e-34, Sum P(2) = 3.6e-34
 Identities = 67/185 (36%), Positives = 90/185 (48%)

Query:   223 AWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTGSAMTSIRNPAVWENAVND 282
             AW+LF +KV  D LN   DI K  + VA  CG LPL+L      M S      W  A++ 
Sbjct:   318 AWDLFDMKVHCDGLNEISDIAK--KIVAKCCG-LPLALEVIRKTMASKSTVIQWRRALDT 374

Query:   283 LINYPAEFPGMGDRIFPRLKFSYDHLPVKPTKLIFYFMNF--LIFIRKDDLVDLWTGEGL 340
             L +Y +E  G    IF  LK SYD+L  K  K   Y   F    +I++D+LV+ W GEG 
Sbjct:   375 LESYRSEMKGTEKGIFQVLKLSYDYLKTKNAKCFLYCALFPKAYYIKQDELVEYWIGEGF 434

Query:   341 LRDYHNIAAARVQGKSIIXXXXXXXXXXXXXAYFGNFVKMHDMIRDLALWIASEDQENKI 400
             + +      A+ +G  II                   V MHDMIRD+ALWI SE ++ + 
Sbjct:   435 IDEKDGRERAKDRGYEIIDNLVGAGLLLES----NKKVYMHDMIRDMALWIVSEFRDGER 490

Query:   401 LAAKS 405
                K+
Sbjct:   491 YVVKT 495

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IDA

TAIR|locus:2171589 AT5G47260 [Arabidopsis thaliana (taxid:3702)]

 Score = 277 (102.6 bits), Expect = 1.4e-33, Sum P(2) = 1.4e-33
 Identities = 69/175 (39%), Positives = 92/175 (52%)

Query:   223 AWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTGSAMTSIRNPAVWENAVND 282
             AW+LFQ  V ++ L SH+DI K A  VA  C GLPL+L   G AM+  R    W   ++ 
Sbjct:   306 AWDLFQETVGENTLRSHQDIPKLARVVASTCRGLPLALNLIGEAMSGKRTVREWRYTIHV 365

Query:   283 LINYPAEFPGMGDRIFPRLKFSYDHLPVKPTKLIFYFMNFL---IFIRKDDLVDLWTGEG 339
             L +  AEFP M D   P LK  YD++  +  +L F +       + I K+DLV+ W  EG
Sbjct:   366 LASSTAEFPDMEDGTLPILKSIYDNMSDEIIRLCFLYCALFPENLDIGKEDLVNYWICEG 425

Query:   340 LLRDYHNIAAARVQGKSIIXXXXXXXXXXXXXAYFGNFVKMHDMIRDLALWIASE 394
             +L    +   A +QG  II                GN VKMH M+R++ALWIASE
Sbjct:   426 ILAK-EDREEAEIQGYEIICDLVRMRLLMESGN--GNCVKMHGMVREMALWIASE 477

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

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

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

GO:0043531 "ADP binding" evidence=IEA

GO:0045036 "protein targeting to chloroplast" evidence=RCA

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

 Score = 254 (94.5 bits), Expect = 1.8e-33, Sum P(2) = 1.8e-33
 Identities = 64/175 (36%), Positives = 88/175 (50%)

Query:   223 AWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTGSAMTSIRNPAVWENAVND 282
             +W+LFQ+KV  + L SH DI   A  VA  C GLPL+L   G AM   R    W +A++ 
Sbjct:   318 SWDLFQMKVGKNTLGSHPDIPGLARKVARKCRGLPLALNVIGEAMACKRTVHEWCHAIDV 377

Query:   283 LINYPAEFPGMGDRIFPRLKFSYDHLPVKPTKLIFYFMNFL---IFIRKDDLVDLWTGEG 339
             L +   +F GM D I   LK+SYD+L  +  K  F + +       I K+ LVD W  EG
Sbjct:   378 LTSSAIDFSGMEDEILHVLKYSYDNLNGELMKSCFLYCSLFPEDYLIDKEGLVDYWISEG 437

Query:   340 LLRDYHNIAAARVQGKSIIXXXXXXXXXXXXXAYFGNFVKMHDMIRDLALWIASE 394
              + +         QG  II                 N VKMHD++R++ALWI+S+
Sbjct:   438 FINEKEGRERNINQGYEIIGTLVRACLLLEEERNKSN-VKMHDVVREMALWISSD 491

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

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

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

GO:0005886 "plasma membrane" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0008219 "cell death" evidence=IMP

GO:0038023 "signaling receptor activity" evidence=IMP

GO:0000166 "nucleotide binding" evidence=IMP

GO:0005622 "intracellular" evidence=ISS

TAIR|locus:2170902 AT5G43740 [Arabidopsis thaliana (taxid:3702)]

 Score = 261 (96.9 bits), Expect = 6.0e-33, Sum P(2) = 6.0e-33
 Identities = 68/187 (36%), Positives = 92/187 (49%)

Query:   223 AWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTGSAMTSIRNPAVWENAVND 282
             AW LF+L V D +L SH+DI   A  VA  C GLPL+L   G AM+       W +A+N 
Sbjct:   312 AWELFRLTVGDIILRSHQDIPALARIVAAKCHGLPLALNVIGKAMSCKETIQEWSHAINV 371

Query:   283 LINYPAEFPGMGDRIFPRLKFSYDHLPVKPTKLIFYFMNFL---IFIRKDDLVDLWTGEG 339
             L +   EFPGM +RI P LKFSYD L     KL F + +       I K+  ++ W  EG
Sbjct:   372 LNSAGHEFPGMEERILPILKFSYDSLKNGEIKLCFLYCSLFPEDSEIPKEKWIEYWICEG 431

Query:   340 LLRDYHNIAAARVQGKSIIXXXXXXXXXXXXXAYFGNFVKMHDMIRDLALWIASE-DQEN 398
              +            G  II                 + VKMHD+IR++ALWI S+  ++ 
Sbjct:   432 FINPNRYEDGGTNHGYDIIGLLVRAHLLIE--CELTDNVKMHDVIREMALWINSDFGKQQ 489

Query:   399 KILAAKS 405
             + +  KS
Sbjct:   490 ETICVKS 496

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

GO:0043531 "ADP binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	414
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	9e-30

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

 Score =  116 bits (292), Expect = 9e-30
 Identities = 68/283 (24%), Positives = 117/283 (41%), Gaps = 54/283 (19%)

Query: 106 LNEVW-RLVEDNS-VRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILVK------- 156
           +  +  +L+E +  + ++ + G+  +GKTTL   +    +    +F  V  V        
Sbjct: 5   IEALIEKLLEMSDNLGVVGIVGMGGVGKTTLAKQIYNDDS-VGGHFDSVAWVVVSKTYTE 63

Query: 157 -RIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRRLGQRRFALLLDDLREPIDLKTAGASI- 214
            R+Q  +   L + +  W +K +   A+     L ++RF L+LDD+ E  D    G    
Sbjct: 64  FRLQKDILQELGLDDSDWVEKNESELAVKIKEALLRKRFLLVLDDVWEKNDWDKIGVPFP 123

Query: 215 --QNGSKV---------------------------KYAWNLFQLKVTDDVLNSHRDIRKH 245
             +NGS+V                           + +W LF  KV +  L    ++ + 
Sbjct: 124 DGENGSRVIVTTRSESVAGRMGGTSKPHEVESLEPEESWELFSNKVFEKELPPCPELEEV 183

Query: 246 AETVAGLCGGLPLSLITTGSAMTSIRNPAVWENAVNDLINYPAEFPGMGDRIFPRLKFSY 305
           A+ +   C GLPL+L   G  +        WE+ +  L N  A   G+ + +   L  SY
Sbjct: 184 AKEIVEKCKGLPLALKVLGGLLAFKSTVQEWEHVLEQLNNELAGRDGL-NEVLSILSLSY 242

Query: 306 DHLP--VKPTKLIFYFMNFLIF-----IRKDDLVDLWTGEGLL 341
           D+LP  +K       F+   +F     IRK+ L+ LW  EG +
Sbjct: 243 DNLPMHLKR-----CFLYLALFPEDYNIRKEQLIKLWIAEGFV 280

Length = 285

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	414
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	100.0
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	100.0
PLN03210	1153	Resistant to P. syringae 6; Provisional	100.0
PRK04841	903	transcriptional regulator MalT; Provisional	99.34
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.12
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.02
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	98.98
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	98.97
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	98.9
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	98.86
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	98.81
COG3903	414	Predicted ATPase [General function prediction only	98.8
PTZ00112	1164	origin recognition complex 1 protein; Provisional	98.5
PRK13342	413	recombination factor protein RarA; Reviewed	98.5
PTZ00202	550	tuzin; Provisional	98.5
COG2256	436	MGS1 ATPase related to the helicase subunit of the	98.42
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.4
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.35
cd01128	249	rho_factor Transcription termination factor rho is	98.25
PRK06893	229	DNA replication initiation factor; Validated	98.22
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	98.19
COG3899	849	Predicted ATPase [General function prediction only	98.18
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	98.15
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.14
PRK09376	416	rho transcription termination factor Rho; Provisio	98.1
PRK04195	482	replication factor C large subunit; Provisional	98.08
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	97.95
PF05729	166	NACHT: NACHT domain	97.95
TIGR00767	415	rho transcription termination factor Rho. Members	97.94
KOG2028	554	consensus ATPase related to the helicase subunit o	97.75
PRK08118	167	topology modulation protein; Reviewed	97.72
PRK13341	725	recombination factor protein RarA/unknown domain f	97.71
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	97.7
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	97.68
PLN03025	319	replication factor C subunit; Provisional	97.64
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	97.63
PRK08727	233	hypothetical protein; Validated	97.63
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	97.61
PF00004	132	AAA: ATPase family associated with various cellula	97.6
PF13173	128	AAA_14: AAA domain	97.56
CHL00095	821	clpC Clp protease ATP binding subunit	97.56
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	97.56
PRK07261	171	topology modulation protein; Provisional	97.5
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	97.48
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	97.47
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	97.44
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.41
PRK09087	226	hypothetical protein; Validated	97.38
PRK12377	248	putative replication protein; Provisional	97.37
PRK05541	176	adenylylsulfate kinase; Provisional	97.35
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.35
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	97.35
PHA00729	226	NTP-binding motif containing protein	97.34
PRK08116	268	hypothetical protein; Validated	97.33
smart00382	148	AAA ATPases associated with a variety of cellular	97.33
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	97.32
PRK10865	857	protein disaggregation chaperone; Provisional	97.31
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	97.31
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	97.3
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	97.27
PRK05564	313	DNA polymerase III subunit delta'; Validated	97.27
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	97.27
PRK03992	389	proteasome-activating nucleotidase; Provisional	97.27
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	97.26
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	97.25
PRK12608	380	transcription termination factor Rho; Provisional	97.23
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	97.21
PRK10536	262	hypothetical protein; Provisional	97.19
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	97.17
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	97.13
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	97.13
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	97.11
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	97.11
PF14516	331	AAA_35: AAA-like domain	97.09
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	97.06
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	97.05
PRK12402	337	replication factor C small subunit 2; Reviewed	97.04
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.04
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	97.03
PRK06696	223	uridine kinase; Validated	97.03
PRK06526	254	transposase; Provisional	97.02
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	96.98
PRK05642	234	DNA replication initiation factor; Validated	96.96
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	96.95
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	96.91
PRK08181	269	transposase; Validated	96.88
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	96.88
PRK14087	450	dnaA chromosomal replication initiation protein; P	96.88
PRK07952	244	DNA replication protein DnaC; Validated	96.83
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	96.8
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	96.78
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	96.78
PRK00625	173	shikimate kinase; Provisional	96.78
PRK06547	172	hypothetical protein; Provisional	96.78
PRK14088	440	dnaA chromosomal replication initiation protein; P	96.76
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	96.75
PRK00440	319	rfc replication factor C small subunit; Reviewed	96.74
PRK09183	259	transposase/IS protein; Provisional	96.74
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	96.73
PRK07667	193	uridine kinase; Provisional	96.72
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	96.71
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	96.71
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	96.71
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	96.68
COG1484	254	DnaC DNA replication protein [DNA replication, rec	96.67
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	96.67
TIGR02237	209	recomb_radB DNA repair and recombination protein R	96.66
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	96.63
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	96.62
PRK10867	433	signal recognition particle protein; Provisional	96.61
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	96.6
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	96.6
cd00983	325	recA RecA is a bacterial enzyme which has roles in	96.6
PRK08233	182	hypothetical protein; Provisional	96.6
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	96.6
PRK08939	306	primosomal protein DnaI; Reviewed	96.59
KOG0736	953	consensus Peroxisome assembly factor 2 containing	96.58
PRK12422	445	chromosomal replication initiation protein; Provis	96.58
cd01394	218	radB RadB. The archaeal protein radB shares simila	96.56
PRK05480	209	uridine/cytidine kinase; Provisional	96.55
PTZ00301	210	uridine kinase; Provisional	96.55
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	96.55
PRK00771	437	signal recognition particle protein Srp54; Provisi	96.54
PRK14527	191	adenylate kinase; Provisional	96.54
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	96.53
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	96.53
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	96.52
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	96.52
PRK09354	349	recA recombinase A; Provisional	96.52
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	96.51
PRK06762	166	hypothetical protein; Provisional	96.49
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	96.49
PRK14086	617	dnaA chromosomal replication initiation protein; P	96.49
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	96.45
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	96.45
PRK00149	450	dnaA chromosomal replication initiation protein; R	96.45
TIGR00959	428	ffh signal recognition particle protein. This mode	96.43
CHL00176	638	ftsH cell division protein; Validated	96.42
PRK15455	644	PrkA family serine protein kinase; Provisional	96.41
TIGR00235	207	udk uridine kinase. Model contains a number of lon	96.41
PRK06921	266	hypothetical protein; Provisional	96.4
PHA02544	316	44 clamp loader, small subunit; Provisional	96.4
PRK03839	180	putative kinase; Provisional	96.39
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	96.38
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	96.37
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	96.37
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	96.36
KOG1969	877	consensus DNA replication checkpoint protein CHL12	96.36
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	96.35
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	96.34
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	96.34
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	96.31
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	96.31
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	96.3
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	96.28
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	96.27
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	96.24
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	96.24
PRK04296	190	thymidine kinase; Provisional	96.24
cd03115	173	SRP The signal recognition particle (SRP) mediates	96.24
KOG1514	767	consensus Origin recognition complex, subunit 1, a	96.24
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	96.23
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	96.23
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	96.21
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	96.2
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	96.19
PRK04040	188	adenylate kinase; Provisional	96.18
PRK06835	329	DNA replication protein DnaC; Validated	96.17
PRK03846	198	adenylylsulfate kinase; Provisional	96.16
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	96.16
PRK00131	175	aroK shikimate kinase; Reviewed	96.13
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	96.13
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	96.13
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	96.12
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	96.11
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	96.1
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	96.05
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	96.05
PRK03731	171	aroL shikimate kinase II; Reviewed	96.03
COG0593	408	DnaA ATPase involved in DNA replication initiation	96.02
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	96.0
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	95.98
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	95.97
PRK00889	175	adenylylsulfate kinase; Provisional	95.95
PRK06217	183	hypothetical protein; Validated	95.94
PTZ00088	229	adenylate kinase 1; Provisional	95.94
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	95.94
) 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	95.93
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	95.93
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	95.92
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	95.91
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	95.9
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	95.9
PRK13947	171	shikimate kinase; Provisional	95.88
TIGR00064	272	ftsY signal recognition particle-docking protein F	95.86
PF00406	151	ADK: Adenylate kinase; InterPro: IPR000850 Adenyla	95.86
PRK14974	336	cell division protein FtsY; Provisional	95.85
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	95.84
PRK06067	234	flagellar accessory protein FlaH; Validated	95.84
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	95.83
PRK08084	235	DNA replication initiation factor; Provisional	95.83
COG1875	436	NYN ribonuclease and ATPase of PhoH family domains	95.82
CHL00195	489	ycf46 Ycf46; Provisional	95.81
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	95.81
PRK04328	249	hypothetical protein; Provisional	95.81
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	95.8
PRK04301	317	radA DNA repair and recombination protein RadA; Va	95.8
PRK14530	215	adenylate kinase; Provisional	95.78
PRK08903	227	DnaA regulatory inactivator Hda; Validated	95.76
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	95.76
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	95.76
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	95.75
PF00154	322	RecA: recA bacterial DNA recombination protein; In	95.75
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	95.74
PRK00279	215	adk adenylate kinase; Reviewed	95.73
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	95.7
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	95.7
PRK14528	186	adenylate kinase; Provisional	95.69
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	95.68
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	95.68
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	95.68
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	95.67
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	95.67
PRK13975	196	thymidylate kinase; Provisional	95.67
PRK13949	169	shikimate kinase; Provisional	95.66
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	95.64
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	95.63
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	95.62
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	95.61
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	95.6
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	95.6
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	95.6
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	95.6
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	95.58
PRK12597	461	F0F1 ATP synthase subunit beta; Provisional	95.58
PRK12678	672	transcription termination factor Rho; Provisional	95.57
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	95.56
PRK00300	205	gmk guanylate kinase; Provisional	95.53
PRK13765	637	ATP-dependent protease Lon; Provisional	95.52
PRK08972	444	fliI flagellum-specific ATP synthase; Validated	95.52
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	95.5
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	95.5
PRK09112	351	DNA polymerase III subunit delta'; Validated	95.48
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	95.45
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	95.44
PRK12339	197	2-phosphoglycerate kinase; Provisional	95.43
PRK10865	857	protein disaggregation chaperone; Provisional	95.43
COG0237	201	CoaE Dephospho-CoA kinase [Coenzyme metabolism]	95.43
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	95.42
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	95.41
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	95.4
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	95.39
CHL00181	287	cbbX CbbX; Provisional	95.38
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	95.37
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	95.37
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	95.36
PRK05057	172	aroK shikimate kinase I; Reviewed	95.36
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	95.36
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	95.36
PRK13531	498	regulatory ATPase RavA; Provisional	95.35
PRK13948	182	shikimate kinase; Provisional	95.35
TIGR03575	340	selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryoti	95.33
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	95.33
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	95.33
PF07726	131	AAA_3: ATPase family associated with various cellu	95.32
PRK04182	180	cytidylate kinase; Provisional	95.31
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	95.29
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	95.29
PRK11823	446	DNA repair protein RadA; Provisional	95.29
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	95.28
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	95.28
KOG2170	344	consensus ATPase of the AAA+ superfamily [General	95.28
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	95.28
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	95.27
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	95.24
PRK13946	184	shikimate kinase; Provisional	95.23
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	95.22
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	95.22
PLN02200	234	adenylate kinase family protein	95.22
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	95.21
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	95.21
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	95.21
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	95.2
PRK07471	365	DNA polymerase III subunit delta'; Validated	95.2
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	95.19
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	95.19
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	95.18
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	95.18
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	95.17
TIGR02173	171	cyt_kin_arch cytidylate kinase, putative. Proteins	95.15
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	95.14
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	95.13
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	95.13
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	95.12
COG2019	189	AdkA Archaeal adenylate kinase [Nucleotide transpo	95.11
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	95.09
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	95.09
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	95.09
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	95.08
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	95.06
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	95.06
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	95.05
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	95.04
PRK14532	188	adenylate kinase; Provisional	95.04
PRK07940	394	DNA polymerase III subunit delta'; Validated	95.02
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	95.01
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	95.01
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	95.0
PRK14737	186	gmk guanylate kinase; Provisional	95.0
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	94.98
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	94.96
cd02029	277	PRK_like Phosphoribulokinase-like (PRK-like) is a	94.96
PRK14531	183	adenylate kinase; Provisional	94.96
PRK14526	211	adenylate kinase; Provisional	94.95
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	94.94
PRK05973	237	replicative DNA helicase; Provisional	94.93
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	94.92
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	94.91
TIGR02236	310	recomb_radA DNA repair and recombination protein R	94.9
PF13245	76	AAA_19: Part of AAA domain	94.89
TIGR00041	195	DTMP_kinase thymidylate kinase. Function: phosphor	94.88
PRK05922	434	type III secretion system ATPase; Validated	94.87
PRK09519	790	recA DNA recombination protein RecA; Reviewed	94.87
TIGR03498	418	FliI_clade3 flagellar protein export ATPase FliI.	94.85
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	94.85
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	94.85
PHA02244	383	ATPase-like protein	94.84
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	94.83
CHL00095	821	clpC Clp protease ATP binding subunit	94.81
PRK15453	290	phosphoribulokinase; Provisional	94.81
PTZ00494	664	tuzin-like protein; Provisional	94.81
PRK09280	463	F0F1 ATP synthase subunit beta; Validated	94.81
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	94.8
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	94.8
PRK08154	309	anaerobic benzoate catabolism transcriptional regu	94.8
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	94.79
PRK01184	184	hypothetical protein; Provisional	94.77
PRK06620	214	hypothetical protein; Validated	94.77
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	94.77
PRK14738	206	gmk guanylate kinase; Provisional	94.77
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	94.77
TIGR01287	275	nifH nitrogenase iron protein. This model describe	94.77
PRK08927	442	fliI flagellum-specific ATP synthase; Validated	94.77
PRK09825	176	idnK D-gluconate kinase; Provisional	94.76
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	94.73
PLN02165	334	adenylate isopentenyltransferase	94.73
PRK05439	311	pantothenate kinase; Provisional	94.73
PRK06761	282	hypothetical protein; Provisional	94.73
PRK08149	428	ATP synthase SpaL; Validated	94.7
TIGR03305	449	alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit	94.68
PRK08533	230	flagellar accessory protein FlaH; Reviewed	94.68
PRK13230	279	nitrogenase reductase-like protein; Reviewed	94.68
PHA02530	300	pseT polynucleotide kinase; Provisional	94.67
COG1763	161	MobB Molybdopterin-guanine dinucleotide biosynthes	94.66
PRK02496	184	adk adenylate kinase; Provisional	94.66
cd01135	276	V_A-ATPase_B V/A-type ATP synthase (non-catalytic)	94.65
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	94.64
PRK00698	205	tmk thymidylate kinase; Validated	94.62
PRK06002	450	fliI flagellum-specific ATP synthase; Validated	94.62
PRK13236	296	nitrogenase reductase; Reviewed	94.58
cd02117	212	NifH_like This family contains the NifH (iron prot	94.57
PRK14493	274	putative bifunctional molybdopterin-guanine dinucl	94.57
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	94.56
PRK14529	223	adenylate kinase; Provisional	94.56
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	94.55
PLN02348	395	phosphoribulokinase	94.55
PRK08099	399	bifunctional DNA-binding transcriptional repressor	94.55
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	94.54
cd02022	179	DPCK Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.2	94.53
TIGR01039	461	atpD ATP synthase, F1 beta subunit. The sequences	94.52
PRK13232	273	nifH nitrogenase reductase; Reviewed	94.51
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	94.51
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	94.5
cd02040	270	NifH NifH gene encodes component II (iron protein)	94.5
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	94.49
PRK08356	195	hypothetical protein; Provisional	94.47
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	94.46
PRK13695	174	putative NTPase; Provisional	94.46
cd03116	159	MobB Molybdenum is an essential trace element in t	94.46
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	94.44
PRK10416	318	signal recognition particle-docking protein FtsY;	94.43
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	94.43
PF00005	137	ABC_tran: ABC transporter This structure is on hol	94.42
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	94.36
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	94.35
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	94.34
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	94.34
TIGR00017	217	cmk cytidylate kinase. This family consists of cyt	94.34
COG1100	219	GTPase SAR1 and related small G proteins [General	94.33
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	94.33
TIGR00455	184	apsK adenylylsulfate kinase (apsK). Important resi	94.32
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	94.32
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	94.31
PRK14730	195	coaE dephospho-CoA kinase; Provisional	94.3
PF02374	305	ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_	94.28
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	94.27
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	94.26
PRK08472	434	fliI flagellum-specific ATP synthase; Validated	94.24
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	94.23
PRK13768	253	GTPase; Provisional	94.22
PRK12338	319	hypothetical protein; Provisional	94.22
PLN02796	347	D-glycerate 3-kinase	94.22
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	94.21
PLN02318	656	phosphoribulokinase/uridine kinase	94.19
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	94.17
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	94.16
PRK06936	439	type III secretion system ATPase; Provisional	94.14
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	94.12
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	94.12
KOG0651	388	consensus 26S proteasome regulatory complex, ATPas	94.11
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	94.11
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	94.1
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	94.08
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	94.07
cd01673	193	dNK Deoxyribonucleoside kinase (dNK) catalyzes the	94.07
PRK13235	274	nifH nitrogenase reductase; Reviewed	94.07
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	94.06
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	94.05
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	94.02
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	94.02
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	94.01
cd03114	148	ArgK-like The function of this protein family is u	94.01
PRK13233	275	nifH nitrogenase reductase; Reviewed	94.0
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	93.99
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	93.99
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	93.98
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	93.97
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	93.97
cd03297	214	ABC_ModC_molybdenum_transporter ModC is an ABC-typ	93.95
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	93.95
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	93.94
PRK09435	332	membrane ATPase/protein kinase; Provisional	93.93
smart00072	184	GuKc Guanylate kinase homologues. Active enzymes c	93.93
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	93.93
PRK05688	451	fliI flagellum-specific ATP synthase; Validated	93.92
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	93.92
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	93.92
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	93.91
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	93.87
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	93.86
cd02026	273	PRK Phosphoribulokinase (PRK) is an enzyme involve	93.84
PRK04220	301	2-phosphoglycerate kinase; Provisional	93.82
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	93.81
cd02034	116	CooC The accessory protein CooC, which contains a	93.81
COG3840	231	ThiQ ABC-type thiamine transport system, ATPase co	93.78
TIGR01041	458	ATP_syn_B_arch ATP synthase archaeal, B subunit. A	93.78
COG0003	322	ArsA Predicted ATPase involved in chromosome parti	93.77
COG4987	573	CydC ABC-type transport system involved in cytochr	93.77
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	93.76
PRK13231	264	nitrogenase reductase-like protein; Reviewed	93.76
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	93.74
COG2842	297	Uncharacterized ATPase, putative transposase [Gene	93.73
cd03269	210	ABC_putative_ATPase This subfamily is involved in	93.73
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	93.73
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	93.73
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	93.72
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	93.71
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	93.71
smart00178	184	SAR Sar1p-like members of the Ras-family of small	93.7
PF02367	123	UPF0079: Uncharacterised P-loop hydrolase UPF0079;	93.7
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	93.68
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	93.68
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	93.68
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	93.67
cd03256	241	ABC_PhnC_transporter ABC-type phosphate/phosphonat	93.67
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	93.65
PRK00023	225	cmk cytidylate kinase; Provisional	93.64
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	93.64
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	93.64
PRK05537	568	bifunctional sulfate adenylyltransferase subunit 1	93.63
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	93.63
TIGR03496	411	FliI_clade1 flagellar protein export ATPase FliI.	93.63
CHL00060	494	atpB ATP synthase CF1 beta subunit	93.62
TIGR02016	296	BchX chlorophyllide reductase iron protein subunit	93.62
TIGR01281	268	DPOR_bchL light-independent protochlorophyllide re	93.61
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	93.61
cd02032	267	Bchl_like This family of proteins contains bchL an	93.61
PLN02459	261	probable adenylate kinase	93.6
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	93.58
cd01132	274	F1_ATPase_alpha F1 ATP synthase alpha, central dom	93.58
cd03260	227	ABC_PstB_phosphate_transporter Phosphate uptake is	93.57
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	93.57
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	93.54
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	93.53
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	93.52
PRK11608	326	pspF phage shock protein operon transcriptional ac	93.49
PRK10584	228	putative ABC transporter ATP-binding protein YbbA;	93.49
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	93.49
PRK07933	213	thymidylate kinase; Validated	93.48
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	93.48
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	93.48
cd01136	326	ATPase_flagellum-secretory_path_III Flagellum-spec	93.48
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	93.47
TIGR03864	236	PQQ_ABC_ATP ABC transporter, ATP-binding subunit,	93.47
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	93.45
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	93.45
cd03296	239	ABC_CysA_sulfate_importer Part of the ABC transpor	93.45
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	93.44
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	93.44
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	93.44

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=7.2e-61  Score=505.08  Aligned_cols=404  Identities=31%  Similarity=0.488  Sum_probs=326.6

Q ss_pred             hHHHHHHHhhhcccccchhhhhhhcccccccccccc-cc---ccccccchhhhh----hhhhHHHHHHHHHHHHHHHHHH
Q 043070            4 SKSCMMKSIKGSGIQYKIVTCLDRQCHTDWKRYHNR-LT---KTEKWIPFCRVK----RKQSNVRLDVVKMAEDLQSLVD   75 (414)
Q Consensus         4 ~~~~W~~~vr~~dlayd~eD~iD~~~~~~~~~~~~~-~~---~~~~~~~~~~~~----~~~~~~~~~i~~~i~~l~~~~~   75 (414)
                      -++.|.+.++  |++|++||.++.|........... ..   .....++.+...    .......+++.+.+++++....
T Consensus        56 ~~~~~~e~~~--~~~~~~e~~~~~~~v~~~~~~~~~~l~~~~~~~~~~c~~~~~~~~~~~~~~~~~rv~~~l~~ve~l~~  133 (889)
T KOG4658|consen   56 RRVNWEEDVG--DLVYLAEDIIWLFLVEEIERKANDLLSTRSVERQRLCLCGFCSKNVSDSYKYGKRVSKVLREVESLGS  133 (889)
T ss_pred             HHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHhHHhhhhHHHHHHHhhhhhHhHhhhhhHhHHHHHHHHHHHHHHhcc
Confidence            4679999999  999999999999865332221110 00   011111111111    2223345666666666666655


Q ss_pred             hcCCCccccC-CCCCCCcccc---cCCCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCc
Q 043070           76 EGKGLKKAAD-PLPQPVVEVQ---DMENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFG  150 (414)
Q Consensus        76 ~~~~~~~~~~-~~~~~~~~~~---~~~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~  150 (414)
                      +.. |..+.. ..+......+   +... ||.+ .++++.+.|.+++..+++|+||||+||||||+.++|+...++.+|+
T Consensus       134 ~~~-~~~~~~~~~~~~~~e~~~~~~~~~-VG~e~~~~kl~~~L~~d~~~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd  211 (889)
T KOG4658|consen  134 KGV-FEVVGESLDPREKVETRPIQSESD-VGLETMLEKLWNRLMEDDVGIVGIYGMGGVGKTTLARQIFNKFDEVGNHFD  211 (889)
T ss_pred             ccc-eecccccccchhhcccCCCCcccc-ccHHHHHHHHHHHhccCCCCEEEEECCCcccHHHHHHHHhcccchhcccCc
Confidence            444 544443 1222222222   2233 9999 9999999998877799999999999999999999999944999999


Q ss_pred             chHhH--------HHHHHHHHHHhcCCCCccCcCCHhHHHHHHHHHhCCCcEEEEEecCCCccchhhhccC---CCCCCc
Q 043070          151 LVILV--------KRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRRLGQRRFALLLDDLREPIDLKTAGAS---IQNGSK  219 (414)
Q Consensus       151 ~~~wv--------~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~~p---~~~gs~  219 (414)
                      .++||        ..++.+|+..++.........+.++++..|.+.|++|||||||||||+..+|+.++.|   ..+||+
T Consensus       212 ~~iWV~VSk~f~~~~iq~~Il~~l~~~~~~~~~~~~~~~~~~i~~~L~~krfllvLDDIW~~~dw~~I~~~~p~~~~g~K  291 (889)
T KOG4658|consen  212 GVIWVVVSKEFTTRKIQQTILERLGLLDEEWEDKEEDELASKLLNLLEGKRFLLVLDDIWEEVDWDKIGVPFPSRENGSK  291 (889)
T ss_pred             eEEEEEEcccccHHhHHHHHHHHhccCCcccchhhHHHHHHHHHHHhccCceEEEEecccccccHHhcCCCCCCccCCeE
Confidence            99999        9999999999998665555555689999999999999999999999999999999544   668899


Q ss_pred             Hh---------------------------hHHHHHHHhhcCCcCCCCchHHHHHHHHHHHhCCchhHHHHHHHHhcCCCC
Q 043070          220 VK---------------------------YAWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTGSAMTSIRN  272 (414)
Q Consensus       220 ii---------------------------~a~~Lf~~~a~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~g~~L~~~~~  272 (414)
                      |+                           +||.||++.+|.......+.++++|++++++|+|+|||+.++|+.|+.+.+
T Consensus       292 vvlTTRs~~V~~~~m~~~~~~~v~~L~~~eaW~LF~~~v~~~~~~~~~~i~~lak~v~~kC~GLPLAl~viG~~ma~K~t  371 (889)
T KOG4658|consen  292 VVLTTRSEEVCGRAMGVDYPIEVECLTPEEAWDLFQKKVGPNTLGSHPDIEELAKEVAEKCGGLPLALNVLGGLLACKKT  371 (889)
T ss_pred             EEEEeccHhhhhccccCCccccccccCccccHHHHHHhhccccccccccHHHHHHHHHHHhCChHHHHHHHHHHhcCCCc
Confidence            98                           999999999998866666779999999999999999999999999999999


Q ss_pred             hhHHHHHHHHhccC-CCCCCCCccchhhHHHhchhCCCCCChhHHHhHhhhh---hcCCHHHHHHHHHHcCCccCCCchH
Q 043070          273 PAVWENAVNDLINY-PAEFPGMGDRIFPRLKFSYDHLPVKPTKLIFYFMNFL---IFIRKDDLVDLWTGEGLLRDYHNIA  348 (414)
Q Consensus       273 ~~~w~~~~~~l~~~-~~~~~~~~~~~~~~l~~sy~~L~~~~~k~cfl~lsiF---~~i~~~~Li~~W~aeg~i~~~~~~~  348 (414)
                      ..+|+++.+.+.+. ..+.++..+.+++++.+||+.||++ +|.||+|||+|   |.|+++.|+.+|+||||+.+...+.
T Consensus       372 ~~eW~~~~~~l~s~~~~~~~~~~~~i~~iLklSyd~L~~~-lK~CFLycalFPED~~I~~e~Li~yWiaEGfi~~~~~~~  450 (889)
T KOG4658|consen  372 VQEWRRALNVLKSSLAADFSGMEESILPILKLSYDNLPEE-LKSCFLYCALFPEDYEIKKEKLIEYWIAEGFIDPLDGGE  450 (889)
T ss_pred             HHHHHHHHccccccccCCCCchhhhhHHhhhccHhhhhHH-HHHHHHhhccCCcccccchHHHHHHHHhccCcCcccccc
Confidence            99999999999887 4455566778999999999999987 99999999999   9999999999999999999965788


Q ss_pred             HHHHHHHHHHHHHHHcCccccccc-ccCCeEEECHHHHHHHHHHHcccCc--CcEEEecCcchhhhcc
Q 043070          349 AARVQGKSIIEGLVLVCLLEEVEA-YFGNFVKMHDMIRDLALWIASEDQE--NKILAAKSKDELIEEQ  413 (414)
Q Consensus       349 ~~~~~~~~~l~~L~~~sLl~~~~~-~~~~~~~mH~lv~~~a~~~~~~e~~--~~f~~~~~~~~l~~~~  413 (414)
                      .+++.|+.|+.+|+++||++.... +...+|+|||+||++|.++|++.+.  +++++.++. ++.+.|
T Consensus       451 ~~~d~G~~~i~~LV~~~Ll~~~~~~~~~~~~kmHDvvRe~al~ias~~~~~~e~~iv~~~~-~~~~~~  517 (889)
T KOG4658|consen  451 TAEDVGYDYIEELVRASLLIEERDEGRKETVKMHDVVREMALWIASDFGKQEENQIVSDGV-GLSEIP  517 (889)
T ss_pred             chhcchHHHHHHHHHHHHHhhcccccceeEEEeeHHHHHHHHHHhccccccccceEEECCc-Cccccc
Confidence            999999999999999999998763 2368999999999999999995444  558888887 777655

>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []

Probab=100.00  E-value=4.3e-42  Score=326.05  Aligned_cols=240  Identities=26%  Similarity=0.440  Sum_probs=197.7

Q ss_pred             hH-HHHHHHHHhhc--CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH--------HHHHHHHHHHhcCCCC
Q 043070          103 VS-RLNEVWRLVED--NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV--------KRIQHVMGYRLAMSNE  171 (414)
Q Consensus       103 r~-~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv--------~~l~~~i~~~l~~~~~  171 (414)
                      || ++++|.+.|.+  ++.++|+|+||||+||||||..++++. .++.+|+.++|+        ..++..|+.+++....
T Consensus         1 re~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~-~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~   79 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDL-RIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEPDS   79 (287)
T ss_dssp             -HHHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHH-HHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC-S
T ss_pred             CHHHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeeccccc-cccccccccccccccccccccccccccccccccccc
Confidence            78 99999999977  789999999999999999999999996 468999999999        8889999999988754


Q ss_pred             cc-CcCCHhHHHHHHHHHhCCCcEEEEEecCCCccchhhhc--cC-CCCCCcHh--------------------------
Q 043070          172 VW-DDKTKQGRAIDSSRRLGQRRFALLLDDLREPIDLKTAG--AS-IQNGSKVK--------------------------  221 (414)
Q Consensus       172 ~~-~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~--~p-~~~gs~ii--------------------------  221 (414)
                      .. ...+.++....+++.|.++++||||||||+...|+.+.  +| ...|++||                          
T Consensus        80 ~~~~~~~~~~~~~~l~~~L~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~~~~~~l~~L~~  159 (287)
T PF00931_consen   80 SISDPKDIEELQDQLRELLKDKRCLLVLDDVWDEEDLEELREPLPSFSSGSKILVTTRDRSVAGSLGGTDKVIELEPLSE  159 (287)
T ss_dssp             TSSCCSSHHHHHHHHHHHHCCTSEEEEEEEE-SHHHH-------HCHHSS-EEEEEESCGGGGTTHHSCEEEEECSS--H
T ss_pred             ccccccccccccccchhhhccccceeeeeeeccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            33 56778889999999999999999999999999998773  33 45678887                          


Q ss_pred             -hHHHHHHHhhcCCcCCCCchHHHHHHHHHHHhCCchhHHHHHHHHhcCCCChhHHHHHHHHhccCCCCCCCCccchhhH
Q 043070          222 -YAWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTGSAMTSIRNPAVWENAVNDLINYPAEFPGMGDRIFPR  300 (414)
Q Consensus       222 -~a~~Lf~~~a~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~g~~L~~~~~~~~w~~~~~~l~~~~~~~~~~~~~~~~~  300 (414)
                       +|++||.+.++......++.+.+.+++|+++|+|+||||+++|++|+.+.+..+|+.+++++........+...++..+
T Consensus       160 ~ea~~L~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLal~~~a~~l~~~~~~~~w~~~~~~l~~~~~~~~~~~~~~~~~  239 (287)
T PF00931_consen  160 EEALELFKKRAGRKESESPEDLEDLAKEIVEKCGGLPLALKLIASYLRSKSTVDEWEEALEELENSLRESRDYDRSVFSA  239 (287)
T ss_dssp             HHHHHHHHHHHTSHS----TTSCTHHHHHHHHTTT-HHHHHHHHHHHHHHHSSSSHHHHHHHHHHCHTCSSGSCHHHHHH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence             8999999999765422344557789999999999999999999999765678999999998877754444455689999


Q ss_pred             HHhchhCCCCCChhHHHhHhhhh---hcCCHHHHHHHHHHcCCccCC
Q 043070          301 LKFSYDHLPVKPTKLIFYFMNFL---IFIRKDDLVDLWTGEGLLRDY  344 (414)
Q Consensus       301 l~~sy~~L~~~~~k~cfl~lsiF---~~i~~~~Li~~W~aeg~i~~~  344 (414)
                      +.+||+.||++ +|.||+|||+|   +.|+++.|+++|++|||++..
T Consensus       240 l~~s~~~L~~~-~~~~f~~L~~f~~~~~i~~~~li~lW~~e~~i~~~  285 (287)
T PF00931_consen  240 LELSYDSLPDE-LRRCFLYLSIFPEGVPIPRERLIRLWVAEGFISSK  285 (287)
T ss_dssp             HHHHHHSSHTC-CHHHHHHGGGSGTTS-EEHHHHHHHHTT-HHTC--
T ss_pred             ceechhcCCcc-HHHHHhhCcCCCCCceECHHHHHHHHHHCCCCccc
Confidence            99999999998 99999999999   789999999999999999875

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

>PLN03210 Resistant to P

Probab=100.00  E-value=4.7e-37  Score=339.22  Aligned_cols=269  Identities=23%  Similarity=0.309  Sum_probs=212.2

Q ss_pred             cCCCccchH-HHHHHHHHh--hcCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhHH----------------
Q 043070           96 DMENTVDVS-RLNEVWRLV--EDNSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILVK----------------  156 (414)
Q Consensus        96 ~~~~~vGr~-~~~~l~~~L--~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv~----------------  156 (414)
                      ..+.+||++ .++++..+|  ..++.++|+||||||+||||||+++|+..   ...|++.+|+.                
T Consensus       182 ~~~~~vG~~~~l~~l~~lL~l~~~~~~vvgI~G~gGiGKTTLA~~l~~~l---~~~F~g~vfv~~~~v~~~~~~~~~~~~  258 (1153)
T PLN03210        182 DFEDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFSRL---SRQFQSSVFIDRAFISKSMEIYSSANP  258 (1153)
T ss_pred             ccccccchHHHHHHHHHHHccccCceEEEEEEcCCCCchHHHHHHHHHHH---hhcCCeEEEeeccccccchhhcccccc
Confidence            456799999 999999988  34678999999999999999999999988   67888876651                


Q ss_pred             -------HHHHHHHHHhcCCCCccCcCCHhHHHHHHHHHhCCCcEEEEEecCCCccchhhhccC---CCCCCcHh-----
Q 043070          157 -------RIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRRLGQRRFALLLDDLREPIDLKTAGAS---IQNGSKVK-----  221 (414)
Q Consensus       157 -------~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~~p---~~~gs~ii-----  221 (414)
                             .++..++..+-....    ..... ...+++.|++||+||||||||+..+|+.+...   .++||+||     
T Consensus       259 ~~~~~~~~l~~~~l~~il~~~~----~~~~~-~~~~~~~L~~krvLLVLDdv~~~~~l~~L~~~~~~~~~GsrIIiTTrd  333 (1153)
T PLN03210        259 DDYNMKLHLQRAFLSEILDKKD----IKIYH-LGAMEERLKHRKVLIFIDDLDDQDVLDALAGQTQWFGSGSRIIVITKD  333 (1153)
T ss_pred             cccchhHHHHHHHHHHHhCCCC----cccCC-HHHHHHHHhCCeEEEEEeCCCCHHHHHHHHhhCccCCCCcEEEEEeCc
Confidence                   122333333321110    01111 24577889999999999999999999988433   46899888     


Q ss_pred             ---------------------hHHHHHHHhhcCCcCCCCchHHHHHHHHHHHhCCchhHHHHHHHHhcCCCChhHHHHHH
Q 043070          222 ---------------------YAWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTGSAMTSIRNPAVWENAV  280 (414)
Q Consensus       222 ---------------------~a~~Lf~~~a~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~g~~L~~~~~~~~w~~~~  280 (414)
                                           +||+||++.||... ..++++.+++++|+++|+|+||||+++|++|+. ++..+|+.++
T Consensus       334 ~~vl~~~~~~~~~~v~~l~~~ea~~LF~~~Af~~~-~~~~~~~~l~~~iv~~c~GLPLAl~vlgs~L~~-k~~~~W~~~l  411 (1153)
T PLN03210        334 KHFLRAHGIDHIYEVCLPSNELALEMFCRSAFKKN-SPPDGFMELASEVALRAGNLPLGLNVLGSYLRG-RDKEDWMDML  411 (1153)
T ss_pred             HHHHHhcCCCeEEEecCCCHHHHHHHHHHHhcCCC-CCcHHHHHHHHHHHHHhCCCcHHHHHHHHHHcC-CCHHHHHHHH
Confidence                                 89999999999764 334578899999999999999999999999998 6889999999


Q ss_pred             HHhccCCCCCCCCccchhhHHHhchhCCCCCChhHHHhHhhhh-hcCCHHHHHHHHHHcCCccCCCchHHHHHHHHHHHH
Q 043070          281 NDLINYPAEFPGMGDRIFPRLKFSYDHLPVKPTKLIFYFMNFL-IFIRKDDLVDLWTGEGLLRDYHNIAAARVQGKSIIE  359 (414)
Q Consensus       281 ~~l~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~cfl~lsiF-~~i~~~~Li~~W~aeg~i~~~~~~~~~~~~~~~~l~  359 (414)
                      ++|...+      ...+..+|++||+.|+++..|.||+++|+| ..... ..+..|.+.+.....           ..++
T Consensus       412 ~~L~~~~------~~~I~~~L~~SYd~L~~~~~k~~Fl~ia~ff~~~~~-~~v~~~l~~~~~~~~-----------~~l~  473 (1153)
T PLN03210        412 PRLRNGL------DGKIEKTLRVSYDGLNNKKDKAIFRHIACLFNGEKV-NDIKLLLANSDLDVN-----------IGLK  473 (1153)
T ss_pred             HHHHhCc------cHHHHHHHHHhhhccCccchhhhhheehhhcCCCCH-HHHHHHHHhcCCCch-----------hChH
Confidence            9987643      247999999999999864389999999999 44444 446678777654432           1389


Q ss_pred             HHHHcCcccccccccCCeEEECHHHHHHHHHHHcccC
Q 043070          360 GLVLVCLLEEVEAYFGNFVKMHDMIRDLALWIASEDQ  396 (414)
Q Consensus       360 ~L~~~sLl~~~~~~~~~~~~mH~lv~~~a~~~~~~e~  396 (414)
                      .|+++|||+..    ...++||||+|+++++++.++.
T Consensus       474 ~L~~ksLi~~~----~~~~~MHdLl~~~~r~i~~~~~  506 (1153)
T PLN03210        474 NLVDKSLIHVR----EDIVEMHSLLQEMGKEIVRAQS  506 (1153)
T ss_pred             HHHhcCCEEEc----CCeEEhhhHHHHHHHHHHHhhc
Confidence            99999999875    3579999999999999997753

syringae 6; Provisional

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.34  E-value=6.7e-11  Score=129.62  Aligned_cols=264  Identities=13%  Similarity=0.091  Sum_probs=156.4

Q ss_pred             cccccCCCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH---------HHHHHH
Q 043070           92 VEVQDMENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV---------KRIQHV  161 (414)
Q Consensus        92 ~~~~~~~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv---------~~l~~~  161 (414)
                      .+|+.+..+|-|+ -.+.+-+   ....+++.|+|++|.||||++..+.+..    .   .++|+         ..+...
T Consensus         8 ~~p~~~~~~~~R~rl~~~l~~---~~~~~~~~v~apaG~GKTtl~~~~~~~~----~---~~~w~~l~~~d~~~~~f~~~   77 (903)
T PRK04841          8 SRPVRLHNTVVRERLLAKLSG---ANNYRLVLVTSPAGYGKTTLISQWAAGK----N---NLGWYSLDESDNQPERFASY   77 (903)
T ss_pred             CCCCCccccCcchHHHHHHhc---ccCCCeEEEECCCCCCHHHHHHHHHHhC----C---CeEEEecCcccCCHHHHHHH
Confidence            3444556677777 4444322   2457899999999999999999988543    1   46787         445555


Q ss_pred             HHHHhcCCCCc-----------cCcCCHhHHHHHHHHHhC--CCcEEEEEecCCCccc--hh-hh--ccC-CCCCCcHh-
Q 043070          162 MGYRLAMSNEV-----------WDDKTKQGRAIDSSRRLG--QRRFALLLDDLREPID--LK-TA--GAS-IQNGSKVK-  221 (414)
Q Consensus       162 i~~~l~~~~~~-----------~~~~~~~~~~~~l~~~L~--~kr~LlVlDdv~~~~~--~~-~~--~~p-~~~gs~ii-  221 (414)
                      ++..++...+.           ....+...+...+...|.  +.+++|||||+...++  .. .+  .++ ...+..+| 
T Consensus        78 l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~lv~  157 (903)
T PRK04841         78 LIAALQQATNGHCSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTLVV  157 (903)
T ss_pred             HHHHHHHhcCcccchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEEEE
Confidence            55555321110           011223334444444443  6799999999976531  11 11  111 11111111 


Q ss_pred             --------------------------------hHHHHHHHhhcCCcCCCCchHHHHHHHHHHHhCCchhHHHHHHHHhcC
Q 043070          222 --------------------------------YAWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTGSAMTS  269 (414)
Q Consensus       222 --------------------------------~a~~Lf~~~a~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~g~~L~~  269 (414)
                                                      ++.++|....+..   .+   .+.+..|.+.|+|.|+++..++..+..
T Consensus       158 ~sR~~~~~~~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~~~~~---~~---~~~~~~l~~~t~Gwp~~l~l~~~~~~~  231 (903)
T PRK04841        158 LSRNLPPLGIANLRVRDQLLEIGSQQLAFDHQEAQQFFDQRLSSP---IE---AAESSRLCDDVEGWATALQLIALSARQ  231 (903)
T ss_pred             EeCCCCCCchHhHHhcCcceecCHHhCCCCHHHHHHHHHhccCCC---CC---HHHHHHHHHHhCChHHHHHHHHHHHhh
Confidence                                            5666665544332   11   345678999999999999999877755


Q ss_pred             CCChhHHHHHHHHhccCCCCCCCCccchhhHHHh-chhCCCCCChhHHHhHhhhhhcCCHHHHHHHHHHcCCccCCCchH
Q 043070          270 IRNPAVWENAVNDLINYPAEFPGMGDRIFPRLKF-SYDHLPVKPTKLIFYFMNFLIFIRKDDLVDLWTGEGLLRDYHNIA  348 (414)
Q Consensus       270 ~~~~~~w~~~~~~l~~~~~~~~~~~~~~~~~l~~-sy~~L~~~~~k~cfl~lsiF~~i~~~~Li~~W~aeg~i~~~~~~~  348 (414)
                      ....  .......+..      .....+...+.- .++.||++ .+..+..+|++..|+.+.+-.+      ...     
T Consensus       232 ~~~~--~~~~~~~~~~------~~~~~~~~~l~~~v~~~l~~~-~~~~l~~~a~~~~~~~~l~~~l------~~~-----  291 (903)
T PRK04841        232 NNSS--LHDSARRLAG------INASHLSDYLVEEVLDNVDLE-TRHFLLRCSVLRSMNDALIVRV------TGE-----  291 (903)
T ss_pred             CCCc--hhhhhHhhcC------CCchhHHHHHHHHHHhcCCHH-HHHHHHHhcccccCCHHHHHHH------cCC-----
Confidence            2210  0111111100      001235554443 37899998 9999999999966665544321      111     


Q ss_pred             HHHHHHHHHHHHHHHcCcccccccccCCeEEECHHHHHHHHHHHcc
Q 043070          349 AARVQGKSIIEGLVLVCLLEEVEAYFGNFVKMHDMIRDLALWIASE  394 (414)
Q Consensus       349 ~~~~~~~~~l~~L~~~sLl~~~~~~~~~~~~mH~lv~~~a~~~~~~  394 (414)
                         +.+...+++|.+.+++....++....|+.|++++++++.....
T Consensus       292 ---~~~~~~L~~l~~~~l~~~~~~~~~~~yr~H~L~r~~l~~~l~~  334 (903)
T PRK04841        292 ---ENGQMRLEELERQGLFIQRMDDSGEWFRYHPLFASFLRHRCQW  334 (903)
T ss_pred             ---CcHHHHHHHHHHCCCeeEeecCCCCEEehhHHHHHHHHHHHHh
Confidence               2346779999999997543222245899999999999977643

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.12  E-value=1.3e-08  Score=100.90  Aligned_cols=107  Identities=14%  Similarity=0.049  Sum_probs=76.7

Q ss_pred             CCCccchH-HHHHHHHHhhc----CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH--------HHHHHHHH
Q 043070           97 MENTVDVS-RLNEVWRLVED----NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV--------KRIQHVMG  163 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv--------~~l~~~i~  163 (414)
                      ++.++||+ ++++|...|.+    .....+.|+|++|+|||++++.++++.. .....-..+++        ..++..|+
T Consensus        29 P~~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~-~~~~~~~~v~in~~~~~~~~~~~~~i~  107 (394)
T PRK00411         29 PENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELE-EIAVKVVYVYINCQIDRTRYAIFSEIA  107 (394)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHH-HhcCCcEEEEEECCcCCCHHHHHHHHH
Confidence            36799999 99999999833    3445678999999999999999999872 12211122233        57788888


Q ss_pred             HHhcCCCCccCcCCHhHHHHHHHHHhC--CCcEEEEEecCCCc
Q 043070          164 YRLAMSNEVWDDKTKQGRAIDSSRRLG--QRRFALLLDDLREP  204 (414)
Q Consensus       164 ~~l~~~~~~~~~~~~~~~~~~l~~~L~--~kr~LlVlDdv~~~  204 (414)
                      .++..........+.+++...+.+.+.  ++..+||||+++..
T Consensus       108 ~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l  150 (394)
T PRK00411        108 RQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYL  150 (394)
T ss_pred             HHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHh
Confidence            888753221233456777788888875  45689999999874

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.02  E-value=7.4e-08  Score=94.58  Aligned_cols=106  Identities=11%  Similarity=0.157  Sum_probs=73.8

Q ss_pred             CCccchH-HHHHHHHHhhc----CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCc---chHhH--------HHHHHH
Q 043070           98 ENTVDVS-RLNEVWRLVED----NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFG---LVILV--------KRIQHV  161 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~---~~~wv--------~~l~~~  161 (414)
                      +.++||+ ++++|...|.+    .....+.|+|++|+|||++++.+++..........   ..+|+        ..++..
T Consensus        15 ~~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~~~~~   94 (365)
T TIGR02928        15 DRIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQVLVE   94 (365)
T ss_pred             CCCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHHHHHH
Confidence            5799999 99999999853    34567999999999999999999987621111110   11222        677888


Q ss_pred             HHHHhc---CCCCccCcCCHhHHHHHHHHHhC--CCcEEEEEecCCCc
Q 043070          162 MGYRLA---MSNEVWDDKTKQGRAIDSSRRLG--QRRFALLLDDLREP  204 (414)
Q Consensus       162 i~~~l~---~~~~~~~~~~~~~~~~~l~~~L~--~kr~LlVlDdv~~~  204 (414)
                      |+.++.   ...+ ....+..+....+.+.+.  +++++||||+++..
T Consensus        95 i~~~l~~~~~~~~-~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L  141 (365)
T TIGR02928        95 LANQLRGSGEEVP-TTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYL  141 (365)
T ss_pred             HHHHHhhcCCCCC-CCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhh
Confidence            888883   2221 123345566666777664  56889999999877

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.

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

Probab=98.98  E-value=3.8e-08  Score=92.36  Aligned_cols=146  Identities=14%  Similarity=0.176  Sum_probs=87.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH-------HHHHHHHHHHhcCCCCccCcCCHhHHHHHHHHH
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV-------KRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRR  188 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv-------~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  188 (414)
                      .....+.|+|++|+|||||++.+++...  ...+ ..+|+       .+++..|+..++.+..   ..+.......+...
T Consensus        41 ~~~~~~~l~G~~G~GKTtl~~~l~~~l~--~~~~-~~~~~~~~~~~~~~~l~~i~~~lG~~~~---~~~~~~~~~~l~~~  114 (269)
T TIGR03015        41 QREGFILITGEVGAGKTTLIRNLLKRLD--QERV-VAAKLVNTRVDAEDLLRMVAADFGLETE---GRDKAALLRELEDF  114 (269)
T ss_pred             cCCCEEEEEcCCCCCHHHHHHHHHHhcC--CCCe-EEeeeeCCCCCHHHHHHHHHHHcCCCCC---CCCHHHHHHHHHHH
Confidence            4456899999999999999999999872  1221 11232       6788888888876542   22333333344332


Q ss_pred             -----hCCCcEEEEEecCCCcc--chhhhc-cC---CCCCC--cHh----------------------------------
Q 043070          189 -----LGQRRFALLLDDLREPI--DLKTAG-AS---IQNGS--KVK----------------------------------  221 (414)
Q Consensus       189 -----L~~kr~LlVlDdv~~~~--~~~~~~-~p---~~~gs--~ii----------------------------------  221 (414)
                           ..+++.+||+||++...  .++.+. +.   ..++.  .|+                                  
T Consensus       115 l~~~~~~~~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~~~~~~l~~~~~~~l~~r~~~~~~l~~l~~  194 (269)
T TIGR03015       115 LIEQFAAGKRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQPEFRETLQSPQLQQLRQRIIASCHLGPLDR  194 (269)
T ss_pred             HHHHHhCCCCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCHHHHHHHcCchhHHHHhheeeeeeCCCCCH
Confidence                 26788999999998864  333331 11   11111  111                                  


Q ss_pred             -hHHHHHHHhhcCCcCCCC-chHHHHHHHHHHHhCCchhHHHHHHHHh
Q 043070          222 -YAWNLFQLKVTDDVLNSH-RDIRKHAETVAGLCGGLPLSLITTGSAM  267 (414)
Q Consensus       222 -~a~~Lf~~~a~~~~~~~~-~~l~~~~~~I~~~c~GlPLai~~~g~~L  267 (414)
                       +..+++...+........ .-..+..+.|.+.|+|.|..|..++..+
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             344444433321110001 1124677889999999999999888776

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.

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=98.97  E-value=2.6e-08  Score=102.63  Aligned_cols=269  Identities=13%  Similarity=0.089  Sum_probs=165.6

Q ss_pred             CCCCcccccCCCccchHHHHHHHHHhhc-CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH---------HH
Q 043070           88 PQPVVEVQDMENTVDVSRLNEVWRLVED-NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV---------KR  157 (414)
Q Consensus        88 ~~~~~~~~~~~~~vGr~~~~~l~~~L~~-~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv---------~~  157 (414)
                      ++..++|.++.+.|-|.   .+.+.|.+ ...+++.|..++|.|||||+.+.....    ..=..+.|.         .+
T Consensus         9 ~sk~~~P~~~~~~v~R~---rL~~~L~~~~~~RL~li~APAGfGKttl~aq~~~~~----~~~~~v~Wlslde~dndp~r   81 (894)
T COG2909           9 PSKLVRPVRPDNYVVRP---RLLDRLRRANDYRLILISAPAGFGKTTLLAQWRELA----ADGAAVAWLSLDESDNDPAR   81 (894)
T ss_pred             ccccCCCCCcccccccH---HHHHHHhcCCCceEEEEeCCCCCcHHHHHHHHHHhc----CcccceeEeecCCccCCHHH
Confidence            33444455555566555   44555544 478999999999999999999998733    333567788         56


Q ss_pred             HHHHHHHHhcCCCCc-----------cCcCCHhHHHHHHHHHhCC--CcEEEEEecCCCcc---chhhhc--cC-CCCCC
Q 043070          158 IQHVMGYRLAMSNEV-----------WDDKTKQGRAIDSSRRLGQ--RRFALLLDDLREPI---DLKTAG--AS-IQNGS  218 (414)
Q Consensus       158 l~~~i~~~l~~~~~~-----------~~~~~~~~~~~~l~~~L~~--kr~LlVlDdv~~~~---~~~~~~--~p-~~~gs  218 (414)
                      +..-++..++.-.+.           ....+...+.+.+..-|..  ++..|||||---..   --..+.  +. ...+-
T Consensus        82 F~~yLi~al~~~~p~~~~~a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~P~~l  161 (894)
T COG2909          82 FLSYLIAALQQATPTLGDEAQTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLKHAPENL  161 (894)
T ss_pred             HHHHHHHHHHHhCccccHHHHHHHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHHhCCCCe
Confidence            666666666522221           1234455666666666654  68999999964332   111110  11 11222


Q ss_pred             cHh---------------------------------hHHHHHHHhhcCCcCCCCchHHHHHHHHHHHhCCchhHHHHHHH
Q 043070          219 KVK---------------------------------YAWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTGS  265 (414)
Q Consensus       219 ~ii---------------------------------~a~~Lf~~~a~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~g~  265 (414)
                      .+|                                 |+-++|....+..-      -....+.+.+...|.+-|+..++=
T Consensus       162 ~lvv~SR~rP~l~la~lRlr~~llEi~~~~Lrf~~eE~~~fl~~~~~l~L------d~~~~~~L~~~teGW~~al~L~aL  235 (894)
T COG2909         162 TLVVTSRSRPQLGLARLRLRDELLEIGSEELRFDTEEAAAFLNDRGSLPL------DAADLKALYDRTEGWAAALQLIAL  235 (894)
T ss_pred             EEEEEeccCCCCcccceeehhhHHhcChHhhcCChHHHHHHHHHcCCCCC------ChHHHHHHHhhcccHHHHHHHHHH
Confidence            221                                 67667666543321      134467888999999999998887


Q ss_pred             HhcCCCChhHHHHHHHHhccCCCCCCCCccchhh-HHHhchhCCCCCChhHHHhHhhhhhcCCHHHHHHHHHHcCCccCC
Q 043070          266 AMTSIRNPAVWENAVNDLINYPAEFPGMGDRIFP-RLKFSYDHLPVKPTKLIFYFMNFLIFIRKDDLVDLWTGEGLLRDY  344 (414)
Q Consensus       266 ~L~~~~~~~~w~~~~~~l~~~~~~~~~~~~~~~~-~l~~sy~~L~~~~~k~cfl~lsiF~~i~~~~Li~~W~aeg~i~~~  344 (414)
                      .++.+.+.+.-...++          +....+.. ...--++.||++ +|..++-||++..+.-+-.-+           
T Consensus       236 a~~~~~~~~q~~~~Ls----------G~~~~l~dYL~eeVld~Lp~~-l~~FLl~~svl~~f~~eL~~~-----------  293 (894)
T COG2909         236 ALRNNTSAEQSLRGLS----------GAASHLSDYLVEEVLDRLPPE-LRDFLLQTSVLSRFNDELCNA-----------  293 (894)
T ss_pred             HccCCCcHHHHhhhcc----------chHHHHHHHHHHHHHhcCCHH-HHHHHHHHHhHHHhhHHHHHH-----------
Confidence            7774344333322221          00111111 122346889999 999999999994444333221           


Q ss_pred             CchHHHHHHHHHHHHHHHHcCcccccccccCCeEEECHHHHHHHHHHHcc
Q 043070          345 HNIAAARVQGKSIIEGLVLVCLLEEVEAYFGNFVKMHDMIRDLALWIASE  394 (414)
Q Consensus       345 ~~~~~~~~~~~~~l~~L~~~sLl~~~~~~~~~~~~mH~lv~~~a~~~~~~  394 (414)
                         -+.++.+...+++|.+++|+-..-++....|+.|.|..+|.+.-...
T Consensus       294 ---Ltg~~ng~amLe~L~~~gLFl~~Ldd~~~WfryH~LFaeFL~~r~~~  340 (894)
T COG2909         294 ---LTGEENGQAMLEELERRGLFLQRLDDEGQWFRYHHLFAEFLRQRLQR  340 (894)
T ss_pred             ---HhcCCcHHHHHHHHHhCCCceeeecCCCceeehhHHHHHHHHhhhcc
Confidence               12334577789999999998644444478999999999999976655

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=98.90  E-value=3.3e-08  Score=94.64  Aligned_cols=236  Identities=10%  Similarity=0.005  Sum_probs=130.2

Q ss_pred             CCccchH-HHHHHHHHhhc-----CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcch--HhH--HHHHHHHHHHhc
Q 043070           98 ENTVDVS-RLNEVWRLVED-----NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLV--ILV--KRIQHVMGYRLA  167 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~--~wv--~~l~~~i~~~l~  167 (414)
                      .+|||++ .+++|..++..     .....+.++|++|+|||+||+.+++..   ...|...  ...  ...+...+..++
T Consensus         4 ~~~iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~---~~~~~~~~~~~~~~~~~l~~~l~~~~   80 (305)
T TIGR00635         4 AEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEM---GVNLKITSGPALEKPGDLAAILTNLE   80 (305)
T ss_pred             HHHcCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHh---CCCEEEeccchhcCchhHHHHHHhcc
Confidence            4689999 99999988852     345678899999999999999999987   2222110  011  112222333333


Q ss_pred             CCCC----ccCcCCHhHHHHHHHHHhCCCcEEEEEecCCCccchhhhccC------CCC-----------CCcHh-----
Q 043070          168 MSNE----VWDDKTKQGRAIDSSRRLGQRRFALLLDDLREPIDLKTAGAS------IQN-----------GSKVK-----  221 (414)
Q Consensus       168 ~~~~----~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~~p------~~~-----------gs~ii-----  221 (414)
                      ...-    ..+..+ ....+.+...+.+.+..+|+|+..+...+.....|      .+.           ...++     
T Consensus        81 ~~~vl~iDEi~~l~-~~~~e~l~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~li~~t~~~~~l~~~l~sR~~~~~~l~~l  159 (305)
T TIGR00635        81 EGDVLFIDEIHRLS-PAVEELLYPAMEDFRLDIVIGKGPSARSVRLDLPPFTLVGATTRAGMLTSPLRDRFGIILRLEFY  159 (305)
T ss_pred             cCCEEEEehHhhhC-HHHHHHhhHHHhhhheeeeeccCccccceeecCCCeEEEEecCCccccCHHHHhhcceEEEeCCC
Confidence            2210    001111 12345577778888888889887666544321111      011           11111     


Q ss_pred             ---hHHHHHHHhhcCCcCCCCchHHHHHHHHHHHhCCchhHHHHHHHHhcC-------C-CChhHHHHHHHHhccCCCCC
Q 043070          222 ---YAWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTGSAMTS-------I-RNPAVWENAVNDLINYPAEF  290 (414)
Q Consensus       222 ---~a~~Lf~~~a~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~g~~L~~-------~-~~~~~w~~~~~~l~~~~~~~  290 (414)
                         +..+++.+.+.......+   .+....|++.|+|.|-.+..++..+..       . .+.+....            
T Consensus       160 ~~~e~~~il~~~~~~~~~~~~---~~al~~ia~~~~G~pR~~~~ll~~~~~~a~~~~~~~it~~~v~~------------  224 (305)
T TIGR00635       160 TVEELAEIVSRSAGLLNVEIE---PEAALEIARRSRGTPRIANRLLRRVRDFAQVRGQKIINRDIALK------------  224 (305)
T ss_pred             CHHHHHHHHHHHHHHhCCCcC---HHHHHHHHHHhCCCcchHHHHHHHHHHHHHHcCCCCcCHHHHHH------------
Confidence               677777776653322222   345678999999999655444432210       0 11111111            


Q ss_pred             CCCccchhhHHHhchhCCCCCChhHHHh-Hhhhh--hcCCHHHHHHHHHHcCCccCCCchHHHHHHHHHHHH-HHHHcCc
Q 043070          291 PGMGDRIFPRLKFSYDHLPVKPTKLIFY-FMNFL--IFIRKDDLVDLWTGEGLLRDYHNIAAARVQGKSIIE-GLVLVCL  366 (414)
Q Consensus       291 ~~~~~~~~~~l~~sy~~L~~~~~k~cfl-~lsiF--~~i~~~~Li~~W~aeg~i~~~~~~~~~~~~~~~~l~-~L~~~sL  366 (414)
                            ....+..+|..|++. .+..|. .++.+  .++..+.+....   |-         ....++..++ .|++++|
T Consensus       225 ------~l~~l~~~~~~l~~~-~~~~L~al~~~~~~~~~~~~~ia~~l---g~---------~~~~~~~~~e~~Li~~~l  285 (305)
T TIGR00635       225 ------ALEMLMIDELGLDEI-DRKLLSVLIEQFQGGPVGLKTLAAAL---GE---------DADTIEDVYEPYLLQIGF  285 (305)
T ss_pred             ------HHHHhCCCCCCCCHH-HHHHHHHHHHHhCCCcccHHHHHHHh---CC---------CcchHHHhhhHHHHHcCC
Confidence                  222245567777776 555444 44555  445554443311   11         2235666788 6999999


Q ss_pred             ccccc
Q 043070          367 LEEVE  371 (414)
Q Consensus       367 l~~~~  371 (414)
                      |....
T Consensus       286 i~~~~  290 (305)
T TIGR00635       286 LQRTP  290 (305)
T ss_pred             cccCC
Confidence            97554

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.

>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=98.86  E-value=1e-08  Score=93.66  Aligned_cols=43  Identities=26%  Similarity=0.312  Sum_probs=36.9

Q ss_pred             ccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          100 TVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       100 ~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      |+||+ ++++|.+++..+....+.|+|+.|+|||+|++.+.+..
T Consensus         1 F~gR~~el~~l~~~l~~~~~~~~~l~G~rg~GKTsLl~~~~~~~   44 (234)
T PF01637_consen    1 FFGREKELEKLKELLESGPSQHILLYGPRGSGKTSLLKEFINEL   44 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH--SSEEEEEESTTSSHHHHHHHHHHHC
T ss_pred             CCCHHHHHHHHHHHHHhhcCcEEEEEcCCcCCHHHHHHHHHHHh
Confidence            68999 99999999988777899999999999999999999977

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

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=98.81  E-value=4.3e-08  Score=94.74  Aligned_cols=245  Identities=11%  Similarity=0.037  Sum_probs=131.9

Q ss_pred             CCCccchH-HHHHHHHHhhc-----CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCc--chHhH--HHHHHHHHHHh
Q 043070           97 MENTVDVS-RLNEVWRLVED-----NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFG--LVILV--KRIQHVMGYRL  166 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~--~~~wv--~~l~~~i~~~l  166 (414)
                      ..+|+|++ .++.+..++..     .....+.|+|++|+|||+||+.+++..   ...+.  ..-.+  ...+..++..+
T Consensus        24 ~~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l---~~~~~~~~~~~~~~~~~l~~~l~~l  100 (328)
T PRK00080         24 LDEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEM---GVNIRITSGPALEKPGDLAAILTNL  100 (328)
T ss_pred             HHHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHh---CCCeEEEecccccChHHHHHHHHhc
Confidence            36799999 99988887742     345678999999999999999999987   22221  11112  22333444444


Q ss_pred             cCCCC----ccCcCCHhHHHHHHHHHhCCCcEEEEEecCCCccchhh----h---ccCCC----------CCCcHh----
Q 043070          167 AMSNE----VWDDKTKQGRAIDSSRRLGQRRFALLLDDLREPIDLKT----A---GASIQ----------NGSKVK----  221 (414)
Q Consensus       167 ~~~~~----~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~----~---~~p~~----------~gs~ii----  221 (414)
                      +...-    ..+..+ ....+.+...+.+.+..+|+|+..+...+..    +   +..+.          ....++    
T Consensus       101 ~~~~vl~IDEi~~l~-~~~~e~l~~~~e~~~~~~~l~~~~~~~~~~~~l~~~~li~at~~~~~l~~~L~sRf~~~~~l~~  179 (328)
T PRK00080        101 EEGDVLFIDEIHRLS-PVVEEILYPAMEDFRLDIMIGKGPAARSIRLDLPPFTLIGATTRAGLLTSPLRDRFGIVQRLEF  179 (328)
T ss_pred             ccCCEEEEecHhhcc-hHHHHHHHHHHHhcceeeeeccCccccceeecCCCceEEeecCCcccCCHHHHHhcCeeeecCC
Confidence            32210    001111 1233446667777778888887655433221    1   00000          000111    


Q ss_pred             ----hHHHHHHHhhcCCcCCCCchHHHHHHHHHHHhCCchhHHHHHHHHhcCCCChhHHHHHHHHhccCCCCCCCCccch
Q 043070          222 ----YAWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTGSAMTSIRNPAVWENAVNDLINYPAEFPGMGDRI  297 (414)
Q Consensus       222 ----~a~~Lf~~~a~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~g~~L~~~~~~~~w~~~~~~l~~~~~~~~~~~~~~  297 (414)
                          +..+++.+.+.......+   ++....|++.|+|.|-.+..+...+.      .|....+   ..... ...-...
T Consensus       180 ~~~~e~~~il~~~~~~~~~~~~---~~~~~~ia~~~~G~pR~a~~~l~~~~------~~a~~~~---~~~I~-~~~v~~~  246 (328)
T PRK00080        180 YTVEELEKIVKRSARILGVEID---EEGALEIARRSRGTPRIANRLLRRVR------DFAQVKG---DGVIT-KEIADKA  246 (328)
T ss_pred             CCHHHHHHHHHHHHHHcCCCcC---HHHHHHHHHHcCCCchHHHHHHHHHH------HHHHHcC---CCCCC-HHHHHHH
Confidence                666777776654432332   35678899999999954444333221      1211100   00000 0000123


Q ss_pred             hhHHHhchhCCCCCChhHHHh-Hhhhh--hcCCHHHHHHHHHHcCCccCCCchHHHHHHHHHHHH-HHHHcCcccccc
Q 043070          298 FPRLKFSYDHLPVKPTKLIFY-FMNFL--IFIRKDDLVDLWTGEGLLRDYHNIAAARVQGKSIIE-GLVLVCLLEEVE  371 (414)
Q Consensus       298 ~~~l~~sy~~L~~~~~k~cfl-~lsiF--~~i~~~~Li~~W~aeg~i~~~~~~~~~~~~~~~~l~-~L~~~sLl~~~~  371 (414)
                      ...+...+..|++. .+..+. .+..|  .++..+.+....   |         .....+++.++ .|++.+||+...
T Consensus       247 l~~~~~~~~~l~~~-~~~~l~~~~~~~~~~~~~~~~~a~~l---g---------~~~~~~~~~~e~~Li~~~li~~~~  311 (328)
T PRK00080        247 LDMLGVDELGLDEM-DRKYLRTIIEKFGGGPVGLDTLAAAL---G---------EERDTIEDVYEPYLIQQGFIQRTP  311 (328)
T ss_pred             HHHhCCCcCCCCHH-HHHHHHHHHHHcCCCceeHHHHHHHH---C---------CCcchHHHHhhHHHHHcCCcccCC
Confidence            34455667778776 666554 55556  556666654322   1         12234555677 899999998654

>COG3903 Predicted ATPase [General function prediction only]

Probab=98.80  E-value=7.8e-09  Score=98.82  Aligned_cols=261  Identities=18%  Similarity=0.151  Sum_probs=170.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCc-chHhH--------HHHHHHHHHHhcCCCCccCcCCHhHHHHHHHH
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFG-LVILV--------KRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSR  187 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~-~~~wv--------~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  187 (414)
                      ..+.++++|.|||||||++-.+.. .   ..-|. .++++        ..+.-.+...++.+.     .+-+.....+..
T Consensus        13 ~~RlvtL~g~ggvgkttl~~~~a~-~---~~~~~~~v~~vdl~pitD~~~v~~~~ag~~gl~~-----~~g~~~~~~~~~   83 (414)
T COG3903          13 ALRLVTLTGAGGVGKTTLALQAAH-A---ASEYADGVAFVDLAPITDPALVFPTLAGALGLHV-----QPGDSAVDTLVR   83 (414)
T ss_pred             hhheeeeeccCccceehhhhhhHh-H---hhhcccceeeeeccccCchhHhHHHHHhhccccc-----ccchHHHHHHHH
Confidence            457899999999999999999998 5   45664 44455        333444444466654     222344556777


Q ss_pred             HhCCCcEEEEEecCCCccc------hhhhccCCCCCCcHh------------------------hHHHHHHHhhcCCc--
Q 043070          188 RLGQRRFALLLDDLREPID------LKTAGASIQNGSKVK------------------------YAWNLFQLKVTDDV--  235 (414)
Q Consensus       188 ~L~~kr~LlVlDdv~~~~~------~~~~~~p~~~gs~ii------------------------~a~~Lf~~~a~~~~--  235 (414)
                      ...++|.++|+||..+..+      |.-+ . +...-.++                        ++.++|...+....  
T Consensus        84 ~~~~rr~llvldncehl~~~~a~~i~all-~-~~~~~~~~atsre~~l~~ge~~~~~~~L~~~d~a~~lf~~ra~~~~~~  161 (414)
T COG3903          84 RIGDRRALLVLDNCEHLLDACAALIVALL-G-ACPRLAILATSREAILVAGEVHRRVPSLSLFDEAIELFVCRAVLVALS  161 (414)
T ss_pred             HHhhhhHHHHhcCcHHHHHHHHHHHHHHH-c-cchhhhhHHHhHhhhcccccccccCCccccCCchhHHHHHHHHHhccc
Confidence            8889999999999876542      1111 0 11111222                        67788776663321  


Q ss_pred             CCCCchHHHHHHHHHHHhCCchhHHHHHHHHhcCCCChhHHHHHHHH----hccCCCCCCCCccchhhHHHhchhCCCCC
Q 043070          236 LNSHRDIRKHAETVAGLCGGLPLSLITTGSAMTSIRNPAVWENAVND----LINYPAEFPGMGDRIFPRLKFSYDHLPVK  311 (414)
Q Consensus       236 ~~~~~~l~~~~~~I~~~c~GlPLai~~~g~~L~~~~~~~~w~~~~~~----l~~~~~~~~~~~~~~~~~l~~sy~~L~~~  311 (414)
                      ............+|+++.+|.||+|..+++..+. ....+-...++.    +........--+....+.+.+||.-|..-
T Consensus       162 f~l~~~~~a~v~~icr~ldg~~laielaaarv~s-l~~~~i~~~L~drf~ll~~~~r~a~~~~qtl~asl~ws~~lLtgw  240 (414)
T COG3903         162 FWLTDDNAAAVAEICRRLDGIPLAIELAAARVRS-LSPDEIAAGLRDRFRLLTGGARLAVLRQQTLRASLDWSYALLTGW  240 (414)
T ss_pred             eeecCCchHHHHHHHHHhhcchHHHHHHHHHHHh-cCHHHHHHHHhhHHHHHhcccccchhHHHhccchhhhhhHhhhhH
Confidence            1122233567789999999999999999999888 544444333321    22221111112347889999999999998


Q ss_pred             ChhHHHhHhhhh-hcCCHHHHHHHHHHcCCccCCCchHHHHHHHHHHHHHHHHcCcccccccccCCeEEECHHHHHHHHH
Q 043070          312 PTKLIFYFMNFL-IFIRKDDLVDLWTGEGLLRDYHNIAAARVQGKSIIEGLVLVCLLEEVEAYFGNFVKMHDMIRDLALW  390 (414)
Q Consensus       312 ~~k~cfl~lsiF-~~i~~~~Li~~W~aeg~i~~~~~~~~~~~~~~~~l~~L~~~sLl~~~~~~~~~~~~mH~lv~~~a~~  390 (414)
                       .+--|.-++.| ..|..+  ...|.+-|-....     +.......+..|+++|++...+......|+.-+-++.|+..
T Consensus       241 -e~~~~~rLa~~~g~f~~~--l~~~~a~g~~~~~-----~~y~~~~a~~ll~~kslv~a~~~~~~a~~Rl~eT~r~Yala  312 (414)
T COG3903         241 -ERALFGRLAVFVGGFDLG--LALAVAAGADVDV-----PRYLVLLALTLLVDKSLVVALDLLGRARYRLLETGRRYALA  312 (414)
T ss_pred             -HHHHhcchhhhhhhhccc--HHHHHhcCCcccc-----chHHHHHHHHHHhhccchhhhhhhhHHHHHHHHHHHHHHHH
Confidence             99999999999 666665  3345554433211     22344455788999999877664445678888889999988


Q ss_pred             HHcccCc
Q 043070          391 IASEDQE  397 (414)
Q Consensus       391 ~~~~e~~  397 (414)
                      +..+.++
T Consensus       313 eL~r~~e  319 (414)
T COG3903         313 ELHRSGE  319 (414)
T ss_pred             HHHhhhH
Confidence            8777544

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=98.50  E-value=1.8e-05  Score=82.97  Aligned_cols=266  Identities=14%  Similarity=0.061  Sum_probs=135.7

Q ss_pred             CCCccchH-HHHHHHHHhhc-----CCceEEEEEcCCCCcHHHHHHHHHHhhhhcC--CCCcc--hHhH--------HHH
Q 043070           97 MENTVDVS-RLNEVWRLVED-----NSVRIICLHGVSRLGKTTLLYNLNKKFNDTR--HNFGL--VILV--------KRI  158 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~--~~F~~--~~wv--------~~l  158 (414)
                      ++.+.||| ++++|...|..     ....++-|+|++|.|||+.++.|.+......  .....  .++|        ..+
T Consensus       754 PD~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp~sI  833 (1164)
T PTZ00112        754 PKYLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHPNAA  833 (1164)
T ss_pred             CCcCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCHHHH
Confidence            36688999 99999999843     2335778999999999999999988762111  11111  1222        667


Q ss_pred             HHHHHHHhcCCCCccCcCCHhHHHHHHHHHhCC---CcEEEEEecCCCcc-----chhhh-ccCCCCCCcHh--------
Q 043070          159 QHVMGYRLAMSNEVWDDKTKQGRAIDSSRRLGQ---RRFALLLDDLREPI-----DLKTA-GASIQNGSKVK--------  221 (414)
Q Consensus       159 ~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L~~---kr~LlVlDdv~~~~-----~~~~~-~~p~~~gs~ii--------  221 (414)
                      ...|..+|....+. ...+.......+...+..   ...+||||+++...     .+-.+ ..+...+++|+        
T Consensus       834 YqvI~qqL~g~~P~-~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L~kK~QDVLYnLFR~~~~s~SKLiLIGISNdl  912 (1164)
T PTZ00112        834 YQVLYKQLFNKKPP-NALNSFKILDRLFNQNKKDNRNVSILIIDEIDYLITKTQKVLFTLFDWPTKINSKLVLIAISNTM  912 (1164)
T ss_pred             HHHHHHHHcCCCCC-ccccHHHHHHHHHhhhhcccccceEEEeehHhhhCccHHHHHHHHHHHhhccCCeEEEEEecCch
Confidence            88888888544322 233344455555555522   34689999998653     12211 22333445544        


Q ss_pred             hHH-HHHH---HhhcCC----cCCCCchHHHHHHHHHHHhCC--chhHHHHHHHHhcCCCChhHHHHHHHHhccCCC--C
Q 043070          222 YAW-NLFQ---LKVTDD----VLNSHRDIRKHAETVAGLCGG--LPLSLITTGSAMTSIRNPAVWENAVNDLINYPA--E  289 (414)
Q Consensus       222 ~a~-~Lf~---~~a~~~----~~~~~~~l~~~~~~I~~~c~G--lPLai~~~g~~L~~~~~~~~w~~~~~~l~~~~~--~  289 (414)
                      +-. .|..   ......    ......++.+|.+.-++.+.+  -|=||..+|...+..  ...-+.+++-|.....  .
T Consensus       913 DLperLdPRLRSRLg~eeIvF~PYTaEQL~dILk~RAe~A~gVLdDdAIELIArkVAq~--SGDARKALDILRrAgEike  990 (1164)
T PTZ00112        913 DLPERLIPRCRSRLAFGRLVFSPYKGDEIEKIIKERLENCKEIIDHTAIQLCARKVANV--SGDIRKALQICRKAFENKR  990 (1164)
T ss_pred             hcchhhhhhhhhccccccccCCCCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhhc--CCHHHHHHHHHHHHHhhcC
Confidence            101 1111   111110    112333555555555555443  256666666644431  1222223322222110  0


Q ss_pred             CCCC-ccchhhHH--------HhchhCCCCCChhHHHhHhhh-h------hcCCHHHHHHHH--HHc--C-CccCCCchH
Q 043070          290 FPGM-GDRIFPRL--------KFSYDHLPVKPTKLIFYFMNF-L------IFIRKDDLVDLW--TGE--G-LLRDYHNIA  348 (414)
Q Consensus       290 ~~~~-~~~~~~~l--------~~sy~~L~~~~~k~cfl~lsi-F------~~i~~~~Li~~W--~ae--g-~i~~~~~~~  348 (414)
                      .... ...+..++        .-....||.+ . .+||+..+ .      ..++...+....  +++  | .+...  ..
T Consensus       991 gskVT~eHVrkAleeiE~srI~e~IktLPlH-q-KLVLlALIlLlk~tg~~~i~TGEVYerYk~Lce~~Gk~iGv~--pl 1066 (1164)
T PTZ00112        991 GQKIVPRDITEATNQLFDSPLTNAINYLPWP-F-KMFLTCLIVELRMLNDFIIPYKKVLNRYKVLVETSGKYIGMC--SN 1066 (1164)
T ss_pred             CCccCHHHHHHHHHHHHhhhHHHHHHcCCHH-H-HHHHHHHHHHHhhcCCCceeHHHHHHHHHHHHHhhhhhcCCC--Cc
Confidence            0000 11222222        3344578876 4 44444333 2      246666665543  333  1 11111  11


Q ss_pred             HHHHHHHHHHHHHHHcCcccccc
Q 043070          349 AARVQGKSIIEGLVLVCLLEEVE  371 (414)
Q Consensus       349 ~~~~~~~~~l~~L~~~sLl~~~~  371 (414)
                       .+ ....++.+|...|+|....
T Consensus      1067 -Tq-RV~d~L~eL~~LGIIl~ep 1087 (1164)
T PTZ00112       1067 -NE-LFKIMLDKLVKMGILLIRP 1087 (1164)
T ss_pred             -HH-HHHHHHHHHHhcCeEEecC
Confidence             12 6788999999999986543

>PRK13342 recombination factor protein RarA; Reviewed

Probab=98.50  E-value=3.6e-06  Score=83.98  Aligned_cols=47  Identities=23%  Similarity=0.312  Sum_probs=39.9

Q ss_pred             cCCCccchH-HHHH---HHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           96 DMENTVDVS-RLNE---VWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        96 ~~~~~vGr~-~~~~---l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+++||.+ .+..   +.+++.......+.++|++|+||||||+.+++..
T Consensus        10 ~l~d~vGq~~~v~~~~~L~~~i~~~~~~~ilL~GppGtGKTtLA~~ia~~~   60 (413)
T PRK13342         10 TLDEVVGQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLARIIAGAT   60 (413)
T ss_pred             CHHHhcCcHHHhCcchHHHHHHHcCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            346789998 7666   8888877777788999999999999999999877

>PTZ00202 tuzin; Provisional

Probab=98.50  E-value=8.7e-07  Score=86.11  Aligned_cols=101  Identities=15%  Similarity=0.051  Sum_probs=68.4

Q ss_pred             ccccCCCccchH-HHHHHHHHhhc---CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCC-cchHhHHHHHHHHHHHhc
Q 043070           93 EVQDMENTVDVS-RLNEVWRLVED---NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNF-GLVILVKRIQHVMGYRLA  167 (414)
Q Consensus        93 ~~~~~~~~vGr~-~~~~l~~~L~~---~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F-~~~~wv~~l~~~i~~~l~  167 (414)
                      .|.+...|+||+ ++..+...|.+   ...+++.|+|++|+|||||++.+..... .-..| +.+ =..+++..|+.+||
T Consensus       257 lPa~~~~FVGReaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~l~-~~qL~vNpr-g~eElLr~LL~ALG  334 (550)
T PTZ00202        257 APAVIRQFVSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRKEG-MPAVFVDVR-GTEDTLRSVVKALG  334 (550)
T ss_pred             CCCCccCCCCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhcCC-ceEEEECCC-CHHHHHHHHHHHcC
Confidence            345567899999 99999999954   3346899999999999999999997662 11111 111 11999999999999


Q ss_pred             CCCCccCcCCHhHHHHHHHHHh-----C-CCcEEEEEe
Q 043070          168 MSNEVWDDKTKQGRAIDSSRRL-----G-QRRFALLLD  199 (414)
Q Consensus       168 ~~~~~~~~~~~~~~~~~l~~~L-----~-~kr~LlVlD  199 (414)
                      .+..    ....++...|.+.|     . |++.+||+-
T Consensus       335 V~p~----~~k~dLLrqIqeaLl~~~~e~GrtPVLII~  368 (550)
T PTZ00202        335 VPNV----EACGDLLDFISEACRRAKKMNGETPLLVLK  368 (550)
T ss_pred             CCCc----ccHHHHHHHHHHHHHHHHHhCCCCEEEEEE
Confidence            7432    22233444444433     3 567777763

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

Probab=98.42  E-value=1.5e-06  Score=83.08  Aligned_cols=106  Identities=24%  Similarity=0.261  Sum_probs=68.0

Q ss_pred             CCCccchH-HH---HHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhHHHHHHHHHHHhcCCCCc
Q 043070           97 MENTVDVS-RL---NEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILVKRIQHVMGYRLAMSNEV  172 (414)
Q Consensus        97 ~~~~vGr~-~~---~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv~~l~~~i~~~l~~~~~~  172 (414)
                      -+++||-+ -+   .-|..++..+.+.-...||++|+||||||+.+....   ...|..              +....  
T Consensus        23 lde~vGQ~HLlg~~~~lrr~v~~~~l~SmIl~GPPG~GKTTlA~liA~~~---~~~f~~--------------~sAv~--   83 (436)
T COG2256          23 LDEVVGQEHLLGEGKPLRRAVEAGHLHSMILWGPPGTGKTTLARLIAGTT---NAAFEA--------------LSAVT--   83 (436)
T ss_pred             HHHhcChHhhhCCCchHHHHHhcCCCceeEEECCCCCCHHHHHHHHHHhh---CCceEE--------------ecccc--
Confidence            35677776 22   445566677888889999999999999999999977   556622              11111  


Q ss_pred             cCcCCHhHHHHHHHH-HhCCCcEEEEEecCCCcc-chhhhccC-CCCCCcHh
Q 043070          173 WDDKTKQGRAIDSSR-RLGQRRFALLLDDLREPI-DLKTAGAS-IQNGSKVK  221 (414)
Q Consensus       173 ~~~~~~~~~~~~l~~-~L~~kr~LlVlDdv~~~~-~~~~~~~p-~~~gs~ii  221 (414)
                      ....++.+..+.-++ ...|++.+|++|.|-.-. .-+++.+| -.+|..++
T Consensus        84 ~gvkdlr~i~e~a~~~~~~gr~tiLflDEIHRfnK~QQD~lLp~vE~G~iil  135 (436)
T COG2256          84 SGVKDLREIIEEARKNRLLGRRTILFLDEIHRFNKAQQDALLPHVENGTIIL  135 (436)
T ss_pred             ccHHHHHHHHHHHHHHHhcCCceEEEEehhhhcChhhhhhhhhhhcCCeEEE
Confidence            122344444444433 345899999999997554 22233366 55665555

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

Probab=98.40  E-value=6.7e-07  Score=78.64  Aligned_cols=44  Identities=30%  Similarity=0.388  Sum_probs=31.4

Q ss_pred             CccchH-HHHHHHHHhh---cCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           99 NTVDVS-RLNEVWRLVE---DNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        99 ~~vGr~-~~~~l~~~L~---~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .||||+ +++++...|.   ....+.+.|+|.+|+|||+|.+.++...
T Consensus         1 ~fvgR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~   48 (185)
T PF13191_consen    1 QFVGREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRL   48 (185)
T ss_dssp             --TT-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            489999 9999999992   3557899999999999999999998887

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

Probab=98.35  E-value=6.8e-07  Score=74.02  Aligned_cols=86  Identities=26%  Similarity=0.303  Sum_probs=59.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhc--CCCCcchHhH--------HHHHHHHHHHhcCCCCccCcCCHhHHHHHHH
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDT--RHNFGLVILV--------KRIQHVMGYRLAMSNEVWDDKTKQGRAIDSS  186 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v--~~~F~~~~wv--------~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~  186 (414)
                      +.+.+.|+|.+|+|||++++.+.+.....  ...-...+|+        ..+...|+..++....  ...+...+.+.+.
T Consensus         3 ~~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~--~~~~~~~l~~~~~   80 (131)
T PF13401_consen    3 SQRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLK--SRQTSDELRSLLI   80 (131)
T ss_dssp             ----EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSS--STS-HHHHHHHHH
T ss_pred             CCcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCcccc--ccCCHHHHHHHHH
Confidence            34689999999999999999999876210  0002233455        8899999999987763  2356777888888


Q ss_pred             HHhCCCcE-EEEEecCCCc
Q 043070          187 RRLGQRRF-ALLLDDLREP  204 (414)
Q Consensus       187 ~~L~~kr~-LlVlDdv~~~  204 (414)
                      +.+...+. +||+|++...
T Consensus        81 ~~l~~~~~~~lviDe~~~l   99 (131)
T PF13401_consen   81 DALDRRRVVLLVIDEADHL   99 (131)
T ss_dssp             HHHHHCTEEEEEEETTHHH
T ss_pred             HHHHhcCCeEEEEeChHhc
Confidence            88877555 9999998664

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

Probab=98.25  E-value=6.3e-07  Score=82.61  Aligned_cols=92  Identities=15%  Similarity=0.146  Sum_probs=58.0

Q ss_pred             HHHhhc-CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH----------HHHHHHHHH-----HhcCCCCcc
Q 043070          110 WRLVED-NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV----------KRIQHVMGY-----RLAMSNEVW  173 (414)
Q Consensus       110 ~~~L~~-~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv----------~~l~~~i~~-----~l~~~~~~~  173 (414)
                      ++.+.. ..-..++|+|.+|+|||||++.+|++..  ..+|+..+|+          .++++.+..     +++.+... 
T Consensus         7 id~~~~i~~Gqr~~I~G~~G~GKTTLlr~I~n~l~--~~~fdv~~~v~vI~er~~ev~el~~~I~~~~v~~~~~~~~~~-   83 (249)
T cd01128           7 VDLFAPIGKGQRGLIVAPPKAGKTTLLQSIANAIT--KNHPEVYLIVLLIDERPEEVTDMQRSVKGEVIASTFDEPPER-   83 (249)
T ss_pred             eeeecccCCCCEEEEECCCCCCHHHHHHHHHhccc--cccCCeEEEEEEccCCCccHHHHHHHhccEEEEecCCCCHHH-
Confidence            344433 3456899999999999999999999983  3489999897          566777622     22221100 


Q ss_pred             CcCCHhHHHHHHHHH-hCCCcEEEEEecCCCc
Q 043070          174 DDKTKQGRAIDSSRR-LGQRRFALLLDDLREP  204 (414)
Q Consensus       174 ~~~~~~~~~~~l~~~-L~~kr~LlVlDdv~~~  204 (414)
                      ...-........... -.|++.+|++|++-..
T Consensus        84 ~~~~~~~~~~~a~~~~~~G~~vll~iDei~r~  115 (249)
T cd01128          84 HVQVAEMVLEKAKRLVEHGKDVVILLDSITRL  115 (249)
T ss_pred             HHHHHHHHHHHHHHHHHCCCCEEEEEECHHHh
Confidence            000111222233322 2579999999998654

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.

>PRK06893 DNA replication initiation factor; Validated

Probab=98.22  E-value=1e-05  Score=73.97  Aligned_cols=45  Identities=18%  Similarity=0.241  Sum_probs=30.7

Q ss_pred             CCccchH---HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS---RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~---~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++|+|-+   ....+.+.......+.+.|+|.+|+|||+|++.+++..
T Consensus        16 d~f~~~~~~~~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~ai~~~~   63 (229)
T PRK06893         16 DNFYADNNLLLLDSLRKNFIDLQQPFFYIWGGKSSGKSHLLKAVSNHY   63 (229)
T ss_pred             cccccCChHHHHHHHHHHhhccCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            5566433   22333333333344678999999999999999999986

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

Probab=98.19  E-value=1.1e-05  Score=72.15  Aligned_cols=48  Identities=17%  Similarity=0.268  Sum_probs=34.4

Q ss_pred             ccCCCccchH-HHHHHHHHhh-----cCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           95 QDMENTVDVS-RLNEVWRLVE-----DNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        95 ~~~~~~vGr~-~~~~l~~~L~-----~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-++|||.+ -++++.-.+.     ++.+.-+.++|++|+||||||.-+++..
T Consensus        21 ~~L~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~   74 (233)
T PF05496_consen   21 KSLDEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANEL   74 (233)
T ss_dssp             SSCCCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHHC
T ss_pred             CCHHHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhcc
Confidence            3447899999 6666554442     2457789999999999999999999988

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.

>COG3899 Predicted ATPase [General function prediction only]

Probab=98.18  E-value=0.00017  Score=78.04  Aligned_cols=272  Identities=15%  Similarity=0.142  Sum_probs=155.9

Q ss_pred             CccchH-HHHHHHHHhhc---CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCC-----CCc-------chHhH---HHHH
Q 043070           99 NTVDVS-RLNEVWRLVED---NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRH-----NFG-------LVILV---KRIQ  159 (414)
Q Consensus        99 ~~vGr~-~~~~l~~~L~~---~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~-----~F~-------~~~wv---~~l~  159 (414)
                      .++||+ +++.|...+..   ..-.++.+.|..|||||+|+++|.....+.+.     .|+       ...||   +++.
T Consensus         1 ~l~GRe~ev~~Ll~~f~~v~~g~~~~~lv~G~sGIGKsalv~ev~~~i~~~~~~~i~~~f~q~~~~ipl~~lvq~~r~l~   80 (849)
T COG3899           1 PLYGRETELAQLLAAFDRVSKGRGEVVLVAGESGIGKSALVNEVHKPITQQRGYFIKGKFDQFERNIPLSPLVQAFRDLM   80 (849)
T ss_pred             CCCchHhHHHHHHHHHHHHhCCCeEEEEEeecCCCcHHHHHHHHHHHHhccceeeeHhhcccccCCCchHHHHHHHHHHH
Confidence            378999 99999999954   55679999999999999999999987733222     222       12233   1111


Q ss_pred             H---------------HHHHHhcCCC------------------Ccc--CcCCHh-----HHHHHHHHHhC-CCcEEEEE
Q 043070          160 H---------------VMGYRLAMSN------------------EVW--DDKTKQ-----GRAIDSSRRLG-QRRFALLL  198 (414)
Q Consensus       160 ~---------------~i~~~l~~~~------------------~~~--~~~~~~-----~~~~~l~~~L~-~kr~LlVl  198 (414)
                      .               .|+..++...                  +..  .+....     .....+..... .|+.++|+
T Consensus        81 ~~ll~~~~~~~~~~~~~il~~~g~~~~~~~~vip~L~~i~g~~~~~~el~~~~~~~r~n~~~~~~i~~~~~~~~plVi~l  160 (849)
T COG3899          81 GQLLSESDTRILSWRARLLAALGENGQVIIDVIPELELIIGKRPPALELSPTAAQNRFNLAFLRFIQVFTAEEHPLVIVL  160 (849)
T ss_pred             HHHhhccchHHHHHHHHHHHHhcccchhHHhhhHHHHhhcCCCcchhhcccchhHHHHHHHHHHHHHHHHhccCCeEEEE
Confidence            1               1222222111                  100  011111     12223333333 46999999


Q ss_pred             ecCCCcc--chhhhccC---C-------CCCCcHh---------------------------hHHHHHHHhhcCCcCCCC
Q 043070          199 DDLREPI--DLKTAGAS---I-------QNGSKVK---------------------------YAWNLFQLKVTDDVLNSH  239 (414)
Q Consensus       199 Ddv~~~~--~~~~~~~p---~-------~~gs~ii---------------------------~a~~Lf~~~a~~~~~~~~  239 (414)
                      ||+--.+  .++-+...   .       +..+.+.                           +.-.+.........    
T Consensus       161 eDlhWaD~~SL~lL~~lm~~~~~~~~~~n~v~~~h~~~~~~~~~~~~~~~i~~I~L~PL~~~d~~~lV~~~l~~~~----  236 (849)
T COG3899         161 EDLHWADSASLKLLQLLMDRIAIGAYRDNEVLLLHPLRPTLGEILKSATNITTITLAPLSRADTNQLVAATLGCTK----  236 (849)
T ss_pred             ecccccChhHHHHHHHHHHhcchhhhhccccccCCCccchhhHHhhcCCceeEEecCcCchhhHHHHHHHHhCCcc----
Confidence            9994332  11111000   0       0000000                           44444444444322    


Q ss_pred             chHHHHHHHHHHHhCCchhHHHHHHHHhcCC------CChhHHHHHHHHhccCCCCCCCCccchhhHHHhchhCCCCCCh
Q 043070          240 RDIRKHAETVAGLCGGLPLSLITTGSAMTSI------RNPAVWENAVNDLINYPAEFPGMGDRIFPRLKFSYDHLPVKPT  313 (414)
Q Consensus       240 ~~l~~~~~~I~~~c~GlPLai~~~g~~L~~~------~~~~~w~~~~~~l~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~  313 (414)
                      +...+..+.|.++..|.|+-+..+-..|..+      .+...|..-...+    ......+ .+...+..-.+.||.. .
T Consensus       237 ~~~~p~~~~i~~kt~GnPfFi~e~lk~l~~~~~i~f~~~~~~w~~~~~~i----~~~~~~~-~vv~~l~~rl~kL~~~-t  310 (849)
T COG3899         237 LLPAPLLELIFEKTKGNPFFIEEFLKALYEEGLLVFNFDTGAWQCSIASL----GILATTD-AVVEFLAARLQKLPGT-T  310 (849)
T ss_pred             cccchHHHHHHHHhcCCCccHHHHHHHHHhCCeeEecCCCcceeccHHhc----CCchhhH-HHHHHHHHHHhcCCHH-H
Confidence            2235677889999999999999988888773      2344444322221    1112222 3555788899999998 9


Q ss_pred             hHHHhHhhhh-hcCCHHHHHHHHHHcCCccCCCchHHHHHHHHHHHHHHHHcCccccccccc----CCeE---EECHHHH
Q 043070          314 KLIFYFMNFL-IFIRKDDLVDLWTGEGLLRDYHNIAAARVQGKSIIEGLVLVCLLEEVEAYF----GNFV---KMHDMIR  385 (414)
Q Consensus       314 k~cfl~lsiF-~~i~~~~Li~~W~aeg~i~~~~~~~~~~~~~~~~l~~L~~~sLl~~~~~~~----~~~~---~mH~lv~  385 (414)
                      |.-+...|++ ..|+.+.|...+-.           ....++....+.|....++-..+.++    ....   -.|++++
T Consensus       311 ~~Vl~~AA~iG~~F~l~~La~l~~~-----------~~~~~a~~l~~al~e~lI~~~~~~yr~~~~~~~~~Y~F~H~~vq  379 (849)
T COG3899         311 REVLKAAACIGNRFDLDTLAALAED-----------SPALEAAALLDALQEGLILPLSETYRFGSNVDIATYKFLHDRVQ  379 (849)
T ss_pred             HHHHHHHHHhCccCCHHHHHHHHhh-----------chHHHHHHHHHHhHhhceeccccccccccccchhhHHhhHHHHH
Confidence            9999999999 88888888775532           34455666666666665554332111    1122   5688888


Q ss_pred             HHHHHH
Q 043070          386 DLALWI  391 (414)
Q Consensus       386 ~~a~~~  391 (414)
                      +.|-..
T Consensus       380 qaaY~~  385 (849)
T COG3899         380 QAAYNL  385 (849)
T ss_pred             HHHhcc
Confidence            777543

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

Probab=98.15  E-value=5.4e-05  Score=73.83  Aligned_cols=106  Identities=12%  Similarity=0.131  Sum_probs=78.3

Q ss_pred             CCccchH-HHHHHHHHhhc----CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCC---cchHhH----HHHHHHHHHH
Q 043070           98 ENTVDVS-RLNEVWRLVED----NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNF---GLVILV----KRIQHVMGYR  165 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F---~~~~wv----~~l~~~i~~~  165 (414)
                      +.+.+|+ +++++...|..    ....-+.|+|.+|+|||+.++.+.+.........   ...+|.    .+++..|+++
T Consensus        17 ~~l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~i~~~   96 (366)
T COG1474          17 EELPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKILNK   96 (366)
T ss_pred             ccccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHHHHHHH
Confidence            4488999 99999999843    3333499999999999999999999883222222   233344    8899999999


Q ss_pred             hcCCCCccCcCCHhHHHHHHHHHhC--CCcEEEEEecCCCcc
Q 043070          166 LAMSNEVWDDKTKQGRAIDSSRRLG--QRRFALLLDDLREPI  205 (414)
Q Consensus       166 l~~~~~~~~~~~~~~~~~~l~~~L~--~kr~LlVlDdv~~~~  205 (414)
                      ++..+.  ......+..+.+.+.+.  ++.+++|||+++...
T Consensus        97 ~~~~p~--~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~  136 (366)
T COG1474          97 LGKVPL--TGDSSLEILKRLYDNLSKKGKTVIVILDEVDALV  136 (366)
T ss_pred             cCCCCC--CCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhc
Confidence            973332  45666777777888775  488999999998664

>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=98.14  E-value=9.8e-06  Score=67.67  Aligned_cols=42  Identities=21%  Similarity=0.253  Sum_probs=36.9

Q ss_pred             cchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          101 VDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       101 vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +|++ .+..+...+.......+.|+|.+|+|||++++.+++..
T Consensus         1 ~~~~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l~~~i~~~~   43 (151)
T cd00009           1 VGQEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANEL   43 (151)
T ss_pred             CchHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHh
Confidence            3677 88888888876667789999999999999999999987

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.

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=98.10  E-value=5e-06  Score=80.32  Aligned_cols=93  Identities=16%  Similarity=0.223  Sum_probs=56.8

Q ss_pred             HHHHHhhc-CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH----------HHHHHHHHHHhcCCCCccCcC
Q 043070          108 EVWRLVED-NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV----------KRIQHVMGYRLAMSNEVWDDK  176 (414)
Q Consensus       108 ~l~~~L~~-~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv----------~~l~~~i~~~l~~~~~~~~~~  176 (414)
                      ++++++.. ..-....|+|++|+||||||+.+|+...  ..+|+.++||          .++++.|...+-...  ++..
T Consensus       158 rvID~l~PIGkGQR~lIvgppGvGKTTLaK~Ian~I~--~nhFDv~~~VvLIgER~~EVtdiqrsIlg~vv~st--~d~~  233 (416)
T PRK09376        158 RIIDLIAPIGKGQRGLIVAPPKAGKTVLLQNIANSIT--TNHPEVHLIVLLIDERPEEVTDMQRSVKGEVVAST--FDEP  233 (416)
T ss_pred             eeeeeecccccCceEEEeCCCCCChhHHHHHHHHHHH--hhcCCeEEEEEEeCCchhHHHHHHHHhcCcEEEEC--CCCC
Confidence            34444433 3446789999999999999999999983  3499999998          345555542211111  0111


Q ss_pred             CH------hHHHHHHHHH-hCCCcEEEEEecCCCc
Q 043070          177 TK------QGRAIDSSRR-LGQRRFALLLDDLREP  204 (414)
Q Consensus       177 ~~------~~~~~~l~~~-L~~kr~LlVlDdv~~~  204 (414)
                      ..      ....+..... -.|+++||++|++-..
T Consensus       234 ~~~~~~~a~~~ie~Ae~~~e~G~dVlL~iDsItR~  268 (416)
T PRK09376        234 AERHVQVAEMVIEKAKRLVEHGKDVVILLDSITRL  268 (416)
T ss_pred             HHHHHHHHHHHHHHHHHHHHcCCCEEEEEEChHHH
Confidence            11      1112222222 2679999999998554

>PRK04195 replication factor C large subunit; Provisional

Probab=98.08  E-value=0.00026  Score=72.09  Aligned_cols=46  Identities=20%  Similarity=0.352  Sum_probs=40.0

Q ss_pred             CCCccchH-HHHHHHHHhhc----CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           97 MENTVDVS-RLNEVWRLVED----NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+++|.+ .++++.+|+..    ...+.+.|+|++|+||||+|+.+++..
T Consensus        13 l~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el   63 (482)
T PRK04195         13 LSDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDY   63 (482)
T ss_pred             HHHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHc
Confidence            46689999 99999999954    226789999999999999999999987

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

Probab=97.95  E-value=0.00048  Score=63.25  Aligned_cols=47  Identities=17%  Similarity=0.298  Sum_probs=38.4

Q ss_pred             cCCCccchH-HHHHHHHHhh-----cCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           96 DMENTVDVS-RLNEVWRLVE-----DNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        96 ~~~~~vGr~-~~~~l~~~L~-----~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+|||.+ -++++.=.+.     ++.+.-+.++|++|.||||||.-+++..
T Consensus        24 ~l~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~Em   76 (332)
T COG2255          24 TLDEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANEL   76 (332)
T ss_pred             cHHHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHHh
Confidence            346799999 7776665553     2567889999999999999999999988

>PF05729 NACHT: NACHT domain

Probab=97.95  E-value=1.3e-05  Score=68.86  Aligned_cols=78  Identities=22%  Similarity=0.277  Sum_probs=46.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCC----CcchHhH-------H----HHHHHHHHHhcCCCCccCcCCHhHHHH
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKFNDTRHN----FGLVILV-------K----RIQHVMGYRLAMSNEVWDDKTKQGRAI  183 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~----F~~~~wv-------~----~l~~~i~~~l~~~~~~~~~~~~~~~~~  183 (414)
                      +++.|+|.+|+||||+++.++.... ....    +...+|+       .    .+...|..+.....     .....   
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~-----~~~~~---   71 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLA-EEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESI-----APIEE---   71 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHH-hcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccch-----hhhHH---
Confidence            5789999999999999999998872 2222    2233344       1    23333333332211     11111   


Q ss_pred             HHHHH-hCCCcEEEEEecCCCcc
Q 043070          184 DSSRR-LGQRRFALLLDDLREPI  205 (414)
Q Consensus       184 ~l~~~-L~~kr~LlVlDdv~~~~  205 (414)
                      .+... -..++++||||++++..
T Consensus        72 ~~~~~~~~~~~~llilDglDE~~   94 (166)
T PF05729_consen   72 LLQELLEKNKRVLLILDGLDELE   94 (166)
T ss_pred             HHHHHHHcCCceEEEEechHhcc
Confidence            22222 25789999999998764

>TIGR00767 rho transcription termination factor Rho

Probab=97.94  E-value=1.6e-05  Score=77.24  Aligned_cols=87  Identities=15%  Similarity=0.132  Sum_probs=56.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH----------HHHHHHHHHHhcCCCCccCcCC----HhHH
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV----------KRIQHVMGYRLAMSNEVWDDKT----KQGR  181 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv----------~~l~~~i~~~l~~~~~~~~~~~----~~~~  181 (414)
                      ..-..++|+|.+|+|||||++.+++...  .++|+..+||          .++++.|+..+-..........    .+..
T Consensus       166 g~Gq~~~IvG~~g~GKTtL~~~i~~~I~--~nhfdv~v~VlLIgER~~EVtDLqrsIlg~Vvast~d~p~~~~~~va~~v  243 (415)
T TIGR00767       166 GKGQRGLIVAPPKAGKTVLLQKIAQAIT--RNHPEVELIVLLIDERPEEVTDMQRSVKGEVVASTFDEPASRHVQVAEMV  243 (415)
T ss_pred             CCCCEEEEECCCCCChhHHHHHHHHhhc--ccCCceEEEEEEcCCCCccHHHHHHHhhceEEEecCCCChHHHHHHHHHH
Confidence            3456899999999999999999999983  4579988898          5667777443322211001111    1112


Q ss_pred             HHHHHHH-hCCCcEEEEEecCCCc
Q 043070          182 AIDSSRR-LGQRRFALLLDDLREP  204 (414)
Q Consensus       182 ~~~l~~~-L~~kr~LlVlDdv~~~  204 (414)
                      .+..... -.|++.+|++|++-..
T Consensus       244 ~e~Ae~~~~~GkdVVLlIDEitR~  267 (415)
T TIGR00767       244 IEKAKRLVEHKKDVVILLDSITRL  267 (415)
T ss_pred             HHHHHHHHHcCCCeEEEEEChhHH
Confidence            2222222 2589999999998654

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

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

Probab=97.75  E-value=4.3e-05  Score=72.14  Aligned_cols=107  Identities=19%  Similarity=0.206  Sum_probs=63.7

Q ss_pred             CCccchH----HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhHHHHHHHHHHHhcCCCCcc
Q 043070           98 ENTVDVS----RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILVKRIQHVMGYRLAMSNEVW  173 (414)
Q Consensus        98 ~~~vGr~----~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv~~l~~~i~~~l~~~~~~~  173 (414)
                      .+.||.+    +-.-|.+++..+.++.+.+||++|.||||||+.+.+..   +.+-  ..|           +.......
T Consensus       138 ~dyvGQ~hlv~q~gllrs~ieq~~ipSmIlWGppG~GKTtlArlia~ts---k~~S--yrf-----------velSAt~a  201 (554)
T KOG2028|consen  138 DDYVGQSHLVGQDGLLRSLIEQNRIPSMILWGPPGTGKTTLARLIASTS---KKHS--YRF-----------VELSATNA  201 (554)
T ss_pred             HHhcchhhhcCcchHHHHHHHcCCCCceEEecCCCCchHHHHHHHHhhc---CCCc--eEE-----------EEEecccc
Confidence            4566766    22345556677889999999999999999999999987   3330  001           11111001


Q ss_pred             CcCCHhHHHHHHHHH--hCCCcEEEEEecCCCcc--chhhhccC-CCCCCcHh
Q 043070          174 DDKTKQGRAIDSSRR--LGQRRFALLLDDLREPI--DLKTAGAS-IQNGSKVK  221 (414)
Q Consensus       174 ~~~~~~~~~~~l~~~--L~~kr~LlVlDdv~~~~--~~~~~~~p-~~~gs~ii  221 (414)
                      ...+...+.+.-++.  +.++|..|++|.|-.-.  +.+. .+| -.+|+.++
T Consensus       202 ~t~dvR~ife~aq~~~~l~krkTilFiDEiHRFNksQQD~-fLP~VE~G~I~l  253 (554)
T KOG2028|consen  202 KTNDVRDIFEQAQNEKSLTKRKTILFIDEIHRFNKSQQDT-FLPHVENGDITL  253 (554)
T ss_pred             chHHHHHHHHHHHHHHhhhcceeEEEeHHhhhhhhhhhhc-ccceeccCceEE
Confidence            223334444444443  56789999999996443  3333 356 44554444

>PRK08118 topology modulation protein; Reviewed

Probab=97.72  E-value=0.0001  Score=63.98  Aligned_cols=36  Identities=31%  Similarity=0.398  Sum_probs=28.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVIL  154 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~w  154 (414)
                      +.|.|+|++|+||||||+.+++......-+||..+|
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~   37 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFW   37 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCCceecchhhc
Confidence            468999999999999999999987322255676665

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

Probab=97.71  E-value=7.3e-05  Score=79.04  Aligned_cols=46  Identities=26%  Similarity=0.301  Sum_probs=38.3

Q ss_pred             CCCccchH-HHH---HHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           97 MENTVDVS-RLN---EVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        97 ~~~~vGr~-~~~---~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -++++|.+ .+.   .+.+.+.......+.++|++|+||||||+.+++..
T Consensus        27 ldd~vGQe~ii~~~~~L~~~i~~~~~~slLL~GPpGtGKTTLA~aIA~~~   76 (725)
T PRK13341         27 LEEFVGQDHILGEGRLLRRAIKADRVGSLILYGPPGVGKTTLARIIANHT   76 (725)
T ss_pred             HHHhcCcHHHhhhhHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            35689998 663   56677777777788999999999999999999877

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

Probab=97.70  E-value=0.00018  Score=68.59  Aligned_cols=107  Identities=16%  Similarity=0.158  Sum_probs=72.5

Q ss_pred             CCccchH-HHHHHHHHhhcCC---ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH--------HHHHHHHHHH
Q 043070           98 ENTVDVS-RLNEVWRLVEDNS---VRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV--------KRIQHVMGYR  165 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~~~---~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv--------~~l~~~i~~~  165 (414)
                      +.+.+|+ ++..+..++.+..   +..|-|.|-.|.|||.+.+++.+.. ..  +   .+|+        ..+++.|+.+
T Consensus         6 ~~v~~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~-n~--~---~vw~n~~ecft~~~lle~IL~~   79 (438)
T KOG2543|consen    6 PNVPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKL-NL--E---NVWLNCVECFTYAILLEKILNK   79 (438)
T ss_pred             cCccchHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhc-CC--c---ceeeehHHhccHHHHHHHHHHH
Confidence            4577999 9999999996633   3455889999999999999999988 22  2   2455        8888999998


Q ss_pred             hcCCCC-cc-Cc---CCHhHHHHHHHH--HhC--CCcEEEEEecCCCccchhhh
Q 043070          166 LAMSNE-VW-DD---KTKQGRAIDSSR--RLG--QRRFALLLDDLREPIDLKTA  210 (414)
Q Consensus       166 l~~~~~-~~-~~---~~~~~~~~~l~~--~L~--~kr~LlVlDdv~~~~~~~~~  210 (414)
                      ++..+. .. ..   .+..+....+.+  ...  ++.++||||+++...+.+++
T Consensus        80 ~~~~d~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~lrD~~a~  133 (438)
T KOG2543|consen   80 SQLADKDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADALRDMDAI  133 (438)
T ss_pred             hccCCCchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHhhhccchH
Confidence            863221 11 11   122233333333  122  45899999999887665554

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.68  E-value=0.00074  Score=68.77  Aligned_cols=45  Identities=13%  Similarity=0.125  Sum_probs=39.0

Q ss_pred             CCccchH-HHHHHHHHhhcCCce-EEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVEDNSVR-IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+++|-+ .++.|.+++....+. .+.++|++|+||||+|+.+++..
T Consensus        14 ~dvvGq~~v~~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~~lA~~l   60 (504)
T PRK14963         14 DEVVGQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARLIAMAV   60 (504)
T ss_pred             HHhcChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            5689999 889999998776554 56999999999999999999887

>PLN03025 replication factor C subunit; Provisional

Probab=97.64  E-value=0.0003  Score=67.76  Aligned_cols=46  Identities=20%  Similarity=0.338  Sum_probs=39.7

Q ss_pred             CCCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           97 MENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.+++|.+ .++.|.+++..++.+-+.++|++|+||||+|..+++..
T Consensus        12 l~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l   58 (319)
T PLN03025         12 LDDIVGNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHEL   58 (319)
T ss_pred             HHHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            35688999 88888888877777778899999999999999999876

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

Probab=97.63  E-value=0.00095  Score=59.58  Aligned_cols=92  Identities=14%  Similarity=0.173  Sum_probs=61.0

Q ss_pred             CCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhHHHHHHHHHHHhcCCCCccCcC
Q 043070           98 ENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILVKRIQHVMGYRLAMSNEVWDDK  176 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv~~l~~~i~~~l~~~~~~~~~~  176 (414)
                      .++||-+ .++.+.-...+++.+-+.|.||+|+||||-+..+++...  ...+          ++-+-.|..+    ++.
T Consensus        27 ~dIVGNe~tv~rl~via~~gnmP~liisGpPG~GKTTsi~~LAr~LL--G~~~----------ke~vLELNAS----deR   90 (333)
T KOG0991|consen   27 QDIVGNEDTVERLSVIAKEGNMPNLIISGPPGTGKTTSILCLARELL--GDSY----------KEAVLELNAS----DER   90 (333)
T ss_pred             HHhhCCHHHHHHHHHHHHcCCCCceEeeCCCCCchhhHHHHHHHHHh--Chhh----------hhHhhhccCc----ccc
Confidence            6789999 888877777888899999999999999999998888762  1111          1111122222    223


Q ss_pred             CHhHHHHHHHHHhC-------CCcEEEEEecCCCcc
Q 043070          177 TKQGRAIDSSRRLG-------QRRFALLLDDLREPI  205 (414)
Q Consensus       177 ~~~~~~~~l~~~L~-------~kr~LlVlDdv~~~~  205 (414)
                      ..+....+++.+-+       ++.-.+|||..++..
T Consensus        91 GIDvVRn~IK~FAQ~kv~lp~grhKIiILDEADSMT  126 (333)
T KOG0991|consen   91 GIDVVRNKIKMFAQKKVTLPPGRHKIIILDEADSMT  126 (333)
T ss_pred             ccHHHHHHHHHHHHhhccCCCCceeEEEeeccchhh
Confidence            34444455544432       455678999998864

>PRK08727 hypothetical protein; Validated

Probab=97.63  E-value=0.00057  Score=62.68  Aligned_cols=45  Identities=22%  Similarity=0.254  Sum_probs=32.8

Q ss_pred             CCccchH--HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS--RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~--~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++|++..  .+..+...........+.|+|..|+|||.|++.+++..
T Consensus        19 ~~f~~~~~n~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~a~~~~~   65 (233)
T PRK08727         19 DSYIAAPDGLLAQLQALAAGQSSDWLYLSGPAGTGKTHLALALCAAA   65 (233)
T ss_pred             hhccCCcHHHHHHHHHHHhccCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            4466444  55555544444444679999999999999999998876

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

Probab=97.61  E-value=0.00031  Score=69.45  Aligned_cols=104  Identities=10%  Similarity=0.058  Sum_probs=62.2

Q ss_pred             CCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH----HHHHHHHHHHhcCCCCc
Q 043070           98 ENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV----KRIQHVMGYRLAMSNEV  172 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv----~~l~~~i~~~l~~~~~~  172 (414)
                      .++++.+ ..+.+...|...  +.|.++|++|+|||++|+.+++.. .....|+.+.||    .--..+.+.........
T Consensus       175 ~d~~i~e~~le~l~~~L~~~--~~iil~GppGtGKT~lA~~la~~l-~~~~~~~~v~~VtFHpsySYeDFI~G~rP~~vg  251 (459)
T PRK11331        175 NDLFIPETTIETILKRLTIK--KNIILQGPPGVGKTFVARRLAYLL-TGEKAPQRVNMVQFHQSYSYEDFIQGYRPNGVG  251 (459)
T ss_pred             hcccCCHHHHHHHHHHHhcC--CCEEEECCCCCCHHHHHHHHHHHh-cCCcccceeeEEeecccccHHHHhcccCCCCCC
Confidence            4577788 999999998753  578889999999999999999887 333456666666    22222332222111100


Q ss_pred             cCcCCHhHHHHHHHHHhC--CCcEEEEEecCCCcc
Q 043070          173 WDDKTKQGRAIDSSRRLG--QRRFALLLDDLREPI  205 (414)
Q Consensus       173 ~~~~~~~~~~~~l~~~L~--~kr~LlVlDdv~~~~  205 (414)
                      +.. ......+.+...-.  +++++||+|++....
T Consensus       252 y~~-~~G~f~~~~~~A~~~p~~~~vliIDEINRan  285 (459)
T PRK11331        252 FRR-KDGIFYNFCQQAKEQPEKKYVFIIDEINRAN  285 (459)
T ss_pred             eEe-cCchHHHHHHHHHhcccCCcEEEEehhhccC
Confidence            000 00111222222222  468999999986554

>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=97.60  E-value=6.7e-05  Score=61.81  Aligned_cols=22  Identities=45%  Similarity=0.546  Sum_probs=20.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhh
Q 043070          121 ICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       121 i~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      |.|+|++|+||||+|+.+++..
T Consensus         1 ill~G~~G~GKT~l~~~la~~l   22 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYL   22 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHT
T ss_pred             CEEECcCCCCeeHHHHHHHhhc
Confidence            5799999999999999999988

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 ....

>PF13173 AAA_14: AAA domain

Probab=97.56  E-value=0.00024  Score=58.64  Aligned_cols=78  Identities=19%  Similarity=0.181  Sum_probs=46.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhHHHHHHHHHHHhcCCCCccCcCCHhHHHHHHHHHhCCCcEEEE
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILVKRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRRLGQRRFALL  197 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlV  197 (414)
                      -+++.|.|+.|+|||||+++++++.   . .....+++           .............+..+.+.+...+++.+|+
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~---~-~~~~~~yi-----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~   66 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDL---L-PPENILYI-----------NFDDPRDRRLADPDLLEYFLELIKPGKKYIF   66 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHh---c-ccccceee-----------ccCCHHHHHHhhhhhHHHHHHhhccCCcEEE
Confidence            3689999999999999999999887   1 11122222           0000000000000023344444445788999


Q ss_pred             EecCCCccchhhh
Q 043070          198 LDDLREPIDLKTA  210 (414)
Q Consensus       198 lDdv~~~~~~~~~  210 (414)
                      ||++....+|...
T Consensus        67 iDEiq~~~~~~~~   79 (128)
T PF13173_consen   67 IDEIQYLPDWEDA   79 (128)
T ss_pred             EehhhhhccHHHH
Confidence            9999988888766

>CHL00095 clpC Clp protease ATP binding subunit

Probab=97.56  E-value=0.00017  Score=78.10  Aligned_cols=45  Identities=16%  Similarity=0.276  Sum_probs=39.9

Q ss_pred             CCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+++||+ +++++++.|......-+.++|.+|+|||++|..++...
T Consensus       179 ~~~igr~~ei~~~~~~L~r~~~~n~lL~G~pGvGKTal~~~la~~i  224 (821)
T CHL00095        179 DPVIGREKEIERVIQILGRRTKNNPILIGEPGVGKTAIAEGLAQRI  224 (821)
T ss_pred             CCCCCcHHHHHHHHHHHcccccCCeEEECCCCCCHHHHHHHHHHHH
Confidence            5689999 99999999977555667799999999999999998876

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=97.56  E-value=0.00026  Score=64.39  Aligned_cols=45  Identities=24%  Similarity=0.252  Sum_probs=36.3

Q ss_pred             CCcc-c-hH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTV-D-VS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~v-G-r~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++|+ | .+ .++.+.+++.......+.|+|.+|+|||+||+.+++..
T Consensus        15 ~~~~~~~~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la~~~~~~~   62 (226)
T TIGR03420        15 DNFYAGGNAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAA   62 (226)
T ss_pred             cCcCcCCcHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            3454 3 44 78888888766667789999999999999999999877

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.

>PRK07261 topology modulation protein; Provisional

Probab=97.50  E-value=0.0002  Score=62.36  Aligned_cols=67  Identities=21%  Similarity=0.295  Sum_probs=42.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhHHHHHHHHHHHhcCCCCccCcCCHhHHHHHHHHHhCCCcEEEEEe
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILVKRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRRLGQRRFALLLD  199 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlD  199 (414)
                      .|.|+|++|+||||||+.+........-+.|...|-               +.....+.++....+.+.+.+.+  .|+|
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~~~~~i~~D~~~~~---------------~~~~~~~~~~~~~~~~~~~~~~~--wIid   64 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHYNCPVLHLDTLHFQ---------------PNWQERDDDDMIADISNFLLKHD--WIID   64 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhCCCeEecCCEEec---------------cccccCCHHHHHHHHHHHHhCCC--EEEc
Confidence            589999999999999999987651111122322220               01133455677777888887766  5778


Q ss_pred             cCCC
Q 043070          200 DLRE  203 (414)
Q Consensus       200 dv~~  203 (414)
                      +...
T Consensus        65 g~~~   68 (171)
T PRK07261         65 GNYS   68 (171)
T ss_pred             Ccch
Confidence            7643

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

Probab=97.48  E-value=0.0015  Score=63.92  Aligned_cols=123  Identities=15%  Similarity=0.111  Sum_probs=79.4

Q ss_pred             cCCCccchH-HHHHHHHHhhc----CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH--------HHHHHHH
Q 043070           96 DMENTVDVS-RLNEVWRLVED----NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV--------KRIQHVM  162 (414)
Q Consensus        96 ~~~~~vGr~-~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv--------~~l~~~i  162 (414)
                      ++..++||+ ++..+.+++..    ....-+-|.|-+|.|||.+...++.+...-...| +++.+        ..+...|
T Consensus       148 ~p~~l~gRe~e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~-~~v~inc~sl~~~~aiF~kI  226 (529)
T KOG2227|consen  148 PPGTLKGRELEMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSP-VTVYINCTSLTEASAIFKKI  226 (529)
T ss_pred             CCCCccchHHHHHHHHHHHHhhhhcccCcceEeeCCCCcchHHHHHHHHHhhhhhcccc-eeEEEeeccccchHHHHHHH
Confidence            557889999 99999999843    4567888999999999999999998872111111 22333        5666666


Q ss_pred             HHHhcCCCCccCcCCHhHHHHHHHHHhCCC--cEEEEEecCCCcc-----chhhh-ccCCCCCCcHh
Q 043070          163 GYRLAMSNEVWDDKTKQGRAIDSSRRLGQR--RFALLLDDLREPI-----DLKTA-GASIQNGSKVK  221 (414)
Q Consensus       163 ~~~l~~~~~~~~~~~~~~~~~~l~~~L~~k--r~LlVlDdv~~~~-----~~~~~-~~p~~~gs~ii  221 (414)
                      ...+.....  ......+....+.++..+.  -+|+|||.++...     .+..+ .+|.-+++++|
T Consensus       227 ~~~~~q~~~--s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~~~vLy~lFewp~lp~sr~i  291 (529)
T KOG2227|consen  227 FSSLLQDLV--SPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHLITRSQTVLYTLFEWPKLPNSRII  291 (529)
T ss_pred             HHHHHHHhc--CCchhHHHHHHHHHHHhcccceEEEEechhhHHhhcccceeeeehhcccCCcceee
Confidence            666511110  1112256667777777664  5999999997653     22222 44545566666

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=97.47  E-value=0.0015  Score=68.44  Aligned_cols=47  Identities=19%  Similarity=0.125  Sum_probs=40.6

Q ss_pred             cCCCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           96 DMENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        96 ~~~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+.++|++ .+..+.+.+.......+.|+|++|+||||||+.+++..
T Consensus       152 ~~~~iiGqs~~~~~l~~~ia~~~~~~vlL~Gp~GtGKTTLAr~i~~~~  199 (615)
T TIGR02903       152 AFSEIVGQERAIKALLAKVASPFPQHIILYGPPGVGKTTAARLALEEA  199 (615)
T ss_pred             cHHhceeCcHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHhh
Confidence            346789999 99989888876667789999999999999999998766

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.

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

Probab=97.44  E-value=0.00022  Score=76.39  Aligned_cols=45  Identities=16%  Similarity=0.188  Sum_probs=40.1

Q ss_pred             CCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+++||+ +++++++.|......-+.++|.+|+|||++|+.+++..
T Consensus       182 ~~~igr~~ei~~~~~~L~~~~~~n~lL~G~pG~GKT~l~~~la~~~  227 (731)
T TIGR02639       182 DPLIGREDELERTIQVLCRRKKNNPLLVGEPGVGKTAIAEGLALRI  227 (731)
T ss_pred             CcccCcHHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHH
Confidence            5789999 99999999977666667899999999999999999876

>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=97.41  E-value=0.00013  Score=66.37  Aligned_cols=34  Identities=35%  Similarity=0.477  Sum_probs=28.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV  155 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv  155 (414)
                      -.++|+|..|+|||||...+....   ...|+.++++
T Consensus        14 fr~viIG~sGSGKT~li~~lL~~~---~~~f~~I~l~   47 (241)
T PF04665_consen   14 FRMVIIGKSGSGKTTLIKSLLYYL---RHKFDHIFLI   47 (241)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHhh---cccCCEEEEE
Confidence            468899999999999999999887   6788666555

This is thought to be an ATPase involved in viral DNA packaging [].

>PRK09087 hypothetical protein; Validated

Probab=97.38  E-value=0.0021  Score=58.65  Aligned_cols=26  Identities=27%  Similarity=0.257  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+.+.|+|..|+|||+|++.+++..
T Consensus        43 ~~~~l~l~G~~GsGKThLl~~~~~~~   68 (226)
T PRK09087         43 PSPVVVLAGPVGSGKTHLASIWREKS   68 (226)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHhc
Confidence            34679999999999999999988766

>PRK12377 putative replication protein; Provisional

Probab=97.37  E-value=0.0034  Score=57.93  Aligned_cols=73  Identities=15%  Similarity=0.152  Sum_probs=45.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH--HHHHHHHHHHhcCCCCccCcCCHhHHHHHHHHHhCCCcE
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV--KRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRRLGQRRF  194 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv--~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L~~kr~  194 (414)
                      ....+.++|.+|+|||+||.++++...   .....++++  .+++..|-......      ....    .+.+.+ .+--
T Consensus       100 ~~~~l~l~G~~GtGKThLa~AIa~~l~---~~g~~v~~i~~~~l~~~l~~~~~~~------~~~~----~~l~~l-~~~d  165 (248)
T PRK12377        100 GCTNFVFSGKPGTGKNHLAAAIGNRLL---AKGRSVIVVTVPDVMSRLHESYDNG------QSGE----KFLQEL-CKVD  165 (248)
T ss_pred             cCCeEEEECCCCCCHHHHHHHHHHHHH---HcCCCeEEEEHHHHHHHHHHHHhcc------chHH----HHHHHh-cCCC
Confidence            346899999999999999999999882   222233444  55666554443211      1112    222223 4567


Q ss_pred             EEEEecCCC
Q 043070          195 ALLLDDLRE  203 (414)
Q Consensus       195 LlVlDdv~~  203 (414)
                      ||||||+..
T Consensus       166 LLiIDDlg~  174 (248)
T PRK12377        166 LLVLDEIGI  174 (248)
T ss_pred             EEEEcCCCC
Confidence            999999943

>PRK05541 adenylylsulfate kinase; Provisional

Probab=97.35  E-value=0.00022  Score=62.32  Aligned_cols=80  Identities=13%  Similarity=0.193  Sum_probs=46.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH-HHHHHHHHHHhcCCCCccCcCCHhHHHHHHHHHhCCCcEE
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV-KRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRRLGQRRFA  195 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv-~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L~~kr~L  195 (414)
                      ...+|.++|+.|+||||+|+.+++..   ...+...+++ .+-+++++...+....  ...........+.+.+......
T Consensus         6 ~~~~I~i~G~~GsGKst~a~~l~~~l---~~~~~~~~~~~~d~~r~~~~~~~~~~~--~~~~~~~~~~~l~~~l~~~g~~   80 (176)
T PRK05541          6 NGYVIWITGLAGSGKTTIAKALYERL---KLKYSNVIYLDGDELREILGHYGYDKQ--SRIEMALKRAKLAKFLADQGMI   80 (176)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHH---HHcCCcEEEEecHHHHhhcCCCCCCHH--HHHHHHHHHHHHHHHHHhCCCE
Confidence            45699999999999999999999988   4455555555 3333433322221110  1111112233445555555567


Q ss_pred             EEEecC
Q 043070          196 LLLDDL  201 (414)
Q Consensus       196 lVlDdv  201 (414)
                      +|.|.+
T Consensus        81 VI~~~~   86 (176)
T PRK05541         81 VIVTTI   86 (176)
T ss_pred             EEEEeC
Confidence            777765

>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=97.35  E-value=0.00018  Score=58.48  Aligned_cols=23  Identities=30%  Similarity=0.518  Sum_probs=21.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +|.|+|++|+||||+|+.+.+..
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            68999999999999999999986

...

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.35  E-value=0.0078  Score=64.36  Aligned_cols=45  Identities=22%  Similarity=0.269  Sum_probs=39.5

Q ss_pred             CCccchH-HHHHHHHHhhcCCceE-EEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVEDNSVRI-ICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~~~~~v-i~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++||-+ -+..|.+++..+++.- +.++|..|+||||+|+.+++..
T Consensus        16 ddIIGQe~Iv~~LknaI~~~rl~HAyLFtGPpGtGKTTLARiLAk~L   62 (944)
T PRK14949         16 EQMVGQSHVLHALTNALTQQRLHHAYLFTGTRGVGKTSLARLFAKGL   62 (944)
T ss_pred             HHhcCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            6789999 9999999998766554 5899999999999999999887

>PHA00729 NTP-binding motif containing protein

Probab=97.34  E-value=0.00076  Score=60.85  Aligned_cols=35  Identities=17%  Similarity=0.248  Sum_probs=28.8

Q ss_pred             HHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          108 EVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       108 ~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++++.+.+.....|.|+|.+|+||||||..+.+..
T Consensus         7 ~~~~~l~~~~f~nIlItG~pGvGKT~LA~aLa~~l   41 (226)
T PHA00729          7 KIVSAYNNNGFVSAVIFGKQGSGKTTYALKVARDV   41 (226)
T ss_pred             HHHHHHhcCCeEEEEEECCCCCCHHHHHHHHHHHH
Confidence            45555655666789999999999999999999875

>PRK08116 hypothetical protein; Validated

Probab=97.33  E-value=0.00046  Score=64.60  Aligned_cols=72  Identities=24%  Similarity=0.222  Sum_probs=46.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH--HHHHHHHHHHhcCCCCccCcCCHhHHHHHHHHHhCCCcEEE
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV--KRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRRLGQRRFAL  196 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv--~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L~~kr~Ll  196 (414)
                      ..+.++|.+|+|||.||..+++...   ..-..++++  ..++..|........    ..+..    .+.+.+.+-. ||
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~~l~---~~~~~v~~~~~~~ll~~i~~~~~~~~----~~~~~----~~~~~l~~~d-lL  182 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIANELI---EKGVPVIFVNFPQLLNRIKSTYKSSG----KEDEN----EIIRSLVNAD-LL  182 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHH---HcCCeEEEEEHHHHHHHHHHHHhccc----cccHH----HHHHHhcCCC-EE
Confidence            4588999999999999999999882   222333444  666666665543221    11222    2334455444 89


Q ss_pred             EEecCC
Q 043070          197 LLDDLR  202 (414)
Q Consensus       197 VlDdv~  202 (414)
                      ||||+-
T Consensus       183 viDDlg  188 (268)
T PRK08116        183 ILDDLG  188 (268)
T ss_pred             EEeccc
Confidence            999994

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.33  E-value=0.00057  Score=56.25  Aligned_cols=24  Identities=33%  Similarity=0.473  Sum_probs=22.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+.|+|.+|+||||+++.++...
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~   26 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALAREL   26 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhcc
Confidence            578999999999999999999887

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.

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=97.32  E-value=0.0003  Score=69.05  Aligned_cols=45  Identities=22%  Similarity=0.242  Sum_probs=37.0

Q ss_pred             CCccchH-HHHHHHHHhhc-------------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVED-------------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++.|++ .+++|.+.+.-             ...+-+.++|++|+|||++|+.+++..
T Consensus       122 ~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l  180 (364)
T TIGR01242       122 EDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHET  180 (364)
T ss_pred             HHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhC
Confidence            4567999 99999887731             234569999999999999999999987

Many proteins may score above the trusted cutoff because an internal

>PRK10865 protein disaggregation chaperone; Provisional

Probab=97.31  E-value=0.0003  Score=76.30  Aligned_cols=45  Identities=13%  Similarity=0.290  Sum_probs=40.4

Q ss_pred             CCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+++||+ ++.++++.|......-+.++|.+|+|||++|..++...
T Consensus       178 ~~vigr~~ei~~~i~iL~r~~~~n~lL~G~pGvGKT~l~~~la~~i  223 (857)
T PRK10865        178 DPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRI  223 (857)
T ss_pred             CcCCCCHHHHHHHHHHHhcCCcCceEEECCCCCCHHHHHHHHHHHh
Confidence            6789999 99999999977666677799999999999999999876

>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=97.31  E-value=0.0019  Score=58.58  Aligned_cols=74  Identities=22%  Similarity=0.231  Sum_probs=45.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH--HHHHHHHHHHhcCCCCccCcCCHhHHHHHHHHHhCCCcEE
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV--KRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRRLGQRRFA  195 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv--~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L~~kr~L  195 (414)
                      ...+-|+|..|+|||.|.+++++...+.... ..++++  .++...+...+....           ...+++.+. .-=+
T Consensus        34 ~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~-~~v~y~~~~~f~~~~~~~~~~~~-----------~~~~~~~~~-~~Dl  100 (219)
T PF00308_consen   34 YNPLFLYGPSGLGKTHLLQAIANEAQKQHPG-KRVVYLSAEEFIREFADALRDGE-----------IEEFKDRLR-SADL  100 (219)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHHHHHHCTT-S-EEEEEHHHHHHHHHHHHHTTS-----------HHHHHHHHC-TSSE
T ss_pred             CCceEEECCCCCCHHHHHHHHHHHHHhcccc-ccceeecHHHHHHHHHHHHHccc-----------chhhhhhhh-cCCE
Confidence            4568999999999999999999987211111 122333  566666665554321           123444444 3446


Q ss_pred             EEEecCCCc
Q 043070          196 LLLDDLREP  204 (414)
Q Consensus       196 lVlDdv~~~  204 (414)
                      |+|||+...
T Consensus       101 L~iDDi~~l  109 (219)
T PF00308_consen  101 LIIDDIQFL  109 (219)
T ss_dssp             EEEETGGGG
T ss_pred             EEEecchhh
Confidence            778888654

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.

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=97.30  E-value=0.00033  Score=75.77  Aligned_cols=46  Identities=13%  Similarity=0.242  Sum_probs=41.0

Q ss_pred             CCCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           97 MENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.++|||+ ++.++++.|......-+.++|.+|+||||+|..+++..
T Consensus       186 ld~~iGr~~ei~~~i~~l~r~~~~n~lLvG~pGvGKTal~~~La~~i  232 (852)
T TIGR03345       186 IDPVLGRDDEIRQMIDILLRRRQNNPILTGEAGVGKTAVVEGLALRI  232 (852)
T ss_pred             CCcccCCHHHHHHHHHHHhcCCcCceeEECCCCCCHHHHHHHHHHHH
Confidence            36789999 99999999977666677899999999999999999876

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.

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=97.27  E-value=0.00038  Score=75.73  Aligned_cols=45  Identities=13%  Similarity=0.279  Sum_probs=39.9

Q ss_pred             CCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++|||+ ++.++++.|......-+.++|.+|+|||++|..+++..
T Consensus       173 ~~~igr~~ei~~~~~~l~r~~~~n~lL~G~pGvGKT~l~~~la~~i  218 (852)
T TIGR03346       173 DPVIGRDEEIRRTIQVLSRRTKNNPVLIGEPGVGKTAIVEGLAQRI  218 (852)
T ss_pred             CcCCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHH
Confidence            5689999 99999999977666667799999999999999998876

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.

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=97.27  E-value=0.0038  Score=59.96  Aligned_cols=45  Identities=16%  Similarity=0.182  Sum_probs=38.2

Q ss_pred             CCccchH-HHHHHHHHhhcCCc-eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVEDNSV-RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+++|-+ -++.+.+++..+.+ ....++|+.|+||||+|+.+++..
T Consensus         4 ~~i~g~~~~~~~l~~~~~~~~~~ha~Lf~G~~G~Gk~~la~~~a~~l   50 (313)
T PRK05564          4 HTIIGHENIKNRIKNSIIKNRFSHAHIIVGEDGIGKSLLAKEIALKI   50 (313)
T ss_pred             hhccCcHHHHHHHHHHHHcCCCCceEEeECCCCCCHHHHHHHHHHHH
Confidence            4578989 89999999976554 567899999999999999999865

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.27  E-value=0.0028  Score=65.44  Aligned_cols=46  Identities=22%  Similarity=0.269  Sum_probs=39.6

Q ss_pred             CCCccchH-HHHHHHHHhhcCCc-eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           97 MENTVDVS-RLNEVWRLVEDNSV-RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.++||-+ .++.|.+++..+++ ..+.++|..|+||||+|+.+.+..
T Consensus        15 FddVIGQe~vv~~L~~al~~gRLpHA~LFtGP~GvGKTTLAriLAkaL   62 (700)
T PRK12323         15 FTTLVGQEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRILAKSL   62 (700)
T ss_pred             HHHHcCcHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            36789999 99999999977664 456899999999999999999877

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=97.27  E-value=0.00042  Score=68.50  Aligned_cols=45  Identities=24%  Similarity=0.244  Sum_probs=36.9

Q ss_pred             CCccchH-HHHHHHHHhhc-------------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVED-------------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +++.|++ .++++.+.+..             ...+-|.++|++|+|||++|+.+++..
T Consensus       131 ~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~  189 (389)
T PRK03992        131 EDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHET  189 (389)
T ss_pred             HHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHh
Confidence            3466999 99998887621             345679999999999999999999987

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.26  E-value=0.002  Score=64.58  Aligned_cols=46  Identities=15%  Similarity=0.304  Sum_probs=40.1

Q ss_pred             CCCccchH-HHHHHHHHhhcCCce-EEEEEcCCCCcHHHHHHHHHHhh
Q 043070           97 MENTVDVS-RLNEVWRLVEDNSVR-IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -+++||-+ .+..|..++..+.+. .+.++|+.|+||||+|+.+++..
T Consensus        17 f~dvVGQe~iv~~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriLAk~L   64 (484)
T PRK14956         17 FRDVIHQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRL   64 (484)
T ss_pred             HHHHhChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            36789999 999999999877654 58999999999999999999876

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

Probab=97.25  E-value=0.00059  Score=61.93  Aligned_cols=91  Identities=15%  Similarity=0.172  Sum_probs=58.4

Q ss_pred             cccccCCCccchH-HHHHHHHHh----hcCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhHHHHHHHHHHHh
Q 043070           92 VEVQDMENTVDVS-RLNEVWRLV----EDNSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILVKRIQHVMGYRL  166 (414)
Q Consensus        92 ~~~~~~~~~vGr~-~~~~l~~~L----~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv~~l~~~i~~~l  166 (414)
                      .++.+.+.++|.| .++.|++-.    ......-+.++|..|.|||+|++++.+.+. -+.               ++-+
T Consensus        21 ~~~~~l~~L~Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y~-~~G---------------LRlI   84 (249)
T PF05673_consen   21 PDPIRLDDLIGIERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEYA-DQG---------------LRLI   84 (249)
T ss_pred             CCCCCHHHhcCHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHHh-hcC---------------ceEE
Confidence            3444557799999 888887754    334566788899999999999999998872 111               1111


Q ss_pred             cCCCCccCcCCHhHHHHHHHHHhCCCcEEEEEecCC
Q 043070          167 AMSNEVWDDKTKQGRAIDSSRRLGQRRFALLLDDLR  202 (414)
Q Consensus       167 ~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~  202 (414)
                      .....  .-.+...+.+.|+.  ...||+|++||+.
T Consensus        85 ev~k~--~L~~l~~l~~~l~~--~~~kFIlf~DDLs  116 (249)
T PF05673_consen   85 EVSKE--DLGDLPELLDLLRD--RPYKFILFCDDLS  116 (249)
T ss_pred             EECHH--HhccHHHHHHHHhc--CCCCEEEEecCCC
Confidence            11110  12333444444442  4579999999985

>PRK12608 transcription termination factor Rho; Provisional

Probab=97.23  E-value=0.001  Score=64.36  Aligned_cols=98  Identities=16%  Similarity=0.147  Sum_probs=59.6

Q ss_pred             HHHHHHHHhhc-CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcch-HhH---------HHHHHHHHHHhcCCCCcc
Q 043070          105 RLNEVWRLVED-NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLV-ILV---------KRIQHVMGYRLAMSNEVW  173 (414)
Q Consensus       105 ~~~~l~~~L~~-~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~-~wv---------~~l~~~i~~~l~~~~~~~  173 (414)
                      -..++++.+.. ..-..+.|+|.+|+|||||++.+++...  .++-+.. +|+         .++.+.+...+.......
T Consensus       119 ~~~RvID~l~PiGkGQR~LIvG~pGtGKTTLl~~la~~i~--~~~~dv~~vv~lIgER~~EV~df~~~i~~~Vvast~de  196 (380)
T PRK12608        119 LSMRVVDLVAPIGKGQRGLIVAPPRAGKTVLLQQIAAAVA--ANHPEVHLMVLLIDERPEEVTDMRRSVKGEVYASTFDR  196 (380)
T ss_pred             hhHhhhhheeecCCCceEEEECCCCCCHHHHHHHHHHHHH--hcCCCceEEEEEecCCCCCHHHHHHHHhhhEEeecCCC
Confidence            44457777754 3445779999999999999999998772  2222333 343         777777777666433110


Q ss_pred             CcCC---HhHHHHHHHHHh--CCCcEEEEEecCCCc
Q 043070          174 DDKT---KQGRAIDSSRRL--GQRRFALLLDDLREP  204 (414)
Q Consensus       174 ~~~~---~~~~~~~l~~~L--~~kr~LlVlDdv~~~  204 (414)
                      ....   .......+.+++  .+++.+||+|++-..
T Consensus       197 ~~~~~~~v~~~~~~~Ae~f~~~GkdVVLvlDsltr~  232 (380)
T PRK12608        197 PPDEHIRVAELVLERAKRLVEQGKDVVILLDSLTRL  232 (380)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHcCCCEEEEEeCcHHH
Confidence            1111   111122222333  579999999998544

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=97.21  E-value=0.0028  Score=66.44  Aligned_cols=45  Identities=18%  Similarity=0.206  Sum_probs=38.9

Q ss_pred             CCccchH-HHHHHHHHhhcCC-ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVEDNS-VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +++||.+ .++.|.+++..++ ...+.++|..|+||||+|+.+.+..
T Consensus        16 dEVIGQe~Vv~~L~~aL~~gRL~HAyLFtGPpGvGKTTlAriLAKaL   62 (830)
T PRK07003         16 ASLVGQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRIFAKAL   62 (830)
T ss_pred             HHHcCcHHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            6789999 9999999997755 3466799999999999999998876

>PRK10536 hypothetical protein; Provisional

Probab=97.19  E-value=0.0048  Score=56.74  Aligned_cols=48  Identities=15%  Similarity=0.171  Sum_probs=37.8

Q ss_pred             ccccCCCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           93 EVQDMENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        93 ~~~~~~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +..+...+.++. ....++.+|.+.  ..+.++|..|.|||+||..+..+.
T Consensus        50 ~~~~~~~i~p~n~~Q~~~l~al~~~--~lV~i~G~aGTGKT~La~a~a~~~   98 (262)
T PRK10536         50 DSRDTSPILARNEAQAHYLKAIESK--QLIFATGEAGCGKTWISAAKAAEA   98 (262)
T ss_pred             hhcCCccccCCCHHHHHHHHHHhcC--CeEEEECCCCCCHHHHHHHHHHHH
Confidence            334445566788 888888888654  599999999999999999988753

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

Probab=97.17  E-value=0.0039  Score=57.99  Aligned_cols=56  Identities=11%  Similarity=0.116  Sum_probs=46.3

Q ss_pred             CCCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchH
Q 043070           97 MENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVI  153 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~  153 (414)
                      ..+++|-+ .+.-|.+.+.....+....+|++|.|||+-|..++.... -.+.|.+++
T Consensus        35 ~de~~gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKTStalafar~L~-~~~~~~~rv   91 (346)
T KOG0989|consen   35 FDELAGQEHVVQVLKNALLRRILPHYLFYGPPGTGKTSTALAFARALN-CEQLFPCRV   91 (346)
T ss_pred             HHhhcchHHHHHHHHHHHhhcCCceEEeeCCCCCcHhHHHHHHHHHhc-Cccccccch
Confidence            36688999 999999999777889999999999999999999988772 245666554

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=97.13  E-value=0.0075  Score=58.83  Aligned_cols=46  Identities=13%  Similarity=0.259  Sum_probs=39.4

Q ss_pred             CCCccchH-HHHHHHHHhhcCCc-eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           97 MENTVDVS-RLNEVWRLVEDNSV-RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.+++|.+ .++.+.+++.++.. ..+.++|++|+||||+|+.+.+..
T Consensus        13 ~~~iig~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~l   60 (355)
T TIGR02397        13 FEDVIGQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKAL   60 (355)
T ss_pred             HhhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            36689999 99999999976554 467899999999999999998876

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.

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=97.13  E-value=0.0091  Score=60.80  Aligned_cols=46  Identities=15%  Similarity=0.115  Sum_probs=39.0

Q ss_pred             CCCccchH-HHHHHHHHhhcCC-ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           97 MENTVDVS-RLNEVWRLVEDNS-VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.++||-+ -+..|.+.+..++ ...+.++|+.|+||||+|+.+++..
T Consensus        20 f~dliGq~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKTT~ArilAk~L   67 (507)
T PRK06645         20 FAELQGQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARIIAKAV   67 (507)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            36689999 8888888886655 3578899999999999999999877

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

Probab=97.11  E-value=0.0038  Score=58.55  Aligned_cols=94  Identities=17%  Similarity=0.182  Sum_probs=66.0

Q ss_pred             HHHHHHHHhhc---CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcc------hHhH--------HHHHHHHHHHhc
Q 043070          105 RLNEVWRLVED---NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGL------VILV--------KRIQHVMGYRLA  167 (414)
Q Consensus       105 ~~~~l~~~L~~---~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~------~~wv--------~~l~~~i~~~l~  167 (414)
                      -++++.++|..   ...+-+.|||.+|.|||++++.+.+.+.   ..++.      ++.|        ..+...|+.+++
T Consensus        45 ~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp---~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~IL~~lg  121 (302)
T PF05621_consen   45 ALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHP---PQSDEDAERIPVVYVQMPPEPDERRFYSAILEALG  121 (302)
T ss_pred             HHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCC---CCCCCCCccccEEEEecCCCCChHHHHHHHHHHhC
Confidence            45555555533   3456799999999999999999998872   23321      1222        999999999999


Q ss_pred             CCCCccCcCCHhHHHHHHHHHhCC-CcEEEEEecCCC
Q 043070          168 MSNEVWDDKTKQGRAIDSSRRLGQ-RRFALLLDDLRE  203 (414)
Q Consensus       168 ~~~~~~~~~~~~~~~~~l~~~L~~-kr~LlVlDdv~~  203 (414)
                      .+..  ...+...+...+...|+. +--+||+|.+-+
T Consensus       122 aP~~--~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~  156 (302)
T PF05621_consen  122 APYR--PRDRVAKLEQQVLRLLRRLGVRMLIIDEFHN  156 (302)
T ss_pred             cccC--CCCCHHHHHHHHHHHHHHcCCcEEEeechHH
Confidence            8874  344555566666666655 556889998754

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

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=97.11  E-value=0.0062  Score=62.77  Aligned_cols=46  Identities=13%  Similarity=0.198  Sum_probs=39.5

Q ss_pred             CCCccchH-HHHHHHHHhhcCCc-eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           97 MENTVDVS-RLNEVWRLVEDNSV-RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.+++|.+ .++.+.+.+..+.+ ..+.++|+.|+||||+|+.+++..
T Consensus        15 F~dIIGQe~iv~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~lAk~L   62 (605)
T PRK05896         15 FKQIIGQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAI   62 (605)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            36789999 99999999966543 468899999999999999999876

>PF14516 AAA_35: AAA-like domain

Probab=97.09  E-value=0.017  Score=55.91  Aligned_cols=165  Identities=12%  Similarity=0.137  Sum_probs=98.9

Q ss_pred             cCCCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcc----------------hHhHHHH
Q 043070           96 DMENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGL----------------VILVKRI  158 (414)
Q Consensus        96 ~~~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~----------------~~wv~~l  158 (414)
                      ..+..|.|. .-+++.+.|.++ -..+.|.|+-.+|||+|...+.+....  ..+.+                --|...+
T Consensus         9 ~~~~Yi~R~~~e~~~~~~i~~~-G~~~~I~apRq~GKTSll~~l~~~l~~--~~~~~v~id~~~~~~~~~~~~~~f~~~~   85 (331)
T PF14516_consen    9 DSPFYIERPPAEQECYQEIVQP-GSYIRIKAPRQMGKTSLLLRLLERLQQ--QGYRCVYIDLQQLGSAIFSDLEQFLRWF   85 (331)
T ss_pred             CCCcccCchHHHHHHHHHHhcC-CCEEEEECcccCCHHHHHHHHHHHHHH--CCCEEEEEEeecCCCcccCCHHHHHHHH
Confidence            345578999 788888888653 368999999999999999999887731  12211                1122566


Q ss_pred             HHHHHHHhcCCCCcc-----CcCCHhHHHHHHHHHh---CCCcEEEEEecCCCccc--------------h---------
Q 043070          159 QHVMGYRLAMSNEVW-----DDKTKQGRAIDSSRRL---GQRRFALLLDDLREPID--------------L---------  207 (414)
Q Consensus       159 ~~~i~~~l~~~~~~~-----~~~~~~~~~~~l~~~L---~~kr~LlVlDdv~~~~~--------------~---------  207 (414)
                      ...|.++|+....-.     ...+.......+.+++   .+++.+|+||+++....              |         
T Consensus        86 ~~~i~~~L~l~~~l~~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~l~~~~~~~~dF~~~LR~~~~~~~~~~~  165 (331)
T PF14516_consen   86 CEEISRQLKLDEKLDEYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDRLFEYPQIADDFFGLLRSWYEQRKNNPI  165 (331)
T ss_pred             HHHHHHHcCCChhHHHHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhhhccCcchHHHHHHHHHHHHHhcccCcc
Confidence            667777776543210     1112233344454443   25899999999985432              1         


Q ss_pred             -hhhccC--CCCCCcHh----------------------hHHHHHHHhhcCCcCCCCchHHHHHHHHHHHhCCchhHHHH
Q 043070          208 -KTAGAS--IQNGSKVK----------------------YAWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLIT  262 (414)
Q Consensus       208 -~~~~~p--~~~gs~ii----------------------~a~~Lf~~~a~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~  262 (414)
                       ..+.+-  +....-++                      +...|+.+.-..    ..   ....++|...++|+|.-+..
T Consensus       166 ~~~L~li~~~~t~~~~~~~~~~SPFNIg~~i~L~~Ft~~ev~~L~~~~~~~----~~---~~~~~~l~~~tgGhP~Lv~~  238 (331)
T PF14516_consen  166 WQKLRLILAGSTEDYIILDINQSPFNIGQPIELPDFTPEEVQELAQRYGLE----FS---QEQLEQLMDWTGGHPYLVQK  238 (331)
T ss_pred             cceEEEEEecCcccccccCCCCCCcccccceeCCCCCHHHHHHHHHhhhcc----CC---HHHHHHHHHHHCCCHHHHHH
Confidence             111000  00000000                      555555544211    11   22278899999999999999


Q ss_pred             HHHHhcCC
Q 043070          263 TGSAMTSI  270 (414)
Q Consensus       263 ~g~~L~~~  270 (414)
                      ++..+...
T Consensus       239 ~~~~l~~~  246 (331)
T PF14516_consen  239 ACYLLVEE  246 (331)
T ss_pred             HHHHHHHc
Confidence            99999763

>smart00763 AAA_PrkA PrkA AAA domain

Probab=97.06  E-value=0.00088  Score=64.54  Aligned_cols=44  Identities=16%  Similarity=0.266  Sum_probs=39.2

Q ss_pred             CccchH-HHHHHHHHhhc------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           99 NTVDVS-RLNEVWRLVED------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        99 ~~vGr~-~~~~l~~~L~~------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +++|.+ .++++++++..      ...+++.++|++|+||||||..+.+..
T Consensus        52 ~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l  102 (361)
T smart00763       52 DFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGL  102 (361)
T ss_pred             hccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            689999 99999999943      345889999999999999999999888

This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.

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

Probab=97.05  E-value=0.0011  Score=65.64  Aligned_cols=91  Identities=14%  Similarity=0.074  Sum_probs=54.7

Q ss_pred             CCccchH-HHHHHHHHhh----c---------CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhHHHHHHHHH
Q 043070           98 ENTVDVS-RLNEVWRLVE----D---------NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILVKRIQHVMG  163 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv~~l~~~i~  163 (414)
                      .++.|.+ .+++|.+.+.    .         ...+-+.++|++|+|||+||+.+++..   ...|-...- ..+.    
T Consensus       145 ~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l---~~~fi~i~~-s~l~----  216 (398)
T PTZ00454        145 SDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHT---TATFIRVVG-SEFV----  216 (398)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhc---CCCEEEEeh-HHHH----
Confidence            3456888 8888877662    1         245789999999999999999999987   344411100 1111    


Q ss_pred             HHhcCCCCccCcCCHhHHHHHHHHHhCCCcEEEEEecCCC
Q 043070          164 YRLAMSNEVWDDKTKQGRAIDSSRRLGQRRFALLLDDLRE  203 (414)
Q Consensus       164 ~~l~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~  203 (414)
                      ...       .......+.+.+.......+.+|+||+++.
T Consensus       217 ~k~-------~ge~~~~lr~lf~~A~~~~P~ILfIDEID~  249 (398)
T PTZ00454        217 QKY-------LGEGPRMVRDVFRLARENAPSIIFIDEVDS  249 (398)
T ss_pred             HHh-------cchhHHHHHHHHHHHHhcCCeEEEEECHhh
Confidence            111       011112222233333456789999999854

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=97.04  E-value=0.00076  Score=65.29  Aligned_cols=45  Identities=18%  Similarity=0.312  Sum_probs=40.4

Q ss_pred             CCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+++|++ .++.+.+++..+..+.+.++|++|+||||+|+.+.+..
T Consensus        15 ~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l   60 (337)
T PRK12402         15 EDILGQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALAREL   60 (337)
T ss_pred             HHhcCCHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            6789999 99999999987776678899999999999999998876

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

Probab=97.04  E-value=0.0013  Score=70.00  Aligned_cols=45  Identities=18%  Similarity=0.189  Sum_probs=38.9

Q ss_pred             CCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+++||+ ++.++++.|......-+.++|.+|+|||++|+.+++..
T Consensus       186 ~~liGR~~ei~~~i~iL~r~~~~n~LLvGppGvGKT~lae~la~~i  231 (758)
T PRK11034        186 DPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRI  231 (758)
T ss_pred             CcCcCCCHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHH
Confidence            5689999 99999999976544566789999999999999999865

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.03  E-value=0.0022  Score=64.66  Aligned_cols=92  Identities=14%  Similarity=0.159  Sum_probs=61.3

Q ss_pred             CCccchH-HHHHHHHHhhc------------CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhHHHHHHHHHH
Q 043070           98 ENTVDVS-RLNEVWRLVED------------NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILVKRIQHVMGY  164 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv~~l~~~i~~  164 (414)
                      +++-|.+ .+.++.+++..            ...+-|.++|++|.|||.||+++++..   .-.|-.+     -.-+|+.
T Consensus       190 ~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel---~vPf~~i-----sApeivS  261 (802)
T KOG0733|consen  190 SDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGEL---GVPFLSI-----SAPEIVS  261 (802)
T ss_pred             hhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhc---CCceEee-----cchhhhc
Confidence            3455888 88888887732            346778999999999999999999988   2233100     0111221


Q ss_pred             HhcCCCCccCcCCHhHHHHHHHHHhCCCcEEEEEecCCCc
Q 043070          165 RLAMSNEVWDDKTKQGRAIDSSRRLGQRRFALLLDDLREP  204 (414)
Q Consensus       165 ~l~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~  204 (414)
                      ..       ...+.+.+.+...+.-..-.+++++|+++-.
T Consensus       262 Gv-------SGESEkkiRelF~~A~~~aPcivFiDeIDAI  294 (802)
T KOG0733|consen  262 GV-------SGESEKKIRELFDQAKSNAPCIVFIDEIDAI  294 (802)
T ss_pred             cc-------CcccHHHHHHHHHHHhccCCeEEEeeccccc
Confidence            11       3344555555555666778999999999743

>PRK06696 uridine kinase; Validated

Probab=97.03  E-value=0.0011  Score=60.35  Aligned_cols=40  Identities=18%  Similarity=0.219  Sum_probs=33.3

Q ss_pred             hH-HHHHHHHHhh---cCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          103 VS-RLNEVWRLVE---DNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       103 r~-~~~~l~~~L~---~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      |. -+++|.+.+.   .+...+|+|.|.+|+||||||+.+.+..
T Consensus         3 ~~~~~~~la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~~~l   46 (223)
T PRK06696          3 RKQLIKELAEHILTLNLTRPLRVAIDGITASGKTTFADELAEEI   46 (223)
T ss_pred             HHHHHHHHHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHHHHH
Confidence            55 6677777774   3567899999999999999999999877

>PRK06526 transposase; Provisional

Probab=97.02  E-value=0.002  Score=59.76  Aligned_cols=72  Identities=15%  Similarity=0.128  Sum_probs=42.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH--HHHHHHHHHHhcCCCCccCcCCHhHHHHHHHHHhCCCcEE
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV--KRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRRLGQRRFA  195 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv--~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L~~kr~L  195 (414)
                      ..-+.|+|++|+|||+||..+.+...  ...+ .+.|+  .++...+.....       ...   ....+.. + .+.-|
T Consensus        98 ~~nlll~Gp~GtGKThLa~al~~~a~--~~g~-~v~f~t~~~l~~~l~~~~~-------~~~---~~~~l~~-l-~~~dl  162 (254)
T PRK06526         98 KENVVFLGPPGTGKTHLAIGLGIRAC--QAGH-RVLFATAAQWVARLAAAHH-------AGR---LQAELVK-L-GRYPL  162 (254)
T ss_pred             CceEEEEeCCCCchHHHHHHHHHHHH--HCCC-chhhhhHHHHHHHHHHHHh-------cCc---HHHHHHH-h-ccCCE
Confidence            45689999999999999999988762  2222 23344  445554433211       111   1222332 2 23568


Q ss_pred             EEEecCCCc
Q 043070          196 LLLDDLREP  204 (414)
Q Consensus       196 lVlDdv~~~  204 (414)
                      |||||+...
T Consensus       163 LIIDD~g~~  171 (254)
T PRK06526        163 LIVDEVGYI  171 (254)
T ss_pred             EEEcccccC
Confidence            999999643

>cd01133 F1-ATPase_beta F1 ATP synthase beta subunit, nucleotide-binding domain

Probab=96.98  E-value=0.0011  Score=61.61  Aligned_cols=85  Identities=16%  Similarity=0.155  Sum_probs=50.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH----------HHHHHHHHHHhcCCCC----ccCcCC-Hh--
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV----------KRIQHVMGYRLAMSNE----VWDDKT-KQ--  179 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv----------~~l~~~i~~~l~~~~~----~~~~~~-~~--  179 (414)
                      +-..++|+|..|+|||||++.+++..   +.+|+..+++          .++.+.+...-.....    ...+.. ..  
T Consensus        68 ~GQr~~If~~~G~GKTtLa~~i~~~i---~~~~~~~~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~  144 (274)
T cd01133          68 KGGKIGLFGGAGVGKTVLIMELINNI---AKAHGGYSVFAGVGERTREGNDLYHEMKESGVLSKTALVYGQMNEPPGARA  144 (274)
T ss_pred             cCCEEEEecCCCCChhHHHHHHHHHH---HhcCCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHH
Confidence            34678999999999999999999988   4456544444          3344444332111000    001111 11  


Q ss_pred             ---HHHHHHHHHh--C-CCcEEEEEecCCCc
Q 043070          180 ---GRAIDSSRRL--G-QRRFALLLDDLREP  204 (414)
Q Consensus       180 ---~~~~~l~~~L--~-~kr~LlVlDdv~~~  204 (414)
                         ...-.+.+++  + ++.+||++||+-..
T Consensus       145 ~~~~~a~~~AEyfr~~~g~~Vl~~~Dsltr~  175 (274)
T cd01133         145 RVALTGLTMAEYFRDEEGQDVLLFIDNIFRF  175 (274)
T ss_pred             HHHHHHHHHHHHHHHhcCCeEEEEEeChhHH
Confidence               1222345555  3 89999999998543

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.

>PRK05642 DNA replication initiation factor; Validated

Probab=96.96  E-value=0.0041  Score=57.03  Aligned_cols=25  Identities=28%  Similarity=0.464  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+.|+|..|+|||.|++.+++..
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~~~   69 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACLRF   69 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH
Confidence            3678999999999999999998876

>TIGR00602 rad24 checkpoint protein rad24

Probab=96.95  E-value=0.0018  Score=67.43  Aligned_cols=49  Identities=22%  Similarity=0.289  Sum_probs=40.1

Q ss_pred             cccCCCccchH-HHHHHHHHhhc-----CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           94 VQDMENTVDVS-RLNEVWRLVED-----NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        94 ~~~~~~~vGr~-~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      |...++++|-+ .++++..+|..     ....++.|+|++|+||||+++.++...
T Consensus        80 P~~ldel~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l  134 (637)
T TIGR00602        80 PETQHELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKEL  134 (637)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            33446789999 99999999855     233579999999999999999999866

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

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=96.91  E-value=0.01  Score=61.97  Aligned_cols=45  Identities=20%  Similarity=0.301  Sum_probs=39.4

Q ss_pred             CCccchH-HHHHHHHHhhcCCc-eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVEDNSV-RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++||.+ .+..|.+++..+++ ..+.++|..|+||||+|+.+.+..
T Consensus        16 ddIIGQe~vv~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAriLAk~L   62 (709)
T PRK08691         16 ADLVGQEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSL   62 (709)
T ss_pred             HHHcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHh
Confidence            6789999 99999999987664 468999999999999999998875

>PRK08181 transposase; Validated

Probab=96.88  E-value=0.0025  Score=59.49  Aligned_cols=81  Identities=16%  Similarity=0.101  Sum_probs=47.6

Q ss_pred             HHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH--HHHHHHHHHHhcCCCCccCcCCHhHHHH
Q 043070          106 LNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV--KRIQHVMGYRLAMSNEVWDDKTKQGRAI  183 (414)
Q Consensus       106 ~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv--~~l~~~i~~~l~~~~~~~~~~~~~~~~~  183 (414)
                      +....+|+..  ..-+.++|.+|+|||.||..+.+..   ......+.|+  .++...+.....       ..+.+....
T Consensus        96 L~~~~~~~~~--~~nlll~Gp~GtGKTHLa~Aia~~a---~~~g~~v~f~~~~~L~~~l~~a~~-------~~~~~~~l~  163 (269)
T PRK08181         96 IAAGDSWLAK--GANLLLFGPPGGGKSHLAAAIGLAL---IENGWRVLFTRTTDLVQKLQVARR-------ELQLESAIA  163 (269)
T ss_pred             HHHHHHHHhc--CceEEEEecCCCcHHHHHHHHHHHH---HHcCCceeeeeHHHHHHHHHHHHh-------CCcHHHHHH
Confidence            3333356643  3459999999999999999999876   2223333444  555555543321       112222222


Q ss_pred             HHHHHhCCCcEEEEEecCCC
Q 043070          184 DSSRRLGQRRFALLLDDLRE  203 (414)
Q Consensus       184 ~l~~~L~~kr~LlVlDdv~~  203 (414)
                          .+. +--||||||+..
T Consensus       164 ----~l~-~~dLLIIDDlg~  178 (269)
T PRK08181        164 ----KLD-KFDLLILDDLAY  178 (269)
T ss_pred             ----HHh-cCCEEEEecccc
Confidence                222 345999999854

>TIGR03689 pup_AAA proteasome ATPase

Probab=96.88  E-value=0.0012  Score=66.98  Aligned_cols=45  Identities=16%  Similarity=0.216  Sum_probs=36.9

Q ss_pred             CCccchH-HHHHHHHHhhc-------------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVED-------------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++.|.+ .++++.+.+.-             ...+-+.++|++|.|||++|+.+++..
T Consensus       182 ~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL  240 (512)
T TIGR03689       182 ADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSL  240 (512)
T ss_pred             HHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhh
Confidence            4567899 99888887621             245678999999999999999999987

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.

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=96.88  E-value=0.0051  Score=61.96  Aligned_cols=76  Identities=16%  Similarity=0.112  Sum_probs=47.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH--HHHHHHHHHHhcCCCCccCcCCHhHHHHHHHHHhCCCcEE
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV--KRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRRLGQRRFA  195 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv--~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L~~kr~L  195 (414)
                      ..-+.|+|..|+|||+|++.+.+.... ...-..++++  ..+...+...++...         ...+.+++.+. +.-+
T Consensus       141 ~npl~i~G~~G~GKTHLl~Ai~~~l~~-~~~~~~v~yv~~~~f~~~~~~~l~~~~---------~~~~~~~~~~~-~~dv  209 (450)
T PRK14087        141 YNPLFIYGESGMGKTHLLKAAKNYIES-NFSDLKVSYMSGDEFARKAVDILQKTH---------KEIEQFKNEIC-QNDV  209 (450)
T ss_pred             cCceEEECCCCCcHHHHHHHHHHHHHH-hCCCCeEEEEEHHHHHHHHHHHHHHhh---------hHHHHHHHHhc-cCCE
Confidence            356899999999999999999996621 1111222344  677777777765311         11233444444 3458


Q ss_pred             EEEecCCCc
Q 043070          196 LLLDDLREP  204 (414)
Q Consensus       196 lVlDdv~~~  204 (414)
                      |||||+...
T Consensus       210 LiIDDiq~l  218 (450)
T PRK14087        210 LIIDDVQFL  218 (450)
T ss_pred             EEEeccccc
Confidence            889999654

>PRK07952 DNA replication protein DnaC; Validated

Probab=96.83  E-value=0.0048  Score=56.76  Aligned_cols=87  Identities=15%  Similarity=0.212  Sum_probs=50.1

Q ss_pred             HHHHHHHHhhc--CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH--HHHHHHHHHHhcCCCCccCcCCHhH
Q 043070          105 RLNEVWRLVED--NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV--KRIQHVMGYRLAMSNEVWDDKTKQG  180 (414)
Q Consensus       105 ~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv--~~l~~~i~~~l~~~~~~~~~~~~~~  180 (414)
                      .+..+.+...+  .....+.++|.+|+|||+||..+++...   ..-..++++  .++...+-.....     ...+.+.
T Consensus        84 al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~---~~g~~v~~it~~~l~~~l~~~~~~-----~~~~~~~  155 (244)
T PRK07952         84 ALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELL---LRGKSVLIITVADIMSAMKDTFSN-----SETSEEQ  155 (244)
T ss_pred             HHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHH---hcCCeEEEEEHHHHHHHHHHHHhh-----ccccHHH
Confidence            34444444432  2345789999999999999999999872   222222333  5555555443321     1122222


Q ss_pred             HHHHHHHHhCCCcEEEEEecCCCc
Q 043070          181 RAIDSSRRLGQRRFALLLDDLREP  204 (414)
Q Consensus       181 ~~~~l~~~L~~kr~LlVlDdv~~~  204 (414)
                          +.+.+. +.=||||||+...
T Consensus       156 ----~l~~l~-~~dlLvIDDig~~  174 (244)
T PRK07952        156 ----LLNDLS-NVDLLVIDEIGVQ  174 (244)
T ss_pred             ----HHHHhc-cCCEEEEeCCCCC
Confidence                333455 4558889999654

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.80  E-value=0.019  Score=59.78  Aligned_cols=46  Identities=17%  Similarity=0.237  Sum_probs=39.3

Q ss_pred             CCCccchH-HHHHHHHHhhcCCc-eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           97 MENTVDVS-RLNEVWRLVEDNSV-RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -+++||-+ -+..|.+++..+.+ ..+.++|..|+||||+|+.+.+..
T Consensus        15 f~dviGQe~vv~~L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~lAk~L   62 (618)
T PRK14951         15 FSEMVGQEHVVQALTNALTQQRLHHAYLFTGTRGVGKTTVSRILAKSL   62 (618)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            36789999 99999999977655 567899999999999999998766

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.78  E-value=0.013  Score=61.30  Aligned_cols=46  Identities=17%  Similarity=0.223  Sum_probs=39.2

Q ss_pred             CCCccchH-HHHHHHHHhhcCCc-eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           97 MENTVDVS-RLNEVWRLVEDNSV-RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.++||-+ -++.|.+++..+.+ ..+.++|..|+||||+|+.+++..
T Consensus        15 ~~eiiGq~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l   62 (585)
T PRK14950         15 FAELVGQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAV   62 (585)
T ss_pred             HHHhcCCHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            36789999 99999998876554 456899999999999999999876

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=96.78  E-value=0.00088  Score=58.69  Aligned_cols=24  Identities=38%  Similarity=0.498  Sum_probs=21.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +.|.+.|.+|+||||+|++++...
T Consensus         2 pLiIlTGyPgsGKTtfakeLak~L   25 (261)
T COG4088           2 PLIILTGYPGSGKTTFAKELAKEL   25 (261)
T ss_pred             ceEEEecCCCCCchHHHHHHHHHH
Confidence            467889999999999999999877

>PRK00625 shikimate kinase; Provisional

Probab=96.78  E-value=0.0047  Score=53.81  Aligned_cols=23  Identities=35%  Similarity=0.421  Sum_probs=21.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .|.++||+|+||||+++.+.+..
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l   24 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFL   24 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48899999999999999999886

>PRK06547 hypothetical protein; Provisional

Probab=96.78  E-value=0.0022  Score=55.83  Aligned_cols=34  Identities=24%  Similarity=0.204  Sum_probs=27.9

Q ss_pred             HHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          109 VWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       109 l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +...+......+|+|.|.+|+||||+|+.+.+..
T Consensus         6 ~~~~~~~~~~~~i~i~G~~GsGKTt~a~~l~~~~   39 (172)
T PRK06547          6 IAARLCGGGMITVLIDGRSGSGKTTLAGALAART   39 (172)
T ss_pred             HHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            3344455678899999999999999999998875

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=96.76  E-value=0.0026  Score=63.91  Aligned_cols=85  Identities=14%  Similarity=0.203  Sum_probs=52.6

Q ss_pred             HHHHHHhhc-CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCc-chHhH--HHHHHHHHHHhcCCCCccCcCCHhHHH
Q 043070          107 NEVWRLVED-NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFG-LVILV--KRIQHVMGYRLAMSNEVWDDKTKQGRA  182 (414)
Q Consensus       107 ~~l~~~L~~-~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~-~~~wv--~~l~~~i~~~l~~~~~~~~~~~~~~~~  182 (414)
                      ....+...+ ....-+.|+|.+|+|||+|++.+++...  +.+.. .++|+  .++...+...+...       +.+   
T Consensus       118 ~~~~~~~~~~~~~n~l~lyG~~G~GKTHLl~ai~~~l~--~~~~~~~v~yi~~~~f~~~~~~~~~~~-------~~~---  185 (440)
T PRK14088        118 HAALEVAKNPGRYNPLFIYGGVGLGKTHLLQSIGNYVV--QNEPDLRVMYITSEKFLNDLVDSMKEG-------KLN---  185 (440)
T ss_pred             HHHHHHHhCcCCCCeEEEEcCCCCcHHHHHHHHHHHHH--HhCCCCeEEEEEHHHHHHHHHHHHhcc-------cHH---
Confidence            344444433 2245699999999999999999999872  22222 33455  66667776665422       122   


Q ss_pred             HHHHHHhCCCcEEEEEecCCCc
Q 043070          183 IDSSRRLGQRRFALLLDDLREP  204 (414)
Q Consensus       183 ~~l~~~L~~kr~LlVlDdv~~~  204 (414)
                       .+++.+..+.-+|+|||+...
T Consensus       186 -~f~~~~~~~~dvLlIDDi~~l  206 (440)
T PRK14088        186 -EFREKYRKKVDVLLIDDVQFL  206 (440)
T ss_pred             -HHHHHHHhcCCEEEEechhhh
Confidence             233334445668999999743

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=96.75  E-value=0.0051  Score=62.98  Aligned_cols=90  Identities=11%  Similarity=0.093  Sum_probs=52.6

Q ss_pred             CCccchH-HHHHHHHHhh---c---------CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCC-cchHhHHHHHHHHH
Q 043070           98 ENTVDVS-RLNEVWRLVE---D---------NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNF-GLVILVKRIQHVMG  163 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~---~---------~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F-~~~~wv~~l~~~i~  163 (414)
                      .+++|.+ .++++.+++.   .         ...+-+.++|++|+|||+||+.+++..   .-.| ....  ..+.    
T Consensus        55 ~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~---~~~~~~i~~--~~~~----  125 (495)
T TIGR01241        55 KDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEA---GVPFFSISG--SDFV----  125 (495)
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHc---CCCeeeccH--HHHH----
Confidence            4577887 6666655442   1         234568899999999999999999877   2333 1110  1111    


Q ss_pred             HHhcCCCCccCcCCHhHHHHHHHHHhCCCcEEEEEecCCC
Q 043070          164 YRLAMSNEVWDDKTKQGRAIDSSRRLGQRRFALLLDDLRE  203 (414)
Q Consensus       164 ~~l~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~  203 (414)
                      ...       .......+...+.......+.+|+|||++.
T Consensus       126 ~~~-------~g~~~~~l~~~f~~a~~~~p~Il~iDEid~  158 (495)
T TIGR01241       126 EMF-------VGVGASRVRDLFEQAKKNAPCIIFIDEIDA  158 (495)
T ss_pred             HHH-------hcccHHHHHHHHHHHHhcCCCEEEEechhh
Confidence            110       011222333334444456778999999965

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.

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=96.74  E-value=0.0019  Score=61.98  Aligned_cols=46  Identities=17%  Similarity=0.302  Sum_probs=40.9

Q ss_pred             CCCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           97 MENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.+++|++ .++.+.+++.....+.+.++|.+|+||||+|+.+.+..
T Consensus        16 ~~~~~g~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l   62 (319)
T PRK00440         16 LDEIVGQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALAREL   62 (319)
T ss_pred             HHHhcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            35689999 99999999987766778999999999999999999876

>PRK09183 transposase/IS protein; Provisional

Probab=96.74  E-value=0.0048  Score=57.47  Aligned_cols=25  Identities=36%  Similarity=0.325  Sum_probs=21.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+.|+|.+|+|||+||..+.+..
T Consensus       102 ~~~v~l~Gp~GtGKThLa~al~~~a  126 (259)
T PRK09183        102 NENIVLLGPSGVGKTHLAIALGYEA  126 (259)
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHH
Confidence            3567899999999999999998765

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=96.73  E-value=0.0066  Score=53.09  Aligned_cols=34  Identities=26%  Similarity=0.276  Sum_probs=26.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV  155 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv  155 (414)
                      .|.|.|.+|+||||+|+.+.+...  -.|.+..-|.
T Consensus         2 riiilG~pGaGK~T~A~~La~~~~--i~hlstgd~~   35 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKLG--LPHLDTGDIL   35 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC--CcEEcHhHHh
Confidence            578999999999999999999873  3455533333

>PRK07667 uridine kinase; Provisional

Probab=96.72  E-value=0.0024  Score=56.68  Aligned_cols=37  Identities=32%  Similarity=0.531  Sum_probs=29.7

Q ss_pred             HHHHHHHhhc--CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          106 LNEVWRLVED--NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       106 ~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+.|.+.+..  +...+|+|.|.+|+||||+|+.+....
T Consensus         3 ~~~~~~~~~~~~~~~~iIgI~G~~gsGKStla~~L~~~l   41 (193)
T PRK07667          3 TNELINIMKKHKENRFILGIDGLSRSGKTTFVANLKENM   41 (193)
T ss_pred             HHHHHHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            4566666643  445799999999999999999998876

>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=96.71  E-value=0.0024  Score=56.83  Aligned_cols=81  Identities=19%  Similarity=0.187  Sum_probs=45.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH---------HHHHHHHHHHhcCCCCcc-CcCCHhHHHHHHHH
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV---------KRIQHVMGYRLAMSNEVW-DDKTKQGRAIDSSR  187 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv---------~~l~~~i~~~l~~~~~~~-~~~~~~~~~~~l~~  187 (414)
                      +++|.+||+.|+||||.+.+++... ..+  -..+..+         .+-++..++.++.+.... ...+..+......+
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~-~~~--~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~~~~~~~~~~~~~~~l~   77 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARL-KLK--GKKVALISADTYRIGAVEQLKTYAEILGVPFYVARTESDPAEIAREALE   77 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHH-HHT--T--EEEEEESTSSTHHHHHHHHHHHHHTEEEEESSTTSCHHHHHHHHHH
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHH-hhc--cccceeecCCCCCccHHHHHHHHHHHhccccchhhcchhhHHHHHHHHH
Confidence            4799999999999999888887777 222  2222233         566677777777653211 12233333333223


Q ss_pred             HhCC-CcEEEEEecC
Q 043070          188 RLGQ-RRFALLLDDL  201 (414)
Q Consensus       188 ~L~~-kr~LlVlDdv  201 (414)
                      .+.. +.=++++|-.
T Consensus        78 ~~~~~~~D~vlIDT~   92 (196)
T PF00448_consen   78 KFRKKGYDLVLIDTA   92 (196)
T ss_dssp             HHHHTTSSEEEEEE-
T ss_pred             HHhhcCCCEEEEecC
Confidence            3333 3456777754

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 ....

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=96.71  E-value=0.0031  Score=56.35  Aligned_cols=74  Identities=18%  Similarity=0.039  Sum_probs=45.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhHHHHH-----HHHHHHhcCCCCccCcCCHhHHHHHHHHHhCC
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILVKRIQ-----HVMGYRLAMSNEVWDDKTKQGRAIDSSRRLGQ  191 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv~~l~-----~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L~~  191 (414)
                      ++.+|+|.|.+|+||||+|+.++...   ...+-..+-.....     ..........-+.....+.+-+.+.|...+.+
T Consensus         7 ~~iiIgIaG~SgSGKTTva~~l~~~~---~~~~~~~I~~D~YYk~~~~~~~~~~~~~n~d~p~A~D~dLl~~~L~~L~~g   83 (218)
T COG0572           7 KVIIIGIAGGSGSGKTTVAKELSEQL---GVEKVVVISLDDYYKDQSHLPFEERNKINYDHPEAFDLDLLIEHLKDLKQG   83 (218)
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHh---CcCcceEeeccccccchhhcCHhhcCCcCccChhhhcHHHHHHHHHHHHcC
Confidence            45799999999999999999999988   32211111100011     11111111111122567788888999999999


Q ss_pred             Cc
Q 043070          192 RR  193 (414)
Q Consensus       192 kr  193 (414)
                      ++
T Consensus        84 ~~   85 (218)
T COG0572          84 KP   85 (218)
T ss_pred             Cc
Confidence            87

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

Probab=96.71  E-value=0.0071  Score=57.51  Aligned_cols=46  Identities=22%  Similarity=0.330  Sum_probs=38.3

Q ss_pred             cchH-HHHHHHHHhh----c---------CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCC
Q 043070          101 VDVS-RLNEVWRLVE----D---------NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNF  149 (414)
Q Consensus       101 vGr~-~~~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F  149 (414)
                      -|-+ .+++|.+.+.    +         +.++-|.++|++|.|||-||++|+++.   ...|
T Consensus       154 GGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T---~AtF  213 (406)
T COG1222         154 GGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQT---DATF  213 (406)
T ss_pred             cCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhcc---CceE
Confidence            3788 8888888762    1         567889999999999999999999988   5666

>TIGR02012 tigrfam_recA protein RecA

Probab=96.68  E-value=0.0034  Score=59.92  Aligned_cols=86  Identities=16%  Similarity=0.127  Sum_probs=54.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH---HHHHHHHHHHhcCCCCc---cCcCCHhHHHHHHHHHh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV---KRIQHVMGYRLAMSNEV---WDDKTKQGRAIDSSRRL  189 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv---~~l~~~i~~~l~~~~~~---~~~~~~~~~~~~l~~~L  189 (414)
                      +.-+++-|+|.+|+||||||.++....   ...-..++|+   ..+-...+++++...+.   ....+.++....+...+
T Consensus        53 p~G~iteI~G~~GsGKTtLaL~~~~~~---~~~g~~v~yId~E~~~~~~~a~~lGvd~~~l~v~~p~~~eq~l~~~~~li  129 (321)
T TIGR02012        53 PRGRIIEIYGPESSGKTTLALHAIAEA---QKAGGTAAFIDAEHALDPVYARKLGVDIDNLLVSQPDTGEQALEIAETLV  129 (321)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHH---HHcCCcEEEEcccchhHHHHHHHcCCCHHHeEEecCCCHHHHHHHHHHHh
Confidence            345799999999999999999987766   2223444566   33333445555543221   12344566666666555


Q ss_pred             C-CCcEEEEEecCCCc
Q 043070          190 G-QRRFALLLDDLREP  204 (414)
Q Consensus       190 ~-~kr~LlVlDdv~~~  204 (414)
                      + +.--+||+|.+-..
T Consensus       130 ~~~~~~lIVIDSv~al  145 (321)
T TIGR02012       130 RSGAVDIIVVDSVAAL  145 (321)
T ss_pred             hccCCcEEEEcchhhh
Confidence            4 46778999987543

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.

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=96.67  E-value=0.0045  Score=57.45  Aligned_cols=83  Identities=16%  Similarity=0.185  Sum_probs=51.1

Q ss_pred             HHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcch-HhHHHHHHHHHHHhcCCCCccCcCCHhHHHHHH
Q 043070          107 NEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLV-ILVKRIQHVMGYRLAMSNEVWDDKTKQGRAIDS  185 (414)
Q Consensus       107 ~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~-~wv~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l  185 (414)
                      ..+.+++.  +..-+.++|.+|+|||.||.++.+.. . +..+... +.+.++..++.......          ....+|
T Consensus        96 ~~~~~~~~--~~~nl~l~G~~G~GKThLa~Ai~~~l-~-~~g~sv~f~~~~el~~~Lk~~~~~~----------~~~~~l  161 (254)
T COG1484          96 ASLVEFFE--RGENLVLLGPPGVGKTHLAIAIGNEL-L-KAGISVLFITAPDLLSKLKAAFDEG----------RLEEKL  161 (254)
T ss_pred             HHHHHHhc--cCCcEEEECCCCCcHHHHHHHHHHHH-H-HcCCeEEEEEHHHHHHHHHHHHhcC----------chHHHH
Confidence            33344444  66789999999999999999999998 2 3333222 22266777666655431          112223


Q ss_pred             HHHhCCCcEEEEEecCCCc
Q 043070          186 SRRLGQRRFALLLDDLREP  204 (414)
Q Consensus       186 ~~~L~~kr~LlVlDdv~~~  204 (414)
                      .+.++ +-=||||||+-..
T Consensus       162 ~~~l~-~~dlLIiDDlG~~  179 (254)
T COG1484         162 LRELK-KVDLLIIDDIGYE  179 (254)
T ss_pred             HHHhh-cCCEEEEecccCc
Confidence            33222 2358899998653

>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=96.67  E-value=0.0016  Score=53.27  Aligned_cols=22  Identities=32%  Similarity=0.552  Sum_probs=20.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhh
Q 043070          121 ICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       121 i~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      |.|.|.+|+||||+|+.+....
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            6899999999999999999884

...

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=96.66  E-value=0.0034  Score=56.35  Aligned_cols=36  Identities=19%  Similarity=0.127  Sum_probs=27.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV  155 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv  155 (414)
                      .-.++.|+|.+|+|||++|.++....   ......++|+
T Consensus        11 ~g~i~~i~G~~GsGKT~l~~~~~~~~---~~~g~~v~yi   46 (209)
T TIGR02237        11 RGTITQIYGPPGSGKTNICMILAVNA---ARQGKKVVYI   46 (209)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH---HhCCCeEEEE
Confidence            45799999999999999999988765   1223444555

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).

>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=96.63  E-value=0.0089  Score=54.33  Aligned_cols=84  Identities=18%  Similarity=0.115  Sum_probs=47.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCC------cchHhH-------HHHHHHHHHHhcCCCC-------ccCcC
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNF------GLVILV-------KRIQHVMGYRLAMSNE-------VWDDK  176 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F------~~~~wv-------~~l~~~i~~~l~~~~~-------~~~~~  176 (414)
                      .-.++.|+|.+|+|||+||..++...   ...-      ..++|+       ..-+..+....+....       -....
T Consensus        18 ~g~v~~I~G~~GsGKT~l~~~ia~~~---~~~~~~~g~~~~v~yi~~e~~~~~~rl~~~~~~~~~~~~~~~~~i~~~~~~   94 (226)
T cd01393          18 TGRITEIFGEFGSGKTQLCLQLAVEA---QLPGELGGLEGKVVYIDTEGAFRPERLVQLAVRFGLDPEEVLDNIYVARPY   94 (226)
T ss_pred             CCcEEEEeCCCCCChhHHHHHHHHHh---hcccccCCCcceEEEEecCCCCCHHHHHHHHHHhccchhhhhccEEEEeCC
Confidence            45799999999999999999987665   1122      334555       2223333333221110       01223


Q ss_pred             CHhHHHHHHHHHhC----CCcEEEEEecCCC
Q 043070          177 TKQGRAIDSSRRLG----QRRFALLLDDLRE  203 (414)
Q Consensus       177 ~~~~~~~~l~~~L~----~kr~LlVlDdv~~  203 (414)
                      +.+++...+.+.+.    .+--|+|+|.+..
T Consensus        95 ~~~~~~~~l~~~~~~~~~~~~~lvVIDsis~  125 (226)
T cd01393          95 NGEQQLEIVEELERIMSSGRVDLVVVDSVAA  125 (226)
T ss_pred             CHHHHHHHHHHHHHHhhcCCeeEEEEcCcch
Confidence            45555555555543    3455888888743

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.

>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional

Probab=96.62  E-value=0.0034  Score=60.44  Aligned_cols=27  Identities=22%  Similarity=0.131  Sum_probs=24.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+..+.|+|++|.|||.+|+.+++..
T Consensus       146 k~PlgllL~GPPGcGKTllAraiA~el  172 (413)
T PLN00020        146 KVPLILGIWGGKGQGKSFQCELVFKKM  172 (413)
T ss_pred             CCCeEEEeeCCCCCCHHHHHHHHHHHc
Confidence            456789999999999999999999988

>PRK10867 signal recognition particle protein; Provisional

Probab=96.61  E-value=0.0065  Score=60.55  Aligned_cols=26  Identities=31%  Similarity=0.356  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+|.++|.+|+||||.|..++...
T Consensus        99 ~p~vI~~vG~~GsGKTTtaakLA~~l  124 (433)
T PRK10867         99 PPTVIMMVGLQGAGKTTTAGKLAKYL  124 (433)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHH
Confidence            36799999999999999888877655

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=96.60  E-value=0.0043  Score=56.48  Aligned_cols=26  Identities=23%  Similarity=0.203  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.++.|+|.+|+|||++|.+++...
T Consensus        22 ~g~i~~i~G~~GsGKT~l~~~la~~~   47 (225)
T PRK09361         22 RGTITQIYGPPGSGKTNICLQLAVEA   47 (225)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            45799999999999999999998766

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=96.60  E-value=0.0019  Score=57.36  Aligned_cols=75  Identities=19%  Similarity=0.085  Sum_probs=42.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhhhcCCCCc-----chHhH----HHH-HHHHHHHh--cCCCCccCcCCHhHHHHHHHH
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKFNDTRHNFG-----LVILV----KRI-QHVMGYRL--AMSNEVWDDKTKQGRAIDSSR  187 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~-----~~~wv----~~l-~~~i~~~l--~~~~~~~~~~~~~~~~~~l~~  187 (414)
                      ||+|.|.+|+||||+|+.+.....  +....     .....    ... ....-...  ..........+.+.+.+.|..
T Consensus         1 IIgI~G~sgSGKTTla~~L~~~L~--~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~p~a~d~~~l~~~l~~   78 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQILN--KRGIPAMEMDIILSLDDFYDDYHLRDRKGRGENRYNFDHPDAFDFDLLKEDLKA   78 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHT--TCTTTCCCSEEEEEGGGGBHHHHHHHHHHHCTTTSSTTSGGGBSHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhC--ccCcCccceeEEEeecccccccchhhHhhccccccCCCCccccCHHHHHHHHHH
Confidence            799999999999999999999883  12222     11111    111 11111111  111111245677788888887


Q ss_pred             HhCCCcEEE
Q 043070          188 RLGQRRFAL  196 (414)
Q Consensus       188 ~L~~kr~Ll  196 (414)
                      ..+++..-+
T Consensus        79 L~~g~~i~~   87 (194)
T PF00485_consen   79 LKNGGSIEI   87 (194)
T ss_dssp             HHTTSCEEE
T ss_pred             HhCCCcccc
Confidence            777766444

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 ....

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=96.60  E-value=0.0038  Score=59.69  Aligned_cols=84  Identities=18%  Similarity=0.144  Sum_probs=53.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH---HHHHHHHHHHhcCCCCc---cCcCCHhHHHHHHHHHhC
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV---KRIQHVMGYRLAMSNEV---WDDKTKQGRAIDSSRRLG  190 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv---~~l~~~i~~~l~~~~~~---~~~~~~~~~~~~l~~~L~  190 (414)
                      .-+++-|+|++|+||||||.+++...   ...-..++|+   ..+-...+.+++...+.   ....+.++....+...++
T Consensus        54 ~G~iteI~Gp~GsGKTtLal~~~~~~---~~~g~~~vyId~E~~~~~~~a~~lGvd~~~l~v~~p~~~eq~l~i~~~li~  130 (325)
T cd00983          54 KGRIIEIYGPESSGKTTLALHAIAEA---QKLGGTVAFIDAEHALDPVYAKKLGVDLDNLLISQPDTGEQALEIADSLVR  130 (325)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH---HHcCCCEEEECccccHHHHHHHHcCCCHHHheecCCCCHHHHHHHHHHHHh
Confidence            45789999999999999999987665   2223455566   22333455555543221   123345666666665554


Q ss_pred             -CCcEEEEEecCCC
Q 043070          191 -QRRFALLLDDLRE  203 (414)
Q Consensus       191 -~kr~LlVlDdv~~  203 (414)
                       +.--|||+|.|-.
T Consensus       131 s~~~~lIVIDSvaa  144 (325)
T cd00983         131 SGAVDLIVVDSVAA  144 (325)
T ss_pred             ccCCCEEEEcchHh
Confidence             4677899998753

RecA couples ATP hydrolysis to DNA strand exchange.

>PRK08233 hypothetical protein; Provisional

Probab=96.60  E-value=0.002  Score=56.41  Aligned_cols=25  Identities=44%  Similarity=0.511  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+|+|.|.+|+||||||..++...
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~l   27 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHKL   27 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhC
Confidence            4789999999999999999999876

>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]

Probab=96.60  E-value=0.003  Score=65.05  Aligned_cols=45  Identities=20%  Similarity=0.335  Sum_probs=38.3

Q ss_pred             CCccchH-HHHHHHHHhh------cCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVE------DNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~------~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+-.|.+ -+++|++.|.      .-+-+++++||++|+|||+|++.+++..
T Consensus       323 ~dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al  374 (782)
T COG0466         323 KDHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKAL  374 (782)
T ss_pred             ccccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHHh
Confidence            4567999 9999999982      1334799999999999999999999988

>PRK08939 primosomal protein DnaI; Reviewed

Probab=96.59  E-value=0.0061  Score=58.14  Aligned_cols=87  Identities=17%  Similarity=0.243  Sum_probs=53.3

Q ss_pred             chH-HHHHHHHHhhc----CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH--HHHHHHHHHHhcCCCCccC
Q 043070          102 DVS-RLNEVWRLVED----NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV--KRIQHVMGYRLAMSNEVWD  174 (414)
Q Consensus       102 Gr~-~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv--~~l~~~i~~~l~~~~~~~~  174 (414)
                      ++. ......+++.+    ...+-+.|+|..|+|||.||.++++...  ...+.+ .++  ..++..+-......     
T Consensus       135 ~~~~~~~~~~~fi~~~~~~~~~~gl~L~G~~G~GKThLa~Aia~~l~--~~g~~v-~~~~~~~l~~~lk~~~~~~-----  206 (306)
T PRK08939        135 DRLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKSYLLAAIANELA--KKGVSS-TLLHFPEFIRELKNSISDG-----  206 (306)
T ss_pred             HHHHHHHHHHHHHHHhhccCCCCeEEEECCCCCCHHHHHHHHHHHHH--HcCCCE-EEEEHHHHHHHHHHHHhcC-----
Confidence            455 55555666643    2456799999999999999999999982  223332 233  55666665554321     


Q ss_pred             cCCHhHHHHHHHHHhCCCcEEEEEecCCC
Q 043070          175 DKTKQGRAIDSSRRLGQRRFALLLDDLRE  203 (414)
Q Consensus       175 ~~~~~~~~~~l~~~L~~kr~LlVlDdv~~  203 (414)
                        +....   + +.++ +-=||||||+-.
T Consensus       207 --~~~~~---l-~~l~-~~dlLiIDDiG~  228 (306)
T PRK08939        207 --SVKEK---I-DAVK-EAPVLMLDDIGA  228 (306)
T ss_pred             --cHHHH---H-HHhc-CCCEEEEecCCC
Confidence              12222   2 2233 567899999854

>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]

Probab=96.58  E-value=0.024  Score=59.00  Aligned_cols=90  Identities=16%  Similarity=0.156  Sum_probs=57.6

Q ss_pred             CCccchH-HHHHHHHHhh---------c---CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH--HHHHHHH
Q 043070           98 ENTVDVS-RLNEVWRLVE---------D---NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV--KRIQHVM  162 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~---------~---~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv--~~l~~~i  162 (414)
                      +++-|.+ -+.+|.+-+.         .   .+.+-|.++|++|.|||-||++|+-..   .=.|=   -|  -+++..-
T Consensus       672 dDVGGLeevK~eIldTIqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATEc---sL~Fl---SVKGPELLNMY  745 (953)
T KOG0736|consen  672 DDVGGLEEVKTEILDTIQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATEC---SLNFL---SVKGPELLNMY  745 (953)
T ss_pred             hcccCHHHHHHHHHHHhcCcccChhhhhccccccceeEEECCCCCchHHHHHHHHhhc---eeeEE---eecCHHHHHHH
Confidence            4566888 8888888762         1   235678899999999999999999887   33330   00  1111111


Q ss_pred             HHHhcCCCCccCcCCHhHHHHHHHHHhCCCcEEEEEecCCCc
Q 043070          163 GYRLAMSNEVWDDKTKQGRAIDSSRRLGQRRFALLLDDLREP  204 (414)
Q Consensus       163 ~~~l~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~  204 (414)
                                 -..+++.+.+...+.=.-++|.|.+|.+++.
T Consensus       746 -----------VGqSE~NVR~VFerAR~A~PCVIFFDELDSl  776 (953)
T KOG0736|consen  746 -----------VGQSEENVREVFERARSAAPCVIFFDELDSL  776 (953)
T ss_pred             -----------hcchHHHHHHHHHHhhccCCeEEEecccccc
Confidence                       2233444444444444568999999988664

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=96.58  E-value=0.0043  Score=62.37  Aligned_cols=72  Identities=17%  Similarity=0.144  Sum_probs=45.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH--HHHHHHHHHHhcCCCCccCcCCHhHHHHHHHHHhCCCcEE
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV--KRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRRLGQRRFA  195 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv--~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L~~kr~L  195 (414)
                      ..-+.|+|..|+|||+|++.+++...   .....++++  ..+...+...+...       .    .+.+++.+. +.-+
T Consensus       141 ~npl~L~G~~G~GKTHLl~Ai~~~l~---~~~~~v~yi~~~~f~~~~~~~l~~~-------~----~~~f~~~~~-~~dv  205 (445)
T PRK12422        141 FNPIYLFGPEGSGKTHLMQAAVHALR---ESGGKILYVRSELFTEHLVSAIRSG-------E----MQRFRQFYR-NVDA  205 (445)
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHHHH---HcCCCEEEeeHHHHHHHHHHHHhcc-------h----HHHHHHHcc-cCCE
Confidence            35688999999999999999999872   122223444  55555555555321       1    123444443 3458


Q ss_pred             EEEecCCCc
Q 043070          196 LLLDDLREP  204 (414)
Q Consensus       196 lVlDdv~~~  204 (414)
                      |++||+...
T Consensus       206 LiIDDiq~l  214 (445)
T PRK12422        206 LFIEDIEVF  214 (445)
T ss_pred             EEEcchhhh
Confidence            888998654

>cd01394 radB RadB

Probab=96.56  E-value=0.0077  Score=54.47  Aligned_cols=26  Identities=19%  Similarity=0.185  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.++.|.|.+|+||||||.+++...
T Consensus        18 ~g~i~~i~G~~GsGKT~l~~~~a~~~   43 (218)
T cd01394          18 RGTVTQVYGPPGTGKTNIAIQLAVET   43 (218)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            45799999999999999999998765

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>PRK05480 uridine/cytidine kinase; Provisional

Probab=96.55  E-value=0.0024  Score=57.43  Aligned_cols=27  Identities=30%  Similarity=0.334  Sum_probs=24.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+..+|+|+|.+|+||||||+.++...
T Consensus         4 ~~~~iI~I~G~sGsGKTTl~~~l~~~l   30 (209)
T PRK05480          4 KKPIIIGIAGGSGSGKTTVASTIYEEL   30 (209)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            456799999999999999999999876

>PTZ00301 uridine kinase; Provisional

Probab=96.55  E-value=0.0024  Score=57.48  Aligned_cols=26  Identities=27%  Similarity=0.440  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +..+|+|.|.+|+||||||+.+.+..
T Consensus         2 ~~~iIgIaG~SgSGKTTla~~l~~~l   27 (210)
T PTZ00301          2 PCTVIGISGASGSGKSSLSTNIVSEL   27 (210)
T ss_pred             CCEEEEEECCCcCCHHHHHHHHHHHH
Confidence            35799999999999999999998766

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=96.55  E-value=0.0021  Score=54.21  Aligned_cols=25  Identities=32%  Similarity=0.509  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-|.|.||+|+|||||++.+.+..
T Consensus         5 ~mki~ITG~PGvGKtTl~~ki~e~L   29 (179)
T COG1618           5 AMKIFITGRPGVGKTTLVLKIAEKL   29 (179)
T ss_pred             ceEEEEeCCCCccHHHHHHHHHHHH
Confidence            3568999999999999999999988

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=96.54  E-value=0.01  Score=59.21  Aligned_cols=26  Identities=35%  Similarity=0.411  Sum_probs=23.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+|.++|.+|+||||+|..++...
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L  119 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYF  119 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            46799999999999999999998877

>PRK14527 adenylate kinase; Provisional

Probab=96.54  E-value=0.012  Score=52.12  Aligned_cols=37  Identities=14%  Similarity=0.195  Sum_probs=28.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV  155 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv  155 (414)
                      ...+|.|+|++|+||||+|+.+.+.+.  -.++...-++
T Consensus         5 ~~~~i~i~G~pGsGKsT~a~~La~~~~--~~~is~gd~~   41 (191)
T PRK14527          5 KNKVVIFLGPPGAGKGTQAERLAQELG--LKKLSTGDIL   41 (191)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHhC--CCCCCccHHH
Confidence            457899999999999999999998773  3444443333

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=96.53  E-value=0.0065  Score=53.27  Aligned_cols=23  Identities=22%  Similarity=0.323  Sum_probs=21.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +|.|+|++|+||||+|+.+....
T Consensus         1 ~i~i~G~pGsGKst~a~~la~~~   23 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVENF   23 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            58899999999999999999887

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.

>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=96.53  E-value=0.0045  Score=52.63  Aligned_cols=25  Identities=40%  Similarity=0.515  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+|-|+|.+|+||||||+.+.+..
T Consensus         2 g~vIwltGlsGsGKtTlA~~L~~~L   26 (156)
T PF01583_consen    2 GFVIWLTGLSGSGKTTLARALERRL   26 (156)
T ss_dssp             -EEEEEESSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHH
Confidence            3589999999999999999999887

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 ....

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

Probab=96.52  E-value=0.0033  Score=62.73  Aligned_cols=43  Identities=21%  Similarity=0.200  Sum_probs=34.7

Q ss_pred             ccchH-HHHHHHHHhhc-------------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          100 TVDVS-RLNEVWRLVED-------------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       100 ~vGr~-~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +.|.+ .+++|.+.+.-             ...+-+.++|++|+|||++|+.+++..
T Consensus       185 IgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el  241 (438)
T PTZ00361        185 IGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANET  241 (438)
T ss_pred             hcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhh
Confidence            45888 88888877621             234678899999999999999999987

>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=96.52  E-value=0.0023  Score=53.52  Aligned_cols=23  Identities=39%  Similarity=0.536  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +|.++|++|+||||+|+.+....
T Consensus         1 lii~~G~pgsGKSt~a~~l~~~~   23 (143)
T PF13671_consen    1 LIILCGPPGSGKSTLAKRLAKRL   23 (143)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHS
T ss_pred             CEEEECCCCCCHHHHHHHHHHHC
Confidence            68899999999999999999776

...

>PRK09354 recA recombinase A; Provisional

Probab=96.52  E-value=0.0047  Score=59.58  Aligned_cols=85  Identities=15%  Similarity=0.127  Sum_probs=54.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH---HHHHHHHHHHhcCCCCc---cCcCCHhHHHHHHHHHhC
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV---KRIQHVMGYRLAMSNEV---WDDKTKQGRAIDSSRRLG  190 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv---~~l~~~i~~~l~~~~~~---~~~~~~~~~~~~l~~~L~  190 (414)
                      .-+++-|+|++|+||||||.++....   ...-...+||   ..+-...+++++...+.   ....+.++....+...++
T Consensus        59 ~G~IteI~G~~GsGKTtLal~~~~~~---~~~G~~~~yId~E~s~~~~~a~~lGvdld~lli~qp~~~Eq~l~i~~~li~  135 (349)
T PRK09354         59 RGRIVEIYGPESSGKTTLALHAIAEA---QKAGGTAAFIDAEHALDPVYAKKLGVDIDNLLVSQPDTGEQALEIADTLVR  135 (349)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH---HHcCCcEEEECCccchHHHHHHHcCCCHHHeEEecCCCHHHHHHHHHHHhh
Confidence            45799999999999999999987766   2233455677   33333455666543221   123345666666666554


Q ss_pred             -CCcEEEEEecCCCc
Q 043070          191 -QRRFALLLDDLREP  204 (414)
Q Consensus       191 -~kr~LlVlDdv~~~  204 (414)
                       ++--|||+|-|-..
T Consensus       136 s~~~~lIVIDSvaaL  150 (349)
T PRK09354        136 SGAVDLIVVDSVAAL  150 (349)
T ss_pred             cCCCCEEEEeChhhh
Confidence             46778999987543

>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=96.51  E-value=0.0021  Score=57.27  Aligned_cols=48  Identities=13%  Similarity=0.173  Sum_probs=33.5

Q ss_pred             HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH
Q 043070          105 RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV  155 (414)
Q Consensus       105 ~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv  155 (414)
                      +-...++.|.  ...++.+.|++|.|||.||.+.+-+. -....|+..+++
T Consensus         8 ~Q~~~~~al~--~~~~v~~~G~AGTGKT~LA~a~Al~~-v~~g~~~kiii~   55 (205)
T PF02562_consen    8 EQKFALDALL--NNDLVIVNGPAGTGKTFLALAAALEL-VKEGEYDKIIIT   55 (205)
T ss_dssp             HHHHHHHHHH--H-SEEEEE--TTSSTTHHHHHHHHHH-HHTTS-SEEEEE
T ss_pred             HHHHHHHHHH--hCCeEEEECCCCCcHHHHHHHHHHHH-HHhCCCcEEEEE
Confidence            4555666666  45699999999999999999988766 335777777766

; GO: 0005524 ATP binding; PDB: 3B85_A.

>PRK06762 hypothetical protein; Provisional

Probab=96.49  E-value=0.0026  Score=54.87  Aligned_cols=24  Identities=33%  Similarity=0.529  Sum_probs=22.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+|.|+|++|+||||+|+.+.+..
T Consensus         3 ~li~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          3 TLIIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            689999999999999999999876

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=96.49  E-value=0.0051  Score=61.30  Aligned_cols=73  Identities=21%  Similarity=0.230  Sum_probs=45.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCC-cchHhH--HHHHHHHHHHhcCCCCccCcCCHhHHHHHHHHHhCCCcE
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKFNDTRHNF-GLVILV--KRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRRLGQRRF  194 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F-~~~~wv--~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L~~kr~  194 (414)
                      ...+.|+|..|+|||+|++.+++...  +... ..++++  ..+...+...+...       ..+    .+.+.+.+ .-
T Consensus       136 ~n~l~l~G~~G~GKThL~~ai~~~l~--~~~~~~~v~yi~~~~~~~~~~~~~~~~-------~~~----~~~~~~~~-~d  201 (405)
T TIGR00362       136 YNPLFIYGGVGLGKTHLLHAIGNEIL--ENNPNAKVVYVSSEKFTNDFVNALRNN-------KME----EFKEKYRS-VD  201 (405)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHH--HhCCCCcEEEEEHHHHHHHHHHHHHcC-------CHH----HHHHHHHh-CC
Confidence            35689999999999999999999872  1111 123344  55566666555421       122    23333333 34


Q ss_pred             EEEEecCCCc
Q 043070          195 ALLLDDLREP  204 (414)
Q Consensus       195 LlVlDdv~~~  204 (414)
                      +|||||+...
T Consensus       202 lLiiDDi~~l  211 (405)
T TIGR00362       202 LLLIDDIQFL  211 (405)
T ss_pred             EEEEehhhhh
Confidence            8899999754

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).

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=96.49  E-value=0.02  Score=59.17  Aligned_cols=72  Identities=22%  Similarity=0.188  Sum_probs=45.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCC--cchHhH--HHHHHHHHHHhcCCCCccCcCCHhHHHHHHHHHhCCCc
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKFNDTRHNF--GLVILV--KRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRRLGQRR  193 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F--~~~~wv--~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L~~kr  193 (414)
                      ...+.|+|..|+|||.|++.+++...   ..+  ..++++  ..+..++...+...       ..    +.+++.+.+ -
T Consensus       314 ~NpL~LyG~sGsGKTHLL~AIa~~a~---~~~~g~~V~Yitaeef~~el~~al~~~-------~~----~~f~~~y~~-~  378 (617)
T PRK14086        314 YNPLFIYGESGLGKTHLLHAIGHYAR---RLYPGTRVRYVSSEEFTNEFINSIRDG-------KG----DSFRRRYRE-M  378 (617)
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHHHH---HhCCCCeEEEeeHHHHHHHHHHHHHhc-------cH----HHHHHHhhc-C
Confidence            34689999999999999999999872   221  223444  55565655554321       11    223333433 3


Q ss_pred             EEEEEecCCCc
Q 043070          194 FALLLDDLREP  204 (414)
Q Consensus       194 ~LlVlDdv~~~  204 (414)
                      =+|||||+...
T Consensus       379 DLLlIDDIq~l  389 (617)
T PRK14086        379 DILLVDDIQFL  389 (617)
T ss_pred             CEEEEehhccc
Confidence            57888999755

>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=96.45  E-value=0.0028  Score=46.14  Aligned_cols=23  Identities=35%  Similarity=0.507  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +|+|.|..|+||||+|+.+.+..
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998873

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.

>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]

Probab=96.45  E-value=0.011  Score=50.87  Aligned_cols=78  Identities=19%  Similarity=0.172  Sum_probs=46.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCC-cchHhH--------------------HHHHHHHHHHhcCCCCc-cCcC
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKFNDTRHNF-GLVILV--------------------KRIQHVMGYRLAMSNEV-WDDK  176 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F-~~~~wv--------------------~~l~~~i~~~l~~~~~~-~~~~  176 (414)
                      +-|.++||.|+||||+.+.+++..   .-.| |.=-++                    +++-..++..+....+. ....
T Consensus         3 ~~IvLiG~mGaGKSTIGr~LAk~L---~~~F~D~D~~Ie~~~g~sI~eIF~~~GE~~FR~~E~~vl~~l~~~~~~ViaTG   79 (172)
T COG0703           3 MNIVLIGFMGAGKSTIGRALAKAL---NLPFIDTDQEIEKRTGMSIAEIFEEEGEEGFRRLETEVLKELLEEDNAVIATG   79 (172)
T ss_pred             ccEEEEcCCCCCHhHHHHHHHHHc---CCCcccchHHHHHHHCcCHHHHHHHHhHHHHHHHHHHHHHHHhhcCCeEEECC
Confidence            357899999999999999999887   3344 544444                    44444455554333211 0111


Q ss_pred             CHhHHHHHHHHHhCCCcEEEEEe
Q 043070          177 TKQGRAIDSSRRLGQRRFALLLD  199 (414)
Q Consensus       177 ~~~~~~~~l~~~L~~kr~LlVlD  199 (414)
                      .-.-+.+.-+++|+++-..|.||
T Consensus        80 GG~v~~~enr~~l~~~g~vv~L~  102 (172)
T COG0703          80 GGAVLSEENRNLLKKRGIVVYLD  102 (172)
T ss_pred             CccccCHHHHHHHHhCCeEEEEe
Confidence            11222345566777766666665

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=96.45  E-value=0.0054  Score=62.00  Aligned_cols=72  Identities=21%  Similarity=0.197  Sum_probs=45.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCC--cchHhH--HHHHHHHHHHhcCCCCccCcCCHhHHHHHHHHHhCCCc
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKFNDTRHNF--GLVILV--KRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRRLGQRR  193 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F--~~~~wv--~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L~~kr  193 (414)
                      ..-+.|+|.+|+|||+|++.+++...   ..+  ..++++  ..+...+...+...       ..    ..+.+.++ +.
T Consensus       148 ~~~l~l~G~~G~GKThL~~ai~~~~~---~~~~~~~v~yi~~~~~~~~~~~~~~~~-------~~----~~~~~~~~-~~  212 (450)
T PRK00149        148 YNPLFIYGGVGLGKTHLLHAIGNYIL---EKNPNAKVVYVTSEKFTNDFVNALRNN-------TM----EEFKEKYR-SV  212 (450)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHH---HhCCCCeEEEEEHHHHHHHHHHHHHcC-------cH----HHHHHHHh-cC
Confidence            45689999999999999999999872   222  123344  55555565555321       12    23333444 34


Q ss_pred             EEEEEecCCCc
Q 043070          194 FALLLDDLREP  204 (414)
Q Consensus       194 ~LlVlDdv~~~  204 (414)
                      -+|||||+...
T Consensus       213 dlLiiDDi~~l  223 (450)
T PRK00149        213 DVLLIDDIQFL  223 (450)
T ss_pred             CEEEEehhhhh
Confidence            58999999653

>TIGR00959 ffh signal recognition particle protein

Probab=96.43  E-value=0.011  Score=59.00  Aligned_cols=25  Identities=28%  Similarity=0.271  Sum_probs=22.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +.++.++|.+|+||||.|..++...
T Consensus        99 p~vi~~vG~~GsGKTTtaakLA~~l  123 (428)
T TIGR00959        99 PTVILMVGLQGSGKTTTCGKLAYYL  123 (428)
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHH
Confidence            5799999999999999988887664

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.

>CHL00176 ftsH cell division protein; Validated

Probab=96.42  E-value=0.011  Score=62.02  Aligned_cols=91  Identities=11%  Similarity=0.070  Sum_probs=53.3

Q ss_pred             CCccchH-HHHHHHHHh---hc---------CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCC-cchHhHHHHHHHHH
Q 043070           98 ENTVDVS-RLNEVWRLV---ED---------NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNF-GLVILVKRIQHVMG  163 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L---~~---------~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F-~~~~wv~~l~~~i~  163 (414)
                      .+++|.+ .++++.+.+   ..         ...+-+.++|++|+|||+||+.+++..   ...| ....  ..+..   
T Consensus       183 ~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~---~~p~i~is~--s~f~~---  254 (638)
T CHL00176        183 RDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEA---EVPFFSISG--SEFVE---  254 (638)
T ss_pred             HhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHh---CCCeeeccH--HHHHH---
Confidence            5577887 555555543   22         124568999999999999999999876   2232 1100  11111   


Q ss_pred             HHhcCCCCccCcCCHhHHHHHHHHHhCCCcEEEEEecCCCc
Q 043070          164 YRLAMSNEVWDDKTKQGRAIDSSRRLGQRRFALLLDDLREP  204 (414)
Q Consensus       164 ~~l~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~  204 (414)
                       ..       .......+...+.....+.+++|+|||++..
T Consensus       255 -~~-------~g~~~~~vr~lF~~A~~~~P~ILfIDEID~l  287 (638)
T CHL00176        255 -MF-------VGVGAARVRDLFKKAKENSPCIVFIDEIDAV  287 (638)
T ss_pred             -Hh-------hhhhHHHHHHHHHHHhcCCCcEEEEecchhh
Confidence             00       0111122333444455678899999999643

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=96.41  E-value=0.0039  Score=63.41  Aligned_cols=45  Identities=18%  Similarity=0.273  Sum_probs=39.0

Q ss_pred             CCccchH-HHHHHHHHhh------cCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVE------DNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~------~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+++|.+ .+++|++.|.      +..-+++.++|++|+||||||+.+.+-.
T Consensus        76 ~d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~l  127 (644)
T PRK15455         76 EEFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSLM  127 (644)
T ss_pred             hcccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHHH
Confidence            3578999 9999999982      2456799999999999999999998876

>TIGR00235 udk uridine kinase

Probab=96.41  E-value=0.0032  Score=56.55  Aligned_cols=27  Identities=30%  Similarity=0.295  Sum_probs=24.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +...+|+|+|.+|+||||||+.+....
T Consensus         4 ~~g~vi~I~G~sGsGKSTl~~~l~~~l   30 (207)
T TIGR00235         4 PKGIIIGIGGGSGSGKTTVARKIYEQL   30 (207)
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHHHHh
Confidence            345799999999999999999999876

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>PRK06921 hypothetical protein; Provisional

Probab=96.40  E-value=0.0087  Score=55.95  Aligned_cols=26  Identities=31%  Similarity=0.333  Sum_probs=23.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ....+.++|..|+|||.||..+++..
T Consensus       116 ~~~~l~l~G~~G~GKThLa~aia~~l  141 (266)
T PRK06921        116 RKNSIALLGQPGSGKTHLLTAAANEL  141 (266)
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHH
Confidence            45789999999999999999999987

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=96.40  E-value=0.004  Score=59.76  Aligned_cols=47  Identities=13%  Similarity=0.178  Sum_probs=39.5

Q ss_pred             cCCCccchH-HHHHHHHHhhcCCc-eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           96 DMENTVDVS-RLNEVWRLVEDNSV-RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        96 ~~~~~vGr~-~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|.+ ..+.+.+++..+.. .++.++|.+|+||||+|+.+++..
T Consensus        19 ~~~~~~~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~~   67 (316)
T PHA02544         19 TIDECILPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEV   67 (316)
T ss_pred             cHHHhcCcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHHh
Confidence            346789999 99999999976554 567779999999999999998876

>PRK03839 putative kinase; Provisional

Probab=96.39  E-value=0.003  Score=55.35  Aligned_cols=23  Identities=39%  Similarity=0.556  Sum_probs=21.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .|.|+|++|+||||+|+.+++..
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~   24 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKL   24 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58899999999999999999987

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.38  E-value=0.0048  Score=62.40  Aligned_cols=46  Identities=22%  Similarity=0.244  Sum_probs=39.1

Q ss_pred             CCCccchH-HHHHHHHHhhcCCc-eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           97 MENTVDVS-RLNEVWRLVEDNSV-RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -+++||.+ ....|.+.+.++.+ ..+.++|++|+||||+|+.+++..
T Consensus        13 ~~divGq~~i~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~~lA~~l   60 (472)
T PRK14962         13 FSEVVGQDHVKKLIINALKKNSISHAYIFAGPRGTGKTTVARILAKSL   60 (472)
T ss_pred             HHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            36789999 88888888877665 468899999999999999998876

>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.37  E-value=0.0096  Score=55.86  Aligned_cols=76  Identities=22%  Similarity=0.232  Sum_probs=49.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcC--CCCcchHhH----HHHHHHHHHHhcCCCCccCcCCHhHHHHHHHHHhCC
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKFNDTR--HNFGLVILV----KRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRRLGQ  191 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~~~v~--~~F~~~~wv----~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L~~  191 (414)
                      -++|.++|++|.|||+|++++++.. .++  +.+....-+    ..+..+....        .......+.++|.+.+++
T Consensus       177 NRliLlhGPPGTGKTSLCKaLaQkL-SIR~~~~y~~~~liEinshsLFSKWFsE--------SgKlV~kmF~kI~ELv~d  247 (423)
T KOG0744|consen  177 NRLILLHGPPGTGKTSLCKALAQKL-SIRTNDRYYKGQLIEINSHSLFSKWFSE--------SGKLVAKMFQKIQELVED  247 (423)
T ss_pred             eeEEEEeCCCCCChhHHHHHHHHhh-eeeecCccccceEEEEehhHHHHHHHhh--------hhhHHHHHHHHHHHHHhC
Confidence            4789999999999999999999988 443  223222222    3444433332        234456777788888877


Q ss_pred             CcEE--EEEecCC
Q 043070          192 RRFA--LLLDDLR  202 (414)
Q Consensus       192 kr~L--lVlDdv~  202 (414)
                      +..|  +.+|.|.
T Consensus       248 ~~~lVfvLIDEVE  260 (423)
T KOG0744|consen  248 RGNLVFVLIDEVE  260 (423)
T ss_pred             CCcEEEEEeHHHH
Confidence            6544  4467663

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=96.37  E-value=0.0033  Score=55.24  Aligned_cols=26  Identities=27%  Similarity=0.356  Sum_probs=23.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +.++|.|+|++|+||||+|+.+....
T Consensus         2 ~~~ii~i~G~~GsGKsTl~~~l~~~~   27 (188)
T TIGR01360         2 KCKIIFIVGGPGSGKGTQCEKIVEKY   27 (188)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            45799999999999999999998766

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.

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=96.36  E-value=0.0033  Score=55.02  Aligned_cols=73  Identities=23%  Similarity=0.286  Sum_probs=42.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH--HHHHHHHHHHhcCCCCccCcCCHhHHHHHHHHHhCCCcE
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV--KRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRRLGQRRF  194 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv--~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L~~kr~  194 (414)
                      ...-+.++|..|+|||.||..+.+..-  ...+ .+.|+  .+++..+-..    .   .....+...    +.+. +-=
T Consensus        46 ~~~~l~l~G~~G~GKThLa~ai~~~~~--~~g~-~v~f~~~~~L~~~l~~~----~---~~~~~~~~~----~~l~-~~d  110 (178)
T PF01695_consen   46 NGENLILYGPPGTGKTHLAVAIANEAI--RKGY-SVLFITASDLLDELKQS----R---SDGSYEELL----KRLK-RVD  110 (178)
T ss_dssp             C--EEEEEESTTSSHHHHHHHHHHHHH--HTT---EEEEEHHHHHHHHHCC----H---CCTTHCHHH----HHHH-TSS
T ss_pred             cCeEEEEEhhHhHHHHHHHHHHHHHhc--cCCc-ceeEeecCceecccccc----c---cccchhhhc----Cccc-ccc
Confidence            346799999999999999999998772  2222 23344  5555555322    1   112222322    2333 346


Q ss_pred             EEEEecCCCc
Q 043070          195 ALLLDDLREP  204 (414)
Q Consensus       195 LlVlDdv~~~  204 (414)
                      ||||||+-..
T Consensus       111 lLilDDlG~~  120 (178)
T PF01695_consen  111 LLILDDLGYE  120 (178)
T ss_dssp             CEEEETCTSS
T ss_pred             Eeccccccee
Confidence            7889998643

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.

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=96.36  E-value=0.0061  Score=62.85  Aligned_cols=68  Identities=22%  Similarity=0.334  Sum_probs=43.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhHHHHHHHHHHHhcCCCCccCcCCHhHHHHHHHHHhC------
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILVKRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRRLG------  190 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L~------  190 (414)
                      .-++..++|++|+||||||+-++++..     |..              +..+.  .+.-+...+.++|...++      
T Consensus       325 ~kKilLL~GppGlGKTTLAHViAkqaG-----YsV--------------vEINA--SDeRt~~~v~~kI~~avq~~s~l~  383 (877)
T KOG1969|consen  325 PKKILLLCGPPGLGKTTLAHVIAKQAG-----YSV--------------VEINA--SDERTAPMVKEKIENAVQNHSVLD  383 (877)
T ss_pred             ccceEEeecCCCCChhHHHHHHHHhcC-----ceE--------------EEecc--cccccHHHHHHHHHHHHhhccccc
Confidence            457899999999999999999998761     000              01111  123334455555555544      


Q ss_pred             --CCcEEEEEecCCCcc
Q 043070          191 --QRRFALLLDDLREPI  205 (414)
Q Consensus       191 --~kr~LlVlDdv~~~~  205 (414)
                        +++..||+|.++-..
T Consensus       384 adsrP~CLViDEIDGa~  400 (877)
T KOG1969|consen  384 ADSRPVCLVIDEIDGAP  400 (877)
T ss_pred             cCCCcceEEEecccCCc
Confidence              356669999998764

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=96.35  E-value=0.015  Score=54.61  Aligned_cols=94  Identities=12%  Similarity=-0.016  Sum_probs=53.8

Q ss_pred             HHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH----HHHHHHHHHHhcCCCCc-----cCcCC
Q 043070          107 NEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV----KRIQHVMGYRLAMSNEV-----WDDKT  177 (414)
Q Consensus       107 ~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv----~~l~~~i~~~l~~~~~~-----~~~~~  177 (414)
                      ++..+++...+..+|.|+|.+|+|||||...+.+..   .......+..    ...=...+...+.+.-.     .-..+
T Consensus        93 ~~~r~~~~~~~~~~v~l~G~pGsGKTTLl~~l~~~l---~~~~~~~VI~gD~~t~~Da~rI~~~g~pvvqi~tG~~Chl~  169 (290)
T PRK10463         93 ERNRARFAARKQLVLNLVSSPGSGKTTLLTETLMRL---KDSVPCAVIEGDQQTVNDAARIRATGTPAIQVNTGKGCHLD  169 (290)
T ss_pred             HHHHHHHHhcCCeEEEEECCCCCCHHHHHHHHHHHh---ccCCCEEEECCCcCcHHHHHHHHhcCCcEEEecCCCCCcCc
Confidence            445555666788999999999999999999999886   3333222222    11112233333322110     01123


Q ss_pred             HhHHHHHHHHHhCCCcEEEEEecCCC
Q 043070          178 KQGRAIDSSRRLGQRRFALLLDDLRE  203 (414)
Q Consensus       178 ~~~~~~~l~~~L~~kr~LlVlDdv~~  203 (414)
                      ...+...+.......--+||++++-+
T Consensus       170 a~mv~~Al~~L~~~~~d~liIEnvGn  195 (290)
T PRK10463        170 AQMIADAAPRLPLDDNGILFIENVGN  195 (290)
T ss_pred             HHHHHHHHHHHhhcCCcEEEEECCCC
Confidence            33444455554444456788899865

>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=96.34  E-value=0.0098  Score=59.29  Aligned_cols=87  Identities=17%  Similarity=0.180  Sum_probs=56.4

Q ss_pred             CccchH----HHHHHHHHhhcC---------CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhHHHHHHHHHHH
Q 043070           99 NTVDVS----RLNEVWRLVEDN---------SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILVKRIQHVMGYR  165 (414)
Q Consensus        99 ~~vGr~----~~~~l~~~L~~~---------~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv~~l~~~i~~~  165 (414)
                      ++-|-|    ++++|++.|.++         =++-|.++|++|.|||-||++++-.. .| ..|.+              
T Consensus       305 dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA-~V-PFF~~--------------  368 (752)
T KOG0734|consen  305 DVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEA-GV-PFFYA--------------  368 (752)
T ss_pred             cccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhccc-CC-CeEec--------------
Confidence            344655    788888888552         25689999999999999999999877 33 22211              


Q ss_pred             hcCCCCccCcCCHhHHHHHHHHHh----CCCcEEEEEecCCCc
Q 043070          166 LAMSNEVWDDKTKQGRAIDSSRRL----GQRRFALLLDDLREP  204 (414)
Q Consensus       166 l~~~~~~~~~~~~~~~~~~l~~~L----~~kr~LlVlDdv~~~  204 (414)
                         ....++..=......++++.+    +.-+|.|.+|.++..
T Consensus       369 ---sGSEFdEm~VGvGArRVRdLF~aAk~~APcIIFIDEiDav  408 (752)
T KOG0734|consen  369 ---SGSEFDEMFVGVGARRVRDLFAAAKARAPCIIFIDEIDAV  408 (752)
T ss_pred             ---cccchhhhhhcccHHHHHHHHHHHHhcCCeEEEEechhhh
Confidence               011112222334445555555    345899999998754

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=96.34  E-value=0.018  Score=58.38  Aligned_cols=30  Identities=27%  Similarity=0.259  Sum_probs=26.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCC
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNF  149 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F  149 (414)
                      ...-|.++|++|.|||-||++|+|..   +-+|
T Consensus       544 ~PsGvLL~GPPGCGKTLlAKAVANEa---g~NF  573 (802)
T KOG0733|consen  544 APSGVLLCGPPGCGKTLLAKAVANEA---GANF  573 (802)
T ss_pred             CCCceEEeCCCCccHHHHHHHHhhhc---cCce
Confidence            45678999999999999999999988   6666

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=96.31  E-value=0.0061  Score=56.87  Aligned_cols=45  Identities=22%  Similarity=0.271  Sum_probs=32.3

Q ss_pred             CCccchH-HHHHHHHH---hh------------cCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRL---VE------------DNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~---L~------------~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..++|.+ .+++|.+.   +.            .+...-+.++|++|+||||+|+.+++..
T Consensus         6 ~~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l   66 (261)
T TIGR02881         6 SRMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLF   66 (261)
T ss_pred             HHhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHH
Confidence            3478888 66555443   21            0234567899999999999999998865

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.

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=96.31  E-value=0.0067  Score=51.44  Aligned_cols=23  Identities=39%  Similarity=0.608  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +|.|+|.+|+||||||+.+....
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~~l   23 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEKL   23 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHH
Confidence            57899999999999999998876

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.30  E-value=0.0064  Score=59.66  Aligned_cols=46  Identities=17%  Similarity=0.222  Sum_probs=39.5

Q ss_pred             CCCccchH-HHHHHHHHhhcCCc-eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           97 MENTVDVS-RLNEVWRLVEDNSV-RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.+++|.+ .++.+.+.+..+++ ..+.++|+.|+||||+|+.+++..
T Consensus        15 ~~~iiGq~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla~~la~~l   62 (363)
T PRK14961         15 FRDIIGQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKSL   62 (363)
T ss_pred             hhhccChHHHHHHHHHHHHcCCCCeEEEEecCCCCCHHHHHHHHHHHh
Confidence            36789999 99999999876554 467899999999999999999876

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=96.28  E-value=0.011  Score=54.35  Aligned_cols=37  Identities=16%  Similarity=0.010  Sum_probs=26.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV  155 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv  155 (414)
                      ..-.++.|.|.+|+|||+||.++....   -..-..++||
T Consensus        19 ~~gs~~lI~G~pGsGKT~la~~~l~~~---~~~ge~~lyv   55 (237)
T TIGR03877        19 PERNVVLLSGGPGTGKSIFSQQFLWNG---LQMGEPGIYV   55 (237)
T ss_pred             cCCeEEEEEcCCCCCHHHHHHHHHHHH---HHcCCcEEEE
Confidence            345799999999999999999876554   1223455555

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.

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=96.27  E-value=0.0071  Score=55.24  Aligned_cols=27  Identities=26%  Similarity=0.293  Sum_probs=24.5

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+..+|+|.|..|+|||||++.+....
T Consensus        31 ~~~~iigi~G~~GsGKTTl~~~L~~~l   57 (229)
T PRK09270         31 QRRTIVGIAGPPGAGKSTLAEFLEALL   57 (229)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            567899999999999999999998876

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=96.24  E-value=0.015  Score=54.97  Aligned_cols=26  Identities=38%  Similarity=0.535  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+++|+|++|+||||++..++...
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~~~  218 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAARF  218 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            35699999999999999999988766

>cd01131 PilT Pilus retraction ATPase PilT

Probab=96.24  E-value=0.0037  Score=55.81  Aligned_cols=86  Identities=14%  Similarity=0.112  Sum_probs=49.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH-HHHHHHHHHHh-c-CCCCccCcCCHhHHHHHHHHHhCCCcEE
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV-KRIQHVMGYRL-A-MSNEVWDDKTKQGRAIDSSRRLGQRRFA  195 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv-~~l~~~i~~~l-~-~~~~~~~~~~~~~~~~~l~~~L~~kr~L  195 (414)
                      .+|.|+|+.|+||||++..+.+..   .......++. ++-.+-..... . ..... ...+.....+.++..|....=+
T Consensus         2 GlilI~GptGSGKTTll~~ll~~~---~~~~~~~i~t~e~~~E~~~~~~~~~i~q~~-vg~~~~~~~~~i~~aLr~~pd~   77 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDYI---NKNKTHHILTIEDPIEFVHESKRSLINQRE-VGLDTLSFENALKAALRQDPDV   77 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh---hhcCCcEEEEEcCCccccccCccceeeecc-cCCCccCHHHHHHHHhcCCcCE
Confidence            378999999999999999887766   2233333333 11000000000 0 00000 1112334566778888777889


Q ss_pred             EEEecCCCccchh
Q 043070          196 LLLDDLREPIDLK  208 (414)
Q Consensus       196 lVlDdv~~~~~~~  208 (414)
                      +++|.+.+.+...
T Consensus        78 ii~gEird~e~~~   90 (198)
T cd01131          78 ILVGEMRDLETIR   90 (198)
T ss_pred             EEEcCCCCHHHHH
Confidence            9999998766443

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.

>PRK04296 thymidine kinase; Provisional

Probab=96.24  E-value=0.0033  Score=55.71  Aligned_cols=80  Identities=15%  Similarity=0.138  Sum_probs=46.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH------HHHHHHHHHHhcCCCCccCcCCHhHHHHHHHHHhCCC
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV------KRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRRLGQR  192 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv------~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L~~k  192 (414)
                      .++.|+|..|.||||+|...+.+..   .+-..++.+      ......++.+++............++...+.+ ..++
T Consensus         3 ~i~litG~~GsGKTT~~l~~~~~~~---~~g~~v~i~k~~~d~~~~~~~i~~~lg~~~~~~~~~~~~~~~~~~~~-~~~~   78 (190)
T PRK04296          3 KLEFIYGAMNSGKSTELLQRAYNYE---ERGMKVLVFKPAIDDRYGEGKVVSRIGLSREAIPVSSDTDIFELIEE-EGEK   78 (190)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHH---HcCCeEEEEeccccccccCCcEecCCCCcccceEeCChHHHHHHHHh-hCCC
Confidence            4778999999999999999888772   111111111      12233455666543321112344555555555 3345


Q ss_pred             cEEEEEecCC
Q 043070          193 RFALLLDDLR  202 (414)
Q Consensus       193 r~LlVlDdv~  202 (414)
                      .-+||+|.+.
T Consensus        79 ~dvviIDEaq   88 (190)
T PRK04296         79 IDCVLIDEAQ   88 (190)
T ss_pred             CCEEEEEccc
Confidence            5689999984

>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=96.24  E-value=0.008  Score=52.22  Aligned_cols=23  Identities=35%  Similarity=0.427  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++.++|++|+||||++..++...
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~~   24 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALYL   24 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68899999999999999998876

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.

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=96.24  E-value=0.08  Score=54.71  Aligned_cols=167  Identities=14%  Similarity=0.109  Sum_probs=100.3

Q ss_pred             CCccchH-HHHHHHHHhhc-----CCceEEEEEcCCCCcHHHHHHHHHHhhhhc--CCCCcchHhH----------HHHH
Q 043070           98 ENTVDVS-RLNEVWRLVED-----NSVRIICLHGVSRLGKTTLLYNLNKKFNDT--RHNFGLVILV----------KRIQ  159 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v--~~~F~~~~wv----------~~l~  159 (414)
                      ..+-+|| +..+|-..+..     ..-..+-|.|.+|+|||..+..|.+....-  +..-....+|          .++.
T Consensus       396 ~sLpcRe~E~~~I~~f~~~~i~~~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~yveINgm~l~~~~~~Y  475 (767)
T KOG1514|consen  396 ESLPCRENEFSEIEDFLRSFISDQGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFDYVEINGLRLASPREIY  475 (767)
T ss_pred             ccccchhHHHHHHHHHHHhhcCCCCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCccEEEEcceeecCHHHHH
Confidence            4456899 99999888732     234488999999999999999999866211  1111111222          8899


Q ss_pred             HHHHHHhcCCCCccCcCCHhHHHHHHHHHhC-----CCcEEEEEecCCCcc-----chhhh-ccCCCCCCcHh-------
Q 043070          160 HVMGYRLAMSNEVWDDKTKQGRAIDSSRRLG-----QRRFALLLDDLREPI-----DLKTA-GASIQNGSKVK-------  221 (414)
Q Consensus       160 ~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L~-----~kr~LlVlDdv~~~~-----~~~~~-~~p~~~gs~ii-------  221 (414)
                      ..|...+.+..     .......+.|..++.     .+.++|++|+++..-     .+..| -+|..++|+++       
T Consensus       476 ~~I~~~lsg~~-----~~~~~al~~L~~~f~~~k~~~~~~VvLiDElD~Lvtr~QdVlYn~fdWpt~~~sKLvvi~IaNT  550 (767)
T KOG1514|consen  476 EKIWEALSGER-----VTWDAALEALNFRFTVPKPKRSTTVVLIDELDILVTRSQDVLYNIFDWPTLKNSKLVVIAIANT  550 (767)
T ss_pred             HHHHHhcccCc-----ccHHHHHHHHHHhhccCCCCCCCEEEEeccHHHHhcccHHHHHHHhcCCcCCCCceEEEEeccc
Confidence            99999997754     233344555555554     357888888886542     23333 55677788877       


Q ss_pred             --hHHHHHHHhh----cCCcCCC-CchHHHHHHHHHHHhCCc----hhHHHHHHHHhcC
Q 043070          222 --YAWNLFQLKV----TDDVLNS-HRDIRKHAETVAGLCGGL----PLSLITTGSAMTS  269 (414)
Q Consensus       222 --~a~~Lf~~~a----~~~~~~~-~~~l~~~~~~I~~~c~Gl----PLai~~~g~~L~~  269 (414)
                        --.++|..+.    +...... +-.-.++-.-|..++.|+    +-|+..++...+.
T Consensus       551 mdlPEr~l~nrvsSRlg~tRi~F~pYth~qLq~Ii~~RL~~~~~f~~~aielvarkVAa  609 (767)
T KOG1514|consen  551 MDLPERLLMNRVSSRLGLTRICFQPYTHEQLQEIISARLKGLDAFENKAIELVARKVAA  609 (767)
T ss_pred             ccCHHHHhccchhhhccceeeecCCCCHHHHHHHHHHhhcchhhcchhHHHHHHHHHHh
Confidence              2333443222    2111111 112233334444566666    5677777776655

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=96.23  E-value=0.011  Score=54.10  Aligned_cols=26  Identities=27%  Similarity=0.199  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.++.|+|.+|+|||+||.+++-..
T Consensus        18 ~g~i~~i~G~~GsGKT~l~~~l~~~~   43 (235)
T cd01123          18 TGSITEIFGEFGSGKTQLCHQLAVTV   43 (235)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHe
Confidence            45799999999999999999997543

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 .

>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=96.23  E-value=0.0052  Score=57.48  Aligned_cols=24  Identities=38%  Similarity=0.419  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +.|.|+|.+|+||||+|+.+....
T Consensus         2 pLiil~G~P~SGKTt~a~~L~~~~   25 (270)
T PF08433_consen    2 PLIILCGLPCSGKTTRAKELKKYL   25 (270)
T ss_dssp             -EEEEE--TTSSHHHHHHHHHHHH
T ss_pred             EEEEEEcCCCCcHHHHHHHHHHHH
Confidence            478999999999999999999877

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=96.21  E-value=0.011  Score=63.60  Aligned_cols=44  Identities=18%  Similarity=0.184  Sum_probs=35.7

Q ss_pred             CccchH-HHHHHHHHhhc-------------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           99 NTVDVS-RLNEVWRLVED-------------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        99 ~~vGr~-~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++.|.+ .++++.+.+.-             ...+-+.++|.+|+|||+||+.+++..
T Consensus       179 di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~  236 (733)
T TIGR01243       179 DIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEA  236 (733)
T ss_pred             HhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHh
Confidence            467998 88888887621             234678899999999999999999877

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.

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

Probab=96.20  E-value=0.081  Score=48.26  Aligned_cols=86  Identities=16%  Similarity=0.202  Sum_probs=53.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH-------HHHHHHHHHHhcCCCCccCcCCHhHHHHHHHHH
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV-------KRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRR  188 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv-------~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  188 (414)
                      .+..++.++|.-|+|||++.+.......  .+. -+.+.+       ..+...|...+..........-.++....|...
T Consensus        49 d~qg~~~vtGevGsGKTv~~Ral~~s~~--~d~-~~~v~i~~~~~s~~~~~~ai~~~l~~~p~~~~~~~~e~~~~~L~al  125 (269)
T COG3267          49 DGQGILAVTGEVGSGKTVLRRALLASLN--EDQ-VAVVVIDKPTLSDATLLEAIVADLESQPKVNVNAVLEQIDRELAAL  125 (269)
T ss_pred             cCCceEEEEecCCCchhHHHHHHHHhcC--CCc-eEEEEecCcchhHHHHHHHHHHHhccCccchhHHHHHHHHHHHHHH
Confidence            4557999999999999999995554441  111 111222       778888888887733211112233444444444


Q ss_pred             h-CCCc-EEEEEecCCCc
Q 043070          189 L-GQRR-FALLLDDLREP  204 (414)
Q Consensus       189 L-~~kr-~LlVlDdv~~~  204 (414)
                      . +++| ..++.|+..+.
T Consensus       126 ~~~g~r~v~l~vdEah~L  143 (269)
T COG3267         126 VKKGKRPVVLMVDEAHDL  143 (269)
T ss_pred             HHhCCCCeEEeehhHhhh
Confidence            4 4677 89999998655

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=96.19  E-value=0.0056  Score=56.69  Aligned_cols=23  Identities=39%  Similarity=0.632  Sum_probs=21.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .|.++|++|+||||+|+.+....
T Consensus         1 LIvl~G~pGSGKST~a~~La~~l   23 (249)
T TIGR03574         1 LIILTGLPGVGKSTFSKELAKKL   23 (249)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHH
Confidence            37899999999999999999877

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.

>PRK04040 adenylate kinase; Provisional

Probab=96.18  E-value=0.0048  Score=54.52  Aligned_cols=47  Identities=17%  Similarity=0.395  Sum_probs=31.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhHHHHHHHHHHHhcC
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILVKRIQHVMGYRLAM  168 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv~~l~~~i~~~l~~  168 (414)
                      ..+|+|+|++|+||||+++.+.+..   ...+.. +-...+...++...+.
T Consensus         2 ~~~i~v~G~pG~GKtt~~~~l~~~l---~~~~~~-~~~g~~~~~~a~~~g~   48 (188)
T PRK04040          2 MKVVVVTGVPGVGKTTVLNKALEKL---KEDYKI-VNFGDVMLEVAKEEGL   48 (188)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHh---ccCCeE-EecchHHHHHHHHcCC
Confidence            3689999999999999999998887   112211 1114555555555554

>PRK06835 DNA replication protein DnaC; Validated

Probab=96.17  E-value=0.008  Score=57.86  Aligned_cols=74  Identities=20%  Similarity=0.135  Sum_probs=43.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH--HHHHHHHHHHhcCCCCccCcCCHhHHHHHHHHHhCCCcEE
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV--KRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRRLGQRRFA  195 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv--~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L~~kr~L  195 (414)
                      ..-+.++|..|+|||.||..+++...  ...+ .++++  ..+...+...-. .    ...+....    .+.+. .-=|
T Consensus       183 ~~~Lll~G~~GtGKThLa~aIa~~l~--~~g~-~V~y~t~~~l~~~l~~~~~-~----~~~~~~~~----~~~l~-~~DL  249 (329)
T PRK06835        183 NENLLFYGNTGTGKTFLSNCIAKELL--DRGK-SVIYRTADELIEILREIRF-N----NDKELEEV----YDLLI-NCDL  249 (329)
T ss_pred             CCcEEEECCCCCcHHHHHHHHHHHHH--HCCC-eEEEEEHHHHHHHHHHHHh-c----cchhHHHH----HHHhc-cCCE
Confidence            37799999999999999999999872  2222 33444  555554433211 1    11111111    23333 2358


Q ss_pred             EEEecCCCc
Q 043070          196 LLLDDLREP  204 (414)
Q Consensus       196 lVlDdv~~~  204 (414)
                      |||||+-..
T Consensus       250 LIIDDlG~e  258 (329)
T PRK06835        250 LIIDDLGTE  258 (329)
T ss_pred             EEEeccCCC
Confidence            999999543

>PRK03846 adenylylsulfate kinase; Provisional

Probab=96.16  E-value=0.0078  Score=53.65  Aligned_cols=27  Identities=22%  Similarity=0.346  Sum_probs=24.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+..+|.|+|++|+||||||+.+....
T Consensus        22 ~~~~~i~i~G~~GsGKSTla~~l~~~l   48 (198)
T PRK03846         22 HKGVVLWFTGLSGSGKSTVAGALEEAL   48 (198)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            456799999999999999999999876

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.16  E-value=0.0077  Score=59.81  Aligned_cols=46  Identities=15%  Similarity=0.118  Sum_probs=39.7

Q ss_pred             CCCccchH-HHHHHHHHhhcCCce-EEEEEcCCCCcHHHHHHHHHHhh
Q 043070           97 MENTVDVS-RLNEVWRLVEDNSVR-IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.+++|.+ -++.|.+++.++.+. .+.++|+.|+||||+|..+++..
T Consensus        15 ~~eiiGq~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~a~~l   62 (397)
T PRK14955         15 FADITAQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAV   62 (397)
T ss_pred             HhhccChHHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHHHHHHHHh
Confidence            36789999 889999999876654 58899999999999999999877

>PRK00131 aroK shikimate kinase; Reviewed

Probab=96.13  E-value=0.0055  Score=53.04  Aligned_cols=25  Identities=32%  Similarity=0.280  Sum_probs=23.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...|.|+|++|+||||+|+.++...
T Consensus         4 ~~~i~l~G~~GsGKstla~~La~~l   28 (175)
T PRK00131          4 GPNIVLIGFMGAGKSTIGRLLAKRL   28 (175)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999999987

>TIGR00763 lon ATP-dependent protease La

Probab=96.13  E-value=0.017  Score=62.44  Aligned_cols=45  Identities=22%  Similarity=0.333  Sum_probs=36.4

Q ss_pred             CCccchH-HHHHHHHHhhc------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVED------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..++|.+ .++.|.+++..      .+..++.++|++|+|||++|+.+++..
T Consensus       320 ~~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~l  371 (775)
T TIGR00763       320 EDHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKAL  371 (775)
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            4467888 88888887631      234589999999999999999999987

This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock.

>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]

Probab=96.13  E-value=0.0069  Score=62.36  Aligned_cols=50  Identities=20%  Similarity=0.452  Sum_probs=41.1

Q ss_pred             CCccchH-HHHHHHHHhh------cCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCC
Q 043070           98 ENTVDVS-RLNEVWRLVE------DNSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNF  149 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~------~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F  149 (414)
                      ++-.|.+ -+++|++.|.      +-+-++++.+|++|+|||++|+.++....  ++.|
T Consensus       411 eDHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~ALn--RkFf  467 (906)
T KOG2004|consen  411 EDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARALN--RKFF  467 (906)
T ss_pred             ccccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHHhC--CceE
Confidence            5567999 9999999882      24568999999999999999999999884  4444

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=96.12  E-value=0.011  Score=58.01  Aligned_cols=81  Identities=19%  Similarity=0.276  Sum_probs=46.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH--HHH---HHHHHHHhcCCCCcc---CcCCHhHHHHHHHHH
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV--KRI---QHVMGYRLAMSNEVW---DDKTKQGRAIDSSRR  188 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv--~~l---~~~i~~~l~~~~~~~---~~~~~~~~~~~l~~~  188 (414)
                      .-.++.|.|.+|+|||||+.+++....   ..-..++|+  ++-   ...-+..++...+..   ...+.+.+.+.+.  
T Consensus        81 ~GslvLI~G~pG~GKStLllq~a~~~a---~~g~~VlYvs~EEs~~qi~~Ra~rlg~~~~~l~l~~e~~le~I~~~i~--  155 (372)
T cd01121          81 PGSVILIGGDPGIGKSTLLLQVAARLA---KRGGKVLYVSGEESPEQIKLRADRLGISTENLYLLAETNLEDILASIE--  155 (372)
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHH---hcCCeEEEEECCcCHHHHHHHHHHcCCCcccEEEEccCcHHHHHHHHH--
Confidence            346999999999999999999987762   222345555  111   122234455432211   2233444444432  


Q ss_pred             hCCCcEEEEEecCCC
Q 043070          189 LGQRRFALLLDDLRE  203 (414)
Q Consensus       189 L~~kr~LlVlDdv~~  203 (414)
                       ..+.-+||+|.+..
T Consensus       156 -~~~~~lVVIDSIq~  169 (372)
T cd01121         156 -ELKPDLVIIDSIQT  169 (372)
T ss_pred             -hcCCcEEEEcchHH
Confidence             23667889988643

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.

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=96.11  E-value=0.014  Score=61.62  Aligned_cols=99  Identities=14%  Similarity=0.216  Sum_probs=60.5

Q ss_pred             CCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH--HHHH-HHHHHHhcCCCCcc
Q 043070           98 ENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV--KRIQ-HVMGYRLAMSNEVW  173 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv--~~l~-~~i~~~l~~~~~~~  173 (414)
                      .+++||+ ++.++++.|....-.--.++|.+|+|||+++.-++.+.-  .+.-+.  ++  .+++ -++..-..+..   
T Consensus       170 DPvIGRd~EI~r~iqIL~RR~KNNPvLiGEpGVGKTAIvEGLA~rIv--~g~VP~--~L~~~~i~sLD~g~LvAGak---  242 (786)
T COG0542         170 DPVIGRDEEIRRTIQILSRRTKNNPVLVGEPGVGKTAIVEGLAQRIV--NGDVPE--SLKDKRIYSLDLGSLVAGAK---  242 (786)
T ss_pred             CCCcChHHHHHHHHHHHhccCCCCCeEecCCCCCHHHHHHHHHHHHh--cCCCCH--HHcCCEEEEecHHHHhcccc---
Confidence            6689999 999999999653333445789999999999988888761  222111  11  0110 11111111111   


Q ss_pred             CcCCHhHHHHHHHHHhC-CCcEEEEEecCCC
Q 043070          174 DDKTKQGRAIDSSRRLG-QRRFALLLDDLRE  203 (414)
Q Consensus       174 ~~~~~~~~~~~l~~~L~-~kr~LlVlDdv~~  203 (414)
                      -..+.++....+.+.++ .++..|++|.+-.
T Consensus       243 yRGeFEeRlk~vl~ev~~~~~vILFIDEiHt  273 (786)
T COG0542         243 YRGEFEERLKAVLKEVEKSKNVILFIDEIHT  273 (786)
T ss_pred             ccCcHHHHHHHHHHHHhcCCCeEEEEechhh
Confidence            23455666666666664 3589999998754

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.10  E-value=0.41  Score=49.37  Aligned_cols=49  Identities=24%  Similarity=0.156  Sum_probs=39.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcch-------HhH---HHHHHHHHHHhc
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLV-------ILV---KRIQHVMGYRLA  167 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~-------~wv---~~l~~~i~~~l~  167 (414)
                      ...+-|..+|++|.|||++|+.+++..   .-.|=.+       -||   ++.++++.++..
T Consensus       466 ~ppkGVLlyGPPGC~KT~lAkalAne~---~~nFlsvkgpEL~sk~vGeSEr~ir~iF~kAR  524 (693)
T KOG0730|consen  466 SPPKGVLLYGPPGCGKTLLAKALANEA---GMNFLSVKGPELFSKYVGESERAIREVFRKAR  524 (693)
T ss_pred             CCCceEEEECCCCcchHHHHHHHhhhh---cCCeeeccCHHHHHHhcCchHHHHHHHHHHHh
Confidence            467889999999999999999999988   6777433       366   777777766653

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.05  E-value=0.098  Score=54.82  Aligned_cols=45  Identities=20%  Similarity=0.193  Sum_probs=39.1

Q ss_pred             CCccchH-HHHHHHHHhhcCCce-EEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVEDNSVR-IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+++|.+ .++.|.+++..+.+. .+.++|..|+||||+|+.+....
T Consensus        17 ~~viGq~~~~~~L~~~i~~~~l~hayLf~Gp~G~GKtt~A~~lAk~l   63 (614)
T PRK14971         17 ESVVGQEALTTTLKNAIATNKLAHAYLFCGPRGVGKTTCARIFAKTI   63 (614)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHh
Confidence            5689999 999999999876654 57899999999999999988866

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=96.05  E-value=0.0053  Score=51.85  Aligned_cols=44  Identities=25%  Similarity=0.304  Sum_probs=32.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhHHHHHHHHHHHhcCC
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILVKRIQHVMGYRLAMS  169 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv~~l~~~i~~~l~~~  169 (414)
                      +|+|-|++|+||||+|+.++++.. . .+...    ..+.++|++..|.+
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~g-l-~~vsa----G~iFR~~A~e~gms   45 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHLG-L-KLVSA----GTIFREMARERGMS   45 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHhC-C-ceeec----cHHHHHHHHHcCCC
Confidence            789999999999999999999882 1 11111    35667777776654

>PRK03731 aroL shikimate kinase II; Reviewed

Probab=96.03  E-value=0.02  Score=49.64  Aligned_cols=35  Identities=20%  Similarity=0.161  Sum_probs=26.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV  155 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv  155 (414)
                      ..|.|+|+.|+||||+|+.+.+...  ...|+.-.|+
T Consensus         3 ~~i~~~G~~GsGKst~~~~la~~lg--~~~~d~D~~~   37 (171)
T PRK03731          3 QPLFLVGARGCGKTTVGMALAQALG--YRFVDTDQWL   37 (171)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhC--CCEEEccHHH
Confidence            3588999999999999999998872  2344554444

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

Probab=96.02  E-value=0.038  Score=54.34  Aligned_cols=71  Identities=20%  Similarity=0.162  Sum_probs=43.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCc--chHhH--HHHHHHHHHHhcCCCCccCcCCHhHHHHHHHHHhCCC
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFG--LVILV--KRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRRLGQR  192 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~--~~~wv--~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L~~k  192 (414)
                      ....+-|+|..|.|||.|++++.+..   ..+..  .++.+  ......++..+...           -.+..++..  .
T Consensus       112 ~~nplfi~G~~GlGKTHLl~Aign~~---~~~~~~a~v~y~~se~f~~~~v~a~~~~-----------~~~~Fk~~y--~  175 (408)
T COG0593         112 AYNPLFIYGGVGLGKTHLLQAIGNEA---LANGPNARVVYLTSEDFTNDFVKALRDN-----------EMEKFKEKY--S  175 (408)
T ss_pred             cCCcEEEECCCCCCHHHHHHHHHHHH---HhhCCCceEEeccHHHHHHHHHHHHHhh-----------hHHHHHHhh--c
Confidence            47899999999999999999999988   23332  23344  44444444444321           122344444  3


Q ss_pred             cEEEEEecCCC
Q 043070          193 RFALLLDDLRE  203 (414)
Q Consensus       193 r~LlVlDdv~~  203 (414)
                      -=++++||++-
T Consensus       176 ~dlllIDDiq~  186 (408)
T COG0593         176 LDLLLIDDIQF  186 (408)
T ss_pred             cCeeeechHhH
Confidence            34666777754

>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=96.00  E-value=0.0056  Score=51.34  Aligned_cols=23  Identities=39%  Similarity=0.521  Sum_probs=21.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +|+|+|.+|+||||+|+.+....
T Consensus         1 ~I~i~G~~GsGKst~a~~la~~~   23 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAKKL   23 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999999876

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.98  E-value=0.016  Score=56.56  Aligned_cols=80  Identities=20%  Similarity=0.251  Sum_probs=45.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH---------HHHHHHHHHHhcCCCCccCcCCHhHHHHHHHHH
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV---------KRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRR  188 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv---------~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  188 (414)
                      ..+++++|+.|+||||++.++.... ..+.....+..+         .+-++...+.++.+..  ...+..++...+. .
T Consensus       137 g~ii~lvGptGvGKTTtiakLA~~~-~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~--~~~~~~~l~~~l~-~  212 (374)
T PRK14722        137 GGVFALMGPTGVGKTTTTAKLAARC-VMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVH--AVKDGGDLQLALA-E  212 (374)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH-HHhcCCCeEEEEecccccccHHHHHHHHHHHcCCceE--ecCCcccHHHHHH-H
Confidence            5699999999999999999998876 111111222333         3345555556665432  2222333333333 3


Q ss_pred             hCCCcEEEEEecCC
Q 043070          189 LGQRRFALLLDDLR  202 (414)
Q Consensus       189 L~~kr~LlVlDdv~  202 (414)
                      +.++ -+|++|..-
T Consensus       213 l~~~-DlVLIDTaG  225 (374)
T PRK14722        213 LRNK-HMVLIDTIG  225 (374)
T ss_pred             hcCC-CEEEEcCCC
Confidence            4555 455688774

>COG4608 AppF ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]

Probab=95.97  E-value=0.02  Score=52.74  Aligned_cols=90  Identities=17%  Similarity=0.072  Sum_probs=54.5

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCC--CCcchHhH-------HHHHHHHHHHhcCCCC-----ccCcCCHhHH
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRH--NFGLVILV-------KRIQHVMGYRLAMSNE-----VWDDKTKQGR  181 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~--~F~~~~wv-------~~l~~~i~~~l~~~~~-----~~~~~~~~~~  181 (414)
                      .+-.+++|||..|.|||||++.+..-..-..+  .|++.-..       .+-..+++...+....     ..+-+.-+.-
T Consensus        37 ~~ge~~glVGESG~GKSTlgr~i~~L~~pt~G~i~f~g~~i~~~~~~~~~~~v~elL~~Vgl~~~~~~ryPhelSGGQrQ  116 (268)
T COG4608          37 KEGETLGLVGESGCGKSTLGRLILGLEEPTSGEILFEGKDITKLSKEERRERVLELLEKVGLPEEFLYRYPHELSGGQRQ  116 (268)
T ss_pred             cCCCEEEEEecCCCCHHHHHHHHHcCcCCCCceEEEcCcchhhcchhHHHHHHHHHHHHhCCCHHHhhcCCcccCchhhh
Confidence            34578999999999999999999987621111  24333211       3345556666554331     1111222222


Q ss_pred             HHHHHHHhCCCcEEEEEecCCCcc
Q 043070          182 AIDSSRRLGQRRFALLLDDLREPI  205 (414)
Q Consensus       182 ~~~l~~~L~~kr~LlVlDdv~~~~  205 (414)
                      .-.+.+.|.-+.-|+|.|..-+..
T Consensus       117 Ri~IARALal~P~liV~DEpvSaL  140 (268)
T COG4608         117 RIGIARALALNPKLIVADEPVSAL  140 (268)
T ss_pred             hHHHHHHHhhCCcEEEecCchhhc
Confidence            234677888899999999865543

>PRK00889 adenylylsulfate kinase; Provisional

Probab=95.95  E-value=0.0082  Score=52.29  Aligned_cols=26  Identities=31%  Similarity=0.392  Sum_probs=23.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+|.|+|++|+||||+|+.++...
T Consensus         3 ~g~~i~~~G~~GsGKST~a~~la~~l   28 (175)
T PRK00889          3 RGVTVWFTGLSGAGKTTIARALAEKL   28 (175)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            45699999999999999999999887

>PRK06217 hypothetical protein; Validated

Probab=95.94  E-value=0.0061  Score=53.59  Aligned_cols=24  Identities=33%  Similarity=0.353  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..|.|.|.+|+||||||+.+....
T Consensus         2 ~~I~i~G~~GsGKSTla~~L~~~l   25 (183)
T PRK06217          2 MRIHITGASGSGTTTLGAALAERL   25 (183)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHc
Confidence            358999999999999999999887

>PTZ00088 adenylate kinase 1; Provisional

Probab=95.94  E-value=0.02  Score=52.23  Aligned_cols=23  Identities=39%  Similarity=0.401  Sum_probs=21.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|.|+|++|+||||+|+.+.+.+
T Consensus         8 rIvl~G~PGsGK~T~a~~La~~~   30 (229)
T PTZ00088          8 KIVLFGAPGVGKGTFAEILSKKE   30 (229)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999999887

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=95.94  E-value=0.0055  Score=54.54  Aligned_cols=23  Identities=35%  Similarity=0.417  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +|+|.|.+|+||||||+.+....
T Consensus         1 iigi~G~~GsGKSTl~~~l~~~l   23 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIEQL   23 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999987754

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.

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=95.93  E-value=0.015  Score=47.26  Aligned_cols=45  Identities=13%  Similarity=0.215  Sum_probs=35.7

Q ss_pred             CCccchH-HHHHHHHHhhc-------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVED-------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~-------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..++|-. ..+.+++.|.+       .++-|++.+|.+|+|||-+++.+++..
T Consensus        25 ~~l~GQhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~~l   77 (127)
T PF06309_consen   25 RNLFGQHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAEHL   77 (127)
T ss_pred             HHccCcHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHHHH
Confidence            4567777 77777777632       457799999999999999999998874

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

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=95.93  E-value=0.0068  Score=52.95  Aligned_cols=24  Identities=38%  Similarity=0.488  Sum_probs=21.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+++|+|+.|+|||||++.+....
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~~   25 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARARL   25 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            478999999999999999998765

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.

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.92  E-value=0.01  Score=60.91  Aligned_cols=45  Identities=27%  Similarity=0.280  Sum_probs=38.7

Q ss_pred             CCccchH-HHHHHHHHhhcCCc-eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVEDNSV-RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++||-+ .++.|.+.+..+.+ ..+.++|+.|+||||+|+.+++..
T Consensus        16 ~diiGq~~~v~~L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~lAk~L   62 (546)
T PRK14957         16 AEVAGQQHALNSLVHALETQKVHHAYLFTGTRGVGKTTLGRLLAKCL   62 (546)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            5689999 99999999977554 457899999999999999999866

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=95.91  E-value=0.016  Score=47.92  Aligned_cols=38  Identities=21%  Similarity=0.274  Sum_probs=29.5

Q ss_pred             HHHHHHHHhhc--CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          105 RLNEVWRLVED--NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       105 ~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +..++-+.|..  ..-.+|.+.|.-|+|||||++.+.+..
T Consensus         7 ~t~~l~~~l~~~l~~~~~i~l~G~lGaGKTtl~~~l~~~l   46 (133)
T TIGR00150         7 AMDKFGKAFAKPLDFGTVVLLKGDLGAGKTTLVQGLLQGL   46 (133)
T ss_pred             HHHHHHHHHHHhCCCCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            44555555543  344699999999999999999999886

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.

>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+)

Probab=95.90  E-value=0.0062  Score=53.67  Aligned_cols=23  Identities=39%  Similarity=0.540  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +|+|.|.+|+||||||+.+....
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~~   23 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRIL   23 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            58999999999999999999876

This enzyme catalyzes the phosphorylation of nicotinamide riboside (NR) to form nicotinamide mononucleotide (NMN). It defines the NR salvage pathway of NAD+ biosynthesis in addition to the pathways through nicotinic acid mononucleotide (NaMN). This enzyme can also phosphorylate the anticancer drug tiazofurin, which is an analog of nicotinamide riboside.

>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway

Probab=95.90  E-value=0.006  Score=55.36  Aligned_cols=23  Identities=30%  Similarity=0.368  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +|+|.|.+|+||||||+.+....
T Consensus         1 IigI~G~sGSGKTTla~~L~~~l   23 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQALL   23 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHHH
Confidence            58999999999999999998876

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>PRK13947 shikimate kinase; Provisional

Probab=95.88  E-value=0.0077  Score=52.15  Aligned_cols=23  Identities=30%  Similarity=0.293  Sum_probs=21.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|.|+|++|+||||+|+.+.+..
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~l   25 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTL   25 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHh
Confidence            48999999999999999999987

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=95.86  E-value=0.024  Score=53.15  Aligned_cols=26  Identities=35%  Similarity=0.520  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +.++|+++|++|+||||++..++...
T Consensus        71 ~~~vi~l~G~~G~GKTTt~akLA~~l   96 (272)
T TIGR00064        71 KPNVILFVGVNGVGKTTTIAKLANKL   96 (272)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            46899999999999999999988776

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.

>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=95.86  E-value=0.022  Score=48.30  Aligned_cols=75  Identities=17%  Similarity=0.130  Sum_probs=40.2

Q ss_pred             EEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH-------HHHHHHHHHHhcCCCCccCcCCHhHHHHHHHHHhCC--Cc
Q 043070          123 LHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV-------KRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRRLGQ--RR  193 (414)
Q Consensus       123 I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv-------~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L~~--kr  193 (414)
                      |+|++|+||||+|+.++..+.  -.++...-.+       ..+-..|-..+...    ...+.+-+.+.+...|..  ..
T Consensus         1 i~G~PgsGK~t~~~~la~~~~--~~~is~~~llr~~~~~~s~~g~~i~~~l~~g----~~vp~~~v~~ll~~~l~~~~~~   74 (151)
T PF00406_consen    1 ILGPPGSGKGTQAKRLAKRYG--LVHISVGDLLREEIKSDSELGKQIQEYLDNG----ELVPDELVIELLKERLEQPPCN   74 (151)
T ss_dssp             EEESTTSSHHHHHHHHHHHHT--SEEEEHHHHHHHHHHTTSHHHHHHHHHHHTT----SS--HHHHHHHHHHHHHSGGTT
T ss_pred             CcCCCCCChHHHHHHHHHhcC--cceechHHHHHHHHhhhhHHHHHHHHHHHhh----ccchHHHHHHHHHHHHhhhccc
Confidence            689999999999999999882  1233332222       11112222222211    223344555666666643  24


Q ss_pred             EEEEEecCCC
Q 043070          194 FALLLDDLRE  203 (414)
Q Consensus       194 ~LlVlDdv~~  203 (414)
                      .-.|||+.-.
T Consensus        75 ~g~ildGfPr   84 (151)
T PF00406_consen   75 RGFILDGFPR   84 (151)
T ss_dssp             TEEEEESB-S
T ss_pred             ceeeeeeccc
Confidence            5577888643

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 ....

>PRK14974 cell division protein FtsY; Provisional

Probab=95.85  E-value=0.05  Score=52.48  Aligned_cols=26  Identities=31%  Similarity=0.365  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +..+|.++|++|+||||++..++...
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~~l  164 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAYYL  164 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHH
Confidence            36799999999999999888888766

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=95.84  E-value=0.0094  Score=51.97  Aligned_cols=24  Identities=38%  Similarity=0.533  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++|.+.|++|+||||+|+.+....
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~~   26 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSVL   26 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhh
Confidence            589999999999999999998876

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=95.84  E-value=0.025  Score=51.80  Aligned_cols=26  Identities=19%  Similarity=0.148  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.++.|+|.+|+|||+||.++....
T Consensus        24 ~g~~~~i~G~~GsGKt~l~~~~~~~~   49 (234)
T PRK06067         24 FPSLILIEGDHGTGKSVLSQQFVYGA   49 (234)
T ss_pred             CCcEEEEECCCCCChHHHHHHHHHHH
Confidence            45799999999999999999986544

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=95.83  E-value=0.0079  Score=53.20  Aligned_cols=25  Identities=28%  Similarity=0.468  Sum_probs=23.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+|+|-||=|+||||||+.+.++.
T Consensus         4 ~~~IvI~G~IG~GKSTLa~~La~~l   28 (216)
T COG1428           4 AMVIVIEGMIGAGKSTLAQALAEHL   28 (216)
T ss_pred             ccEEEEecccccCHHHHHHHHHHHh
Confidence            4789999999999999999999998

>PRK08084 DNA replication initiation factor; Provisional

Probab=95.83  E-value=0.019  Score=52.69  Aligned_cols=38  Identities=16%  Similarity=0.175  Sum_probs=30.3

Q ss_pred             HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          105 RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       105 ~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+..+.++........+.|+|+.|+|||+|++.+++..
T Consensus        32 a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~   69 (235)
T PRK08084         32 LLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAEL   69 (235)
T ss_pred             HHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            55555555555555789999999999999999999876

>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]

Probab=95.82  E-value=0.015  Score=55.54  Aligned_cols=38  Identities=21%  Similarity=0.288  Sum_probs=31.7

Q ss_pred             chH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHH
Q 043070          102 DVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLN  139 (414)
Q Consensus       102 Gr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~  139 (414)
                      +|. +-.--+++|.++.+..|++.|.+|.|||-||.+..
T Consensus       228 prn~eQ~~ALdlLld~dI~lV~L~G~AGtGKTlLALaAg  266 (436)
T COG1875         228 PRNAEQRVALDLLLDDDIDLVSLGGKAGTGKTLLALAAG  266 (436)
T ss_pred             cccHHHHHHHHHhcCCCCCeEEeeccCCccHhHHHHHHH
Confidence            455 66666778888999999999999999999987653

>CHL00195 ycf46 Ycf46; Provisional

Probab=95.81  E-value=0.019  Score=58.20  Aligned_cols=45  Identities=11%  Similarity=0.116  Sum_probs=32.4

Q ss_pred             CCccchH-HHHHHHHHh---hc-------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLV---ED-------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L---~~-------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +++.|.+ -++.+.+..   ..       ...+-|.++|++|.|||.+|+.+++..
T Consensus       228 ~dvgGl~~lK~~l~~~~~~~~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~  283 (489)
T CHL00195        228 SDIGGLDNLKDWLKKRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDW  283 (489)
T ss_pred             HHhcCHHHHHHHHHHHHHHhhHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHh
Confidence            3456777 555554422   11       345678999999999999999999987

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=95.81  E-value=0.024  Score=55.72  Aligned_cols=82  Identities=15%  Similarity=0.179  Sum_probs=47.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCC-cchHhH---------HHHHHHHHHHhcCCCCccCcCCHhHHHHHHH
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNF-GLVILV---------KRIQHVMGYRLAMSNEVWDDKTKQGRAIDSS  186 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F-~~~~wv---------~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~  186 (414)
                      ...+|.++|..|+||||.+..++.........- ..+..+         ..-++...+.++.+..  ...+.+.+...+.
T Consensus       173 ~~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv~--~~~~~~~l~~~L~  250 (388)
T PRK12723        173 KKRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIPVK--AIESFKDLKEEIT  250 (388)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCCcceE--eeCcHHHHHHHHH
Confidence            357999999999999999998887662110011 112222         2225555666665432  3334455555454


Q ss_pred             HHhCCCcEEEEEecCC
Q 043070          187 RRLGQRRFALLLDDLR  202 (414)
Q Consensus       187 ~~L~~kr~LlVlDdv~  202 (414)
                      +.  .+.-++++|..-
T Consensus       251 ~~--~~~DlVLIDTaG  264 (388)
T PRK12723        251 QS--KDFDLVLVDTIG  264 (388)
T ss_pred             Hh--CCCCEEEEcCCC
Confidence            43  345678888763

>PRK04328 hypothetical protein; Provisional

Probab=95.81  E-value=0.026  Score=52.31  Aligned_cols=26  Identities=15%  Similarity=0.119  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.++.|.|.+|+|||+||.++....
T Consensus        22 ~gs~ili~G~pGsGKT~l~~~fl~~~   47 (249)
T PRK04328         22 ERNVVLLSGGPGTGKSIFSQQFLWNG   47 (249)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            45799999999999999999876554

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.80  E-value=0.012  Score=61.12  Aligned_cols=45  Identities=20%  Similarity=0.183  Sum_probs=39.6

Q ss_pred             CCccchH-HHHHHHHHhhcCC-ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVEDNS-VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++||.+ ..+.|.+++..++ ...+.++|+.|+||||+|+.+++..
T Consensus        15 ddVIGQe~vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlAriLAK~L   61 (702)
T PRK14960         15 NELVGQNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCL   61 (702)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            6789999 9999999997765 4577999999999999999999876

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=95.80  E-value=0.035  Score=53.35  Aligned_cols=26  Identities=23%  Similarity=0.179  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.++-|+|.+|+|||+||.+++-..
T Consensus       101 ~g~vtei~G~~GsGKT~l~~~~~~~~  126 (317)
T PRK04301        101 TQSITEFYGEFGSGKTQICHQLAVNV  126 (317)
T ss_pred             CCcEEEEECCCCCCHhHHHHHHHHHh
Confidence            45789999999999999999998664

>PRK14530 adenylate kinase; Provisional

Probab=95.78  E-value=0.0086  Score=54.13  Aligned_cols=24  Identities=38%  Similarity=0.400  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +.|.|+|++|+||||+|+.++...
T Consensus         4 ~~I~i~G~pGsGKsT~~~~La~~~   27 (215)
T PRK14530          4 PRILLLGAPGAGKGTQSSNLAEEF   27 (215)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHh
Confidence            468999999999999999999877

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=95.76  E-value=0.02  Score=52.14  Aligned_cols=45  Identities=22%  Similarity=0.265  Sum_probs=32.1

Q ss_pred             CCcc-chH--HHHHHHHHhhc-CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTV-DVS--RLNEVWRLVED-NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~v-Gr~--~~~~l~~~L~~-~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++|+ |..  .+..+.++... .....+.|+|..|+|||+||+.+++..
T Consensus        18 d~f~~~~~~~~~~~l~~~~~~~~~~~~~~l~G~~G~GKT~La~ai~~~~   66 (227)
T PRK08903         18 DNFVAGENAELVARLRELAAGPVADRFFYLWGEAGSGRSHLLQALVADA   66 (227)
T ss_pred             cccccCCcHHHHHHHHHHHhccCCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            4444 544  44555555442 345678999999999999999999876

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.76  E-value=0.012  Score=59.49  Aligned_cols=46  Identities=22%  Similarity=0.187  Sum_probs=39.3

Q ss_pred             CCCccchH-HHHHHHHHhhcCCce-EEEEEcCCCCcHHHHHHHHHHhh
Q 043070           97 MENTVDVS-RLNEVWRLVEDNSVR-IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.++||-+ .++.|.+.+..+.+. .+.++|+.|+||||+|+.+++..
T Consensus        12 f~dliGQe~vv~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~ArilAk~L   59 (491)
T PRK14964         12 FKDLVGQDVLVRILRNAFTLNKIPQSILLVGASGVGKTTCARIISLCL   59 (491)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCccHHHHHHHHHHHH
Confidence            36789999 889998888776655 78999999999999999998754

>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=95.76  E-value=0.0082  Score=52.64  Aligned_cols=23  Identities=30%  Similarity=0.488  Sum_probs=21.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +|+|.|.+|+||||||..+....
T Consensus         1 ii~i~G~sgsGKttla~~l~~~l   23 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQL   23 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            58999999999999999999886

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=95.75  E-value=0.0078  Score=50.89  Aligned_cols=23  Identities=39%  Similarity=0.522  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++.|+|++|+||||+|+.+....
T Consensus         1 li~l~G~~GsGKST~a~~l~~~~   23 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAERL   23 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhhc
Confidence            47899999999999999998875

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>PF00154 RecA: recA bacterial DNA recombination protein; InterPro: IPR013765 The recA gene product is a multifunctional enzyme that plays a role in homologous recombination, DNA repair and induction of the SOS response []

Probab=95.75  E-value=0.012  Score=56.06  Aligned_cols=85  Identities=14%  Similarity=0.136  Sum_probs=54.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH---HHHHHHHHHHhcCCCCcc---CcCCHhHHHHHHHHHhC
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV---KRIQHVMGYRLAMSNEVW---DDKTKQGRAIDSSRRLG  190 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv---~~l~~~i~~~l~~~~~~~---~~~~~~~~~~~l~~~L~  190 (414)
                      .-+++-|+|..|+||||||..+....   ...-..++||   ..+-...+..+|...+..   .+.+.++..+.+...++
T Consensus        52 ~G~ivEi~G~~ssGKttLaL~~ia~~---q~~g~~~a~ID~e~~ld~~~a~~lGvdl~rllv~~P~~~E~al~~~e~lir  128 (322)
T PF00154_consen   52 RGRIVEIYGPESSGKTTLALHAIAEA---QKQGGICAFIDAEHALDPEYAESLGVDLDRLLVVQPDTGEQALWIAEQLIR  128 (322)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHH---HHTT-EEEEEESSS---HHHHHHTT--GGGEEEEE-SSHHHHHHHHHHHHH
T ss_pred             cCceEEEeCCCCCchhhhHHHHHHhh---hcccceeEEecCcccchhhHHHhcCccccceEEecCCcHHHHHHHHHHHhh
Confidence            34799999999999999999998876   2234556788   556677777777654321   33455666666666665


Q ss_pred             C-CcEEEEEecCCCc
Q 043070          191 Q-RRFALLLDDLREP  204 (414)
Q Consensus       191 ~-kr~LlVlDdv~~~  204 (414)
                      . .--++|+|-|-..
T Consensus       129 sg~~~lVVvDSv~al  143 (322)
T PF00154_consen  129 SGAVDLVVVDSVAAL  143 (322)
T ss_dssp             TTSESEEEEE-CTT-
T ss_pred             cccccEEEEecCccc
Confidence            4 4568899988654

In homologous recombination, the protein functions as a DNA-dependent ATPase, promoting synapsis, heteroduplex formation and strand exchange between homologous DNAs []. RecA also acts as a protease cofactor that promotes autodigestion of the lexA product and phage repressors. The proteolytic inactivation of the lexA repressor by an activated form of recA may cause a derepression of the 20 or so genes involved in the SOS response, which regulates DNA repair, induced mutagenesis, delayed cell division and prophage induction in response to DNA damage []. RecA is a protein of about 350 amino-acid residues. Its sequence is very well conserved [, , ] among eubacterial species. It is also found in the chloroplast of plants []. RecA-like proteins are found in archaea and diverse eukaryotic organisms, like fission yeast, mouse or human. In the filament visualised by X-ray crystallography, beta-strand 3, the loop C-terminal to beta-strand 2, and alpha-helix D of the core domain form one surface that packs against alpha-helix A and beta-strand 0 (the N-terminal domain) of an adjacent monomer during polymerisation []. The core ATP-binding site domain is well conserved, with 14 invariant residues. It contains the nucleotide binding loop between beta-strand 1 and alpha-helix C. The Escherichia coli sequence GPESSGKT matches the consensus sequence of amino acids (G/A)XXXXGK(T/S) for the Walker A box (also referred to as the P-loop) found in a number of nucleoside triphosphate (NTP)-binding proteins. Another nucleotide binding motif, the Walker B box is found at beta-strand 4 in the RecA structure. The Walker B box is characterised by four hydrophobic amino acids followed by an acidic residue (usually aspartate). Nucleotide specificity and additional ATP binding interactions are contributed by the amino acid residues at beta-strand 2 and the loop C-terminal to that strand, all of which are greater than 90% conserved among bacterial RecA proteins.; GO: 0003697 single-stranded DNA binding, 0005524 ATP binding, 0006281 DNA repair; PDB: 2IN0_A 1MO3_A 3IFJ_A 2IN8_A 2IMZ_B 1G18_A 1MO4_A 3IGD_A 2L8L_A 2IN9_A ....

>TIGR01351 adk adenylate kinases

Probab=95.74  E-value=0.039  Score=49.59  Aligned_cols=22  Identities=27%  Similarity=0.389  Sum_probs=20.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhh
Q 043070          121 ICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       121 i~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      |.|+|++|+||||+|+.+...+
T Consensus         2 I~i~G~pGsGKsT~a~~La~~~   23 (210)
T TIGR01351         2 LVLLGPPGSGKGTQAKRIAEKY   23 (210)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            7899999999999999998876

Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.

>PRK00279 adk adenylate kinase; Reviewed

Probab=95.73  E-value=0.043  Score=49.52  Aligned_cols=23  Identities=26%  Similarity=0.286  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .|.|+|++|+||||+|+.++..+
T Consensus         2 ~I~v~G~pGsGKsT~a~~la~~~   24 (215)
T PRK00279          2 RLILLGPPGAGKGTQAKFIAEKY   24 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48899999999999999999877

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.70  E-value=0.03  Score=54.77  Aligned_cols=26  Identities=38%  Similarity=0.533  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +.++|+++|.+|+||||++..++...
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~~L  265 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAWQF  265 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHHHH
Confidence            34799999999999999999998766

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=95.70  E-value=0.011  Score=49.49  Aligned_cols=24  Identities=29%  Similarity=0.440  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++|.|+|..|+|||||++.+.+..
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~l   24 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINEL   24 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            589999999999999999999988

>PRK14528 adenylate kinase; Provisional

Probab=95.69  E-value=0.059  Score=47.49  Aligned_cols=24  Identities=25%  Similarity=0.253  Sum_probs=21.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +.|.|.|++|+||||+|+.+...+
T Consensus         2 ~~i~i~G~pGsGKtt~a~~la~~~   25 (186)
T PRK14528          2 KNIIFMGPPGAGKGTQAKILCERL   25 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            468899999999999999998776

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=95.68  E-value=0.015  Score=54.94  Aligned_cols=27  Identities=26%  Similarity=0.276  Sum_probs=22.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ....+|+|.|..|+||||+|+.+....
T Consensus        60 ~~p~IIGIaG~~GSGKSTlar~L~~ll   86 (290)
T TIGR00554        60 KIPYIISIAGSVAVGKSTTARILQALL   86 (290)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            456799999999999999998876554

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.

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=95.68  E-value=0.05  Score=47.90  Aligned_cols=36  Identities=22%  Similarity=0.336  Sum_probs=29.2

Q ss_pred             HHHHHHhhcCCc-eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          107 NEVWRLVEDNSV-RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       107 ~~l~~~L~~~~~-~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +.+.+.+..+++ ..+.++|+.|+||||+|..+.+..
T Consensus         2 ~~l~~~i~~~~~~~~~L~~G~~G~gkt~~a~~~~~~l   38 (188)
T TIGR00678         2 QQLKRALEKGRLAHAYLFAGPEGVGKELLALALAKAL   38 (188)
T ss_pred             hHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            346666766555 578999999999999999998876

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.

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=95.68  E-value=0.0087  Score=47.63  Aligned_cols=22  Identities=36%  Similarity=0.537  Sum_probs=19.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhh
Q 043070          121 ICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       121 i~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      |-|+|.+|+|||+||+.++.+.
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l   22 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDL   22 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999988776

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

>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants

Probab=95.67  E-value=0.0099  Score=50.34  Aligned_cols=33  Identities=33%  Similarity=0.264  Sum_probs=25.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH
Q 043070          121 ICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV  155 (414)
Q Consensus       121 i~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv  155 (414)
                      |.|+|++|+||||+|+.+.....  -..|+.-.++
T Consensus         2 i~l~G~~GsGKstla~~la~~l~--~~~~~~d~~~   34 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKALG--LPFVDLDELI   34 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHhC--CCEEEchHHH
Confidence            78999999999999999998772  2344554444

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.

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=95.67  E-value=0.0085  Score=51.25  Aligned_cols=20  Identities=35%  Similarity=0.532  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q 043070          120 IICLHGVSRLGKTTLLYNLN  139 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~  139 (414)
                      .|+|.|.+|+||||++..+.
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            68999999999999999988

>PRK13975 thymidylate kinase; Provisional

Probab=95.67  E-value=0.011  Score=52.50  Aligned_cols=24  Identities=33%  Similarity=0.476  Sum_probs=22.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..|+|.|+.|+||||+|+.+.+..
T Consensus         3 ~~I~ieG~~GsGKtT~~~~L~~~l   26 (196)
T PRK13975          3 KFIVFEGIDGSGKTTQAKLLAEKL   26 (196)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            579999999999999999999988

>PRK13949 shikimate kinase; Provisional

Probab=95.66  E-value=0.011  Score=51.38  Aligned_cols=24  Identities=38%  Similarity=0.358  Sum_probs=22.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +-|.|+|++|+||||+++.+++..
T Consensus         2 ~~I~liG~~GsGKstl~~~La~~l   25 (169)
T PRK13949          2 ARIFLVGYMGAGKTTLGKALAREL   25 (169)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            358999999999999999999987

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=95.64  E-value=0.015  Score=52.27  Aligned_cols=32  Identities=19%  Similarity=0.317  Sum_probs=27.8

Q ss_pred             HHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          111 RLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       111 ~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +.+...++++|+++|..|+|||||...+.+..
T Consensus        15 ~~~~~~~~~~i~~~G~~gsGKTTli~~l~~~~   46 (207)
T TIGR00073        15 ERLDKHGLVVLNFMSSPGSGKTTLIEKLIDNL   46 (207)
T ss_pred             HHhhhcCcEEEEEECCCCCCHHHHHHHHHHHH
Confidence            44566789999999999999999999998775

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>TIGR03263 guanyl_kin guanylate kinase

Probab=95.63  E-value=0.0091  Score=52.16  Aligned_cols=24  Identities=33%  Similarity=0.433  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++|+|+|+.|+||||||+.+.+..
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~~~   25 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLEED   25 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHccC
Confidence            579999999999999999999864

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.

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=95.62  E-value=0.023  Score=51.22  Aligned_cols=51  Identities=22%  Similarity=0.304  Sum_probs=39.0

Q ss_pred             cccccCCCccchH-HHHHHHHHh----hcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           92 VEVQDMENTVDVS-RLNEVWRLV----EDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        92 ~~~~~~~~~vGr~-~~~~l~~~L----~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++.+-..++|.| ..+.+++--    ......-|.+||.-|+||++|++++.+.+
T Consensus        54 ~~~i~L~~l~Gvd~qk~~L~~NT~~F~~G~pANnVLLwGaRGtGKSSLVKA~~~e~  109 (287)
T COG2607          54 PDPIDLADLVGVDRQKEALVRNTEQFAEGLPANNVLLWGARGTGKSSLVKALLNEY  109 (287)
T ss_pred             CCCcCHHHHhCchHHHHHHHHHHHHHHcCCcccceEEecCCCCChHHHHHHHHHHH
Confidence            3334446688988 877777654    33455678899999999999999999988

>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP)

Probab=95.61  E-value=0.04  Score=48.62  Aligned_cols=22  Identities=41%  Similarity=0.424  Sum_probs=20.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhh
Q 043070          121 ICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       121 i~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      |.|.|++|+||||+|+.+....
T Consensus         2 I~i~G~pGsGKst~a~~La~~~   23 (194)
T cd01428           2 ILLLGPPGSGKGTQAERLAKKY   23 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            7899999999999999999886

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=95.60  E-value=0.039  Score=50.29  Aligned_cols=26  Identities=19%  Similarity=0.171  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-..+.|.|.+|+||||||..+....
T Consensus        19 ~G~~~~i~G~~G~GKT~l~~~~~~~~   44 (229)
T TIGR03881        19 RGFFVAVTGEPGTGKTIFCLHFAYKG   44 (229)
T ss_pred             CCeEEEEECCCCCChHHHHHHHHHHH
Confidence            45799999999999999999876544

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.

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.60  E-value=0.018  Score=56.54  Aligned_cols=46  Identities=26%  Similarity=0.374  Sum_probs=39.7

Q ss_pred             CCCccchH-HHHHHHHHhhcCCc-eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           97 MENTVDVS-RLNEVWRLVEDNSV-RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.+++|.+ .++.+.+.+.++.. +.+.++|++|+||||+|..+.+..
T Consensus        16 ~~~iig~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~la~~l   63 (367)
T PRK14970         16 FDDVVGQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKI   63 (367)
T ss_pred             HHhcCCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            36789999 99999999977554 488899999999999999998876

>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=95.60  E-value=0.021  Score=50.05  Aligned_cols=23  Identities=26%  Similarity=0.131  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++.|.|.+|+|||+||.++....
T Consensus         1 ~~li~G~~G~GKT~l~~~~~~~~   23 (187)
T cd01124           1 STLLSGGPGTGKTTFALQFLYAG   23 (187)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHH
Confidence            36789999999999999987765

A related protein is found in archaea.

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=95.60  E-value=0.023  Score=58.53  Aligned_cols=45  Identities=9%  Similarity=0.103  Sum_probs=37.9

Q ss_pred             CCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++++|.+ .++.+...+......-+.|+|.+|+|||++|+.+++..
T Consensus        65 ~~iiGqs~~i~~l~~al~~~~~~~vLi~Ge~GtGKt~lAr~i~~~~  110 (531)
T TIGR02902        65 DEIIGQEEGIKALKAALCGPNPQHVIIYGPPGVGKTAAARLVLEEA  110 (531)
T ss_pred             HHeeCcHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999 99999888766555677899999999999999998753

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.

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.58  E-value=0.015  Score=59.40  Aligned_cols=46  Identities=15%  Similarity=0.249  Sum_probs=39.8

Q ss_pred             CCCccchH-HHHHHHHHhhcCCce-EEEEEcCCCCcHHHHHHHHHHhh
Q 043070           97 MENTVDVS-RLNEVWRLVEDNSVR-IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -+++||-+ -++.|.+++..+.+. .+.++|+.|+||||+|+.+++..
T Consensus        15 f~divGq~~v~~~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l   62 (509)
T PRK14958         15 FQEVIGQAPVVRALSNALDQQYLHHAYLFTGTRGVGKTTISRILAKCL   62 (509)
T ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCeeEEEECCCCCCHHHHHHHHHHHh
Confidence            36789999 999999999776554 57899999999999999999876

>PRK12597 F0F1 ATP synthase subunit beta; Provisional

Probab=95.58  E-value=0.026  Score=56.55  Aligned_cols=86  Identities=16%  Similarity=0.192  Sum_probs=51.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH---------HHHHHHHHHHhcCCCCc----cCcCCH-----
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV---------KRIQHVMGYRLAMSNEV----WDDKTK-----  178 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv---------~~l~~~i~~~l~~~~~~----~~~~~~-----  178 (414)
                      .-..++|+|.+|+|||||+.++.+...  +.+-+.++++         .++.+.+...-......    ..+.+.     
T Consensus       142 kGQR~gIfa~~G~GKt~Ll~~~~~~~~--~~~~dv~V~~liGER~rEv~ef~~~~~~~~~l~rsvvv~atsd~~~~~R~~  219 (461)
T PRK12597        142 KGGKTGLFGGAGVGKTVLMMELIFNIS--KQHSGSSVFAGVGERSREGHELYHEMKESGVLDKTVMVYGQMNEPPGARMR  219 (461)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHHHH--hhCCCEEEEEcCCcchHHHHHHHHHHHhcCCcceeEEEecCCCCCHHHHHH
Confidence            446899999999999999999998873  2345666666         34444444321111100    011111     


Q ss_pred             -hHHHHHHHHHh---CCCcEEEEEecCCCc
Q 043070          179 -QGRAIDSSRRL---GQRRFALLLDDLREP  204 (414)
Q Consensus       179 -~~~~~~l~~~L---~~kr~LlVlDdv~~~  204 (414)
                       -...-.+.+++   +++++||++||+-..
T Consensus       220 a~~~a~tiAEyfrd~~G~~VLl~~DslTR~  249 (461)
T PRK12597        220 VVLTGLTIAEYLRDEEKEDVLLFIDNIFRF  249 (461)
T ss_pred             HHHHHHHHHHHHHHhcCCceEEEeccchHH
Confidence             12233355555   389999999998554

>PRK12678 transcription termination factor Rho; Provisional

Probab=95.57  E-value=0.012  Score=59.84  Aligned_cols=94  Identities=21%  Similarity=0.251  Sum_probs=53.0

Q ss_pred             HHHHHhhc-CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH-------HHHHHHHHHHhcCCC--CccCc--
Q 043070          108 EVWRLVED-NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV-------KRIQHVMGYRLAMSN--EVWDD--  175 (414)
Q Consensus       108 ~l~~~L~~-~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv-------~~l~~~i~~~l~~~~--~~~~~--  175 (414)
                      .++++|.. ..-....|+|.+|+|||||++.+.+...  ..+-++.++|       +++ .++-+.+....  ..+..  
T Consensus       405 RvIDll~PIGkGQR~LIvgpp~aGKTtLL~~IAn~i~--~n~~~~~~ivvLIgERpeEV-tdm~rsVkgeVVasT~D~p~  481 (672)
T PRK12678        405 RVIDLIMPIGKGQRGLIVSPPKAGKTTILQNIANAIT--TNNPECHLMVVLVDERPEEV-TDMQRSVKGEVIASTFDRPP  481 (672)
T ss_pred             eeeeeecccccCCEeEEeCCCCCCHHHHHHHHHHHHh--hcCCCeEEEEEEEeCchhhH-HHHHHhccceEEEECCCCCH
Confidence            34444433 3446789999999999999999998762  2333444445       333 33444441110  00010  


Q ss_pred             ---CCHhHHHHHHHHHh--CCCcEEEEEecCCCc
Q 043070          176 ---KTKQGRAIDSSRRL--GQRRFALLLDDLREP  204 (414)
Q Consensus       176 ---~~~~~~~~~l~~~L--~~kr~LlVlDdv~~~  204 (414)
                         .....+.-.+.++|  .++.+||++|++-..
T Consensus       482 ~~~~~~a~~ai~~Ae~fre~G~dVlillDSlTR~  515 (672)
T PRK12678        482 SDHTTVAELAIERAKRLVELGKDVVVLLDSITRL  515 (672)
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCCEEEEEeCchHH
Confidence               01122233344555  679999999997543

>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=95.56  E-value=0.012  Score=49.01  Aligned_cols=22  Identities=36%  Similarity=0.401  Sum_probs=20.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhh
Q 043070          121 ICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       121 i~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      |.++|.+|+|||+||+.+++..
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            6799999999999999999877

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.

>PRK00300 gmk guanylate kinase; Provisional

Probab=95.53  E-value=0.013  Score=52.49  Aligned_cols=26  Identities=35%  Similarity=0.351  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+|+|+|+.|+||||||+.++...
T Consensus         4 ~g~~i~i~G~sGsGKstl~~~l~~~~   29 (205)
T PRK00300          4 RGLLIVLSGPSGAGKSTLVKALLERD   29 (205)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            34689999999999999999999876

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=95.52  E-value=0.018  Score=60.22  Aligned_cols=68  Identities=7%  Similarity=0.148  Sum_probs=50.4

Q ss_pred             cCCCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH-------HHHHHHHHHHhc
Q 043070           96 DMENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV-------KRIQHVMGYRLA  167 (414)
Q Consensus        96 ~~~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv-------~~l~~~i~~~l~  167 (414)
                      .-+.++|.+ .++.|...+...  +.+.++|.+|+||||+|+.+.+...  ..+|+..+|.       ..+++.++..+|
T Consensus        29 ~~~~vigq~~a~~~L~~~~~~~--~~~l~~G~~G~GKttla~~l~~~l~--~~~~~~~~~~~np~~~~~~~~~~v~~~~G  104 (637)
T PRK13765         29 LIDQVIGQEHAVEVIKKAAKQR--RHVMMIGSPGTGKSMLAKAMAELLP--KEELQDILVYPNPEDPNNPKIRTVPAGKG  104 (637)
T ss_pred             cHHHcCChHHHHHHHHHHHHhC--CeEEEECCCCCcHHHHHHHHHHHcC--hHhHHHheEeeCCCcchHHHHHHHHHhcC
Confidence            346688999 888777777654  4688999999999999999998763  3456777777       555555555443

>PRK08972 fliI flagellum-specific ATP synthase; Validated

Probab=95.52  E-value=0.014  Score=57.81  Aligned_cols=27  Identities=22%  Similarity=0.208  Sum_probs=22.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-..++|+|..|+|||||++.+.+..
T Consensus       160 ~~GqrigI~G~sG~GKSTLL~~I~~~~  186 (444)
T PRK08972        160 GKGQRMGLFAGSGVGKSVLLGMMTRGT  186 (444)
T ss_pred             cCCCEEEEECCCCCChhHHHHHhccCC
Confidence            344689999999999999999998654

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=95.50  E-value=0.05  Score=54.06  Aligned_cols=26  Identities=27%  Similarity=0.336  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+|.++|..|+||||+|..++...
T Consensus        99 ~~~vi~lvG~~GvGKTTtaaKLA~~l  124 (429)
T TIGR01425        99 KQNVIMFVGLQGSGKTTTCTKLAYYY  124 (429)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            36799999999999999999887655

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.

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=95.50  E-value=0.015  Score=50.50  Aligned_cols=26  Identities=31%  Similarity=0.391  Sum_probs=23.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+++|+|..|+|||||+..+....
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~~l   30 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIPAL   30 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHHHH
Confidence            45799999999999999999998776

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=95.48  E-value=0.026  Score=54.95  Aligned_cols=50  Identities=12%  Similarity=0.202  Sum_probs=41.9

Q ss_pred             ccccCCCccchH-HHHHHHHHhhcCCc-eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           93 EVQDMENTVDVS-RLNEVWRLVEDNSV-RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        93 ~~~~~~~~vGr~-~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .|+....++|-+ ..+.+...+.++.. ..+.|+|..|+||||+|..+.+..
T Consensus        18 ~P~~~~~l~Gh~~a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA~~L   69 (351)
T PRK09112         18 SPSENTRLFGHEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHI   69 (351)
T ss_pred             CCCchhhccCcHHHHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHHHHH
Confidence            344556789999 99999999977654 468999999999999999999877

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=95.45  E-value=0.012  Score=49.05  Aligned_cols=23  Identities=48%  Similarity=0.707  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .|+|+|+.|+|||||++.+....
T Consensus         1 ~i~i~GpsGsGKstl~~~L~~~~   23 (137)
T cd00071           1 LIVLSGPSGVGKSTLLKRLLEEF   23 (137)
T ss_pred             CEEEECCCCCCHHHHHHHHHhcC
Confidence            37899999999999999999875

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.

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=95.44  E-value=0.01  Score=50.91  Aligned_cols=22  Identities=32%  Similarity=0.514  Sum_probs=20.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhh
Q 043070          121 ICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       121 i~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      |.|+|++|+||||+|+.+.+..
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.

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=95.43  E-value=0.015  Score=51.74  Aligned_cols=25  Identities=20%  Similarity=0.319  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+|.|.|.+|+||||+|+.+....
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~~~   27 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIARHR   27 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999999999876

>PRK10865 protein disaggregation chaperone; Provisional

Probab=95.43  E-value=0.06  Score=58.72  Aligned_cols=45  Identities=16%  Similarity=0.228  Sum_probs=35.6

Q ss_pred             CCccchH-HHHHHHHHhhc---------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVED---------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~---------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..++|.+ .++.+.+.+..         ....++.++|+.|+|||+||+.+++..
T Consensus       568 ~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l  622 (857)
T PRK10865        568 HRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFM  622 (857)
T ss_pred             CeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            4577888 88888888732         112478899999999999999999765

>COG0237 CoaE Dephospho-CoA kinase [Coenzyme metabolism]

Probab=95.43  E-value=0.048  Score=48.61  Aligned_cols=50  Identities=18%  Similarity=0.050  Sum_probs=32.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH-------HHHHHHHHHHhcCCC
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV-------KRIQHVMGYRLAMSN  170 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv-------~~l~~~i~~~l~~~~  170 (414)
                      ..+|+|+|+.|+||||+|+.+.+.-   -.-++.-.-+       ...+..|....|...
T Consensus         2 ~~iIglTG~igsGKStva~~~~~~G---~~vidaD~v~r~~~~~~~~~~~~i~~~fG~~i   58 (201)
T COG0237           2 MLIIGLTGGIGSGKSTVAKILAELG---FPVIDADDVAREVVEPGGEALQEIAERFGLEI   58 (201)
T ss_pred             ceEEEEecCCCCCHHHHHHHHHHcC---CeEEEccHHHHHHHhccchHHHHHHHHcCCcc
Confidence            3689999999999999999988731   1222222222       344457777777544

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=95.42  E-value=0.036  Score=56.23  Aligned_cols=26  Identities=35%  Similarity=0.501  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+|+|+|.+|+||||++..++...
T Consensus       349 ~G~vIaLVGPtGvGKTTtaakLAa~l  374 (559)
T PRK12727        349 RGGVIALVGPTGAGKTTTIAKLAQRF  374 (559)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHH
Confidence            35799999999999999998887765

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=95.41  E-value=0.043  Score=54.84  Aligned_cols=25  Identities=32%  Similarity=0.517  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++++++|++|+||||++..++...
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~  245 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARY  245 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999998887665

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=95.40  E-value=0.051  Score=47.14  Aligned_cols=24  Identities=25%  Similarity=0.329  Sum_probs=21.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++.|.|.+|+||||+|..+....
T Consensus         2 ~~ili~G~~~sGKS~~a~~l~~~~   25 (170)
T PRK05800          2 MLILVTGGARSGKSRFAERLAAQS   25 (170)
T ss_pred             CEEEEECCCCccHHHHHHHHHHHc
Confidence            368999999999999999998765

>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]

Probab=95.39  E-value=0.029  Score=52.47  Aligned_cols=84  Identities=20%  Similarity=0.165  Sum_probs=50.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH-------HHHHHHHHHH-h---cCCCCccCcCCHhHHHHH
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV-------KRIQHVMGYR-L---AMSNEVWDDKTKQGRAID  184 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv-------~~l~~~i~~~-l---~~~~~~~~~~~~~~~~~~  184 (414)
                      +.-.++=|+|+.|+||||+|.+++-..   ...-...+|+       ..-...++.. +   -...+ ....+...+.+.
T Consensus        58 ~~g~ItEiyG~~gsGKT~lal~~~~~a---q~~g~~a~fIDtE~~l~p~r~~~l~~~~~d~l~v~~~-~~~e~q~~i~~~  133 (279)
T COG0468          58 PRGRITEIYGPESSGKTTLALQLVANA---QKPGGKAAFIDTEHALDPERAKQLGVDLLDNLLVSQP-DTGEQQLEIAEK  133 (279)
T ss_pred             ccceEEEEecCCCcchhhHHHHHHHHh---hcCCCeEEEEeCCCCCCHHHHHHHHHhhhcceeEecC-CCHHHHHHHHHH
Confidence            345789999999999999999987666   2333366777       3333444444 2   11111 022223344444


Q ss_pred             HHHHhCCCcEEEEEecCCC
Q 043070          185 SSRRLGQRRFALLLDDLRE  203 (414)
Q Consensus       185 l~~~L~~kr~LlVlDdv~~  203 (414)
                      +......+--|+|+|.+-.
T Consensus       134 ~~~~~~~~i~LvVVDSvaa  152 (279)
T COG0468         134 LARSGAEKIDLLVVDSVAA  152 (279)
T ss_pred             HHHhccCCCCEEEEecCcc
Confidence            5554455577999998743

>CHL00181 cbbX CbbX; Provisional

Probab=95.38  E-value=0.024  Score=53.67  Aligned_cols=24  Identities=21%  Similarity=0.317  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+.++|.+|+||||+|+.+++..
T Consensus        60 ~~ill~G~pGtGKT~lAr~la~~~   83 (287)
T CHL00181         60 LHMSFTGSPGTGKTTVALKMADIL   83 (287)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHH
Confidence            347889999999999999998865

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.37  E-value=0.021  Score=59.60  Aligned_cols=45  Identities=16%  Similarity=0.141  Sum_probs=39.1

Q ss_pred             CCccchH-HHHHHHHHhhcCCc-eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVEDNSV-RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++||-+ .+..|.+.+.++.+ ..+.++|+.|+||||+|+.+++..
T Consensus        16 ~eivGQe~i~~~L~~~i~~~ri~ha~Lf~Gp~GvGKttlA~~lAk~L   62 (620)
T PRK14954         16 ADITAQEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAARVFAKAV   62 (620)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHh
Confidence            6789999 99999999977655 458899999999999999999877

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=95.37  E-value=0.051  Score=49.11  Aligned_cols=25  Identities=32%  Similarity=0.349  Sum_probs=21.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      .-..++|+|+.|+|||||...+.--
T Consensus        30 ~Ge~vaI~GpSGSGKSTLLniig~l   54 (226)
T COG1136          30 AGEFVAIVGPSGSGKSTLLNLLGGL   54 (226)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcc
Confidence            3468999999999999999888643

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=95.36  E-value=0.062  Score=57.85  Aligned_cols=45  Identities=20%  Similarity=0.142  Sum_probs=34.6

Q ss_pred             CCccchH-HHHHHHHHhhc-------------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVED-------------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++.|.+ .+++|.+.+.-             ...+-+.++|++|+|||+||+.+++..
T Consensus       453 ~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~  511 (733)
T TIGR01243       453 SDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATES  511 (733)
T ss_pred             hhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhc
Confidence            4466888 77777666521             234568899999999999999999987

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.

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=95.36  E-value=0.016  Score=50.42  Aligned_cols=25  Identities=32%  Similarity=0.353  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...|.|+|+.|+||||+|+.+.+..
T Consensus         4 ~~~I~liG~~GaGKStl~~~La~~l   28 (172)
T PRK05057          4 KRNIFLVGPMGAGKSTIGRQLAQQL   28 (172)
T ss_pred             CCEEEEECCCCcCHHHHHHHHHHHc
Confidence            3569999999999999999999876

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=95.36  E-value=0.053  Score=59.04  Aligned_cols=45  Identities=20%  Similarity=0.299  Sum_probs=36.4

Q ss_pred             CCccchH-HHHHHHHHhhc---------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVED---------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~---------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..++|.+ .++.+.+.+..         ....++.++|+.|+|||.||+.++...
T Consensus       566 ~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l  620 (852)
T TIGR03345       566 ERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELL  620 (852)
T ss_pred             CeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHH
Confidence            5678999 88888888722         234578999999999999999988766

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.

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

Probab=95.36  E-value=0.057  Score=58.03  Aligned_cols=45  Identities=16%  Similarity=0.262  Sum_probs=35.4

Q ss_pred             CCccchH-HHHHHHHHhhc---------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVED---------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~---------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..++|.+ .++.+.+.+..         ....++.++|+.|+|||+||+.++...
T Consensus       454 ~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l  508 (731)
T TIGR02639       454 AKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEAL  508 (731)
T ss_pred             cceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHh
Confidence            4567888 88888887732         123468899999999999999999877

>PRK13531 regulatory ATPase RavA; Provisional

Probab=95.35  E-value=0.024  Score=56.87  Aligned_cols=43  Identities=14%  Similarity=0.142  Sum_probs=36.5

Q ss_pred             CCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..++||+ .++.+...+..+  .-|.|.|.+|+|||+||+.+....
T Consensus        20 ~~i~gre~vI~lll~aalag--~hVLL~GpPGTGKT~LAraLa~~~   63 (498)
T PRK13531         20 KGLYERSHAIRLCLLAALSG--ESVFLLGPPGIAKSLIARRLKFAF   63 (498)
T ss_pred             hhccCcHHHHHHHHHHHccC--CCEEEECCCChhHHHHHHHHHHHh
Confidence            4589999 888888887654  468899999999999999999876

>PRK13948 shikimate kinase; Provisional

Probab=95.35  E-value=0.019  Score=50.45  Aligned_cols=26  Identities=23%  Similarity=0.454  Sum_probs=23.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ....|.++|+.|+||||+++.+.+..
T Consensus         9 ~~~~I~LiG~~GsGKSTvg~~La~~l   34 (182)
T PRK13948          9 PVTWVALAGFMGTGKSRIGWELSRAL   34 (182)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHc
Confidence            45789999999999999999999887

>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic

Probab=95.33  E-value=0.032  Score=53.81  Aligned_cols=22  Identities=32%  Similarity=0.469  Sum_probs=19.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhh
Q 043070          121 ICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       121 i~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +.+.|++|+||||+++.+.+..
T Consensus         2 ~~l~Gl~GaGKST~~~~l~~~l   23 (340)
T TIGR03575         2 CVLCGLPAAGKSTLARSLSATL   23 (340)
T ss_pred             eEEECCCCCCHHHHHHHHHHHH
Confidence            5789999999999999998776

Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents eukaryotic proteins with this activity.

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=95.33  E-value=0.071  Score=50.53  Aligned_cols=107  Identities=16%  Similarity=0.115  Sum_probs=66.3

Q ss_pred             CCccchH-HHHHHHHHhhc----CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCc-----chHhH-HHHHHHHHHHh
Q 043070           98 ENTVDVS-RLNEVWRLVED----NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFG-----LVILV-KRIQHVMGYRL  166 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~-----~~~wv-~~l~~~i~~~l  166 (414)
                      ..++|-. +..++-++|..    +...-+.|+|+.|+|||+|......+.....++|-     +-+-. +-.++.|..++
T Consensus        24 ~~l~g~~~~~~~l~~~lkqt~~~gEsnsviiigprgsgkT~li~~~Ls~~q~~~E~~l~v~Lng~~~~dk~al~~I~rql  103 (408)
T KOG2228|consen   24 INLFGVQDEQKHLSELLKQTILHGESNSVIIIGPRGSGKTILIDTRLSDIQENGENFLLVRLNGELQTDKIALKGITRQL  103 (408)
T ss_pred             cceeehHHHHHHHHHHHHHHHHhcCCCceEEEccCCCCceEeeHHHHhhHHhcCCeEEEEEECccchhhHHHHHHHHHHH
Confidence            5688998 88888888843    55567889999999999999888777544566662     11111 33455565555


Q ss_pred             cCCCC--ccCcCCHhHHHHHHHHHhCC------CcEEEEEecCCCc
Q 043070          167 AMSNE--VWDDKTKQGRAIDSSRRLGQ------RRFALLLDDLREP  204 (414)
Q Consensus       167 ~~~~~--~~~~~~~~~~~~~l~~~L~~------kr~LlVlDdv~~~  204 (414)
                      .....  .....+..+...+|-..|+.      -++..|+|.++--
T Consensus       104 ~~e~~~~~k~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf  149 (408)
T KOG2228|consen  104 ALELNRIVKSFGSFTENLSKLLEALKKGDETTSGKVIFILDEFDLF  149 (408)
T ss_pred             HHHHhhhheeecccchhHHHHHHHHhcCCCCCCceEEEEeehhhcc
Confidence            32211  11233344444555555542      3577888777543

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=95.33  E-value=0.049  Score=53.07  Aligned_cols=81  Identities=19%  Similarity=0.101  Sum_probs=47.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH---------HHHHHHHHHHhcCCCCccCcCCHhHHHHHHHH
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV---------KRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSR  187 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv---------~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  187 (414)
                      +.++++++|+.|+||||++..++... ..+.  ..+.+|         ..-++...+.++.+..  ...+..++.+.+..
T Consensus       205 ~~~ii~lvGptGvGKTTt~akLA~~l-~~~g--~~V~lItaDtyR~gAveQLk~yae~lgvpv~--~~~dp~dL~~al~~  279 (407)
T PRK12726        205 NHRIISLIGQTGVGKTTTLVKLGWQL-LKQN--RTVGFITTDTFRSGAVEQFQGYADKLDVELI--VATSPAELEEAVQY  279 (407)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH-HHcC--CeEEEEeCCccCccHHHHHHHHhhcCCCCEE--ecCCHHHHHHHHHH
Confidence            46799999999999999999988765 1121  223334         2233444444444321  23455666555543


Q ss_pred             Hh-CCCcEEEEEecCC
Q 043070          188 RL-GQRRFALLLDDLR  202 (414)
Q Consensus       188 ~L-~~kr~LlVlDdv~  202 (414)
                      .- .+..=+|++|-.-
T Consensus       280 l~~~~~~D~VLIDTAG  295 (407)
T PRK12726        280 MTYVNCVDHILIDTVG  295 (407)
T ss_pred             HHhcCCCCEEEEECCC
Confidence            32 1345677778653

>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=95.32  E-value=0.011  Score=48.39  Aligned_cols=27  Identities=37%  Similarity=0.554  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhhhhcCCCCc
Q 043070          121 ICLHGVSRLGKTTLLYNLNKKFNDTRHNFG  150 (414)
Q Consensus       121 i~I~G~gGiGKTtLA~~v~~~~~~v~~~F~  150 (414)
                      |.|+|.+|+||||+|+.++...   ...|.
T Consensus         2 vLleg~PG~GKT~la~~lA~~~---~~~f~   28 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKALARSL---GLSFK   28 (131)
T ss_dssp             EEEES---HHHHHHHHHHHHHT---T--EE
T ss_pred             EeeECCCccHHHHHHHHHHHHc---CCcee
Confidence            5789999999999999999887   55663

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.

>PRK04182 cytidylate kinase; Provisional

Probab=95.31  E-value=0.016  Score=50.44  Aligned_cols=23  Identities=39%  Similarity=0.478  Sum_probs=21.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +|+|.|+.|+||||+|+.+++..
T Consensus         2 ~I~i~G~~GsGKstia~~la~~l   24 (180)
T PRK04182          2 IITISGPPGSGKTTVARLLAEKL   24 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            79999999999999999999877

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=95.29  E-value=0.064  Score=56.76  Aligned_cols=103  Identities=12%  Similarity=0.164  Sum_probs=63.3

Q ss_pred             CCCccchH-HHHHHHHHhhc---------CCceEEEEEcCCCCcHHHHHHHHHHhhh---hcCCCCcchHhHHHHHHHHH
Q 043070           97 MENTVDVS-RLNEVWRLVED---------NSVRIICLHGVSRLGKTTLLYNLNKKFN---DTRHNFGLVILVKRIQHVMG  163 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~---------~~~~vi~I~G~gGiGKTtLA~~v~~~~~---~v~~~F~~~~wv~~l~~~i~  163 (414)
                      ...++|-+ .+..+.+.+..         ....+...+|+.|+|||-||+.++....   ..--.||..=+.   -+.=+
T Consensus       490 ~~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lfg~e~aliR~DMSEy~---EkHsV  566 (786)
T COG0542         490 KKRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFGDEQALIRIDMSEYM---EKHSV  566 (786)
T ss_pred             hcceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHhcCCCccceeechHHHH---HHHHH
Confidence            36688999 99999988832         3456778899999999999999987762   111123333222   22223


Q ss_pred             HHhcCCCCccCcCCHhHHHHHHHHHhCCCcE-EEEEecCCCcc
Q 043070          164 YRLAMSNEVWDDKTKQGRAIDSSRRLGQRRF-ALLLDDLREPI  205 (414)
Q Consensus       164 ~~l~~~~~~~~~~~~~~~~~~l~~~L~~kr~-LlVlDdv~~~~  205 (414)
                      +.|-+.++.+-.-+.   --.|-+.++.++| +|.||.+....
T Consensus       567 SrLIGaPPGYVGyee---GG~LTEaVRr~PySViLlDEIEKAH  606 (786)
T COG0542         567 SRLIGAPPGYVGYEE---GGQLTEAVRRKPYSVILLDEIEKAH  606 (786)
T ss_pred             HHHhCCCCCCceecc---ccchhHhhhcCCCeEEEechhhhcC
Confidence            334333333322222   1235556677877 77789998654

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=95.29  E-value=0.014  Score=51.36  Aligned_cols=24  Identities=38%  Similarity=0.508  Sum_probs=21.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+.|+|+.|+|||||++.++...
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~~~   26 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQRE   26 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhccC
Confidence            478999999999999999998765

>PRK11823 DNA repair protein RadA; Provisional

Probab=95.29  E-value=0.044  Score=55.23  Aligned_cols=81  Identities=15%  Similarity=0.273  Sum_probs=47.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH--HHHHHHH---HHHhcCCCCcc---CcCCHhHHHHHHHHH
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV--KRIQHVM---GYRLAMSNEVW---DDKTKQGRAIDSSRR  188 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv--~~l~~~i---~~~l~~~~~~~---~~~~~~~~~~~l~~~  188 (414)
                      .-.++.|.|.+|+|||||+.+++....   ..-..++|+  ++-...+   ++.++......   ...+.+.+.+.+.  
T Consensus        79 ~Gs~~lI~G~pG~GKTtL~lq~a~~~a---~~g~~vlYvs~Ees~~qi~~ra~rlg~~~~~l~~~~e~~l~~i~~~i~--  153 (446)
T PRK11823         79 PGSVVLIGGDPGIGKSTLLLQVAARLA---AAGGKVLYVSGEESASQIKLRAERLGLPSDNLYLLAETNLEAILATIE--  153 (446)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHH---hcCCeEEEEEccccHHHHHHHHHHcCCChhcEEEeCCCCHHHHHHHHH--
Confidence            346999999999999999999988762   222344555  2222222   44454322111   2234444444443  


Q ss_pred             hCCCcEEEEEecCCC
Q 043070          189 LGQRRFALLLDDLRE  203 (414)
Q Consensus       189 L~~kr~LlVlDdv~~  203 (414)
                       +.+.-+||+|.+..
T Consensus       154 -~~~~~lVVIDSIq~  167 (446)
T PRK11823        154 -EEKPDLVVIDSIQT  167 (446)
T ss_pred             -hhCCCEEEEechhh
Confidence             23566899998753

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=95.28  E-value=0.01  Score=54.03  Aligned_cols=26  Identities=23%  Similarity=0.217  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.++.|.|.+|+|||+||.++....
T Consensus        18 ~gs~~li~G~~GsGKT~l~~q~l~~~   43 (226)
T PF06745_consen   18 KGSVVLISGPPGSGKTTLALQFLYNG   43 (226)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCcHHHHHHHHHHh
Confidence            45799999999999999999866444

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 ....

>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=95.28  E-value=0.027  Score=48.75  Aligned_cols=43  Identities=14%  Similarity=0.164  Sum_probs=32.3

Q ss_pred             ccchH-HHHHHHHHhhc--CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          100 TVDVS-RLNEVWRLVED--NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       100 ~vGr~-~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +||.. .+.++++.+..  ....-|.|+|..|+||+.+|+.+++..
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            46777 88888887743  333566799999999999999999976

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 ....

>KOG2170 consensus ATPase of the AAA+ superfamily [General function prediction only]

Probab=95.28  E-value=0.064  Score=50.04  Aligned_cols=97  Identities=10%  Similarity=0.115  Sum_probs=60.2

Q ss_pred             CCccchH-HHHHHHHHhhc-------CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhHHHHHHHHHHHhcCC
Q 043070           98 ENTVDVS-RLNEVWRLVED-------NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILVKRIQHVMGYRLAMS  169 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~-------~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv~~l~~~i~~~l~~~  169 (414)
                      ..++|.- ..+.|+..+.+       .++-+++.+|..|+||.-.++.++++..+..-+       ..........+.-+
T Consensus        82 ~~lfGQHla~~~Vv~alk~~~~n~~p~KPLvLSfHG~tGTGKN~Va~iiA~n~~~~Gl~-------S~~V~~fvat~hFP  154 (344)
T KOG2170|consen   82 RALFGQHLAKQLVVNALKSHWANPNPRKPLVLSFHGWTGTGKNYVAEIIAENLYRGGLR-------SPFVHHFVATLHFP  154 (344)
T ss_pred             HHhhchHHHHHHHHHHHHHHhcCCCCCCCeEEEecCCCCCchhHHHHHHHHHHHhcccc-------chhHHHhhhhccCC
Confidence            3456766 66777777633       456799999999999999999998877321111       11122222333332


Q ss_pred             CCccCcCCHhHHHHHHHHHhCC-----CcEEEEEecCCCcc
Q 043070          170 NEVWDDKTKQGRAIDSSRRLGQ-----RRFALLLDDLREPI  205 (414)
Q Consensus       170 ~~~~~~~~~~~~~~~l~~~L~~-----kr~LlVlDdv~~~~  205 (414)
                          .....+.-..+|++++.+     +|-|.|+|+++...
T Consensus       155 ----~~~~ie~Yk~eL~~~v~~~v~~C~rslFIFDE~DKmp  191 (344)
T KOG2170|consen  155 ----HASKIEDYKEELKNRVRGTVQACQRSLFIFDEVDKLP  191 (344)
T ss_pred             ----ChHHHHHHHHHHHHHHHHHHHhcCCceEEechhhhcC
Confidence                233444445555555533     79999999998763

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=95.28  E-value=0.023  Score=59.10  Aligned_cols=46  Identities=20%  Similarity=0.295  Sum_probs=40.0

Q ss_pred             CCCccchH-HHHHHHHHhhcCCce-EEEEEcCCCCcHHHHHHHHHHhh
Q 043070           97 MENTVDVS-RLNEVWRLVEDNSVR-IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.+++|.+ .++.|.+.+..+++. -+.++|+.|+||||+|+.+++..
T Consensus        23 f~dliGq~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~lAk~L   70 (598)
T PRK09111         23 FDDLIGQEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARILARAL   70 (598)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhh
Confidence            36789999 999999999776544 68899999999999999999876

>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]

Probab=95.27  E-value=0.036  Score=50.68  Aligned_cols=45  Identities=18%  Similarity=0.227  Sum_probs=34.9

Q ss_pred             chH-HHHHHHHHhhc-------------CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCC
Q 043070          102 DVS-RLNEVWRLVED-------------NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNF  149 (414)
Q Consensus       102 Gr~-~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F  149 (414)
                      |=. .++++.+.+.-             +..+-|.++|++|.|||-+|++|+|+.   ...|
T Consensus       181 gckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravanrt---dacf  239 (435)
T KOG0729|consen  181 GCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVANRT---DACF  239 (435)
T ss_pred             chHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhccc---CceE
Confidence            444 77777766521             467789999999999999999999988   4555

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=95.24  E-value=0.016  Score=53.06  Aligned_cols=27  Identities=33%  Similarity=0.469  Sum_probs=23.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++...|.++||+|+||||..+.++.+.
T Consensus        17 ~~p~~ilVvGMAGSGKTTF~QrL~~hl   43 (366)
T KOG1532|consen   17 QRPVIILVVGMAGSGKTTFMQRLNSHL   43 (366)
T ss_pred             cCCcEEEEEecCCCCchhHHHHHHHHH
Confidence            345688899999999999999999887

>PRK13946 shikimate kinase; Provisional

Probab=95.23  E-value=0.019  Score=50.56  Aligned_cols=25  Identities=28%  Similarity=0.353  Sum_probs=23.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+.|.++|++|+||||+++.+.+..
T Consensus        10 ~~~I~l~G~~GsGKsti~~~LA~~L   34 (184)
T PRK13946         10 KRTVVLVGLMGAGKSTVGRRLATML   34 (184)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHc
Confidence            3579999999999999999999987

>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor

Probab=95.22  E-value=0.018  Score=50.90  Aligned_cols=24  Identities=33%  Similarity=0.545  Sum_probs=22.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+|+|.|+.|+||||+++.+.+..
T Consensus         1 ~~I~ieG~~GsGKtT~~~~L~~~l   24 (200)
T cd01672           1 MFIVFEGIDGAGKTTLIELLAERL   24 (200)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            368999999999999999999877

TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=95.22  E-value=0.065  Score=47.72  Aligned_cols=25  Identities=36%  Similarity=0.411  Sum_probs=21.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      .-.|++|+|++|+|||||.+.+..-
T Consensus        27 ~Gevv~iiGpSGSGKSTlLRclN~L   51 (240)
T COG1126          27 KGEVVVIIGPSGSGKSTLLRCLNGL   51 (240)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCC
Confidence            4469999999999999999988653

>PLN02200 adenylate kinase family protein

Probab=95.22  E-value=0.02  Score=52.53  Aligned_cols=26  Identities=23%  Similarity=0.190  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+|.|.|++|+||||+|+.+.+..
T Consensus        42 ~~~ii~I~G~PGSGKsT~a~~La~~~   67 (234)
T PLN02200         42 TPFITFVLGGPGSGKGTQCEKIVETF   67 (234)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            34689999999999999999999877

>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=95.21  E-value=0.018  Score=49.91  Aligned_cols=22  Identities=36%  Similarity=0.555  Sum_probs=19.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhh
Q 043070          121 ICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       121 i~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      |.|.|.+|+|||||.+.+.+..
T Consensus         2 i~iTG~pG~GKTTll~k~i~~l   23 (168)
T PF03266_consen    2 IFITGPPGVGKTTLLKKVIEEL   23 (168)
T ss_dssp             EEEES-TTSSHHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHHh
Confidence            6899999999999999999887

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.

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.21  E-value=0.066  Score=53.18  Aligned_cols=26  Identities=27%  Similarity=0.286  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+++++|..|+||||+...+....
T Consensus       190 ~g~vi~lvGpnG~GKTTtlakLA~~~  215 (420)
T PRK14721        190 QGGVYALIGPTGVGKTTTTAKLAARA  215 (420)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            34699999999999999998887653

>PF00006 ATP-synt_ab: ATP synthase alpha/beta family, nucleotide-binding domain This Pfam entry corresponds to chains a,b,c,d,e and f; InterPro: IPR000194 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane

Probab=95.21  E-value=0.036  Score=49.99  Aligned_cols=34  Identities=24%  Similarity=0.258  Sum_probs=26.6

Q ss_pred             HHHHhhc-CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          109 VWRLVED-NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       109 l~~~L~~-~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++.|.. ..-..++|.|.+|+|||+|+..+.+..
T Consensus         5 ~ID~l~Pig~Gqr~~I~g~~g~GKt~Ll~~i~~~~   39 (215)
T PF00006_consen    5 AIDLLFPIGRGQRIGIFGGAGVGKTVLLQEIANNQ   39 (215)
T ss_dssp             HHHHHSCEETTSEEEEEESTTSSHHHHHHHHHHHC
T ss_pred             eeccccccccCCEEEEEcCcccccchhhHHHHhcc
Confidence            3455533 233678999999999999999999888

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 ....

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.20  E-value=0.025  Score=58.23  Aligned_cols=45  Identities=22%  Similarity=0.273  Sum_probs=39.0

Q ss_pred             CCccchH-HHHHHHHHhhcCCce-EEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVEDNSVR-IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++||-+ -++.+.+++..+++. .+.++|+.|+||||+|+.+.+..
T Consensus        16 ~divGq~~v~~~L~~~i~~~~~~ha~Lf~Gp~G~GKTt~A~~lAk~l   62 (527)
T PRK14969         16 SELVGQEHVVRALTNALEQQRLHHAYLFTGTRGVGKTTLARILAKSL   62 (527)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            5689999 999999999876554 56899999999999999998876

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=95.20  E-value=0.033  Score=54.50  Aligned_cols=48  Identities=13%  Similarity=0.219  Sum_probs=40.6

Q ss_pred             ccCCCccchH-HHHHHHHHhhcCCce-EEEEEcCCCCcHHHHHHHHHHhh
Q 043070           95 QDMENTVDVS-RLNEVWRLVEDNSVR-IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        95 ~~~~~~vGr~-~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +...+++|.+ ..+.+.+.+..+.+. .+.++|+.|+||||+|..+++..
T Consensus        16 ~~~~~iiGq~~~~~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~~A~~L   65 (365)
T PRK07471         16 RETTALFGHAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMARFL   65 (365)
T ss_pred             CchhhccChHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            3346789999 989999999876654 68999999999999999998876

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=95.19  E-value=0.026  Score=59.02  Aligned_cols=45  Identities=11%  Similarity=0.212  Sum_probs=36.0

Q ss_pred             cCCCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           96 DMENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        96 ~~~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..++++|.+ .++.+...+....  -+.++|++|+||||+|+.+.+..
T Consensus        16 ~~~~viG~~~a~~~l~~a~~~~~--~~ll~G~pG~GKT~la~~la~~l   61 (608)
T TIGR00764        16 LIDQVIGQEEAVEIIKKAAKQKR--NVLLIGEPGVGKSMLAKAMAELL   61 (608)
T ss_pred             hHhhccCHHHHHHHHHHHHHcCC--CEEEECCCCCCHHHHHHHHHHHc
Confidence            346788999 7777777676543  55599999999999999999877

Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=95.19  E-value=0.033  Score=53.80  Aligned_cols=46  Identities=17%  Similarity=0.102  Sum_probs=37.2

Q ss_pred             CCCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           97 MENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -+.+||.+ .+..++-.+.++...-+.|.|..|+|||||++.+..-.
T Consensus         3 f~~ivgq~~~~~al~~~~~~~~~g~vli~G~~G~gKttl~r~~~~~~   49 (337)
T TIGR02030         3 FTAIVGQDEMKLALLLNVIDPKIGGVMVMGDRGTGKSTAVRALAALL   49 (337)
T ss_pred             ccccccHHHHHHHHHHHhcCCCCCeEEEEcCCCCCHHHHHHHHHHhh
Confidence            35689999 77777666666666678899999999999999998655

This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=95.18  E-value=0.026  Score=59.03  Aligned_cols=46  Identities=20%  Similarity=0.241  Sum_probs=39.4

Q ss_pred             CCCccchH-HHHHHHHHhhcCCce-EEEEEcCCCCcHHHHHHHHHHhh
Q 043070           97 MENTVDVS-RLNEVWRLVEDNSVR-IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.++||-+ -++.|.+.+..+.+. .+.++|..|+||||+|+.+++..
T Consensus        15 f~divGQe~vv~~L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr~lAk~L   62 (647)
T PRK07994         15 FAEVVGQEHVLTALANALDLGRLHHAYLFSGTRGVGKTTIARLLAKGL   62 (647)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhh
Confidence            36789999 999999999776654 46899999999999999998876

>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51

Probab=95.18  E-value=0.045  Score=50.88  Aligned_cols=84  Identities=17%  Similarity=0.145  Sum_probs=46.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCC----CcchHhH-------HHHHHHHHHHhcCCCCc-------cCcCCH
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHN----FGLVILV-------KRIQHVMGYRLAMSNEV-------WDDKTK  178 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~----F~~~~wv-------~~l~~~i~~~l~~~~~~-------~~~~~~  178 (414)
                      .-.+.=|+|.+|+|||+|+..++-.. .....    =..++|+       .+=+.+|++..+.....       ....+.
T Consensus        37 ~g~itEi~G~~gsGKTql~l~l~~~~-~l~~~~~g~~~~vvyidTe~~f~~~Rl~~i~~~~~~~~~~~l~~I~v~~~~~~  115 (256)
T PF08423_consen   37 TGSITEIVGESGSGKTQLCLQLAVNV-QLPEEIGGLGGKVVYIDTEGTFSPERLQQIAERFGLDPEEILDNIFVIRVFDL  115 (256)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHT-TSGGCTTSSSSEEEEEESSSSS-HHHHHHHHHHTTS-HHHHHHTEEEEE-SSH
T ss_pred             CCcEEEEEEecccccchHHHHHHHHh-hcccccccCCCceEEEeCCCCCCHHHHHHHhhccccccchhhhceeeeecCCH
Confidence            34689999999999999998887554 11111    1346677       33344555554322110       012233


Q ss_pred             hHHH---HHHHHHh-CCCcEEEEEecC
Q 043070          179 QGRA---IDSSRRL-GQRRFALLLDDL  201 (414)
Q Consensus       179 ~~~~---~~l~~~L-~~kr~LlVlDdv  201 (414)
                      +++.   ..+...+ .++=-|||+|.+
T Consensus       116 ~~l~~~L~~l~~~l~~~~ikLIVIDSI  142 (256)
T PF08423_consen  116 EELLELLEQLPKLLSESKIKLIVIDSI  142 (256)
T ss_dssp             HHHHHHHHHHHHHHHHSCEEEEEEETS
T ss_pred             HHHHHHHHHHHhhccccceEEEEecch
Confidence            3333   3333334 345668999976

It is critical for DNA binding []. Rad51 is a homologue of the bacterial RecA protein. Rad51 and RecA share a core ATPase domain.; PDB: 2ZUC_A 2Z43_C 2ZUD_B 2DFL_A 2ZUB_A 2BKE_A 2KZ3_A 2CVH_B 2CVF_B 1SZP_D ....

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=95.17  E-value=0.067  Score=52.88  Aligned_cols=25  Identities=28%  Similarity=0.468  Sum_probs=21.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..++.++|++|+||||++..++...
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA~~~  247 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLAAKY  247 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999998654

>TIGR02173 cyt_kin_arch cytidylate kinase, putative

Probab=95.15  E-value=0.019  Score=49.50  Aligned_cols=23  Identities=39%  Similarity=0.476  Sum_probs=21.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +|+|.|..|+||||+|+.+.+..
T Consensus         2 iI~i~G~~GSGKstia~~la~~l   24 (171)
T TIGR02173         2 IITISGPPGSGKTTVAKILAEKL   24 (171)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            79999999999999999998876

Proteins in this family are believed to be cytidylate kinase. Members of this family are found in the archaea and in spirochaetes, and differ considerably from the common bacterial form of cytidylate kinase described by TIGR00017.

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.14  E-value=0.056  Score=54.05  Aligned_cols=95  Identities=19%  Similarity=0.160  Sum_probs=58.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhHHHHHHHHHHHhcCCCCccCcCCHhHHHHHHHHHh----CC
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILVKRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRRL----GQ  191 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L----~~  191 (414)
                      ..+..+.+.|++|+|||+||..++...   .-.|-.++               ++......++......+++.+    +.
T Consensus       536 s~lvSvLl~Gp~~sGKTaLAA~iA~~S---~FPFvKii---------------Spe~miG~sEsaKc~~i~k~F~DAYkS  597 (744)
T KOG0741|consen  536 SPLVSVLLEGPPGSGKTALAAKIALSS---DFPFVKII---------------SPEDMIGLSESAKCAHIKKIFEDAYKS  597 (744)
T ss_pred             CcceEEEEecCCCCChHHHHHHHHhhc---CCCeEEEe---------------ChHHccCccHHHHHHHHHHHHHHhhcC
Confidence            456778889999999999999998765   22221111               011113344455555666555    44


Q ss_pred             CcEEEEEecCCCccchhhhccCCCCCC-cHhhHHHHHHHhh
Q 043070          192 RRFALLLDDLREPIDLKTAGASIQNGS-KVKYAWNLFQLKV  231 (414)
Q Consensus       192 kr~LlVlDdv~~~~~~~~~~~p~~~gs-~ii~a~~Lf~~~a  231 (414)
                      .--.||+||+...-+|-.++   ..=| .|+.++..|.+..
T Consensus       598 ~lsiivvDdiErLiD~vpIG---PRfSN~vlQaL~VllK~~  635 (744)
T KOG0741|consen  598 PLSIIVVDDIERLLDYVPIG---PRFSNLVLQALLVLLKKQ  635 (744)
T ss_pred             cceEEEEcchhhhhcccccC---chhhHHHHHHHHHHhccC
Confidence            66889999999888888772   1222 2336665555544

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.13  E-value=0.027  Score=58.35  Aligned_cols=46  Identities=13%  Similarity=0.161  Sum_probs=39.8

Q ss_pred             CCCccchH-HHHHHHHHhhcCCce-EEEEEcCCCCcHHHHHHHHHHhh
Q 043070           97 MENTVDVS-RLNEVWRLVEDNSVR-IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.++||.+ .++.|.+++.++.+. .+.++|+.|+||||+|+.+++..
T Consensus        12 f~eivGq~~i~~~L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~lAk~l   59 (584)
T PRK14952         12 FAEVVGQEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARILARSL   59 (584)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            36789999 999999999876655 47899999999999999999876

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=95.13  E-value=0.061  Score=58.79  Aligned_cols=45  Identities=20%  Similarity=0.255  Sum_probs=36.8

Q ss_pred             CCccchH-HHHHHHHHhhc---------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVED---------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~---------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..++|.+ .++.+.+.+..         ....++.++|+.|+|||++|+.+....
T Consensus       565 ~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l  619 (852)
T TIGR03346       565 ERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFL  619 (852)
T ss_pred             cccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHh
Confidence            5678999 99999888843         124578899999999999999999865

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.

>TIGR00416 sms DNA repair protein RadA

Probab=95.12  E-value=0.055  Score=54.58  Aligned_cols=93  Identities=16%  Similarity=0.249  Sum_probs=51.2

Q ss_pred             HHHHHHHHhhc--CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH--HHHHHHH---HHHhcCCCCc---cC
Q 043070          105 RLNEVWRLVED--NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV--KRIQHVM---GYRLAMSNEV---WD  174 (414)
Q Consensus       105 ~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv--~~l~~~i---~~~l~~~~~~---~~  174 (414)
                      -+..+-+.|..  ..-.++.|.|.+|+|||||+.++.....  +. -..++|+  ++-..++   +..++...+.   ..
T Consensus        79 Gi~~LD~vLgGGi~~GsvilI~G~pGsGKTTL~lq~a~~~a--~~-g~kvlYvs~EEs~~qi~~ra~rlg~~~~~l~~~~  155 (454)
T TIGR00416        79 GFGELDRVLGGGIVPGSLILIGGDPGIGKSTLLLQVACQLA--KN-QMKVLYVSGEESLQQIKMRAIRLGLPEPNLYVLS  155 (454)
T ss_pred             CcHHHHHHhcCCccCCeEEEEEcCCCCCHHHHHHHHHHHHH--hc-CCcEEEEECcCCHHHHHHHHHHcCCChHHeEEcC
Confidence            33444444532  3457999999999999999999977662  11 1234565  2222222   2234332211   12


Q ss_pred             cCCHhHHHHHHHHHhCCCcEEEEEecCCC
Q 043070          175 DKTKQGRAIDSSRRLGQRRFALLLDDLRE  203 (414)
Q Consensus       175 ~~~~~~~~~~l~~~L~~kr~LlVlDdv~~  203 (414)
                      ..+.+.+...+.+   .+.-++|+|.+..
T Consensus       156 e~~~~~I~~~i~~---~~~~~vVIDSIq~  181 (454)
T TIGR00416       156 ETNWEQICANIEE---ENPQACVIDSIQT  181 (454)
T ss_pred             CCCHHHHHHHHHh---cCCcEEEEecchh
Confidence            2344444444332   3566899998754

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)).

>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]

Probab=95.11  E-value=0.023  Score=48.36  Aligned_cols=25  Identities=32%  Similarity=0.514  Sum_probs=21.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+++.|+|.+|+||||+.+.+-...
T Consensus         4 ~kvvvitGVpGvGKTTVl~~~~~~l   28 (189)
T COG2019           4 RKVVVITGVPGVGKTTVLKIALKEL   28 (189)
T ss_pred             ceEEEEEcCCCCChHHHHHHHHHHH
Confidence            5899999999999999998776654

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=95.09  E-value=0.023  Score=49.84  Aligned_cols=30  Identities=43%  Similarity=0.552  Sum_probs=25.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCc
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFG  150 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~  150 (414)
                      .++|.|+|+.|+|||||+..+....   ...|.
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~~~---~~~~~   31 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQEF---PDKFG   31 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHHHS---TTTEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhc---ccccc
Confidence            4789999999999999999999887   45553

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 ....

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=95.09  E-value=0.051  Score=52.83  Aligned_cols=92  Identities=15%  Similarity=0.272  Sum_probs=59.4

Q ss_pred             HHHHHHHHhhcC--CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH--HHHHH---HHHHHhcCCCCcc---C
Q 043070          105 RLNEVWRLVEDN--SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV--KRIQH---VMGYRLAMSNEVW---D  174 (414)
Q Consensus       105 ~~~~l~~~L~~~--~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv--~~l~~---~i~~~l~~~~~~~---~  174 (414)
                      ...++-..|...  .-.+|.|-|-+|+|||||..++..+..   ..- .+++|  ++-..   --++.|+.+.+..   .
T Consensus        78 g~~EldRVLGGG~V~Gs~iLIgGdPGIGKSTLLLQva~~lA---~~~-~vLYVsGEES~~QiklRA~RL~~~~~~l~l~a  153 (456)
T COG1066          78 GIEELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLA---KRG-KVLYVSGEESLQQIKLRADRLGLPTNNLYLLA  153 (456)
T ss_pred             ChHHHHhhhcCCcccccEEEEccCCCCCHHHHHHHHHHHHH---hcC-cEEEEeCCcCHHHHHHHHHHhCCCccceEEeh
Confidence            344444445431  346899999999999999999999883   222 67777  33333   3355666544321   3


Q ss_pred             cCCHhHHHHHHHHHhCCCcEEEEEecCCC
Q 043070          175 DKTKQGRAIDSSRRLGQRRFALLLDDLRE  203 (414)
Q Consensus       175 ~~~~~~~~~~l~~~L~~kr~LlVlDdv~~  203 (414)
                      ..+.+++.+.+.+   .+.-|+|+|-+..
T Consensus       154 Et~~e~I~~~l~~---~~p~lvVIDSIQT  179 (456)
T COG1066         154 ETNLEDIIAELEQ---EKPDLVVIDSIQT  179 (456)
T ss_pred             hcCHHHHHHHHHh---cCCCEEEEeccce
Confidence            4556665555554   6889999998854

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=95.09  E-value=0.03  Score=54.41  Aligned_cols=88  Identities=16%  Similarity=0.096  Sum_probs=54.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH----HHHHHHHHHHhcCCCCccCcCCHhHHHHHHHHHhCCC
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV----KRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRRLGQR  192 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv----~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L~~k  192 (414)
                      .-..|.|.|..|+||||+.+.+.+..   ......+++.    .+....-...+-... . ...+.....+.++..|...
T Consensus       121 ~~g~ili~G~tGSGKTT~l~al~~~i---~~~~~~~i~tiEdp~E~~~~~~~~~i~q~-e-vg~~~~~~~~~l~~~lr~~  195 (343)
T TIGR01420       121 PRGLILVTGPTGSGKSTTLASMIDYI---NKNAAGHIITIEDPIEYVHRNKRSLINQR-E-VGLDTLSFANALRAALRED  195 (343)
T ss_pred             cCcEEEEECCCCCCHHHHHHHHHHhh---CcCCCCEEEEEcCChhhhccCccceEEcc-c-cCCCCcCHHHHHHHhhccC
Confidence            34789999999999999999988766   3344444444    111100000000000 0 1112234566788889999


Q ss_pred             cEEEEEecCCCccchhh
Q 043070          193 RFALLLDDLREPIDLKT  209 (414)
Q Consensus       193 r~LlVlDdv~~~~~~~~  209 (414)
                      .=.|++|.+.+.+.+..
T Consensus       196 pd~i~vgEird~~~~~~  212 (343)
T TIGR01420       196 PDVILIGEMRDLETVEL  212 (343)
T ss_pred             CCEEEEeCCCCHHHHHH
Confidence            99999999988775543

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.

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

Probab=95.08  E-value=0.04  Score=47.41  Aligned_cols=30  Identities=27%  Similarity=0.449  Sum_probs=25.8

Q ss_pred             hhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          113 VEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       113 L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +..++..+|-+.|.+|+||||+|.+++...
T Consensus        18 ~~~~~~~viW~TGLSGsGKSTiA~ale~~L   47 (197)
T COG0529          18 LKGQKGAVIWFTGLSGSGKSTIANALEEKL   47 (197)
T ss_pred             HhCCCCeEEEeecCCCCCHHHHHHHHHHHH
Confidence            334566799999999999999999999887

>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]

Probab=95.06  E-value=0.05  Score=49.38  Aligned_cols=47  Identities=23%  Similarity=0.258  Sum_probs=38.2

Q ss_pred             ccchH-HHHHHHHHhh----c---------CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCC
Q 043070          100 TVDVS-RLNEVWRLVE----D---------NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNF  149 (414)
Q Consensus       100 ~vGr~-~~~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F  149 (414)
                      +-|.+ .++++.+.+.    .         +..+-|.++|++|.|||-||++|+|+.   ...|
T Consensus       157 iggld~qkqeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~t---~a~f  217 (408)
T KOG0727|consen  157 IGGLDVQKQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANHT---TAAF  217 (408)
T ss_pred             cccchhhHHHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhcc---chhe
Confidence            44788 8888888762    1         567889999999999999999999988   5666

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=95.06  E-value=0.018  Score=49.45  Aligned_cols=38  Identities=24%  Similarity=0.176  Sum_probs=24.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhHHHHHHHHHHHhc
Q 043070          121 ICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILVKRIQHVMGYRLA  167 (414)
Q Consensus       121 i~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv~~l~~~i~~~l~  167 (414)
                      |+|+|..|+|||||++.+...         +..||.+..+.++....
T Consensus         2 I~i~G~~stGKTTL~~~L~~~---------g~~~v~E~ar~~~~~~~   39 (163)
T PF13521_consen    2 IVITGGPSTGKTTLIEALAAR---------GYPVVPEYAREIIEEGG   39 (163)
T ss_dssp             EEEE--TTSHHHHHHHHHHHH---------T-EEE--TTHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHHHc---------CCeEEeecHHHHHHHhc
Confidence            799999999999999999865         12244455555665554

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=95.05  E-value=0.03  Score=53.96  Aligned_cols=48  Identities=15%  Similarity=0.081  Sum_probs=36.8

Q ss_pred             ccCCCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           95 QDMENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        95 ~~~~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+-+.++|.+ .++.+.-.+.+.+..-+.+.|.+|+||||+|+.+.+-.
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            3446789999 77777655543444568999999999999999997765

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.04  E-value=0.071  Score=56.59  Aligned_cols=25  Identities=28%  Similarity=0.364  Sum_probs=22.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+++++|+.|+||||.+.+++...
T Consensus       185 g~Vi~lVGpnGvGKTTTiaKLA~~~  209 (767)
T PRK14723        185 GGVLALVGPTGVGKTTTTAKLAARC  209 (767)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHhhH
Confidence            4699999999999999998887665

>PRK14532 adenylate kinase; Provisional

Probab=95.04  E-value=0.019  Score=50.54  Aligned_cols=22  Identities=27%  Similarity=0.253  Sum_probs=20.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhh
Q 043070          121 ICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       121 i~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      |.|.|++|+||||+|+.+....
T Consensus         3 i~~~G~pGsGKsT~a~~la~~~   24 (188)
T PRK14532          3 LILFGPPAAGKGTQAKRLVEER   24 (188)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            7889999999999999999877

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=95.02  E-value=0.04  Score=54.49  Aligned_cols=45  Identities=9%  Similarity=0.124  Sum_probs=37.9

Q ss_pred             CCccchH-HHHHHHHHhhcCC----------ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVEDNS----------VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~~~----------~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++++|-+ -++.|.+++..+.          ..-+.++|+.|+|||++|..+++..
T Consensus         5 ~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l   60 (394)
T PRK07940          5 DDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAAL   60 (394)
T ss_pred             hhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHh
Confidence            4688999 8999999996642          4568899999999999999998865

>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=95.01  E-value=0.023  Score=45.70  Aligned_cols=22  Identities=36%  Similarity=0.392  Sum_probs=20.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhh
Q 043070          121 ICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       121 i~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      |.|+|..|+|||||.+.+.+..
T Consensus         2 I~V~G~~g~GKTsLi~~l~~~~   23 (119)
T PF08477_consen    2 IVVLGDSGVGKTSLIRRLCGGE   23 (119)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEECcCCCCHHHHHHHHhcCC
Confidence            7899999999999999998876

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.

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=95.01  E-value=0.069  Score=54.72  Aligned_cols=74  Identities=15%  Similarity=0.108  Sum_probs=46.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhHHHHHHHHHHHhcCCCCccCcCCHhHHHHHHHHHhCCCcEE
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILVKRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRRLGQRRFA  195 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L~~kr~L  195 (414)
                      ...+.+.++|++|.|||.||+++++..   ...|-.+-.-     +++..       +-......+........+...+.
T Consensus       274 ~~~~giLl~GpPGtGKT~lAkava~~~---~~~fi~v~~~-----~l~sk-------~vGesek~ir~~F~~A~~~~p~i  338 (494)
T COG0464         274 RPPKGVLLYGPPGTGKTLLAKAVALES---RSRFISVKGS-----ELLSK-------WVGESEKNIRELFEKARKLAPSI  338 (494)
T ss_pred             CCCCeeEEECCCCCCHHHHHHHHHhhC---CCeEEEeeCH-----HHhcc-------ccchHHHHHHHHHHHHHcCCCcE
Confidence            345689999999999999999999976   4555221100     11111       12223334444445555678999


Q ss_pred             EEEecCCCc
Q 043070          196 LLLDDLREP  204 (414)
Q Consensus       196 lVlDdv~~~  204 (414)
                      |.+|.++..
T Consensus       339 iFiDEiDs~  347 (494)
T COG0464         339 IFIDEIDSL  347 (494)
T ss_pred             EEEEchhhh
Confidence            999998654

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=95.00  E-value=0.021  Score=48.77  Aligned_cols=23  Identities=35%  Similarity=0.482  Sum_probs=21.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      |++|+|+.|+|||||+..+....
T Consensus         1 vi~i~G~~gsGKTtl~~~l~~~l   23 (155)
T TIGR00176         1 VLQIVGPKNSGKTTLIERLVKAL   23 (155)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            58999999999999999999876

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.

>PRK14737 gmk guanylate kinase; Provisional

Probab=95.00  E-value=0.023  Score=50.16  Aligned_cols=26  Identities=23%  Similarity=0.368  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +.++|.|+|++|+|||||++.+....
T Consensus         3 ~~~~ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          3 SPKLFIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhcC
Confidence            45789999999999999999998765

>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=94.98  E-value=0.023  Score=45.08  Aligned_cols=22  Identities=32%  Similarity=0.315  Sum_probs=19.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHH
Q 043070          118 VRIICLHGVSRLGKTTLLYNLN  139 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~  139 (414)
                      -..++|+|..|+|||||+..+.
T Consensus        15 ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          15 KVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             CEEEEEEcCCCCCHHHHHHHhh
Confidence            3689999999999999999976

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

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=94.96  E-value=0.028  Score=54.45  Aligned_cols=47  Identities=17%  Similarity=0.092  Sum_probs=40.3

Q ss_pred             cCCCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           96 DMENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        96 ~~~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      |-+.+||-+ .+..|...+.++.+.-|.|.|..|+||||+|+.+++-.
T Consensus        15 pf~~ivGq~~~k~al~~~~~~p~~~~vli~G~~GtGKs~~ar~~~~~l   62 (350)
T CHL00081         15 PFTAIVGQEEMKLALILNVIDPKIGGVMIMGDRGTGKSTTIRALVDLL   62 (350)
T ss_pred             CHHHHhChHHHHHHHHHhccCCCCCeEEEEcCCCCCHHHHHHHHHHHH
Confidence            446789999 88888888877777778899999999999999998765

>cd02029 PRK_like Phosphoribulokinase-like (PRK-like) is a family of proteins similar to phosphoribulokinase (PRK), the enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes

Probab=94.96  E-value=0.05  Score=50.38  Aligned_cols=72  Identities=15%  Similarity=0.054  Sum_probs=41.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhhhc--------CCCCcchHhH-HHHHHHHHHHh----cCCCCccCcCCHhHHHHHHH
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKFNDT--------RHNFGLVILV-KRIQHVMGYRL----AMSNEVWDDKTKQGRAIDSS  186 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~~~v--------~~~F~~~~wv-~~l~~~i~~~l----~~~~~~~~~~~~~~~~~~l~  186 (414)
                      +|+|.|.+|+||||+|+.+.+.....        .+.|..  |- ...-+.+....    +...-.....+.+.+.+.++
T Consensus         1 IIgItG~SGSGKTTv~~~l~~~l~~~g~~v~vI~~D~yyr--~~r~~~~~~~~~a~~~~~nfdHf~PeAnd~dlL~~~l~   78 (277)
T cd02029           1 VIAVTGSSGAGTTTVKRAFEHIFAREGIHPAVVEGDSFHR--YERMEMKMAIAEALDAGRNFSHFGPEANLFDLLEELFR   78 (277)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHhcCCceEEEecccccc--CCchhHHHHHHHHhhcCCCCCCCCcccccHHHHHHHHH
Confidence            58999999999999999988766210        111111  11 12222222221    22221125667788888888


Q ss_pred             HHhCCCc
Q 043070          187 RRLGQRR  193 (414)
Q Consensus       187 ~~L~~kr  193 (414)
                      .+.+++.
T Consensus        79 ~L~~g~~   85 (277)
T cd02029          79 TYGETGR   85 (277)
T ss_pred             HHHcCCC
Confidence            8877653

PRK catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH produced by the primary reactions of photosynthesis.

>PRK14531 adenylate kinase; Provisional

Probab=94.96  E-value=0.024  Score=49.77  Aligned_cols=24  Identities=21%  Similarity=0.159  Sum_probs=21.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +.|.|+|++|+||||+++.+....
T Consensus         3 ~~i~i~G~pGsGKsT~~~~la~~~   26 (183)
T PRK14531          3 QRLLFLGPPGAGKGTQAARLCAAH   26 (183)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            358899999999999999999887

>PRK14526 adenylate kinase; Provisional

Probab=94.95  E-value=0.072  Score=47.96  Aligned_cols=22  Identities=23%  Similarity=0.332  Sum_probs=20.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhh
Q 043070          121 ICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       121 i~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      |.|+|++|+||||+|+.+....
T Consensus         3 i~l~G~pGsGKsT~a~~La~~~   24 (211)
T PRK14526          3 LVFLGPPGSGKGTIAKILSNEL   24 (211)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6799999999999999998766

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=94.94  E-value=0.035  Score=57.35  Aligned_cols=71  Identities=24%  Similarity=0.179  Sum_probs=43.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhHHHHHHHHHHHhcCCCCccCcCCHhHHHHHHHH----HhCCCc
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILVKRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSR----RLGQRR  193 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~----~L~~kr  193 (414)
                      ..-|.|.|..|+|||+||+.+++...  +++.-.+..|             +.........+..+..|.+    .+.-.+
T Consensus       431 ~~~Ill~G~~GsGKT~L~kal~~~~~--k~~~~hv~~v-------------~Cs~l~~~~~e~iQk~l~~vfse~~~~~P  495 (952)
T KOG0735|consen  431 HGNILLNGPKGSGKTNLVKALFDYYS--KDLIAHVEIV-------------SCSTLDGSSLEKIQKFLNNVFSEALWYAP  495 (952)
T ss_pred             cccEEEeCCCCCCHhHHHHHHHHHhc--cccceEEEEE-------------echhccchhHHHHHHHHHHHHHHHHhhCC
Confidence            35688999999999999999999883  3322111111             0001122233444444433    455689


Q ss_pred             EEEEEecCCC
Q 043070          194 FALLLDDLRE  203 (414)
Q Consensus       194 ~LlVlDdv~~  203 (414)
                      -+|||||++.
T Consensus       496 SiIvLDdld~  505 (952)
T KOG0735|consen  496 SIIVLDDLDC  505 (952)
T ss_pred             cEEEEcchhh
Confidence            9999999974

>PRK05973 replicative DNA helicase; Provisional

Probab=94.93  E-value=0.068  Score=48.90  Aligned_cols=26  Identities=23%  Similarity=0.158  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.++.|.|.+|+|||++|.++....
T Consensus        63 ~Gsl~LIaG~PG~GKT~lalqfa~~~   88 (237)
T PRK05973         63 PGDLVLLGARPGHGKTLLGLELAVEA   88 (237)
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHH
Confidence            44689999999999999999987665

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=94.92  E-value=0.022  Score=51.54  Aligned_cols=26  Identities=27%  Similarity=0.132  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|..|+|||||++.+.--.
T Consensus        32 ~Ge~lgivGeSGsGKSTL~r~l~Gl~   57 (252)
T COG1124          32 RGETLGIVGESGSGKSTLARLLAGLE   57 (252)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhccc
Confidence            44689999999999999999997654

>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=94.91  E-value=0.042  Score=47.01  Aligned_cols=35  Identities=26%  Similarity=0.380  Sum_probs=29.6

Q ss_pred             HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          105 RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       105 ~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+++|.+.|.+   +++.++|..|+|||||...+....
T Consensus        25 g~~~l~~~l~~---k~~vl~G~SGvGKSSLiN~L~~~~   59 (161)
T PF03193_consen   25 GIEELKELLKG---KTSVLLGQSGVGKSSLINALLPEA   59 (161)
T ss_dssp             THHHHHHHHTT---SEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CHHHHHHHhcC---CEEEEECCCCCCHHHHHHHHHhhc
Confidence            56777777754   799999999999999999998765

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.

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=94.90  E-value=0.09  Score=50.34  Aligned_cols=26  Identities=23%  Similarity=0.198  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.++-|+|.+|+|||||+.+++...
T Consensus        94 ~g~i~ei~G~~g~GKT~l~~~~~~~~  119 (310)
T TIGR02236        94 TQAITEVFGEFGSGKTQICHQLAVNV  119 (310)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            45789999999999999999997665

This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.

>PF13245 AAA_19: Part of AAA domain

Probab=94.89  E-value=0.041  Score=40.78  Aligned_cols=26  Identities=23%  Similarity=0.271  Sum_probs=18.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +.+++.|.|.+|.|||+++.......
T Consensus         9 ~~~~~vv~g~pGtGKT~~~~~~i~~l   34 (76)
T PF13245_consen    9 GSPLFVVQGPPGTGKTTTLAARIAEL   34 (76)
T ss_pred             hCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            34678889999999995554444333

>TIGR00041 DTMP_kinase thymidylate kinase

Probab=94.88  E-value=0.027  Score=49.85  Aligned_cols=24  Identities=33%  Similarity=0.418  Sum_probs=22.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..|+|.|..|+||||+|+.+++..
T Consensus         4 ~~IvieG~~GsGKsT~~~~L~~~l   27 (195)
T TIGR00041         4 MFIVIEGIDGAGKTTQANLLKKLL   27 (195)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            579999999999999999999887

Function: phosphorylation of DTMP to form DTDP in both de novo and salvage pathways of DTTP synthesis. Catalytic activity: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate.

>PRK05922 type III secretion system ATPase; Validated

Probab=94.87  E-value=0.038  Score=54.96  Aligned_cols=27  Identities=22%  Similarity=0.212  Sum_probs=23.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-..++|+|..|+|||||.+.+.+..
T Consensus       155 ~~GqrigI~G~nG~GKSTLL~~Ia~~~  181 (434)
T PRK05922        155 GKGQRIGVFSEPGSGKSSLLSTIAKGS  181 (434)
T ss_pred             cCCcEEEEECCCCCChHHHHHHHhccC
Confidence            344679999999999999999998765

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=94.87  E-value=0.055  Score=57.61  Aligned_cols=83  Identities=13%  Similarity=0.140  Sum_probs=55.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH---HHHHHHHHHHhcCCCCcc---CcCCHhHHHHHHHHHhC
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV---KRIQHVMGYRLAMSNEVW---DDKTKQGRAIDSSRRLG  190 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv---~~l~~~i~~~l~~~~~~~---~~~~~~~~~~~l~~~L~  190 (414)
                      .-+++-|.|.+|+||||||..++...   ...=..++|+   ..+-...+++++......   ...+.++....+...++
T Consensus        59 ~GsiteI~G~~GsGKTtLal~~~~~a---~~~G~~v~yId~E~t~~~~~A~~lGvDl~~llv~~~~~~E~~l~~i~~lv~  135 (790)
T PRK09519         59 RGRVIEIYGPESSGKTTVALHAVANA---QAAGGVAAFIDAEHALDPDYAKKLGVDTDSLLVSQPDTGEQALEIADMLIR  135 (790)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH---HHcCCcEEEECCccchhHHHHHHcCCChhHeEEecCCCHHHHHHHHHHHhh
Confidence            45788999999999999998866554   1222445777   333345777777654311   33455666666766664


Q ss_pred             -CCcEEEEEecCC
Q 043070          191 -QRRFALLLDDLR  202 (414)
Q Consensus       191 -~kr~LlVlDdv~  202 (414)
                       ++--|||+|.+-
T Consensus       136 ~~~~~LVVIDSI~  148 (790)
T PRK09519        136 SGALDIVVIDSVA  148 (790)
T ss_pred             cCCCeEEEEcchh
Confidence             467789999975

>TIGR03498 FliI_clade3 flagellar protein export ATPase FliI

Probab=94.85  E-value=0.031  Score=55.47  Aligned_cols=26  Identities=27%  Similarity=0.284  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-..++|+|..|+|||||++.+....
T Consensus       139 ~Gq~i~I~G~sG~GKTtLl~~I~~~~  164 (418)
T TIGR03498       139 RGQRLGIFAGSGVGKSTLLSMLARNT  164 (418)
T ss_pred             CCcEEEEECCCCCChHHHHHHHhCCC
Confidence            44689999999999999999888765

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=94.85  E-value=0.028  Score=46.84  Aligned_cols=42  Identities=24%  Similarity=0.280  Sum_probs=31.6

Q ss_pred             cchH-HHHHHHHHhhc--CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          101 VDVS-RLNEVWRLVED--NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       101 vGr~-~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ||.- .++++.+.+..  ....-|.|+|..|+||+++|+.+++..
T Consensus         1 vG~S~~~~~l~~~l~~~a~~~~pvli~GE~GtGK~~~A~~lh~~~   45 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLERLAKSSSPVLITGEPGTGKSLLARALHRYS   45 (138)
T ss_dssp             --SCHHHHHHHHHHHHHHCSSS-EEEECCTTSSHHHHHHCCHHTT
T ss_pred             CCCCHHHHHHHHHHHHHhCCCCcEEEEcCCCCCHHHHHHHHHhhc
Confidence            4666 67777777743  445677999999999999999999877

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=94.85  E-value=0.026  Score=50.69  Aligned_cols=23  Identities=35%  Similarity=0.452  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .|+|+|-||+||||+|..+....
T Consensus         2 kIaI~GKGG~GKTtiaalll~~l   24 (255)
T COG3640           2 KIAITGKGGVGKTTIAALLLKRL   24 (255)
T ss_pred             eEEEecCCCccHHHHHHHHHHHH
Confidence            68999999999999999965555

>PHA02244 ATPase-like protein

Probab=94.84  E-value=0.071  Score=51.75  Aligned_cols=34  Identities=18%  Similarity=0.328  Sum_probs=25.2

Q ss_pred             HHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          107 NEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       107 ~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+..++..+  .-|.|+|.+|+|||+||+.+++..
T Consensus       110 ~ri~r~l~~~--~PVLL~GppGtGKTtLA~aLA~~l  143 (383)
T PHA02244        110 ADIAKIVNAN--IPVFLKGGAGSGKNHIAEQIAEAL  143 (383)
T ss_pred             HHHHHHHhcC--CCEEEECCCCCCHHHHHHHHHHHh
Confidence            3444444332  346789999999999999999876

>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=94.83  E-value=0.26  Score=45.19  Aligned_cols=45  Identities=13%  Similarity=0.194  Sum_probs=35.2

Q ss_pred             CCccchH-HH---HHHHHHhhc------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RL---NEVWRLVED------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~---~~l~~~L~~------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +++||.+ .+   .-|++.|.+      -.++-|..+|++|.|||-+|+++++..
T Consensus       121 ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~  175 (368)
T COG1223         121 DDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEA  175 (368)
T ss_pred             hhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhccc
Confidence            5678888 33   335566654      246889999999999999999999988

>CHL00095 clpC Clp protease ATP binding subunit

Probab=94.81  E-value=0.058  Score=58.75  Aligned_cols=46  Identities=17%  Similarity=0.258  Sum_probs=36.3

Q ss_pred             CCCccchH-HHHHHHHHhhc-------C--CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           97 MENTVDVS-RLNEVWRLVED-------N--SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~-------~--~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...++|-+ .++.+.+.+..       .  ....+.++|+.|+|||+||+.+++..
T Consensus       508 ~~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l  563 (821)
T CHL00095        508 HKRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYF  563 (821)
T ss_pred             cCcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHh
Confidence            36678999 88998888732       1  23456789999999999999998865

>PRK15453 phosphoribulokinase; Provisional

Probab=94.81  E-value=0.028  Score=52.41  Aligned_cols=27  Identities=33%  Similarity=0.406  Sum_probs=23.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+..+|+|.|.+|+||||+|+.+.+..
T Consensus         3 ~k~piI~ItG~SGsGKTTva~~l~~if   29 (290)
T PRK15453          3 AKHPIIAVTGSSGAGTTTVKRAFEKIF   29 (290)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            456799999999999999999998755

>PTZ00494 tuzin-like protein; Provisional

Probab=94.81  E-value=0.2  Score=49.52  Aligned_cols=97  Identities=13%  Similarity=0.028  Sum_probs=65.2

Q ss_pred             cCCCccchH-HHHHHHHHhhc---CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH-----HHHHHHHHHHh
Q 043070           96 DMENTVDVS-RLNEVWRLVED---NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV-----KRIQHVMGYRL  166 (414)
Q Consensus        96 ~~~~~vGr~-~~~~l~~~L~~---~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv-----~~l~~~i~~~l  166 (414)
                      ....+|.|+ +-.-+.+.|..   ..++++.+.|.-|.||++|.+...... .+     ..++|     ++-++.|.+.|
T Consensus       369 ~~~~~V~R~~eE~~vRqvL~qld~aHPRIvV~TG~~GcGKSslcRsAvrkE-~~-----paV~VDVRg~EDtLrsVVKAL  442 (664)
T PTZ00494        369 AEAFEVRREDEEALVRSVLTQMAPSHPRIVALAGGSGGGRCVPCRRAVRVE-GV-----ALVHVDVGGTEDTLRSVVRAL  442 (664)
T ss_pred             ccccccchhhHHHHHHHHHhhccCCCCcEEEEecCCCCCchHHHHHHHHHc-CC-----CeEEEEecCCcchHHHHHHHh
Confidence            346789998 76666666633   678999999999999999999988776 22     22344     78899999999


Q ss_pred             cCCCCccCcCCH---hHHHHHHHHHhCCCcEEEEE
Q 043070          167 AMSNEVWDDKTK---QGRAIDSSRRLGQRRFALLL  198 (414)
Q Consensus       167 ~~~~~~~~~~~~---~~~~~~l~~~L~~kr~LlVl  198 (414)
                      +.+.-+.-..-+   .+.....+....++.-+|||
T Consensus       443 gV~nve~CGDlLdFI~ea~~~A~~~~~g~~P~lVl  477 (664)
T PTZ00494        443 GVSNVEVCGDLLGFVEEAMRGATVKASDGVPFLVM  477 (664)
T ss_pred             CCCChhhhccHHHHHHHHHHHHHHhcCCCCCEEEE
Confidence            987643111112   22233333345566666666

>PRK09280 F0F1 ATP synthase subunit beta; Validated

Probab=94.81  E-value=0.081  Score=52.99  Aligned_cols=92  Identities=14%  Similarity=0.157  Sum_probs=52.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH---------HHHHHHHHHHhcCCCCc----cCcCC-Hh---
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV---------KRIQHVMGYRLAMSNEV----WDDKT-KQ---  179 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv---------~~l~~~i~~~l~~~~~~----~~~~~-~~---  179 (414)
                      .-..++|.|..|+|||||+.++.....  .++=+.++++         .++.+.++..-......    ..+.+ ..   
T Consensus       143 kGQR~gIfa~~GvGKt~Ll~~i~~~~~--~~~~~v~V~~liGER~rEv~efi~~~~~~~~l~rsvvV~atsd~p~~~r~~  220 (463)
T PRK09280        143 KGGKIGLFGGAGVGKTVLIQELINNIA--KEHGGYSVFAGVGERTREGNDLYHEMKESGVLDKTALVFGQMNEPPGARLR  220 (463)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHHHH--hcCCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHH
Confidence            346899999999999999999887772  2221233334         44455544432111100    01111 11   


Q ss_pred             --HHHHHHHHHh---CCCcEEEEEecCCCcc-chhhh
Q 043070          180 --GRAIDSSRRL---GQRRFALLLDDLREPI-DLKTA  210 (414)
Q Consensus       180 --~~~~~l~~~L---~~kr~LlVlDdv~~~~-~~~~~  210 (414)
                        ...-.+.+++   +++++||++||+-.-. ...++
T Consensus       221 a~~~a~tiAEyfrd~~G~~VLll~DslTR~A~A~REi  257 (463)
T PRK09280        221 VALTGLTMAEYFRDVEGQDVLLFIDNIFRFTQAGSEV  257 (463)
T ss_pred             HHHHHHHHHHHHHHhcCCceEEEecchHHHHHHHHHH
Confidence              2233356666   6799999999986542 34444

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=94.80  E-value=0.046  Score=53.88  Aligned_cols=45  Identities=18%  Similarity=0.170  Sum_probs=35.0

Q ss_pred             CCccchH-HHHHHHHHhhc--------------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVED--------------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~--------------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+||.+ .+..+.-.+..              -..+-|.++|++|+|||++|+.+....
T Consensus        12 ~~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l   71 (441)
T TIGR00390        12 KYIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLA   71 (441)
T ss_pred             hhccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            5578888 77777655532              123678999999999999999999887

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.

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=94.80  E-value=0.047  Score=51.57  Aligned_cols=23  Identities=22%  Similarity=0.352  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -+.++|.+|+|||++|+.+++..
T Consensus        60 ~vll~G~pGTGKT~lA~~ia~~l   82 (284)
T TIGR02880        60 HMSFTGNPGTGKTTVALRMAQIL   82 (284)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHH
Confidence            58899999999999998887765

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.

>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed

Probab=94.80  E-value=0.05  Score=52.10  Aligned_cols=27  Identities=33%  Similarity=0.365  Sum_probs=24.2

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .....|.++|+.|+||||+++.++...
T Consensus       131 ~~~~~I~l~G~~GsGKStvg~~La~~L  157 (309)
T PRK08154        131 ARRRRIALIGLRGAGKSTLGRMLAARL  157 (309)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHHHc
Confidence            456789999999999999999999876

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=94.79  E-value=0.046  Score=55.18  Aligned_cols=46  Identities=17%  Similarity=0.187  Sum_probs=39.7

Q ss_pred             CCCccchH-HHHHHHHHhhcCCc-eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           97 MENTVDVS-RLNEVWRLVEDNSV-RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.+++|.+ .++.+.+++..+.+ ..+.++|..|+||||+|+.+++..
T Consensus        16 ~~diiGq~~~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l   63 (451)
T PRK06305         16 FSEILGQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARIFAKAL   63 (451)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCCCceEEEEEcCCCCCHHHHHHHHHHHh
Confidence            36789999 99999999977655 567899999999999999998876

>PRK01184 hypothetical protein; Provisional

Probab=94.77  E-value=0.026  Score=49.49  Aligned_cols=23  Identities=22%  Similarity=0.413  Sum_probs=18.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+|+|+|++|+||||+|+ ++...
T Consensus         2 ~~i~l~G~~GsGKsT~a~-~~~~~   24 (184)
T PRK01184          2 KIIGVVGMPGSGKGEFSK-IAREM   24 (184)
T ss_pred             cEEEEECCCCCCHHHHHH-HHHHc
Confidence            489999999999999987 44443

>PRK06620 hypothetical protein; Validated

Probab=94.77  E-value=0.024  Score=51.16  Aligned_cols=24  Identities=25%  Similarity=0.137  Sum_probs=21.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +.+.|+|++|+|||+|++.+.+..
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~   68 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLS   68 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhcc
Confidence            668999999999999999988766

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=94.77  E-value=0.095  Score=50.12  Aligned_cols=51  Identities=16%  Similarity=0.167  Sum_probs=34.6

Q ss_pred             CCcccccCCCccchHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           90 PVVEVQDMENTVDVSRLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        90 ~~~~~~~~~~~vGr~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +.++..++...+.-+....++.+|...  +-|.|.|.+|+||||+|+.++...
T Consensus        38 ~~~p~~d~~y~f~~~~~~~vl~~l~~~--~~ilL~G~pGtGKTtla~~lA~~l   88 (327)
T TIGR01650        38 EHVPDIDPAYLFDKATTKAICAGFAYD--RRVMVQGYHGTGKSTHIEQIAARL   88 (327)
T ss_pred             CCCCCCCCCccCCHHHHHHHHHHHhcC--CcEEEEeCCCChHHHHHHHHHHHH
Confidence            333333333444444445566666433  469999999999999999999876

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.

>PRK14738 gmk guanylate kinase; Provisional

Probab=94.77  E-value=0.029  Score=50.36  Aligned_cols=26  Identities=19%  Similarity=0.429  Sum_probs=22.5

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      ...+.|.|+|++|+|||||++.+...
T Consensus        11 ~~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738         11 AKPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             CCCeEEEEECcCCCCHHHHHHHHHhc
Confidence            35678999999999999999999754

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=94.77  E-value=0.063  Score=47.33  Aligned_cols=24  Identities=29%  Similarity=0.396  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++.|+|.+|+||||++..+....
T Consensus        33 ~l~~i~g~~g~GKT~~~~~l~~~~   56 (193)
T PF13481_consen   33 ELTLIAGPPGSGKTTLALQLAAAL   56 (193)
T ss_dssp             SEEEEEECSTSSHHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHH
Confidence            589999999999999999998877

>TIGR01287 nifH nitrogenase iron protein

Probab=94.77  E-value=0.024  Score=53.29  Aligned_cols=24  Identities=29%  Similarity=0.445  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +.|+|+|-||+||||+|..++...
T Consensus         1 ~~ia~~gKGGVGKTT~a~nLA~~L   24 (275)
T TIGR01287         1 RQIAIYGKGGIGKSTTTQNIAAAL   24 (275)
T ss_pred             CeeEEeCCCcCcHHHHHHHHHHHH
Confidence            468999999999999998888766

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.

>PRK08927 fliI flagellum-specific ATP synthase; Validated

Probab=94.77  E-value=0.036  Score=55.14  Aligned_cols=27  Identities=22%  Similarity=0.215  Sum_probs=23.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-..++|+|..|+|||||++.+++..
T Consensus       156 ~~Gqri~I~G~sG~GKTtLL~~I~~~~  182 (442)
T PRK08927        156 CRGQRMGIFAGSGVGKSVLLSMLARNA  182 (442)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            345789999999999999999999766

>PRK09825 idnK D-gluconate kinase; Provisional

Probab=94.76  E-value=0.028  Score=49.05  Aligned_cols=24  Identities=29%  Similarity=0.319  Sum_probs=22.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++.|+|..|+|||||++.++...
T Consensus         4 e~i~l~G~sGsGKSTl~~~la~~l   27 (176)
T PRK09825          4 ESYILMGVSGSGKSLIGSKIAALF   27 (176)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhc
Confidence            578999999999999999999877

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=94.73  E-value=0.029  Score=42.85  Aligned_cols=23  Identities=39%  Similarity=0.563  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++.+.|.+|+||||++..+....
T Consensus         1 ~~~~~g~~G~Gktt~~~~l~~~l   23 (99)
T cd01983           1 VIVVTGKGGVGKTTLAANLAAAL   23 (99)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            47889999999999999999887

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.

>PLN02165 adenylate isopentenyltransferase

Probab=94.73  E-value=0.024  Score=54.23  Aligned_cols=29  Identities=21%  Similarity=0.488  Sum_probs=25.4

Q ss_pred             hcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          114 EDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       114 ~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+..-.+|+|+|+.|+||||||..++...
T Consensus        39 ~~~~g~iivIiGPTGSGKStLA~~LA~~l   67 (334)
T PLN02165         39 QNCKDKVVVIMGATGSGKSRLSVDLATRF   67 (334)
T ss_pred             cCCCCCEEEEECCCCCcHHHHHHHHHHHc
Confidence            44556799999999999999999999886

>PRK05439 pantothenate kinase; Provisional

Probab=94.73  E-value=0.031  Score=53.24  Aligned_cols=27  Identities=26%  Similarity=0.240  Sum_probs=23.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...-+|+|.|.+|+||||+|+.+....
T Consensus        84 ~~~~iIgIaG~~gsGKSTla~~L~~~l  110 (311)
T PRK05439         84 KVPFIIGIAGSVAVGKSTTARLLQALL  110 (311)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            456799999999999999999988765

>PRK06761 hypothetical protein; Provisional

Probab=94.73  E-value=0.027  Score=52.79  Aligned_cols=24  Identities=29%  Similarity=0.509  Sum_probs=22.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++|.|.|++|+||||+++.+++..
T Consensus         4 ~lIvI~G~~GsGKTTla~~L~~~L   27 (282)
T PRK06761          4 KLIIIEGLPGFGKSTTAKMLNDIL   27 (282)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhc
Confidence            589999999999999999999887

>PRK08149 ATP synthase SpaL; Validated

Probab=94.70  E-value=0.046  Score=54.29  Aligned_cols=26  Identities=19%  Similarity=0.173  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-..++|+|..|+|||||...+++..
T Consensus       150 ~Gq~i~I~G~sG~GKTTLl~~i~~~~  175 (428)
T PRK08149        150 VGQRMGIFASAGCGKTSLMNMLIEHS  175 (428)
T ss_pred             cCCEEEEECCCCCChhHHHHHHhcCC
Confidence            44689999999999999999998765

>TIGR03305 alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit beta

Probab=94.68  E-value=0.038  Score=55.11  Aligned_cols=92  Identities=18%  Similarity=0.194  Sum_probs=53.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH---------HHHHHHHHHHhcCCCCc----cCcCC-H----
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV---------KRIQHVMGYRLAMSNEV----WDDKT-K----  178 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv---------~~l~~~i~~~l~~~~~~----~~~~~-~----  178 (414)
                      .-..++|.|.+|+|||+|+.++.+...  +.+-+.++++         .++.+++...-......    ..+.+ .    
T Consensus       137 kGQr~~Ifg~~G~GKt~l~~~~~~~~~--~~~~~v~V~~~iGeR~rEv~e~~~~~~~~~~l~rtvvv~~ts~~~~~~r~~  214 (449)
T TIGR03305       137 RGGKAGLFGGAGVGKTVLLTEMIHNMV--GQHQGVSIFCGIGERCREGEELYREMKEAGVLDNTVMVFGQMNEPPGARFR  214 (449)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHHHH--hcCCCEEEEEEeccCcHHHHHHHHHHhhccccceEEEEEeCCCCCHHHHHH
Confidence            346799999999999999999988762  2333566666         44444444321111000    01111 1    


Q ss_pred             -hHHHHHHHHHhC---CCcEEEEEecCCCcc-chhhh
Q 043070          179 -QGRAIDSSRRLG---QRRFALLLDDLREPI-DLKTA  210 (414)
Q Consensus       179 -~~~~~~l~~~L~---~kr~LlVlDdv~~~~-~~~~~  210 (414)
                       -...-.+.++++   ++++||++||+-... ...++
T Consensus       215 ~~~~a~tiAEyfrd~~G~~VLl~~DslTR~A~A~REi  251 (449)
T TIGR03305       215 VGHTALTMAEYFRDDEKQDVLLLIDNIFRFIQAGSEV  251 (449)
T ss_pred             HHHHHHHHHHHHHHhcCCceEEEecChHHHHHHHHHH
Confidence             122334556654   689999999986543 44444

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.

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=94.68  E-value=0.092  Score=47.99  Aligned_cols=26  Identities=27%  Similarity=0.350  Sum_probs=21.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.++.|.|.+|+||||||.++....
T Consensus        23 ~g~~~~i~G~~G~GKTtl~~~~~~~~   48 (230)
T PRK08533         23 AGSLILIEGDESTGKSILSQRLAYGF   48 (230)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            34699999999999999986665544

>PRK13230 nitrogenase reductase-like protein; Reviewed

Probab=94.68  E-value=0.027  Score=53.06  Aligned_cols=24  Identities=29%  Similarity=0.602  Sum_probs=21.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++|+|+|-||+||||+|..++...
T Consensus         2 ~~i~~~gKGGVGKTT~a~nLA~~L   25 (279)
T PRK13230          2 RKFCFYGKGGIGKSTTVCNIAAAL   25 (279)
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHH
Confidence            579999999999999998887766

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=94.67  E-value=0.029  Score=53.39  Aligned_cols=24  Identities=33%  Similarity=0.357  Sum_probs=21.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+|.++|.+|+||||+|+.+.+..
T Consensus         3 ~liil~G~pGSGKSTla~~L~~~~   26 (300)
T PHA02530          3 KIILTVGVPGSGKSTWAREFAAKN   26 (300)
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHHC
Confidence            578899999999999999998876

>COG1763 MobB Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]

Probab=94.66  E-value=0.034  Score=47.57  Aligned_cols=25  Identities=36%  Similarity=0.575  Sum_probs=23.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++++|+|..|+|||||...+....
T Consensus         2 ~~Il~ivG~k~SGKTTLie~lv~~L   26 (161)
T COG1763           2 MKILGIVGYKNSGKTTLIEKLVRKL   26 (161)
T ss_pred             CcEEEEEecCCCChhhHHHHHHHHH
Confidence            4799999999999999999998877

>PRK02496 adk adenylate kinase; Provisional

Probab=94.66  E-value=0.033  Score=48.88  Aligned_cols=24  Identities=21%  Similarity=0.207  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+.|+|++|+||||+|+.+...+
T Consensus         2 ~~i~i~G~pGsGKst~a~~la~~~   25 (184)
T PRK02496          2 TRLIFLGPPGAGKGTQAVVLAEHL   25 (184)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            358899999999999999998876

>cd01135 V_A-ATPase_B V/A-type ATP synthase (non-catalytic) subunit B

Probab=94.65  E-value=0.072  Score=49.63  Aligned_cols=88  Identities=13%  Similarity=0.103  Sum_probs=49.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhc-CCCCcchHhH---------HHHHHHHHHHhcCCCCcc----CcCC-H---
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDT-RHNFGLVILV---------KRIQHVMGYRLAMSNEVW----DDKT-K---  178 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v-~~~F~~~~wv---------~~l~~~i~~~l~~~~~~~----~~~~-~---  178 (414)
                      .-..++|.|-.|+|||+|+..+.++.... +.+-+.++++         .++.+++...-.......    .+.+ .   
T Consensus        68 ~GQR~gIfgg~GvGKt~L~~~i~~~~~~~~~~~~~v~V~~~IGeR~rev~e~~~~~~~~~~l~~tv~v~~t~~~~~~~r~  147 (276)
T cd01135          68 RGQKIPIFSGSGLPHNELAAQIARQAGVVGEEENFAVVFAAMGITMEDARFFKDDFEETGALERVVLFLNLANDPTIERI  147 (276)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHhhhccccCCCCEEEEEEeccccHHHHHHHHHhhhcCCcceEEEEEecCCCCHHHHH
Confidence            34578999999999999999998876100 1223555555         444444443311111000    0111 1   


Q ss_pred             --hHHHHHHHHHh--C-CCcEEEEEecCCCc
Q 043070          179 --QGRAIDSSRRL--G-QRRFALLLDDLREP  204 (414)
Q Consensus       179 --~~~~~~l~~~L--~-~kr~LlVlDdv~~~  204 (414)
                        -...-.+.+++  + ++++|+++||+-..
T Consensus       148 ~a~~~a~aiAEyfrd~~g~~VLl~~D~ltr~  178 (276)
T cd01135         148 ITPRMALTTAEYLAYEKGKHVLVILTDMTNY  178 (276)
T ss_pred             HHHHHHHHHHHHHHhccCCeEEEEEcChhHH
Confidence              11122345555  2 68999999998554

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.

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=94.64  E-value=0.035  Score=51.69  Aligned_cols=37  Identities=16%  Similarity=0.126  Sum_probs=32.2

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV  155 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv  155 (414)
                      +.-+++.|+|.+|+|||++|.++....   ......++||
T Consensus        21 p~g~~~lI~G~pGsGKT~f~~qfl~~~---~~~ge~vlyv   57 (260)
T COG0467          21 PRGSVVLITGPPGTGKTIFALQFLYEG---AREGEPVLYV   57 (260)
T ss_pred             cCCcEEEEEcCCCCcHHHHHHHHHHHH---HhcCCcEEEE
Confidence            456899999999999999999998888   4558888898

>PRK00698 tmk thymidylate kinase; Validated

Probab=94.62  E-value=0.034  Score=49.54  Aligned_cols=24  Identities=25%  Similarity=0.407  Sum_probs=22.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++|+|.|+.|+||||+++.+.+..
T Consensus         4 ~~I~ieG~~gsGKsT~~~~L~~~l   27 (205)
T PRK00698          4 MFITIEGIDGAGKSTQIELLKELL   27 (205)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            689999999999999999999876

>PRK06002 fliI flagellum-specific ATP synthase; Validated

Probab=94.62  E-value=0.058  Score=53.79  Aligned_cols=26  Identities=31%  Similarity=0.267  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-..++|+|..|+|||||++.+....
T Consensus       164 ~Gqri~I~G~SGsGKTTLL~~Ia~l~  189 (450)
T PRK06002        164 AGQRIGIFAGSGVGKSTLLAMLARAD  189 (450)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999887654

>PRK13236 nitrogenase reductase; Reviewed

Probab=94.58  E-value=0.032  Score=53.12  Aligned_cols=28  Identities=29%  Similarity=0.392  Sum_probs=24.1

Q ss_pred             cCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          115 DNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       115 ~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +++.++|++.|-||+||||+|..++.-.
T Consensus         3 ~~~~~~~~~~GKGGVGKTt~a~NLA~~L   30 (296)
T PRK13236          3 DENIRQIAFYGKGGIGKSTTSQNTLAAM   30 (296)
T ss_pred             CcCceEEEEECCCcCCHHHHHHHHHHHH
Confidence            4677999999999999999888877665

>cd02117 NifH_like This family contains the NifH (iron protein) of nitrogenase, L subunit (BchL/ChlL) of the protochlorophyllide reductase and the BchX subunit of the Chlorophyllide reductase

Probab=94.57  E-value=0.031  Score=50.37  Aligned_cols=24  Identities=33%  Similarity=0.468  Sum_probs=21.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++|+|.|-||+||||++..++.-.
T Consensus         1 ~~iav~gKGGvGKTt~~~nLA~~l   24 (212)
T cd02117           1 RQIAIYGKGGIGKSTTSQNLSAAL   24 (212)
T ss_pred             CEEEEECCCcCcHHHHHHHHHHHH
Confidence            478999999999999998888776

Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.

>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional

Probab=94.57  E-value=0.034  Score=52.16  Aligned_cols=24  Identities=29%  Similarity=0.534  Sum_probs=22.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++|+|+|.+|+|||||+..+....
T Consensus         2 ~~i~i~G~~gSGKTTLi~~Li~~L   25 (274)
T PRK14493          2 KVLSIVGYKATGKTTLVERLVDRL   25 (274)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHH
Confidence            589999999999999999999887

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

Probab=94.56  E-value=0.1  Score=51.84  Aligned_cols=85  Identities=20%  Similarity=0.231  Sum_probs=49.2

Q ss_pred             HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhHHHHHHHHHHHhcCCCCccCcCCHhHHHHH
Q 043070          105 RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILVKRIQHVMGYRLAMSNEVWDDKTKQGRAID  184 (414)
Q Consensus       105 ~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv~~l~~~i~~~l~~~~~~~~~~~~~~~~~~  184 (414)
                      -..++.+.+..... ++.|.|+-++|||||++.+....   .+.   .+++           ...+   ...+...+.+.
T Consensus        25 ~~~~l~~~~~~~~~-i~~i~GpR~~GKTtll~~l~~~~---~~~---~iy~-----------~~~d---~~~~~~~l~d~   83 (398)
T COG1373          25 LLPRLIKKLDLRPF-IILILGPRQVGKTTLLKLLIKGL---LEE---IIYI-----------NFDD---LRLDRIELLDL   83 (398)
T ss_pred             hhHHHHhhcccCCc-EEEEECCccccHHHHHHHHHhhC---Ccc---eEEE-----------Eecc---hhcchhhHHHH
Confidence            44455555544333 99999999999999997776665   121   0000           0000   01111122222


Q ss_pred             HHHHh---CCCcEEEEEecCCCccchhhh
Q 043070          185 SSRRL---GQRRFALLLDDLREPIDLKTA  210 (414)
Q Consensus       185 l~~~L---~~kr~LlVlDdv~~~~~~~~~  210 (414)
                      ++.+.   ..++.+|+||.|.....|...
T Consensus        84 ~~~~~~~~~~~~~yifLDEIq~v~~W~~~  112 (398)
T COG1373          84 LRAYIELKEREKSYIFLDEIQNVPDWERA  112 (398)
T ss_pred             HHHHHHhhccCCceEEEecccCchhHHHH
Confidence            22222   227789999999999999876

>PRK14529 adenylate kinase; Provisional

Probab=94.56  E-value=0.1  Score=47.33  Aligned_cols=23  Identities=30%  Similarity=0.278  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .|.|.|++|+||||+|+.+...+
T Consensus         2 ~I~l~G~PGsGK~T~a~~La~~~   24 (223)
T PRK14529          2 NILIFGPNGSGKGTQGALVKKKY   24 (223)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            37889999999999999999888

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=94.55  E-value=0.089  Score=53.71  Aligned_cols=38  Identities=18%  Similarity=0.154  Sum_probs=28.8

Q ss_pred             HHHHHHHHhhc--CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          105 RLNEVWRLVED--NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       105 ~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -+..+-++|..  ..-.++.|.|.+|+|||||+.++....
T Consensus       248 Gi~~lD~~lgGG~~~gs~~li~G~~G~GKt~l~~~f~~~~  287 (484)
T TIGR02655       248 GVVRLDEMCGGGFFKDSIILATGATGTGKTLLVSKFLENA  287 (484)
T ss_pred             ChHhHHHHhcCCccCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            33444445543  345799999999999999999998776

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.

>PLN02348 phosphoribulokinase

Probab=94.55  E-value=0.049  Score=53.23  Aligned_cols=27  Identities=30%  Similarity=0.411  Sum_probs=24.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +...+|+|.|.+|+||||+|+.+.+..
T Consensus        47 ~~p~IIGIaG~SGSGKSTfA~~L~~~L   73 (395)
T PLN02348         47 DGTVVIGLAADSGCGKSTFMRRLTSVF   73 (395)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            567899999999999999999999877

>PRK08099 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional

Probab=94.55  E-value=0.032  Score=55.30  Aligned_cols=27  Identities=33%  Similarity=0.442  Sum_probs=24.5

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+.|+|+|..|+|||||+..+++..
T Consensus       217 ~~~~~IvI~G~~gsGKTTL~~~La~~~  243 (399)
T PRK08099        217 FFVRTVAILGGESSGKSTLVNKLANIF  243 (399)
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHHh
Confidence            457899999999999999999999876

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=94.54  E-value=0.073  Score=52.53  Aligned_cols=45  Identities=18%  Similarity=0.165  Sum_probs=36.5

Q ss_pred             CCccchH-HHHHHHHHhhc--------------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVED--------------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~--------------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..++|.+ .+..+..++..              -...-|.++|++|+|||+||+.+....
T Consensus        15 ~~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l   74 (443)
T PRK05201         15 KYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLA   74 (443)
T ss_pred             cccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            5688999 88888877732              013678999999999999999998876

>cd02022 DPCK Dephospho-coenzyme A kinase (DPCK, EC 2

Probab=94.53  E-value=0.029  Score=49.13  Aligned_cols=21  Identities=38%  Similarity=0.373  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 043070          120 IICLHGVSRLGKTTLLYNLNK  140 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~  140 (414)
                      +|+|+|+.|+||||+++.+.+
T Consensus         1 ii~itG~~gsGKst~~~~l~~   21 (179)
T cd02022           1 IIGLTGGIGSGKSTVAKLLKE   21 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999999987

7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis.

>TIGR01039 atpD ATP synthase, F1 beta subunit

Probab=94.52  E-value=0.061  Score=53.69  Aligned_cols=92  Identities=14%  Similarity=0.143  Sum_probs=52.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH---------HHHHHHHHHHhcCCCC----ccCcCC-Hh---
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV---------KRIQHVMGYRLAMSNE----VWDDKT-KQ---  179 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv---------~~l~~~i~~~l~~~~~----~~~~~~-~~---  179 (414)
                      +-..++|.|..|+|||||+.++.+...  +++=..++++         .++++++...-.....    ...+.+ ..   
T Consensus       142 ~GQr~~If~~~G~GKt~L~~~~~~~~~--~~~~~v~V~alIGER~rEv~ef~~~~~~~~~l~rtvvV~atsd~p~~~R~~  219 (461)
T TIGR01039       142 KGGKIGLFGGAGVGKTVLIQELINNIA--KEHGGYSVFAGVGERTREGNDLYHEMKESGVIDKTALVYGQMNEPPGARMR  219 (461)
T ss_pred             cCCEEEeecCCCCChHHHHHHHHHHHH--hcCCCeEEEEEecCCchHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHH
Confidence            446899999999999999999987762  2222234444         3444444332111110    001111 11   


Q ss_pred             --HHHHHHHHHh---CCCcEEEEEecCCCcc-chhhh
Q 043070          180 --GRAIDSSRRL---GQRRFALLLDDLREPI-DLKTA  210 (414)
Q Consensus       180 --~~~~~l~~~L---~~kr~LlVlDdv~~~~-~~~~~  210 (414)
                        ...-.+.+++   +++++||++||+-.-. ...++
T Consensus       220 a~~~a~tiAEyfrd~~G~~VLll~DslTR~A~A~REi  256 (461)
T TIGR01039       220 VALTGLTMAEYFRDEQGQDVLLFIDNIFRFTQAGSEV  256 (461)
T ss_pred             HHHHHHHHHHHHHHhcCCeeEEEecchhHHHHHHHHH
Confidence              1233455666   4689999999996553 44444

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.

>PRK13232 nifH nitrogenase reductase; Reviewed

Probab=94.51  E-value=0.03  Score=52.59  Aligned_cols=24  Identities=33%  Similarity=0.473  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++|+|+|-||+||||+|..++.-.
T Consensus         2 ~~iav~gKGGVGKTT~a~nLA~~L   25 (273)
T PRK13232          2 RQIAIYGKGGIGKSTTTQNLTAAL   25 (273)
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHH
Confidence            578999999999999998887665

>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=94.51  E-value=0.026  Score=51.78  Aligned_cols=20  Identities=30%  Similarity=0.345  Sum_probs=18.2

Q ss_pred             EEcCCCCcHHHHHHHHHHhh
Q 043070          123 LHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       123 I~G~gGiGKTtLA~~v~~~~  142 (414)
                      |+|++|+||||+++.+.+..
T Consensus         1 ViGpaGSGKTT~~~~~~~~~   20 (238)
T PF03029_consen    1 VIGPAGSGKTTFCKGLSEWL   20 (238)
T ss_dssp             -EESTTSSHHHHHHHHHHHH
T ss_pred             CCCCCCCCHHHHHHHHHHHH
Confidence            68999999999999999987

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=94.50  E-value=0.03  Score=46.66  Aligned_cols=25  Identities=32%  Similarity=0.309  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+-|.|.|.+|+||||||..++...
T Consensus         7 ~PNILvtGTPG~GKstl~~~lae~~   31 (176)
T KOG3347|consen    7 RPNILVTGTPGTGKSTLAERLAEKT   31 (176)
T ss_pred             CCCEEEeCCCCCCchhHHHHHHHHh
Confidence            3568899999999999999999655

>cd02040 NifH NifH gene encodes component II (iron protein) of nitrogenase

Probab=94.50  E-value=0.031  Score=52.22  Aligned_cols=24  Identities=33%  Similarity=0.479  Sum_probs=21.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++|+|.|-||+||||+|..++...
T Consensus         2 ~~iav~~KGGvGKTT~~~nLA~~L   25 (270)
T cd02040           2 RQIAIYGKGGIGKSTTTQNLSAAL   25 (270)
T ss_pred             cEEEEEeCCcCCHHHHHHHHHHHH
Confidence            578899999999999998887766

Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the mollybdenum-iron (alternatively, vanadium-iron or iron-iron) protein (commonly referred to as component 1), and the iron protein (commonly referred to as component 2). The iron protein is a homodimer, with an Fe4S4 cluster bound between the subunits and two ATP-binding domains. It supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component 1 for the reduction of molecular nitrogen to ammonia.

>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=94.49  E-value=0.076  Score=48.76  Aligned_cols=38  Identities=21%  Similarity=0.345  Sum_probs=27.7

Q ss_pred             HHHHHHHHhhc--CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          105 RLNEVWRLVED--NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       105 ~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...++++.|..  .+..+|+|.|.||+||+||.-.+....
T Consensus        14 ~~~~ll~~l~~~~g~a~~iGiTG~PGaGKSTli~~l~~~~   53 (266)
T PF03308_consen   14 EARELLKRLYPHTGRAHVIGITGPPGAGKSTLIDALIREL   53 (266)
T ss_dssp             HHHHHHHHHGGGTT-SEEEEEEE-TTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhcCCceEEEeeCCCCCcHHHHHHHHHHHH
Confidence            34455555532  567899999999999999999888776

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.

>PRK08356 hypothetical protein; Provisional

Probab=94.47  E-value=0.033  Score=49.48  Aligned_cols=22  Identities=27%  Similarity=0.243  Sum_probs=19.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHH
Q 043070          118 VRIICLHGVSRLGKTTLLYNLN  139 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~  139 (414)
                      ..+|+|+|++|+||||+|+.+.
T Consensus         5 ~~~i~~~G~~gsGK~t~a~~l~   26 (195)
T PRK08356          5 KMIVGVVGKIAAGKTTVAKFFE   26 (195)
T ss_pred             cEEEEEECCCCCCHHHHHHHHH
Confidence            3579999999999999999994

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=94.46  E-value=0.11  Score=52.57  Aligned_cols=25  Identities=28%  Similarity=0.349  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..|++++|..|+||||++.+++...
T Consensus       256 g~Vi~LvGpnGvGKTTTiaKLA~~~  280 (484)
T PRK06995        256 GGVFALMGPTGVGKTTTTAKLAARC  280 (484)
T ss_pred             CcEEEEECCCCccHHHHHHHHHHHH
Confidence            4799999999999999999998766

>PRK13695 putative NTPase; Provisional

Probab=94.46  E-value=0.036  Score=48.20  Aligned_cols=23  Identities=30%  Similarity=0.485  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .|+|+|.+|+|||||++.+++..
T Consensus         2 ~i~ltG~~G~GKTTll~~i~~~l   24 (174)
T PRK13695          2 KIGITGPPGVGKTTLVLKIAELL   24 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            47899999999999999998876

>cd03116 MobB Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes

Probab=94.46  E-value=0.042  Score=47.10  Aligned_cols=24  Identities=42%  Similarity=0.494  Sum_probs=22.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++++|+|..|+|||||+..+....
T Consensus         2 ~vi~i~G~~gsGKTTli~~L~~~l   25 (159)
T cd03116           2 KVIGFVGYSGSGKTTLLEKLIPAL   25 (159)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            589999999999999999999876

In E. coli, the synthesis of Moco involves genes from several loci: moa, mob, mod, moe and mog. The mob locus contains mobA and mobB genes. MobB catalyzes the attachment of the guanine dinucleotide to molybdopterin.

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=94.44  E-value=0.039  Score=47.93  Aligned_cols=25  Identities=36%  Similarity=0.379  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.++.|.|++|+|||||+++++.+.
T Consensus         4 G~l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           4 GLLIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhc
Confidence            3678999999999999999999876

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=94.43  E-value=0.042  Score=52.73  Aligned_cols=26  Identities=35%  Similarity=0.487  Sum_probs=23.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +..+++++|++|+||||++..++...
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~~l  138 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAHKY  138 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            46799999999999999999998877

>PRK10787 DNA-binding ATP-dependent protease La; Provisional

Probab=94.43  E-value=0.065  Score=57.75  Aligned_cols=45  Identities=20%  Similarity=0.284  Sum_probs=37.9

Q ss_pred             CCccchH-HHHHHHHHhhc------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVED------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+.+|.+ .++.|+++|..      ....++.++|++|+||||+|+.++...
T Consensus       322 ~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~l  373 (784)
T PRK10787        322 TDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKAT  373 (784)
T ss_pred             hhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            5578999 99999988842      345689999999999999999999876

>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems

Probab=94.42  E-value=0.031  Score=46.27  Aligned_cols=25  Identities=32%  Similarity=0.401  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.+++|+|..|+|||||.+.+....
T Consensus        11 g~~~~i~G~nGsGKStLl~~l~g~~   35 (137)
T PF00005_consen   11 GEIVAIVGPNGSGKSTLLKALAGLL   35 (137)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEEccCCCccccceeeecccc
Confidence            3689999999999999999987665

ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=94.36  E-value=0.19  Score=48.06  Aligned_cols=25  Identities=36%  Similarity=0.320  Sum_probs=21.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      .-.++-|+|.+|+|||+|+.+++-.
T Consensus        95 ~G~iteI~G~~GsGKTql~lqla~~  119 (313)
T TIGR02238        95 SMSITEVFGEFRCGKTQLSHTLCVT  119 (313)
T ss_pred             CCeEEEEECCCCCCcCHHHHHHHHH
Confidence            4578999999999999999887643

This model describes DMC1, a subfamily of a larger family of DNA repair and recombination proteins. It is eukaryotic only and most closely related to eukaryotic RAD51. It also resembles archaeal RadA (TIGR02236) and RadB (TIGR02237) and bacterial RecA (TIGR02012). It has been characterized for human as a recombinase active only in meiosis.

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=94.35  E-value=0.11  Score=47.55  Aligned_cols=46  Identities=13%  Similarity=0.227  Sum_probs=31.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH------HHHHHHHHHH
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV------KRIQHVMGYR  165 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv------~~l~~~i~~~  165 (414)
                      -.++.|.|.+|+|||+++..+..+..  ..+=..++|+      .++...++..
T Consensus        13 G~l~lI~G~~G~GKT~~~~~~~~~~~--~~~g~~vly~s~E~~~~~~~~r~~~~   64 (242)
T cd00984          13 GDLIIIAARPSMGKTAFALNIAENIA--KKQGKPVLFFSLEMSKEQLLQRLLAS   64 (242)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHH--HhCCCceEEEeCCCCHHHHHHHHHHH
Confidence            36899999999999999999877662  2212344455      5566655443

The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=94.34  E-value=0.034  Score=47.20  Aligned_cols=23  Identities=17%  Similarity=0.251  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|+++|.+|+|||||+..+.+..
T Consensus         2 ki~~~G~~~~GKTsl~~~l~~~~   24 (164)
T cd04139           2 KVIVVGAGGVGKSALTLQFMYDE   24 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            47899999999999999998654

The Ral (Ras-like) subfamily consists of the highly homologous RalA and RalB. Ral proteins are believed to play a crucial role in tumorigenesis, metastasis, endocytosis, and actin cytoskeleton dynamics. Despite their high sequence similarity (80% sequence identity), nonoverlapping and opposing functions have been assigned to RalA and RalBs in tumor migration. In human bladder and prostate cancer cells, RalB promotes migration while RalA inhibits it. A Ral-specific set of GEFs has been identified that are activated by Ras binding. This RalGEF activity is enhanced by Ras binding to another of its target proteins, phosphatidylinositol 3-kinase (PI3K). Ral effectors include RLIP76/RalBP1, a Rac/cdc42 GAP, and the exocyst (Sec6/8) complex, a heterooctomeric protein complex that is involved in tethering vesicles to specific sites on the plasma membrane prior to exocytosis. In rat kidney cells, RalB is required for functional assembly of the exo

>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]

Probab=94.34  E-value=0.14  Score=46.84  Aligned_cols=44  Identities=11%  Similarity=0.147  Sum_probs=36.1

Q ss_pred             CccchH-HHHHHHHHhh----c---------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           99 NTVDVS-RLNEVWRLVE----D---------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        99 ~~vGr~-~~~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++-|-+ .++++++.+.    .         ..++-+.++|++|.|||-+|++.+.+.
T Consensus       172 DiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT  229 (424)
T KOG0652|consen  172 DIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQT  229 (424)
T ss_pred             ccccHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhc
Confidence            345788 9999999871    1         356788999999999999999998877

>TIGR00017 cmk cytidylate kinase

Probab=94.34  E-value=0.042  Score=49.69  Aligned_cols=24  Identities=33%  Similarity=0.483  Sum_probs=22.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+|+|.|+.|+||||+|+.++...
T Consensus         3 ~~i~i~G~~GsGKst~~~~la~~~   26 (217)
T TIGR00017         3 MIIAIDGPSGAGKSTVAKAVAEKL   26 (217)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            479999999999999999999877

This family consists of cytidylate kinase, which catalyzes the phosphorylation of cytidine 5-monophosphate (dCMP) to cytidine 5 -diphosphate (dCDP) in the presence of ATP or GTP. UMP and dCMP can also act as acceptors.

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=94.33  E-value=0.03  Score=50.42  Aligned_cols=24  Identities=38%  Similarity=0.314  Sum_probs=21.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-|.|+|++|+|||||...+.++.
T Consensus         6 ~kivv~G~~g~GKTtl~~~l~~~~   29 (219)
T COG1100           6 FKIVVLGDGGVGKTTLLNRLVGDE   29 (219)
T ss_pred             EEEEEEcCCCccHHHHHHHHhcCc
Confidence            468999999999999999998776

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=94.33  E-value=0.063  Score=50.09  Aligned_cols=35  Identities=26%  Similarity=0.348  Sum_probs=25.1

Q ss_pred             HHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          106 LNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       106 ~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++++..++..+  .-|.+.|.+|+|||+||+.+++..
T Consensus        11 ~~~~l~~l~~g--~~vLL~G~~GtGKT~lA~~la~~l   45 (262)
T TIGR02640        11 TSRALRYLKSG--YPVHLRGPAGTGKTTLAMHVARKR   45 (262)
T ss_pred             HHHHHHHHhcC--CeEEEEcCCCCCHHHHHHHHHHHh
Confidence            34444444433  356689999999999999998755

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).

>TIGR00455 apsK adenylylsulfate kinase (apsK)

Probab=94.32  E-value=0.051  Score=47.71  Aligned_cols=27  Identities=37%  Similarity=0.495  Sum_probs=24.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ....++.|.|.+|+||||+|+.+....
T Consensus        16 ~~~~~i~i~G~~GsGKstla~~l~~~l   42 (184)
T TIGR00455        16 HRGVVIWLTGLSGSGKSTIANALEKKL   42 (184)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            445799999999999999999999876

Important residue (active site in E.coli) is residue 100 of the seed alignment.

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=94.32  E-value=0.048  Score=58.83  Aligned_cols=45  Identities=11%  Similarity=0.157  Sum_probs=39.4

Q ss_pred             CCccchH-HHHHHHHHhhcCCce-EEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVEDNSVR-IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++||.+ .++.|.+++..+++. .+.++|..|+||||+|+.+.+..
T Consensus        15 ~eiiGqe~v~~~L~~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L   61 (824)
T PRK07764         15 AEVIGQEHVTEPLSTALDSGRINHAYLFSGPRGCGKTSSARILARSL   61 (824)
T ss_pred             HHhcCcHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            5689999 999999999776654 57899999999999999999877

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=94.31  E-value=0.036  Score=46.91  Aligned_cols=23  Identities=35%  Similarity=0.463  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++.|+|.+|+||||++..+....
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~   23 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNI   23 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHH
Confidence            46899999999999999998877

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.

>PRK14730 coaE dephospho-CoA kinase; Provisional

Probab=94.30  E-value=0.073  Score=47.30  Aligned_cols=24  Identities=33%  Similarity=0.260  Sum_probs=21.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..|+|+|+.|+||||+|+.+.+..
T Consensus         2 ~~i~itG~~gsGKst~~~~l~~~~   25 (195)
T PRK14730          2 RRIGLTGGIASGKSTVGNYLAQQK   25 (195)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhh
Confidence            479999999999999999998874

>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=94.28  E-value=0.037  Score=52.82  Aligned_cols=24  Identities=33%  Similarity=0.466  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +++.+.|-||+||||+|...+-..
T Consensus         2 r~~~~~GKGGVGKTT~aaA~A~~~   25 (305)
T PF02374_consen    2 RILFFGGKGGVGKTTVAAALALAL   25 (305)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             eEEEEecCCCCCcHHHHHHHHHHH
Confidence            688999999999999998776554

...

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=94.27  E-value=0.17  Score=49.04  Aligned_cols=52  Identities=19%  Similarity=0.163  Sum_probs=33.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCC----CCcchHhH-------HHHHHHHHHHhcCC
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRH----NFGLVILV-------KRIQHVMGYRLAMS  169 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~----~F~~~~wv-------~~l~~~i~~~l~~~  169 (414)
                      .-.++-|+|.+|+|||+||..++-.. ....    .-..++|+       .+=+.+|++.++..
T Consensus       122 ~g~i~~i~G~~g~GKT~l~~~l~~~~-~~~~~~gg~~g~vlyIdtE~~f~~eRl~qia~~~~~~  184 (342)
T PLN03186        122 TGSITEIYGEFRTGKTQLCHTLCVTC-QLPLDQGGGEGKAMYIDTEGTFRPQRLIQIAERFGLN  184 (342)
T ss_pred             CceEEEEECCCCCCccHHHHHHHHHh-hcchhhCCCCceEEEEECCCCccHHHHHHHHHHcCCC
Confidence            45788999999999999998887543 1111    11246677       22345566666543

>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=94.26  E-value=0.11  Score=51.08  Aligned_cols=40  Identities=18%  Similarity=0.252  Sum_probs=33.3

Q ss_pred             hH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHH-HHHHHhh
Q 043070          103 VS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLL-YNLNKKF  142 (414)
Q Consensus       103 r~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA-~~v~~~~  142 (414)
                      |. ..++|..||.+..-..|.|.|+-|+||+.|+ .++.++.
T Consensus         1 R~e~~~~L~~wL~e~~~TFIvV~GPrGSGK~elV~d~~L~~r   42 (431)
T PF10443_consen    1 RKEAIEQLKSWLNENPNTFIVVQGPRGSGKRELVMDHVLKDR   42 (431)
T ss_pred             CchHHHHHHHHHhcCCCeEEEEECCCCCCccHHHHHHHHhCC
Confidence            44 6889999998877789999999999999999 6655443

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 [].

>PRK08472 fliI flagellum-specific ATP synthase; Validated

Probab=94.24  E-value=0.088  Score=52.43  Aligned_cols=27  Identities=22%  Similarity=0.207  Sum_probs=23.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-..++|+|..|+|||||++.+....
T Consensus       155 ~~Gq~~~i~G~sG~GKStLl~~i~~~~  181 (434)
T PRK08472        155 GKGQKLGIFAGSGVGKSTLMGMIVKGC  181 (434)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhhcc
Confidence            344689999999999999999998765

>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=94.23  E-value=0.055  Score=56.91  Aligned_cols=45  Identities=20%  Similarity=0.256  Sum_probs=34.9

Q ss_pred             CCccchH----HHHHHHHHhhc---------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS----RLNEVWRLVED---------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~----~~~~l~~~L~~---------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++.|-+    ++.++++.|.+         .-++=+.++|++|.|||-||++++-..
T Consensus       311 kDVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEA  368 (774)
T KOG0731|consen  311 KDVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEA  368 (774)
T ss_pred             ccccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhccc
Confidence            4566876    56666666644         235778999999999999999999877

>PRK13768 GTPase; Provisional

Probab=94.22  E-value=0.046  Score=50.76  Aligned_cols=24  Identities=33%  Similarity=0.393  Sum_probs=21.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++.|.|.||+||||++..+....
T Consensus         3 ~~i~v~G~~G~GKTt~~~~~~~~l   26 (253)
T PRK13768          3 YIVFFLGTAGSGKTTLTKALSDWL   26 (253)
T ss_pred             EEEEEECCCCccHHHHHHHHHHHH
Confidence            578999999999999998887666

>PRK12338 hypothetical protein; Provisional

Probab=94.22  E-value=0.046  Score=52.11  Aligned_cols=25  Identities=24%  Similarity=0.412  Sum_probs=23.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+|.|.|.+|+||||+|+.++...
T Consensus         4 p~ii~i~G~sGsGKST~a~~la~~l   28 (319)
T PRK12338          4 PYVILIGSASGIGKSTIASELARTL   28 (319)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHC
Confidence            4689999999999999999999887

>PLN02796 D-glycerate 3-kinase

Probab=94.22  E-value=0.047  Score=52.53  Aligned_cols=26  Identities=31%  Similarity=0.392  Sum_probs=23.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-+|+|.|..|+|||||++.+....
T Consensus        99 ~pliIGI~G~sGSGKSTLa~~L~~lL  124 (347)
T PLN02796         99 PPLVIGISAPQGCGKTTLVFALVYLF  124 (347)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHh
Confidence            45689999999999999999999877

>cd01878 HflX HflX subfamily

Probab=94.21  E-value=0.14  Score=45.46  Aligned_cols=27  Identities=26%  Similarity=0.386  Sum_probs=23.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +....|+|+|.+|+|||||...+.+..
T Consensus        39 ~~~~~I~iiG~~g~GKStLl~~l~~~~   65 (204)
T cd01878          39 SGIPTVALVGYTNAGKSTLFNALTGAD   65 (204)
T ss_pred             cCCCeEEEECCCCCCHHHHHHHHhcch
Confidence            345689999999999999999988764

A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.

>PLN02318 phosphoribulokinase/uridine kinase

Probab=94.19  E-value=0.058  Score=55.36  Aligned_cols=27  Identities=19%  Similarity=0.273  Sum_probs=24.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++..+|+|.|..|+||||||+.+....
T Consensus        63 ~~riIIGIaGpSGSGKTTLAk~LaglL   89 (656)
T PLN02318         63 DGIILVGVAGPSGAGKTVFTEKVLNFM   89 (656)
T ss_pred             CCeEEEEEECCCCCcHHHHHHHHHhhC
Confidence            457899999999999999999998765

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=94.17  E-value=0.082  Score=45.81  Aligned_cols=21  Identities=29%  Similarity=0.398  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHh
Q 043070          121 ICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       121 i~I~G~gGiGKTtLA~~v~~~  141 (414)
                      +.|.|.+|+|||++|.++...
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~   22 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAE   22 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            678999999999999998765

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.

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=94.16  E-value=0.042  Score=45.93  Aligned_cols=24  Identities=46%  Similarity=0.400  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +.|.++|..|+|||||++.+-...
T Consensus         2 krimliG~~g~GKTTL~q~L~~~~   25 (143)
T PF10662_consen    2 KRIMLIGPSGSGKTTLAQALNGEE   25 (143)
T ss_pred             ceEEEECCCCCCHHHHHHHHcCCC
Confidence            468899999999999999997755

Both pathways require coenzyme B12 (adenosylcobalamin, AdoCbl). Bacteria that harbour these pathways can use ethanolamine as a source of carbon and nitrogen, or propanediol as a sole carbon and energy source, respectively. The exact roles of the EutP and PduV proteins in these respective pathways are not yet determined. Members of this family contain P-loop consensus motifs in the N-terminal part, and are distantly related to various GTPases and ATPases, including ATPase components of transport systems. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilisation of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilisation (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and co-regulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR003208 from INTERPRO, IPR009204 from INTERPRO, IPR009191 from INTERPRO, IPR009192 from INTERPRO for more details on the propanediol utilisation pathway and the pdu operon.; GO: 0005524 ATP binding, 0006576 cellular biogenic amine metabolic process

>PRK06936 type III secretion system ATPase; Provisional

Probab=94.14  E-value=0.058  Score=53.68  Aligned_cols=27  Identities=22%  Similarity=0.225  Sum_probs=23.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+-..++|.|..|+|||||.+.+++..
T Consensus       160 ~~Gq~~~I~G~sG~GKStLl~~Ia~~~  186 (439)
T PRK06936        160 GEGQRMGIFAAAGGGKSTLLASLIRSA  186 (439)
T ss_pred             cCCCEEEEECCCCCChHHHHHHHhcCC
Confidence            344689999999999999999999876

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.12  E-value=0.075  Score=55.71  Aligned_cols=45  Identities=18%  Similarity=0.150  Sum_probs=39.1

Q ss_pred             CCccchH-HHHHHHHHhhcCCc-eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVEDNSV-RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+++|.+ .+..|..++..... ..+.++|..|+||||+|+.+++..
T Consensus        16 ~~liGq~~i~~~L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~lAk~L   62 (620)
T PRK14948         16 DELVGQEAIATTLKNALISNRIAPAYLFTGPRGTGKTSSARILAKSL   62 (620)
T ss_pred             hhccChHHHHHHHHHHHHcCCCCceEEEECCCCCChHHHHHHHHHHh
Confidence            5688999 99999999976543 577899999999999999999887

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=94.12  E-value=0.097  Score=46.54  Aligned_cols=35  Identities=34%  Similarity=0.430  Sum_probs=27.0

Q ss_pred             HHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          108 EVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       108 ~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +.+..+...+-+++.|.|.+|.||||+...+....
T Consensus         8 ~a~~~~l~~~~~~~~l~G~aGtGKT~~l~~~~~~~   42 (196)
T PF13604_consen    8 EAVRAILTSGDRVSVLQGPAGTGKTTLLKALAEAL   42 (196)
T ss_dssp             HHHHHHHHCTCSEEEEEESTTSTHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCeEEEEEECCCCCHHHHHHHHHHHH
Confidence            33444434455789999999999999999998877

>KOG0651 consensus 26S proteasome regulatory complex, ATPase RPT4 [Posttranslational modification, protein turnover, chaperones]

Probab=94.11  E-value=0.071  Score=49.92  Aligned_cols=26  Identities=23%  Similarity=0.224  Sum_probs=24.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+..+.|||++|.|||-||+.|+...
T Consensus       165 ~Pkg~ll~GppGtGKTlla~~Vaa~m  190 (388)
T KOG0651|consen  165 PPKGLLLYGPPGTGKTLLARAVAATM  190 (388)
T ss_pred             CCceeEEeCCCCCchhHHHHHHHHhc
Confidence            46789999999999999999999988

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=94.11  E-value=0.073  Score=54.16  Aligned_cols=45  Identities=20%  Similarity=0.178  Sum_probs=38.3

Q ss_pred             CCccchH-HHHHHHHHhhcCCc-eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVEDNSV-RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+++|-+ -+..+.+++..+.+ ..+.++|+.|+||||+|+.++...
T Consensus        16 ~diiGq~~i~~~L~~~i~~~~i~hayLf~Gp~G~GKTtlAr~lAk~L   62 (486)
T PRK14953         16 KEVIGQEIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTIARILAKVL   62 (486)
T ss_pred             HHccChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            5688999 99999999977554 456789999999999999998865

>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=94.10  E-value=0.089  Score=50.55  Aligned_cols=45  Identities=18%  Similarity=0.262  Sum_probs=39.8

Q ss_pred             CCccchH-HHHHHHHHhhc------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVED------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..++|.+ .++++++.+.+      ..-+++-++|+.|.||||||..+-+-.
T Consensus        61 ~~~~G~~~~i~~lV~~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~Lk~~l  112 (358)
T PF08298_consen   61 DEFYGMEETIERLVNYFKSAAQGLEERKRILLLLGPVGGGKSSLAELLKRGL  112 (358)
T ss_pred             ccccCcHHHHHHHHHHHHHHHhccCccceEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999 99999999943      456899999999999999999998877

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse

Probab=94.08  E-value=0.044  Score=43.97  Aligned_cols=21  Identities=33%  Similarity=0.585  Sum_probs=19.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHHh
Q 043070          121 ICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       121 i~I~G~gGiGKTtLA~~v~~~  141 (414)
                      |+|+|+.|+|||||...+.+.
T Consensus         2 V~iiG~~~~GKSTlin~l~~~   22 (116)
T PF01926_consen    2 VAIIGRPNVGKSTLINALTGK   22 (116)
T ss_dssp             EEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhcc
Confidence            789999999999999999974

These proteins represent a new subfamily of GTP-binding proteins that has both prokaryote and eukaryote members [].; GO: 0005525 GTP binding, 0005622 intracellular; PDB: 2DWQ_B 2DBY_A 3CNN_A 3CNO_A 3CNL_A 3IBY_A 1PUI_B 1WXQ_A 1LNZ_A 3GEE_A ....

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=94.07  E-value=0.15  Score=48.97  Aligned_cols=26  Identities=31%  Similarity=0.290  Sum_probs=22.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      ..-.++.|+|.+|+|||||+..++..
T Consensus        94 ~~g~i~~i~G~~g~GKT~l~~~~~~~  119 (316)
T TIGR02239        94 ETGSITEIFGEFRTGKTQLCHTLAVT  119 (316)
T ss_pred             CCCeEEEEECCCCCCcCHHHHHHHHH
Confidence            34679999999999999999988753

This eukaryotic sequence family consists of RAD51, a protein involved in DNA homologous recombination and repair. It is similar in sequence the exclusively meiotic recombinase DMC1 (TIGR02238), to archaeal families RadA (TIGR02236) and RadB (TIGR02237), and to bacterial RecA (TIGR02012).

>cd01673 dNK Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs)

Probab=94.07  E-value=0.042  Score=48.55  Aligned_cols=23  Identities=30%  Similarity=0.473  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +|+|.|+.|+||||+++.+.+..
T Consensus         1 ~I~ieG~~GsGKSTl~~~L~~~~   23 (193)
T cd01673           1 VIVVEGNIGAGKSTLAKELAEHL   23 (193)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999998765

This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1.113), adenosine (EC 2.7.1.76), and thymidine (EC 2.7.1.21) kinases. They are key enzymes in the salvage of deoxyribonucleosides originating from extra- or intracellular breakdown of DNA.

>PRK13235 nifH nitrogenase reductase; Reviewed

Probab=94.07  E-value=0.043  Score=51.51  Aligned_cols=24  Identities=25%  Similarity=0.337  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++|+|+|-||+||||+|..+..-.
T Consensus         2 ~~iav~~KGGVGKTT~~~nLA~~L   25 (274)
T PRK13235          2 RKVAIYGKGGIGKSTTTQNTVAGL   25 (274)
T ss_pred             CEEEEeCCCCccHHHHHHHHHHHH
Confidence            589999999999999998887765

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=94.06  E-value=0.044  Score=49.19  Aligned_cols=26  Identities=31%  Similarity=0.345  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|..|+|||||++.++...
T Consensus        26 ~G~~~~l~G~nGsGKSTLl~~l~G~~   51 (211)
T cd03225          26 KGEFVLIVGPNGSGKSTLLRLLNGLL   51 (211)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            34689999999999999999998755

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE)

Probab=94.05  E-value=0.044  Score=49.47  Aligned_cols=26  Identities=31%  Similarity=0.268  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|..|+|||||++.++...
T Consensus        29 ~G~~~~l~G~nGsGKSTLl~~i~Gl~   54 (218)
T cd03255          29 KGEFVAIVGPSGSGKSTLLNILGGLD   54 (218)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCCc
Confidence            34689999999999999999998765

They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=94.02  E-value=0.08  Score=52.65  Aligned_cols=45  Identities=20%  Similarity=0.142  Sum_probs=34.1

Q ss_pred             CCccchH-HHHHHHHHhhc-------C---------CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVED-------N---------SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~-------~---------~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+||.+ .++.+...+.+       .         ...-+.++|++|+|||+||+.++...
T Consensus        71 ~~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l  132 (412)
T PRK05342         71 QYVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARIL  132 (412)
T ss_pred             hHeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHh
Confidence            5678999 77777555411       0         12568999999999999999999776

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=94.02  E-value=0.061  Score=55.02  Aligned_cols=45  Identities=31%  Similarity=0.405  Sum_probs=35.4

Q ss_pred             CCccchH-HHHHHHHHhhc-----CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVED-----NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++++--. -++++.+||.+     ...+++.+.|++|+||||.++.+++..
T Consensus        19 ~eLavhkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~el   69 (519)
T PF03215_consen   19 DELAVHKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKEL   69 (519)
T ss_pred             HHhhccHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHh
Confidence            3444445 88888889854     335789999999999999999999876

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=94.01  E-value=0.07  Score=55.26  Aligned_cols=46  Identities=13%  Similarity=0.197  Sum_probs=39.7

Q ss_pred             CCCccchH-HHHHHHHHhhcCCce-EEEEEcCCCCcHHHHHHHHHHhh
Q 043070           97 MENTVDVS-RLNEVWRLVEDNSVR-IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~~~~~-vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.+++|-+ .++.|.+++.++.+. .+.++|+.|+||||+|+.+++..
T Consensus        15 f~diiGqe~iv~~L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~lAk~L   62 (563)
T PRK06647         15 FNSLEGQDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARAFARCL   62 (563)
T ss_pred             HHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhh
Confidence            36789999 999999999775544 68899999999999999999876

>cd03114 ArgK-like The function of this protein family is unkown

Probab=94.01  E-value=0.048  Score=46.16  Aligned_cols=23  Identities=35%  Similarity=0.525  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++++.|.+|+||||++..+....
T Consensus         1 ~i~~~G~~GsGKTt~~~~l~~~~   23 (148)
T cd03114           1 VIGITGVPGAGKSTLIDALITAL   23 (148)
T ss_pred             CEEEECCCCCcHHHHHHHHHHHH
Confidence            47899999999999999998765

The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.

>PRK13233 nifH nitrogenase reductase; Reviewed

Probab=94.00  E-value=0.046  Score=51.32  Aligned_cols=24  Identities=29%  Similarity=0.380  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++|+|+|-||+||||+|..++.-.
T Consensus         3 ~vIav~~KGGVGKTT~a~nLA~~L   26 (275)
T PRK13233          3 RKIAIYGKGGIGKSTTTQNTAAAM   26 (275)
T ss_pred             eEEEEEcCCCCcHHHHHHHHHHHH
Confidence            689999999999999998776655

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=93.99  E-value=0.044  Score=46.66  Aligned_cols=23  Identities=17%  Similarity=0.199  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|+++|.+|+|||||+..+.+..
T Consensus         2 ki~~vG~~~vGKTsli~~l~~~~   24 (168)
T cd04119           2 KVISMGNSGVGKSCIIKRYCEGR   24 (168)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            37899999999999999988754

RJLs are found in many protists and as chimeras with C-terminal DNAJ domains in deuterostome metazoa. They are not found in plants, fungi, and protostome metazoa, suggesting a horizontal gene transfer between protists and deuterostome metazoa. RJLs lack any known membrane targeting signal and contain a degenerate phosphate/magnesium-binding 3 (PM3) motif, suggesting an impaired ability to hydrolyze GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=93.99  E-value=0.046  Score=48.20  Aligned_cols=26  Identities=35%  Similarity=0.519  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|..|+|||||.+.+....
T Consensus        17 ~Ge~~~i~G~nGsGKSTLl~~i~G~~   42 (190)
T TIGR01166        17 RGEVLALLGANGAGKSTLLLHLNGLL   42 (190)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999998755

This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=93.98  E-value=0.087  Score=49.19  Aligned_cols=36  Identities=28%  Similarity=0.494  Sum_probs=28.5

Q ss_pred             HHHHHHhh--cCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          107 NEVWRLVE--DNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       107 ~~l~~~L~--~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+++..+.  ..+..+|+|.|.||+||+||.-.+-...
T Consensus        38 ~~ll~~l~p~tG~a~viGITG~PGaGKSTli~~L~~~l   75 (323)
T COG1703          38 RELLRALYPRTGNAHVIGITGVPGAGKSTLIEALGREL   75 (323)
T ss_pred             HHHHHHHhhcCCCCcEEEecCCCCCchHHHHHHHHHHH
Confidence            45555553  3667899999999999999998887776

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=93.97  E-value=0.046  Score=49.29  Aligned_cols=26  Identities=27%  Similarity=0.207  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|..|+|||||++.++...
T Consensus        28 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   53 (216)
T TIGR00960        28 KGEMVFLVGHSGAGKSTFLKLILGIE   53 (216)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999998765

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=93.97  E-value=0.046  Score=46.57  Aligned_cols=23  Identities=17%  Similarity=0.322  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|+|+|.+|+|||||+..+.+..
T Consensus         2 ki~v~G~~~~GKTsli~~~~~~~   24 (164)
T smart00173        2 KLVVLGSGGVGKSALTIQFVQGH   24 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            47899999999999999987654

Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades

>cd03297 ABC_ModC_molybdenum_transporter ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB

Probab=93.95  E-value=0.051  Score=48.93  Aligned_cols=26  Identities=31%  Similarity=0.359  Sum_probs=23.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .. .+++|+|..|+|||||++.+....
T Consensus        22 ~~-e~~~i~G~nGsGKSTLl~~l~G~~   47 (214)
T cd03297          22 NE-EVTGIFGASGAGKSTLLRCIAGLE   47 (214)
T ss_pred             cc-eeEEEECCCCCCHHHHHHHHhCCC
Confidence            45 899999999999999999998765

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.

>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=93.95  E-value=0.05  Score=47.52  Aligned_cols=26  Identities=35%  Similarity=0.327  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|..|+|||||++.+....
T Consensus        25 ~G~~~~i~G~nGsGKSTLl~~l~G~~   50 (178)
T cd03229          25 AGEIVALLGPSGSGKSTLLRCIAGLE   50 (178)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999998654

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.

>cd01862 Rab7 Rab7 subfamily

Probab=93.94  E-value=0.042  Score=47.14  Aligned_cols=23  Identities=30%  Similarity=0.377  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|+|+|.+|+|||||+..+.+..
T Consensus         2 ki~viG~~~~GKSsl~~~l~~~~   24 (172)
T cd01862           2 KVIILGDSGVGKTSLMNQYVNKK   24 (172)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47899999999999999987653

Rab7 is a small Rab GTPase that regulates vesicular traffic from early to late endosomal stages of the endocytic pathway. The yeast Ypt7 and mammalian Rab7 are both involved in transport to the vacuole/lysosome, whereas Ypt7 is also required for homotypic vacuole fusion. Mammalian Rab7 is an essential participant in the autophagic pathway for sequestration and targeting of cytoplasmic components to the lytic compartment. Mammalian Rab7 is also proposed to function as a tumor suppressor. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=93.93  E-value=0.091  Score=50.59  Aligned_cols=36  Identities=22%  Similarity=0.340  Sum_probs=28.1

Q ss_pred             HHHHHHhh--cCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          107 NEVWRLVE--DNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       107 ~~l~~~L~--~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+++.+.  ..+..+|+|.|.+|+|||||+..+....
T Consensus        43 ~~l~~~~~~~~~~~~~igi~G~~GaGKSTl~~~l~~~l   80 (332)
T PRK09435         43 QELLDALLPHTGNALRIGITGVPGVGKSTFIEALGMHL   80 (332)
T ss_pred             HHHHHHHhhcCCCcEEEEEECCCCCCHHHHHHHHHHHH
Confidence            34455443  3567899999999999999999987766

>smart00072 GuKc Guanylate kinase homologues

Probab=93.93  E-value=0.052  Score=47.70  Aligned_cols=25  Identities=44%  Similarity=0.514  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+.|.|+|++|+|||||+..+....
T Consensus         2 ~r~ivl~Gpsg~GK~tl~~~L~~~~   26 (184)
T smart00072        2 RRPIVLSGPSGVGKGTLLAELIQEI   26 (184)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHhcC
Confidence            3689999999999999999998875

Active enzymes catalyze ATP-dependent phosphorylation of GMP to GDP. Structure resembles that of adenylate kinase. So-called membrane-associated guanylate kinase homologues (MAGUKs) do not possess guanylate kinase activities; instead at least some possess protein-binding functions.

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=93.93  E-value=0.079  Score=46.64  Aligned_cols=89  Identities=19%  Similarity=0.113  Sum_probs=47.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhHHHHHHHHHH-----HhcCCCCccCcCCHhHHHHHHHHHhCCC
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILVKRIQHVMGY-----RLAMSNEVWDDKTKQGRAIDSSRRLGQR  192 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv~~l~~~i~~-----~l~~~~~~~~~~~~~~~~~~l~~~L~~k  192 (414)
                      -..+.|+|..|+|||||++.+....   ... ...+-++...+--+.     ++................+.++..++..
T Consensus        25 g~~i~I~G~tGSGKTTll~aL~~~i---~~~-~~~i~ied~~E~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~lR~~  100 (186)
T cd01130          25 RKNILISGGTGSGKTTLLNALLAFI---PPD-ERIITIEDTAELQLPHPNWVRLVTRPGNVEGSGEVTMADLLRSALRMR  100 (186)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhc---CCC-CCEEEECCccccCCCCCCEEEEEEecCCCCCCCccCHHHHHHHHhccC
Confidence            4689999999999999999988765   111 111111000000000     0000000000111233455666677777


Q ss_pred             cEEEEEecCCCccchhhh
Q 043070          193 RFALLLDDLREPIDLKTA  210 (414)
Q Consensus       193 r~LlVlDdv~~~~~~~~~  210 (414)
                      +=.++++.+.+.+.+..+
T Consensus       101 pd~i~igEir~~ea~~~~  118 (186)
T cd01130         101 PDRIIVGEVRGGEALDLL  118 (186)
T ss_pred             CCEEEEEccCcHHHHHHH
Confidence            778888888887655433

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.

>PRK05688 fliI flagellum-specific ATP synthase; Validated

Probab=93.92  E-value=0.061  Score=53.72  Aligned_cols=26  Identities=19%  Similarity=0.174  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-..++|+|..|+|||||++.+....
T Consensus       167 ~GqrigI~G~sG~GKSTLl~~I~g~~  192 (451)
T PRK05688        167 RGQRLGLFAGTGVGKSVLLGMMTRFT  192 (451)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            44679999999999999999987654

>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=93.92  E-value=0.19  Score=46.84  Aligned_cols=90  Identities=12%  Similarity=0.132  Sum_probs=55.2

Q ss_pred             CCccchH-HHHHHHHHh----------hc--CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhHHHHHHHHHH
Q 043070           98 ENTVDVS-RLNEVWRLV----------ED--NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILVKRIQHVMGY  164 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L----------~~--~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv~~l~~~i~~  164 (414)
                      +++.|.| .++.|.+.+          +.  ...+-|.++|++|.||+-||++|+....  ...|...-  .++....  
T Consensus       133 sDVAGLE~AKeALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLAKAVATEAn--STFFSvSS--SDLvSKW--  206 (439)
T KOG0739|consen  133 SDVAGLEGAKEALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLAKAVATEAN--STFFSVSS--SDLVSKW--  206 (439)
T ss_pred             hhhccchhHHHHHHhheeecccchhhhcCCCCcceeEEEeCCCCCcHHHHHHHHHhhcC--CceEEeeh--HHHHHHH--
Confidence            3456888 888888875          11  2367899999999999999999998772  33342210  1111111  


Q ss_pred             HhcCCCCccCcCCHhHHHHHHHHHh-CCCcEEEEEecCCC
Q 043070          165 RLAMSNEVWDDKTKQGRAIDSSRRL-GQRRFALLLDDLRE  203 (414)
Q Consensus       165 ~l~~~~~~~~~~~~~~~~~~l~~~L-~~kr~LlVlDdv~~  203 (414)
                       +|         .-+.+...|.+.- ++|...|.+|.++.
T Consensus       207 -mG---------ESEkLVknLFemARe~kPSIIFiDEiDs  236 (439)
T KOG0739|consen  207 -MG---------ESEKLVKNLFEMARENKPSIIFIDEIDS  236 (439)
T ss_pred             -hc---------cHHHHHHHHHHHHHhcCCcEEEeehhhh
Confidence             11         1123344444433 45888888998864

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=93.92  E-value=0.25  Score=47.87  Aligned_cols=52  Identities=23%  Similarity=0.135  Sum_probs=32.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcC----CCCcchHhH-------HHHHHHHHHHhcCC
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTR----HNFGLVILV-------KRIQHVMGYRLAMS  169 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~----~~F~~~~wv-------~~l~~~i~~~l~~~  169 (414)
                      .-.++-|+|.+|+|||+|+..++-.. ...    ..-...+||       .+=+.++++.++..
T Consensus       125 ~G~ItEI~G~~GsGKTql~lqlav~~-qlp~~~gg~~~~vvyIdTE~tF~peRl~~ia~~~g~d  187 (344)
T PLN03187        125 TRCITEAFGEFRSGKTQLAHTLCVTT-QLPTEMGGGNGKVAYIDTEGTFRPDRIVPIAERFGMD  187 (344)
T ss_pred             CCeEEEEecCCCCChhHHHHHHHHHH-hcchhhCCCCceEEEEEcCCCCCHHHHHHHHHHcCCC
Confidence            45788899999999999999886433 111    111345677       23344566666543

>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A

Probab=93.91  E-value=0.16  Score=47.62  Aligned_cols=37  Identities=32%  Similarity=0.413  Sum_probs=28.5

Q ss_pred             HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          105 RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       105 ~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ....+++.+...+ +-+.++|+.|+|||++++...+..
T Consensus        21 r~~~ll~~l~~~~-~pvLl~G~~GtGKT~li~~~l~~l   57 (272)
T PF12775_consen   21 RYSYLLDLLLSNG-RPVLLVGPSGTGKTSLIQNFLSSL   57 (272)
T ss_dssp             HHHHHHHHHHHCT-EEEEEESSTTSSHHHHHHHHHHCS
T ss_pred             HHHHHHHHHHHcC-CcEEEECCCCCchhHHHHhhhccC
Confidence            4556666665554 456899999999999999988765

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=93.87  E-value=0.2  Score=46.84  Aligned_cols=47  Identities=19%  Similarity=0.089  Sum_probs=32.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH------HHHHHHHHHH
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV------KRIQHVMGYR  165 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv------~~l~~~i~~~  165 (414)
                      .-.++.|.|.+|+||||++.+++....  ..+=..++|+      .++...+...
T Consensus        29 ~g~~~~i~g~~G~GKT~l~~~~~~~~~--~~~g~~vl~iS~E~~~~~~~~r~~~~   81 (271)
T cd01122          29 KGELIILTAGTGVGKTTFLREYALDLI--TQHGVRVGTISLEEPVVRTARRLLGQ   81 (271)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHH--HhcCceEEEEEcccCHHHHHHHHHHH
Confidence            345889999999999999999877661  2212345566      4555555444

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=93.86  E-value=0.052  Score=49.41  Aligned_cols=26  Identities=27%  Similarity=0.253  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-..|+|+|++|+|||||-+.++--.
T Consensus        28 ~GEfvsilGpSGcGKSTLLriiAGL~   53 (248)
T COG1116          28 KGEFVAILGPSGCGKSTLLRLIAGLE   53 (248)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999998544

>cd02026 PRK Phosphoribulokinase (PRK) is an enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes

Probab=93.84  E-value=0.046  Score=51.30  Aligned_cols=23  Identities=43%  Similarity=0.554  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +|+|.|..|+|||||++.+....
T Consensus         1 iigI~G~sGsGKSTl~~~L~~ll   23 (273)
T cd02026           1 IIGVAGDSGCGKSTFLRRLTSLF   23 (273)
T ss_pred             CEEEECCCCCCHHHHHHHHHHhh
Confidence            58999999999999999998765

This enzyme catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH produced by the primary reactions of photosynthesis.

>PRK04220 2-phosphoglycerate kinase; Provisional

Probab=93.82  E-value=0.096  Score=49.49  Aligned_cols=27  Identities=26%  Similarity=0.509  Sum_probs=24.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+-+|.|.|.+|+||||+|..+++..
T Consensus        90 ~~p~iIlI~G~sgsGKStlA~~La~~l  116 (301)
T PRK04220         90 KEPIIILIGGASGVGTSTIAFELASRL  116 (301)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            345689999999999999999999887

>cd04163 Era Era subfamily

Probab=93.81  E-value=0.056  Score=45.60  Aligned_cols=25  Identities=28%  Similarity=0.395  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+|+++|..|+|||||...+....
T Consensus         3 ~~~i~~~G~~g~GKttl~~~l~~~~   27 (168)
T cd04163           3 SGFVAIVGRPNVGKSTLLNALVGQK   27 (168)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCc
Confidence            3579999999999999999987543

Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly by chaperoning the 16S rRNA. It also contacts several assembly elements of the 30S subunit. Era couples cell growth with cytokinesis and plays a role in cell division and energy metabolism. Homologs have also been found in eukaryotes. Era contains two domains: the N-terminal GTPase domain and a C-terminal domain KH domain that is critical for RNA binding. Both domains are important for Era function. Era is functionally able to compensate for deletion of RbfA, a cold-shock adaptation protein that is required for efficient processing of the 16S rRNA.

>cd02034 CooC The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH)

Probab=93.81  E-value=0.064  Score=43.34  Aligned_cols=22  Identities=32%  Similarity=0.465  Sum_probs=20.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhh
Q 043070          121 ICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       121 i~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      |.+.|.||+||||++..+++..
T Consensus         2 i~~~GkgG~GKTt~a~~la~~l   23 (116)
T cd02034           2 IAITGKGGVGKTTIAALLARYL   23 (116)
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            7899999999999999998876

CODH from Rhodospirillum rubrum catalyzes the reversible oxidation of CO to CO2. CODH contains a nickel-iron-sulfur cluster (C-center) and an iron-sulfur cluster (B-center). CO oxidation occurs at the C-center. Three accessory proteins encoded by cooCTJ genes are involved in nickel incorporation into a nickel site. CooC functions as a nickel insertase that mobilizes nickel to apoCODH using energy released from ATP hydrolysis. CooC is a homodimer and has NTPase activities. Mutation at the P-loop abolishs its function.

>COG3840 ThiQ ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]

Probab=93.78  E-value=0.24  Score=43.00  Aligned_cols=26  Identities=31%  Similarity=0.298  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|++|.||+||-..|+--.
T Consensus        24 ~ge~vAi~GpSGaGKSTLLnLIAGF~   49 (231)
T COG3840          24 AGEIVAILGPSGAGKSTLLNLIAGFE   49 (231)
T ss_pred             CCcEEEEECCCCccHHHHHHHHHhcc
Confidence            34689999999999999999987543

>TIGR01041 ATP_syn_B_arch ATP synthase archaeal, B subunit

Probab=93.78  E-value=0.12  Score=51.78  Aligned_cols=93  Identities=14%  Similarity=0.136  Sum_probs=51.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCc--chHhH---------HHHHHHHHHHhcCCCCcc----CcC-CH--
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFG--LVILV---------KRIQHVMGYRLAMSNEVW----DDK-TK--  178 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~--~~~wv---------~~l~~~i~~~l~~~~~~~----~~~-~~--  178 (414)
                      .-..++|.|-.|+|||||+.++.+.. ...+.+.  .++++         .++++.+...-.......    .+. ..  
T Consensus       140 ~GQR~gIfgg~G~GKs~L~~~ia~~~-~ad~~~~~~v~V~~~iGERgrEv~efi~~~~~~~~l~rtvvv~atsd~p~~~R  218 (458)
T TIGR01041       140 RGQKLPIFSGSGLPHNELAAQIARQA-TVRGEESEFAVVFAAMGITYEEANFFMKDFEETGALERAVVFLNLADDPAVER  218 (458)
T ss_pred             cCCEEEeeCCCCCCHHHHHHHHHHhh-cccCCCCceEEEEEEccccchHHHHHHHHHHhcCCcceEEEEEECCCCCHHHH
Confidence            34578999999999999999999876 2221221  22233         344444443211111000    011 11  


Q ss_pred             ---hHHHHHHHHHhC---CCcEEEEEecCCCcc-chhhh
Q 043070          179 ---QGRAIDSSRRLG---QRRFALLLDDLREPI-DLKTA  210 (414)
Q Consensus       179 ---~~~~~~l~~~L~---~kr~LlVlDdv~~~~-~~~~~  210 (414)
                         -...-.+.++++   ++++||++||+-.-. ...++
T Consensus       219 ~~a~~~a~tiAEyfr~d~G~~VLli~DslTR~A~A~REI  257 (458)
T TIGR01041       219 IVTPRMALTAAEYLAFEKDMHVLVILTDMTNYCEALREI  257 (458)
T ss_pred             HHHHHHHHHHHHHHHHccCCcEEEEEcChhHHHHHHHHH
Confidence               112223556665   689999999986543 44444

Archaeal ATP synthase shares extensive sequence similarity with eukaryotic and prokaryotic V-type (H+)-ATPases.

>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=93.77  E-value=0.055  Score=51.80  Aligned_cols=25  Identities=32%  Similarity=0.462  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+++.+.|.||+||||+|.+.+-..
T Consensus         2 ~riv~f~GKGGVGKTT~aaA~A~~l   26 (322)
T COG0003           2 TRIVFFTGKGGVGKTTIAAATAVKL   26 (322)
T ss_pred             cEEEEEecCCcccHHHHHHHHHHHH
Confidence            4789999999999999998866554

>COG4987 CydC ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]

Probab=93.77  E-value=0.18  Score=50.73  Aligned_cols=25  Identities=32%  Similarity=0.304  Sum_probs=21.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      +-.-|+|+|..|+|||||++.+...
T Consensus       363 ~GEkvAIlG~SGsGKSTllqLl~~~  387 (573)
T COG4987         363 QGEKVAILGRSGSGKSTLLQLLAGA  387 (573)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHhc
Confidence            3457999999999999999999853

>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=93.76  E-value=0.054  Score=47.31  Aligned_cols=26  Identities=27%  Similarity=0.299  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|..|+|||||.+.+....
T Consensus        24 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~   49 (177)
T cd03222          24 EGEVIGIVGPNGTGKTTAVKILAGQL   49 (177)
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcCC
Confidence            44699999999999999999998754

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.

>PRK13231 nitrogenase reductase-like protein; Reviewed

Probab=93.76  E-value=0.051  Score=50.69  Aligned_cols=24  Identities=25%  Similarity=0.498  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++|+|.|-||+||||+|..++...
T Consensus         3 ~~iav~~KGGvGKTT~a~nLA~~L   26 (264)
T PRK13231          3 KKIAIYGKGGIGKSTTVSNMAAAY   26 (264)
T ss_pred             eEEEEECCCCCcHHHHHHHHhccc
Confidence            689999999999999999998876

>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=93.74  E-value=0.053  Score=49.59  Aligned_cols=26  Identities=31%  Similarity=0.323  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|..|+|||||++.+....
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~l~G~~   50 (235)
T cd03261          25 RGEILAIIGPSGSGKSTLLRLIVGLL   50 (235)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999998755

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.

>COG2842 Uncharacterized ATPase, putative transposase [General function prediction only]

Probab=93.73  E-value=0.3  Score=45.61  Aligned_cols=95  Identities=13%  Similarity=0.097  Sum_probs=62.3

Q ss_pred             CCccchHHHHHHHHHhhc--CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH---------HHHHHHHHHHh
Q 043070           98 ENTVDVSRLNEVWRLVED--NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV---------KRIQHVMGYRL  166 (414)
Q Consensus        98 ~~~vGr~~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv---------~~l~~~i~~~l  166 (414)
                      +.|+|..-..++..++..  ..-+.+.++|+.|+|||+-++.+++..        +.+|+         ..+...+....
T Consensus        72 ~~~l~tkt~r~~~~~~~~A~k~g~l~~vyg~~g~gKt~a~~~y~~s~--------p~~~l~~~~p~~~a~~~i~~i~~~~  143 (297)
T COG2842          72 PDFLETKTVRRIFFRTRPASKTGSLVVVYGYAGLGKTQAAKNYAPSN--------PNALLIEADPSYTALVLILIICAAA  143 (297)
T ss_pred             ccccccchhHhHhhhhhhhhhcCceEEEeccccchhHHHHHhhcccC--------ccceeecCChhhHHHHHHHHHHHHH
Confidence            456665544555555522  233488999999999999999999876        23344         23333333333


Q ss_pred             cCCCCccCcCCHhHHHHHHHHHhCCCcEEEEEecCCCc
Q 043070          167 AMSNEVWDDKTKQGRAIDSSRRLGQRRFALLLDDLREP  204 (414)
Q Consensus       167 ~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~  204 (414)
                      ...    ...........+...+.+..-+++.|+....
T Consensus       144 ~~~----~~~~~~d~~~~~~~~l~~~~~~iivDEA~~L  177 (297)
T COG2842         144 FGA----TDGTINDLTERLMIRLRDTVRLIIVDEADRL  177 (297)
T ss_pred             hcc----cchhHHHHHHHHHHHHccCcceeeeehhhcc
Confidence            222    3345666777788888999999999988765

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=93.73  E-value=0.056  Score=48.51  Aligned_cols=26  Identities=27%  Similarity=0.203  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|..|+|||||++.+....
T Consensus        25 ~G~~~~i~G~nGsGKSTLl~~l~G~~   50 (210)
T cd03269          25 KGEIFGLLGPNGAGKTTTIRMILGII   50 (210)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999998765

In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd04155 Arl3 Arl3 subfamily

Probab=93.73  E-value=0.083  Score=45.43  Aligned_cols=27  Identities=30%  Similarity=0.347  Sum_probs=22.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+...|+|+|.+|+|||||.+.+....
T Consensus        12 ~~~~~v~i~G~~g~GKStLl~~l~~~~   38 (173)
T cd04155          12 SEEPRILILGLDNAGKTTILKQLASED   38 (173)
T ss_pred             CCccEEEEEccCCCCHHHHHHHHhcCC
Confidence            344579999999999999999998753

Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation.

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=93.73  E-value=0.055  Score=48.65  Aligned_cols=26  Identities=35%  Similarity=0.281  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|..|+|||||++.+....
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03259          25 PGEFLALLGPSGCGKTTLLRLIAGLE   50 (213)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999998754

This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. 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.

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=93.72  E-value=0.056  Score=47.92  Aligned_cols=25  Identities=24%  Similarity=0.368  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.+++|+|..|.|||||++.+....
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~l~G~~   50 (195)
T PRK13541         26 SAITYIKGANGCGKSSLLRMIAGIM   50 (195)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcCC
Confidence            4589999999999999999998765

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=93.71  E-value=0.048  Score=45.42  Aligned_cols=23  Identities=35%  Similarity=0.392  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|+++|.+|+|||||...+....
T Consensus         3 ki~~~G~~~~GKstl~~~l~~~~   25 (161)
T TIGR00231         3 KIVIVGDPNVGKSTLLNRLLGNK   25 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58899999999999998887654

This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model.

>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily

Probab=93.71  E-value=0.054  Score=45.76  Aligned_cols=23  Identities=22%  Similarity=0.384  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|+|+|.+|+|||||...+.+..
T Consensus         3 ki~iiG~~~vGKTsl~~~~~~~~   25 (162)
T cd04138           3 KLVVVGAGGVGKSALTIQLIQNH   25 (162)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            37899999999999999887654

H-Ras, N-Ras, and K-Ras4A/4B are the prototypical members of the Ras family. These isoforms generate distinct signal outputs despite interacting with a common set of activators and effectors, and are strongly associated with oncogenic progression in tumor initiation. Mutated versions of Ras that are insensitive to GAP stimulation (and are therefore constitutively active) are found in a significant fraction of human cancers. Many Ras guanine nucleotide exchange factors (GEFs) have been identified. They are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active (GTP-bound) Ras interacts with several effector proteins that stimulate a variety of diverse cytoplasmic signaling activities. Some are known to positively mediate the oncogenic properties of Ras, including Raf, phosphatidylinositol 3-kinase (PI3K), RalGEFs, and Tiam1.

>smart00178 SAR Sar1p-like members of the Ras-family of small GTPases

Probab=93.70  E-value=0.088  Score=46.16  Aligned_cols=35  Identities=29%  Similarity=0.309  Sum_probs=26.3

Q ss_pred             HHHHHHhhc-CCceEEEEEcCCCCcHHHHHHHHHHh
Q 043070          107 NEVWRLVED-NSVRIICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       107 ~~l~~~L~~-~~~~vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      ..+..++.. .....|+|+|.+|+|||||...+...
T Consensus         5 ~~~~~~~~~~~~~~~i~ivG~~~~GKTsli~~l~~~   40 (184)
T smart00178        5 YDILASLGLWNKHAKILFLGLDNAGKTTLLHMLKND   40 (184)
T ss_pred             HHHHHHhccccccCEEEEECCCCCCHHHHHHHHhcC
Confidence            445565642 44467889999999999999888754

Yeast SAR1 is an essential gene required for transport of secretory proteins from the endoplasmic reticulum to the Golgi apparatus.

>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop

Probab=93.70  E-value=0.14  Score=41.74  Aligned_cols=27  Identities=30%  Similarity=0.391  Sum_probs=23.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-.||.+.|.=|+||||+++.+.+..
T Consensus        13 ~~g~vi~L~GdLGaGKTtf~r~l~~~l   39 (123)
T PF02367_consen   13 KPGDVILLSGDLGAGKTTFVRGLARAL   39 (123)
T ss_dssp             SS-EEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHc
Confidence            344799999999999999999999877

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.

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=93.68  E-value=0.057  Score=48.60  Aligned_cols=26  Identities=38%  Similarity=0.379  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|..|+|||||++.+....
T Consensus        27 ~G~~~~l~G~nGsGKSTLl~~i~Gl~   52 (214)
T TIGR02673        27 KGEFLFLTGPSGAGKTTLLKLLYGAL   52 (214)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999988654

This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=93.68  E-value=0.057  Score=48.83  Aligned_cols=26  Identities=35%  Similarity=0.327  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|..|+|||||++.++...
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (220)
T cd03263          27 KGEIFGLLGHNGAGKTTTLKMLTGEL   52 (220)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999999765

Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency, degenerative retinopathies, and congenital keratinization disorders. The ABCA1 protein is involved in disorders of cholesterol transport and high-density lipoprotein (HDL) biosynthesis. The ABCA4 (ABCR) protein transports vitamin A derivatives in the outer segments of photoreceptor cells, and therefore, performs a crucial step in the visual cycle. The ABCA genes are not present in yeast. However, evolutionary studies of ABCA genes indicate that they arose as transporters that subsequently duplicated and that certain sets of ABCA genes were lost in different eukaryotic lineages.

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=93.68  E-value=0.055  Score=49.72  Aligned_cols=26  Identities=31%  Similarity=0.424  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|..|+|||||++.++...
T Consensus        27 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~   52 (243)
T TIGR02315        27 PGEFVAIIGPSGAGKSTLLRCINRLV   52 (243)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            34689999999999999999998654

Phosphonates are a class of phosphorus-containing organic compound with a stable direct C-P bond rather than a C-O-P linkage. A number of bacterial species have operons, typically about 14 genes in size, with genes for ATP-dependent transport of phosphonates, degradation, and regulation of the expression of the system. Members of this protein family are the ATP-binding cassette component of tripartite ABC transporters of phosphonates.

>cd04113 Rab4 Rab4 subfamily

Probab=93.67  E-value=0.054  Score=46.00  Aligned_cols=22  Identities=27%  Similarity=0.326  Sum_probs=19.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhh
Q 043070          121 ICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       121 i~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      |.|+|.+|+|||||+..+.+..
T Consensus         3 i~v~G~~~vGKTsli~~l~~~~   24 (161)
T cd04113           3 FIIIGSSGTGKSCLLHRFVENK   24 (161)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7899999999999999987654

Rab4 has been implicated in numerous functions within the cell. It helps regulate endocytosis through the sorting, recycling, and degradation of early endosomes. Mammalian Rab4 is involved in the regulation of many surface proteins including G-protein-coupled receptors, transferrin receptor, integrins, and surfactant protein A. Experimental data implicate Rab4 in regulation of the recycling of internalized receptors back to the plasma membrane. It is also believed to influence receptor-mediated antigen processing in B-lymphocytes, in calcium-dependent exocytosis in platelets, in alpha-amylase secretion in pancreatic cells, and in insulin-induced translocation of Glut4 from internal vesicles to the cell surface. Rab4 is known to share effector proteins with Rab5 and Rab11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to p

>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system

Probab=93.67  E-value=0.056  Score=49.60  Aligned_cols=26  Identities=38%  Similarity=0.406  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|..|+|||||++.++...
T Consensus        26 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   51 (241)
T cd03256          26 PGEFVALIGPSGAGKSTLLRCLNGLV   51 (241)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            34689999999999999999998654

Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all kingdoms of wildlife, but only procaryotic microorganisms are able to cleave this bond. Certain bacteria such as E. coli can use alkylphosphonates as a phosphorus source. 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.

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=93.65  E-value=0.053  Score=48.71  Aligned_cols=23  Identities=35%  Similarity=0.319  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +++|+|..|+|||||++.++...
T Consensus        27 ~~~i~G~nGsGKSTLl~~l~Gl~   49 (211)
T cd03264          27 MYGLLGPNGAGKTTLMRILATLT   49 (211)
T ss_pred             cEEEECCCCCCHHHHHHHHhCCC
Confidence            89999999999999999998754

The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. 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.

>PRK00023 cmk cytidylate kinase; Provisional

Probab=93.64  E-value=0.07  Score=48.60  Aligned_cols=24  Identities=33%  Similarity=0.421  Sum_probs=22.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+|+|.|+.|+||||+|+.+....
T Consensus         5 ~~i~i~g~~gsGksti~~~la~~~   28 (225)
T PRK00023          5 IVIAIDGPAGSGKGTVAKILAKKL   28 (225)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            689999999999999999999887

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=93.64  E-value=0.1  Score=54.14  Aligned_cols=46  Identities=15%  Similarity=0.158  Sum_probs=39.0

Q ss_pred             CCCccchH-HHHHHHHHhhcCC-ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           97 MENTVDVS-RLNEVWRLVEDNS-VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -++++|.+ .++.+.+++...+ ...+.++|+.|+||||+|+.+.+..
T Consensus        15 f~~viGq~~v~~~L~~~i~~~~~~hayLf~Gp~GtGKTt~Ak~lAkal   62 (559)
T PRK05563         15 FEDVVGQEHITKTLKNAIKQGKISHAYLFSGPRGTGKTSAAKIFAKAV   62 (559)
T ss_pred             HHhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            36789999 9999999997654 4457789999999999999998765

>cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively

Probab=93.64  E-value=0.058  Score=48.81  Aligned_cols=25  Identities=32%  Similarity=0.279  Sum_probs=22.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.+++|+|..|+|||||++.++...
T Consensus        30 G~~~~i~G~nGsGKSTLl~~l~Gl~   54 (220)
T cd03293          30 GEFVALVGPSGCGKSTLLRIIAGLE   54 (220)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCC
Confidence            3689999999999999999998754

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.

>PRK05537 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated

Probab=93.63  E-value=0.12  Score=53.70  Aligned_cols=43  Identities=21%  Similarity=0.208  Sum_probs=30.3

Q ss_pred             ccchH-HHHHHHHHhhc--CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          100 TVDVS-RLNEVWRLVED--NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       100 ~vGr~-~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+.|. -.+.|.+....  .+..+|.|+|++|+||||+|+.++...
T Consensus       371 ~f~rpeV~~iL~~~~~~r~~~g~~Ivl~Gl~GSGKSTia~~La~~L  416 (568)
T PRK05537        371 WFSFPEVVAELRRTYPPRHKQGFTVFFTGLSGAGKSTIAKALMVKL  416 (568)
T ss_pred             hhcHHHHHHHHHHHhccccCCCeEEEEECCCCChHHHHHHHHHHHh
Confidence            33455 33344444322  345689999999999999999999887

>TIGR00750 lao LAO/AO transport system ATPase

Probab=93.63  E-value=0.097  Score=49.88  Aligned_cols=27  Identities=26%  Similarity=0.409  Sum_probs=24.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ....+|+|+|.+|+|||||+..+....
T Consensus        32 ~~~~~i~i~G~~G~GKttl~~~l~~~~   58 (300)
T TIGR00750        32 GNAHRVGITGTPGAGKSTLLEALGMEL   58 (300)
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHHH
Confidence            567899999999999999999988765

Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.

>TIGR03496 FliI_clade1 flagellar protein export ATPase FliI

Probab=93.63  E-value=0.096  Score=51.98  Aligned_cols=26  Identities=23%  Similarity=0.201  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-..++|+|..|+|||||.+.+.+..
T Consensus       136 ~Gq~~~I~G~sG~GKTtLl~~I~~~~  161 (411)
T TIGR03496       136 RGQRMGIFAGSGVGKSTLLGMMARYT  161 (411)
T ss_pred             cCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            44679999999999999999888765

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.

>CHL00060 atpB ATP synthase CF1 beta subunit

Probab=93.62  E-value=0.12  Score=52.17  Aligned_cols=92  Identities=15%  Similarity=0.204  Sum_probs=52.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH---------HHHHHHHHHHhcCCC------Cc---cCcCCH
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV---------KRIQHVMGYRLAMSN------EV---WDDKTK  178 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv---------~~l~~~i~~~l~~~~------~~---~~~~~~  178 (414)
                      .-..++|.|-.|+|||||+.++.....  +.+=+.++++         .++.+.++..-....      ..   ....+.
T Consensus       160 kGQR~gIfgg~GvGKs~L~~~~~~~~~--~~~~dv~V~~lIGERgrEv~efi~~~~~~~~~~~~~~~~~rsvvv~atsd~  237 (494)
T CHL00060        160 RGGKIGLFGGAGVGKTVLIMELINNIA--KAHGGVSVFGGVGERTREGNDLYMEMKESGVINEQNIAESKVALVYGQMNE  237 (494)
T ss_pred             cCCEEeeecCCCCChhHHHHHHHHHHH--HhcCCeEEEEEeccCchHHHHHHHHHHhcCccccCcccccceEEEEECCCC
Confidence            346799999999999999999888741  1212455555         344444444111000      00   011111


Q ss_pred             h--------HHHHHHHHHhC--CC-cEEEEEecCCCcc-chhhh
Q 043070          179 Q--------GRAIDSSRRLG--QR-RFALLLDDLREPI-DLKTA  210 (414)
Q Consensus       179 ~--------~~~~~l~~~L~--~k-r~LlVlDdv~~~~-~~~~~  210 (414)
                      .        ...-.+.++++  ++ ++||++||+-... ...++
T Consensus       238 p~~~R~~a~~~A~tiAEyfrd~g~~~VLll~DslTR~A~A~REI  281 (494)
T CHL00060        238 PPGARMRVGLTALTMAEYFRDVNKQDVLLFIDNIFRFVQAGSEV  281 (494)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHcCCCCEEEEcccchHHHHHHHHH
Confidence            1        22334667773  44 9999999996553 44444

>TIGR02016 BchX chlorophyllide reductase iron protein subunit X

Probab=93.62  E-value=0.06  Score=51.21  Aligned_cols=24  Identities=33%  Similarity=0.419  Sum_probs=21.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++|+|+|-||+||||+|..+..-.
T Consensus         1 ~vIav~gKGGvGKTT~a~nLA~~L   24 (296)
T TIGR02016         1 RIIAIYGKGGSGKSFTTTNLSHMM   24 (296)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            578999999999999999888766

This model represents the X subunit of the three-subunit enzyme, (bacterio)chlorophyllide reductase. This enzyme is responsible for the reduction of the chlorin B-ring and is closely related to the protochlorophyllide reductase complex which reduces the D-ring. Both of these complexes in turn are homologous to nitrogenase. This subunit is homologous to the nitrogenase component II, or "iron" protein.

>TIGR01281 DPOR_bchL light-independent protochlorophyllide reductase, iron-sulfur ATP-binding protein

Probab=93.61  E-value=0.059  Score=50.36  Aligned_cols=23  Identities=35%  Similarity=0.524  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +|++.|-||+||||+|..++...
T Consensus         2 ~i~~~gKGGVGKTT~~~nLA~~L   24 (268)
T TIGR01281         2 ILAVYGKGGIGKSTTSSNLSVAF   24 (268)
T ss_pred             EEEEEcCCcCcHHHHHHHHHHHH
Confidence            68888999999999888877655

The BchL peptide (ChlL in chloroplast and cyanobacteria) is an ATP-binding iron-sulfur protein of the dark form protochlorophyllide reductase, an enzyme similar to nitrogenase. This subunit resembles the nitrogenase NifH subunit.

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=93.61  E-value=0.083  Score=55.81  Aligned_cols=45  Identities=13%  Similarity=0.263  Sum_probs=38.5

Q ss_pred             CCccchH-HHHHHHHHhhcCCc-eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVEDNSV-RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+++|.+ .++.|.+++..+++ ..+.++|+.|+||||+|+.+++..
T Consensus        18 ~dIiGQe~~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~AriLAk~L   64 (725)
T PRK07133         18 DDIVGQDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIFANAL   64 (725)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHh
Confidence            5689999 89999999977554 466899999999999999998876

>cd02032 Bchl_like This family of proteins contains bchL and chlL

Probab=93.61  E-value=0.06  Score=50.32  Aligned_cols=23  Identities=26%  Similarity=0.439  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +|+|.|-||+||||+|..++...
T Consensus         2 ~i~v~gKGGvGKTT~a~nLA~~l   24 (267)
T cd02032           2 VLAVYGKGGIGKSTTSSNLSVAL   24 (267)
T ss_pred             EEEEecCCCCCHHHHHHHHHHHH
Confidence            68999999999999988877665

Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are involved in light-independent protochlorophyllide reduction in bacteriochlorophyll biosynthesis. In cyanobacteria, algae, and gymnosperms, three similar genes, chlL, chlN and chlB are involved in protochlorophyllide reduction during chlorophylls biosynthesis. BchL/chlL, bchN/chlN and bchB/chlB exhibit significant sequence similarity to the nifH, nifD and nifK subunits of nitrogenase, respectively. Nitrogenase catalyzes the reductive formation of ammonia from dinitrogen.

>PLN02459 probable adenylate kinase

Probab=93.60  E-value=0.22  Score=46.14  Aligned_cols=24  Identities=25%  Similarity=0.248  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..|.|.|++|+||||+|..+...+
T Consensus        30 ~~ii~~G~PGsGK~T~a~~la~~~   53 (261)
T PLN02459         30 VNWVFLGCPGVGKGTYASRLSKLL   53 (261)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            347778999999999999999877

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=93.58  E-value=0.057  Score=49.80  Aligned_cols=26  Identities=31%  Similarity=0.290  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +-.+++|+|+.|+|||||.+.++.-.
T Consensus        27 ~G~i~~iiGpNG~GKSTLLk~l~g~l   52 (258)
T COG1120          27 KGEITGILGPNGSGKSTLLKCLAGLL   52 (258)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhccC
Confidence            45799999999999999999999865

>cd01132 F1_ATPase_alpha F1 ATP synthase alpha, central domain

Probab=93.58  E-value=0.14  Score=47.66  Aligned_cols=26  Identities=15%  Similarity=0.091  Sum_probs=20.2

Q ss_pred             CceEEEEEcCCCCcHHHHH-HHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLL-YNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA-~~v~~~~  142 (414)
                      +-..++|.|..|+|||+|| ..+.+..
T Consensus        68 rGQr~~Ifg~~g~GKt~L~l~~i~~~~   94 (274)
T cd01132          68 RGQRELIIGDRQTGKTAIAIDTIINQK   94 (274)
T ss_pred             cCCEEEeeCCCCCCccHHHHHHHHHhc
Confidence            3467899999999999996 5565543

The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The alpha subunit of the F1 ATP synthase can bind nucleotides, but is non-catalytic.

>cd03260 ABC_PstB_phosphate_transporter Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient

Probab=93.57  E-value=0.061  Score=48.90  Aligned_cols=26  Identities=42%  Similarity=0.382  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|..|+|||||++.+....
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~i~G~~   50 (227)
T cd03260          25 KGEITALIGPSGCGKSTLLRLLNRLN   50 (227)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            34689999999999999999998654

The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein is a phosphate-binding protein located in the periplasmic space. P stA and PstC are hydrophobic and they form the transmembrane portion of the Pst system. PstB is the catalytic subunit, which couples the energy of ATP hydrolysis to the import of phosphate across cellular membranes through the Pst system, often referred as ABC-protein. PstB belongs to one of the largest superfamilies of proteins characterized by a highly conserved adenosine triphosphate (ATP) binding cassette (ABC), which is also a nucleotide binding domain (NBD).

>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane

Probab=93.57  E-value=0.061  Score=48.35  Aligned_cols=26  Identities=35%  Similarity=0.346  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|..|+|||||.+.++...
T Consensus        26 ~G~~~~i~G~nGsGKSTLl~~l~G~~   51 (214)
T cd03292          26 AGEFVFLVGPSGAGKSTLLKLIYKEE   51 (214)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34689999999999999999998765

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

>smart00175 RAB Rab subfamily of small GTPases

Probab=93.54  E-value=0.055  Score=45.91  Aligned_cols=23  Identities=35%  Similarity=0.394  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|+++|.+|+|||||.+.+.+..
T Consensus         2 kv~v~G~~~~GKTtli~~l~~~~   24 (164)
T smart00175        2 KIILIGDSGVGKSSLLSRFTDGK   24 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            37899999999999999998654

Rab GTPases are implicated in vesicle trafficking.

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=93.53  E-value=0.056  Score=48.59  Aligned_cols=26  Identities=23%  Similarity=0.310  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|..|+|||||++.+....
T Consensus        24 ~Ge~~~l~G~nGsGKSTLl~~l~G~~   49 (213)
T cd03235          24 PGEFLAIVGPNGAGKSTLLKAILGLL   49 (213)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcCCC
Confidence            34689999999999999999998754

This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-siderophore uptake family suggesting that they share a common ancestor. The best characterized metal-type ABC transporters are the YfeABCD system of Y. pestis, the SitABCD system of Salmonella enterica serovar Typhimurium, and the SitABCD transporter of Shigella flexneri. Moreover other uncharacterized homologs of these metal-type transporters are mainly found in pathogens like Haemophilus or enteroinvasive E. coli isolates.

>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=93.52  E-value=0.063  Score=46.84  Aligned_cols=24  Identities=29%  Similarity=0.277  Sum_probs=21.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHH
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNK  140 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~  140 (414)
                      .-.+++|+|..|+|||||.+.+..
T Consensus        20 ~G~~~~l~G~nG~GKSTLl~~il~   43 (176)
T cd03238          20 LNVLVVVTGVSGSGKSTLVNEGLY   43 (176)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhh
Confidence            446899999999999999998864

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.

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=93.49  E-value=0.1  Score=50.28  Aligned_cols=45  Identities=18%  Similarity=0.141  Sum_probs=37.2

Q ss_pred             CCccchH-HHHHHHHHhhc--CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVED--NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..++|.. .+.++.+.+..  ....-|.|+|..|+||+++|+.++...
T Consensus         6 ~~liG~S~~~~~~~~~i~~~a~~~~pVlI~GE~GtGK~~lA~~iH~~s   53 (326)
T PRK11608          6 DNLLGEANSFLEVLEQVSRLAPLDKPVLIIGERGTGKELIASRLHYLS   53 (326)
T ss_pred             CccEECCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhC
Confidence            4688999 99999888844  344578899999999999999998655

>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional

Probab=93.49  E-value=0.064  Score=48.79  Aligned_cols=26  Identities=38%  Similarity=0.248  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|..|+|||||++.++...
T Consensus        35 ~Ge~~~i~G~nGsGKSTLl~~i~Gl~   60 (228)
T PRK10584         35 RGETIALIGESGSGKSTLLAILAGLD   60 (228)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHcCC
Confidence            44799999999999999999998765

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=93.49  E-value=0.1  Score=45.15  Aligned_cols=35  Identities=26%  Similarity=0.410  Sum_probs=25.4

Q ss_pred             HHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          108 EVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       108 ~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+.+++.......|+++|.+|+|||||...+....
T Consensus         5 ~~~~~~~~~~~~kv~~~G~~~~GKTsl~~~l~~~~   39 (174)
T cd04153           5 SLWSLFFPRKEYKVIIVGLDNAGKTTILYQFLLGE   39 (174)
T ss_pred             HHHHHhcCCCccEEEEECCCCCCHHHHHHHHccCC
Confidence            44555533344578899999999999998886543

Arl5 (Arf-like 5) and Arl8, like Arl4 and Arl7, are localized to the nucleus and nucleolus. Arl5 is developmentally regulated during embryogenesis in mice. Human Arl5 interacts with the heterochromatin protein 1-alpha (HP1alpha), a nonhistone chromosomal protein that is associated with heterochromatin and telomeres, and prevents telomere fusion. Arl5 may also play a role in embryonic nuclear dynamics and/or signaling cascades. Arl8 was identified from a fetal cartilage cDNA library. It is found in brain, heart, lung, cartilage, and kidney. No function has been assigned for Arl8 to date.

>PRK07933 thymidylate kinase; Validated

Probab=93.48  E-value=0.074  Score=47.99  Aligned_cols=24  Identities=33%  Similarity=0.479  Sum_probs=22.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..|+|-|+-|+||||+++.+.+..
T Consensus         1 ~~IviEG~dGsGKST~~~~L~~~L   24 (213)
T PRK07933          1 MLIAIEGVDGAGKRTLTEALRAAL   24 (213)
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHH
Confidence            368999999999999999999988

>cd03265 ABC_DrrA DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin

Probab=93.48  E-value=0.065  Score=48.50  Aligned_cols=26  Identities=31%  Similarity=0.284  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|..|+|||||.+.++...
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~i~G~~   50 (220)
T cd03265          25 RGEIFGLLGPNGAGKTTTIKMLTTLL   50 (220)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999998754

In addition to DrrA, the complex includes an integral membrane protein called DrrB. DrrA belongs to the ABC family of transporters and shares sequence and functional similarities with a protein found in cancer cells called P-glycoprotein. 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.

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=93.48  E-value=0.064  Score=47.94  Aligned_cols=26  Identities=38%  Similarity=0.363  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|..|+|||||.+.++...
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   50 (205)
T cd03226          25 AGEIIALTGKNGAGKTTLAKILAGLI   50 (205)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34689999999999999999998755

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.

>cd01136 ATPase_flagellum-secretory_path_III Flagellum-specific ATPase/type III secretory pathway virulence-related protein

Probab=93.48  E-value=0.14  Score=49.22  Aligned_cols=26  Identities=23%  Similarity=0.221  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-..++|+|..|+|||||.+.+.+..
T Consensus        68 ~Gqri~I~G~sG~GKTtLl~~Ia~~~   93 (326)
T cd01136          68 KGQRLGIFAGSGVGKSTLLGMIARGT   93 (326)
T ss_pred             CCcEEEEECCCCCChHHHHHHHhCCC
Confidence            34688999999999999999988766

This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they both are proton driven rotary molecular devices. However, the main function of the bacterial flagellar motor is to rotate the flagellar filament for cell motility. Intracellular pathogens such as Salmonella and Chlamydia also have proteins which are similar to the flagellar-specific ATPase, but function in the secretion of virulence-related proteins via the type III secretory pathway.

>PF00071 Ras: Ras family; InterPro: IPR001806 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=93.47  E-value=0.07  Score=45.32  Aligned_cols=22  Identities=36%  Similarity=0.410  Sum_probs=19.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhh
Q 043070          121 ICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       121 i~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      |.++|.+|+|||||...+.+..
T Consensus         2 i~vvG~~~vGKtsl~~~~~~~~   23 (162)
T PF00071_consen    2 IVVVGDSGVGKTSLINRLINGE   23 (162)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHHhhc
Confidence            7899999999999999988754

This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction; PDB: 1M7B_A 2V55_B 3EG5_C 3LAW_A 1YHN_A 1T91_B 1HE8_B 3SEA_B 3T5G_A 1XTS_A ....

>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system

Probab=93.47  E-value=0.064  Score=49.11  Aligned_cols=26  Identities=27%  Similarity=0.422  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|..|+|||||++.+....
T Consensus        26 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   51 (236)
T TIGR03864        26 PGEFVALLGPNGAGKSTLFSLLTRLY   51 (236)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            34699999999999999999998654

Members of this protein family are the ATP-binding subunit of an ABC transporter system that is associated with PQQ biosynthesis and PQQ-dependent alcohol dehydrogenases. While this family shows homology to several efflux ABC transporter subunits, the presence of a periplasmic substrate-binding protein and association with systems for catabolism of alcohols suggests a role in import rather than detoxification.

>cd04124 RabL2 RabL2 subfamily

Probab=93.45  E-value=0.063  Score=45.82  Aligned_cols=22  Identities=32%  Similarity=0.301  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhh
Q 043070          121 ICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       121 i~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      |+++|.+|+|||||+..+.+..
T Consensus         3 i~vvG~~~vGKTsli~~~~~~~   24 (161)
T cd04124           3 IILLGDSAVGKSKLVERFLMDG   24 (161)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7899999999999998876543

RabL2 (Rab-like2) subfamily. RabL2s are novel Rab proteins identified recently which display features that are distinct from other Rabs, and have been termed Rab-like. RabL2 contains RabL2a and RabL2b, two very similar Rab proteins that share 98% sequence identity in humans. RabL2b maps to the subtelomeric region of chromosome 22q13.3 and RabL2a maps to 2q13, a region that suggests it is also a subtelomeric gene. Both genes are believed to be expressed ubiquitously, suggesting that RabL2s are the first example of duplicated genes in human proximal subtelomeric regions that are both expressed actively. Like other Rab-like proteins, RabL2s lack a prenylation site at the C-terminus. The specific functions of RabL2a and RabL2b remain unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-b

>cd04136 Rap_like Rap-like subfamily

Probab=93.45  E-value=0.062  Score=45.57  Aligned_cols=23  Identities=17%  Similarity=0.336  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|+|+|.+|+|||||+..+.+..
T Consensus         3 ki~i~G~~~vGKTsl~~~~~~~~   25 (163)
T cd04136           3 KVVVLGSGGVGKSALTVQFVQGI   25 (163)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            57899999999999998877543

The Rap subfamily consists of the Rap1, Rap2, and RSR1. Rap subfamily proteins perform different cellular functions, depending on the isoform and its subcellular localization. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and microsomal membrane of the pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. Rap1 localizes in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines. Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands. In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres.

>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import

Probab=93.45  E-value=0.064  Score=49.23  Aligned_cols=26  Identities=38%  Similarity=0.323  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|..|+|||||++.+....
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (239)
T cd03296          27 SGELVALLGPSGSGKTTLLRLIAGLE   52 (239)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999998755

Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a solute-binding protein (cysP). 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.

>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]

Probab=93.44  E-value=0.17  Score=52.23  Aligned_cols=45  Identities=20%  Similarity=0.233  Sum_probs=33.8

Q ss_pred             CCccchH-H---HHHHHHHhhcC---------CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-R---LNEVWRLVEDN---------SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~---~~~l~~~L~~~---------~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+..|.| .   +.++++.|.++         =++-+.++|++|.|||.||++++...
T Consensus       150 ~DVAG~dEakeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA  207 (596)
T COG0465         150 ADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEA  207 (596)
T ss_pred             hhhcCcHHHHHHHHHHHHHHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhccc
Confidence            4566876 4   45555555542         14678999999999999999999988

>cd00154 Rab Rab family

Probab=93.44  E-value=0.064  Score=44.86  Aligned_cols=22  Identities=41%  Similarity=0.463  Sum_probs=19.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhh
Q 043070          121 ICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       121 i~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      |+++|.+|+|||||...+.+..
T Consensus         3 i~~~G~~~~GKStl~~~l~~~~   24 (159)
T cd00154           3 IVLIGDSGVGKTSLLLRFVDGK   24 (159)
T ss_pred             EEEECCCCCCHHHHHHHHHhCc
Confidence            7899999999999999988765

Rab GTPases form the largest family within the Ras superfamily. There are at least 60 Rab genes in the human genome, and a number of Rab GTPases are conserved from yeast to humans. Rab GTPases are small, monomeric proteins that function as molecular switches to regulate vesicle trafficking pathways. The different Rab GTPases are localized to the cytosolic face of specific intracellular membranes, where they regulate distinct steps in membrane traffic pathways. In the GTP-bound form, Rab GTPases recruit specific sets of effector proteins onto membranes. Through their effectors, Rab GTPases regulate vesicle formation, actin- and tubulin-dependent vesicle movement, and membrane fusion. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide di

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=93.44  E-value=0.11  Score=54.16  Aligned_cols=46  Identities=15%  Similarity=0.210  Sum_probs=39.5

Q ss_pred             CCCccchH-HHHHHHHHhhcCCc-eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           97 MENTVDVS-RLNEVWRLVEDNSV-RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -+++||.+ -+..|.+.+..+++ ..+.++|..|+||||+|+.+++..
T Consensus        15 f~~iiGq~~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~lak~l   62 (576)
T PRK14965         15 FSDLTGQEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKAL   62 (576)
T ss_pred             HHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhh
Confidence            36789999 99999999977665 456899999999999999998876

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	414
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	7e-18
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	4e-17
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-15

>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 = 84.5 bits (209), Expect = 7e-18
 Identities = 49/359 (13%), Positives = 102/359 (28%), Gaps = 83/359 (23%)

Query: 98  ENTVDVSRLNEVWRLVE-----DNSVRIICLHGVSRLGKTTL---LYN---LNKKFNDTR 146
              V V+R   V  + +           + +HG++  GK+ L         L +      
Sbjct: 122 RPVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGG 181

Query: 147 H---------NFGLVILVKRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRRLGQRRFALL 197
                       GL++ ++ +   +    + S  +  +  +    +         R  L+
Sbjct: 182 VHWVSVGKQDKSGLLMKLQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLI 241

Query: 198 LDDLREPIDLKTAGASIQNGSKV----------------------------KYAWNLFQL 229
           LDD+ +   LK       +  ++                            +    +  L
Sbjct: 242 LDDVWDSWVLKA----FDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSL 297

Query: 230 KVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTGSAMTSIRNPAVWENAVNDLINYPAE 289
            V         D+ + A ++   C G PL +   G+ +     P  WE  +  L N   +
Sbjct: 298 FVNMK----KADLPEQAHSIIKECKGSPLVVSLIGALLRD--FPNRWEYYLKQLQNKQFK 351

Query: 290 FPGMG-----DRIFPRLKFSYDHLPVKPTKLIFYFMNFLIF-----IRKDDLVDLWTGEG 339
                     + +   +  S + L      +  Y+ +  I      +    L  LW  E 
Sbjct: 352 RIRKSSSYDYEALDEAMSISVEMLR---EDIKDYYTDLSILQKDVKVPTKVLCILWDMET 408

Query: 340 LLRDYHNIAAARVQGKSIIEGLVLVCLLEEVEAYFGNFVKMHDMIRDLALWIASEDQEN 398
                        + + I++  V   LL            +HD+  D          ++
Sbjct: 409 E------------EVEDILQEFVNKSLLFCDRNGKSFRYYLHDLQVDFLTEKNCSQLQD 455

>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 = 82.0 bits (202), Expect = 4e-17
 Identities = 31/357 (8%), Positives = 80/357 (22%), Gaps = 80/357 (22%)

Query: 102 DVSRLNEVWRLVEDNSVRIICLHGVSRLGKTTL---LYNLNKKFNDTRHNFGLVI----- 153
            V R+ +    + D     + LHG +  GK+ +     + + +      N+  ++     
Sbjct: 136 HVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIG--INYDSIVWLKDS 193

Query: 154 -------------LVKRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRRLGQRRFALL-LD 199
                        ++  ++         S E       +         L  R   L   D
Sbjct: 194 GTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLK---RMICNALIDRPNTLFVFD 250

Query: 200 DLREPIDLKTAGASIQNGSKV---------------------------KYAWNLFQLKVT 232
           D+ +   ++ A    +   +                               ++  +    
Sbjct: 251 DVVQEETIRWAQ---ELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDECYDFLEAYGM 307

Query: 233 DDVLNSHRDIRKHAETVAGLCGGLPLSLITTGSAMTSIRNPAVWENAVNDLINYPA---- 288
                              L  G P +L+    +    +         N L +       
Sbjct: 308 PM--PVGEKEEDVLNKTIELSSGNPATLMMFFKSCEP-KTFEKMAQLNNKLESRGLVGVE 364

Query: 289 -EFPGMGDRIFPRLKFSYDHLP--VKPTKLIFYFMNFLIF-----IRKDDLVDLWTGEGL 340
              P     +   L+   + L    +           ++      I       +   +  
Sbjct: 365 CITPYSYKSLAMALQRCVEVLSDEDRS-----ALAFAVVMPPGVDIPVKLWSCVIPVDIC 419

Query: 341 LRDYHNIAAARVQGKSIIEGLVLVCLLEEVEAYFGNFVKMHDMIRDLALWIASEDQE 397
             +   +     +    ++ L     L   +       K+  +I      +      
Sbjct: 420 SNEEEQLDD---EVADRLKRLSKRGALLSGKRMPVLTFKIDHIIHMFLKHVVDAQTI 473

>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 = 78.0 bits (191), Expect = 2e-15
 Identities = 69/441 (15%), Positives = 129/441 (29%), Gaps = 127/441 (28%)

Query: 19  YKIVTCLDRQCHTDWKRY-HNRLTKTEKWIPFCRVKRKQSNVRLDVVKMAEDLQSLVDEG 77
            ++   L  +     +++    L    K++    +K +Q    +      E    L ++ 
Sbjct: 65  LRLFWTLLSKQEEMVQKFVEEVLRINYKFL-MSPIKTEQRQPSMMTRMYIEQRDRLYNDN 123

Query: 78  KGLKKAADPLPQPVVEVQDMENTVDVSRLNEVWRLVEDNSVRIICLHGVSRLGKTTLL-- 135
           +   K      QP ++++                L+E    + + + GV   GKT +   
Sbjct: 124 QVFAKYNVSRLQPYLKLRQA--------------LLELRPAKNVLIDGVLGSGKTWVALD 169

Query: 136 ----YNLNKKFNDTRH--NFG--------LVILVKRIQHVMGYRLAMSNEVWDDKTKQGR 181
               Y +  K +      N          L +L K +  +     + S+   + K +   
Sbjct: 170 VCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHS 229

Query: 182 AIDSSRRL-GQRRF--ALL-LDDLREPIDLKTAGASIQNGSKVKYAWNLFQLK------- 230
                RRL   + +   LL L +++                K    WN F L        
Sbjct: 230 IQAELRRLLKSKPYENCLLVLLNVQNA--------------KA---WNAFNLSCKILLTT 272

Query: 231 ----VTDDVLNSHRDIRKHAETVAGL------------------------CGGLPL--SL 260
               VTD +  +             L                            P   S+
Sbjct: 273 RFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSI 332

Query: 261 ITTGSAMTSIRN-PAVWENAVNDLINYPAEFPGMGDRIFPRLKFSYDHLPVKPTKLIFYF 319
           I   +    IR+  A W+N     +N         D++   ++ S + L  +P +    F
Sbjct: 333 I---AES--IRDGLATWDNW--KHVNC--------DKLTTIIESSLNVL--EPAEYRKMF 375

Query: 320 MNFLIF-----IRKDDLVDLWTG------EGLLRDYHNIAAARVQGKSI---IEGLVLVC 365
               +F     I    L  +W          ++   H  +    Q K     I  + L  
Sbjct: 376 DRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLE- 434

Query: 366 LLEEVEAYFGNFVKMHDMIRD 386
           L  ++E    N   +H  I D
Sbjct: 435 LKVKLE----NEYALHRSIVD 451

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	414
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.	99.46
2fna_A	357	Conserved hypothetical protein; structural genomic	99.36
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.34
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.08
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.03
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.01
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	98.99
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	98.83
3qfl_A	115	MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-	98.75
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	98.74
2chg_A	226	Replication factor C small subunit; DNA-binding pr	98.65
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	98.47
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	98.28
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	98.18
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	98.15
2chq_A	319	Replication factor C small subunit; DNA-binding pr	97.89
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	97.87
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	97.82
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	97.77
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	97.74
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	97.62
3pvs_A	447	Replication-associated recombination protein A; ma	97.61
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	97.6
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	97.46
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	97.42
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	97.42
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	97.38
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	97.35
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	97.33
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	97.29
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	97.26
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	97.24
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	97.22
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	97.19
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	97.18
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	97.17
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.15
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	97.14
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	97.14
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	97.13
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	97.13
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	97.12
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	97.09
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	97.07
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	97.05
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	97.05
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	96.98
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	96.92
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	96.82
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	96.81
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	96.78
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	96.72
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	96.72
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	96.71
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	96.71
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	96.69
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	96.67
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	96.66
3co5_A	143	Putative two-component system transcriptional RES	96.64
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	96.61
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.6
2qgz_A	308	Helicase loader, putative primosome component; str	96.59
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	96.56
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	96.56
3bos_A	242	Putative DNA replication factor; P-loop containing	96.52
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	96.5
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	96.44
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	96.43
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	96.43
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.43
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.42
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	96.41
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	96.35
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	96.33
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	96.31
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.3
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.24
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.21
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.21
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	96.19
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.19
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	96.18
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	96.17
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.16
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	96.15
1xp8_A	366	RECA protein, recombinase A; recombination, radior	96.15
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	96.13
2cvh_A	220	DNA repair and recombination protein RADB; filamen	96.13
2hf9_A	226	Probable hydrogenase nickel incorporation protein	96.13
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.13
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	96.09
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	96.07
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.07
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.03
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	96.03
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	96.02
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	96.02
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	96.01
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	96.0
1via_A	175	Shikimate kinase; structural genomics, transferase	95.98
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	95.97
3io5_A	333	Recombination and repair protein; storage dimer, i	95.95
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	95.95
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	95.94
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	95.92
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	95.92
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	95.9
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	95.9
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	95.89
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	95.87
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	95.86
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	95.84
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	95.84
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	95.82
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	95.82
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	95.81
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	95.81
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	95.8
2r44_A	331	Uncharacterized protein; putative ATPase, structur	95.8
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	95.8
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	95.78
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	95.77
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	95.76
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	95.75
2z43_A	324	DNA repair and recombination protein RADA; archaea	95.75
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	95.75
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	95.75
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	95.74
1u94_A	356	RECA protein, recombinase A; homologous recombinat	95.74
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	95.74
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	95.73
2vli_A	183	Antibiotic resistance protein; transferase, tunica	95.71
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	95.71
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	95.71
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	95.7
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	95.7
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	95.7
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	95.7
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	95.7
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	95.68
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	95.67
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	95.67
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	95.66
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	95.65
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	95.65
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	95.63
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	95.62
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	95.61
3fwy_A	314	Light-independent protochlorophyllide reductase I	95.59
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	95.59
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	95.59
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	95.58
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	95.57
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	95.54
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	95.53
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	95.53
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	95.52
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	95.52
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	95.5
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	95.48
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	95.48
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	95.48
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	95.47
3ice_A	422	Transcription termination factor RHO; transcriptio	95.46
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	95.46
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	95.44
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	95.44
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	95.43
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	95.4
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	95.36
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	95.35
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	95.34
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	95.34
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	95.34
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	95.33
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	95.32
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	95.31
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	95.29
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	95.28
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	95.26
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	95.23
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	95.22
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	95.2
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	95.19
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	95.18
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	95.17
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	95.16
1tue_A	212	Replication protein E1; helicase, replication, E1E	95.11
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	95.08
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	95.08
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	95.04
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	95.03
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	95.02
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	94.98
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	94.98
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	94.97
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	94.96
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	94.92
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	94.91
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	94.9
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	94.9
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	94.89
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	94.89
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	94.87
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	94.83
4a74_A	231	DNA repair and recombination protein RADA; hydrola	94.77
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	94.77
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	94.77
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	94.76
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	94.75
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	94.74
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	94.74
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	94.72
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	94.69
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	94.69
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	94.68
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	94.68
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	94.68
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	94.64
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	94.59
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	94.56
2xxa_A	433	Signal recognition particle protein; protein trans	94.54
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	94.53
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	94.46
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	94.46
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	94.44
3end_A	307	Light-independent protochlorophyllide reductase ir	94.41
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	94.36
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	94.33
2og2_A	359	Putative signal recognition particle receptor; nuc	94.3
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	94.3
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	94.27
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	94.26
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	94.26
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	94.24
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	94.21
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	94.21
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	94.2
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	94.16
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	94.12
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	94.1
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	94.09
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	94.05
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	94.05
3vr4_D	465	V-type sodium ATPase subunit D; V-ATPase, rotary m	94.04
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	94.01
1b0u_A	262	Histidine permease; ABC transporter, transport pro	94.0
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	93.98
1ji0_A	240	ABC transporter; ATP binding protein, structural g	93.92
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	93.92
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	93.91
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	93.91
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	93.91
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	93.91
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	93.9
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	93.9
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	93.89
1g6h_A	257	High-affinity branched-chain amino acid transport	93.88
1sgw_A	214	Putative ABC transporter; structural genomics, P p	93.84
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	93.83
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	93.81
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	93.8
2eyu_A	261	Twitching motility protein PILT; pilus retraction	93.77
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	93.76
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	93.73
2ghi_A	260	Transport protein; multidrug resistance protein, M	93.71
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	93.7
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	93.7
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	93.67
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	93.66
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	93.61
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	93.59
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	93.57
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	93.57
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	93.55
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	93.55
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	93.53
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	93.47
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	93.47
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	93.46
2wji_A	165	Ferrous iron transport protein B homolog; membrane	93.4
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	93.38
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	93.37
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	93.37
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	93.34
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	93.33
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	93.33
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	93.31
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	93.29
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	93.24
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	93.24
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	93.23
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	93.23
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	93.2
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	93.16
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	93.15
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	93.15
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	93.14
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	93.13
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	93.07
2ged_A	193	SR-beta, signal recognition particle receptor beta	93.06
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	93.04
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	93.03
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	93.02
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	93.0
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	92.98
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	92.95
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	92.89
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	92.84
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	92.8
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	92.79
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	92.77
1nrj_B	218	SR-beta, signal recognition particle receptor beta	92.76
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	92.75
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	92.73
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	92.72
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	92.72
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	92.71
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	92.69
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	92.69
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	92.68
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	92.67
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	92.65
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	92.65
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	92.65
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	92.64
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	92.62
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	92.58
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	92.57
3kta_A	182	Chromosome segregation protein SMC; structural mai	92.56
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	92.55
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	92.54
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	92.53
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	92.53
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	92.51
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	92.5
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	92.49
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	92.49
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	92.47
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	92.47
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	92.47
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	92.47
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	92.45
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	92.44
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	92.42
1p9r_A	418	General secretion pathway protein E; bacterial typ	92.41
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	92.39
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	92.38
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	92.38
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	92.37
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	92.37
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	92.37
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	92.37
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	92.36
3ch4_B	202	Pmkase, phosphomevalonate kinase; parallel beta-sh	92.35
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	92.29
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	92.28
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	92.28
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	92.28
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	92.26
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	92.26
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	92.24
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	92.2
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	92.17
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	92.17
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	92.15
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	92.15
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	92.12
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	92.12
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	92.12
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	92.1
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	92.1
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	92.08
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	92.07
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	92.04
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	92.02
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	92.02
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	92.01
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	92.0
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	92.0
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	92.0
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	91.99
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	91.94
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	91.93
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	91.93
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	91.92
2ewv_A	372	Twitching motility protein PILT; pilus retraction	91.92
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	91.92
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	91.91
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	91.91
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	91.89
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	91.89
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	91.88
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	91.87
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	91.86
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	91.86
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	91.84
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	91.82
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	91.82
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	91.78
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	91.77
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	91.73
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	91.72
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	91.68
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	91.65
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	91.64
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	91.63
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	91.62
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	91.61
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	91.6
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	91.6
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	91.56
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	91.55
3hdt_A	223	Putative kinase; structura genomics, PSI-2, protei	91.52
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	91.52
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	91.51
2fh5_B	214	SR-beta, signal recognition particle receptor beta	91.51
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	91.51
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	91.49
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	91.46
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	91.45
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	91.43
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	91.43
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	91.41
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	91.4
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	91.37
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	91.36
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	91.34
3llu_A	196	RAS-related GTP-binding protein C; structural geno	91.34
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	91.33
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	91.31
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	91.27
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	91.23
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	91.22
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	91.2
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	91.2
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	91.19
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	91.14
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	91.13
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	90.99
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	90.93
3cwq_A	209	Para family chromosome partitioning protein; alpha	90.89
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	90.88
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	90.86
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	90.85
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	90.82
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	90.81
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	90.81
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	90.8
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	90.77
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	90.75
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	90.75
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	90.72
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	90.71
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	90.7
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	90.68
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	90.67
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	90.66
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	90.65
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	90.63
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	90.62
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	90.51
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	90.48
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	90.44
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	90.43
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	90.42
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	90.41
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	90.31
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	90.3
1dek_A	241	Deoxynucleoside monophosphate kinase; transferase,	90.22
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	90.11
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	90.11
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	89.57
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	89.99
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	89.97
3ug7_A	349	Arsenical pump-driving ATPase; tail-anchored, memb	89.92
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	89.9
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	89.78
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	89.76
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	89.76
1byi_A	224	Dethiobiotin synthase; biotin synthesis, cyclo-lig	89.72
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	89.7
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	89.68
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	89.68
2r6a_A	454	DNAB helicase, replicative helicase; replication,	89.54
4i1u_A	210	Dephospho-COA kinase; structural genomics, niaid,	89.51
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	89.42
1fx0_A	507	ATP synthase alpha chain; latent ATPase, thermal s	89.39
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	89.39
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	89.39
1wcv_1	257	SOJ, segregation protein; ATPase, bacterial, chrom	89.33
2woo_A	329	ATPase GET3; tail-anchored, membrane protein, targ	89.33
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	89.33
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	89.32
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	89.3
2woj_A	354	ATPase GET3; tail-anchored, membrane protein, targ	89.3

>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=5.2e-46  Score=381.97  Aligned_cols=278  Identities=12%  Similarity=0.043  Sum_probs=216.7

Q ss_pred             cchH-HHHHHHHHhhcC---CceEEEEEcCCCCcHHHHHHHHHH--hhhhcCCCCcchHhH----------HHHHHHHHH
Q 043070          101 VDVS-RLNEVWRLVEDN---SVRIICLHGVSRLGKTTLLYNLNK--KFNDTRHNFGLVILV----------KRIQHVMGY  164 (414)
Q Consensus       101 vGr~-~~~~l~~~L~~~---~~~vi~I~G~gGiGKTtLA~~v~~--~~~~v~~~F~~~~wv----------~~l~~~i~~  164 (414)
                      |||+ ++++|.++|...   ..++|+|+||||+||||||+++|+  +. .++.+|++++||          ..++..|+.
T Consensus       131 ~GR~~~~~~l~~~L~~~~~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~-~~~~~F~~~~wv~vs~~~~~~~~~~~~~il~  209 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQ-LIGINYDSIVWLKDSGTAPKSTFDLFTDILL  209 (549)
T ss_dssp             CCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSS-TBTTTBSEEEEEECCCCSTTHHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHhcccCCCceEEEEEcCCCCCHHHHHHHHHHhhhH-HHhccCCcEEEEEECCCCCCCHHHHHHHHHH
Confidence            5999 999999999543   689999999999999999999998  45 568999999998          467889999


Q ss_pred             HhcCCCC-----ccCcCCHhHHHHHHHHHhCCC-cEEEEEecCCCccchhhhccCCCCCCcHh-----------------
Q 043070          165 RLAMSNE-----VWDDKTKQGRAIDSSRRLGQR-RFALLLDDLREPIDLKTAGASIQNGSKVK-----------------  221 (414)
Q Consensus       165 ~l~~~~~-----~~~~~~~~~~~~~l~~~L~~k-r~LlVlDdv~~~~~~~~~~~p~~~gs~ii-----------------  221 (414)
                      +++....     .....+.+.+...+++.|+++ ||||||||||+.+++ .  ++..+||+||                 
T Consensus       210 ~l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~~~~-~--~~~~~gs~ilvTTR~~~v~~~~~~~~~  286 (549)
T 2a5y_B          210 MLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETI-R--WAQELRLRCLVTTRDVEISNAASQTCE  286 (549)
T ss_dssp             HHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHH-H--HHHHTTCEEEEEESBGGGGGGCCSCEE
T ss_pred             HHhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCCchhh-c--ccccCCCEEEEEcCCHHHHHHcCCCCe
Confidence            9876521     112335677889999999996 999999999998754 1  2222566666                 


Q ss_pred             ----------hHHHHHHHhhcCCcCCCCchHHHHHHHHHHHhCCchhHHHHHHHHhcCCCChhHHHHHHHHhccCCCCCC
Q 043070          222 ----------YAWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTGSAMTSIRNPAVWENAVNDLINYPAEFP  291 (414)
Q Consensus       222 ----------~a~~Lf~~~a~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~g~~L~~~~~~~~w~~~~~~l~~~~~~~~  291 (414)
                                +||+||.+.++...  .++++.+++++|+++|+|+||||+++|+.|+.+ +   |..+ +.+....+.. 
T Consensus       287 ~~~l~~L~~~ea~~Lf~~~a~~~~--~~~~~~~~~~~I~~~c~GlPLAl~~~g~~l~~~-~---w~~~-~~l~~~l~~~-  358 (549)
T 2a5y_B          287 FIEVTSLEIDECYDFLEAYGMPMP--VGEKEEDVLNKTIELSSGNPATLMMFFKSCEPK-T---FEKM-AQLNNKLESR-  358 (549)
T ss_dssp             EEECCCCCHHHHHHHHHHTSCCCC----CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSS-S---HHHH-HHHHHHHHHH-
T ss_pred             EEECCCCCHHHHHHHHHHHhcCCC--CchhHHHHHHHHHHHhCCChHHHHHHHHHhccc-h---HHHH-HHhHHHhhcc-
Confidence                      99999999988653  247888999999999999999999999999773 3   4333 3332221111 


Q ss_pred             CCccchhhHHHhchhCCCCCChhHHHh-----------Hhhhh---hcCCHHHHHHHHHHc--CCccCCCchHHHHHHHH
Q 043070          292 GMGDRIFPRLKFSYDHLPVKPTKLIFY-----------FMNFL---IFIRKDDLVDLWTGE--GLLRDYHNIAAARVQGK  355 (414)
Q Consensus       292 ~~~~~~~~~l~~sy~~L~~~~~k~cfl-----------~lsiF---~~i~~~~Li~~W~ae--g~i~~~~~~~~~~~~~~  355 (414)
                       ....+.+++.+||+.||++ +|.||+           |||+|   +.|+    +++|+|+  ||+.....+.+.++.++
T Consensus       359 -~~~~i~~~l~~Sy~~L~~~-lk~~f~~Ls~~er~l~~~ls~fp~~~~i~----i~~w~a~~~G~i~~~~~~~~~~~~~~  432 (549)
T 2a5y_B          359 -GLVGVECITPYSYKSLAMA-LQRCVEVLSDEDRSALAFAVVMPPGVDIP----VKLWSCVIPVDICSNEEEQLDDEVAD  432 (549)
T ss_dssp             -CSSTTCCCSSSSSSSHHHH-HHHHHHTSCHHHHHHTTGGGSSCTTCCEE----HHHHHHHSCC-------CCCTHHHHH
T ss_pred             -cHHHHHHHHhcccccccHH-HHHHHhccchhhhhHhhheeeeCCCCeee----eeeeeeeccceeccCCCCCCHHHHHH
Confidence             1246888999999999998 999999           99999   5666    8899999  99987632455677777


Q ss_pred             HHHHHHHHcCcccccccccCCeEEECHHHHHHHHHHHcccCc
Q 043070          356 SIIEGLVLVCLLEEVEAYFGNFVKMHDMIRDLALWIASEDQE  397 (414)
Q Consensus       356 ~~l~~L~~~sLl~~~~~~~~~~~~mH~lv~~~a~~~~~~e~~  397 (414)
                       ||++|+++|||+....+...+|+|||+||+||++++.+++.
T Consensus       433 -~l~~L~~rsLl~~~~~~~~~~~~mHdlv~~~a~~~~~~~~~  473 (549)
T 2a5y_B          433 -RLKRLSKRGALLSGKRMPVLTFKIDHIIHMFLKHVVDAQTI  473 (549)
T ss_dssp             -HHHHTTTBSSCSEEECSSSCEEECCHHHHHHHHTTSCTHHH
T ss_pred             -HHHHHHHcCCeeEecCCCceEEEeChHHHHHHHHHHHHHHH
Confidence             99999999999987654467899999999999998877544

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A*

Probab=100.00  E-value=4.2e-38  Score=351.61  Aligned_cols=279  Identities=17%  Similarity=0.142  Sum_probs=224.4

Q ss_pred             cccCCCccchH-HHHHHHHHhh--cCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCC-cchHhH----------HHHH
Q 043070           94 VQDMENTVDVS-RLNEVWRLVE--DNSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNF-GLVILV----------KRIQ  159 (414)
Q Consensus        94 ~~~~~~~vGr~-~~~~l~~~L~--~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F-~~~~wv----------~~l~  159 (414)
                      |.++..||||+ ++++|.++|.  ++..++|+|+||||+||||||+++|++...+..+| +.++||          ...+
T Consensus       120 p~~~~~~vgR~~~~~~l~~~l~~~~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~  199 (1249)
T 3sfz_A          120 PQRPVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKL  199 (1249)
T ss_dssp             CCCCSSCCCCHHHHHHHHHHHHTTTTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHHHHHHHH
T ss_pred             CCCCceeccHHHHHHHHHHHHhhccCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCchHHHHHH
Confidence            34557799999 9999999994  36789999999999999999999999863335666 566688          3345


Q ss_pred             HHHHHHhcCCCC--ccCcCCHhHHHHHHHHHhCCC--cEEEEEecCCCccchhhhccCCCCCCcHh--------------
Q 043070          160 HVMGYRLAMSNE--VWDDKTKQGRAIDSSRRLGQR--RFALLLDDLREPIDLKTAGASIQNGSKVK--------------  221 (414)
Q Consensus       160 ~~i~~~l~~~~~--~~~~~~~~~~~~~l~~~L~~k--r~LlVlDdv~~~~~~~~~~~p~~~gs~ii--------------  221 (414)
                      ..++..+.....  .....+.+.+...++..|.++  ||||||||||+..+|..+    .+||+||              
T Consensus       200 ~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~~~~~~~~----~~~~~ilvTtR~~~~~~~~~~  275 (1249)
T 3sfz_A          200 QNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAF----DNQCQILLTTRDKSVTDSVMG  275 (1249)
T ss_dssp             HHHHHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCCHHHHTTT----CSSCEEEEEESSTTTTTTCCS
T ss_pred             HHHHHHhhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCCHHHHHhh----cCCCEEEEEcCCHHHHHhhcC
Confidence            667777764432  113467888999999999887  999999999999888876    3455555              


Q ss_pred             --------------hHHHHHHHhhcCCcCCCCchHHHHHHHHHHHhCCchhHHHHHHHHhcCCCChhHHHHHHHHhccCC
Q 043070          222 --------------YAWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTGSAMTSIRNPAVWENAVNDLINYP  287 (414)
Q Consensus       222 --------------~a~~Lf~~~a~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~g~~L~~~~~~~~w~~~~~~l~~~~  287 (414)
                                    +|++||...++...    +++.+++++|+++|+|+||||+++|++|+.+.  ..|..+++.+....
T Consensus       276 ~~~~~~~~~~l~~~~a~~l~~~~~~~~~----~~~~~~~~~i~~~~~glPLal~~~~~~l~~~~--~~~~~~l~~l~~~~  349 (1249)
T 3sfz_A          276 PKHVVPVESGLGREKGLEILSLFVNMKK----EDLPAEAHSIIKECKGSPLVVSLIGALLRDFP--NRWAYYLRQLQNKQ  349 (1249)
T ss_dssp             CBCCEECCSSCCHHHHHHHHHHHHTSCS----TTCCTHHHHHHHHTTTCHHHHHHHHHHHHHSS--SCHHHHHHHHHSCC
T ss_pred             CceEEEecCCCCHHHHHHHHHHhhCCCh----hhCcHHHHHHHHHhCCCHHHHHHHHHHhhcCh--hHHHHHHHHHhhhh
Confidence                          89999999885432    33456789999999999999999999998843  57999999887654


Q ss_pred             CCC-----CCCccchhhHHHhchhCCCCCChhHHHhHhhhh---hcCCHHHHHHHHHHcCCccCCCchHHHHHHHHHHHH
Q 043070          288 AEF-----PGMGDRIFPRLKFSYDHLPVKPTKLIFYFMNFL---IFIRKDDLVDLWTGEGLLRDYHNIAAARVQGKSIIE  359 (414)
Q Consensus       288 ~~~-----~~~~~~~~~~l~~sy~~L~~~~~k~cfl~lsiF---~~i~~~~Li~~W~aeg~i~~~~~~~~~~~~~~~~l~  359 (414)
                      +..     ......+..+|.+||+.||++ .|.||+|||+|   +.|+++.++.+|.++            ++.++++|+
T Consensus       350 ~~~~~~~~~~~~~~~~~~l~~s~~~L~~~-~~~~~~~l~~f~~~~~i~~~~~~~~~~~~------------~~~~~~~l~  416 (1249)
T 3sfz_A          350 FKRIRKSSSYDYEALDEAMSISVEMLRED-IKDYYTDLSILQKDVKVPTKVLCVLWDLE------------TEEVEDILQ  416 (1249)
T ss_dssp             CCCSSCTTCTTHHHHHHHHHHHHHTSCTT-THHHHHHGGGSCTTCCEEHHHHHHHHTCC------------HHHHHHHHH
T ss_pred             hhhcccccccchHHHHHHHHHHHHhCCHH-HHHHHHHhCccCCCCeeCHHHHHHHhCCC------------HHHHHHHHH
Confidence            321     111236999999999999999 99999999999   689999999999654            356788999


Q ss_pred             HHHHcCcccccccccCCeEEECHHHHHHHHHHHccc
Q 043070          360 GLVLVCLLEEVEAYFGNFVKMHDMIRDLALWIASED  395 (414)
Q Consensus       360 ~L~~~sLl~~~~~~~~~~~~mH~lv~~~a~~~~~~e  395 (414)
                      +|+++|||+...++...+|+||++||+|++..+.++
T Consensus       417 ~L~~~sl~~~~~~~~~~~~~~h~l~~~~~~~~~~~~  452 (1249)
T 3sfz_A          417 EFVNKSLLFCNRNGKSFCYYLHDLQVDFLTEKNRSQ  452 (1249)
T ss_dssp             HHHHTTSCEEEESSSSEEEECCHHHHHHHHHHTGGG
T ss_pred             HHHhccceEEecCCCceEEEecHHHHHHHHhhhhHH
Confidence            999999999876544557999999999999997764

>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=3.2e-36  Score=316.98  Aligned_cols=247  Identities=12%  Similarity=0.124  Sum_probs=194.8

Q ss_pred             ccchH-HHHHHHHHhhc-CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcc-hHhH--------HHHHHHHHHHhcC
Q 043070          100 TVDVS-RLNEVWRLVED-NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGL-VILV--------KRIQHVMGYRLAM  168 (414)
Q Consensus       100 ~vGr~-~~~~l~~~L~~-~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~-~~wv--------~~l~~~i~~~l~~  168 (414)
                      .|||+ ++++|.++|.+ +..++|+|+||||+||||||+++|++. +++.+|+. ++|+        ..++..|+..++.
T Consensus       130 ~VGRe~eLeeL~elL~~~d~~RVV~IvGmGGIGKTTLAk~Vy~d~-rV~~~Fd~gV~WVsVs~~~d~~~IL~~Ll~lL~~  208 (1221)
T 1vt4_I          130 NVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSY-KVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQ  208 (1221)
T ss_dssp             CCCCHHHHHHHHHHHHHCCSSCEEEECCSTTSSHHHHHHHHHHHC-HHHHHHSSCEEEEECCCSSSHHHHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHhccCCCeEEEEEcCCCccHHHHHHHHHHhh-HHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHhh
Confidence            49999 99999999966 568999999999999999999999986 56789986 7898        5666776665432


Q ss_pred             CCCcc---------CcCCHhHHHHHHHHHh---CCCcEEEEEecCCCccchhhhccCCCCCCcHh---------------
Q 043070          169 SNEVW---------DDKTKQGRAIDSSRRL---GQRRFALLLDDLREPIDLKTAGASIQNGSKVK---------------  221 (414)
Q Consensus       169 ~~~~~---------~~~~~~~~~~~l~~~L---~~kr~LlVlDdv~~~~~~~~~~~p~~~gs~ii---------------  221 (414)
                      ..+..         ...+.+.+...|++.|   .+||+||||||||+.+.|+.+.    +||+||               
T Consensus       209 i~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd~eqLe~f~----pGSRILVTTRd~~Va~~l~g~  284 (1221)
T 1vt4_I          209 IDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFN----LSCKILLTTRFKQVTDFLSAA  284 (1221)
T ss_dssp             HCSSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCCHHHHHHHH----SSCCEEEECSCSHHHHHHHHH
T ss_pred             cCcccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcChHHHHHhhC----CCeEEEEeccChHHHHhcCCC
Confidence            11000         1123456677788876   6899999999999998888762    466665               


Q ss_pred             -----------------hHHHHHHHhhcCCcCCCCchHHHHHHHHHHHhCCchhHHHHHHHHhcCC-CChhHHHHHHHHh
Q 043070          222 -----------------YAWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTGSAMTSI-RNPAVWENAVNDL  283 (414)
Q Consensus       222 -----------------~a~~Lf~~~a~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~g~~L~~~-~~~~~w~~~~~~l  283 (414)
                                       +|++||++.....    .   .++..+|   |+|+||||+++|++|+.+ .+.++|...    
T Consensus       285 ~vy~LeL~d~dL~LS~eEA~eLF~~~~g~~----~---eeL~~eI---CgGLPLALkLaGs~Lr~k~~s~eeW~~~----  350 (1221)
T 1vt4_I          285 TTTHISLDHHSMTLTPDEVKSLLLKYLDCR----P---QDLPREV---LTTNPRRLSIIAESIRDGLATWDNWKHV----  350 (1221)
T ss_dssp             SSCEEEECSSSSCCCHHHHHHHHHHHHCCC----T---TTHHHHH---CCCCHHHHHHHHHHHHHSCSSHHHHHHC----
T ss_pred             eEEEecCccccCCcCHHHHHHHHHHHcCCC----H---HHHHHHH---hCCCHHHHHHHHHHHhCCCCCHHHHhcC----
Confidence                             6888998874322    1   1223333   999999999999999986 367788652    


Q ss_pred             ccCCCCCCCCccchhhHHHhchhCCCCCCh-hHHHhHhhhh---hcCCHHHHHHHHHHcCCccCCCchHHHHHHHHHHHH
Q 043070          284 INYPAEFPGMGDRIFPRLKFSYDHLPVKPT-KLIFYFMNFL---IFIRKDDLVDLWTGEGLLRDYHNIAAARVQGKSIIE  359 (414)
Q Consensus       284 ~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~-k~cfl~lsiF---~~i~~~~Li~~W~aeg~i~~~~~~~~~~~~~~~~l~  359 (414)
                               ....+..+|.+||+.||++ . |.||+|||+|   +.|+.+.++.+|+++|    .       +.++.+|+
T Consensus       351 ---------~~~~I~aaLelSYd~Lp~e-elK~cFL~LAIFPed~~I~~elLa~LW~aeG----e-------edAe~~L~  409 (1221)
T 1vt4_I          351 ---------NCDKLTTIIESSLNVLEPA-EYRKMFDRLSVFPPSAHIPTILLSLIWFDVI----K-------SDVMVVVN  409 (1221)
T ss_dssp             ---------SCHHHHHHHHHHHHHSCTT-HHHHHHHHTTSSCTTSCEEHHHHHHHHCSSC----S-------HHHHHHHH
T ss_pred             ---------ChhHHHHHHHHHHHhCCHH-HHHHHHHHHhCCCCCCCCCHHHHHHHhcCCC----H-------HHHHHHHH
Confidence                     1257999999999999999 9 9999999999   6799999999999887    1       24788999


Q ss_pred             HHHHcCcccccccccCCeEEECHHHHHHH
Q 043070          360 GLVLVCLLEEVEAYFGNFVKMHDMIRDLA  388 (414)
Q Consensus       360 ~L~~~sLl~~~~~~~~~~~~mH~lv~~~a  388 (414)
                      +|+++|||+....  ...|+||||+++++
T Consensus       410 eLvdRSLLq~d~~--~~rYrMHDLllELr  436 (1221)
T 1vt4_I          410 KLHKYSLVEKQPK--ESTISIPSIYLELK  436 (1221)
T ss_dssp             HHHTSSSSSBCSS--SSEEBCCCHHHHHH
T ss_pred             HHHhhCCEEEeCC--CCEEEehHHHHHHh
Confidence            9999999998532  67899999999855

>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=5.6e-35  Score=302.89  Aligned_cols=276  Identities=18%  Similarity=0.161  Sum_probs=213.6

Q ss_pred             cccCCCccchH-HHHHHHHHhhc--CCceEEEEEcCCCCcHHHHHHHHHHhhhhc-CCCC-cchHhH-------HHHHHH
Q 043070           94 VQDMENTVDVS-RLNEVWRLVED--NSVRIICLHGVSRLGKTTLLYNLNKKFNDT-RHNF-GLVILV-------KRIQHV  161 (414)
Q Consensus        94 ~~~~~~~vGr~-~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v-~~~F-~~~~wv-------~~l~~~  161 (414)
                      |.++..||||+ ++++|.++|..  ++.++|+|+||||+||||||.+++++. .+ ..+| ++++|+       ..++..
T Consensus       120 P~~~~~~vGR~~~l~~L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~-~~~~~~f~~~v~wv~~~~~~~~~~~~~  198 (591)
T 1z6t_A          120 PQRPVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDH-SLLEGCFPGGVHWVSVGKQDKSGLLMK  198 (591)
T ss_dssp             CCCCSSCCCCHHHHHHHHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHCCH-HHHHHHCTTCEEEEEEESCCHHHHHHH
T ss_pred             CCCCCeecccHHHHHHHHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHhch-hHHHhhCCCceEEEECCCCchHHHHHH
Confidence            34457799999 99999999963  567899999999999999999999886 44 6788 578898       334444


Q ss_pred             H---HHHhcCC--CCccCcCCHhHHHHHHHHHhCC--CcEEEEEecCCCccchhhhccCCCCCCcHh-------------
Q 043070          162 M---GYRLAMS--NEVWDDKTKQGRAIDSSRRLGQ--RRFALLLDDLREPIDLKTAGASIQNGSKVK-------------  221 (414)
Q Consensus       162 i---~~~l~~~--~~~~~~~~~~~~~~~l~~~L~~--kr~LlVlDdv~~~~~~~~~~~p~~~gs~ii-------------  221 (414)
                      +   +..++..  .......+.+.+...++..|.+  +++||||||+|+...+..+    .+|++||             
T Consensus       199 l~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~~~l~~l----~~~~~ilvTsR~~~~~~~~~  274 (591)
T 1z6t_A          199 LQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAF----DSQCQILLTTRDKSVTDSVM  274 (591)
T ss_dssp             HHHHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCHHHHHTT----CSSCEEEEEESCGGGGTTCC
T ss_pred             HHHHHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCHHHHHHh----cCCCeEEEECCCcHHHHhcC
Confidence            3   3344421  1112345677888889998877  7999999999998776654    2234443             


Q ss_pred             ---------------hHHHHHHHhhcCCcCCCCchHHHHHHHHHHHhCCchhHHHHHHHHhcCCCChhHHHHHHHHhccC
Q 043070          222 ---------------YAWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTGSAMTSIRNPAVWENAVNDLINY  286 (414)
Q Consensus       222 ---------------~a~~Lf~~~a~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~g~~L~~~~~~~~w~~~~~~l~~~  286 (414)
                                     ++++||...++...    +...+.+.+|+++|+|+||||+.+|++|+.+  ..+|..+++.+...
T Consensus       275 ~~~~~v~~l~~L~~~ea~~L~~~~~~~~~----~~~~~~~~~i~~~~~G~PLal~~~a~~l~~~--~~~w~~~l~~l~~~  348 (591)
T 1z6t_A          275 GPKYVVPVESSLGKEKGLEILSLFVNMKK----ADLPEQAHSIIKECKGSPLVVSLIGALLRDF--PNRWEYYLKQLQNK  348 (591)
T ss_dssp             SCEEEEECCSSCCHHHHHHHHHHHHTSCG----GGSCTHHHHHHHHHTTCHHHHHHHHHHHHHS--TTCHHHHHHHHHSC
T ss_pred             CCceEeecCCCCCHHHHHHHHHHHhCCCc----ccccHHHHHHHHHhCCCcHHHHHHHHHHhcC--chhHHHHHHHHHHh
Confidence                           89999999987532    2224578899999999999999999999873  35799988888765


Q ss_pred             CCC-----CCCCccchhhHHHhchhCCCCCChhHHHhHhhhh---hcCCHHHHHHHHHHcCCccCCCchHHHHHHHHHHH
Q 043070          287 PAE-----FPGMGDRIFPRLKFSYDHLPVKPTKLIFYFMNFL---IFIRKDDLVDLWTGEGLLRDYHNIAAARVQGKSII  358 (414)
Q Consensus       287 ~~~-----~~~~~~~~~~~l~~sy~~L~~~~~k~cfl~lsiF---~~i~~~~Li~~W~aeg~i~~~~~~~~~~~~~~~~l  358 (414)
                      ...     ......++..++.+||+.||++ .|.||++||+|   +.|+.+.+..+|.++            .+.+..++
T Consensus       349 ~~~~~~~~~~~~~~~l~~~l~~s~~~L~~~-~~~~l~~la~f~~~~~i~~~~l~~l~~~~------------~~~~~~~l  415 (591)
T 1z6t_A          349 QFKRIRKSSSYDYEALDEAMSISVEMLRED-IKDYYTDLSILQKDVKVPTKVLCILWDME------------TEEVEDIL  415 (591)
T ss_dssp             CCCCSSCCCSSCCHHHHHHHHHHHHTSCTT-THHHHHHGGGCCTTCCEEHHHHHHHHTCC------------HHHHHHHH
T ss_pred             HHHHhhhccccchHHHHHHHHHHHHhCCHH-HHHHHHHccccCCCCccCHHHHHHHhccC------------HHHHHHHH
Confidence            322     1122347899999999999999 99999999999   579999999999643            23467899


Q ss_pred             HHHHHcCcccccccccCCeEEECHHHHHHHHHHHc
Q 043070          359 EGLVLVCLLEEVEAYFGNFVKMHDMIRDLALWIAS  393 (414)
Q Consensus       359 ~~L~~~sLl~~~~~~~~~~~~mH~lv~~~a~~~~~  393 (414)
                      ++|+++|||+...++....|+||+++|+|++....
T Consensus       416 ~~L~~~~Ll~~~~~~~~~~~~~H~lv~~~~~~~~~  450 (591)
T 1z6t_A          416 QEFVNKSLLFCDRNGKSFRYYLHDLQVDFLTEKNC  450 (591)
T ss_dssp             HHHHHTTSSEEEEETTEEEEECCHHHHHHHHHHTG
T ss_pred             HHHHhCcCeEEecCCCccEEEEcHHHHHHHHhhhh
Confidence            99999999997654445689999999999998743

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=99.46  E-value=1.9e-12  Score=124.24  Aligned_cols=254  Identities=13%  Similarity=0.080  Sum_probs=145.6

Q ss_pred             cCCCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH--------------HHHHH
Q 043070           96 DMENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV--------------KRIQH  160 (414)
Q Consensus        96 ~~~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv--------------~~l~~  160 (414)
                      .+..++||+ ++++|.+++.+.  +++.|+|++|+|||||++++++..   .     .+|+              ..++.
T Consensus        10 ~~~~~~gR~~el~~L~~~l~~~--~~v~i~G~~G~GKT~Ll~~~~~~~---~-----~~~~~~~~~~~~~~~~~~~~~~~   79 (350)
T 2qen_A           10 RREDIFDREEESRKLEESLENY--PLTLLLGIRRVGKSSLLRAFLNER---P-----GILIDCRELYAERGHITREELIK   79 (350)
T ss_dssp             SGGGSCSCHHHHHHHHHHHHHC--SEEEEECCTTSSHHHHHHHHHHHS---S-----EEEEEHHHHHHTTTCBCHHHHHH
T ss_pred             ChHhcCChHHHHHHHHHHHhcC--CeEEEECCCcCCHHHHHHHHHHHc---C-----cEEEEeecccccccCCCHHHHHH
Confidence            346799999 999999999764  799999999999999999999865   1     1222              13344


Q ss_pred             HHHHHhcC----------------CCCccCcCCHhHHHHHHHHHhCC-CcEEEEEecCCCccc---------hhhhc-c-
Q 043070          161 VMGYRLAM----------------SNEVWDDKTKQGRAIDSSRRLGQ-RRFALLLDDLREPID---------LKTAG-A-  212 (414)
Q Consensus       161 ~i~~~l~~----------------~~~~~~~~~~~~~~~~l~~~L~~-kr~LlVlDdv~~~~~---------~~~~~-~-  212 (414)
                      .+...+..                ........+..++...+.+.... ++++|||||+.....         +..+. + 
T Consensus        80 ~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~~~~~~~~~~~~~L~~~~  159 (350)
T 2qen_A           80 ELQSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGSRGGKELLALFAYAY  159 (350)
T ss_dssp             HHHHHSCSHHHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGGBTTTTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhHhhhceeEEEecceeeccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhccCccchhhHHHHHHHHH
Confidence            44444321                00000124556666667666653 499999999977432         11110 0 


Q ss_pred             CCCCCCc------------------------------Hh--------hHHHHHHHhhcCCcCCCCchHHHHHHHHHHHhC
Q 043070          213 SIQNGSK------------------------------VK--------YAWNLFQLKVTDDVLNSHRDIRKHAETVAGLCG  254 (414)
Q Consensus       213 p~~~gs~------------------------------ii--------~a~~Lf~~~a~~~~~~~~~~l~~~~~~I~~~c~  254 (414)
                      ....+..                              .+        ++.+++...........+   .+.+..|.+.|+
T Consensus       160 ~~~~~~~~il~g~~~~~l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e~~~~l~~~~~~~~~~~~---~~~~~~i~~~tg  236 (350)
T 2qen_A          160 DSLPNLKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDTSVEFLKRGFREVNLDVP---ENEIEEAVELLD  236 (350)
T ss_dssp             HHCTTEEEEEEESSHHHHHHHHCTTCTTSTTTTCCCEEEECCCCCHHHHHHHHHHHHHTTTCCCC---HHHHHHHHHHHT
T ss_pred             HhcCCeEEEEECCcHHHHHHHHhhcCCCCccccCccceeeCCCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHhC
Confidence            0000111                              11        555666554322111111   345678999999


Q ss_pred             CchhHHHHHHHHhcCCCChhHHH-HHHHHhccCCCCCCCCccchhhHHHhchhCC---CCCChhHHHhHhhhhhcCCHHH
Q 043070          255 GLPLSLITTGSAMTSIRNPAVWE-NAVNDLINYPAEFPGMGDRIFPRLKFSYDHL---PVKPTKLIFYFMNFLIFIRKDD  330 (414)
Q Consensus       255 GlPLai~~~g~~L~~~~~~~~w~-~~~~~l~~~~~~~~~~~~~~~~~l~~sy~~L---~~~~~k~cfl~lsiF~~i~~~~  330 (414)
                      |+|+++..++..+....+...+. .+.+.              +...+.-.+..+   ++. .+..+..+|. ..++...
T Consensus       237 G~P~~l~~~~~~~~~~~~~~~~~~~~~~~--------------~~~~~~~~l~~l~~~~~~-~~~~l~~la~-g~~~~~~  300 (350)
T 2qen_A          237 GIPGWLVVFGVEYLRNGDFGRAMKRTLEV--------------AKGLIMGELEELRRRSPR-YVDILRAIAL-GYNRWSL  300 (350)
T ss_dssp             TCHHHHHHHHHHHHHHCCHHHHHHHHHHH--------------HHHHHHHHHHHHHHHCHH-HHHHHHHHHT-TCCSHHH
T ss_pred             CCHHHHHHHHHHHhccccHhHHHHHHHHH--------------HHHHHHHHHHHHHhCChh-HHHHHHHHHh-CCCCHHH
Confidence            99999999987653212222221 11111              111111112222   565 7888888877 4455555


Q ss_pred             HHHHHHHcCCccCCCchHHHHHHHHHHHHHHHHcCcccccccccCCeEEE-CHHHHHHHH
Q 043070          331 LVDLWTGEGLLRDYHNIAAARVQGKSIIEGLVLVCLLEEVEAYFGNFVKM-HDMIRDLAL  389 (414)
Q Consensus       331 Li~~W~aeg~i~~~~~~~~~~~~~~~~l~~L~~~sLl~~~~~~~~~~~~m-H~lv~~~a~  389 (414)
                      +.....+.. - ..     ......++++.|.+.+||...+    ..|++ |++++.+.+
T Consensus       301 l~~~~~~~~-~-~~-----~~~~~~~~l~~L~~~gli~~~~----~~y~~~~p~~~~~~~  349 (350)
T 2qen_A          301 IRDYLAVKG-T-KI-----PEPRLYALLENLKKMNWIVEED----NTYKIADPVVATVLR  349 (350)
T ss_dssp             HHHHHHHTT-C-CC-----CHHHHHHHHHHHHHTTSEEEET----TEEEESSHHHHHHHT
T ss_pred             HHHHHHHHh-C-CC-----CHHHHHHHHHHHHhCCCEEecC----CEEEEecHHHHHHHc
Confidence            554332211 0 11     1234677899999999998763    45655 788888764

>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=99.36  E-value=9.1e-12  Score=119.72  Aligned_cols=259  Identities=14%  Similarity=0.063  Sum_probs=136.9

Q ss_pred             cCCCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHh-------HHHHHHHHHHHh-
Q 043070           96 DMENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVIL-------VKRIQHVMGYRL-  166 (414)
Q Consensus        96 ~~~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~w-------v~~l~~~i~~~l-  166 (414)
                      .+..++||+ +++.|.+ +..   +++.|+|++|+|||||++.+++......-.+++...       ...+...+...+ 
T Consensus        11 ~~~~~~gR~~el~~L~~-l~~---~~v~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~   86 (357)
T 2fna_A           11 NRKDFFDREKEIEKLKG-LRA---PITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRKFEERNYISYKDFLLELQKEIN   86 (357)
T ss_dssp             SGGGSCCCHHHHHHHHH-TCS---SEEEEEESTTSSHHHHHHHHHHHHTCCEEEEEGGGGTTCSCCCHHHHHHHHHHHHH
T ss_pred             CHHHhcChHHHHHHHHH-hcC---CcEEEECCCCCCHHHHHHHHHHhcCCCEEEEEchhhccccCCCHHHHHHHHHHHHH
Confidence            346799999 9999999 865   699999999999999999999876210001122211       011222222211 


Q ss_pred             -------------cC----CCCc----c-----CcCCHhHHHHHHHHHhCCCcEEEEEecCCCcc-----chhh-h-ccC
Q 043070          167 -------------AM----SNEV----W-----DDKTKQGRAIDSSRRLGQRRFALLLDDLREPI-----DLKT-A-GAS  213 (414)
Q Consensus       167 -------------~~----~~~~----~-----~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~-----~~~~-~-~~p  213 (414)
                                   ..    ..+.    .     .......+...+.+.-. ++++|||||+....     ++.. + .+.
T Consensus        87 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~-~~~vlvlDe~~~~~~~~~~~~~~~l~~~~  165 (357)
T 2fna_A           87 KLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASK-DNVIIVLDEAQELVKLRGVNLLPALAYAY  165 (357)
T ss_dssp             HHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCS-SCEEEEEETGGGGGGCTTCCCHHHHHHHH
T ss_pred             HHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHhcCC-CCeEEEEECHHHhhccCchhHHHHHHHHH
Confidence                         00    0000    0     01234455555544322 49999999997632     1111 1 000


Q ss_pred             -CCCCCcH------------------------------h--------hHHHHHHHhhcCCcCCCCchHHHHHHHHHHHhC
Q 043070          214 -IQNGSKV------------------------------K--------YAWNLFQLKVTDDVLNSHRDIRKHAETVAGLCG  254 (414)
Q Consensus       214 -~~~gs~i------------------------------i--------~a~~Lf~~~a~~~~~~~~~~l~~~~~~I~~~c~  254 (414)
                       ...+..+                              +        ++.+++........... +.    ...|++.|+
T Consensus       166 ~~~~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~l~~~~~~~~~~~-~~----~~~i~~~t~  240 (357)
T 2fna_A          166 DNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDF-KD----YEVVYEKIG  240 (357)
T ss_dssp             HHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCC-CC----HHHHHHHHC
T ss_pred             HcCCCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHHHHHHHHHHcCCCC-Cc----HHHHHHHhC
Confidence             0011111                              1        55555554331101011 11    167899999


Q ss_pred             CchhHHHHHHHHhcCCCChhHHHH-HHHHhccCCCCCCCCccchhhHHH-hchh--CCCCCChhHHHhHhhhhhcCCHHH
Q 043070          255 GLPLSLITTGSAMTSIRNPAVWEN-AVNDLINYPAEFPGMGDRIFPRLK-FSYD--HLPVKPTKLIFYFMNFLIFIRKDD  330 (414)
Q Consensus       255 GlPLai~~~g~~L~~~~~~~~w~~-~~~~l~~~~~~~~~~~~~~~~~l~-~sy~--~L~~~~~k~cfl~lsiF~~i~~~~  330 (414)
                      |+|+++..++..+....+...|.. +.+...          ..+...+. +.++  .||+. .+..+..+|. .. +...
T Consensus       241 G~P~~l~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~~l~~~~~~~~~l~~~-~~~~l~~la~-g~-~~~~  307 (357)
T 2fna_A          241 GIPGWLTYFGFIYLDNKNLDFAINQTLEYAK----------KLILKEFENFLHGREIARKR-YLNIMRTLSK-CG-KWSD  307 (357)
T ss_dssp             SCHHHHHHHHHHHHHHCCHHHHHHHHHHHHH----------HHHHHHHHHHHTTCGGGHHH-HHHHHHHHTT-CB-CHHH
T ss_pred             CCHHHHHHHHHHHccccchHHHHHHHHHHHH----------HHHHHHHHHHhhccccccHH-HHHHHHHHHc-CC-CHHH
Confidence            999999999887643223333321 111100          00111111 1111  57776 8888888887 44 5444


Q ss_pred             HHHHHH-HcCCccCCCchHHHHHHHHHHHHHHHHcCcccccccccCCeEE-ECHHHHHHH
Q 043070          331 LVDLWT-GEGLLRDYHNIAAARVQGKSIIEGLVLVCLLEEVEAYFGNFVK-MHDMIRDLA  388 (414)
Q Consensus       331 Li~~W~-aeg~i~~~~~~~~~~~~~~~~l~~L~~~sLl~~~~~~~~~~~~-mH~lv~~~a  388 (414)
                      +..... ..|.  +     .......++++.|.+.+||...+    ..|+ -|++++++.
T Consensus       308 l~~~~~~~~g~--~-----~~~~~~~~~L~~L~~~gli~~~~----~~y~f~~~~~~~~l  356 (357)
T 2fna_A          308 VKRALELEEGI--E-----ISDSEIYNYLTQLTKHSWIIKEG----EKYCPSEPLISLAF  356 (357)
T ss_dssp             HHHHHHHHHCS--C-----CCHHHHHHHHHHHHHTTSEEESS----SCEEESSHHHHHHT
T ss_pred             HHHHHHHhcCC--C-----CCHHHHHHHHHHHHhCCCEEecC----CEEEecCHHHHHhh
Confidence            433211 1121  0     01234667899999999998753    4566 578988875

>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=99.34  E-value=5.7e-12  Score=123.88  Aligned_cols=250  Identities=13%  Similarity=0.105  Sum_probs=146.1

Q ss_pred             CCccchH-HHHHHHHHh-hc------CCceEEEE--EcCCCCcHHHHHHHHHHhhhhc--CCCCc-chHhH--------H
Q 043070           98 ENTVDVS-RLNEVWRLV-ED------NSVRIICL--HGVSRLGKTTLLYNLNKKFNDT--RHNFG-LVILV--------K  156 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L-~~------~~~~vi~I--~G~gGiGKTtLA~~v~~~~~~v--~~~F~-~~~wv--------~  156 (414)
                      ..++||+ +++++.++| ..      .....+.|  +|++|+||||||+.+++.....  ...|. ..+|+        .
T Consensus        22 ~~l~gR~~el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  101 (412)
T 1w5s_A           22 PELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLY  101 (412)
T ss_dssp             SSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSHH
T ss_pred             CCCCChHHHHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCCCCCHH
Confidence            6799999 999999998 42      24456767  9999999999999999876210  00121 22344        5


Q ss_pred             HHHHHHHHHhcCCCCccCcCCHhHHHHHHHHHhC--CCcEEEEEecCCCcc--------chhhh-ccC-CCC--C--Cc-
Q 043070          157 RIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRRLG--QRRFALLLDDLREPI--------DLKTA-GAS-IQN--G--SK-  219 (414)
Q Consensus       157 ~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L~--~kr~LlVlDdv~~~~--------~~~~~-~~p-~~~--g--s~-  219 (414)
                      .++..++.+++...+. ...+...+...+.+.|.  +++++|||||++...        .+..+ ... ...  +  ++ 
T Consensus       102 ~~~~~l~~~l~~~~~~-~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~~~~~~~~~v  180 (412)
T 1w5s_A          102 TILSLIVRQTGYPIQV-RGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRI  180 (412)
T ss_dssp             HHHHHHHHHHTCCCCC-TTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCCBE
T ss_pred             HHHHHHHHHhCCCCCC-CCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhccCcchHHHHHHHHHHHhcccCCCCceE
Confidence            7888888888765321 23345666777777775  689999999998642        22221 111 000  1  22 


Q ss_pred             -Hh-----------------------------------hHHHHHHHhh---cCCcCCCCchHHHHHHHHHHHhC------
Q 043070          220 -VK-----------------------------------YAWNLFQLKV---TDDVLNSHRDIRKHAETVAGLCG------  254 (414)
Q Consensus       220 -ii-----------------------------------~a~~Lf~~~a---~~~~~~~~~~l~~~~~~I~~~c~------  254 (414)
                       +|                                   +.+++|...+   +... ..+   .+....|++.|+      
T Consensus       181 ~lI~~~~~~~~~~~l~~~~~~~~~~~~~~i~l~~l~~~e~~~ll~~~~~~~~~~~-~~~---~~~~~~i~~~~~~~~~~~  256 (412)
T 1w5s_A          181 GFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDT-VWE---PRHLELISDVYGEDKGGD  256 (412)
T ss_dssp             EEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBCTT-SCC---HHHHHHHHHHHCGGGTSC
T ss_pred             EEEEEeccccHHHHHhhhcchhhhhcCCeeeeCCCCHHHHHHHHHHHHHhcCCCC-CCC---hHHHHHHHHHHHHhccCC
Confidence             22                                   4444554332   1111 111   345677888999      


Q ss_pred             CchhHHHHHHHHh-c-----CC--CChhHHHHHHHHhccCCCCCCCCccchhhHHHhchhCCCCCChhHHHhHhhhh---
Q 043070          255 GLPLSLITTGSAM-T-----SI--RNPAVWENAVNDLINYPAEFPGMGDRIFPRLKFSYDHLPVKPTKLIFYFMNFL---  323 (414)
Q Consensus       255 GlPLai~~~g~~L-~-----~~--~~~~~w~~~~~~l~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~cfl~lsiF---  323 (414)
                      |.|..+..+.... .     ..  .+.+.+..++.....            ...+.-++..||++ .+.++..++.+   
T Consensus       257 G~p~~~~~l~~~a~~~a~~~~~~~i~~~~v~~~~~~~~~------------~~~~~~~l~~l~~~-~~~~l~aia~l~~~  323 (412)
T 1w5s_A          257 GSARRAIVALKMACEMAEAMGRDSLSEDLVRKAVSENEA------------ASIQTHELEALSIH-ELIILRLIAEATLG  323 (412)
T ss_dssp             CCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHC------------------CCSSSSSCHH-HHHHHHHHHHHHHT
T ss_pred             CcHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhc------------cchHHHHHHcCCHH-HHHHHHHHHHHHhc
Confidence            9996555444321 1     11  233444444432110            12334467789987 89988888865   


Q ss_pred             --hcCCHHHHHHHHH--H---cCCccCCCchHHHHHHHHHHHHHHHHcCcccccc
Q 043070          324 --IFIRKDDLVDLWT--G---EGLLRDYHNIAAARVQGKSIIEGLVLVCLLEEVE  371 (414)
Q Consensus       324 --~~i~~~~Li~~W~--a---eg~i~~~~~~~~~~~~~~~~l~~L~~~sLl~~~~  371 (414)
                        ..++...+...+.  +   .|. .+.     .......++++|.+.+||....
T Consensus       324 ~~~~~~~~~~~~~~~~~~~~~~~~-~~~-----~~~~~~~~l~~L~~~gli~~~~  372 (412)
T 1w5s_A          324 GMEWINAGLLRQRYEDASLTMYNV-KPR-----GYTQYHIYLKHLTSLGLVDAKP  372 (412)
T ss_dssp             TCSSBCHHHHHHHHHHHHHHHSCC-CCC-----CHHHHHHHHHHHHHTTSEEEEC
T ss_pred             CCCCccHHHHHHHHHHHHHhhcCC-CCC-----CHHHHHHHHHHHHhCCCEEeec
Confidence              2456666555442  2   121 111     1234567899999999997754

>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=99.08  E-value=6.7e-09  Score=100.88  Aligned_cols=249  Identities=11%  Similarity=-0.023  Sum_probs=143.4

Q ss_pred             CCccchH-HHHHHHHHhhc----CCceEEEEEcCCCCcHHHHHHHHHHhhhhc---CCC--CcchHhH---------HHH
Q 043070           98 ENTVDVS-RLNEVWRLVED----NSVRIICLHGVSRLGKTTLLYNLNKKFNDT---RHN--FGLVILV---------KRI  158 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v---~~~--F~~~~wv---------~~l  158 (414)
                      ..++||+ +++++.++|..    ...+.+.|+|++|+||||||+.+++.....   ...  ....+|+         ..+
T Consensus        20 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~   99 (384)
T 2qby_B           20 KEIPFREDILRDAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTPQAV   99 (384)
T ss_dssp             SSCTTCHHHHHHHHHHHHHHHTTCCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHHHHCSCHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECccCCCCHHHH
Confidence            7899999 99999988843    446789999999999999999999876211   001  1122333         345


Q ss_pred             HHHHHHHhcCCCCccCcCCHhHHHHHHHHHhCCCcEEEEEecCCCccc-------hhhh-cc-C-------C-CCC----
Q 043070          159 QHVMGYRLAMSNEVWDDKTKQGRAIDSSRRLGQRRFALLLDDLREPID-------LKTA-GA-S-------I-QNG----  217 (414)
Q Consensus       159 ~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~-------~~~~-~~-p-------~-~~g----  217 (414)
                      +..++..+..........+...+...+.+.+..++.+|||||++....       +..+ .. +       + ...    
T Consensus       100 ~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~iI~~t~~~~~~~~  179 (384)
T 2qby_B          100 LSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVKRRGGDIVLYQLLRSDANISVIMISNDINVRDY  179 (384)
T ss_dssp             HHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSSSCEEEEEETTHHHHHSTTSHHHHHHHHTSSSCEEEEEECSSTTTTTT
T ss_pred             HHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhccCCCEEEEECHHHhccCCCCceeHHHHhcCCcceEEEEEECCCchHhh
Confidence            667777773322222344456777888888888777999999976431       1121 11 0       1 110    


Q ss_pred             ---------CcHh--------hHHHHHHHhhc---CCcCCCCchHHHHHHHHHHHhC---Cchh-HHHHHHHH--hc---
Q 043070          218 ---------SKVK--------YAWNLFQLKVT---DDVLNSHRDIRKHAETVAGLCG---GLPL-SLITTGSA--MT---  268 (414)
Q Consensus       218 ---------s~ii--------~a~~Lf~~~a~---~~~~~~~~~l~~~~~~I~~~c~---GlPL-ai~~~g~~--L~---  268 (414)
                               +.++        +..++|...+.   ... ..++   +....|++.|+   |.|. |+..+-..  +.   
T Consensus       180 l~~~l~sr~~~~i~l~~l~~~~~~~il~~~~~~~~~~~-~~~~---~~~~~i~~~~~~~~G~~r~a~~~l~~a~~~a~~~  255 (384)
T 2qby_B          180 MEPRVLSSLGPSVIFKPYDAEQLKFILSKYAEYGLIKG-TYDD---EILSYIAAISAKEHGDARKAVNLLFRAAQLASGG  255 (384)
T ss_dssp             SCHHHHHTCCCEEEECCCCHHHHHHHHHHHHHHTSCTT-SCCS---HHHHHHHHHHHTTCCCHHHHHHHHHHHHHHTTSS
T ss_pred             hCHHHHhcCCCeEEECCCCHHHHHHHHHHHHHhhcccC-CcCH---HHHHHHHHHHHhccCCHHHHHHHHHHHHHHhcCC
Confidence                     0111        66777776642   211 2222   34556667776   8775 33333222  22   


Q ss_pred             CCCChhHHHHHHHHhccCCCCCCCCccchhhHHHhchhCCCCCChhHHHhHhhh-hh--cCCHHHHHHHHHHcCCccCCC
Q 043070          269 SIRNPAVWENAVNDLINYPAEFPGMGDRIFPRLKFSYDHLPVKPTKLIFYFMNF-LI--FIRKDDLVDLWTGEGLLRDYH  345 (414)
Q Consensus       269 ~~~~~~~w~~~~~~l~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~cfl~lsi-F~--~i~~~~Li~~W~aeg~i~~~~  345 (414)
                      ..-+.+.+..+++...             ...+..+++.||++ .+..+..++. +.  .+ .+.....--..| ..+. 
T Consensus       256 ~~i~~~~v~~~~~~~~-------------~~~~~~~~~~l~~~-~~~~l~al~~~~~~~~~-~~~~~~~~~~~g-~~~~-  318 (384)
T 2qby_B          256 GIIRKEHVDKAIVDYE-------------QERLIEAVKALPFH-YKLALRSLIESEDVMSA-HKMYTDLCNKFK-QKPL-  318 (384)
T ss_dssp             SCCCHHHHHHHHHHHH-------------HHHHHHHHHSSCHH-HHHHHHHHHTCCBHHHH-HHHHHHHHHHTT-CCCC-
T ss_pred             CccCHHHHHHHHHHHh-------------cchHHHHHHcCCHH-HHHHHHHHHHhcccChH-HHHHHHHHHHcC-CCCC-
Confidence            1256677777666432             23466777889876 6655555554 21  01 011111111223 1111 


Q ss_pred             chHHHHHHHHHHHHHHHHcCcccccc
Q 043070          346 NIAAARVQGKSIIEGLVLVCLLEEVE  371 (414)
Q Consensus       346 ~~~~~~~~~~~~l~~L~~~sLl~~~~  371 (414)
                          ......++++.|...+|+....
T Consensus       319 ----~~~~~~~~l~~L~~~gli~~~~  340 (384)
T 2qby_B          319 ----SYRRFSDIISELDMFGIVKIRI  340 (384)
T ss_dssp             ----CHHHHHHHHHHHHHTTSEEEEE
T ss_pred             ----CHHHHHHHHHHHHhCCCEEEEe
Confidence                2245677899999999998754

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.03  E-value=6.7e-09  Score=100.76  Aligned_cols=248  Identities=12%  Similarity=0.072  Sum_probs=143.6

Q ss_pred             CCccchH-HHHHHHHHhhc----CCceEEEEEcCCCCcHHHHHHHHHHhhhhcC---C-CCcchHhH--------HHHHH
Q 043070           98 ENTVDVS-RLNEVWRLVED----NSVRIICLHGVSRLGKTTLLYNLNKKFNDTR---H-NFGLVILV--------KRIQH  160 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~----~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~---~-~F~~~~wv--------~~l~~  160 (414)
                      +.++||+ +++++.++|..    .....+.|+|++|+||||||+.+++......   . .+ ..+|+        ..++.
T Consensus        19 ~~~~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~-~~~~i~~~~~~~~~~~~~   97 (387)
T 2v1u_A           19 DVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLV-KPIYVNARHRETPYRVAS   97 (387)
T ss_dssp             SCCTTCHHHHHHHHHTTGGGTSSCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCE-EEEEEETTTSCSHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCe-EEEEEECCcCCCHHHHHH
Confidence            6799999 99999999843    4567899999999999999999998762110   0 11 12233        57788


Q ss_pred             HHHHHhcCCCCccCcCCHhHHHHHHHHHhC--CCcEEEEEecCCCccch----hhh----ccC-C---CCCCcHh-----
Q 043070          161 VMGYRLAMSNEVWDDKTKQGRAIDSSRRLG--QRRFALLLDDLREPIDL----KTA----GAS-I---QNGSKVK-----  221 (414)
Q Consensus       161 ~i~~~l~~~~~~~~~~~~~~~~~~l~~~L~--~kr~LlVlDdv~~~~~~----~~~----~~p-~---~~gs~ii-----  221 (414)
                      .++..++...+. ...+..++...+.+.+.  +++.+||||+++....-    +.+    ..+ .   ..+..+|     
T Consensus        98 ~l~~~l~~~~~~-~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~~~~~~~I~~t~~  176 (387)
T 2v1u_A           98 AIAEAVGVRVPF-TGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVSLVGITNS  176 (387)
T ss_dssp             HHHHHHSCCCCS-SCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC-----CEEEEECSC
T ss_pred             HHHHHhCCCCCC-CCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhcCCCceEEEEEEECC
Confidence            888888764321 34456667777777774  46899999999864311    111    001 0   1111222     


Q ss_pred             ----------------------------hHHHHHHHhhc---CCcCCCCchHHHHHHHHHHHhC---Cch-hHHHHHHHH
Q 043070          222 ----------------------------YAWNLFQLKVT---DDVLNSHRDIRKHAETVAGLCG---GLP-LSLITTGSA  266 (414)
Q Consensus       222 ----------------------------~a~~Lf~~~a~---~~~~~~~~~l~~~~~~I~~~c~---GlP-Lai~~~g~~  266 (414)
                                                  +..+++...+.   ... ..++   +....|++.++   |.| .++..+..+
T Consensus       177 ~~~~~~l~~~l~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~-~~~~---~~~~~l~~~~~~~~G~~r~~~~~l~~a  252 (387)
T 2v1u_A          177 LGFVENLEPRVKSSLGEVELVFPPYTAPQLRDILETRAEEAFNPG-VLDP---DVVPLCAALAAREHGDARRALDLLRVA  252 (387)
T ss_dssp             STTSSSSCHHHHTTTTSEECCBCCCCHHHHHHHHHHHHHHHBCTT-TBCS---SHHHHHHHHHHSSSCCHHHHHHHHHHH
T ss_pred             CchHhhhCHHHHhcCCCeEEeeCCCCHHHHHHHHHHHHHhhccCC-CCCH---HHHHHHHHHHHHhccCHHHHHHHHHHH
Confidence                                        55566655532   211 1122   23456667776   888 333322222


Q ss_pred             hc-----C--CCChhHHHHHHHHhccCCCCCCCCccchhhHHHhchhCCCCCChhHHHhHhh-hh---hcCCHHHHHHHH
Q 043070          267 MT-----S--IRNPAVWENAVNDLINYPAEFPGMGDRIFPRLKFSYDHLPVKPTKLIFYFMN-FL---IFIRKDDLVDLW  335 (414)
Q Consensus       267 L~-----~--~~~~~~w~~~~~~l~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~cfl~ls-iF---~~i~~~~Li~~W  335 (414)
                      ..     .  .-+.+.+..++....             ...+.-++..||++ .+..+..++ ++   ..+....+.+..
T Consensus       253 ~~~a~~~~~~~i~~~~v~~a~~~~~-------------~~~~~~~~~~l~~~-~~~~l~a~~~~~~~~~~~~~~~~~~~~  318 (387)
T 2v1u_A          253 GEIAERRREERVRREHVYSARAEIE-------------RDRVSEVVRTLPLH-AKLVLLSIMMLEDGGRPASTGEIYERY  318 (387)
T ss_dssp             HHHHHHTTCSCBCHHHHHHHHHHHH-------------HHHHHHHHHSSCHH-HHHHHHHHHHHSSSSCCEEHHHHHHHH
T ss_pred             HHHHHHcCCCCcCHHHHHHHHHHHh-------------hchHHHHHHcCCHH-HHHHHHHHHHHhcCCCCCcHHHHHHHH
Confidence            11     1  135566666655431             23455677889876 555555454 33   234444333332


Q ss_pred             ----HHcCCccCCCchHHHHHHHHHHHHHHHHcCcccccc
Q 043070          336 ----TGEGLLRDYHNIAAARVQGKSIIEGLVLVCLLEEVE  371 (414)
Q Consensus       336 ----~aeg~i~~~~~~~~~~~~~~~~l~~L~~~sLl~~~~  371 (414)
                          -..| ..+.     ....+..+++.|...|++....
T Consensus       319 ~~~~~~~~-~~~~-----~~~~~~~~l~~L~~~gli~~~~  352 (387)
T 2v1u_A          319 KELTSTLG-LEHV-----TLRRVSGIISELDMLGIVKSRV  352 (387)
T ss_dssp             HHHHHHTT-CCCC-----CHHHHHHHHHHHHHTTSEEEEE
T ss_pred             HHHHHhcC-CCCC-----CHHHHHHHHHHHHhCCCeEEEe
Confidence                1223 2221     2345677899999999998754

>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=99.01  E-value=2e-09  Score=104.44  Aligned_cols=106  Identities=9%  Similarity=0.092  Sum_probs=74.3

Q ss_pred             CCccchH-HHHHHHHHhh----cCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH--------HHHHHHHHH
Q 043070           98 ENTVDVS-RLNEVWRLVE----DNSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV--------KRIQHVMGY  164 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~----~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv--------~~l~~~i~~  164 (414)
                      +.++||+ +++.+.+++.    ......+.|+|++|+||||||+.+++........-...+|+        ..++..++.
T Consensus        20 ~~~~gr~~e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~i~~   99 (386)
T 2qby_A           20 DELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPYRVLADLLE   99 (386)
T ss_dssp             SCCTTCHHHHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHHHCSHHHHHHHHTT
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCCCCCHHHHHHHHHH
Confidence            6799999 9999999986    34567899999999999999999998762110001122333        466777777


Q ss_pred             HhcCCCCccCcCCHhHHHHHHHHHhC--CCcEEEEEecCCCc
Q 043070          165 RLAMSNEVWDDKTKQGRAIDSSRRLG--QRRFALLLDDLREP  204 (414)
Q Consensus       165 ~l~~~~~~~~~~~~~~~~~~l~~~L~--~kr~LlVlDdv~~~  204 (414)
                      .++...+. ...+..+....+.+.+.  +++.+||||+++..
T Consensus       100 ~l~~~~~~-~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l  140 (386)
T 2qby_A          100 SLDVKVPF-TGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAF  140 (386)
T ss_dssp             TTSCCCCS-SSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHH
T ss_pred             HhCCCCCC-CCCCHHHHHHHHHHHHhccCCeEEEEEcChhhh
Confidence            77654321 23345666667777765  45899999999753

>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=98.99  E-value=2e-08  Score=97.57  Aligned_cols=104  Identities=15%  Similarity=0.109  Sum_probs=75.0

Q ss_pred             CCccchH-HHHHHHHHhhc----CCce--EEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH--------HHHHHHH
Q 043070           98 ENTVDVS-RLNEVWRLVED----NSVR--IICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV--------KRIQHVM  162 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~----~~~~--vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv--------~~l~~~i  162 (414)
                      +.++||+ +++++.+++..    ....  .+.|+|++|+||||||+.+++... ....+ ..+++        ..+...+
T Consensus        17 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~~~-~~~~~-~~~~i~~~~~~~~~~~~~~l   94 (389)
T 1fnn_A           17 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYK-DKTTA-RFVYINGFIYRNFTAIIGEI   94 (389)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHT-TSCCC-EEEEEETTTCCSHHHHHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHHHh-hhcCe-eEEEEeCccCCCHHHHHHHH
Confidence            6799999 99999999854    3334  899999999999999999998872 11112 22233        5778888


Q ss_pred             HHHhcCCCCccCcCCHhHHHHHHHHHhC--CCcEEEEEecCCCc
Q 043070          163 GYRLAMSNEVWDDKTKQGRAIDSSRRLG--QRRFALLLDDLREP  204 (414)
Q Consensus       163 ~~~l~~~~~~~~~~~~~~~~~~l~~~L~--~kr~LlVlDdv~~~  204 (414)
                      +..++...+. ...+...+...+.+.+.  +++.+||||+++..
T Consensus        95 ~~~l~~~~~~-~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l  137 (389)
T 1fnn_A           95 ARSLNIPFPR-RGLSRDEFLALLVEHLRERDLYMFLVLDDAFNL  137 (389)
T ss_dssp             HHHTTCCCCS-SCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGS
T ss_pred             HHHhCccCCC-CCCCHHHHHHHHHHHHhhcCCeEEEEEECcccc
Confidence            8888654321 23455666677777664  56899999999775

>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP: a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*

Probab=98.83  E-value=1.4e-08  Score=96.41  Aligned_cols=46  Identities=20%  Similarity=0.302  Sum_probs=39.0

Q ss_pred             CCCccchH-HHHHHHHHhhc-----CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           97 MENTVDVS-RLNEVWRLVED-----NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+++|++ .+..+.+++..     .....+.|+|++|+|||+||+.+++..
T Consensus        11 ~~~~ig~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~i~~~~   62 (324)
T 1hqc_A           11 LDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHEL   62 (324)
T ss_dssp             TTTCCSCHHHHHHHHHHHHHHHHHCSCCCCCEEECCTTCCCHHHHHHHHHHH
T ss_pred             HHHhhCHHHHHHHHHHHHHHHHccCCCCCcEEEECCCCCCHHHHHHHHHHHh
Confidence            46799999 99998888842     344678999999999999999999877

>3qfl_A MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-binding domain, L rich repeat containing receptors, protein binding; 2.00A {Hordeum vulgare}

Probab=98.75  E-value=4.1e-10  Score=90.07  Aligned_cols=30  Identities=10%  Similarity=0.106  Sum_probs=26.8

Q ss_pred             chHHHHHHHhhhcccccchhhhhhhccccccc
Q 043070            3 NSKSCMMKSIKGSGIQYKIVTCLDRQCHTDWK   34 (414)
Q Consensus         3 ~~~~~W~~~vr~~dlayd~eD~iD~~~~~~~~   34 (414)
                      .+++.|++|||  |+|||+|||||+|.++.+.
T Consensus        55 ~~vk~W~~~vr--dlaYD~ED~iD~f~~~~~~   84 (115)
T 3qfl_A           55 SQDKLWADEVR--ELSYVIEDVVDKFLVQVDG   84 (115)
T ss_dssp             HHHHHHHHHHH--HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHH--HHHHHHHHHHHHHHHHhcc
Confidence            36899999999  9999999999999887654

>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=98.74  E-value=2.5e-08  Score=89.70  Aligned_cols=164  Identities=10%  Similarity=0.033  Sum_probs=89.9

Q ss_pred             CCccchH-HHHHHHHHhhcCC-ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcc--hHhHHHHHHHHHHHhcCCCCcc
Q 043070           98 ENTVDVS-RLNEVWRLVEDNS-VRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGL--VILVKRIQHVMGYRLAMSNEVW  173 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~--~~wv~~l~~~i~~~l~~~~~~~  173 (414)
                      .+++|++ .++.+.+++.... ...+.|+|++|+||||||+.+++... ....+..  ..+.... ..+...........
T Consensus        23 ~~~~g~~~~~~~l~~~l~~~~~~~~~ll~G~~G~GKT~l~~~~~~~~~-~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~  100 (250)
T 1njg_A           23 ADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLN-CETGITATPCGVCDNC-REIEQGRFVDLIEI  100 (250)
T ss_dssp             GGCCSCHHHHHHHHHHHHHTCCCSEEEEECSTTSCHHHHHHHHHHHHH-CTTCSCSSCCSCSHHH-HHHHTTCCSSEEEE
T ss_pred             HHHhCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhc-CCCCCCCCCCcccHHH-HHHhccCCcceEEe
Confidence            5689999 9999999997643 45889999999999999999998772 1111100  0000110 11111100000000


Q ss_pred             ---CcCCHhHHHHHHHHHh-----CCCcEEEEEecCCCcc--chhhhc--cC-CCCCCcHh-------------------
Q 043070          174 ---DDKTKQGRAIDSSRRL-----GQRRFALLLDDLREPI--DLKTAG--AS-IQNGSKVK-------------------  221 (414)
Q Consensus       174 ---~~~~~~~~~~~l~~~L-----~~kr~LlVlDdv~~~~--~~~~~~--~p-~~~gs~ii-------------------  221 (414)
                         .....+.+ ..+.+.+     .+++.+|||||++...  .+..+.  +. ...+..+|                   
T Consensus       101 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~~vlviDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~t~~~~~~~~~l~~r~~~  179 (250)
T 1njg_A          101 DAASRTKVEDT-RDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQ  179 (250)
T ss_dssp             ETTCGGGHHHH-HHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEE
T ss_pred             cCcccccHHHH-HHHHHHhhhchhcCCceEEEEECcccccHHHHHHHHHHHhcCCCceEEEEEeCChHhCCHHHHHHhhh
Confidence               01112222 2233332     3468999999997643  333331  11 11222222                   


Q ss_pred             ---------hHHHHHHHhhcCCcCCCCchHHHHHHHHHHHhCCchhHHHHHHHHh
Q 043070          222 ---------YAWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTGSAM  267 (414)
Q Consensus       222 ---------~a~~Lf~~~a~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~g~~L  267 (414)
                               +..+++...+.......+   .+....|++.|+|.|..+..+...+
T Consensus       180 i~l~~l~~~e~~~~l~~~~~~~~~~~~---~~~~~~l~~~~~G~~~~~~~~~~~~  231 (250)
T 1njg_A          180 FHLKALDVEQIRHQLEHILNEEHIAHE---PRALQLLARAAEGSLRDALSLTDQA  231 (250)
T ss_dssp             EECCCCCHHHHHHHHHHHHHHTTCCBC---HHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             ccCCCCCHHHHHHHHHHHHHhcCCCCC---HHHHHHHHHHcCCCHHHHHHHHHHH
Confidence                     666777666543221222   3456788999999998887766544

>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=98.65  E-value=1.4e-07  Score=83.58  Aligned_cols=45  Identities=18%  Similarity=0.283  Sum_probs=40.0

Q ss_pred             CCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+++|++ .++.+.+++.......+.|+|.+|+|||+||+.+++..
T Consensus        17 ~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~   62 (226)
T 2chg_A           17 DEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDL   62 (226)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTCCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            5689999 99999999987665569999999999999999999875

>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=98.47  E-value=7.4e-07  Score=84.06  Aligned_cols=45  Identities=18%  Similarity=0.372  Sum_probs=40.2

Q ss_pred             CCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+++|++ .++.+.+++.....+.+.|+|++|+||||+|+.+++..
T Consensus        21 ~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l   66 (323)
T 1sxj_B           21 SDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHEL   66 (323)
T ss_dssp             GGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHh
Confidence            6689999 99999999987665559999999999999999999875

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=98.28  E-value=2.3e-06  Score=73.70  Aligned_cols=46  Identities=13%  Similarity=0.304  Sum_probs=41.2

Q ss_pred             CCCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           97 MENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...++||+ .++++.+.+.......+.|+|.+|+|||+||+.+++..
T Consensus        21 ~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~~~~~~   67 (195)
T 1jbk_A           21 LDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRI   67 (195)
T ss_dssp             SCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ccccccchHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHH
Confidence            36689999 99999999977666778999999999999999999876

>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=98.18  E-value=6.3e-06  Score=77.74  Aligned_cols=46  Identities=20%  Similarity=0.325  Sum_probs=40.9

Q ss_pred             CCCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           97 MENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.+++|++ .++.+.+++..+..+.+.++|++|+||||+|+.+++..
T Consensus        24 ~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~l~~~l   70 (327)
T 1iqp_A           24 LDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALAREL   70 (327)
T ss_dssp             TTTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             HHHhhCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHh
Confidence            36699999 99999999987766669999999999999999999875

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=98.15  E-value=6.5e-06  Score=77.51  Aligned_cols=106  Identities=8%  Similarity=0.137  Sum_probs=70.9

Q ss_pred             CCccchH-HHHHHHHHhh----cCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCC-----CCcchHhH--------HHHH
Q 043070           98 ENTVDVS-RLNEVWRLVE----DNSVRIICLHGVSRLGKTTLLYNLNKKFNDTRH-----NFGLVILV--------KRIQ  159 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~----~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~-----~F~~~~wv--------~~l~  159 (414)
                      ..+.||| ++++|...|.    ......+-|+|++|+|||++++.+++.......     .|. .+.|        ..+.
T Consensus        20 ~~L~~Re~E~~~i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~-~v~INc~~~~t~~~~~   98 (318)
T 3te6_A           20 ELLKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFD-YIHIDALELAGMDALY   98 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEE-EEEEETTCCC--HHHH
T ss_pred             cccCCHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceE-EEEEeccccCCHHHHH
Confidence            3478999 9999998884    366788999999999999999999998832111     121 1222        6788


Q ss_pred             HHHHHHhcCCCCccCcCCHhHHHHHHHHH--hCCCcEEEEEecCCCcc
Q 043070          160 HVMGYRLAMSNEVWDDKTKQGRAIDSSRR--LGQRRFALLLDDLREPI  205 (414)
Q Consensus       160 ~~i~~~l~~~~~~~~~~~~~~~~~~l~~~--L~~kr~LlVlDdv~~~~  205 (414)
                      ..|++++...... .....+.+...+...  -.+++++++||+++...
T Consensus        99 ~~I~~~L~g~~~~-~~~~~~~L~~~f~~~~~~~~~~~ii~lDE~d~l~  145 (318)
T 3te6_A           99 EKIWFAISKENLC-GDISLEALNFYITNVPKAKKRKTLILIQNPENLL  145 (318)
T ss_dssp             HHHHHHHSCCC---CCCCHHHHHHHHHHSCGGGSCEEEEEEECCSSSC
T ss_pred             HHHHHHhcCCCCC-chHHHHHHHHHHHHhhhccCCceEEEEecHHHhh
Confidence            8999998654321 222233333333321  14578999999998764

>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=97.89  E-value=5.2e-05  Score=71.06  Aligned_cols=46  Identities=17%  Similarity=0.297  Sum_probs=40.3

Q ss_pred             CCCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           97 MENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+++|++ .++.+.+++..+..+.+.++|++|+|||++|+.+++..
T Consensus        16 ~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l   62 (319)
T 2chq_A           16 LDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDL   62 (319)
T ss_dssp             GGGSCSCHHHHHHHHTTTTTTCCCCEEEESSSSSSHHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHhCCCCCeEEEECcCCcCHHHHHHHHHHHh
Confidence            35689999 99999999977666569999999999999999999875

>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=97.87  E-value=8e-05  Score=71.52  Aligned_cols=45  Identities=18%  Similarity=0.166  Sum_probs=39.4

Q ss_pred             CCccchH-HHHHHHHHhhcCC-ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVEDNS-VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+++|++ .++.+.+.+.... ...+.|+|++|+||||+|+.+++..
T Consensus        16 ~~~vg~~~~~~~L~~~l~~~~~~~~~ll~G~~G~GKT~la~~la~~l   62 (373)
T 1jr3_A           16 ADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGL   62 (373)
T ss_dssp             TTSCSCHHHHHHHHHHHHHTCCCSEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             hhccCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            5699999 9999999997654 3578999999999999999999876

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=97.82  E-value=1.9e-05  Score=67.63  Aligned_cols=46  Identities=15%  Similarity=0.265  Sum_probs=41.1

Q ss_pred             CCCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           97 MENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...++|++ +++.+.+.+.......+.|+|.+|+|||+||+.+++..
T Consensus        21 ~~~~~g~~~~~~~l~~~l~~~~~~~vll~G~~G~GKT~la~~~~~~~   67 (187)
T 2p65_A           21 LDPVIGRDTEIRRAIQILSRRTKNNPILLGDPGVGKTAIVEGLAIKI   67 (187)
T ss_dssp             SCCCCSCHHHHHHHHHHHTSSSSCEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             cchhhcchHHHHHHHHHHhCCCCCceEEECCCCCCHHHHHHHHHHHH
Confidence            36789999 99999999977666778999999999999999999876

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=97.77  E-value=2.6e-05  Score=68.26  Aligned_cols=84  Identities=21%  Similarity=0.230  Sum_probs=48.8

Q ss_pred             HHHHHHHHhhcC----CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH--HHHHHHHHHHhcCCCCccCcCCH
Q 043070          105 RLNEVWRLVEDN----SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV--KRIQHVMGYRLAMSNEVWDDKTK  178 (414)
Q Consensus       105 ~~~~l~~~L~~~----~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv--~~l~~~i~~~l~~~~~~~~~~~~  178 (414)
                      .++.+.+++...    ....+.|+|.+|+|||+||+.+++...   ......+++  ..+...+......       .+.
T Consensus        37 ~~~~~~~~~~~~~~~~~~~~~~l~G~~GtGKT~la~~i~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~-------~~~  106 (202)
T 2w58_A           37 AIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIANELA---KRNVSSLIVYVPELFRELKHSLQD-------QTM  106 (202)
T ss_dssp             HHHHHHHHHHHCCSSCCCCEEEEECSTTSSHHHHHHHHHHHHH---TTTCCEEEEEHHHHHHHHHHC----------CCC
T ss_pred             HHHHHHHHHHHhhhccCCCeEEEECCCCCCHHHHHHHHHHHHH---HcCCeEEEEEhHHHHHHHHHHhcc-------chH
Confidence            445555555442    126899999999999999999999872   222233334  5555554433221       112


Q ss_pred             hHHHHHHHHHhCCCcEEEEEecCCC
Q 043070          179 QGRAIDSSRRLGQRRFALLLDDLRE  203 (414)
Q Consensus       179 ~~~~~~l~~~L~~kr~LlVlDdv~~  203 (414)
                      ......+.    +. -+|||||++.
T Consensus       107 ~~~~~~~~----~~-~~lilDei~~  126 (202)
T 2w58_A          107 NEKLDYIK----KV-PVLMLDDLGA  126 (202)
T ss_dssp             HHHHHHHH----HS-SEEEEEEECC
T ss_pred             HHHHHHhc----CC-CEEEEcCCCC
Confidence            23333332    22 3999999965

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=97.74  E-value=5.8e-05  Score=69.81  Aligned_cols=45  Identities=24%  Similarity=0.270  Sum_probs=38.4

Q ss_pred             CCccchH-HHHHHHHHhhc-------------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVED-------------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++++|.+ .+++|.+.+..             ....-+.|+|++|+|||+||+.+++..
T Consensus        17 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~   75 (285)
T 3h4m_A           17 EDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATET   75 (285)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHT
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHh
Confidence            5689999 99999888732             345679999999999999999999887

>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=97.62  E-value=0.00013  Score=62.61  Aligned_cols=85  Identities=16%  Similarity=0.140  Sum_probs=49.4

Q ss_pred             HHHHHHHHhhc---CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH--HHHHHHHHHHhcCCCCccCcCCHh
Q 043070          105 RLNEVWRLVED---NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV--KRIQHVMGYRLAMSNEVWDDKTKQ  179 (414)
Q Consensus       105 ~~~~l~~~L~~---~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv--~~l~~~i~~~l~~~~~~~~~~~~~  179 (414)
                      .++.+.+++.+   .....+.|+|++|+||||||+.+++......+ + ..+++  .++...+........       ..
T Consensus        22 ~~~~~~~~~~~~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g-~-~~~~~~~~~~~~~~~~~~~~~~-------~~   92 (180)
T 3ec2_A           22 ALLTIRVFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAIYEKKG-I-RGYFFDTKDLIFRLKHLMDEGK-------DT   92 (180)
T ss_dssp             HHHHHHHHHHSCCGGGCCEEEECCSSSSSHHHHHHHHHHHHHHHSC-C-CCCEEEHHHHHHHHHHHHHHTC-------CS
T ss_pred             HHHHHHHHHHhccccCCCEEEEECCCCCCHHHHHHHHHHHHHHHcC-C-eEEEEEHHHHHHHHHHHhcCch-------HH
Confidence            55555555533   33578999999999999999999988721111 1 11222  455555544443221       01


Q ss_pred             HHHHHHHHHhCCCcEEEEEecCCC
Q 043070          180 GRAIDSSRRLGQRRFALLLDDLRE  203 (414)
Q Consensus       180 ~~~~~l~~~L~~kr~LlVlDdv~~  203 (414)
                      .....    +. +.-+|||||+..
T Consensus        93 ~~~~~----~~-~~~llilDE~~~  111 (180)
T 3ec2_A           93 KFLKT----VL-NSPVLVLDDLGS  111 (180)
T ss_dssp             HHHHH----HH-TCSEEEEETCSS
T ss_pred             HHHHH----hc-CCCEEEEeCCCC
Confidence            22222    22 456899999973

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=97.61  E-value=0.00011  Score=72.62  Aligned_cols=47  Identities=21%  Similarity=0.259  Sum_probs=41.2

Q ss_pred             cCCCccchH-HH---HHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           96 DMENTVDVS-RL---NEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        96 ~~~~~vGr~-~~---~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.++||.+ .+   ..+...+.......+.|+|.+|+||||||+.+++..
T Consensus        24 ~l~~ivGq~~~~~~~~~L~~~i~~~~~~~vLL~GppGtGKTtlAr~ia~~~   74 (447)
T 3pvs_A           24 NLAQYIGQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKTTLAEVIARYA   74 (447)
T ss_dssp             STTTCCSCHHHHSTTSHHHHHHHHTCCCEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CHHHhCCcHHHHhchHHHHHHHHcCCCcEEEEECCCCCcHHHHHHHHHHHh
Confidence            346789999 77   788888888777889999999999999999999887

>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=97.60  E-value=0.00023  Score=64.74  Aligned_cols=45  Identities=20%  Similarity=0.182  Sum_probs=35.5

Q ss_pred             CCccchH-HHHHHHHHhh---c---------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVE---D---------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~---~---------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+++|.+ .++.+.+++.   .         ...+-+.|+|++|+|||+||+.+++..
T Consensus         6 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~   63 (262)
T 2qz4_A            6 KDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEA   63 (262)
T ss_dssp             TSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            5689998 7777766552   1         234568899999999999999999877

>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=97.46  E-value=0.00028  Score=65.95  Aligned_cols=90  Identities=17%  Similarity=0.169  Sum_probs=56.8

Q ss_pred             CCccchH-HHHHHHHHhhc-------------CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCC-cchHhHHHHHHHH
Q 043070           98 ENTVDVS-RLNEVWRLVED-------------NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNF-GLVILVKRIQHVM  162 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F-~~~~wv~~l~~~i  162 (414)
                      .+++|.+ .+++|.+++..             ...+.+.|+|++|+|||+||+.+++..   ...| ....  ..+....
T Consensus        15 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~---~~~~i~v~~--~~l~~~~   89 (301)
T 3cf0_A           15 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANEC---QANFISIKG--PELLTMW   89 (301)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHT---TCEEEEECH--HHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHh---CCCEEEEEh--HHHHhhh
Confidence            5688999 88888887632             345679999999999999999999987   3333 1100  2222221


Q ss_pred             HHHhcCCCCccCcCCHhHHHHHHHHHhCCCcEEEEEecCCC
Q 043070          163 GYRLAMSNEVWDDKTKQGRAIDSSRRLGQRRFALLLDDLRE  203 (414)
Q Consensus       163 ~~~l~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~  203 (414)
                         .+..        ...+...+.......+.+|+||++..
T Consensus        90 ---~g~~--------~~~~~~~f~~a~~~~p~il~iDEid~  119 (301)
T 3cf0_A           90 ---FGES--------EANVREIFDKARQAAPCVLFFDELDS  119 (301)
T ss_dssp             ---HTTC--------TTHHHHHHHHHHHTCSEEEEECSTTH
T ss_pred             ---cCch--------HHHHHHHHHHHHhcCCeEEEEEChHH
Confidence               1111        11222333333445789999999864

>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=97.42  E-value=0.0003  Score=66.30  Aligned_cols=46  Identities=15%  Similarity=0.132  Sum_probs=39.1

Q ss_pred             CCCccchH-HHHHHHHHhhcCC-ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           97 MENTVDVS-RLNEVWRLVEDNS-VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -++++|.+ .++.+.+++.... ..++.+.|++|+|||++|+.+++..
T Consensus        25 ~~~ivg~~~~~~~l~~~l~~~~~~~~~L~~G~~G~GKT~la~~la~~l   72 (324)
T 3u61_B           25 IDECILPAFDKETFKSITSKGKIPHIILHSPSPGTGKTTVAKALCHDV   72 (324)
T ss_dssp             TTTSCCCHHHHHHHHHHHHTTCCCSEEEECSSTTSSHHHHHHHHHHHT
T ss_pred             HHHHhCcHHHHHHHHHHHHcCCCCeEEEeeCcCCCCHHHHHHHHHHHh
Confidence            36789999 9999999997654 3577788889999999999999876

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=97.42  E-value=0.00038  Score=64.70  Aligned_cols=45  Identities=16%  Similarity=0.122  Sum_probs=37.9

Q ss_pred             CCccchH-HHHHHHHHhhc------------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVED------------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+++|.+ .++.+.+.+..            .....+.|+|++|+||||||+.+++..
T Consensus        21 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~   78 (297)
T 3b9p_A           21 TDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATEC   78 (297)
T ss_dssp             GGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHT
T ss_pred             HHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHh
Confidence            5689999 99998888732            235689999999999999999999877

>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=97.38  E-value=0.00034  Score=66.06  Aligned_cols=45  Identities=18%  Similarity=0.109  Sum_probs=37.3

Q ss_pred             CCccchH-HHHHHHHHhhc------------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVED------------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+++|.+ .++.|.+.+.-            ...+-+.++|++|+|||+||+.+++..
T Consensus        18 ~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~   75 (322)
T 3eie_A           18 EDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEA   75 (322)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHHH
T ss_pred             HHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHH
Confidence            5689999 99998887721            224579999999999999999999887

>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=97.35  E-value=0.00027  Score=69.84  Aligned_cols=93  Identities=17%  Similarity=0.189  Sum_probs=54.2

Q ss_pred             CCcc-chH---HHHHHHHHhhcCC-ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCc--chHhH--HHHHHHHHHHhcC
Q 043070           98 ENTV-DVS---RLNEVWRLVEDNS-VRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFG--LVILV--KRIQHVMGYRLAM  168 (414)
Q Consensus        98 ~~~v-Gr~---~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~--~~~wv--~~l~~~i~~~l~~  168 (414)
                      ++|| |..   ....+........ ...+.|+|.+|+||||||+.+++...   ..|.  ..+++  ..+...+...+..
T Consensus       105 d~fv~g~~n~~a~~~~~~~a~~~~~~~~lll~Gp~G~GKTtLa~aia~~l~---~~~~~~~v~~v~~~~~~~~~~~~~~~  181 (440)
T 2z4s_A          105 ENFVVGPGNSFAYHAALEVAKHPGRYNPLFIYGGVGLGKTHLLQSIGNYVV---QNEPDLRVMYITSEKFLNDLVDSMKE  181 (440)
T ss_dssp             GGCCCCTTTHHHHHHHHHHHHSTTSSCCEEEECSSSSSHHHHHHHHHHHHH---HHCCSSCEEEEEHHHHHHHHHHHHHT
T ss_pred             hhcCCCCchHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHH---HhCCCCeEEEeeHHHHHHHHHHHHHc
Confidence            3455 644   4444444444433 67899999999999999999998772   2221  11233  4444455544432


Q ss_pred             CCCccCcCCHhHHHHHHHHHhCCCcEEEEEecCCCc
Q 043070          169 SNEVWDDKTKQGRAIDSSRRLGQRRFALLLDDLREP  204 (414)
Q Consensus       169 ~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~  204 (414)
                      ..           ...+...+..+..+|+|||+...
T Consensus       182 ~~-----------~~~~~~~~~~~~~vL~IDEi~~l  206 (440)
T 2z4s_A          182 GK-----------LNEFREKYRKKVDILLIDDVQFL  206 (440)
T ss_dssp             TC-----------HHHHHHHHTTTCSEEEEECGGGG
T ss_pred             cc-----------HHHHHHHhcCCCCEEEEeCcccc
Confidence            11           11233344445678888888644

>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=97.33  E-value=0.00041  Score=66.53  Aligned_cols=45  Identities=20%  Similarity=0.138  Sum_probs=38.1

Q ss_pred             CCccchH-HHHHHHHHhhc------------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVED------------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+++|.+ .++.|.+.+..            ...+.+.|+|++|+|||+||+.+++..
T Consensus        84 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~  141 (357)
T 3d8b_A           84 EDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQS  141 (357)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHHHT
T ss_pred             HHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHHHc
Confidence            5689999 99998888731            345789999999999999999999876

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=97.29  E-value=0.00072  Score=63.83  Aligned_cols=45  Identities=18%  Similarity=0.114  Sum_probs=36.5

Q ss_pred             CCccchH-HHHHHHHHhhc------------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVED------------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++++|.+ .++.|.+.+.-            ...+-|.++|++|+|||+||+.+++..
T Consensus        12 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~   69 (322)
T 1xwi_A           12 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEA   69 (322)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHT
T ss_pred             HHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHc
Confidence            5688999 88888877621            234679999999999999999999876

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=97.26  E-value=0.001  Score=64.51  Aligned_cols=45  Identities=18%  Similarity=0.142  Sum_probs=38.0

Q ss_pred             CCccchH-HHHHHHHHhhc------------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVED------------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+++|.+ .++.|.+.+..            ...+-+.|+|.+|+|||+||+.+++..
T Consensus       115 ~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~~  172 (389)
T 3vfd_A          115 DDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAES  172 (389)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHHT
T ss_pred             HHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHhh
Confidence            5789999 99999988721            234689999999999999999998876

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.24  E-value=0.0006  Score=65.90  Aligned_cols=45  Identities=18%  Similarity=0.249  Sum_probs=36.0

Q ss_pred             CCccchH-HHHHHHHHhh----c---------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVE----D---------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +++.|.+ .+++|.+.+.    .         ...+-|.++|++|.|||.||+++++..
T Consensus       148 ~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~  206 (405)
T 4b4t_J          148 DMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHT  206 (405)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhh
Confidence            3456888 8877777652    1         345789999999999999999999988

>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=97.22  E-value=0.00067  Score=64.95  Aligned_cols=45  Identities=18%  Similarity=0.109  Sum_probs=37.0

Q ss_pred             CCccchH-HHHHHHHHhhc------------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVED------------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+++|.+ .++.|.+.+..            ...+-|.|+|++|+|||+||+.+++..
T Consensus        51 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~  108 (355)
T 2qp9_X           51 EDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEA  108 (355)
T ss_dssp             GGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHh
Confidence            5689999 99998887721            223468899999999999999999987

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=97.19  E-value=0.0013  Score=59.76  Aligned_cols=45  Identities=20%  Similarity=0.208  Sum_probs=34.7

Q ss_pred             CCccchH-HHHHHHHHh---hc---------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLV---ED---------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L---~~---------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++++|.+ .++++.+.+   ..         ...+-+.|+|.+|+||||||+.+++..
T Consensus        12 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~   69 (257)
T 1lv7_A           12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA   69 (257)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHc
Confidence            5688988 777766654   21         123468899999999999999999876

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.18  E-value=0.00081  Score=65.90  Aligned_cols=45  Identities=18%  Similarity=0.295  Sum_probs=36.2

Q ss_pred             CCccchH-HHHHHHHHhh----c---------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVE----D---------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +++.|.+ .+++|.+.+.    .         ...+-|.++|++|.|||+||+++++..
T Consensus       181 ~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~  239 (437)
T 4b4t_L          181 DGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATI  239 (437)
T ss_dssp             GGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             hHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHh
Confidence            3456888 7777777662    1         346789999999999999999999988

>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=97.17  E-value=0.001  Score=60.90  Aligned_cols=45  Identities=16%  Similarity=0.229  Sum_probs=34.6

Q ss_pred             CCccchH-HHHHHHH-------Hhh---cCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWR-------LVE---DNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~-------~L~---~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..++|.. .++++++       .+.   ......+.|+|++|+|||+||+.+++..
T Consensus        33 ~~~i~~~~~~~~i~~~~~~l~~~l~~~~~~~~~~vLl~G~~GtGKT~la~~ia~~~   88 (272)
T 1d2n_A           33 NGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEES   88 (272)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cCCCCccHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECCCCCcHHHHHHHHHHHh
Confidence            4577777 6666665       332   3456789999999999999999999876

>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=97.15  E-value=0.0012  Score=69.82  Aligned_cols=45  Identities=18%  Similarity=0.189  Sum_probs=40.4

Q ss_pred             CCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+++||+ +++.+++.|......-+.|+|.+|+|||++|+.+++..
T Consensus       186 d~~iGr~~~i~~l~~~l~~~~~~~vlL~G~~GtGKT~la~~la~~l  231 (758)
T 1r6b_X          186 DPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRI  231 (758)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCccCCHHHHHHHHHHHhccCCCCeEEEcCCCCCHHHHHHHHHHHH
Confidence            5689999 99999999977666778899999999999999999876

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.14  E-value=0.00056  Score=66.99  Aligned_cols=45  Identities=13%  Similarity=0.131  Sum_probs=36.6

Q ss_pred             CCccchH-HHHHHHHHhh----c---------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVE----D---------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +++.|-+ .+++|.+.+.    .         ...+-|.++|++|.|||.||+++++..
T Consensus       181 ~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~  239 (434)
T 4b4t_M          181 SDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQT  239 (434)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             HhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHh
Confidence            4456888 8888887651    1         346789999999999999999999988

>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=97.14  E-value=0.00081  Score=63.34  Aligned_cols=45  Identities=24%  Similarity=0.198  Sum_probs=33.0

Q ss_pred             CCcc-chH---HHHHHHHHhhcC--CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTV-DVS---RLNEVWRLVEDN--SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~v-Gr~---~~~~l~~~L~~~--~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++|| |..   ....+..++...  ....+.|+|++|+||||||+.+++..
T Consensus        11 ~~fv~g~~~~~a~~~~~~~~~~~~~~~~~lll~G~~GtGKT~la~~i~~~~   61 (324)
T 1l8q_A           11 ENFIVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEA   61 (324)
T ss_dssp             SSCCCCTTTHHHHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHH
T ss_pred             ccCCCCCcHHHHHHHHHHHHhCcCCCCCeEEEECCCCCcHHHHHHHHHHHH
Confidence            4565 543   445555555443  35689999999999999999999877

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=97.13  E-value=0.00046  Score=68.70  Aligned_cols=45  Identities=18%  Similarity=0.280  Sum_probs=40.0

Q ss_pred             CCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++|||+ +++.+++.|......-+.|+|.+|+|||++|+.+++..
T Consensus       180 d~iiGr~~~i~~l~~~l~r~~~~~~LL~G~pG~GKT~la~~la~~l  225 (468)
T 3pxg_A          180 DPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQI  225 (468)
T ss_dssp             CCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHH
T ss_pred             CCccCcHHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHH
Confidence            5689999 99999999976555667899999999999999999886

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=97.13  E-value=0.00038  Score=64.83  Aligned_cols=26  Identities=19%  Similarity=0.119  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ....+.++|++|+|||+||+.+++..
T Consensus        35 ~p~~lLl~GppGtGKT~la~aiA~~l   60 (293)
T 3t15_A           35 VPLILGIWGGKGQGKSFQCELVFRKM   60 (293)
T ss_dssp             CCSEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            34678899999999999999999988

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=97.12  E-value=0.00044  Score=57.07  Aligned_cols=44  Identities=18%  Similarity=0.150  Sum_probs=34.9

Q ss_pred             CccchH-HHHHHHHHhhc--CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           99 NTVDVS-RLNEVWRLVED--NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        99 ~~vGr~-~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++|+. .+.++.+.+..  ....-|.|+|.+|+|||++|+.+++..
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~~~~~vll~G~~GtGKt~lA~~i~~~~   48 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSETDIAVWLYGAPGTGRMTGARYLHQFG   48 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTTCCSCEEEESSTTSSHHHHHHHHHHSS
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCCHHHHHHHHHHhC
Confidence            578999 99999888843  333457899999999999999999865

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.09  E-value=0.0011  Score=65.16  Aligned_cols=45  Identities=18%  Similarity=0.230  Sum_probs=36.7

Q ss_pred             CCccchH-HHHHHHHHhh----c---------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVE----D---------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +++.|.+ .+++|.+.+.    .         ...+-|.++|++|.|||+||+++++..
T Consensus       209 ~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~  267 (467)
T 4b4t_H          209 SDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRT  267 (467)
T ss_dssp             SSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhcc
Confidence            3567888 8888877651    1         456789999999999999999999988

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.07  E-value=0.0011  Score=64.72  Aligned_cols=45  Identities=22%  Similarity=0.234  Sum_probs=36.4

Q ss_pred             CCccchH-HHHHHHHHhhc-------------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVED-------------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +++.|.+ .+++|.+.+.-             ...+-|.++|++|.|||+||+++++..
T Consensus       172 ~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~  230 (428)
T 4b4t_K          172 ADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANST  230 (428)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            3456888 88888776621             345679999999999999999999988

>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=97.05  E-value=0.00047  Score=65.49  Aligned_cols=46  Identities=13%  Similarity=0.270  Sum_probs=39.9

Q ss_pred             CCCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           97 MENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.+++|++ .++.+..++.......+.|+|++|+||||+|+.+++..
T Consensus        36 ~~~i~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~la~~l   82 (353)
T 1sxj_D           36 LDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKEL   82 (353)
T ss_dssp             TTTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHhhCCHHHHHHHHHHHhcCCCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            36789999 99999999977655558999999999999999998875

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.05  E-value=0.0012  Score=64.23  Aligned_cols=45  Identities=20%  Similarity=0.251  Sum_probs=35.8

Q ss_pred             CCccchH-HHHHHHHHhh----c---------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVE----D---------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +++.|.+ .+++|.+.+.    .         ...+-|.++|++|.|||.||+++++..
T Consensus       182 ~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~  240 (437)
T 4b4t_I          182 SDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQT  240 (437)
T ss_dssp             GGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHH
T ss_pred             eecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHh
Confidence            3455888 7777777652    1         346789999999999999999999988

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=96.98  E-value=0.00074  Score=63.94  Aligned_cols=46  Identities=17%  Similarity=0.250  Sum_probs=39.2

Q ss_pred             CCCccchH-HHHHHHHHhhc-----CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           97 MENTVDVS-RLNEVWRLVED-----NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+++|++ .++.+..++..     .....+.|+|++|+|||+||+.+++..
T Consensus        28 ~~~iiG~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~ia~~~   79 (338)
T 3pfi_A           28 FDGYIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISYEM   79 (338)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHHHHTTSCCCCEEEECSTTSSHHHHHHHHHHHT
T ss_pred             HHHhCChHHHHHHHHHHHHHHHhcCCCCCeEEEECcCCCCHHHHHHHHHHHh
Confidence            36799999 99999998843     445678999999999999999998876

>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=96.92  E-value=0.00086  Score=67.62  Aligned_cols=45  Identities=16%  Similarity=0.200  Sum_probs=39.3

Q ss_pred             CCccchH-HHHHHHHHhhc-----------------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVED-----------------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~-----------------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+++|++ .++++.++|..                 ...+.+.|+|++|+||||+|+.+++..
T Consensus        39 ~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l  101 (516)
T 1sxj_A           39 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQEL  101 (516)
T ss_dssp             GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             HHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            6689999 99999999954                 134789999999999999999999876

>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=96.82  E-value=0.0017  Score=60.72  Aligned_cols=71  Identities=17%  Similarity=0.244  Sum_probs=44.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCC-cchHhHHHHHHHHHHHhcCCCCccCcCCHhHHHHHHHHHhCCCcEEE
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKFNDTRHNF-GLVILVKRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRRLGQRRFAL  196 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F-~~~~wv~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L~~kr~Ll  196 (414)
                      -+++.|+|++|+|||+||.+++... ..+-.| +..             +...... ...+.+.....+.+.+...+ +|
T Consensus       123 gsviLI~GpPGsGKTtLAlqlA~~~-G~~VlyIs~~-------------~eE~v~~-~~~~le~~l~~i~~~l~~~~-LL  186 (331)
T 2vhj_A          123 SGMVIVTGKGNSGKTPLVHALGEAL-GGKDKYATVR-------------FGEPLSG-YNTDFNVFVDDIARAMLQHR-VI  186 (331)
T ss_dssp             SEEEEEECSCSSSHHHHHHHHHHHH-HTTSCCEEEE-------------BSCSSTT-CBCCHHHHHHHHHHHHHHCS-EE
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHhC-CCCEEEEEec-------------chhhhhh-hhcCHHHHHHHHHHHHhhCC-EE
Confidence            3577899999999999999998753 112122 110             0000000 11456677777777777766 99


Q ss_pred             EEecCCCc
Q 043070          197 LLDDLREP  204 (414)
Q Consensus       197 VlDdv~~~  204 (414)
                      |+|++...
T Consensus       187 VIDsI~aL  194 (331)
T 2vhj_A          187 VIDSLKNV  194 (331)
T ss_dssp             EEECCTTT
T ss_pred             EEeccccc
Confidence            99998654

>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=96.81  E-value=0.0019  Score=64.54  Aligned_cols=89  Identities=17%  Similarity=0.152  Sum_probs=56.4

Q ss_pred             CCccchH-HHHHHHHHhhc-------------CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCc-chHhHHHHHHHH
Q 043070           98 ENTVDVS-RLNEVWRLVED-------------NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFG-LVILVKRIQHVM  162 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~-~~~wv~~l~~~i  162 (414)
                      ..++|.+ .+++|.+++..             ....-+.|+|.+|+|||+||+.+++..   ...|- ..+  ..+.   
T Consensus       204 ~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~---~~~fv~vn~--~~l~---  275 (489)
T 3hu3_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLING--PEIM---  275 (489)
T ss_dssp             GGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHC---SSEEEEEEH--HHHH---
T ss_pred             HHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHh---CCCEEEEEc--hHhh---
Confidence            4588999 99998888732             345679999999999999999998876   33331 110  1111   


Q ss_pred             HHHhcCCCCccCcCCHhHHHHHHHHHhCCCcEEEEEecCC
Q 043070          163 GYRLAMSNEVWDDKTKQGRAIDSSRRLGQRRFALLLDDLR  202 (414)
Q Consensus       163 ~~~l~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~  202 (414)
                       ..+       ...........+.....+++.+|+||++.
T Consensus       276 -~~~-------~g~~~~~~~~~f~~A~~~~p~iLfLDEId  307 (489)
T 3hu3_A          276 -SKL-------AGESESNLRKAFEEAEKNAPAIIFIDELD  307 (489)
T ss_dssp             -TSC-------TTHHHHHHHHHHHHHHHTCSEEEEEESHH
T ss_pred             -hhh-------cchhHHHHHHHHHHHHhcCCcEEEecchh
Confidence             110       11112223333444445678899999984

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=96.78  E-value=0.0033  Score=57.79  Aligned_cols=45  Identities=16%  Similarity=0.075  Sum_probs=32.7

Q ss_pred             CCccchH-HHHHHHHHhh----c---------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVE----D---------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++.|.+ .+++|.+.+.    .         .-.+-+.++|++|+||||||+.++...
T Consensus        10 ~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~GvlL~Gp~GtGKTtLakala~~~   68 (274)
T 2x8a_A           10 ADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANES   68 (274)
T ss_dssp             --CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSEEEEESSTTSCHHHHHHHHHHHT
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCeEEEECCCCCcHHHHHHHHHHHc
Confidence            5577888 7777776541    1         112339999999999999999999876

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=96.72  E-value=0.0017  Score=60.46  Aligned_cols=44  Identities=11%  Similarity=0.209  Sum_probs=35.2

Q ss_pred             CccchH-HHHHHHHHhh---------------cCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           99 NTVDVS-RLNEVWRLVE---------------DNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        99 ~~vGr~-~~~~l~~~L~---------------~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++|.+ .++.|.+.+.               ......+.|+|.+|+|||+||+.+++..
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l   91 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLL   91 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             HccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            478988 8887777653               2344579999999999999999988876

>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=96.72  E-value=0.0034  Score=62.29  Aligned_cols=90  Identities=14%  Similarity=0.085  Sum_probs=53.6

Q ss_pred             CCccchH-HHHHHHHHhh---c---------CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcc-hHhHHHHHHHHH
Q 043070           98 ENTVDVS-RLNEVWRLVE---D---------NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGL-VILVKRIQHVMG  163 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~---~---------~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~-~~wv~~l~~~i~  163 (414)
                      .+++|.+ .++++.+.+.   .         ...+-|.|+|++|+|||+||+.+++..   ...|-. ..  ..+.    
T Consensus        16 ~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~---~~~f~~is~--~~~~----   86 (476)
T 2ce7_A           16 KDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEA---NVPFFHISG--SDFV----   86 (476)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHH---TCCEEEEEG--GGTT----
T ss_pred             HHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHc---CCCeeeCCH--HHHH----
Confidence            5688988 7777766542   1         123458899999999999999999877   233311 00  0000    


Q ss_pred             HHhcCCCCccCcCCHhHHHHHHHHHhCCCcEEEEEecCCC
Q 043070          164 YRLAMSNEVWDDKTKQGRAIDSSRRLGQRRFALLLDDLRE  203 (414)
Q Consensus       164 ~~l~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~  203 (414)
                          .   .+...........+.....+.+.+|+||++..
T Consensus        87 ----~---~~~g~~~~~~r~lf~~A~~~~p~ILfIDEid~  119 (476)
T 2ce7_A           87 ----E---LFVGVGAARVRDLFAQAKAHAPCIVFIDEIDA  119 (476)
T ss_dssp             ----T---CCTTHHHHHHHHHHHHHHHTCSEEEEEETGGG
T ss_pred             ----H---HHhcccHHHHHHHHHHHHhcCCCEEEEechhh
Confidence                0   00111122233334444556789999999954

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=96.71  E-value=0.0013  Score=69.47  Aligned_cols=45  Identities=18%  Similarity=0.280  Sum_probs=40.1

Q ss_pred             CCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++||++ +++++.+.|......-+.++|.+|+|||++|+.+++..
T Consensus       180 d~iiG~~~~i~~l~~~l~~~~~~~vLL~G~pGtGKT~la~~la~~l  225 (758)
T 3pxi_A          180 DPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQI  225 (758)
T ss_dssp             CCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHH
T ss_pred             CCccCchHHHHHHHHHHhCCCCCCeEEECCCCCCHHHHHHHHHHHH
Confidence            5689999 99999999977655668899999999999999999886

>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=96.71  E-value=0.00083  Score=63.95  Aligned_cols=46  Identities=17%  Similarity=0.115  Sum_probs=38.9

Q ss_pred             CCCccchH-HHHHHHHHh-hcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           97 MENTVDVS-RLNEVWRLV-EDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L-~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.+++|.+ .++.+.+++ .......+.|+|+.|+||||+|+.+++..
T Consensus        13 ~~~~vg~~~~~~~l~~~~~~~~~~~~~ll~Gp~G~GKTtl~~~la~~l   60 (354)
T 1sxj_E           13 LNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESI   60 (354)
T ss_dssp             GGGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHH
T ss_pred             HHHhcCCHHHHHHHHHHHhhCCCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            36689999 999999998 66554459999999999999999999854

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=96.69  E-value=0.0043  Score=61.96  Aligned_cols=45  Identities=18%  Similarity=0.219  Sum_probs=34.2

Q ss_pred             CCccchH-HHHHHHHHh---hcC---------CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLV---EDN---------SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L---~~~---------~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+++|.+ .+.++.+.+   ...         -.+-+.|+|++|+||||||+.+++..
T Consensus        31 ~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~   88 (499)
T 2dhr_A           31 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA   88 (499)
T ss_dssp             TSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHT
T ss_pred             HHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            5688988 766666654   221         12348999999999999999999877

>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=96.67  E-value=0.0014  Score=70.33  Aligned_cols=46  Identities=15%  Similarity=0.303  Sum_probs=40.6

Q ss_pred             CCCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           97 MENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..++|||+ ++..+++.|......-+.++|.+|+|||+||+.+++..
T Consensus       169 ld~viGr~~~i~~l~~~l~~~~~~~vlL~G~pG~GKT~la~~la~~l  215 (854)
T 1qvr_A          169 LDPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRI  215 (854)
T ss_dssp             SCCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHH
T ss_pred             CcccCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHH
Confidence            35689999 99999999977666678899999999999999999876

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=96.66  E-value=0.0022  Score=61.36  Aligned_cols=46  Identities=15%  Similarity=0.322  Sum_probs=36.1

Q ss_pred             CCCccchH-HHHH---HHHHhhcCCc--eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           97 MENTVDVS-RLNE---VWRLVEDNSV--RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        97 ~~~~vGr~-~~~~---l~~~L~~~~~--~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+.+||++ .++.   +.+.+.....  +.+.|+|++|+|||+||+.+++..
T Consensus        43 ~~~ivG~~~~~~~l~~l~~~~~~~~~~~~~vLl~GppGtGKT~la~~la~~l   94 (368)
T 3uk6_A           43 SQGMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQAL   94 (368)
T ss_dssp             ETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             hhhccChHHHHHHHHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            46799999 7665   4444544333  589999999999999999999987

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=96.64  E-value=0.00052  Score=56.49  Aligned_cols=45  Identities=20%  Similarity=0.127  Sum_probs=33.7

Q ss_pred             CCccchH-HHHHHHHHhhc--CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVED--NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.++|++ .++++.+.+..  ....-|.|+|.+|+|||++|+.+++..
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            3578998 88888888743  333457899999999999999998765

>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=96.61  E-value=0.0021  Score=59.66  Aligned_cols=45  Identities=18%  Similarity=0.192  Sum_probs=37.6

Q ss_pred             CCccchH-HHHHHHHHhhc--------------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVED--------------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~--------------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..++|.+ .++.+...+..              .....+.++|.+|+|||++|+.+++..
T Consensus        15 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l   74 (310)
T 1ofh_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA   74 (310)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            5689999 88888887743              235678899999999999999999877

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.60  E-value=0.0027  Score=55.35  Aligned_cols=40  Identities=25%  Similarity=0.428  Sum_probs=32.1

Q ss_pred             hH-HHHHHHHHhhc---CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          103 VS-RLNEVWRLVED---NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       103 r~-~~~~l~~~L~~---~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      |+ .++++.+.+..   ....+|+|+|..|+|||||++.+....
T Consensus         3 ~~~~~~~l~~~~~~~~~~~~~~i~i~G~~GsGKstl~~~l~~~~   46 (201)
T 1rz3_A            3 LRDRIDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQTL   46 (201)
T ss_dssp             HHHHHHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            45 66777777753   345799999999999999999998755

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=96.59  E-value=0.0013  Score=61.75  Aligned_cols=38  Identities=21%  Similarity=0.345  Sum_probs=29.7

Q ss_pred             HHHHHHHHhhcC---CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          105 RLNEVWRLVEDN---SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       105 ~~~~l~~~L~~~---~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++.+.+++...   ....+.|+|.+|+|||+||..+++..
T Consensus       136 ~~~~~~~~i~~~~~~~~~~lll~G~~GtGKT~La~aia~~~  176 (308)
T 2qgz_A          136 AFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHEL  176 (308)
T ss_dssp             HHHHHHHHHHHCSCSSCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccccCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            455555666542   24688999999999999999999977

>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=96.56  E-value=0.0022  Score=60.79  Aligned_cols=45  Identities=16%  Similarity=0.329  Sum_probs=38.9

Q ss_pred             CCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..++|.+ .++.|...+..+..+.+.++|++|+||||+|+.+++..
T Consensus        25 ~~~~g~~~~~~~L~~~i~~g~~~~~ll~Gp~G~GKTtla~~la~~l   70 (340)
T 1sxj_C           25 DEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREI   70 (340)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHH
T ss_pred             HHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            5578988 88999888877665559999999999999999999876

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=96.56  E-value=0.0046  Score=65.13  Aligned_cols=90  Identities=16%  Similarity=0.136  Sum_probs=55.4

Q ss_pred             CCccchH-HHHHHHHHhh----c---------CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCc-chHhHHHHHHHH
Q 043070           98 ENTVDVS-RLNEVWRLVE----D---------NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFG-LVILVKRIQHVM  162 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~-~~~wv~~l~~~i  162 (414)
                      +++.|.+ .+++|.+.+.    .         ...+-|.++|++|+|||+||+.+++..   ..+|- ...  ..+    
T Consensus       204 ~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~el---g~~~~~v~~--~~l----  274 (806)
T 3cf2_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLING--PEI----  274 (806)
T ss_dssp             GGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTT---TCEEEEEEH--HHH----
T ss_pred             hhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHh---CCeEEEEEh--HHh----
Confidence            3456888 7777777651    1         345789999999999999999999987   33331 100  111    


Q ss_pred             HHHhcCCCCccCcCCHhHHHHHHHHHhCCCcEEEEEecCCC
Q 043070          163 GYRLAMSNEVWDDKTKQGRAIDSSRRLGQRRFALLLDDLRE  203 (414)
Q Consensus       163 ~~~l~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~  203 (414)
                      .   +.    +.......+...+.......+++|+||+++.
T Consensus       275 ~---sk----~~gese~~lr~lF~~A~~~~PsIIfIDEiDa  308 (806)
T 3cf2_A          275 M---SK----LAGESESNLRKAFEEAEKNAPAIIFIDELDA  308 (806)
T ss_dssp             H---SS----CTTHHHHHHHHHHHHHTTSCSEEEEEESGGG
T ss_pred             h---cc----cchHHHHHHHHHHHHHHHcCCeEEEEehhcc
Confidence            1   00    0122233333334444456789999999874

>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=96.52  E-value=0.004  Score=55.27  Aligned_cols=45  Identities=16%  Similarity=0.199  Sum_probs=34.7

Q ss_pred             CCccch---H-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDV---S-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr---~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++++|.   + .++.+..++.......+.|+|++|+||||||+.+++..
T Consensus        28 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~la~~l~~~~   76 (242)
T 3bos_A           28 TSYYPAAGNDELIGALKSAASGDGVQAIYLWGPVKSGRTHLIHAACARA   76 (242)
T ss_dssp             TTSCC--CCHHHHHHHHHHHHTCSCSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             hhccCCCCCHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            567763   3 55666666655566889999999999999999999877

>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=96.50  E-value=0.0023  Score=60.65  Aligned_cols=46  Identities=20%  Similarity=0.254  Sum_probs=37.0

Q ss_pred             CCCccchH-HHHHHHHHhhc-----CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           97 MENTVDVS-RLNEVWRLVED-----NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -+.++|.+ .++.+...+..     .....+.++|++|+||||||+.+++..
T Consensus        24 l~~~~g~~~~~~~l~~~i~~~~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l   75 (334)
T 1in4_A           24 LDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASEL   75 (334)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHH
T ss_pred             HHHccCcHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHHHh
Confidence            35678888 77777766643     345679999999999999999999877

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=96.44  E-value=0.0035  Score=55.91  Aligned_cols=86  Identities=16%  Similarity=0.110  Sum_probs=48.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCC----CCcchHhH-------HHHHHHHHHHhcCCCC-------ccCcCCH
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRH----NFGLVILV-------KRIQHVMGYRLAMSNE-------VWDDKTK  178 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~----~F~~~~wv-------~~l~~~i~~~l~~~~~-------~~~~~~~  178 (414)
                      .-.++.|+|.+|+|||||+..+.... ....    .-..++|+       ..-+..++..++....       -....+.
T Consensus        23 ~G~~~~i~G~~GsGKTtl~~~l~~~~-~~~~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~  101 (243)
T 1n0w_A           23 TGSITEMFGEFRTGKTQICHTLAVTC-QLPIDRGGGEGKAMYIDTEGTFRPERLLAVAERYGLSGSDVLDNVAYARAFNT  101 (243)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHT-TSCGGGTCCSSEEEEEESSSCCCHHHHHHHHHHTTCCHHHHHHTEEEEECCSH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH-hCchhcCCCCCeEEEEECCCCcCHHHHHHHHHHcCCCHHHHhhCeEEEecCCH
Confidence            34699999999999999999998753 1111    12344555       1222334444443210       0011222


Q ss_pred             hH---HHHHHHHHhC-CCcEEEEEecCCC
Q 043070          179 QG---RAIDSSRRLG-QRRFALLLDDLRE  203 (414)
Q Consensus       179 ~~---~~~~l~~~L~-~kr~LlVlDdv~~  203 (414)
                      .+   ....+.+.+. .+.-+||||.+..
T Consensus       102 ~~~~~~~~~~~~~~~~~~~~lliiD~~~~  130 (243)
T 1n0w_A          102 DHQTQLLYQASAMMVESRYALLIVDSATA  130 (243)
T ss_dssp             HHHHHHHHHHHHHHHHSCEEEEEEETSSG
T ss_pred             HHHHHHHHHHHHHHhcCCceEEEEeCchH
Confidence            22   2334555554 4678999998754

>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=96.43  E-value=0.0018  Score=61.70  Aligned_cols=85  Identities=14%  Similarity=0.119  Sum_probs=52.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH---HHHHHHHHHHhcCCCCc---cCcCCHhHHHHHHHHHhC
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV---KRIQHVMGYRLAMSNEV---WDDKTKQGRAIDSSRRLG  190 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv---~~l~~~i~~~l~~~~~~---~~~~~~~~~~~~l~~~L~  190 (414)
                      .-.++.|.|.+|+||||||..++.... ...  ..++|+   .......++.++.....   ....+.++....+...++
T Consensus        60 ~G~i~~I~GppGsGKSTLal~la~~~~-~~g--g~VlyId~E~s~~~~ra~rlgv~~~~l~i~~~~~~e~~l~~~~~l~~  136 (356)
T 3hr8_A           60 RGRIVEIFGQESSGKTTLALHAIAEAQ-KMG--GVAAFIDAEHALDPVYAKNLGVDLKSLLISQPDHGEQALEIVDELVR  136 (356)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHHH-HTT--CCEEEEESSCCCCHHHHHHHTCCGGGCEEECCSSHHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHH-hcC--CeEEEEecccccchHHHHHcCCchhhhhhhhccCHHHHHHHHHHHhh
Confidence            347999999999999999999987762 111  123445   11111145555544321   133556666666666654


Q ss_pred             -CCcEEEEEecCCCc
Q 043070          191 -QRRFALLLDDLREP  204 (414)
Q Consensus       191 -~kr~LlVlDdv~~~  204 (414)
                       .+.-++|+|.+-..
T Consensus       137 ~~~~dlvVIDSi~~l  151 (356)
T 3hr8_A          137 SGVVDLIVVDSVAAL  151 (356)
T ss_dssp             TSCCSEEEEECTTTC
T ss_pred             hcCCCeEEehHhhhh
Confidence             56678999988554

>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=96.43  E-value=0.0017  Score=54.58  Aligned_cols=23  Identities=26%  Similarity=0.413  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+|.|+|++|+||||+|+.+ ...
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L-~~~   24 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL-KER   24 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH-HHT
T ss_pred             cEEEEECCCCCCHHHHHHHH-HHC
Confidence            47999999999999999999 544

>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=96.43  E-value=0.0019  Score=54.84  Aligned_cols=24  Identities=33%  Similarity=0.497  Sum_probs=22.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+|.|+|++|+||||+|+.+.+..
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~~l   27 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQSVL   27 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhc
Confidence            579999999999999999999877

>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=96.42  E-value=0.0019  Score=54.32  Aligned_cols=24  Identities=29%  Similarity=0.335  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+|.|.|++|+||||+|+.+....
T Consensus         2 ~~i~l~G~~GsGKsT~~~~L~~~l   25 (173)
T 3kb2_A            2 TLIILEGPDCCFKSTVAAKLSKEL   25 (173)
T ss_dssp             CEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            479999999999999999999876

>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=96.41  E-value=0.0023  Score=58.34  Aligned_cols=45  Identities=20%  Similarity=0.158  Sum_probs=35.2

Q ss_pred             CCccchH-HHHHHHHHhhc------------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVED------------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~------------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+++|.+ .++.+.+.+..            ...+-+.|+|++|+|||+||+.+++..
T Consensus        11 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~   68 (268)
T 2r62_A           11 KDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEA   68 (268)
T ss_dssp             TTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHH
T ss_pred             HHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHh
Confidence            6689988 77777776531            123447899999999999999999987

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=96.35  E-value=0.0032  Score=55.21  Aligned_cols=37  Identities=22%  Similarity=0.313  Sum_probs=28.7

Q ss_pred             HHHHHHHhhc--CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          106 LNEVWRLVED--NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       106 ~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +++|.+.+..  ....+|+|+|..|+|||||++.+....
T Consensus         8 ~~~~~~~~~~~~~~g~~v~I~G~sGsGKSTl~~~l~~~~   46 (208)
T 3c8u_A            8 CQGVLERLDPRQPGRQLVALSGAPGSGKSTLSNPLAAAL   46 (208)
T ss_dssp             HHHHHHHSCTTCCSCEEEEEECCTTSCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            3455555532  456799999999999999999998776

>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=96.33  E-value=0.0027  Score=57.86  Aligned_cols=45  Identities=18%  Similarity=0.146  Sum_probs=33.7

Q ss_pred             CCccchH-HHHHHHHHhhc--CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVED--NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +.++|.+ .+.++.+.+..  .....|.|+|.+|+|||+||+.+++..
T Consensus         6 ~~~ig~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKt~la~~i~~~~   53 (265)
T 2bjv_A            6 DNLLGEANSFLEVLEQVSHLAPLDKPVLIIGERGTGKELIASRLHYLS   53 (265)
T ss_dssp             ----CCCHHHHHHHHHHHHHTTSCSCEEEECCTTSCHHHHHHHHHHTS
T ss_pred             ccceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhc
Confidence            4578998 88888877743  333567899999999999999999876

>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=96.31  E-value=0.00061  Score=60.66  Aligned_cols=85  Identities=12%  Similarity=0.001  Sum_probs=49.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH----HHHHHHHHHHhcCCCCccCcCCHhHHHHHHHHHhCCC
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV----KRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRRLGQR  192 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv----~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L~~k  192 (414)
                      .-.++.|+|..|+||||++..+.++.. .. .....++-    .+....|++.++...+.....+..++.+.+.+.+.+.
T Consensus        11 ~G~i~litG~mGsGKTT~ll~~~~r~~-~~-g~kVli~~~~~d~r~~~~i~srlG~~~~~~~~~~~~~i~~~i~~~~~~~   88 (223)
T 2b8t_A           11 IGWIEFITGPMFAGKTAELIRRLHRLE-YA-DVKYLVFKPKIDTRSIRNIQSRTGTSLPSVEVESAPEILNYIMSNSFND   88 (223)
T ss_dssp             CCEEEEEECSTTSCHHHHHHHHHHHHH-HT-TCCEEEEEECCCGGGCSSCCCCCCCSSCCEEESSTHHHHHHHHSTTSCT
T ss_pred             CcEEEEEECCCCCcHHHHHHHHHHHHH-hc-CCEEEEEEeccCchHHHHHHHhcCCCccccccCCHHHHHHHHHHHhhCC
Confidence            346889999999999999998888772 11 11111110    1122244555554332222234455666666655554


Q ss_pred             cE-EEEEecCCC
Q 043070          193 RF-ALLLDDLRE  203 (414)
Q Consensus       193 r~-LlVlDdv~~  203 (414)
                      ++ +||+|.+..
T Consensus        89 ~~dvViIDEaQ~  100 (223)
T 2b8t_A           89 ETKVIGIDEVQF  100 (223)
T ss_dssp             TCCEEEECSGGG
T ss_pred             CCCEEEEecCcc
Confidence            44 999998853

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.30  E-value=0.0026  Score=55.32  Aligned_cols=26  Identities=35%  Similarity=0.369  Sum_probs=23.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+|.|+|++|+||||+|+.+....
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            34689999999999999999999877

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.24  E-value=0.0029  Score=55.02  Aligned_cols=27  Identities=30%  Similarity=0.397  Sum_probs=23.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ....+|+|+|+.|+|||||++.+....
T Consensus        27 ~~g~~i~l~G~~GsGKSTl~~~L~~~~   53 (200)
T 4eun_A           27 EPTRHVVVMGVSGSGKTTIAHGVADET   53 (200)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHhh
Confidence            455799999999999999999998765

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.21  E-value=0.0028  Score=53.70  Aligned_cols=22  Identities=27%  Similarity=0.295  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHH
Q 043070          119 RIICLHGVSRLGKTTLLYNLNK  140 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~  140 (414)
                      .+|.|.|++|+||||+|+.+..
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEecCCCCCHHHHHHHHHh
Confidence            5799999999999999999987

>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=96.21  E-value=0.0037  Score=54.38  Aligned_cols=27  Identities=33%  Similarity=0.447  Sum_probs=24.5

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ....+|+|+|+.|+||||||+.+....
T Consensus        23 ~~g~~i~l~G~sGsGKSTl~~~La~~l   49 (200)
T 3uie_A           23 QKGCVIWVTGLSGSGKSTLACALNQML   49 (200)
T ss_dssp             SCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            456899999999999999999998877

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=96.19  E-value=0.0038  Score=58.08  Aligned_cols=45  Identities=18%  Similarity=0.253  Sum_probs=37.0

Q ss_pred             CCccchH-HHHHHHHHhhcC---------CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVEDN---------SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~~---------~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..++|.+ .++.+...+...         ....+.++|.+|+|||++|+.+++..
T Consensus        17 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~   71 (311)
T 4fcw_A           17 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATL   71 (311)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHHH
T ss_pred             hhcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHHH
Confidence            4578999 888888888431         23589999999999999999999876

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.19  E-value=0.003  Score=53.94  Aligned_cols=25  Identities=32%  Similarity=0.288  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+.|.|+|++|+||||+|+.+....
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            4678999999999999999999876

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=96.18  E-value=0.0026  Score=53.69  Aligned_cols=24  Identities=33%  Similarity=0.391  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+|+|+|+.|+|||||++.+....
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~l   28 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQL   28 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            579999999999999999999876

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=96.17  E-value=0.0085  Score=57.04  Aligned_cols=84  Identities=13%  Similarity=0.148  Sum_probs=49.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH---HHHHHHHHHHhcCCCCc---cCcCCHhHHHHHHHHHhC
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV---KRIQHVMGYRLAMSNEV---WDDKTKQGRAIDSSRRLG  190 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv---~~l~~~i~~~l~~~~~~---~~~~~~~~~~~~l~~~L~  190 (414)
                      .-.++.|.|.+|+||||||..+...... ..  ..++|+   ...-...++.++.....   ....+.++....+.....
T Consensus        60 ~G~iv~I~G~pGsGKTtLal~la~~~~~-~g--~~vlyi~~E~~~~~~~a~~lG~~~~~l~i~~~~~~e~~l~~~~~l~~  136 (349)
T 2zr9_A           60 RGRVIEIYGPESSGKTTVALHAVANAQA-AG--GIAAFIDAEHALDPEYAKKLGVDTDSLLVSQPDTGEQALEIADMLVR  136 (349)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHH-TT--CCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHh-CC--CeEEEEECCCCcCHHHHHHcCCCHHHeEEecCCCHHHHHHHHHHHHh
Confidence            3468999999999999999999866521 11  233444   00011124455543221   123355666666665554


Q ss_pred             -CCcEEEEEecCCC
Q 043070          191 -QRRFALLLDDLRE  203 (414)
Q Consensus       191 -~kr~LlVlDdv~~  203 (414)
                       .+.-+||+|.+-.
T Consensus       137 ~~~~~lIVIDsl~~  150 (349)
T 2zr9_A          137 SGALDIIVIDSVAA  150 (349)
T ss_dssp             TTCCSEEEEECGGG
T ss_pred             cCCCCEEEEcChHh
Confidence             3567999998754

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.16  E-value=0.0033  Score=53.91  Aligned_cols=24  Identities=25%  Similarity=0.492  Sum_probs=22.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++|.|.|++|+||||+|+.+.+..
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~~l   25 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKEIL   25 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            579999999999999999999887

>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=96.15  E-value=0.0038  Score=53.61  Aligned_cols=25  Identities=32%  Similarity=0.365  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+|.|.|++|+||||+|+.+....
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            4689999999999999999999876

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=96.15  E-value=0.0037  Score=59.90  Aligned_cols=85  Identities=14%  Similarity=0.092  Sum_probs=51.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH---HHHHHHHHHHhcCCCCc---cCcCCHhHHHHHHHHHhC
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV---KRIQHVMGYRLAMSNEV---WDDKTKQGRAIDSSRRLG  190 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv---~~l~~~i~~~l~~~~~~---~~~~~~~~~~~~l~~~L~  190 (414)
                      .-.++.|.|.+|+||||||..++.... ..  -..++|+   ...-...+..++.+...   ....+.+++.+.+...++
T Consensus        73 ~G~li~I~G~pGsGKTtlal~la~~~~-~~--g~~vlyi~~E~s~~~~~a~~~g~d~~~l~i~~~~~~e~~l~~l~~l~~  149 (366)
T 1xp8_A           73 RGRITEIYGPESGGKTTLALAIVAQAQ-KA--GGTCAFIDAEHALDPVYARALGVNTDELLVSQPDNGEQALEIMELLVR  149 (366)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHH-HT--TCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHT
T ss_pred             CCcEEEEEcCCCCChHHHHHHHHHHHH-HC--CCeEEEEECCCChhHHHHHHcCCCHHHceeecCCcHHHHHHHHHHHHh
Confidence            346899999999999999999887652 11  1245566   10111124455543221   123456777777776665


Q ss_pred             C-CcEEEEEecCCCc
Q 043070          191 Q-RRFALLLDDLREP  204 (414)
Q Consensus       191 ~-kr~LlVlDdv~~~  204 (414)
                      . +--+||+|.+-..
T Consensus       150 ~~~~~lVVIDsl~~l  164 (366)
T 1xp8_A          150 SGAIDVVVVDSVAAL  164 (366)
T ss_dssp             TTCCSEEEEECTTTC
T ss_pred             cCCCCEEEEeChHHh
Confidence            3 5569999988543

>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=96.13  E-value=0.0064  Score=53.29  Aligned_cols=24  Identities=25%  Similarity=0.141  Sum_probs=21.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHH
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNK  140 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~  140 (414)
                      .-.++.|+|.+|+||||||..++.
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            346999999999999999999987

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=96.13  E-value=0.0066  Score=53.52  Aligned_cols=38  Identities=21%  Similarity=0.256  Sum_probs=30.5

Q ss_pred             HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          105 RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       105 ~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+.+.+.+.......|+|+|.+|+|||||+..+....
T Consensus        25 ~a~~~r~~~~~~~~~~i~ivG~~gvGKTtl~~~l~~~~   62 (226)
T 2hf9_A           25 LADKNRKLLNKHGVVAFDFMGAIGSGKTLLIEKLIDNL   62 (226)
T ss_dssp             HHHHHHHHHHHTTCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCeEEEEEcCCCCCHHHHHHHHHHHh
Confidence            44555555555677899999999999999999998775

>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=96.13  E-value=0.0034  Score=53.86  Aligned_cols=26  Identities=27%  Similarity=0.250  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|++|+|||||++.+....
T Consensus         8 ~g~~i~l~G~~GsGKSTl~~~La~~~   33 (191)
T 1zp6_A            8 GGNILLLSGHPGSGKSTIAEALANLP   33 (191)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTCS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhcc
Confidence            34689999999999999999998754

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=96.09  E-value=0.003  Score=54.93  Aligned_cols=25  Identities=24%  Similarity=0.251  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+|.|+|+.|+||||+|+.+....
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~l   42 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEAC   42 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999998876

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=96.07  E-value=0.0056  Score=57.14  Aligned_cols=45  Identities=18%  Similarity=0.183  Sum_probs=36.9

Q ss_pred             CCccchH-HHHHHHHHhhc--CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVED--NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +.++|+. .+.++.+.+..  .....|.|+|.+|+|||++|+.+++..
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            3588999 99998888844  344567899999999999999999865

>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=96.07  E-value=0.0037  Score=53.47  Aligned_cols=24  Identities=21%  Similarity=0.339  Sum_probs=22.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+|.|.|++|+||||+|+.+....
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~~l   27 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMDNL   27 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            589999999999999999999876

>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=96.03  E-value=0.0038  Score=53.17  Aligned_cols=25  Identities=40%  Similarity=0.395  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++|.|+|++|+||||+|+.+....
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~~~   35 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELASKS   35 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHh
Confidence            4678999999999999999999876

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=96.03  E-value=0.0074  Score=53.23  Aligned_cols=25  Identities=28%  Similarity=0.203  Sum_probs=22.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.+++|+|.+|+|||||++.++...
T Consensus        23 G~~~~i~G~~GsGKTtl~~~l~~~~   47 (235)
T 2w0m_A           23 GFFIALTGEPGTGKTIFSLHFIAKG   47 (235)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            3689999999999999999998655

>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding protein, ring protein, octamer, AAA ATPase; 3.20A {Homo sapiens} SCOP: c.37.1.11 PDB: 2zjb_A

Probab=96.02  E-value=0.013  Score=55.69  Aligned_cols=26  Identities=35%  Similarity=0.238  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.++.|+|.+|+||||||..++...
T Consensus       121 ~G~i~~I~G~~GsGKTtla~~la~~~  146 (343)
T 1v5w_A          121 SMAITEAFGEFRTGKTQLSHTLCVTA  146 (343)
T ss_dssp             SSEEEEEECCTTCTHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            45799999999999999999998764

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=96.02  E-value=0.004  Score=53.90  Aligned_cols=23  Identities=30%  Similarity=0.491  Sum_probs=21.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .|+|.|+.|+||||+|+.+.+..
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l   24 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKL   24 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHHHHhc
Confidence            68999999999999999999876

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=96.01  E-value=0.0038  Score=53.32  Aligned_cols=24  Identities=21%  Similarity=0.380  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++++|+|+.|+|||||++.+....
T Consensus         6 ~~i~i~GpsGsGKSTL~~~L~~~~   29 (180)
T 1kgd_A            6 KTLVLLGAHGVGRRHIKNTLITKH   29 (180)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhC
Confidence            689999999999999999998765

>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=96.00  E-value=0.008  Score=59.23  Aligned_cols=45  Identities=18%  Similarity=0.141  Sum_probs=37.3

Q ss_pred             CCccchH-HHHHHHHHhh------------cCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVE------------DNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~------------~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++++|.+ .++.|.+.+.            ....+-|.|+|++|+|||+||+.+++..
T Consensus       134 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~  191 (444)
T 2zan_A          134 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEA  191 (444)
T ss_dssp             GGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHC
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHc
Confidence            5688999 8888888762            1234689999999999999999999876

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=95.98  E-value=0.0038  Score=52.92  Aligned_cols=24  Identities=33%  Similarity=0.415  Sum_probs=22.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +.|.|+|++|+||||+|+.+....
T Consensus         5 ~~i~i~G~~GsGKsTla~~La~~l   28 (175)
T 1via_A            5 KNIVFIGFMGSGKSTLARALAKDL   28 (175)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHc
Confidence            368999999999999999999877

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=95.97  E-value=0.0047  Score=52.23  Aligned_cols=25  Identities=28%  Similarity=0.412  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+|+|+|+.|+||||+++.+....
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            4689999999999999999998765

>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=95.95  E-value=0.0059  Score=56.94  Aligned_cols=85  Identities=9%  Similarity=0.067  Sum_probs=52.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH---HHHHHHHHHHhcCCCCcc---CcCCHhHH-HHHHHHH--h-
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV---KRIQHVMGYRLAMSNEVW---DDKTKQGR-AIDSSRR--L-  189 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv---~~l~~~i~~~l~~~~~~~---~~~~~~~~-~~~l~~~--L-  189 (414)
                      ++-|.|.+|+||||||.++..... ....=..++||   ..+....+++++...+..   ...+.++. .+.+...  + 
T Consensus        30 iteI~G~pGsGKTtL~Lq~~~~~~-~~g~g~~vlyId~E~s~~~~ra~~lGvd~d~llv~~~~~~E~~~l~i~~~l~~i~  108 (333)
T 3io5_A           30 LLILAGPSKSFKSNFGLTMVSSYM-RQYPDAVCLFYDSEFGITPAYLRSMGVDPERVIHTPVQSLEQLRIDMVNQLDAIE  108 (333)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHH-HHCTTCEEEEEESSCCCCHHHHHHTTCCGGGEEEEECSBHHHHHHHHHHHHHTCC
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHH-hcCCCceEEEEeccchhhHHHHHHhCCCHHHeEEEcCCCHHHHHHHHHHHHHHhh
Confidence            789999999999999999877662 11111345677   222223477777654321   33455665 4333332  3 


Q ss_pred             CCCcEEEEEecCCCcc
Q 043070          190 GQRRFALLLDDLREPI  205 (414)
Q Consensus       190 ~~kr~LlVlDdv~~~~  205 (414)
                      +++.-|||+|-+-...
T Consensus       109 ~~~~~lvVIDSI~aL~  124 (333)
T 3io5_A          109 RGEKVVVFIDSLGNLA  124 (333)
T ss_dssp             TTCCEEEEEECSTTCB
T ss_pred             ccCceEEEEecccccc
Confidence            4578899999986653

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=95.95  E-value=0.005  Score=52.95  Aligned_cols=26  Identities=27%  Similarity=0.317  Sum_probs=23.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+|.|.|++|+||||+|+.+.+..
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~La~~l   33 (196)
T 2c95_A            8 KTNIIFVVGGPGSGKGTQCEKIVQKY   33 (196)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            44689999999999999999999876

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=95.94  E-value=0.005  Score=52.81  Aligned_cols=25  Identities=20%  Similarity=0.256  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+|.|.|++|+||||+|+.+....
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            3689999999999999999998876

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=95.92  E-value=0.0048  Score=55.97  Aligned_cols=24  Identities=17%  Similarity=0.229  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++|.|+|+.|+||||||+.++...
T Consensus         2 ~li~I~G~~GSGKSTla~~La~~~   25 (253)
T 2ze6_A            2 LLHLIYGPTCSGKTDMAIQIAQET   25 (253)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHhcC
Confidence            578999999999999999999876

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=95.92  E-value=0.0049  Score=51.76  Aligned_cols=26  Identities=23%  Similarity=0.337  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+|.|.|+.|+||||+|+.+....
T Consensus         6 ~~~~i~l~G~~GsGKSTva~~La~~l   31 (168)
T 1zuh_A            6 HMQHLVLIGFMGSGKSSLAQELGLAL   31 (168)
T ss_dssp             --CEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             ccceEEEECCCCCCHHHHHHHHHHHh
Confidence            45789999999999999999999876

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=95.90  E-value=0.0071  Score=53.13  Aligned_cols=38  Identities=13%  Similarity=0.163  Sum_probs=30.7

Q ss_pred             HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          105 RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       105 ~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+.+.+.+......+|+|+|.+|+|||||+..+....
T Consensus        17 ~~~~~~~~~~~~~~~~i~i~G~~g~GKTTl~~~l~~~~   54 (221)
T 2wsm_A           17 LAEKNREALRESGTVAVNIMGAIGSGKTLLIERTIERI   54 (221)
T ss_dssp             HHHHHHHHHHHHTCEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHhhcccCceEEEEEcCCCCCHHHHHHHHHHHh
Confidence            55555665655677899999999999999999988764

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=95.90  E-value=0.0041  Score=53.11  Aligned_cols=24  Identities=29%  Similarity=0.322  Sum_probs=22.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++|.|+|++|+||||+|+.+....
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~l   26 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLAKAL   26 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHc
Confidence            469999999999999999999876

>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=95.89  E-value=0.0094  Score=55.19  Aligned_cols=27  Identities=15%  Similarity=0.191  Sum_probs=24.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ....+|+|+|..|+||||||+.+....
T Consensus        29 ~~~~ii~I~G~sGsGKSTla~~L~~~l   55 (290)
T 1odf_A           29 KCPLFIFFSGPQGSGKSFTSIQIYNHL   55 (290)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            456799999999999999999988766

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=95.87  E-value=0.0055  Score=52.46  Aligned_cols=26  Identities=27%  Similarity=0.359  Sum_probs=23.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+|.|+|++|+||||+++.+....
T Consensus        12 ~~~~i~l~G~~GsGKsT~~~~L~~~l   37 (186)
T 2yvu_A           12 KGIVVWLTGLPGSGKTTIATRLADLL   37 (186)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            45789999999999999999999877

>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=95.86  E-value=0.011  Score=53.18  Aligned_cols=45  Identities=18%  Similarity=0.228  Sum_probs=32.6

Q ss_pred             CCccchH-HHHHHHHHh---hc---------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLV---ED---------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L---~~---------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++++|.+ .+.++.+..   ..         .-.+-+.|+|.+|+||||||+.+++..
T Consensus        16 ~~i~g~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~   73 (254)
T 1ixz_A           16 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA   73 (254)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             HHhCCcHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHh
Confidence            5678887 665555543   11         112338999999999999999999877

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=95.84  E-value=0.0059  Score=52.99  Aligned_cols=26  Identities=31%  Similarity=0.359  Sum_probs=23.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+|+|.|+.|+||||+|+.+.+..
T Consensus        14 ~~~~I~l~G~~GsGKsT~~~~L~~~~   39 (203)
T 1ukz_A           14 QVSVIFVLGGPGAGKGTQCEKLVKDY   39 (203)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            45789999999999999999999776

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=95.84  E-value=0.0053  Score=54.27  Aligned_cols=24  Identities=29%  Similarity=0.422  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+|+|+|+.|+||||+|+.+....
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~~~   29 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAEAL   29 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            589999999999999999998866

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=95.82  E-value=0.0047  Score=53.85  Aligned_cols=26  Identities=27%  Similarity=0.441  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+|.|+|++|+|||||++.+....
T Consensus        11 ~~~~i~l~G~sGsGKsTl~~~L~~~~   36 (204)
T 2qor_A           11 RIPPLVVCGPSGVGKGTLIKKVLSEF   36 (204)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHHHC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            34689999999999999999998866

>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=95.82  E-value=0.006  Score=52.75  Aligned_cols=26  Identities=27%  Similarity=0.188  Sum_probs=23.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      .+..+|+|+|+.|+||||+|+.+...
T Consensus         6 ~~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            6 KHPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CCCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHHC
Confidence            35679999999999999999999875

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=95.81  E-value=0.0049  Score=51.87  Aligned_cols=24  Identities=25%  Similarity=0.286  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++|.|.|++|+||||+|+.+....
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~l   26 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELARAL   26 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHh
Confidence            479999999999999999999876

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=95.81  E-value=0.0063  Score=52.97  Aligned_cols=25  Identities=20%  Similarity=0.260  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+|.|.|++|+||||+|+.+....
T Consensus         4 ~~~I~i~G~~GsGKsT~~~~L~~~l   28 (213)
T 2plr_A            4 GVLIAFEGIDGSGKSSQATLLKDWI   28 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHH
Confidence            3689999999999999999999877

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=95.80  E-value=0.006  Score=52.04  Aligned_cols=24  Identities=21%  Similarity=0.293  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..|.|.|++|+||||+|+.+.+..
T Consensus         5 ~~I~l~G~~GsGKST~~~~La~~l   28 (186)
T 3cm0_A            5 QAVIFLGPPGAGKGTQASRLAQEL   28 (186)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            579999999999999999999876

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=95.80  E-value=0.0076  Score=56.70  Aligned_cols=43  Identities=26%  Similarity=0.239  Sum_probs=36.7

Q ss_pred             CCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..++|++ .++.+...+...  .-+.++|.+|+|||+||+.+.+..
T Consensus        27 ~~i~g~~~~~~~l~~~l~~~--~~vll~G~pGtGKT~la~~la~~~   70 (331)
T 2r44_A           27 KVVVGQKYMINRLLIGICTG--GHILLEGVPGLAKTLSVNTLAKTM   70 (331)
T ss_dssp             TTCCSCHHHHHHHHHHHHHT--CCEEEESCCCHHHHHHHHHHHHHT
T ss_pred             cceeCcHHHHHHHHHHHHcC--CeEEEECCCCCcHHHHHHHHHHHh
Confidence            5688999 888888888654  368899999999999999999876

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=95.80  E-value=0.0064  Score=52.09  Aligned_cols=25  Identities=20%  Similarity=0.203  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      ....|.|+|+.|+||||+|+.+...
T Consensus         9 ~~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A            9 KGINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHh
Confidence            3468999999999999999999987

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=95.78  E-value=0.0054  Score=53.19  Aligned_cols=25  Identities=28%  Similarity=0.381  Sum_probs=22.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.+++|+|+.|+|||||++.+....
T Consensus         7 g~ii~l~Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A            7 ANLFIISAPSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CcEEEEECcCCCCHHHHHHHHHhhC
Confidence            3689999999999999999998754

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=95.77  E-value=0.0058  Score=52.67  Aligned_cols=25  Identities=32%  Similarity=0.383  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+|+|.|++|+||||+|+.+....
T Consensus        12 ~~~I~l~G~~GsGKsT~a~~L~~~l   36 (199)
T 2bwj_A           12 CKIIFIIGGPGSGKGTQCEKLVEKY   36 (199)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            3689999999999999999999876

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=95.76  E-value=0.0064  Score=52.76  Aligned_cols=25  Identities=28%  Similarity=0.262  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+|+|+|+.|+||||+++.+....
T Consensus         6 g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            6 GLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhh
Confidence            4689999999999999999998765

>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=95.75  E-value=0.0055  Score=53.23  Aligned_cols=22  Identities=27%  Similarity=0.306  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHH
Q 043070          119 RIICLHGVSRLGKTTLLYNLNK  140 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~  140 (414)
                      .+|+|+|+.|+||||+++.+..
T Consensus         2 ~~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            2 KRIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHH
Confidence            4799999999999999999987

>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=95.75  E-value=0.013  Score=55.13  Aligned_cols=84  Identities=13%  Similarity=0.088  Sum_probs=47.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCC----CcchHhH-------HHHHHHHHHHhcCCCCc-------cCcCCH
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHN----FGLVILV-------KRIQHVMGYRLAMSNEV-------WDDKTK  178 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~----F~~~~wv-------~~l~~~i~~~l~~~~~~-------~~~~~~  178 (414)
                      .-.++.|+|.+|+||||||..++.... ....    -..++|+       ..-+..++..++.....       ....+.
T Consensus       106 ~G~i~~i~G~~GsGKT~la~~la~~~~-~~~~~gg~~~~vlyi~~e~~~~~~~l~~~~~~~g~~~~~~~~~l~~~~~~~~  184 (324)
T 2z43_A          106 TRTMTEFFGEFGSGKTQLCHQLSVNVQ-LPPEKGGLSGKAVYIDTEGTFRWERIENMAKALGLDIDNVMNNIYYIRAINT  184 (324)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHTT-SCGGGTCCSCEEEEEESSSCCCHHHHHHHHHHTTCCHHHHHHTEEEEECCSH
T ss_pred             CCcEEEEECCCCCCHhHHHHHHHHHHh-cccccCCCCCeEEEEECCCCCCHHHHHHHHHHhCCCHHHHhccEEEEeCCCH
Confidence            346999999999999999999987641 1100    1344555       12233445555443210       011222


Q ss_pred             h---HHHHHHHHHhC--CCcEEEEEecC
Q 043070          179 Q---GRAIDSSRRLG--QRRFALLLDDL  201 (414)
Q Consensus       179 ~---~~~~~l~~~L~--~kr~LlVlDdv  201 (414)
                      +   ++...+...++  .+.-+||+|.+
T Consensus       185 ~~~~~~l~~l~~~~~~~~~~~lvVIDsl  212 (324)
T 2z43_A          185 DHQIAIVDDLQELVSKDPSIKLIVVDSV  212 (324)
T ss_dssp             HHHHHHHHHHHHHHHHCTTEEEEEETTT
T ss_pred             HHHHHHHHHHHHHHHhccCCCEEEEeCc
Confidence            2   34455555554  45678888876

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=95.75  E-value=0.0063  Score=53.16  Aligned_cols=26  Identities=31%  Similarity=0.365  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+|+|+|..|+|||||++.+....
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~~~   30 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALARTL   30 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHh
Confidence            45689999999999999999998865

>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=95.75  E-value=0.0061  Score=52.30  Aligned_cols=24  Identities=21%  Similarity=0.403  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+++|+|+.|+|||||++.+....
T Consensus         3 ~ii~l~G~~GaGKSTl~~~L~~~~   26 (189)
T 2bdt_A            3 KLYIITGPAGVGKSTTCKRLAAQL   26 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCcHHHHHHHHhccc
Confidence            478999999999999999998633

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=95.74  E-value=0.013  Score=55.54  Aligned_cols=42  Identities=29%  Similarity=0.372  Sum_probs=31.5

Q ss_pred             cchH-HHHHHHHHhh----cCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          101 VDVS-RLNEVWRLVE----DNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       101 vGr~-~~~~l~~~L~----~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      |+.+ -.+++++.+.    .+....|.|+|++|+||||+++.++...
T Consensus         2 ~~~~~L~~~il~~l~~~i~~g~~~~i~l~G~~G~GKTTl~~~la~~l   48 (359)
T 2ga8_A            2 VDTHKLADDVLQLLDNRIEDNYRVCVILVGSPGSGKSTIAEELCQII   48 (359)
T ss_dssp             CCHHHHHHHHHHHHHHTTTTCSCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHhccCCeeEEEEECCCCCcHHHHHHHHHHHh
Confidence            3444 5556666653    3456679999999999999999998876

>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=95.74  E-value=0.0057  Score=58.42  Aligned_cols=84  Identities=13%  Similarity=0.114  Sum_probs=48.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH---HHHHHHHHHHhcCCCCcc---CcCCHhHHHHHHHHHhC
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV---KRIQHVMGYRLAMSNEVW---DDKTKQGRAIDSSRRLG  190 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv---~~l~~~i~~~l~~~~~~~---~~~~~~~~~~~l~~~L~  190 (414)
                      .-.++.|.|.+|+||||||..++.... ...  ..++|+   ..+-...+..++...+..   ...+.+++.+.+....+
T Consensus        62 ~G~ii~I~G~pGsGKTtLal~la~~~~-~~g--~~vlyid~E~s~~~~~a~~~g~~~~~l~i~~~~~~e~~~~~~~~l~~  138 (356)
T 1u94_A           62 MGRIVEIYGPESSGKTTLTLQVIAAAQ-REG--KTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALAR  138 (356)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHH-HTT--CCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH-HCC--CeEEEEeCCCCccHHHHHHcCCChhheeeeCCCCHHHHHHHHHHHHh
Confidence            346899999999999999999887652 111  234455   000011244554432211   22345555555554443


Q ss_pred             -CCcEEEEEecCCC
Q 043070          191 -QRRFALLLDDLRE  203 (414)
Q Consensus       191 -~kr~LlVlDdv~~  203 (414)
                       .+.-+||+|.+-.
T Consensus       139 ~~~~~lVVIDsl~~  152 (356)
T 1u94_A          139 SGAVDVIVVDSVAA  152 (356)
T ss_dssp             HTCCSEEEEECGGG
T ss_pred             ccCCCEEEEcCHHH
Confidence             4566899998743

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=95.74  E-value=0.0072  Score=50.03  Aligned_cols=26  Identities=23%  Similarity=0.247  Sum_probs=23.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-..+.|+|..|+|||||++.+++..
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~   60 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQA   60 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHH
Confidence            45689999999999999999999877

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=95.73  E-value=0.0062  Score=53.32  Aligned_cols=26  Identities=31%  Similarity=0.247  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+|+|+|+.|+|||||++.+....
T Consensus         7 ~g~~i~l~GpsGsGKsTl~~~L~~~~   32 (208)
T 3tau_A            7 RGLLIVLSGPSGVGKGTVREAVFKDP   32 (208)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHST
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHhhC
Confidence            45689999999999999999998876

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=95.71  E-value=0.0044  Score=52.70  Aligned_cols=25  Identities=28%  Similarity=0.412  Sum_probs=18.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+|.|.|++|+||||+|+.+....
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~~l   29 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHERL   29 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHHHS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999999998876

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=95.71  E-value=0.0066  Score=52.04  Aligned_cols=23  Identities=30%  Similarity=0.453  Sum_probs=21.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +|+|.|+.|+||||+|+.+.+..
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l   24 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYL   24 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68999999999999999998865

>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=95.71  E-value=0.0068  Score=55.11  Aligned_cols=25  Identities=36%  Similarity=0.569  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+|.|+|++|+||||+|+.+....
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~~L   28 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAKIL   28 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999999874

>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=95.70  E-value=0.012  Score=57.84  Aligned_cols=24  Identities=33%  Similarity=0.416  Sum_probs=21.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..++|+|.+|+|||||++.+..+.
T Consensus       152 q~~~i~G~sGvGKTtL~~~l~~~~  175 (473)
T 1sky_E          152 GKIGLFGGAGVGKTVLIQELIHNI  175 (473)
T ss_dssp             CEEEEECCSSSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCccHHHHHHHhhh
Confidence            468999999999999999998876

>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=95.70  E-value=0.011  Score=58.51  Aligned_cols=45  Identities=20%  Similarity=0.256  Sum_probs=35.4

Q ss_pred             CCccchH-HHHHHHHHh---hcC--CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLV---EDN--SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L---~~~--~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..++|.+ .++.+..++   ...  ..+-+.++|++|+|||+||+.+++..
T Consensus        37 ~~iiG~~~~~~~l~~~~~~~~~~~~~~~~iLl~GppGtGKT~la~ala~~l   87 (456)
T 2c9o_A           37 SGLVGQENAREACGVIVELIKSKKMAGRAVLLAGPPGTGKTALALAIAQEL   87 (456)
T ss_dssp             TTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHHHhCCCCCCeEEEECCCcCCHHHHHHHHHHHh
Confidence            6789999 777655544   332  23578899999999999999999987

>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=95.70  E-value=0.0069  Score=51.81  Aligned_cols=25  Identities=24%  Similarity=0.333  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+|+|.|++|+||||+|+.+....
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            4689999999999999999999876

>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=95.70  E-value=0.007  Score=54.70  Aligned_cols=27  Identities=15%  Similarity=0.222  Sum_probs=23.5

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ....+|+|.|+.|+||||+|+.+....
T Consensus        20 ~~~~iI~I~G~~GSGKST~a~~L~~~l   46 (252)
T 1uj2_A           20 GEPFLIGVSGGTASGKSSVCAKIVQLL   46 (252)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHHh
Confidence            456799999999999999999998865

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=95.70  E-value=0.0068  Score=50.74  Aligned_cols=23  Identities=30%  Similarity=0.290  Sum_probs=21.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .|.|.|++|+||||+|+.+.+..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l   24 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSL   24 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            68999999999999999999876

>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=95.68  E-value=0.007  Score=54.42  Aligned_cols=26  Identities=19%  Similarity=0.276  Sum_probs=23.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +..+|+|+|+.|+|||||++.+.+..
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            35799999999999999999999776

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=95.67  E-value=0.0077  Score=52.23  Aligned_cols=26  Identities=31%  Similarity=0.271  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ....|.|+|++|+||||+|+.+....
T Consensus        19 ~~~~I~l~G~~GsGKST~a~~La~~l   44 (201)
T 2cdn_A           19 SHMRVLLLGPPGAGKGTQAVKLAEKL   44 (201)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            34589999999999999999999876

>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=95.67  E-value=0.0055  Score=57.95  Aligned_cols=45  Identities=16%  Similarity=0.093  Sum_probs=33.7

Q ss_pred             CCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++++|.+ .+..+...+......-+.|+|.+|+|||+||+.+++..
T Consensus        24 ~~i~G~~~~~~~l~~~~~~~~~~~vLl~G~~GtGKT~la~~la~~~   69 (350)
T 1g8p_A           24 SAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAALL   69 (350)
T ss_dssp             GGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHHHS
T ss_pred             hhccChHHHHHHHHHHhhCCCCceEEEECCCCccHHHHHHHHHHhC
Confidence            5688998 66555444433233348999999999999999999876

>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=95.66  E-value=0.0068  Score=52.84  Aligned_cols=26  Identities=46%  Similarity=0.578  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+|+|+|++|+||||+|+.+....
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            34689999999999999999998754

>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=95.65  E-value=0.011  Score=56.41  Aligned_cols=44  Identities=20%  Similarity=0.098  Sum_probs=35.7

Q ss_pred             CccchH-HHHHHHHHhhc---------------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           99 NTVDVS-RLNEVWRLVED---------------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        99 ~~vGr~-~~~~l~~~L~~---------------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++|.+ .++.+...+..               .....+.++|++|+|||++|+.+++..
T Consensus        16 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~   75 (363)
T 3hws_A           16 YVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLL   75 (363)
T ss_dssp             HCCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             hccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHc
Confidence            368988 88888887721               134678999999999999999999887

>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=95.65  E-value=0.014  Score=54.46  Aligned_cols=38  Identities=26%  Similarity=0.257  Sum_probs=30.2

Q ss_pred             HHHHHHHHhhc--------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          105 RLNEVWRLVED--------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       105 ~~~~l~~~L~~--------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.++|.+.|..        ....+|+|+|.+|+||||++..++...
T Consensus        83 ~~~~l~~~l~~~~~~~~~~~~~~vi~ivG~~GsGKTTl~~~LA~~l  128 (306)
T 1vma_A           83 LKEIILEILNFDTKLNVPPEPPFVIMVVGVNGTGKTTSCGKLAKMF  128 (306)
T ss_dssp             HHHHHHHHTCSCCCCCCCSSSCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCCCcccCCCCeEEEEEcCCCChHHHHHHHHHHHH
Confidence            66666676632        235799999999999999999998776

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=95.63  E-value=0.0084  Score=52.97  Aligned_cols=27  Identities=30%  Similarity=0.361  Sum_probs=24.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+.++|.|.|++|+||||.|+.+.+.+
T Consensus        27 ~k~kiI~llGpPGsGKgTqa~~L~~~~   53 (217)
T 3umf_A           27 AKAKVIFVLGGPGSGKGTQCEKLVQKF   53 (217)
T ss_dssp             TSCEEEEEECCTTCCHHHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            356899999999999999999999887

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=95.62  E-value=0.0082  Score=52.40  Aligned_cols=26  Identities=35%  Similarity=0.447  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+|+|.|+.|+||||+|+.+.+..
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~L~~~l   33 (215)
T 1nn5_A            8 RGALIVLEGVDRAGKSTQSRKLVEAL   33 (215)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            34689999999999999999999876

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=95.61  E-value=0.0077  Score=51.46  Aligned_cols=23  Identities=30%  Similarity=0.508  Sum_probs=21.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++|+|..|+|||||++.+....
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l   24 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERL   24 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999999876

>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=95.59  E-value=0.0072  Score=56.67  Aligned_cols=27  Identities=26%  Similarity=0.475  Sum_probs=22.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++.+||+|.|-||+||||.|..+.--.
T Consensus        46 ~~aKVIAIaGKGGVGKTTtavNLA~aL   72 (314)
T 3fwy_A           46 TGAKVFAVYGKGGIGKSTTSSNLSAAF   72 (314)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCceEEEEECCCccCHHHHHHHHHHHH
Confidence            467999999999999999988776655

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=95.59  E-value=0.0057  Score=51.82  Aligned_cols=23  Identities=26%  Similarity=0.328  Sum_probs=19.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHH
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLN  139 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~  139 (414)
                      .-.+++|+|..|+|||||++..+
T Consensus         8 ~gei~~l~G~nGsGKSTl~~~~~   30 (171)
T 4gp7_A            8 ELSLVVLIGSSGSGKSTFAKKHF   30 (171)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHS
T ss_pred             CCEEEEEECCCCCCHHHHHHHHc
Confidence            34689999999999999999644

>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=95.59  E-value=0.0082  Score=52.92  Aligned_cols=25  Identities=32%  Similarity=0.351  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...|.|.|++|+||||+|+.+....
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            4689999999999999999999877

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=95.58  E-value=0.0082  Score=52.31  Aligned_cols=25  Identities=28%  Similarity=0.351  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+|+|.|+.|+||||+|+.+.+..
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~~l   34 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVEYL   34 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999999876

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=95.57  E-value=0.015  Score=53.17  Aligned_cols=45  Identities=20%  Similarity=0.245  Sum_probs=33.1

Q ss_pred             CCccchH-HHHHHHHHhh---c---------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVE---D---------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~---~---------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++++|.+ .++++.+...   .         .-.+-+.|+|.+|+||||||+.++...
T Consensus        40 ~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~   97 (278)
T 1iy2_A           40 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA   97 (278)
T ss_dssp             GGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             HHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHc
Confidence            5688988 6666655441   1         112238999999999999999999877

>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=95.53  E-value=0.0095  Score=51.58  Aligned_cols=27  Identities=26%  Similarity=0.337  Sum_probs=24.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ....+|+|+|+.|+||||+|+.+....
T Consensus        10 ~~~~iIgltG~~GSGKSTva~~L~~~l   36 (192)
T 2grj_A           10 HHHMVIGVTGKIGTGKSTVCEILKNKY   36 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHHhc
Confidence            356799999999999999999999874

>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=95.53  E-value=0.0073  Score=52.58  Aligned_cols=22  Identities=32%  Similarity=0.311  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHH
Q 043070          119 RIICLHGVSRLGKTTLLYNLNK  140 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~  140 (414)
                      .+|+|+|+.|+||||+++.+..
T Consensus         3 ~~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            3 YIVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999976

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=95.52  E-value=0.013  Score=54.18  Aligned_cols=26  Identities=27%  Similarity=0.222  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+|.|.|++|+||||+|+.+....
T Consensus        32 ~~~livl~G~sGsGKSTla~~L~~~~   57 (287)
T 1gvn_B           32 SPTAFLLGGQPGSGKTSLRSAIFEET   57 (287)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            45789999999999999999998765

>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=95.52  E-value=0.0073  Score=52.01  Aligned_cols=24  Identities=42%  Similarity=0.566  Sum_probs=21.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +.|.|+|++|+|||||++.+....
T Consensus         2 RpIVi~GPSG~GK~Tl~~~L~~~~   25 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhC
Confidence            458899999999999999998765

>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=95.50  E-value=0.0094  Score=50.42  Aligned_cols=26  Identities=23%  Similarity=0.252  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..++++|+|..|+|||||+..+....
T Consensus         3 ~~~~i~i~G~sGsGKTTl~~~L~~~l   28 (169)
T 1xjc_A            3 AMNVWQVVGYKHSGKTTLMEKWVAAA   28 (169)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhh
Confidence            45799999999999999999998875

>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=95.48  E-value=0.016  Score=55.61  Aligned_cols=45  Identities=22%  Similarity=0.128  Sum_probs=35.0

Q ss_pred             CCccchH-HHHHHHHHhhc------------------------------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVED------------------------------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~------------------------------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..++|.+ .++.|...+..                              .....+.++|++|+|||++|+.+++..
T Consensus        21 ~~viGq~~ak~~l~~~~~~~~~~~~~g~~~~~~~~~~~~~p~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l   96 (376)
T 1um8_A           21 NYVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHL   96 (376)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             hHccCcHHHHHHHHHHHHHHHHHHHhhhhhhhccccccccccccccccccCCCCEEEECCCCCCHHHHHHHHHHHh
Confidence            4578888 77777766610                              123568899999999999999999877

>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=95.48  E-value=0.0046  Score=54.04  Aligned_cols=24  Identities=38%  Similarity=0.605  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++|+|+|..|+||||+|+.+....
T Consensus         1 ~~I~i~G~~GsGKsTl~~~L~~~l   24 (214)
T 1gtv_A            1 MLIAIEGVDGAGKRTLVEKLSGAF   24 (214)
T ss_dssp             CEEEEEEEEEEEHHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHH
Confidence            378999999999999999998876

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=95.48  E-value=0.0077  Score=52.34  Aligned_cols=25  Identities=40%  Similarity=0.481  Sum_probs=21.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++++|+|+.|+|||||++.+....
T Consensus         4 g~~i~lvGpsGaGKSTLl~~L~~~~   28 (198)
T 1lvg_A            4 PRPVVLSGPSGAGKSTLLKKLFQEH   28 (198)
T ss_dssp             -CCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            3589999999999999999998765

>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=95.47  E-value=0.019  Score=51.51  Aligned_cols=27  Identities=26%  Similarity=0.206  Sum_probs=24.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .....|.|.|++|+||||+|+.+.+..
T Consensus        27 ~~~~~I~l~G~~GsGKsT~a~~L~~~~   53 (243)
T 3tlx_A           27 KPDGRYIFLGAPGSGKGTQSLNLKKSH   53 (243)
T ss_dssp             SCCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            456789999999999999999998876

>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=95.46  E-value=0.024  Score=54.29  Aligned_cols=102  Identities=18%  Similarity=0.166  Sum_probs=53.3

Q ss_pred             HHHHHhhc-CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH-----HHHHHHHHHHhcCCCC-ccCcCCHh-
Q 043070          108 EVWRLVED-NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV-----KRIQHVMGYRLAMSNE-VWDDKTKQ-  179 (414)
Q Consensus       108 ~l~~~L~~-~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv-----~~l~~~i~~~l~~~~~-~~~~~~~~-  179 (414)
                      ++++.+.. ..-..++|+|.+|+|||||++.+.+........++++ ++     .+=..++.+.+....- ...+.... 
T Consensus       163 raID~~~pi~rGQr~~IvG~sG~GKTtLl~~Iar~i~~~~~~v~~I-~~lIGER~~Ev~~~~~~~~~~vV~atadep~~~  241 (422)
T 3ice_A          163 RVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCVLM-VLLIDERPEEVTEMQRLVKGEVVASTFDEPASR  241 (422)
T ss_dssp             HHHHHHSCCBTTCEEEEECCSSSSHHHHHHHHHHHHHHHCTTSEEE-EEEESSCHHHHHHHHTTCSSEEEEECTTSCHHH
T ss_pred             eeeeeeeeecCCcEEEEecCCCCChhHHHHHHHHHHhhcCCCeeEE-EEEecCChHHHHHHHHHhCeEEEEeCCCCCHHH
Confidence            44455533 3446899999999999999999988652112333333 23     3333334444421000 00111111 


Q ss_pred             -----HHHHHHHHHh--CCCcEEEEEecCCCcc-chhhh
Q 043070          180 -----GRAIDSSRRL--GQRRFALLLDDLREPI-DLKTA  210 (414)
Q Consensus       180 -----~~~~~l~~~L--~~kr~LlVlDdv~~~~-~~~~~  210 (414)
                           ...-.+.+++  +++.+||++||+-... ....+
T Consensus       242 r~~~a~~alt~AEyfrd~G~dVLil~DslTR~A~A~rev  280 (422)
T 3ice_A          242 HVQVAEMVIEKAKRLVEHKKDVIILLDSITRLARAYNTV  280 (422)
T ss_dssp             HHHHHHHHHHHHHHHHHTSCEEEEEEECHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCCEEEEEeCchHHHHHHHHH
Confidence                 1111122233  5899999999985443 34444

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=95.46  E-value=0.023  Score=53.26  Aligned_cols=59  Identities=14%  Similarity=0.134  Sum_probs=37.5

Q ss_pred             chHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH------HHHHHHHHHH
Q 043070          102 DVSRLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV------KRIQHVMGYR  165 (414)
Q Consensus       102 Gr~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv------~~l~~~i~~~  165 (414)
                      |...++++..-+  ..-.++.|.|.+|+||||||..++.... ...  ..++|+      ..+...++..
T Consensus        54 G~~~LD~~lgGl--~~G~l~li~G~pG~GKTtl~l~ia~~~a-~~g--~~vl~~slE~s~~~l~~R~~~~  118 (315)
T 3bh0_A           54 GFTELDRMTYGY--KRRNFVLIAARPSMGKTAFALKQAKNMS-DND--DVVNLHSLEMGKKENIKRLIVT  118 (315)
T ss_dssp             SCHHHHHHHSSB--CTTCEEEEECCTTSSHHHHHHHHHHHHH-TTT--CEEEEEESSSCHHHHHHHHHHH
T ss_pred             ChHHHHhhcCCC--CCCcEEEEEeCCCCCHHHHHHHHHHHHH-HcC--CeEEEEECCCCHHHHHHHHHHH
Confidence            333455543212  3346899999999999999999987662 222  455566      5555555543

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=95.44  E-value=0.0086  Score=53.10  Aligned_cols=25  Identities=20%  Similarity=0.297  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...|.|.|++|+||||+|+.+....
T Consensus         7 ~~~I~l~G~~GsGKsT~a~~La~~l   31 (227)
T 1zd8_A            7 LLRAVIMGAPGSGKGTVSSRITTHF   31 (227)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHc
Confidence            4689999999999999999999876

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=95.44  E-value=0.0088  Score=52.77  Aligned_cols=26  Identities=19%  Similarity=0.232  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ....|.|.|++|+||||+|+.+....
T Consensus         4 ~~~~I~l~G~~GsGKsT~~~~La~~l   29 (222)
T 1zak_A            4 DPLKVMISGAPASGKGTQCELIKTKY   29 (222)
T ss_dssp             CSCCEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            34679999999999999999999887

>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=95.43  E-value=0.042  Score=51.16  Aligned_cols=38  Identities=16%  Similarity=0.163  Sum_probs=31.9

Q ss_pred             HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          105 RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       105 ~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++.+.+.+.+++.+...++|++|+||||+|..+.+..
T Consensus         5 ~~~~L~~~i~~~~~~~~Lf~Gp~G~GKtt~a~~la~~~   42 (305)
T 2gno_A            5 QLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYV   42 (305)
T ss_dssp             HHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCCcEEEEECCCCCCHHHHHHHHHHhC
Confidence            56777777776667899999999999999999998753

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=95.40  E-value=0.01  Score=53.67  Aligned_cols=26  Identities=31%  Similarity=0.377  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+|+|+|+.|+||||+++.+....
T Consensus        26 ~g~~I~I~G~~GsGKSTl~k~La~~L   51 (252)
T 4e22_A           26 IAPVITVDGPSGAGKGTLCKALAESL   51 (252)
T ss_dssp             TSCEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhc
Confidence            34699999999999999999999776

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=95.36  E-value=0.01  Score=52.03  Aligned_cols=23  Identities=30%  Similarity=0.384  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .|.|.|++|+||||+|+.+....
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            58899999999999999998876

>2ck3_D ATP synthase subunit beta\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1cow_D* 1bmf_D* 1e1q_D* 1e1r_D* 1efr_D* 1e79_D* 1h8h_D* 1ohh_D* 1qo1_D 1w0j_D* 1w0k_D* 1h8e_D* 2jdi_D* 2jiz_D* 2jj1_D* 2jj2_D* 2v7q_D* 2wss_D* 2w6j_D 2w6e_D ...

Probab=95.34  E-value=0.06  Score=52.89  Aligned_cols=95  Identities=16%  Similarity=0.197  Sum_probs=55.1

Q ss_pred             HHHHHhhc-CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH---------HHHHHHHHHHhcCC------CC
Q 043070          108 EVWRLVED-NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV---------KRIQHVMGYRLAMS------NE  171 (414)
Q Consensus       108 ~l~~~L~~-~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv---------~~l~~~i~~~l~~~------~~  171 (414)
                      ++++.|.. .+-..++|+|..|+|||+|+.++.++..  +.+-+.++++         .++.+++...-...      ..
T Consensus       142 r~ID~l~pigkGQr~~Ifgg~G~GKT~L~~~i~~~~~--~~~~~v~V~~~iGER~rEv~e~~~~~~~~~~l~~~~~~~rt  219 (482)
T 2ck3_D          142 KVVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVA--KAHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSKV  219 (482)
T ss_dssp             HHHHHHSCEETTCEEEEEECTTSSHHHHHHHHHHHTT--TTCSSEEEEEEESCCHHHHHHHHHHHHHHTSSCSSSSCCCE
T ss_pred             EEEecccccccCCeeeeecCCCCChHHHHHHHHHhhH--hhCCCEEEEEECCCcchHHHHHHHHhhhccccccccCCceE
Confidence            44555533 3346899999999999999999998762  3344555555         55566665542221      00


Q ss_pred             c--c--CcCCHh------HHHHHHHHHh---CCCcEEEEEecCCCc
Q 043070          172 V--W--DDKTKQ------GRAIDSSRRL---GQRRFALLLDDLREP  204 (414)
Q Consensus       172 ~--~--~~~~~~------~~~~~l~~~L---~~kr~LlVlDdv~~~  204 (414)
                      .  .  .+....      ...-.+.+++   +++.+||++||+-.-
T Consensus       220 vvV~~t~d~p~~~r~~~~~~a~tiAEyfrd~~G~dVLll~DsitR~  265 (482)
T 2ck3_D          220 ALVYGQMNEPPGARARVALTGLTVAEYFRDQEGQDVLLFIDNIFRF  265 (482)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHHHHHHHHTTCSCEEEEEECTHHH
T ss_pred             EEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCcEEEEeccHHHH
Confidence            0  0  111111      1122233443   479999999998543

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=95.34  E-value=0.031  Score=54.65  Aligned_cols=26  Identities=31%  Similarity=0.465  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +..+|.++|.+|+||||++..++...
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l  124 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYF  124 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHH
Confidence            36899999999999999999988765

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=95.34  E-value=0.013  Score=52.93  Aligned_cols=26  Identities=38%  Similarity=0.341  Sum_probs=23.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+|.|+|++|+||||+|+.+....
T Consensus        31 ~~~~i~l~G~~GsGKSTla~~L~~~l   56 (253)
T 2p5t_B           31 QPIAILLGGQSGAGKTTIHRIKQKEF   56 (253)
T ss_dssp             SCEEEEEESCGGGTTHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            45789999999999999999998876

>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=95.33  E-value=0.019  Score=50.21  Aligned_cols=27  Identities=33%  Similarity=0.426  Sum_probs=24.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ....+|.|+|+.|+||||+|+.+....
T Consensus        23 ~~~~~i~~~G~~GsGKsT~~~~l~~~l   49 (211)
T 1m7g_A           23 QRGLTIWLTGLSASGKSTLAVELEHQL   49 (211)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            445799999999999999999998876

>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=95.32  E-value=0.01  Score=51.35  Aligned_cols=25  Identities=28%  Similarity=0.441  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...|+|.|+.|+||||+++.+.+..
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            3689999999999999999998865

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=95.31  E-value=0.034  Score=54.35  Aligned_cols=26  Identities=38%  Similarity=0.278  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+|.++|.+|+||||++..++...
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~l  121 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYFY  121 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            36799999999999999999988766

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=95.29  E-value=0.067  Score=50.49  Aligned_cols=39  Identities=18%  Similarity=0.235  Sum_probs=28.1

Q ss_pred             chHHHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          102 DVSRLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       102 Gr~~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      |..+++++..-|  ..-.++.|.|.+|+||||||..++...
T Consensus        32 G~~~LD~~~gGl--~~G~LiiIaG~pG~GKTt~al~ia~~~   70 (338)
T 4a1f_A           32 GFVQLDNYTSGF--NKGSLVIIGARPSMGKTSLMMNMVLSA   70 (338)
T ss_dssp             SCHHHHHHHCSB--CTTCEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CChHHHHHhcCC--CCCcEEEEEeCCCCCHHHHHHHHHHHH
Confidence            333455544322  234689999999999999999998876

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=95.28  E-value=0.012  Score=52.84  Aligned_cols=27  Identities=19%  Similarity=0.187  Sum_probs=23.4

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ....+|+|.|..|+|||||++.+....
T Consensus        23 ~~g~iigI~G~~GsGKSTl~k~L~~~l   49 (245)
T 2jeo_A           23 MRPFLIGVSGGTASGKSTVCEKIMELL   49 (245)
T ss_dssp             CCSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            345799999999999999999998754

>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A

Probab=95.26  E-value=0.028  Score=54.80  Aligned_cols=26  Identities=27%  Similarity=0.284  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+|+|+|.+|+||||++..++...
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~LA~~l  122 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKLALYY  122 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            35799999999999999999998876

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=95.23  E-value=0.012  Score=51.10  Aligned_cols=26  Identities=19%  Similarity=0.307  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..++|+|+|+.|+|||||++.+....
T Consensus        18 ~g~~ivl~GPSGaGKsTL~~~L~~~~   43 (197)
T 3ney_A           18 GRKTLVLIGASGVGRSHIKNALLSQN   43 (197)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCCEEEEECcCCCCHHHHHHHHHhhC
Confidence            45789999999999999999998765

>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=95.22  E-value=0.012  Score=54.99  Aligned_cols=26  Identities=27%  Similarity=0.236  Sum_probs=23.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+|+|+|..|+|||||++.+....
T Consensus        89 ~g~ivgI~G~sGsGKSTL~~~L~gll  114 (312)
T 3aez_A           89 VPFIIGVAGSVAVGKSTTARVLQALL  114 (312)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCchHHHHHHHHHhhc
Confidence            45799999999999999999998766

>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=95.20  E-value=0.011  Score=51.73  Aligned_cols=23  Identities=26%  Similarity=0.323  Sum_probs=21.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .|.|.|++|+||||+|+.+....
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            48899999999999999998776

>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=95.19  E-value=0.013  Score=49.64  Aligned_cols=25  Identities=32%  Similarity=0.376  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.+|+|+|+.|+||||+++.+....
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~~l   29 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEEYL   29 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999998865

>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=95.18  E-value=0.012  Score=51.43  Aligned_cols=26  Identities=31%  Similarity=0.534  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|+.|+|||||++.+....
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            34689999999999999999998766

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=95.17  E-value=0.015  Score=58.12  Aligned_cols=43  Identities=14%  Similarity=0.142  Sum_probs=36.0

Q ss_pred             CCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..++|.+ .++.+...+..+  .-|.|+|.+|+|||+||+.+++..
T Consensus        22 ~~ivGq~~~i~~l~~al~~~--~~VLL~GpPGtGKT~LAraLa~~l   65 (500)
T 3nbx_X           22 KGLYERSHAIRLCLLAALSG--ESVFLLGPPGIAKSLIARRLKFAF   65 (500)
T ss_dssp             TTCSSCHHHHHHHHHHHHHT--CEEEEECCSSSSHHHHHHHGGGGB
T ss_pred             hhhHHHHHHHHHHHHHHhcC--CeeEeecCchHHHHHHHHHHHHHH
Confidence            4578999 888887777654  368899999999999999999876

>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=0.014  Score=51.25  Aligned_cols=23  Identities=26%  Similarity=0.303  Sum_probs=21.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHH
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNK  140 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~  140 (414)
                      ..+|+|.|+.|+||||+++.+..
T Consensus         4 ~~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            4 RYIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            36899999999999999999976

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=95.11  E-value=0.019  Score=49.96  Aligned_cols=38  Identities=11%  Similarity=0.131  Sum_probs=28.3

Q ss_pred             HHHHHHHHhhc-CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          105 RLNEVWRLVED-NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       105 ~~~~l~~~L~~-~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -+..+..++.. ++...+.|+|++|+||||+|..+++..
T Consensus        44 f~~~l~~~~~~iPkkn~ili~GPPGtGKTt~a~ala~~l   82 (212)
T 1tue_A           44 FLGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFI   82 (212)
T ss_dssp             HHHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHh
Confidence            44555555543 233479999999999999999998876

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=95.08  E-value=0.011  Score=52.16  Aligned_cols=26  Identities=31%  Similarity=0.493  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|+.|+|||||++.+....
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            34689999999999999999998754

>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=95.08  E-value=0.035  Score=54.76  Aligned_cols=94  Identities=16%  Similarity=0.192  Sum_probs=56.0

Q ss_pred             HHHHhhc-CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH---------HHHHHHHHHHhcCC-------CC
Q 043070          109 VWRLVED-NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV---------KRIQHVMGYRLAMS-------NE  171 (414)
Q Consensus       109 l~~~L~~-~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv---------~~l~~~i~~~l~~~-------~~  171 (414)
                      +++.|.. .+-..++|+|..|+|||+|+.++.++..  +.+-+.++++         .++.+++...-...       ..
T Consensus       155 vID~l~pigkGqr~gIfgg~GvGKT~L~~~l~~~~a--~~~~~v~V~~~iGER~rEv~e~~~~~~~~~~l~~~~l~~~rt  232 (498)
T 1fx0_B          155 VVNLLAPYRRGGKIGLFGGAGVGKTVLIMELINNIA--KAHGGVSVFGGVGERTREGNDLYMEMKESGVINEQNIAESKV  232 (498)
T ss_dssp             THHHHSCCCTTCCEEEEECSSSSHHHHHHHHHHHTT--TTCSSCEEEEEESCCSHHHHHHHHHHHHTTSSCSSTTCCCCE
T ss_pred             EeeeecccccCCeEEeecCCCCCchHHHHHHHHHHH--hhCCCEEEEEEcccCcHHHHHHHHhhhcccccccccccccce
Confidence            3444533 3346799999999999999999998762  3445666666         55566665432221       00


Q ss_pred             c--c--CcCC------HhHHHHHHHHHhC---CCcEEEEEecCCCc
Q 043070          172 V--W--DDKT------KQGRAIDSSRRLG---QRRFALLLDDLREP  204 (414)
Q Consensus       172 ~--~--~~~~------~~~~~~~l~~~L~---~kr~LlVlDdv~~~  204 (414)
                      .  .  .+..      .....-.+.++++   ++.+||++||+-.-
T Consensus       233 vvV~~t~d~p~~~R~~~~~~altiAEyfrd~~G~dVLl~~DsitR~  278 (498)
T 1fx0_B          233 ALVYGQMNEPPGARMRVGLTALTMAEYFRDVNEQDVLLFIDNIFRF  278 (498)
T ss_dssp             EEEEECTTSCHHHHTTHHHHHHHTHHHHTTTSCCEEEEEEECSHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHHHHHHHHhcCCcEEEEeccHHHH
Confidence            0  0  0111      1122334555554   58999999998543

>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=95.04  E-value=0.015  Score=50.46  Aligned_cols=23  Identities=22%  Similarity=0.417  Sum_probs=21.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +|+|.|+.|+||||+|+.+....
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~l   26 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAAL   26 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhc
Confidence            89999999999999999999876

>1g41_A Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dependent proteolysis, chaperone; HET: ADP; 2.30A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1g3i_A* 1im2_A* 1kyi_A* 1g4a_E* 1g4b_E 1yyf_A* 1do0_A* 1do2_A* 1e94_E* 1hqy_E* 1ht1_E* 1ht2_E*

Probab=95.03  E-value=0.021  Score=55.98  Aligned_cols=45  Identities=18%  Similarity=0.192  Sum_probs=35.6

Q ss_pred             CCccchH-HHHHHHHHhhc--------------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVED--------------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~--------------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..++|.+ .++.+...+..              ...+-|.++|++|+||||+|+.++...
T Consensus        15 ~~IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~~l   74 (444)
T 1g41_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA   74 (444)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHHHc
Confidence            5678988 77777666622              134568999999999999999999877

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=95.02  E-value=0.013  Score=53.08  Aligned_cols=25  Identities=28%  Similarity=0.294  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.+|+|+|+.|+||||+++.+....
T Consensus        48 g~~i~l~G~~GsGKSTl~~~La~~l   72 (250)
T 3nwj_A           48 GRSMYLVGMMGSGKTTVGKIMARSL   72 (250)
T ss_dssp             TCCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhc
Confidence            3589999999999999999999866

>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=94.98  E-value=0.016  Score=53.99  Aligned_cols=26  Identities=31%  Similarity=0.548  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+++|+|.+|+|||||++.++...
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lagll  126 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGRYY  126 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            35699999999999999999998776

>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=94.98  E-value=0.015  Score=53.55  Aligned_cols=24  Identities=25%  Similarity=0.479  Sum_probs=21.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHH
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNK  140 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~  140 (414)
                      ...+|+|+|+.|+||||+|+.+..
T Consensus        74 ~~~iI~I~G~~GSGKSTva~~La~   97 (281)
T 2f6r_A           74 GLYVLGLTGISGSGKSSVAQRLKN   97 (281)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999999983

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=94.97  E-value=0.016  Score=48.35  Aligned_cols=27  Identities=26%  Similarity=0.319  Sum_probs=23.5

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-.+++|+|..|+|||||.+.++...
T Consensus        31 ~~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           31 EKAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            445799999999999999999998765

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=94.96  E-value=0.015  Score=51.08  Aligned_cols=24  Identities=25%  Similarity=0.289  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..|.|.|++|+||||+|+.+....
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            578999999999999999999877

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=94.92  E-value=0.017  Score=51.59  Aligned_cols=25  Identities=16%  Similarity=0.380  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+|+|.|++|+||||+|+.+....
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~~l   33 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLARAL   33 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4589999999999999999999876

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=94.91  E-value=0.016  Score=50.72  Aligned_cols=23  Identities=30%  Similarity=0.294  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .|.|.|++|+||||+|+.+....
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            47999999999999999999876

>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=94.90  E-value=0.028  Score=52.93  Aligned_cols=26  Identities=27%  Similarity=0.323  Sum_probs=23.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+++|+|..|+||||+++.++...
T Consensus       128 ~g~vi~lvG~nGaGKTTll~~Lag~l  153 (328)
T 3e70_C          128 KPYVIMFVGFNGSGKTTTIAKLANWL  153 (328)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            46799999999999999999998766

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=94.90  E-value=0.019  Score=51.14  Aligned_cols=25  Identities=32%  Similarity=0.234  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...|.|.|+.|+||||+|+.+.+..
T Consensus        16 ~~~I~l~G~~GsGKsT~a~~La~~l   40 (233)
T 1ak2_A           16 GVRAVLLGPPGAGKGTQAPKLAKNF   40 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3579999999999999999999887

>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=94.89  E-value=0.028  Score=52.64  Aligned_cols=26  Identities=23%  Similarity=0.244  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.++.|+|.+|+||||||..++...
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            34799999999999999999988653

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=94.89  E-value=0.017  Score=51.13  Aligned_cols=23  Identities=26%  Similarity=0.251  Sum_probs=21.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .|.|.|++|+||||+|+.+....
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            58999999999999999998876

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=94.87  E-value=0.01  Score=50.33  Aligned_cols=24  Identities=33%  Similarity=0.443  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++++|+|..|+|||||++.+....
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~   26 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPIL   26 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            589999999999999999998876

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=94.83  E-value=0.016  Score=50.03  Aligned_cols=24  Identities=33%  Similarity=0.499  Sum_probs=21.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+++|+|..|+|||||++.++...
T Consensus         2 ~~i~i~G~nG~GKTTll~~l~g~~   25 (189)
T 2i3b_A            2 RHVFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCChHHHHHHHHHhhc
Confidence            368999999999999999998876

>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=94.77  E-value=0.017  Score=50.87  Aligned_cols=26  Identities=27%  Similarity=0.186  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|..|+|||||++.++...
T Consensus        24 ~G~~~~l~G~nGsGKSTll~~l~g~~   49 (231)
T 4a74_A           24 TQAITEVFGEFGSGKTQLAHTLAVMV   49 (231)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            34799999999999999999998744

>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=94.77  E-value=0.064  Score=56.47  Aligned_cols=90  Identities=16%  Similarity=0.128  Sum_probs=55.2

Q ss_pred             CCccchH-HHHHHHHHhhc-------------CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCC-cchHhHHHHHHHH
Q 043070           98 ENTVDVS-RLNEVWRLVED-------------NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNF-GLVILVKRIQHVM  162 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~-------------~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F-~~~~wv~~l~~~i  162 (414)
                      ..+.|.+ .+++|.+.+.-             ...+-|.++|++|.|||.||+++++..   ...| ...      ..++
T Consensus       477 ~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~---~~~f~~v~------~~~l  547 (806)
T 3cf2_A          477 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANEC---QANFISIK------GPEL  547 (806)
T ss_dssp             TTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTT---TCEEEECC------HHHH
T ss_pred             HHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHh---CCceEEec------cchh
Confidence            4567888 77777776521             234568899999999999999999988   3333 111      0111


Q ss_pred             HHHhcCCCCccCcCCHhHHHHHHHHHhCCCcEEEEEecCCC
Q 043070          163 GYRLAMSNEVWDDKTKQGRAIDSSRRLGQRRFALLLDDLRE  203 (414)
Q Consensus       163 ~~~l~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~  203 (414)
                      +...       ...+...+.+.+...-+..++.|++|+++.
T Consensus       548 ~s~~-------vGese~~vr~lF~~Ar~~~P~IifiDEiDs  581 (806)
T 3cf2_A          548 LTMW-------FGESEANVREIFDKARQAAPCVLFFDELDS  581 (806)
T ss_dssp             HTTT-------CSSCHHHHHHHHHHHHTTCSEEEECSCGGG
T ss_pred             hccc-------cchHHHHHHHHHHHHHHcCCceeechhhhH
Confidence            1111       223333333333333356789999999864

>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=94.77  E-value=0.02  Score=53.15  Aligned_cols=26  Identities=35%  Similarity=0.362  Sum_probs=23.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+++++|.+|+||||++..++...
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~~l  129 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAAIS  129 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            45799999999999999999998766

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=94.76  E-value=0.02  Score=53.72  Aligned_cols=26  Identities=27%  Similarity=0.257  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+|+|.|..|+|||||++.+....
T Consensus        91 ~p~iigI~GpsGSGKSTl~~~L~~ll  116 (321)
T 3tqc_A           91 VPYIIGIAGSVAVGKSTTSRVLKALL  116 (321)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            45699999999999999999998766

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=94.75  E-value=0.018  Score=50.95  Aligned_cols=26  Identities=23%  Similarity=0.224  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|+.|+|||||.+.+....
T Consensus        15 ~G~ii~l~GpsGsGKSTLlk~L~g~~   40 (219)
T 1s96_A           15 QGTLYIVSAPSGAGKSSLIQALLKTQ   40 (219)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhccC
Confidence            34699999999999999999998765

>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=94.74  E-value=0.02  Score=50.13  Aligned_cols=23  Identities=30%  Similarity=0.310  Sum_probs=21.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +|.|.|++|+||||.|+.+...+
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~   24 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEK   24 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68899999999999999999887

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=94.72  E-value=0.019  Score=54.13  Aligned_cols=24  Identities=38%  Similarity=0.517  Sum_probs=22.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+|+|.|+.|+||||||..++...
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~l   31 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKKF   31 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             ceEEEECCCcCcHHHHHHHHHHHc
Confidence            589999999999999999999876

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=94.69  E-value=0.022  Score=53.01  Aligned_cols=25  Identities=36%  Similarity=0.436  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+++|+|..|+||||+++.++...
T Consensus       100 g~vi~lvG~nGsGKTTll~~Lag~l  124 (302)
T 3b9q_A          100 PAVIMIVGVNGGGKTTSLGKLAHRL  124 (302)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4699999999999999999998876

>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=94.69  E-value=0.021  Score=53.30  Aligned_cols=27  Identities=26%  Similarity=0.277  Sum_probs=23.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ....+|+|+|..|+|||||++.+....
T Consensus        78 ~~g~iigI~G~~GsGKSTl~~~L~~~l  104 (308)
T 1sq5_A           78 RIPYIISIAGSVAVGKSTTARVLQALL  104 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            345799999999999999999998865

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=94.68  E-value=0.039  Score=54.67  Aligned_cols=26  Identities=35%  Similarity=0.542  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+++|+|..|+|||||++.++...
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~~LAgll  317 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIGKLARQF  317 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCcccHHHHHHHHHHHh
Confidence            45799999999999999999998766

>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=94.68  E-value=0.041  Score=51.04  Aligned_cols=25  Identities=36%  Similarity=0.335  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+++++|.+|+||||++..++...
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~~  122 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYFY  122 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            5699999999999999999988766

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=94.68  E-value=0.022  Score=48.38  Aligned_cols=25  Identities=32%  Similarity=0.414  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++++|+|..|+|||||+..+....
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~~l   30 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIPAL   30 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhc
Confidence            5789999999999999999998765

>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=94.64  E-value=0.051  Score=52.58  Aligned_cols=25  Identities=32%  Similarity=0.292  Sum_probs=21.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      .-.++.|+|.+|+|||||+..++-.
T Consensus       177 ~Gei~~I~G~sGsGKTTLl~~la~~  201 (400)
T 3lda_A          177 TGSITELFGEFRTGKSQLCHTLAVT  201 (400)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCChHHHHHHHHHH
Confidence            3469999999999999999977633

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=94.59  E-value=0.021  Score=51.31  Aligned_cols=26  Identities=19%  Similarity=0.198  Sum_probs=23.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .. .+++|+|..|+|||||.+.+..-.
T Consensus        23 ~~-e~~~liG~nGsGKSTLl~~l~Gl~   48 (240)
T 2onk_A           23 GR-DYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             CS-SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CC-EEEEEECCCCCCHHHHHHHHhCCC
Confidence            45 799999999999999999988654

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=94.56  E-value=0.013  Score=52.06  Aligned_cols=25  Identities=36%  Similarity=0.279  Sum_probs=16.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHH-Hhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLN-KKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~-~~~  142 (414)
                      -.+++|+|+.|+|||||++.+. ...
T Consensus        27 G~ii~l~Gp~GsGKSTl~~~L~~~~~   52 (231)
T 3lnc_A           27 GVILVLSSPSGCGKTTVANKLLEKQK   52 (231)
T ss_dssp             CCEEEEECSCC----CHHHHHHC---
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            3689999999999999999998 543

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=94.54  E-value=0.036  Score=54.31  Aligned_cols=38  Identities=24%  Similarity=0.295  Sum_probs=30.1

Q ss_pred             HHHHHHHHhhc---------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          105 RLNEVWRLVED---------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       105 ~~~~l~~~L~~---------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.+++.++|..         ...++|+++|.+|+||||++..++...
T Consensus        78 ~~~~l~~~l~~~~~~~~~~~~~~~vI~ivG~~GvGKTT~a~~LA~~l  124 (433)
T 2xxa_A           78 VRNELVAAMGEENQTLNLAAQPPAVVLMAGLQGAGKTTSVGKLGKFL  124 (433)
T ss_dssp             HHHHHHHHHCSSSCCCCCCSSSSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccccccccccCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            55666776632         246799999999999999999998776

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=94.53  E-value=0.048  Score=53.63  Aligned_cols=26  Identities=15%  Similarity=0.289  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.++.|.|.+|+||||||..++.+.
T Consensus       196 ~G~liiIaG~pG~GKTtlal~ia~~~  221 (444)
T 3bgw_A          196 RRNFVLIAARPSMGKTAFALKQAKNM  221 (444)
T ss_dssp             SSCEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCChHHHHHHHHHHH
Confidence            34689999999999999999998877

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=94.46  E-value=0.014  Score=54.02  Aligned_cols=26  Identities=27%  Similarity=0.407  Sum_probs=20.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +..+|+|.|..|+||||+|+.+.+..
T Consensus         4 ~~~iIgItG~sGSGKSTva~~L~~~l   29 (290)
T 1a7j_A            4 KHPIISVTGSSGAGTSTVKHTFDQIF   29 (290)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHH
Confidence            45689999999999999999998764

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=94.46  E-value=0.023  Score=53.20  Aligned_cols=24  Identities=33%  Similarity=0.405  Sum_probs=22.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++|.|+|+.|+||||||+.++...
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            589999999999999999999876

>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=94.44  E-value=0.023  Score=52.53  Aligned_cols=23  Identities=30%  Similarity=0.329  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      .+|.|.|++|+||||+|+.+...
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            57999999999999999999875

>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=94.36  E-value=0.052  Score=51.64  Aligned_cols=37  Identities=16%  Similarity=0.270  Sum_probs=28.3

Q ss_pred             HHHHHHHhh--cCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          106 LNEVWRLVE--DNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       106 ~~~l~~~L~--~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..++++.+.  ..+..+|+|+|.+|+|||||+..+....
T Consensus        65 ~~~~~~~~~~~~~~~~~I~i~G~~G~GKSTl~~~L~~~l  103 (355)
T 3p32_A           65 AQQLLLRLLPDSGNAHRVGITGVPGVGKSTAIEALGMHL  103 (355)
T ss_dssp             HHHHHHHHGGGCCCSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHhHhhcCCceEEEEECCCCCCHHHHHHHHHHHH
Confidence            344444453  3567899999999999999999987654

>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=94.33  E-value=0.023  Score=50.86  Aligned_cols=26  Identities=23%  Similarity=0.221  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|+.|+|||||.+.+..-.
T Consensus        30 ~Ge~~~iiG~nGsGKSTLl~~l~Gl~   55 (235)
T 3tif_A           30 EGEFVSIMGPSGSGKSTMLNIIGCLD   55 (235)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            44689999999999999999987654

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=94.30  E-value=0.03  Score=53.37  Aligned_cols=25  Identities=36%  Similarity=0.436  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+++|+|..|+||||+++.++...
T Consensus       157 g~vi~lvG~nGsGKTTll~~Lag~l  181 (359)
T 2og2_A          157 PAVIMIVGVNGGGKTTSLGKLAHRL  181 (359)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCChHHHHHHHHHhhc
Confidence            4699999999999999999998876

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=94.30  E-value=0.02  Score=50.76  Aligned_cols=25  Identities=36%  Similarity=0.404  Sum_probs=21.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.+++|+|..|+|||||.+.++.-.
T Consensus        30 Ge~~~iiG~nGsGKSTLl~~l~Gl~   54 (224)
T 2pcj_A           30 GEFVSIIGASGSGKSTLLYILGLLD   54 (224)
T ss_dssp             TCEEEEEECTTSCHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3689999999999999999987654

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=94.27  E-value=0.02  Score=50.14  Aligned_cols=23  Identities=26%  Similarity=0.186  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      .+++|+|..|+|||||.+.+...
T Consensus        23 e~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           23 TIVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             SEEEEECCTTSSTTHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            58999999999999999998764

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=94.26  E-value=0.026  Score=53.07  Aligned_cols=26  Identities=27%  Similarity=0.520  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..++|.|+|+.|+||||||..++...
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            34689999999999999999999876

>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=94.26  E-value=0.032  Score=50.28  Aligned_cols=26  Identities=27%  Similarity=0.379  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...++.++|.||+||||++..+....
T Consensus        13 ~~~i~~~~GkgGvGKTTl~~~La~~l   38 (262)
T 1yrb_A           13 ASMIVVFVGTAGSGKTTLTGEFGRYL   38 (262)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHH
Confidence            45788999999999999999998654

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=94.24  E-value=0.03  Score=52.13  Aligned_cols=25  Identities=24%  Similarity=0.438  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++|.|+|+.|+||||||..++...
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            3689999999999999999998866

>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain, PIN-tower interface, coupling hydrolysis to DNA unwinding, ssDNA; 3.30A {Enterobacteria phage T4}

Probab=94.21  E-value=0.061  Score=53.10  Aligned_cols=37  Identities=19%  Similarity=0.311  Sum_probs=29.1

Q ss_pred             HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          105 RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       105 ~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+..+.+.+.+.. ..+.|.|.+|+||||++..+....
T Consensus        33 av~~~~~~i~~~~-~~~li~G~aGTGKT~ll~~~~~~l   69 (459)
T 3upu_A           33 AFNIVMKAIKEKK-HHVTINGPAGTGATTLTKFIIEAL   69 (459)
T ss_dssp             HHHHHHHHHHSSS-CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCC-CEEEEEeCCCCCHHHHHHHHHHHH
Confidence            5555555665433 389999999999999999998877

>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=94.21  E-value=0.024  Score=55.29  Aligned_cols=26  Identities=15%  Similarity=0.212  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+|.|+|++|+||||+|+.+....
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            46799999999999999999998765

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=94.20  E-value=0.034  Score=49.49  Aligned_cols=26  Identities=27%  Similarity=0.383  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+|+|+|+.|+||||+++.+....
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            45689999999999999999999866

>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=94.16  E-value=0.037  Score=49.18  Aligned_cols=26  Identities=23%  Similarity=0.391  Sum_probs=23.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ....|+|.|+.|+||||+++.+.+..
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~~l   50 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYHRL   50 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHH
Confidence            44789999999999999999999987

>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=94.12  E-value=0.024  Score=50.80  Aligned_cols=26  Identities=23%  Similarity=0.336  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|..|+|||||.+.+..-.
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            34689999999999999999987654

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=94.10  E-value=0.036  Score=52.01  Aligned_cols=26  Identities=35%  Similarity=0.491  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+|+|+|.+|+||||++..++...
T Consensus       104 ~~~vI~ivG~~G~GKTT~~~~LA~~l  129 (320)
T 1zu4_A          104 RLNIFMLVGVNGTGKTTSLAKMANYY  129 (320)
T ss_dssp             SCEEEEEESSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            35799999999999999999998776

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=94.09  E-value=0.029  Score=57.57  Aligned_cols=43  Identities=14%  Similarity=0.211  Sum_probs=36.4

Q ss_pred             CCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +.++|.+ .++.+...+...  ..+.|+|.+|+||||||+.++...
T Consensus        41 ~~i~G~~~~l~~l~~~i~~g--~~vll~Gp~GtGKTtlar~ia~~l   84 (604)
T 3k1j_A           41 DQVIGQEHAVEVIKTAANQK--RHVLLIGEPGTGKSMLGQAMAELL   84 (604)
T ss_dssp             HHCCSCHHHHHHHHHHHHTT--CCEEEECCTTSSHHHHHHHHHHTS
T ss_pred             ceEECchhhHhhccccccCC--CEEEEEeCCCCCHHHHHHHHhccC
Confidence            5678999 887777777654  588999999999999999999876

>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=94.05  E-value=0.029  Score=50.61  Aligned_cols=24  Identities=29%  Similarity=0.228  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      -.+++|+|..|+|||||.+.++.-
T Consensus        29 Ge~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           29 GEVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            368999999999999999999874

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=94.05  E-value=0.034  Score=49.62  Aligned_cols=25  Identities=28%  Similarity=0.478  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...|+|.|..|+||||+++.+.+..
T Consensus         2 ~~~i~~~G~~g~GKtt~~~~l~~~l   26 (241)
T 2ocp_A            2 PRRLSIEGNIAVGKSTFVKLLTKTY   26 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHC
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHc
Confidence            4689999999999999999999876

>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=94.04  E-value=0.031  Score=54.61  Aligned_cols=24  Identities=13%  Similarity=0.110  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..++|.|..|+|||+|+.++.+..
T Consensus       152 Qr~~Ifgg~G~GKt~L~~~Ia~~~  175 (465)
T 3vr4_D          152 QKLPVFSGSGLPHKELAAQIARQA  175 (465)
T ss_dssp             CBCCEEECTTSCHHHHHHHHHHHC
T ss_pred             CEEEEeCCCCcChHHHHHHHHHHH
Confidence            457899999999999999999887

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=94.01  E-value=0.033  Score=48.23  Aligned_cols=41  Identities=20%  Similarity=0.159  Sum_probs=21.6

Q ss_pred             chH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          102 DVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       102 Gr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      |++ -.+.+.++....+.--|+|+|.+|+|||||...+.+..
T Consensus        13 ~~~~~~~~m~~~~~~~~~~ki~vvG~~~~GKSsLi~~l~~~~   54 (204)
T 4gzl_A           13 GLVPRGSHMENLYFQGQAIKCVVVGDGAVGKTCLLISYTTNA   54 (204)
T ss_dssp             -----------------CEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             CcccchhHHHhHhhcCCeEEEEEECcCCCCHHHHHHHHHhCC
Confidence            344 44454454444555678999999999999998887654

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=94.00  E-value=0.025  Score=51.46  Aligned_cols=26  Identities=31%  Similarity=0.303  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|..|+|||||.+.+..-.
T Consensus        31 ~Ge~~~liG~nGsGKSTLlk~l~Gl~   56 (262)
T 1b0u_A           31 AGDVISIIGSSGSGKSTFLRCINFLE   56 (262)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            44689999999999999999987654

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=93.98  E-value=0.029  Score=51.47  Aligned_cols=25  Identities=28%  Similarity=0.434  Sum_probs=22.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.+++|+|+.|+|||||.+.+..-.
T Consensus        34 Ge~~~iiGpnGsGKSTLl~~l~Gl~   58 (275)
T 3gfo_A           34 GEVTAILGGNGVGKSTLFQNFNGIL   58 (275)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHcCC
Confidence            4689999999999999999987654

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=93.92  E-value=0.027  Score=50.51  Aligned_cols=25  Identities=32%  Similarity=0.357  Sum_probs=22.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.+++|+|..|+|||||.+.++.-.
T Consensus        32 Ge~~~l~G~nGsGKSTLl~~l~Gl~   56 (240)
T 1ji0_A           32 GQIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3689999999999999999988654

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=93.92  E-value=0.053  Score=54.05  Aligned_cols=26  Identities=27%  Similarity=0.336  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+|+|+|.+|+||||++..++...
T Consensus       100 ~~~vI~ivG~~GvGKTTl~~kLA~~l  125 (504)
T 2j37_W          100 KQNVIMFVGLQGSGKTTTCSKLAYYY  125 (504)
T ss_dssp             --EEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            35699999999999999999998665

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=93.91  E-value=0.085  Score=46.81  Aligned_cols=26  Identities=27%  Similarity=0.275  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ....++|.|++|+||||+|+.+.+..
T Consensus         7 ~~~~~~~~G~pGsGKsT~a~~L~~~~   32 (230)
T 3gmt_A            7 HHMRLILLGAPGAGKGTQANFIKEKF   32 (230)
T ss_dssp             --CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cccceeeECCCCCCHHHHHHHHHHHh
Confidence            34578999999999999999999887

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=93.91  E-value=0.032  Score=50.92  Aligned_cols=26  Identities=23%  Similarity=0.303  Sum_probs=22.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      ..-.+++|+|..|+|||||.+.++.-
T Consensus        44 ~~Ge~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           44 HPGEVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHTC
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            34468999999999999999999875

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=93.91  E-value=0.027  Score=51.40  Aligned_cols=26  Identities=31%  Similarity=0.383  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|..|+|||||.+.+..-.
T Consensus        36 ~Ge~~~liG~nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           36 SGEMVAIIGPNGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             TTCEEEEECCTTSCHHHHHHHHTSSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            34689999999999999999998655

>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=93.91  E-value=0.037  Score=51.42  Aligned_cols=26  Identities=35%  Similarity=0.396  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..++|.|+|+.|+||||||..++...
T Consensus         9 ~~~~i~i~GptgsGKt~la~~La~~~   34 (316)
T 3foz_A            9 LPKAIFLMGPTASGKTALAIELRKIL   34 (316)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CCcEEEEECCCccCHHHHHHHHHHhC
Confidence            34689999999999999999999876

>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=93.90  E-value=0.027  Score=50.06  Aligned_cols=25  Identities=24%  Similarity=0.432  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.+++|+|..|+|||||.+.++.-.
T Consensus        34 Ge~~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           34 GQLLAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4689999999999999999987655

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=93.90  E-value=0.029  Score=50.43  Aligned_cols=26  Identities=31%  Similarity=0.416  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|..|+|||||.+.++.-.
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (243)
T 1mv5_A           27 PNSIIAFAGPSGGGKSTIFSLLERFY   52 (243)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            44689999999999999999988655

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=93.89  E-value=0.035  Score=47.51  Aligned_cols=25  Identities=28%  Similarity=0.380  Sum_probs=22.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...|+|+|..|+|||||.+.+....
T Consensus        29 ~~kv~lvG~~g~GKSTLl~~l~~~~   53 (191)
T 1oix_A           29 LFKVVLIGDSGVGKSNLLSRFTRNE   53 (191)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcCC
Confidence            4578999999999999999988754

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=93.88  E-value=0.027  Score=51.02  Aligned_cols=25  Identities=20%  Similarity=0.248  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.+++|+|..|+|||||.+.++.-.
T Consensus        33 Ge~~~liG~nGsGKSTLlk~l~Gl~   57 (257)
T 1g6h_A           33 GDVTLIIGPNGSGKSTLINVITGFL   57 (257)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3689999999999999999987654

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=93.84  E-value=0.025  Score=49.81  Aligned_cols=25  Identities=32%  Similarity=0.558  Sum_probs=21.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.+++|+|..|+|||||.+.++.-.
T Consensus        35 Ge~~~iiG~NGsGKSTLlk~l~Gl~   59 (214)
T 1sgw_A           35 GNVVNFHGPNGIGKTTLLKTISTYL   59 (214)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3589999999999999999987654

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=93.83  E-value=0.028  Score=51.14  Aligned_cols=27  Identities=30%  Similarity=0.288  Sum_probs=23.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-.+++|+|..|+|||||.+.+..-.
T Consensus        48 ~~Gei~~liG~NGsGKSTLlk~l~Gl~   74 (263)
T 2olj_A           48 REGEVVVVIGPSGSGKSTFLRCLNLLE   74 (263)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEEcCCCCcHHHHHHHHHcCC
Confidence            344689999999999999999987654

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=93.81  E-value=0.04  Score=45.14  Aligned_cols=24  Identities=29%  Similarity=0.437  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +-|+++|.+|+|||||...+.+..
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~   25 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKKR   25 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            568999999999999999988654

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=93.80  E-value=0.029  Score=50.52  Aligned_cols=25  Identities=28%  Similarity=0.349  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.+++|+|..|+|||||.+.+..-.
T Consensus        35 Ge~~~i~G~nGsGKSTLl~~l~Gl~   59 (247)
T 2ff7_A           35 GEVIGIVGRSGSGKSTLTKLIQRFY   59 (247)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3689999999999999999987655

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=93.77  E-value=0.062  Score=48.78  Aligned_cols=27  Identities=19%  Similarity=0.303  Sum_probs=23.5

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-.+++|+|+.|+|||||.+.+....
T Consensus        23 ~~g~~v~i~Gp~GsGKSTll~~l~g~~   49 (261)
T 2eyu_A           23 RKMGLILVTGPTGSGKSTTIASMIDYI   49 (261)
T ss_dssp             CSSEEEEEECSTTCSHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCccHHHHHHHHHHhC
Confidence            445799999999999999999988765

>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=93.76  E-value=0.062  Score=54.28  Aligned_cols=45  Identities=22%  Similarity=0.373  Sum_probs=34.0

Q ss_pred             CCccchH-HHHHHHHHhh------cCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVE------DNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~------~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+++|.+ -...+.+.+.      +.....+.++|++|+||||||+.++...
T Consensus        81 ~di~G~~~vk~~i~~~~~l~~~~~~~~g~~vll~Gp~GtGKTtlar~ia~~l  132 (543)
T 3m6a_A           81 EEHHGLEKVKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAKSL  132 (543)
T ss_dssp             HHCSSCHHHHHHHHHHHHHHHHSSSCCSCEEEEESSSSSSHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHHHHhcccCCCCEEEEECCCCCCHHHHHHHHHHhc
Confidence            3467877 6666655441      1245689999999999999999999877

>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=93.73  E-value=0.035  Score=50.83  Aligned_cols=25  Identities=20%  Similarity=0.194  Sum_probs=22.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.++.|+|.+|+|||||+..+....
T Consensus        30 G~i~~i~G~~GsGKTtl~~~l~~~~   54 (279)
T 1nlf_A           30 GTVGALVSPGGAGKSMLALQLAAQI   54 (279)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            3699999999999999999998755

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=93.71  E-value=0.031  Score=50.78  Aligned_cols=26  Identities=27%  Similarity=0.257  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|..|+|||||.+.+..-.
T Consensus        45 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   70 (260)
T 2ghi_A           45 SGTTCALVGHTGSGKSTIAKLLYRFY   70 (260)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccC
Confidence            34689999999999999999998755

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=93.70  E-value=0.042  Score=51.10  Aligned_cols=27  Identities=19%  Similarity=0.214  Sum_probs=23.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +.-.+++|+|+.|+|||||++.+..-.
T Consensus       124 ~~Ge~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          124 PKKNCLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             TTCSEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhhhc
Confidence            455799999999999999999998754

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=93.70  E-value=0.031  Score=50.66  Aligned_cols=26  Identities=31%  Similarity=0.273  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|..|+|||||.+.++.-.
T Consensus        40 ~Gei~~l~G~NGsGKSTLlk~l~Gl~   65 (256)
T 1vpl_A           40 EGEIFGLIGPNGAGKTTTLRIISTLI   65 (256)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            44689999999999999999987654

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=93.67  E-value=0.032  Score=51.07  Aligned_cols=27  Identities=22%  Similarity=0.294  Sum_probs=23.2

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-.+++|+|..|+|||||.+.++.-.
T Consensus        43 ~~Ge~~~i~G~nGsGKSTLlk~l~Gl~   69 (271)
T 2ixe_A           43 YPGKVTALVGPNGSGKSTVAALLQNLY   69 (271)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            344689999999999999999998755

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=93.66  E-value=0.076  Score=55.93  Aligned_cols=45  Identities=18%  Similarity=0.250  Sum_probs=36.8

Q ss_pred             CCccchH-HHHHHHHHhhc---------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVED---------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~---------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..++|.+ .++.+.+.+..         .....+.++|++|+|||++|+.+++..
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l  545 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESI  545 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             CcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            5688999 99888888842         112369999999999999999999876

>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=93.61  E-value=0.042  Score=50.66  Aligned_cols=26  Identities=19%  Similarity=0.308  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|.+|+|||||++.++...
T Consensus        34 ~G~~~~i~G~~G~GKTTl~~~ia~~~   59 (296)
T 1cr0_A           34 GGEVIMVTSGSGMGKSTFVRQQALQW   59 (296)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            44699999999999999999998776

>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=93.59  E-value=0.029  Score=49.78  Aligned_cols=25  Identities=28%  Similarity=0.288  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      .-.+|+|.|..|+|||||++.+...
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            4579999999999999999988764

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=93.57  E-value=0.041  Score=47.33  Aligned_cols=25  Identities=28%  Similarity=0.380  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...|+|+|..|+|||||.+.+....
T Consensus         5 ~~kv~lvG~~g~GKSTLl~~l~~~~   29 (199)
T 2f9l_A            5 LFKVVLIGDSGVGKSNLLSRFTRNE   29 (199)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcCC
Confidence            3568999999999999999998754

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=93.57  E-value=0.15  Score=50.05  Aligned_cols=46  Identities=11%  Similarity=0.028  Sum_probs=31.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH------HHHHHHHHH
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV------KRIQHVMGY  164 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv------~~l~~~i~~  164 (414)
                      .-.++.|.|.+|+||||||..++.... . ..=..++|+      ..+...++.
T Consensus       199 ~G~l~ii~G~pg~GKT~lal~ia~~~a-~-~~g~~vl~~slE~~~~~l~~R~~~  250 (444)
T 2q6t_A          199 PGSLNIIAARPAMGKTAFALTIAQNAA-L-KEGVGVGIYSLEMPAAQLTLRMMC  250 (444)
T ss_dssp             TTCEEEEEECTTSCHHHHHHHHHHHHH-H-TTCCCEEEEESSSCHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHH-H-hCCCeEEEEECCCCHHHHHHHHHH
Confidence            346899999999999999999988762 1 111245555      555555544

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=93.55  E-value=0.034  Score=50.16  Aligned_cols=25  Identities=32%  Similarity=0.345  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.+++|+|..|+|||||.+.++.-.
T Consensus        26 Ge~~~liG~NGsGKSTLlk~l~Gl~   50 (249)
T 2qi9_C           26 GEILHLVGPNGAGKSTLLARMAGMT   50 (249)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCC
Confidence            3589999999999999999988755

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=93.55  E-value=0.034  Score=50.69  Aligned_cols=26  Identities=23%  Similarity=0.231  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|..|+|||||.+.++.-.
T Consensus        32 ~Ge~~~liG~nGsGKSTLl~~i~Gl~   57 (266)
T 2yz2_A           32 EGECLLVAGNTGSGKSTLLQIVAGLI   57 (266)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            34689999999999999999987654

>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=93.53  E-value=0.05  Score=50.37  Aligned_cols=26  Identities=27%  Similarity=0.284  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+++|+|.+|+||||++..++...
T Consensus        97 ~~~~i~i~g~~G~GKTT~~~~la~~~  122 (295)
T 1ls1_A           97 DRNLWFLVGLQGSGKTTTAAKLALYY  122 (295)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            34699999999999999999998776

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=93.47  E-value=0.035  Score=50.97  Aligned_cols=26  Identities=38%  Similarity=0.263  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|..|+|||||.+.++.-.
T Consensus        46 ~Ge~~~liG~NGsGKSTLlk~l~Gl~   71 (279)
T 2ihy_A           46 KGDKWILYGLNGAGKTTLLNILNAYE   71 (279)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            34689999999999999999988655

>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=93.47  E-value=0.041  Score=45.03  Aligned_cols=23  Identities=22%  Similarity=0.384  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|+++|.+|+|||||...+....
T Consensus         5 ~i~v~G~~~~GKssl~~~l~~~~   27 (166)
T 2ce2_X            5 KLVVVGAGGVGKSALTIQLIQNH   27 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            58899999999999999987654

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=93.46  E-value=0.035  Score=50.19  Aligned_cols=25  Identities=32%  Similarity=0.279  Sum_probs=21.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.+++|+|..|+|||||.+.++.-.
T Consensus        31 Ge~~~l~G~nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           31 GDILAVLGQNGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             TCEEEEECCSSSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3589999999999999999987654

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=93.40  E-value=0.051  Score=45.14  Aligned_cols=23  Identities=30%  Similarity=0.439  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      ..|+|+|.+|+|||||...+...
T Consensus         4 ~~v~lvG~~gvGKStL~~~l~~~   26 (165)
T 2wji_A            4 YEIALIGNPNVGKSTIFNALTGE   26 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            56899999999999999998764

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=93.38  E-value=0.048  Score=49.37  Aligned_cols=24  Identities=29%  Similarity=0.458  Sum_probs=21.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++|+|.|-||+||||+|..++...
T Consensus         2 ~vI~vs~KGGvGKTT~a~nLA~~l   25 (269)
T 1cp2_A            2 RQVAIYGKGGIGKSTTTQNLTSGL   25 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             cEEEEecCCCCcHHHHHHHHHHHH
Confidence            578889999999999999988766

>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=93.37  E-value=0.042  Score=47.57  Aligned_cols=25  Identities=20%  Similarity=0.151  Sum_probs=22.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -+.|.|.|..|+||||||..+....
T Consensus        34 g~~ilI~GpsGsGKStLA~~La~~g   58 (205)
T 2qmh_A           34 GLGVLITGDSGVGKSETALELVQRG   58 (205)
T ss_dssp             TEEEEEECCCTTTTHHHHHHHHTTT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhC
Confidence            3678999999999999999998765

>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=93.37  E-value=0.051  Score=52.15  Aligned_cols=27  Identities=30%  Similarity=0.197  Sum_probs=23.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ....+++|+|++|+|||||++.+....
T Consensus       167 ~~~~~i~l~G~~GsGKSTl~~~l~~~~  193 (377)
T 1svm_A          167 PKKRYWLFKGPIDSGKTTLAAALLELC  193 (377)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            455799999999999999999999765

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=93.34  E-value=0.037  Score=54.20  Aligned_cols=25  Identities=32%  Similarity=0.393  Sum_probs=22.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+|+|+|.+|+||||++..++...
T Consensus        99 ~~vI~ivG~~GvGKTTla~~La~~l  123 (432)
T 2v3c_C           99 QNVILLVGIQGSGKTTTAAKLARYI  123 (432)
T ss_dssp             CCCEEEECCSSSSTTHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4699999999999999999988765

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=93.33  E-value=0.044  Score=51.34  Aligned_cols=26  Identities=31%  Similarity=0.404  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..++++|+|+.|+|||||.+.+....
T Consensus         3 ~i~v~~i~G~~GaGKTTll~~l~~~~   28 (318)
T 1nij_A            3 PIAVTLLTGFLGAGKTTLLRHILNEQ   28 (318)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHSC
T ss_pred             cccEEEEEecCCCCHHHHHHHHHhhc
Confidence            46899999999999999999998653

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=93.33  E-value=0.047  Score=47.78  Aligned_cols=24  Identities=25%  Similarity=0.365  Sum_probs=22.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+|+|+|+.|+||||+|+.+....
T Consensus         4 ~~i~i~G~~gsGkst~~~~l~~~~   27 (219)
T 2h92_A            4 INIALDGPAAAGKSTIAKRVASEL   27 (219)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhc
Confidence            479999999999999999998876

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=93.31  E-value=0.043  Score=46.54  Aligned_cols=22  Identities=41%  Similarity=0.460  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      -|+|+|.+|+|||||.+.+...
T Consensus         4 kv~ivG~~gvGKStLl~~l~~~   25 (184)
T 2zej_A            4 KLMIVGNTGSGKTTLLQQLMKT   25 (184)
T ss_dssp             EEEEESCTTSSHHHHHHHHTCC
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5889999999999999998764

>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=93.29  E-value=0.05  Score=44.81  Aligned_cols=25  Identities=16%  Similarity=0.297  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .--|+|+|.+|+|||||...+.+..
T Consensus         5 ~~~i~v~G~~~~GKssl~~~l~~~~   29 (168)
T 1z2a_A            5 AIKMVVVGNGAVGKSSMIQRYCKGI   29 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHCC
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcCC
Confidence            3468899999999999999988754

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=93.24  E-value=0.054  Score=48.06  Aligned_cols=25  Identities=20%  Similarity=0.134  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.++.|.|.+|+||||||..++...
T Consensus        23 G~~~~i~G~~GsGKTtl~~~~~~~~   47 (247)
T 2dr3_A           23 RNVVLLSGGPGTGKTIFSQQFLWNG   47 (247)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999998887655

>2afh_E Nitrogenase iron protein 1; nitrogen fixation, iron-sulfur, metal-binding, molybdenum, oxidoreductase; HET: HCA CFN CLF PGE PG4 P6G 1PE; 2.10A {Azotobacter vinelandii} SCOP: c.37.1.10 PDB: 1g1m_A 1g5p_A 1m1y_E* 1m34_E* 1n2c_E* 1nip_A* 1fp6_A* 2afi_E* 2afk_E* 2nip_A 1de0_A 1xcp_A* 1xdb_A 1xd8_A 1xd9_A* 1g20_E* 1g21_E* 2c8v_A* 1rw4_A

Probab=93.24  E-value=0.06  Score=49.44  Aligned_cols=25  Identities=28%  Similarity=0.372  Sum_probs=21.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++|+|.|-||+||||+|..++...
T Consensus         2 MkvIavs~KGGvGKTT~a~nLA~~L   26 (289)
T 2afh_E            2 MRQCAIYGKGGIGKSTTTQNLVAAL   26 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEeCCCcCcHHHHHHHHHHHH
Confidence            4688999999999999999988766

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=93.23  E-value=0.05  Score=49.70  Aligned_cols=23  Identities=43%  Similarity=0.446  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++|+|..|+|||||.+.++...
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            58999999999999999999866

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=93.23  E-value=0.054  Score=52.21  Aligned_cols=24  Identities=33%  Similarity=0.685  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++|+|.|+.|+||||||..++...
T Consensus         3 ~~i~i~GptgsGKttla~~La~~~   26 (409)
T 3eph_A            3 KVIVIAGTTGVGKSQLSIQLAQKF   26 (409)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             cEEEEECcchhhHHHHHHHHHHHC
Confidence            689999999999999999998775

>2axn_A 6-phosphofructo-2-kinase/fructose-2,6- biphosphatase 3 (6PF-2-K/FRU- 2,6-P2ASE brain/placenta-type...; bifunctional enzyme, EDTA complex; HET: F6P EDT ADP; 2.10A {Homo sapiens} PDB: 2dwo_A* 2dwp_A* 2i1v_B* 3qpu_A* 3qpv_A* 3qpw_A*

Probab=93.20  E-value=0.06  Score=54.05  Aligned_cols=26  Identities=27%  Similarity=0.399  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+|.++|++|+||||+|+.+....
T Consensus        34 ~~~lIvlvGlpGSGKSTia~~La~~L   59 (520)
T 2axn_A           34 SPTVIVMVGLPARGKTYISKKLTRYL   59 (520)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            44689999999999999999998765

>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=93.16  E-value=0.097  Score=52.19  Aligned_cols=38  Identities=13%  Similarity=0.039  Sum_probs=28.8

Q ss_pred             HHHHHHHHh--hcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          105 RLNEVWRLV--EDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       105 ~~~~l~~~L--~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.+.+.+..  ..++..+|.+.|+.|+||||+|+.+....
T Consensus       380 V~~vLr~~~~~~~~~~~~I~l~GlsGsGKSTIa~~La~~L  419 (511)
T 1g8f_A          380 VVKILRESNPPRPKQGFSIVLGNSLTVSREQLSIALLSTF  419 (511)
T ss_dssp             HHHHHHHHSCCGGGCCEEEEECTTCCSCHHHHHHHHHHHH
T ss_pred             hHHHHHHhcccccccceEEEecccCCCCHHHHHHHHHHHH
Confidence            434444444  22455789999999999999999999988

>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=93.15  E-value=0.029  Score=50.83  Aligned_cols=26  Identities=23%  Similarity=0.365  Sum_probs=23.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +...|+|.|..|+||||+|+.+.+..
T Consensus        23 ~~~~I~ieG~~GsGKST~~~~L~~~l   48 (263)
T 1p5z_B           23 RIKKISIEGNIAAGKSTFVNILKQLC   48 (263)
T ss_dssp             CCEEEEEECSTTSSHHHHHTTTGGGC
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHhc
Confidence            45799999999999999999998776

>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=93.15  E-value=0.049  Score=46.16  Aligned_cols=24  Identities=21%  Similarity=0.343  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      --|+++|.+|+|||||+..+....
T Consensus        22 ~ki~vvG~~~~GKSsli~~l~~~~   45 (190)
T 3con_A           22 YKLVVVGAGGVGKSALTIQLIQNH   45 (190)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            468899999999999999998654

>1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET: DNA; 3.45A {Enterobacteria phage T7} SCOP: c.37.1.11 e.13.1.2

Probab=93.14  E-value=0.15  Score=50.77  Aligned_cols=45  Identities=11%  Similarity=-0.046  Sum_probs=31.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH------HHHHHHHHH
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV------KRIQHVMGY  164 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv------~~l~~~i~~  164 (414)
                      -.++.|.|.+|+||||||..++.+..  ..+=..++|+      .++...++.
T Consensus       242 G~l~li~G~pG~GKT~lal~~a~~~a--~~~g~~vl~~s~E~s~~~l~~r~~~  292 (503)
T 1q57_A          242 GEVIMVTSGSGMVMSTFVRQQALQWG--TAMGKKVGLAMLEESVEETAEDLIG  292 (503)
T ss_dssp             TCEEEEEESSCHHHHHHHHHHHHHHT--TTSCCCEEEEESSSCHHHHHHHHHH
T ss_pred             CeEEEEeecCCCCchHHHHHHHHHHH--HhcCCcEEEEeccCCHHHHHHHHHH
Confidence            46899999999999999999988772  1212345565      555555543

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=93.13  E-value=0.092  Score=44.38  Aligned_cols=34  Identities=26%  Similarity=0.587  Sum_probs=26.0

Q ss_pred             HHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          108 EVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       108 ~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+.+ +......-|+|+|.+|+|||||...+.+..
T Consensus         7 ~~~~-~~~~~~~~i~v~G~~~~GKssl~~~l~~~~   40 (187)
T 1zj6_A            7 RIWR-LFNHQEHKVIIVGLDNAGKTTILYQFSMNE   40 (187)
T ss_dssp             HHHH-HHTTSCEEEEEEESTTSSHHHHHHHHHTTS
T ss_pred             HHHH-hcCCCccEEEEECCCCCCHHHHHHHHhcCC
Confidence            4445 334556789999999999999999988543

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=93.07  E-value=0.058  Score=45.56  Aligned_cols=23  Identities=30%  Similarity=0.439  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      ..|+++|.+|+|||||...+...
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            57899999999999999999864

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=93.06  E-value=0.064  Score=45.57  Aligned_cols=26  Identities=31%  Similarity=0.273  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ....|+|+|.+|+|||||...+....
T Consensus        47 ~~~~i~vvG~~g~GKSsll~~l~~~~   72 (193)
T 2ged_A           47 YQPSIIIAGPQNSGKTSLLTLLTTDS   72 (193)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34589999999999999999988754

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=93.04  E-value=0.062  Score=46.68  Aligned_cols=24  Identities=17%  Similarity=0.176  Sum_probs=22.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+|+|.|+.|+||||+|+.++...
T Consensus         7 ~iI~i~g~~GsGk~ti~~~la~~l   30 (201)
T 3fdi_A            7 IIIAIGREFGSGGHLVAKKLAEHY   30 (201)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHT
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHHh
Confidence            589999999999999999999988

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=93.03  E-value=0.046  Score=49.75  Aligned_cols=23  Identities=30%  Similarity=0.346  Sum_probs=20.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHH
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNK  140 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~  140 (414)
                      -.+++|+|..|+|||||.+.++.
T Consensus        30 Ge~~~i~G~NGsGKSTLlk~l~G   52 (263)
T 2pjz_A           30 GEKVIILGPNGSGKTTLLRAISG   52 (263)
T ss_dssp             SSEEEEECCTTSSHHHHHHHHTT
T ss_pred             CEEEEEECCCCCCHHHHHHHHhC
Confidence            45899999999999999998864

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=93.02  E-value=0.091  Score=60.39  Aligned_cols=81  Identities=15%  Similarity=0.090  Sum_probs=50.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH------HHHHHHHHHHhcCCCCcc---CcCCHhHHHHHHH
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV------KRIQHVMGYRLAMSNEVW---DDKTKQGRAIDSS  186 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv------~~l~~~i~~~l~~~~~~~---~~~~~~~~~~~l~  186 (414)
                      ...+.|.|+|++|+|||+||.++.....   ..=..++|+      ..+.   ++.++.+....   ...+.++....++
T Consensus      1425 ~~g~~vll~GppGtGKT~LA~ala~ea~---~~G~~v~Fi~~e~~~~~l~---a~~~G~dl~~l~v~~~~~~E~~l~~~~ 1498 (2050)
T 3cmu_A         1425 PMGRIVEIYGPESSGKTTLTLQVIAAAQ---REGKTCAFIDAEHALDPIY---ARKLGVDIDNLLCSQPDTGEQALEICD 1498 (2050)
T ss_dssp             ETTSEEEEECCTTSSHHHHHHHHHHHHH---TTTCCEEEECTTSCCCHHH---HHHTTCCTTTCEEECCSSHHHHHHHHH
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHHH---HcCCcEEEEEcccccCHHH---HHHcCCCchhceeecCChHHHHHHHHH
Confidence            3567999999999999999999987761   221223333      1222   55555332111   2233455666666


Q ss_pred             HHhC-CCcEEEEEecCC
Q 043070          187 RRLG-QRRFALLLDDLR  202 (414)
Q Consensus       187 ~~L~-~kr~LlVlDdv~  202 (414)
                      ...+ .+.-+||+|.+.
T Consensus      1499 ~lvr~~~~~lVVIDsi~ 1515 (2050)
T 3cmu_A         1499 ALARSGAVDVIVVDSVA 1515 (2050)
T ss_dssp             HHHHHTCCSEEEESCGG
T ss_pred             HHHhcCCCCEEEEcChh
Confidence            5543 577899999994

>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=93.00  E-value=0.055  Score=44.43  Aligned_cols=24  Identities=17%  Similarity=0.248  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-|+++|.+|+|||||...+.+..
T Consensus         5 ~~i~v~G~~~~GKssl~~~l~~~~   28 (168)
T 1u8z_A            5 HKVIMVGSGGVGKSALTLQFMYDE   28 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCc
Confidence            468899999999999999988654

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=92.98  E-value=0.067  Score=45.74  Aligned_cols=24  Identities=25%  Similarity=0.387  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++.|+|..|+||||++..++.+.
T Consensus         4 ~i~vi~G~~gsGKTT~ll~~~~~~   27 (184)
T 2orw_A            4 KLTVITGPMYSGKTTELLSFVEIY   27 (184)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHH
Confidence            578899999999999997776655

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii}

Probab=92.95  E-value=0.064  Score=50.90  Aligned_cols=32  Identities=25%  Similarity=0.403  Sum_probs=26.1

Q ss_pred             HHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          111 RLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       111 ~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+.+...+++.+.|.||+||||+|..++...
T Consensus        11 ~~l~~~~~~i~~~~gkGGvGKTt~a~~lA~~l   42 (348)
T 3io3_A           11 SIVQHDSLKWIFVGGKGGVGKTTTSSSVAVQL   42 (348)
T ss_dssp             HHHTCTTCSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHhcCCCcEEEEEeCCCCCcHHHHHHHHHHHH
Confidence            33445567899999999999999999888766

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=92.89  E-value=0.041  Score=51.20  Aligned_cols=27  Identities=30%  Similarity=0.336  Sum_probs=23.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-.+++|+|..|+|||||++.+..-.
T Consensus        78 ~~Ge~vaivG~sGsGKSTLl~ll~gl~  104 (306)
T 3nh6_A           78 MPGQTLALVGPSGAGKSTILRLLFRFY  104 (306)
T ss_dssp             CTTCEEEEESSSCHHHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCchHHHHHHHHHcCC
Confidence            445799999999999999999987655

>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=92.84  E-value=0.12  Score=54.32  Aligned_cols=45  Identities=16%  Similarity=0.207  Sum_probs=36.2

Q ss_pred             CCccchH-HHHHHHHHhhc---------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVED---------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~---------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..++|.+ .++.+...+..         .....+.++|.+|+|||++|+.+++..
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            5678998 88888887732         123478999999999999999999876

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=92.80  E-value=0.065  Score=44.04  Aligned_cols=23  Identities=17%  Similarity=0.332  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|+|+|.+|+|||||...+.+..
T Consensus         5 ki~v~G~~~~GKssli~~l~~~~   27 (167)
T 1c1y_A            5 KLVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            58899999999999999988654

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=92.79  E-value=0.069  Score=43.85  Aligned_cols=23  Identities=39%  Similarity=0.521  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|+|+|.+|+|||||...+.+..
T Consensus         2 ki~~~G~~~~GKssl~~~l~~~~   24 (164)
T 1r8s_A            2 RILMVGLDAAGKTTILYKLKLGE   24 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            37899999999999999987654

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=92.77  E-value=0.066  Score=43.89  Aligned_cols=24  Identities=17%  Similarity=0.234  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      --|+|+|.+|+|||||...+.+..
T Consensus         4 ~~i~v~G~~~~GKSsli~~l~~~~   27 (167)
T 1kao_A            4 YKVVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCC
Confidence            358999999999999998887654

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=92.76  E-value=0.073  Score=46.27  Aligned_cols=27  Identities=30%  Similarity=0.274  Sum_probs=23.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .....|.|+|.+|+|||||...+.+..
T Consensus        10 ~~~~~i~~~G~~g~GKTsl~~~l~~~~   36 (218)
T 1nrj_B           10 SYQPSIIIAGPQNSGKTSLLTLLTTDS   36 (218)
T ss_dssp             CCCCEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            345679999999999999999988754

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=92.75  E-value=0.062  Score=44.25  Aligned_cols=23  Identities=17%  Similarity=0.345  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|+++|.+|+|||||...+.+..
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~~   27 (170)
T 1ek0_A            5 KLVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            57899999999999999887654

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=92.73  E-value=0.062  Score=44.40  Aligned_cols=24  Identities=25%  Similarity=0.299  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      --|+|+|.+|+|||||...+.+..
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~~   30 (170)
T 1z08_A            7 FKVVLLGEGCVGKTSLVLRYCENK   30 (170)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHCC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            468999999999999999888654

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=92.72  E-value=0.092  Score=46.43  Aligned_cols=27  Identities=26%  Similarity=0.267  Sum_probs=24.2

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .....|.|.|..|+||||+++.+.+..
T Consensus        19 ~~~~~i~~~G~~g~GKst~~~~l~~~l   45 (223)
T 3ld9_A           19 PGSMFITFEGIDGSGKTTQSHLLAEYL   45 (223)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            456799999999999999999998877

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=92.72  E-value=0.073  Score=44.66  Aligned_cols=26  Identities=38%  Similarity=0.497  Sum_probs=21.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      .....|+|+|.+|+|||||...+...
T Consensus        16 ~~~~~i~v~G~~~~GKssli~~l~~~   41 (183)
T 1moz_A           16 NKELRILILGLDGAGKTTILYRLQIG   41 (183)
T ss_dssp             SSCEEEEEEEETTSSHHHHHHHTCCS
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcC
Confidence            45678899999999999999877643

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=92.71  E-value=0.073  Score=44.38  Aligned_cols=26  Identities=27%  Similarity=0.333  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +...|+|+|.+|+|||||...+.+..
T Consensus         7 ~~~~i~v~G~~~~GKssl~~~l~~~~   32 (178)
T 2lkc_A            7 RPPVVTIMGHVDHGKTTLLDAIRHSK   32 (178)
T ss_dssp             CCCEEEEESCTTTTHHHHHHHHHTTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            45678999999999999999987654

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=92.69  E-value=0.064  Score=44.25  Aligned_cols=24  Identities=21%  Similarity=0.555  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      --|+|+|.+|+|||||...+.+..
T Consensus         7 ~~i~v~G~~~~GKSsli~~l~~~~   30 (170)
T 1z0j_A            7 LKVCLLGDTGVGKSSIMWRFVEDS   30 (170)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            358999999999999999987654

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B*

Probab=92.69  E-value=0.062  Score=45.40  Aligned_cols=25  Identities=36%  Similarity=0.332  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-|+|+|.+|+|||||...+.+..
T Consensus         7 ~~ki~v~G~~~vGKSsli~~l~~~~   31 (184)
T 1m7b_A            7 KCKIVVVGDSQCGKTALLHVFAKDC   31 (184)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEEEECCCCCCHHHHHHHHhcCC
Confidence            3468899999999999999988754

>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=92.68  E-value=0.082  Score=46.40  Aligned_cols=25  Identities=24%  Similarity=0.259  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -..|+|.|+.|+||||+++.+.+..
T Consensus         6 g~~i~~eG~~gsGKsT~~~~l~~~l   30 (213)
T 4edh_A            6 GLFVTLEGPEGAGKSTNRDYLAERL   30 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHH
Confidence            3689999999999999999999887

>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=92.67  E-value=0.054  Score=50.02  Aligned_cols=27  Identities=22%  Similarity=0.409  Sum_probs=23.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-.+++|+|..|+|||||.+.+..-.
T Consensus        62 ~~Ge~~~i~G~NGsGKSTLlk~l~Gl~   88 (290)
T 2bbs_A           62 ERGQLLAVAGSTGAGKTSLLMMIMGEL   88 (290)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            344689999999999999999987654

>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=92.65  E-value=0.12  Score=48.66  Aligned_cols=38  Identities=11%  Similarity=0.334  Sum_probs=31.2

Q ss_pred             HHHHHHHHhhcCC-ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          105 RLNEVWRLVEDNS-VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       105 ~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+.+.+.+.+++ ...+.++|+.|+|||++|+.+++..
T Consensus        10 ~~~~l~~~i~~~~~~~a~L~~G~~G~GKt~~a~~la~~l   48 (334)
T 1a5t_A           10 DFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYL   48 (334)
T ss_dssp             HHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCcceeEEEECCCCchHHHHHHHHHHHH
Confidence            5667777776655 4579999999999999999999876

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=92.65  E-value=0.065  Score=44.49  Aligned_cols=25  Identities=28%  Similarity=0.276  Sum_probs=20.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-|+|+|.+|+|||||...+....
T Consensus         4 ~~ki~i~G~~~vGKSsl~~~l~~~~   28 (175)
T 2nzj_A            4 LYRVVLLGDPGVGKTSLASLFAGKQ   28 (175)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHCC-
T ss_pred             EEEEEEECCCCccHHHHHHHHhcCC
Confidence            3468999999999999999887544

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=92.65  E-value=0.062  Score=44.37  Aligned_cols=24  Identities=21%  Similarity=0.384  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      --|+|+|.+|+|||||...+.+..
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~~   27 (172)
T 2erx_A            4 YRVAVFGAGGVGKSSLVLRFVKGT   27 (172)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTCC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            358899999999999999987643

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=92.64  E-value=0.063  Score=51.04  Aligned_cols=26  Identities=38%  Similarity=0.323  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|+.|+|||||.+.++--.
T Consensus        29 ~Ge~~~llGpsGsGKSTLLr~iaGl~   54 (359)
T 3fvq_A           29 PGEILFIIGASGCGKTTLLRCLAGFE   54 (359)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCchHHHHHHHHhcCC
Confidence            34689999999999999999998643

>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=92.62  E-value=0.067  Score=50.81  Aligned_cols=27  Identities=26%  Similarity=0.191  Sum_probs=23.5

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-.++.|+|.+|+|||||+..++...
T Consensus       129 ~~G~i~~I~G~~GsGKTTL~~~l~~~~  155 (349)
T 1pzn_A          129 ETQAITEVFGEFGSGKTQLAHTLAVMV  155 (349)
T ss_dssp             ESSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            345799999999999999999998765

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=92.58  E-value=0.063  Score=45.02  Aligned_cols=24  Identities=25%  Similarity=0.361  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..|+|+|.+|+|||||...+....
T Consensus         5 ~ki~ivG~~g~GKStLl~~l~~~~   28 (172)
T 2gj8_A            5 MKVVIAGRPNAGKSSLLNALAGRE   28 (172)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            468999999999999999998653

>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=92.57  E-value=0.092  Score=50.97  Aligned_cols=26  Identities=23%  Similarity=0.354  Sum_probs=22.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      ....+++|+|..|+|||||.+.+...
T Consensus        67 ~~~~~valvG~nGaGKSTLln~L~Gl   92 (413)
T 1tq4_A           67 SSVLNVAVTGETGSGKSSFINTLRGI   92 (413)
T ss_dssp             HCCEEEEEEECTTSSHHHHHHHHHTC
T ss_pred             cCCeEEEEECCCCCcHHHHHHHHhCC
Confidence            34569999999999999999999873

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=92.56  E-value=0.072  Score=45.03  Aligned_cols=24  Identities=13%  Similarity=0.128  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+.+|+|..|+|||||+.+++--.
T Consensus        27 g~~~i~G~NGsGKStll~ai~~~l   50 (182)
T 3kta_A           27 GFTAIVGANGSGKSNIGDAILFVL   50 (182)
T ss_dssp             SEEEEEECTTSSHHHHHHHHHHHT
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHH
Confidence            488999999999999999987654

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=92.55  E-value=0.067  Score=44.66  Aligned_cols=26  Identities=23%  Similarity=0.307  Sum_probs=21.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...-|+|+|.+|+|||||...+.+..
T Consensus         7 ~~~~i~v~G~~~~GKSsli~~l~~~~   32 (182)
T 1ky3_A            7 NILKVIILGDSGVGKTSLMHRYVNDK   32 (182)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhCc
Confidence            34578999999999999999887654

>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=92.54  E-value=0.071  Score=50.89  Aligned_cols=25  Identities=24%  Similarity=0.441  Sum_probs=22.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...++|+|..|+|||||++.+....
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl~  194 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAVF  194 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHT
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999998876

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=92.53  E-value=0.067  Score=45.38  Aligned_cols=25  Identities=16%  Similarity=0.073  Sum_probs=21.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .--|+|+|.+|+|||||...+.+..
T Consensus        20 ~~ki~ivG~~~vGKSsL~~~~~~~~   44 (184)
T 3ihw_A           20 ELKVGIVGNLSSGKSALVHRYLTGT   44 (184)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHSS
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcCC
Confidence            3578999999999999998877654

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=92.53  E-value=0.068  Score=50.94  Aligned_cols=27  Identities=30%  Similarity=0.255  Sum_probs=22.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-.+++|+|+.|+|||||.+.+..-.
T Consensus        52 ~~Gei~~IiGpnGaGKSTLlr~i~GL~   78 (366)
T 3tui_C           52 PAGQIYGVIGASGAGKSTLIRCVNLLE   78 (366)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             cCCCEEEEEcCCCchHHHHHHHHhcCC
Confidence            344689999999999999999987543

>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=92.51  E-value=0.071  Score=45.33  Aligned_cols=25  Identities=28%  Similarity=0.494  Sum_probs=21.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      ....|+|+|.+|+|||||...+.+.
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            4568999999999999999998764

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=92.50  E-value=0.071  Score=44.02  Aligned_cols=22  Identities=32%  Similarity=0.320  Sum_probs=19.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHH
Q 043070          119 RIICLHGVSRLGKTTLLYNLNK  140 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~  140 (414)
                      --|+|+|.+|+|||||...+..
T Consensus         3 ~ki~ivG~~~~GKSsli~~l~~   24 (169)
T 3q85_A            3 FKVMLVGESGVGKSTLAGTFGG   24 (169)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHC
T ss_pred             EEEEEECCCCCCHHHHHHHHHh
Confidence            3589999999999999998864

>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=92.49  E-value=0.072  Score=45.16  Aligned_cols=24  Identities=33%  Similarity=0.173  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      --|+|+|.+|+|||||.+.+.+..
T Consensus        15 ~ki~vvG~~~~GKssL~~~l~~~~   38 (198)
T 3t1o_A           15 FKIVYYGPGLSGKTTNLKWIYSKV   38 (198)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHTS
T ss_pred             cEEEEECCCCCCHHHHHHHHHhhc
Confidence            468999999999999997766544

>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=92.49  E-value=0.066  Score=44.07  Aligned_cols=21  Identities=24%  Similarity=0.333  Sum_probs=18.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 043070          120 IICLHGVSRLGKTTLLYNLNK  140 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~  140 (414)
                      -|+|+|.+|+|||||...+.+
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            588999999999999988754

>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=92.47  E-value=0.12  Score=49.21  Aligned_cols=90  Identities=13%  Similarity=0.143  Sum_probs=48.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchH-hHHHHHHHHHHH-hc-CCCCccCcCCHhHHHHHHHHHhCCC
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVI-LVKRIQHVMGYR-LA-MSNEVWDDKTKQGRAIDSSRRLGQR  192 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~-wv~~l~~~i~~~-l~-~~~~~~~~~~~~~~~~~l~~~L~~k  192 (414)
                      ..-.+++|+|+.|+|||||.+.+........   ...+ .+.+-.+-.... .. ..... ...+.......|...|...
T Consensus       121 ~~~g~i~I~GptGSGKTTlL~~l~g~~~~~~---~~~i~t~ed~~e~~~~~~~~~v~q~~-~~~~~~~~~~~La~aL~~~  196 (356)
T 3jvv_A          121 VPRGLVLVTGPTGSGKSTTLAAMLDYLNNTK---YHHILTIEDPIEFVHESKKCLVNQRE-VHRDTLGFSEALRSALRED  196 (356)
T ss_dssp             CSSEEEEEECSTTSCHHHHHHHHHHHHHHHC---CCEEEEEESSCCSCCCCSSSEEEEEE-BTTTBSCHHHHHHHHTTSC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhcccCCC---CcEEEEccCcHHhhhhccccceeeee-eccccCCHHHHHHHHhhhC
Confidence            3445999999999999999999877652110   0111 000000000000 00 00000 0111234455788899999


Q ss_pred             cEEEEEecCCCccchhh
Q 043070          193 RFALLLDDLREPIDLKT  209 (414)
Q Consensus       193 r~LlVlDdv~~~~~~~~  209 (414)
                      +=+|++|.+.+.+.++.
T Consensus       197 PdvillDEp~d~e~~~~  213 (356)
T 3jvv_A          197 PDIILVGEMRDLETIRL  213 (356)
T ss_dssp             CSEEEESCCCSHHHHHH
T ss_pred             cCEEecCCCCCHHHHHH
Confidence            99999999986554443

>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=92.47  E-value=0.088  Score=56.26  Aligned_cols=44  Identities=18%  Similarity=0.254  Sum_probs=35.8

Q ss_pred             CccchH-HHHHHHHHhhc---------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           99 NTVDVS-RLNEVWRLVED---------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        99 ~~vGr~-~~~~l~~~L~~---------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++|.+ .++.+...+..         .....+.|+|.+|+|||++|+.+++..
T Consensus       559 ~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~  612 (854)
T 1qvr_A          559 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATL  612 (854)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHH
T ss_pred             ccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            468999 88888888732         123578999999999999999999876

>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=92.47  E-value=0.069  Score=44.56  Aligned_cols=25  Identities=16%  Similarity=0.349  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-|+|+|.+|+|||||...+.+..
T Consensus         9 ~~~i~v~G~~~~GKssli~~l~~~~   33 (181)
T 2fn4_A            9 THKLVVVGGGGVGKSALTIQFIQSY   33 (181)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCc
Confidence            4578999999999999999988754

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=92.47  E-value=0.07  Score=44.43  Aligned_cols=25  Identities=20%  Similarity=0.260  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-|+|+|.+|+|||||...+.+..
T Consensus         7 ~~~i~v~G~~~~GKSsli~~l~~~~   31 (177)
T 1wms_A            7 LFKVILLGDGGVGKSSLMNRYVTNK   31 (177)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcCC
Confidence            3468999999999999999987654

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=92.45  E-value=0.075  Score=44.31  Aligned_cols=24  Identities=25%  Similarity=0.224  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      --|+|+|.+|+|||||...+.+..
T Consensus         7 ~ki~v~G~~~~GKssl~~~l~~~~   30 (178)
T 2hxs_A            7 LKIVVLGDGASGKTSLTTCFAQET   30 (178)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHGGG
T ss_pred             EEEEEECcCCCCHHHHHHHHHhCc
Confidence            468999999999999999987654

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=92.44  E-value=0.081  Score=46.77  Aligned_cols=23  Identities=17%  Similarity=0.196  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .|.+.|.||+||||+|..++...
T Consensus         8 ~I~~~~kgGvGKTt~a~~la~~l   30 (228)
T 2r8r_A            8 KVFLGAAPGVGKTYAMLQAAHAQ   30 (228)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHHH
Confidence            47788999999999998888876

>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=92.42  E-value=0.071  Score=43.95  Aligned_cols=24  Identities=33%  Similarity=0.326  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      --|+|+|.+|+|||||...+....
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~~   27 (170)
T 1g16_A            4 MKILLIGDSGVGKSCLLVRFVEDK   27 (170)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHCC
T ss_pred             eEEEEECcCCCCHHHHHHHHHhCC
Confidence            468999999999999999987644

>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=92.41  E-value=0.13  Score=49.91  Aligned_cols=34  Identities=29%  Similarity=0.412  Sum_probs=26.7

Q ss_pred             HHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          108 EVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       108 ~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+.+.+ ...-.+++|+|+.|+|||||.+.+....
T Consensus       158 ~L~~l~-~~~ggii~I~GpnGSGKTTlL~allg~l  191 (418)
T 1p9r_A          158 NFRRLI-KRPHGIILVTGPTGSGKSTTLYAGLQEL  191 (418)
T ss_dssp             HHHHHH-TSSSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             HHHHHH-HhcCCeEEEECCCCCCHHHHHHHHHhhc
Confidence            344443 3455799999999999999999998866

>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=92.39  E-value=0.099  Score=44.08  Aligned_cols=26  Identities=38%  Similarity=0.451  Sum_probs=21.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      .....|+|+|.+|+|||||...+.+.
T Consensus        14 ~~~~ki~ivG~~~vGKSsL~~~l~~~   39 (181)
T 1fzq_A           14 DQEVRILLLGLDNAGKTTLLKQLASE   39 (181)
T ss_dssp             SSCEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhcC
Confidence            34567999999999999999888754

>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=92.38  E-value=0.069  Score=52.13  Aligned_cols=24  Identities=8%  Similarity=0.099  Sum_probs=21.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..++|.|..|+|||+|+.++.+..
T Consensus       148 Qr~~Ifgg~G~GKt~L~~~Ia~~~  171 (464)
T 3gqb_B          148 QKLPIFSGSGLPANEIAAQIARQA  171 (464)
T ss_dssp             CBCCEEEETTSCHHHHHHHHHHHC
T ss_pred             CEEEEecCCCCCchHHHHHHHHHH
Confidence            467899999999999999998877

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=92.38  E-value=0.073  Score=50.57  Aligned_cols=25  Identities=32%  Similarity=0.254  Sum_probs=21.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.+++|+|+.|+|||||.+.++--.
T Consensus        41 Ge~~~llGpnGsGKSTLLr~iaGl~   65 (355)
T 1z47_A           41 GEMVGLLGPSGSGKTTILRLIAGLE   65 (355)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCC
Confidence            3689999999999999999988543

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=92.37  E-value=0.089  Score=49.93  Aligned_cols=26  Identities=23%  Similarity=0.271  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+|+|+|.+|+|||||...+....
T Consensus        73 ~~~~v~lvG~pgaGKSTLln~L~~~~   98 (349)
T 2www_A           73 LAFRVGLSGPPGAGKSTFIEYFGKML   98 (349)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHHh
Confidence            36799999999999999999998653

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=92.37  E-value=0.087  Score=52.12  Aligned_cols=26  Identities=23%  Similarity=0.368  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+|.++|++|+||||+++.+.+..
T Consensus        38 ~~~~IvlvGlpGsGKSTia~~La~~l   63 (469)
T 1bif_A           38 CPTLIVMVGLPARGKTYISKKLTRYL   63 (469)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHH
Confidence            34689999999999999999998765

>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=92.37  E-value=0.15  Score=46.25  Aligned_cols=37  Identities=16%  Similarity=0.188  Sum_probs=28.1

Q ss_pred             HHHHHHHhhcC--CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          106 LNEVWRLVEDN--SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       106 ~~~l~~~L~~~--~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-+..||...  +..-|.++|++|.|||.+|..+++..
T Consensus        90 ~~~l~~~l~~~~~~~n~~~l~GppgtGKt~~a~ala~~~  128 (267)
T 1u0j_A           90 ASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             HHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             HHHHHHHHhCCCCCCcEEEEECCCCCCHHHHHHHHHhhh
Confidence            34455566442  34579999999999999999999864

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=92.37  E-value=0.12  Score=47.99  Aligned_cols=33  Identities=30%  Similarity=0.372  Sum_probs=25.8

Q ss_pred             HHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          106 LNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       106 ~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++++.+.+.   -.+++++|..|+|||||.+.+. ..
T Consensus       156 i~~L~~~l~---G~i~~l~G~sG~GKSTLln~l~-~~  188 (302)
T 2yv5_A          156 IDELVDYLE---GFICILAGPSGVGKSSILSRLT-GE  188 (302)
T ss_dssp             HHHHHHHTT---TCEEEEECSTTSSHHHHHHHHH-SC
T ss_pred             HHHHHhhcc---CcEEEEECCCCCCHHHHHHHHH-Hh
Confidence            445555553   2589999999999999999998 54

>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=92.36  E-value=0.08  Score=43.56  Aligned_cols=24  Identities=29%  Similarity=0.361  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      --|+|+|.+|+|||||...+.+..
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~~   30 (170)
T 1r2q_A            7 FKLVLLGESAVGKSSLVLRFVKGQ   30 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCC
Confidence            468999999999999999988644

>3ch4_B Pmkase, phosphomevalonate kinase; parallel beta-sheet with the strand order 23145, walker A motif, cholesterol biosynthesis, lipid synthesis; 1.76A {Homo sapiens}

Probab=92.35  E-value=0.11  Score=45.03  Aligned_cols=26  Identities=15%  Similarity=0.287  Sum_probs=22.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+|+|+|++|+||+|+|..+.+..
T Consensus        10 ~~~II~itGk~~SGKd~va~~l~~~~   35 (202)
T 3ch4_B           10 PRLVLLFSGKRKSGKDFVTEALQSRL   35 (202)
T ss_dssp             CSEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCChHHHHHHHHHHc
Confidence            45799999999999999999887755

>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=92.29  E-value=0.12  Score=58.48  Aligned_cols=82  Identities=15%  Similarity=0.099  Sum_probs=52.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH------HHHHHHHHHHhcCCCCcc---CcCCHhHHHHHHHH
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV------KRIQHVMGYRLAMSNEVW---DDKTKQGRAIDSSR  187 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv------~~l~~~i~~~l~~~~~~~---~~~~~~~~~~~l~~  187 (414)
                      .-.++.|.|.+|+||||||..++.... ...  ..++|+      ..+   .++.++......   ...+.+++...++.
T Consensus       731 ~G~lVlI~G~PG~GKTtLal~lA~~aa-~~g--~~VlyiS~Ees~~ql---~A~~lGvd~~~L~i~~~~~leei~~~l~~  804 (1706)
T 3cmw_A          731 MGRIVEIYGPESSGKTTLTLQVIAAAQ-REG--KTCAFIDAEHALDPI---YARKLGVDIDNLLCSQPDTGEQALEICDA  804 (1706)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHH-HTT--CCEEEECTTSCCCHH---HHHHTTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCcHHHHHHHHHHHH-HcC--CCeEEEeccchHHHH---HHHHcCCChhheEEecCCcHHHHHHHHHH
Confidence            346999999999999999999988762 111  234454      222   255555432211   23456677777765


Q ss_pred             HhC-CCcEEEEEecCCCc
Q 043070          188 RLG-QRRFALLLDDLREP  204 (414)
Q Consensus       188 ~L~-~kr~LlVlDdv~~~  204 (414)
                      ... .+.-+||+|.+...
T Consensus       805 lv~~~~~~lVVIDsLq~l  822 (1706)
T 3cmw_A          805 LARSGAVDVIVVDSVAAL  822 (1706)
T ss_dssp             HHHHTCCSEEEESCSTTC
T ss_pred             HHHccCCCEEEEechhhh
Confidence            543 46679999998653

>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=92.28  E-value=0.076  Score=45.11  Aligned_cols=25  Identities=20%  Similarity=0.177  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .--|+|+|.+|+|||||...+.+..
T Consensus        21 ~~ki~vvG~~~vGKTsLi~~l~~~~   45 (187)
T 3c5c_A           21 EVNLAILGRRGAGKSALTVKFLTKR   45 (187)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             eEEEEEECCCCCcHHHHHHHHHhCC
Confidence            3568999999999999998887654

>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=92.28  E-value=0.076  Score=44.70  Aligned_cols=24  Identities=21%  Similarity=0.344  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      --|+|+|.+|+|||||...+.+..
T Consensus         5 ~ki~v~G~~~~GKSsli~~l~~~~   28 (189)
T 4dsu_A            5 YKLVVVGADGVGKSALTIQLIQNH   28 (189)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCC
Confidence            358999999999999999998654

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=92.28  E-value=0.08  Score=44.80  Aligned_cols=26  Identities=27%  Similarity=0.325  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ....|+|+|.+|+|||||...+.+..
T Consensus        22 ~~~~i~v~G~~~~GKSsli~~l~~~~   47 (195)
T 3pqc_A           22 LKGEVAFVGRSNVGKSSLLNALFNRK   47 (195)
T ss_dssp             TTCEEEEEEBTTSSHHHHHHHHHTSC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHcCc
Confidence            34578999999999999999987654

>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=92.26  E-value=0.078  Score=44.13  Aligned_cols=25  Identities=24%  Similarity=0.276  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-|+|+|.+|+|||||...+.+..
T Consensus        15 ~~~i~v~G~~~~GKSsli~~l~~~~   39 (179)
T 1z0f_A           15 IFKYIIIGDMGVGKSCLLHQFTEKK   39 (179)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCC
Confidence            4578999999999999999988654

>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=92.26  E-value=0.12  Score=45.11  Aligned_cols=24  Identities=25%  Similarity=0.457  Sum_probs=22.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +.|+|-|..|+||||+++.+++..
T Consensus         3 kFI~~EG~dGsGKsTq~~~L~~~L   26 (205)
T 4hlc_A            3 AFITFEGPEGSGKTTVINEVYHRL   26 (205)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHH
Confidence            478999999999999999999887

>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=92.24  E-value=0.078  Score=44.53  Aligned_cols=25  Identities=20%  Similarity=0.305  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .--|+|+|.+|+|||||...+.+..
T Consensus        18 ~~ki~v~G~~~~GKSsl~~~l~~~~   42 (183)
T 3kkq_A           18 TYKLVVVGDGGVGKSALTIQFFQKI   42 (183)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCC
Confidence            3568999999999999999988654

>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=92.20  E-value=0.21  Score=49.21  Aligned_cols=34  Identities=15%  Similarity=0.013  Sum_probs=23.3

Q ss_pred             HHHHhhc-CCceEEEEEcCCCCcHHHHH-HHHHHhh
Q 043070          109 VWRLVED-NSVRIICLHGVSRLGKTTLL-YNLNKKF  142 (414)
Q Consensus       109 l~~~L~~-~~~~vi~I~G~gGiGKTtLA-~~v~~~~  142 (414)
                      .++.|.. ..-..++|.|..|+|||+|| ..+.|..
T Consensus       152 aID~l~PigrGQR~~Ifg~~g~GKT~l~l~~I~n~~  187 (513)
T 3oaa_A          152 AVDSMIPIGRGQRELIIGDRQTGKTALAIDAIINQR  187 (513)
T ss_dssp             HHHHHSCCBTTCBCEEEESSSSSHHHHHHHHHHTTS
T ss_pred             eeccccccccCCEEEeecCCCCCcchHHHHHHHhhc
Confidence            3444432 33357899999999999997 4566543

>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=92.17  E-value=0.083  Score=45.01  Aligned_cols=25  Identities=32%  Similarity=0.343  Sum_probs=20.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...|+|+|.+|+|||||...+.+..
T Consensus        23 ~~ki~~vG~~~vGKSsli~~l~~~~   47 (190)
T 1m2o_B           23 HGKLLFLGLDNAGKTTLLHMLKNDR   47 (190)
T ss_dssp             -CEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcCC
Confidence            3478999999999999999887644

>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport, alpha and beta proteins (A/B) TM0421, structural genomics, NPPSFA; 2.11A {Thermotoga maritima}

Probab=92.17  E-value=0.08  Score=50.39  Aligned_cols=26  Identities=35%  Similarity=0.382  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|+.|+|||||.+.++.-.
T Consensus        28 ~Ge~~~llGpnGsGKSTLLr~iaGl~   53 (359)
T 2yyz_A           28 DGEFVALLGPSGCGKTTTLLMLAGIY   53 (359)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEEcCCCchHHHHHHHHHCCC
Confidence            34689999999999999999998543

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=92.15  E-value=0.08  Score=50.76  Aligned_cols=26  Identities=27%  Similarity=0.247  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|+.|+|||||.+.+.--.
T Consensus        28 ~Ge~~~llGpsGsGKSTLLr~iaGl~   53 (381)
T 3rlf_A           28 EGEFVVFVGPSGCGKSTLLRMIAGLE   53 (381)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEEcCCCchHHHHHHHHHcCC
Confidence            34689999999999999999998643

>3lv8_A DTMP kinase, thymidylate kinase; structural genomics, in diseases, center for structural genomics of infectious DISE ATP-binding; HET: ADP TMP TYD; 1.80A {Vibrio cholerae o1 biovar eltor} PDB: 3n2i_A*

Probab=92.15  E-value=0.096  Score=46.74  Aligned_cols=25  Identities=20%  Similarity=0.425  Sum_probs=23.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...|.|.|+.|+||||+++.+.+..
T Consensus        27 ~~~i~~eG~~GsGKsT~~~~l~~~l   51 (236)
T 3lv8_A           27 AKFIVIEGLEGAGKSTAIQVVVETL   51 (236)
T ss_dssp             CCEEEEEESTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999999887

>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=92.12  E-value=0.1  Score=51.19  Aligned_cols=34  Identities=6%  Similarity=0.025  Sum_probs=25.9

Q ss_pred             HHHHhhc-CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          109 VWRLVED-NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       109 l~~~L~~-~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++.|.. ..-..++|.|..|+|||+|+.+++++.
T Consensus       142 ~ID~l~pigrGQr~~Ifgg~G~GKt~Ll~~Ia~~~  176 (469)
T 2c61_A          142 TIDGTNTLVRGQKLPIFSASGLPHNEIALQIARQA  176 (469)
T ss_dssp             HHHTTSCCBTTCBCCEEECTTSCHHHHHHHHHHHC
T ss_pred             eeeeeeccccCCEEEEECCCCCCHHHHHHHHHHHH
Confidence            3454533 233567889999999999999999987

>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=92.12  E-value=0.081  Score=44.51  Aligned_cols=25  Identities=24%  Similarity=0.220  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-|+|+|.+|+|||||...+.+..
T Consensus        10 ~~ki~v~G~~~~GKSsli~~l~~~~   34 (186)
T 2bme_A           10 LFKFLVIGNAGTGKSCLLHQFIEKK   34 (186)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCC
Confidence            3568999999999999999988654

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=92.12  E-value=0.069  Score=53.92  Aligned_cols=26  Identities=27%  Similarity=0.360  Sum_probs=23.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +-.+|+|+|+.|+|||||++.++...
T Consensus       368 ~G~iI~LiG~sGSGKSTLar~La~~L  393 (552)
T 3cr8_A          368 QGFTVFFTGLSGAGKSTLARALAARL  393 (552)
T ss_dssp             SCEEEEEEESSCHHHHHHHHHHHHHH
T ss_pred             cceEEEEECCCCChHHHHHHHHHHhh
Confidence            44789999999999999999999887

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=92.10  E-value=0.1  Score=59.99  Aligned_cols=81  Identities=15%  Similarity=0.105  Sum_probs=53.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH------HHHHHHHHHHhcCCCCcc---CcCCHhHHHHHHHH
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV------KRIQHVMGYRLAMSNEVW---DDKTKQGRAIDSSR  187 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv------~~l~~~i~~~l~~~~~~~---~~~~~~~~~~~l~~  187 (414)
                      .-.++.|.|.+|+||||||.+++....   ..=..++|+      ..+   .++.++......   ...+.+++.+.++.
T Consensus       382 ~G~lilI~G~pGsGKTtLaLqia~~~a---~~G~~vlyis~E~s~~~~---~a~~lGvd~~~L~I~~~~~~e~il~~~~~  455 (2050)
T 3cmu_A          382 MGRIVEIYGPESSGKTTLTLQVIAAAQ---REGKTCAFIDAEHALDPI---YARKLGVDIDNLLCSQPDTGEQALEICDA  455 (2050)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHHH---TTTCCEEEECTTSCCCHH---HHHHTTCCTTTCEEECCSSHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHH---hcCCeEEEEEcCCCHHHH---HHHHcCCCHHHeEEeCCCCHHHHHHHHHH
Confidence            457999999999999999999988772   222345566      222   255665543211   33566777777765


Q ss_pred             Hh-CCCcEEEEEecCCC
Q 043070          188 RL-GQRRFALLLDDLRE  203 (414)
Q Consensus       188 ~L-~~kr~LlVlDdv~~  203 (414)
                      .. +.+.-+||+|-+..
T Consensus       456 lv~~~~~~lIVIDSL~a  472 (2050)
T 3cmu_A          456 LARSGAVDVIVVDSVAA  472 (2050)
T ss_dssp             HHHHTCCSEEEESCGGG
T ss_pred             HHHhcCCcEEEECCHHH
Confidence            55 34667999998753

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=92.10  E-value=0.075  Score=47.16  Aligned_cols=25  Identities=28%  Similarity=0.418  Sum_probs=19.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -..|.|.|+.|+||||+++.+.+..
T Consensus        25 g~~I~~eG~~GsGKsT~~~~l~~~l   49 (227)
T 3v9p_A           25 GKFITFEGIDGAGKTTHLQWFCDRL   49 (227)
T ss_dssp             CCEEEEECCC---CHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999999877

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=92.08  E-value=0.098  Score=49.36  Aligned_cols=27  Identities=22%  Similarity=0.334  Sum_probs=23.5

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ....+++|+|.+|+|||||.+.+....
T Consensus        53 ~~g~~v~i~G~~GaGKSTLl~~l~g~~   79 (337)
T 2qm8_A           53 GRAIRVGITGVPGVGKSTTIDALGSLL   79 (337)
T ss_dssp             CCSEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHhh
Confidence            556899999999999999999998543

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=92.07  E-value=0.083  Score=50.35  Aligned_cols=26  Identities=35%  Similarity=0.540  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|+.|+|||||.+.++.-.
T Consensus        28 ~Ge~~~llGpnGsGKSTLLr~iaGl~   53 (362)
T 2it1_A           28 DGEFMALLGPSGSGKSTLLYTIAGIY   53 (362)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCchHHHHHHHHhcCC
Confidence            34689999999999999999988543

>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=92.04  E-value=0.13  Score=44.22  Aligned_cols=25  Identities=32%  Similarity=0.429  Sum_probs=20.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      +...|+|+|.+|+|||||...+.+.
T Consensus        24 ~~~ki~lvG~~~vGKSsLi~~l~~~   48 (198)
T 1f6b_A           24 KTGKLVFLGLDNAGKTTLLHMLKDD   48 (198)
T ss_dssp             CCEEEEEEEETTSSHHHHHHHHSCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcC
Confidence            3346899999999999999988643

>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=92.02  E-value=0.11  Score=52.88  Aligned_cols=26  Identities=23%  Similarity=0.224  Sum_probs=23.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+|.|.|++|+||||+|+.+.+..
T Consensus       395 ~~~~I~l~GlsGSGKSTiA~~La~~L  420 (573)
T 1m8p_A          395 QGFTIFLTGYMNSGKDAIARALQVTL  420 (573)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cceEEEeecCCCCCHHHHHHHHHHHh
Confidence            44789999999999999999999886

>3iqw_A Tail-anchored protein targeting factor GET3; ATPase, Zn binding, protein transport; HET: ANP; 3.00A {Chaetomium thermophilum} PDB: 3iqx_A* 3ibg_A*

Probab=92.02  E-value=0.1  Score=49.17  Aligned_cols=31  Identities=29%  Similarity=0.453  Sum_probs=25.5

Q ss_pred             HhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          112 LVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       112 ~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+.+...+++.+.|-||+||||+|..++...
T Consensus        10 ~l~~~~~~i~~~sgkGGvGKTt~a~~lA~~l   40 (334)
T 3iqw_A           10 ILDQRSLRWIFVGGKGGVGKTTTSCSLAIQL   40 (334)
T ss_dssp             HHHCTTCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HhcCCCeEEEEEeCCCCccHHHHHHHHHHHH
Confidence            3444556788899999999999999988776

>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=92.01  E-value=0.086  Score=44.22  Aligned_cols=24  Identities=25%  Similarity=0.260  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      --|+|+|.+|+|||||...+.+..
T Consensus         6 ~~i~~~G~~~~GKssl~~~l~~~~   29 (186)
T 1mh1_A            6 IKCVVVGDGAVGKTCLLISYTTNA   29 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCC
Confidence            358999999999999998887644

>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=92.00  E-value=0.085  Score=43.87  Aligned_cols=24  Identities=21%  Similarity=0.259  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      --|+|+|.+|+|||||...+....
T Consensus        15 ~~i~v~G~~~~GKssli~~l~~~~   38 (179)
T 2y8e_A           15 FKLVFLGEQSVGKTSLITRFMYDS   38 (179)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            468999999999999999987644

>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=92.00  E-value=0.092  Score=44.31  Aligned_cols=25  Identities=28%  Similarity=0.336  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-|+|+|.+|+|||||...+.+..
T Consensus        11 ~~ki~v~G~~~~GKSsli~~l~~~~   35 (195)
T 3bc1_A           11 LIKFLALGDSGVGKTSVLYQYTDGK   35 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCC
Confidence            3468999999999999999988644

>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=92.00  E-value=0.087  Score=44.18  Aligned_cols=25  Identities=16%  Similarity=0.262  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-|+|+|.+|+|||||...+.+..
T Consensus        18 ~~ki~v~G~~~~GKSsli~~l~~~~   42 (187)
T 2a9k_A           18 LHKVIMVGSGGVGKSALTLQFMYDE   42 (187)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHhhCC
Confidence            3568999999999999999988654

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=91.99  E-value=0.086  Score=50.47  Aligned_cols=24  Identities=33%  Similarity=0.264  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      -.+++|+|..|+|||||.+.++.-
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaGl   52 (372)
T 1g29_1           29 GEFMILLGPSGCGKTTTLRMIAGL   52 (372)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCcHHHHHHHHHHcC
Confidence            368999999999999999998754

>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active transport, sugar uptake and regulation, transport protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 1vci_A*

Probab=91.94  E-value=0.087  Score=50.39  Aligned_cols=26  Identities=31%  Similarity=0.218  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|+.|+|||||.+.++.-.
T Consensus        36 ~Ge~~~llGpnGsGKSTLLr~iaGl~   61 (372)
T 1v43_A           36 DGEFLVLLGPSGCGKTTTLRMIAGLE   61 (372)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcCC
Confidence            44689999999999999999998543

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=91.93  E-value=0.089  Score=43.99  Aligned_cols=25  Identities=24%  Similarity=0.211  Sum_probs=20.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .--|+|+|.+|+|||||...+.+..
T Consensus         8 ~~ki~v~G~~~~GKssl~~~~~~~~   32 (182)
T 3bwd_D            8 FIKCVTVGDGAVGKTCLLISYTSNT   32 (182)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCC
Confidence            3468899999999999998887643

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=91.93  E-value=0.051  Score=55.54  Aligned_cols=45  Identities=9%  Similarity=-0.031  Sum_probs=33.3

Q ss_pred             CCccchH-HHHHHHHHhhcCCce-----------EEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVEDNSVR-----------IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~~~~~-----------vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +.++|.+ .+..+.-.|.....+           -|.++|.+|+|||+||+.+++..
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            5678988 666655545433211           58899999999999999998765

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* 3sea_A*

Probab=91.92  E-value=0.088  Score=44.10  Aligned_cols=25  Identities=24%  Similarity=0.357  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...|+|+|.+|+|||||...+.+..
T Consensus         6 ~~ki~~~G~~~~GKSsli~~l~~~~   30 (181)
T 3t5g_A            6 SRKIAILGYRSVGKSSLTIQFVEGQ   30 (181)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSS
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcCC
Confidence            3578999999999999999988544

>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=91.92  E-value=0.11  Score=49.70  Aligned_cols=27  Identities=19%  Similarity=0.303  Sum_probs=23.5

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-.+++|+|..|+|||||.+.+....
T Consensus       134 ~~g~~i~ivG~~GsGKTTll~~l~~~~  160 (372)
T 2ewv_A          134 RKMGLILVTGPTGSGKSTTIASMIDYI  160 (372)
T ss_dssp             SSSEEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            445789999999999999999998765

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=91.92  E-value=0.066  Score=44.75  Aligned_cols=24  Identities=21%  Similarity=0.229  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      --|+++|.+|+|||||...+.+..
T Consensus         8 ~ki~~vG~~~vGKTsli~~l~~~~   31 (178)
T 2iwr_A            8 LRLGVLGDARSGKSSLIHRFLTGS   31 (178)
T ss_dssp             EEEEEECCGGGCHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCC
Confidence            458899999999999999988754

>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=91.91  E-value=0.097  Score=44.45  Aligned_cols=25  Identities=24%  Similarity=0.402  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .--|+|+|.+|+|||||...+.+..
T Consensus        23 ~~ki~v~G~~~~GKSsli~~l~~~~   47 (191)
T 3dz8_A           23 MFKLLIIGNSSVGKTSFLFRYADDT   47 (191)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             eeEEEEECCCCcCHHHHHHHHhcCC
Confidence            3468999999999999999988755

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=91.91  E-value=0.088  Score=43.98  Aligned_cols=24  Identities=25%  Similarity=0.314  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-|+|+|.+|+|||||...+....
T Consensus        13 ~ki~v~G~~~~GKSsli~~l~~~~   36 (181)
T 2efe_B           13 AKLVLLGDVGAGKSSLVLRFVKDQ   36 (181)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHCC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            468999999999999999887654

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8

Probab=91.89  E-value=0.078  Score=44.72  Aligned_cols=23  Identities=43%  Similarity=0.644  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|+|+|.+|+|||||...+.+..
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~~   25 (190)
T 2cxx_A            3 TIIFAGRSNVGKSTLIYRLTGKK   25 (190)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCcC
Confidence            57899999999999999887643

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*

Probab=91.89  E-value=0.12  Score=42.69  Aligned_cols=25  Identities=36%  Similarity=0.425  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...|+|+|.+|+|||||...+....
T Consensus         7 ~~~i~v~G~~~~GKssl~~~l~~~~   31 (171)
T 1upt_A            7 EMRILILGLDGAGKTTILYRLQVGE   31 (171)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcCC
Confidence            3568999999999999999987644

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=91.88  E-value=0.096  Score=44.48  Aligned_cols=25  Identities=36%  Similarity=0.428  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .--|+|+|.+|+|||||...+....
T Consensus        25 ~~ki~v~G~~~~GKSsLi~~l~~~~   49 (193)
T 2oil_A           25 VFKVVLIGESGVGKTNLLSRFTRNE   49 (193)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcCC
Confidence            3578999999999999999888754

>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=91.87  E-value=0.11  Score=49.13  Aligned_cols=27  Identities=19%  Similarity=0.267  Sum_probs=23.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+..+|+|+|.+|+|||||+..+....
T Consensus        54 ~~~~~i~i~G~~g~GKSTl~~~l~~~~   80 (341)
T 2p67_A           54 GNTLRLGVTGTPGAGKSTFLEAFGMLL   80 (341)
T ss_dssp             SCSEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHH
Confidence            567899999999999999999987654

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=91.86  E-value=0.09  Score=45.03  Aligned_cols=25  Identities=16%  Similarity=0.262  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-|+|+|.+|+|||||...+....
T Consensus        14 ~~ki~v~G~~~~GKSsli~~l~~~~   38 (206)
T 2bov_A           14 LHKVIMVGSGGVGKSALTLQFMYDE   38 (206)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhCC
Confidence            4578999999999999999887654

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=91.86  E-value=0.087  Score=43.91  Aligned_cols=26  Identities=23%  Similarity=0.345  Sum_probs=21.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...-|+|+|.+|+|||||...+....
T Consensus         8 ~~~~i~v~G~~~~GKssl~~~l~~~~   33 (181)
T 3tw8_B            8 HLFKLLIIGDSGVGKSSLLLRFADNT   33 (181)
T ss_dssp             EEEEEEEECCTTSCHHHHHHHHCSCC
T ss_pred             cceEEEEECCCCCCHHHHHHHHhcCC
Confidence            34578999999999999999886543

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens}

Probab=91.84  E-value=0.072  Score=45.70  Aligned_cols=24  Identities=29%  Similarity=0.342  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHH
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNK  140 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~  140 (414)
                      ....|+|+|.+|+|||||...+..
T Consensus        22 ~~~ki~vvG~~~vGKSsLi~~l~~   45 (195)
T 3cbq_A           22 GIFKVMLVGESGVGKSTLAGTFGG   45 (195)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHTCC
T ss_pred             cEEEEEEECCCCCCHHHHHHHHHh
Confidence            345789999999999999988753

>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=91.82  E-value=0.11  Score=53.09  Aligned_cols=26  Identities=31%  Similarity=0.359  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+|.|.|++|+||||+|+.+.+..
T Consensus        51 ~g~lIvLtGlsGSGKSTlAr~La~~L   76 (630)
T 1x6v_B           51 RGCTVWLTGLSGAGKTTVSMALEEYL   76 (630)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHH
Confidence            45789999999999999999998765

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A*

Probab=91.82  E-value=0.1  Score=44.57  Aligned_cols=24  Identities=25%  Similarity=0.232  Sum_probs=20.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      ..-|+|+|.+|+|||||...+...
T Consensus         6 ~~kv~lvG~~~vGKSsL~~~~~~~   29 (192)
T 2cjw_A            6 YYRVVLIGEQGVGKSTLANIFAGV   29 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            346899999999999999988754

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=91.78  E-value=0.095  Score=43.72  Aligned_cols=24  Identities=33%  Similarity=0.342  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      --|+|+|.+|+|||||...+.+..
T Consensus        11 ~~i~v~G~~~~GKssli~~l~~~~   34 (180)
T 2g6b_A           11 FKVMLVGDSGVGKTCLLVRFKDGA   34 (180)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHHhCC
Confidence            468999999999999999987654

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=91.77  E-value=0.093  Score=45.04  Aligned_cols=26  Identities=27%  Similarity=0.316  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...-|+|+|.+|+|||||...+.+..
T Consensus         7 ~~~ki~v~G~~~~GKSsli~~l~~~~   32 (207)
T 1vg8_A            7 VLLKVIILGDSGVGKTSLMNQYVNKK   32 (207)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcCC
Confidence            34578999999999999999987654

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=91.73  E-value=0.073  Score=50.46  Aligned_cols=26  Identities=23%  Similarity=0.180  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|+.|+|||||.+.++.-.
T Consensus        25 ~Ge~~~llGpnGsGKSTLLr~iaGl~   50 (348)
T 3d31_A           25 SGEYFVILGPTGAGKTLFLELIAGFH   50 (348)
T ss_dssp             TTCEEEEECCCTHHHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCccHHHHHHHHHcCC
Confidence            34689999999999999999998543

>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=91.72  E-value=0.11  Score=44.73  Aligned_cols=24  Identities=25%  Similarity=0.372  Sum_probs=20.8

Q ss_pred             eEEEEE-cCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLH-GVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~-G~gGiGKTtLA~~v~~~~  142 (414)
                      ++|+|+ +-||+||||+|..++...
T Consensus         2 ~vi~v~s~kgG~GKTt~a~~la~~l   26 (206)
T 4dzz_A            2 KVISFLNPKGGSGKTTAVINIATAL   26 (206)
T ss_dssp             EEEEECCSSTTSSHHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCccHHHHHHHHHHHH
Confidence            678888 678999999999988776

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=91.68  E-value=0.12  Score=44.07  Aligned_cols=27  Identities=19%  Similarity=0.304  Sum_probs=22.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ....-|+|+|.+|+|||||...+.+..
T Consensus        26 ~~~~ki~v~G~~~vGKSsli~~l~~~~   52 (196)
T 2atv_A           26 SAEVKLAIFGRAGVGKSALVVRFLTKR   52 (196)
T ss_dssp             -CCEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhCC
Confidence            344578999999999999999988754

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=91.65  E-value=0.078  Score=50.57  Aligned_cols=26  Identities=35%  Similarity=0.470  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-..++|+|..|+|||||++.+....
T Consensus       174 ~G~~i~ivG~sGsGKSTll~~l~~~~  199 (361)
T 2gza_A          174 LERVIVVAGETGSGKTTLMKALMQEI  199 (361)
T ss_dssp             TTCCEEEEESSSSCHHHHHHHHHTTS
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHhcC
Confidence            34689999999999999999998765

>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=91.64  E-value=0.096  Score=45.35  Aligned_cols=26  Identities=35%  Similarity=0.307  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...-|+|+|.+|+|||||...+....
T Consensus        27 ~~~ki~vvG~~~vGKSsLi~~l~~~~   52 (205)
T 1gwn_A           27 VKCKIVVVGDSQCGKTALLHVFAKDC   52 (205)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCC
Confidence            34578999999999999999988754

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=91.63  E-value=0.12  Score=45.32  Aligned_cols=24  Identities=25%  Similarity=0.367  Sum_probs=22.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..|.|.|..|+||||+++.+.+..
T Consensus         4 ~~i~~eG~~gsGKsT~~~~l~~~l   27 (213)
T 4tmk_A            4 KYIVIEGLEGAGKTTARNVVVETL   27 (213)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            589999999999999999999887

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=91.62  E-value=0.1  Score=44.72  Aligned_cols=26  Identities=23%  Similarity=0.275  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...-|+|+|.+|+|||||...+.+..
T Consensus        23 ~~~ki~vvG~~~~GKSsli~~l~~~~   48 (201)
T 3oes_A           23 RYRKVVILGYRCVGKTSLAHQFVEGE   48 (201)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             CcEEEEEECCCCcCHHHHHHHHHhCC
Confidence            44678999999999999999988755

>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics, nysgxrc T16, GTPase, PSI, protein structure initiative; 2.00A {Escherichia coli} SCOP: c.37.1.8

Probab=91.61  E-value=0.068  Score=46.14  Aligned_cols=25  Identities=24%  Similarity=0.348  Sum_probs=20.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHH
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNK  140 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~  140 (414)
                      .....|+|+|..|+|||||.+.+..
T Consensus        24 ~~~~~v~lvG~~g~GKSTLl~~l~g   48 (210)
T 1pui_A           24 DTGIEVAFAGRSNAGKSSALNTLTN   48 (210)
T ss_dssp             SCSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhC
Confidence            3446899999999999999987754

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B

Probab=91.60  E-value=0.17  Score=49.98  Aligned_cols=34  Identities=15%  Similarity=0.055  Sum_probs=23.9

Q ss_pred             HHHHhhc-CCceEEEEEcCCCCcHHHHHH-HHHHhh
Q 043070          109 VWRLVED-NSVRIICLHGVSRLGKTTLLY-NLNKKF  142 (414)
Q Consensus       109 l~~~L~~-~~~~vi~I~G~gGiGKTtLA~-~v~~~~  142 (414)
                      .++.|.. ..-..++|+|..|+|||+||. .+.+..
T Consensus       152 aID~l~PigrGQR~~Ifg~~g~GKT~Lal~~I~~~~  187 (502)
T 2qe7_A          152 AIDSMIPIGRGQRELIIGDRQTGKTTIAIDTIINQK  187 (502)
T ss_dssp             HHHHSSCCBTTCBCEEEECSSSCHHHHHHHHHHGGG
T ss_pred             ecccccccccCCEEEEECCCCCCchHHHHHHHHHhh
Confidence            3444533 334578999999999999965 666655

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=91.60  E-value=0.1  Score=44.41  Aligned_cols=25  Identities=28%  Similarity=0.385  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .--|+|+|.+|+|||||...+....
T Consensus         7 ~~ki~v~G~~~~GKSsli~~l~~~~   31 (208)
T 3clv_A            7 SYKTVLLGESSVGKSSIVLRLTKDT   31 (208)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCc
Confidence            4568999999999999999998764

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=91.56  E-value=0.11  Score=49.36  Aligned_cols=27  Identities=26%  Similarity=0.166  Sum_probs=24.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-.+++|+|..|+|||||.+.+.+..
T Consensus        69 ~~Gq~~gIiG~nGaGKTTLl~~I~g~~   95 (347)
T 2obl_A           69 GIGQRIGIFAGSGVGKSTLLGMICNGA   95 (347)
T ss_dssp             ETTCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            344699999999999999999999987

>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=91.55  E-value=0.099  Score=44.48  Aligned_cols=25  Identities=20%  Similarity=0.473  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .--|+|+|.+|+|||||...+.+..
T Consensus        23 ~~ki~vvG~~~~GKSsli~~l~~~~   47 (192)
T 2fg5_A           23 ELKVCLLGDTGVGKSSIVCRFVQDH   47 (192)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHCC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcCC
Confidence            3468999999999999999988654

>3hdt_A Putative kinase; structura genomics, PSI-2, protein structure initiative, midwest CENT structural genomics, MCSG; 2.79A {Clostridium symbiosum atcc 14940}

Probab=91.52  E-value=0.14  Score=45.21  Aligned_cols=26  Identities=15%  Similarity=0.097  Sum_probs=23.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+|+|.|+.|+||||+|+.++...
T Consensus        13 ~~~iI~i~g~~gsGk~~i~~~la~~l   38 (223)
T 3hdt_A           13 KNLIITIEREYGSGGRIVGKKLAEEL   38 (223)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCCHHHHHHHHHHHc
Confidence            34699999999999999999999987

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=91.52  E-value=0.1  Score=44.23  Aligned_cols=25  Identities=28%  Similarity=0.347  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-|+|+|.+|+|||||...+.+..
T Consensus        16 ~~ki~v~G~~~~GKSsli~~l~~~~   40 (196)
T 3tkl_A           16 LFKLLLIGDSGVGKSCLLLRFADDT   40 (196)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcCC
Confidence            3568999999999999999988754

>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=91.51  E-value=0.091  Score=46.67  Aligned_cols=23  Identities=30%  Similarity=0.375  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .|+|.|-||+||||+|..++...
T Consensus         2 kI~vs~kGGvGKTt~a~~LA~~l   24 (254)
T 3kjh_A            2 KLAVAGKGGVGKTTVAAGLIKIM   24 (254)
T ss_dssp             EEEEECSSSHHHHHHHHHHHHHH
T ss_pred             EEEEecCCCCCHHHHHHHHHHHH
Confidence            36779999999999999998877

>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=91.51  E-value=0.1  Score=45.17  Aligned_cols=26  Identities=31%  Similarity=0.333  Sum_probs=21.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ....|+|+|.+|+|||||...+.+..
T Consensus         6 ~~~ki~vvG~~~~GKTsli~~l~~~~   31 (214)
T 2fh5_B            6 SQRAVLFVGLCDSGKTLLFVRLLTGQ   31 (214)
T ss_dssp             --CEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34578999999999999999988654

>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=91.51  E-value=0.1  Score=44.33  Aligned_cols=25  Identities=32%  Similarity=0.341  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .--|+|+|.+|+|||||...+.+..
T Consensus        23 ~~ki~~vG~~~~GKSsl~~~l~~~~   47 (194)
T 3reg_A           23 ALKIVVVGDGAVGKTCLLLAFSKGE   47 (194)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eeEEEEECcCCCCHHHHHHHHhcCC
Confidence            3568999999999999999988754

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=91.49  E-value=0.12  Score=45.81  Aligned_cols=24  Identities=29%  Similarity=0.253  Sum_probs=20.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      -.++.|.|.+|+|||+||.+++.+
T Consensus        30 G~l~~i~G~pG~GKT~l~l~~~~~   53 (251)
T 2zts_A           30 GTTVLLTGGTGTGKTTFAAQFIYK   53 (251)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHH
Confidence            468999999999999999887544

>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=91.46  E-value=0.11  Score=44.84  Aligned_cols=25  Identities=28%  Similarity=0.396  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-|+|+|.+|+|||||...+.+..
T Consensus        26 ~~ki~lvG~~~vGKSsLi~~l~~~~   50 (201)
T 2ew1_A           26 LFKIVLIGNAGVGKTCLVRRFTQGL   50 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSS
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhCC
Confidence            4578999999999999999887654

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*

Probab=91.45  E-value=0.11  Score=43.91  Aligned_cols=25  Identities=24%  Similarity=0.223  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-|+|+|.+|+|||||...+.+..
T Consensus        22 ~~ki~v~G~~~~GKSsli~~l~~~~   46 (188)
T 1zd9_A           22 EMELTLVGLQYSGKTTFVNVIASGQ   46 (188)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ccEEEEECCCCCCHHHHHHHHHcCC
Confidence            3468999999999999999988654

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=91.43  E-value=0.13  Score=45.26  Aligned_cols=25  Identities=40%  Similarity=0.517  Sum_probs=23.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -..|.+-|+.|+||||+++.+.+..
T Consensus         5 g~~i~~eG~~g~GKst~~~~l~~~l   29 (216)
T 3tmk_A            5 GKLILIEGLDRTGKTTQCNILYKKL   29 (216)
T ss_dssp             CCEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999999988

>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=91.43  E-value=0.11  Score=44.15  Aligned_cols=25  Identities=20%  Similarity=0.324  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-|+|+|.+|+|||||...+....
T Consensus         8 ~~ki~vvG~~~~GKSsli~~l~~~~   32 (199)
T 2gf0_A            8 DYRVVVFGAGGVGKSSLVLRFVKGT   32 (199)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHSC
T ss_pred             eeEEEEECCCCCcHHHHHHHHHcCC
Confidence            4578999999999999999987644

>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=91.41  E-value=0.11  Score=44.01  Aligned_cols=25  Identities=28%  Similarity=0.410  Sum_probs=21.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-|+|+|.+|+|||||...+.+..
T Consensus        22 ~~ki~vvG~~~~GKSsli~~l~~~~   46 (189)
T 2gf9_A           22 MFKLLLIGNSSVGKTSFLFRYADDS   46 (189)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcCC
Confidence            3578999999999999999987654

>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=91.40  E-value=0.091  Score=48.73  Aligned_cols=22  Identities=36%  Similarity=0.455  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      -|+|+|..|+|||||.+.++..
T Consensus        20 ~I~lvG~nG~GKSTLl~~L~g~   41 (301)
T 2qnr_A           20 TLMVVGESGLGKSTLINSLFLT   41 (301)
T ss_dssp             EEEEEEETTSSHHHHHHHHHC-
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3599999999999999998754

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=91.37  E-value=0.067  Score=50.85  Aligned_cols=26  Identities=23%  Similarity=0.132  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|+.|+|||||.+.++--.
T Consensus        30 ~Ge~~~llGpnGsGKSTLLr~iaGl~   55 (353)
T 1oxx_K           30 NGERFGILGPSGAGKTTFMRIIAGLD   55 (353)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            34689999999999999999998543

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=91.36  E-value=0.11  Score=50.08  Aligned_cols=27  Identities=26%  Similarity=0.304  Sum_probs=22.8

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-.+++|+|+.|+|||||.+.+..-.
T Consensus        45 ~~Ge~~~llGpsGsGKSTLLr~iaGl~   71 (390)
T 3gd7_A           45 SPGQRVGLLGRTGSGKSTLLSAFLRLL   71 (390)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHHHHTCS
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhCCC
Confidence            344689999999999999999998643

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A*

Probab=91.34  E-value=0.099  Score=44.71  Aligned_cols=24  Identities=29%  Similarity=0.324  Sum_probs=19.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      ..-|.|+|.+|+|||||.+.+.+.
T Consensus        20 ~~ki~~vG~~~vGKTsLi~~l~~~   43 (196)
T 3llu_A           20 KPRILLMGLRRSGKSSIQKVVFHK   43 (196)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhc
Confidence            457899999999999998866553

>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=91.33  E-value=0.11  Score=44.06  Aligned_cols=24  Identities=25%  Similarity=0.307  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      --|+|+|.+|+|||||...+.+..
T Consensus        22 ~ki~v~G~~~~GKSsli~~l~~~~   45 (191)
T 2a5j_A           22 FKYIIIGDTGVGKSCLLLQFTDKR   45 (191)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCC
Confidence            468899999999999999887654

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A*

Probab=91.31  E-value=0.1  Score=44.45  Aligned_cols=25  Identities=36%  Similarity=0.515  Sum_probs=21.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHH
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNK  140 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~  140 (414)
                      ....-|+|+|.+|+|||||...+..
T Consensus        27 ~~~~ki~v~G~~~vGKSsLi~~l~~   51 (192)
T 2b6h_A           27 KKQMRILMVGLDAAGKTTILYKLKL   51 (192)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHCS
T ss_pred             CCccEEEEECCCCCCHHHHHHHHHh
Confidence            3446799999999999999998864

>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=91.27  E-value=0.11  Score=43.86  Aligned_cols=24  Identities=29%  Similarity=0.402  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-|+|+|.+|+|||||...+.+..
T Consensus        16 ~~i~v~G~~~~GKssli~~l~~~~   39 (195)
T 1x3s_A           16 LKILIIGESGVGKSSLLLRFTDDT   39 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            468999999999999999987654

>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=91.23  E-value=0.11  Score=44.51  Aligned_cols=24  Identities=29%  Similarity=0.405  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-|+|+|.+|+|||||...+.+..
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~~   32 (203)
T 1zbd_A            9 FKILIIGNSSVGKTSFLFRYADDS   32 (203)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTCC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCC
Confidence            468999999999999999887654

>2r9v_A ATP synthase subunit alpha; TM1612, structural genomics, JOI for structural genomics, JCSG, protein structure initiative ATP synthesis; HET: ATP PG4; 2.10A {Thermotoga maritima MSB8}

Probab=91.22  E-value=0.16  Score=50.30  Aligned_cols=35  Identities=11%  Similarity=0.047  Sum_probs=24.4

Q ss_pred             HHHHHhhc-CCceEEEEEcCCCCcHHHHHH-HHHHhh
Q 043070          108 EVWRLVED-NSVRIICLHGVSRLGKTTLLY-NLNKKF  142 (414)
Q Consensus       108 ~l~~~L~~-~~~~vi~I~G~gGiGKTtLA~-~v~~~~  142 (414)
                      +.++.|.. ..-..++|+|..|+|||+||. .+.+..
T Consensus       164 raID~l~PigrGQR~~I~g~~g~GKT~Lal~~I~~~~  200 (515)
T 2r9v_A          164 KAIDSMIPIGRGQRELIIGDRQTGKTAIAIDTIINQK  200 (515)
T ss_dssp             HHHHHHSCEETTCBEEEEEETTSSHHHHHHHHHHTTT
T ss_pred             cccccccccccCCEEEEEcCCCCCccHHHHHHHHHhh
Confidence            34455533 334578999999999999965 666654

>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=91.20  E-value=0.18  Score=46.71  Aligned_cols=34  Identities=26%  Similarity=0.486  Sum_probs=26.2

Q ss_pred             HHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          106 LNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       106 ~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++++.+.+.   -.+++|+|+.|+|||||.+.+....
T Consensus       160 v~~lf~~l~---geiv~l~G~sG~GKSTll~~l~g~~  193 (301)
T 1u0l_A          160 IEELKEYLK---GKISTMAGLSGVGKSSLLNAINPGL  193 (301)
T ss_dssp             HHHHHHHHS---SSEEEEECSTTSSHHHHHHHHSTTC
T ss_pred             HHHHHHHhc---CCeEEEECCCCCcHHHHHHHhcccc
Confidence            444555553   2589999999999999999998655

>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=91.20  E-value=0.12  Score=43.80  Aligned_cols=26  Identities=31%  Similarity=0.337  Sum_probs=21.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...-|+|+|.+|+|||||...+....
T Consensus        19 ~~~ki~v~G~~~~GKSsli~~l~~~~   44 (189)
T 1z06_A           19 RIFKIIVIGDSNVGKTCLTYRFCAGR   44 (189)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHcCC
Confidence            34578999999999999999987654

>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=91.19  E-value=0.12  Score=44.34  Aligned_cols=26  Identities=31%  Similarity=0.395  Sum_probs=21.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...-|+|+|.+|+|||||...+....
T Consensus        27 ~~~ki~v~G~~~~GKSsli~~l~~~~   52 (199)
T 2p5s_A           27 KAYKIVLAGDAAVGKSSFLMRLCKNE   52 (199)
T ss_dssp             -CEEEEEESSTTSSHHHHHHHHHHCC
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHhCC
Confidence            45678999999999999999987654

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=91.14  E-value=0.1  Score=51.38  Aligned_cols=27  Identities=26%  Similarity=0.155  Sum_probs=23.4

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-.+++|+|..|+|||||++.++.-.
T Consensus       136 ~~Ge~v~IvGpnGsGKSTLlr~L~Gl~  162 (460)
T 2npi_A          136 FEGPRVVIVGGSQTGKTSLSRTLCSYA  162 (460)
T ss_dssp             SSCCCEEEEESTTSSHHHHHHHHHHTT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCcc
Confidence            344789999999999999999998765

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=91.13  E-value=0.11  Score=44.54  Aligned_cols=25  Identities=24%  Similarity=0.194  Sum_probs=20.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-|+|+|.+|+|||||...+.+..
T Consensus        20 ~~ki~~~G~~~~GKssl~~~l~~~~   44 (201)
T 2q3h_A           20 GVKCVLVGDGAVGKTSLVVSYTTNG   44 (201)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHC--
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCC
Confidence            4568899999999999998887543

>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=90.99  E-value=0.12  Score=44.39  Aligned_cols=25  Identities=28%  Similarity=0.372  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-|+|+|.+|+|||||...+.+..
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~~   32 (206)
T 2bcg_Y            8 LFKLLLIGNSGVGKSCLLLRFSDDT   32 (206)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHCC
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCC
Confidence            3468999999999999999987654

>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=90.93  E-value=0.11  Score=44.57  Aligned_cols=26  Identities=19%  Similarity=0.161  Sum_probs=20.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..--|+|+|.+|+|||||...+.+..
T Consensus        24 ~~~ki~v~G~~~~GKSsLi~~l~~~~   49 (200)
T 2o52_A           24 FLFKFLVIGSAGTGKSCLLHQFIENK   49 (200)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHC--
T ss_pred             cceEEEEECcCCCCHHHHHHHHHhCC
Confidence            34578999999999999999887543

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=90.89  E-value=0.15  Score=44.39  Aligned_cols=23  Identities=30%  Similarity=0.286  Sum_probs=19.7

Q ss_pred             EEEEE-cCCCCcHHHHHHHHHHhh
Q 043070          120 IICLH-GVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~-G~gGiGKTtLA~~v~~~~  142 (414)
                      +|+|+ +-||+||||+|..++...
T Consensus         2 vI~v~s~KGGvGKTT~a~~LA~~l   25 (209)
T 3cwq_A            2 IITVASFKGGVGKTTTAVHLSAYL   25 (209)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCcHHHHHHHHHHHH
Confidence            56675 789999999999998877

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=90.88  E-value=0.14  Score=43.19  Aligned_cols=23  Identities=22%  Similarity=0.349  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      .-|.|.|.+|+||||||..+...
T Consensus        17 ~gvli~G~SGaGKStlal~L~~r   39 (181)
T 3tqf_A           17 MGVLITGEANIGKSELSLALIDR   39 (181)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHHT
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHc
Confidence            56889999999999999998875

>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=90.86  E-value=0.13  Score=43.70  Aligned_cols=24  Identities=25%  Similarity=0.264  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-|+|+|.+|+|||||...+.+..
T Consensus        19 ~ki~v~G~~~~GKssli~~l~~~~   42 (194)
T 2atx_A           19 LKCVVVGDGAVGKTCLLMSYANDA   42 (194)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCC
Confidence            478999999999999999988654

>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=90.85  E-value=0.087  Score=49.58  Aligned_cols=79  Identities=15%  Similarity=0.122  Sum_probs=45.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhHHHHHHHHHHHhcCC-CCcc-CcC--CHhHHHHHHHHHhCCCcE
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILVKRIQHVMGYRLAMS-NEVW-DDK--TKQGRAIDSSRRLGQRRF  194 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv~~l~~~i~~~l~~~-~~~~-~~~--~~~~~~~~l~~~L~~kr~  194 (414)
                      ..++|+|..|+|||||++.+.....   . -.+.+.+...     ..+... .... .-.  ........|...|..++-
T Consensus       172 ~~v~i~G~~GsGKTTll~~l~g~~~---~-~~g~i~i~~~-----~e~~~~~~~~~i~~~~ggg~~~r~~la~aL~~~p~  242 (330)
T 2pt7_A          172 KNVIVCGGTGSGKTTYIKSIMEFIP---K-EERIISIEDT-----EEIVFKHHKNYTQLFFGGNITSADCLKSCLRMRPD  242 (330)
T ss_dssp             CCEEEEESTTSCHHHHHHHGGGGSC---T-TSCEEEEESS-----CCCCCSSCSSEEEEECBTTBCHHHHHHHHTTSCCS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCc---C-CCcEEEECCe-----eccccccchhEEEEEeCCChhHHHHHHHHhhhCCC
Confidence            5899999999999999999987651   1 1222222000     000000 0000 000  123344567777888888


Q ss_pred             EEEEecCCCccc
Q 043070          195 ALLLDDLREPID  206 (414)
Q Consensus       195 LlVlDdv~~~~~  206 (414)
                      +|+||.+.+.+.
T Consensus       243 ilildE~~~~e~  254 (330)
T 2pt7_A          243 RIILGELRSSEA  254 (330)
T ss_dssp             EEEECCCCSTHH
T ss_pred             EEEEcCCChHHH
Confidence            899998876443

>1ega_A Protein (GTP-binding protein ERA); GTPase, RNA-binding, RAS-like, hydrolase; 2.40A {Escherichia coli} SCOP: c.37.1.8 d.52.3.1 PDB: 1x1l_X 3ieu_A* 1x18_X

Probab=90.82  E-value=0.14  Score=47.41  Aligned_cols=25  Identities=32%  Similarity=0.424  Sum_probs=21.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...|+|+|.+|+|||||...+....
T Consensus         8 ~~~VaIvG~~nvGKSTLln~L~g~~   32 (301)
T 1ega_A            8 CGFIAIVGRPNVGKSTLLNKLLGQK   32 (301)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHTCS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCC
Confidence            4589999999999999999998653

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=90.81  E-value=0.3  Score=49.25  Aligned_cols=27  Identities=22%  Similarity=0.235  Sum_probs=23.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +...+|.+.|++|+||||+|+.+....
T Consensus       370 ~~~~~I~l~G~~GsGKSTia~~La~~L  396 (546)
T 2gks_A          370 KQGFCVWLTGLPCAGKSTIAEILATML  396 (546)
T ss_dssp             GCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             ccceEEEccCCCCCCHHHHHHHHHHHh
Confidence            345789999999999999999998876

>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle, G-protein, prokaryote, GTP-BIND nucleotide-binding, metal transport; 2.70A {Pyrococcus furiosus}

Probab=90.81  E-value=0.14  Score=46.48  Aligned_cols=25  Identities=28%  Similarity=0.433  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...|+++|.+|+|||||...+....
T Consensus         3 ~~~i~lvG~~g~GKTTL~n~l~g~~   27 (271)
T 3k53_A            3 LKTVALVGNPNVGKTTIFNALTGLR   27 (271)
T ss_dssp             CEEEEEEECSSSSHHHHHHHHHTTC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCC
Confidence            3578999999999999999987654

>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=90.80  E-value=0.14  Score=44.19  Aligned_cols=25  Identities=28%  Similarity=0.305  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-|+|+|.+|+|||||...+....
T Consensus        25 ~~ki~vvG~~~~GKSsli~~l~~~~   49 (207)
T 2fv8_A           25 RKKLVVVGDGACGKTCLLIVFSKDE   49 (207)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSS
T ss_pred             CcEEEEECcCCCCHHHHHHHHhcCC
Confidence            3578999999999999998887654

>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria, structural genomics, structural genomics consortium, SGC, unknown function; HET: GDP; 2.01A {Plasmodium falciparum}

Probab=90.77  E-value=0.13  Score=45.13  Aligned_cols=26  Identities=19%  Similarity=0.404  Sum_probs=22.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ....|+|+|.+|+|||||...+....
T Consensus        28 ~~~kI~vvG~~~vGKSsLin~l~~~~   53 (228)
T 2qu8_A           28 HKKTIILSGAPNVGKSSFMNIVSRAN   53 (228)
T ss_dssp             TSEEEEEECSTTSSHHHHHHHHTTTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            44689999999999999999987653

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=90.75  E-value=0.15  Score=43.28  Aligned_cols=26  Identities=19%  Similarity=0.336  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ....|+|+|.+|+|||||...+.+..
T Consensus        16 ~~~ki~v~G~~~~GKSsl~~~l~~~~   41 (199)
T 4bas_A           16 TKLQVVMCGLDNSGKTTIINQVKPAQ   41 (199)
T ss_dssp             CEEEEEEECCTTSCHHHHHHHHSCCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            45689999999999999999887644

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens}

Probab=90.75  E-value=0.13  Score=44.15  Aligned_cols=25  Identities=20%  Similarity=0.284  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-|+|+|.+|+|||||...+.+..
T Consensus        29 ~~ki~vvG~~~vGKSsli~~l~~~~   53 (201)
T 2hup_A           29 LFKLVLVGDASVGKTCVVQRFKTGA   53 (201)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhhCC
Confidence            4578999999999999999887643

>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=90.72  E-value=0.12  Score=43.54  Aligned_cols=25  Identities=28%  Similarity=0.479  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-|+|+|.+|+|||||...+.+..
T Consensus        21 ~~~i~v~G~~~~GKSsli~~l~~~~   45 (181)
T 2h17_A           21 EHKVIIVGLDNAGKTTILYQFSMNE   45 (181)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHHTTS
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcCC
Confidence            3578999999999999999988654

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=90.71  E-value=0.13  Score=44.33  Aligned_cols=25  Identities=20%  Similarity=0.145  Sum_probs=21.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .--|+|+|.+|+|||||...+.+..
T Consensus         9 ~~ki~i~G~~~~GKTsli~~l~~~~   33 (212)
T 2j0v_A            9 FIKCVTVGDGAVGKTCMLICYTSNK   33 (212)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCC
Confidence            3468999999999999998887644

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens}

Probab=90.70  E-value=0.12  Score=44.97  Aligned_cols=25  Identities=28%  Similarity=0.266  Sum_probs=20.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .--|+|+|.+|+|||||...+.+..
T Consensus        34 ~~ki~vvG~~~vGKSsli~~l~~~~   58 (214)
T 2j1l_A           34 SVKVVLVGDGGCGKTSLLMVFADGA   58 (214)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHC--
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcCC
Confidence            3568999999999999999887543

>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=90.68  E-value=0.17  Score=42.59  Aligned_cols=27  Identities=26%  Similarity=0.324  Sum_probs=22.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ....-|+|+|.+|+|||||...+.+..
T Consensus        16 ~~~~~i~v~G~~~~GKssl~~~l~~~~   42 (186)
T 1ksh_A           16 ERELRLLMLGLDNAGKTTILKKFNGED   42 (186)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHTTCC
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHhcCC
Confidence            455678999999999999999887543

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8

Probab=90.67  E-value=0.14  Score=44.75  Aligned_cols=23  Identities=26%  Similarity=0.267  Sum_probs=19.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHH
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNK  140 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~  140 (414)
                      ..-|+|+|.+|+|||||...+..
T Consensus        37 ~~kVvlvG~~~vGKSSLl~r~~~   59 (211)
T 2g3y_A           37 YYRVVLIGEQGVGKSTLANIFAG   59 (211)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHh
Confidence            35689999999999999988764

>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=90.66  E-value=0.14  Score=44.15  Aligned_cols=25  Identities=32%  Similarity=0.355  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-|+|+|.+|+|||||...+....
T Consensus        20 ~~~i~v~G~~~~GKSsli~~l~~~~   44 (213)
T 3cph_A           20 IMKILLIGDSGVGKSCLLVRFVEDK   44 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHCC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCC
Confidence            4578999999999999999887644

>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=90.65  E-value=0.14  Score=48.59  Aligned_cols=24  Identities=38%  Similarity=0.410  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+++|+|.+|+|||||.+.+....
T Consensus       216 ~~~~lvG~sG~GKSTLln~L~g~~  239 (358)
T 2rcn_A          216 RISIFAGQSGVGKSSLLNALLGLQ  239 (358)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHCCS
T ss_pred             CEEEEECCCCccHHHHHHHHhccc
Confidence            589999999999999999988655

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ...

Probab=90.63  E-value=0.14  Score=43.94  Aligned_cols=24  Identities=29%  Similarity=0.378  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-|+|+|.+|+|||||...+....
T Consensus        26 ~ki~vvG~~~~GKSsli~~l~~~~   49 (201)
T 2gco_A           26 KKLVIVGDGACGKTCLLIVFSKDQ   49 (201)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCc
Confidence            468999999999999999887654

>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC, coiled coil, GTP- binding, nucleotide-binding, immune system; HET: GDP; 2.15A {Homo sapiens}

Probab=90.62  E-value=0.16  Score=44.98  Aligned_cols=26  Identities=23%  Similarity=0.132  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ....|+|+|.+|+|||||...+....
T Consensus        28 ~~~~i~lvG~~g~GKStlin~l~g~~   53 (239)
T 3lxx_A           28 SQLRIVLVGKTGAGKSATGNSILGRK   53 (239)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHTSC
T ss_pred             CceEEEEECCCCCCHHHHHHHHcCCC
Confidence            45689999999999999999988654

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A*

Probab=90.51  E-value=0.15  Score=44.45  Aligned_cols=25  Identities=32%  Similarity=0.316  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .--|+|+|.+|+|||||...+.+..
T Consensus        27 ~~ki~vvG~~~vGKSsL~~~l~~~~   51 (214)
T 3q3j_B           27 RCKLVLVGDVQCGKTAMLQVLAKDC   51 (214)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcCC
Confidence            3568899999999999999987654

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=90.48  E-value=0.086  Score=44.24  Aligned_cols=25  Identities=28%  Similarity=0.422  Sum_probs=10.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-|+|+|.+|+|||||...+.+..
T Consensus         8 ~~ki~v~G~~~~GKssl~~~l~~~~   32 (183)
T 2fu5_C            8 LFKLLLIGDSGVGKTCVLFRFSEDA   32 (183)
T ss_dssp             EEEEEEECCCCC-------------
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCC
Confidence            3468999999999999998877543

>2qag_A Septin-2, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=90.44  E-value=0.13  Score=48.98  Aligned_cols=44  Identities=30%  Similarity=0.278  Sum_probs=24.5

Q ss_pred             CCccchH-HHHHHHH-HhhcCCceEEEEEcCCCCcHHHHHHHHHHh
Q 043070           98 ENTVDVS-RLNEVWR-LVEDNSVRIICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~-~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      ...+|.+ --..... .+..+..--|+|+|..|+|||||...++..
T Consensus        15 ~~~v~~~~l~~~~~~k~~~~~~~~~I~vvG~~g~GKSTLln~L~~~   60 (361)
T 2qag_A           15 PGYVGFANLPNQVHRKSVKKGFEFTLMVVGESGLGKSTLINSLFLT   60 (361)
T ss_dssp             ------CCHHHHHHTHHHHHCCEECEEECCCTTSCHHHHHHHHTTC
T ss_pred             CceEEeccchHHhCCeeecCCCCEEEEEEcCCCCCHHHHHHHHhCC
Confidence            4567766 3333222 222333345799999999999999998653

>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=90.43  E-value=0.13  Score=50.03  Aligned_cols=21  Identities=38%  Similarity=0.450  Sum_probs=19.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHHh
Q 043070          121 ICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       121 i~I~G~gGiGKTtLA~~v~~~  141 (414)
                      ++|+|..|+|||||.+.++..
T Consensus        45 vaLvG~nGaGKSTLln~L~G~   65 (427)
T 2qag_B           45 ILCVGETGLGKSTLMDTLFNT   65 (427)
T ss_dssp             EEEECSTTSSSHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhCc
Confidence            999999999999999999764

>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=90.42  E-value=0.2  Score=47.93  Aligned_cols=27  Identities=7%  Similarity=0.174  Sum_probs=22.8

Q ss_pred             CCceEEEEEc-CCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHG-VSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G-~gGiGKTtLA~~v~~~~  142 (414)
                      .+.++|+|+| -||+||||+|..++...
T Consensus       141 ~~~kvIav~s~KGGvGKTT~a~nLA~~L  168 (373)
T 3fkq_A          141 DKSSVVIFTSPCGGVGTSTVAAACAIAH  168 (373)
T ss_dssp             TSCEEEEEECSSTTSSHHHHHHHHHHHH
T ss_pred             CCceEEEEECCCCCChHHHHHHHHHHHH
Confidence            3578999985 99999999999888765

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=90.41  E-value=0.15  Score=44.73  Aligned_cols=23  Identities=22%  Similarity=0.316  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|.|+|-+|+|||+|...+.++.
T Consensus        15 KivlvGd~~VGKTsLi~r~~~~~   37 (216)
T 4dkx_A           15 KLVFLGEQSVGKTSLITRFMYDS   37 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCcCHHHHHHHHHhCC
Confidence            47899999999999999887543

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=90.31  E-value=0.16  Score=49.76  Aligned_cols=27  Identities=22%  Similarity=0.182  Sum_probs=24.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-.+++|+|..|+|||||.+.+.+..
T Consensus       155 ~~Gq~~~IvG~sGsGKSTLl~~Iag~~  181 (438)
T 2dpy_A          155 GRGQRMGLFAGSGVGKSVLLGMMARYT  181 (438)
T ss_dssp             BTTCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            344699999999999999999999877

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=90.30  E-value=0.15  Score=43.36  Aligned_cols=24  Identities=21%  Similarity=0.338  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-|+|+|..|+|||||...+.+..
T Consensus        27 ~ki~vvG~~~~GKSsLi~~l~~~~   50 (192)
T 2il1_A           27 LQVIIIGSRGVGKTSLMERFTDDT   50 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHCC--
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCC
Confidence            468899999999999999887544

>1dek_A Deoxynucleoside monophosphate kinase; transferase, phosphotransferase; HET: DGP; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1 PDB: 1del_A*

Probab=90.22  E-value=0.19  Score=44.90  Aligned_cols=24  Identities=33%  Similarity=0.497  Sum_probs=21.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+|+|+|+.|+||||+|+.+....
T Consensus         2 ~~i~ltG~~~sGK~tv~~~l~~~~   25 (241)
T 1dek_A            2 KLIFLSGVKRSGKDTTADFIMSNY   25 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhc
Confidence            589999999999999999987753

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=90.11  E-value=0.26  Score=45.05  Aligned_cols=26  Identities=23%  Similarity=0.290  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ....|+|+|.+|+|||||...+....
T Consensus        25 ~~~~i~vvG~~~~GKSSLln~l~g~~   50 (299)
T 2aka_B           25 DLPQIAVVGGQSAGKSSVLENFVGRD   50 (299)
T ss_dssp             CCCEEEEEEBTTSCHHHHHHHHHTSC
T ss_pred             CCCeEEEEeCCCCCHHHHHHHHHCCC
Confidence            45689999999999999999998654

>3euj_A Chromosome partition protein MUKB, linker; MUKB, MUKE, chromosome condensation, condensin, SMC, N subunit, ABC-type ATPase, WHD, ATP-binding; HET: AGS; 3.10A {Haemophilus ducreyi} PDB: 3euk_A*

Probab=90.11  E-value=0.17  Score=49.97  Aligned_cols=24  Identities=21%  Similarity=0.288  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+++|+|..|+|||||.+.+..-.
T Consensus        30 e~~~liG~nGsGKSTLl~~l~Gl~   53 (483)
T 3euj_A           30 LVTTLSGGNGAGKSTTMAGFVTAL   53 (483)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEECCCCCcHHHHHHHHhcCC
Confidence            799999999999999999998765

>3th5_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTPase, GTP binding, protein binding, signali protein; HET: GNP; 2.30A {Homo sapiens}

Probab=89.57  E-value=0.056  Score=46.53  Aligned_cols=33  Identities=21%  Similarity=0.156  Sum_probs=24.2

Q ss_pred             HHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          110 WRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       110 ~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+.+.+.+.--|+|+|.+|+|||||...+.+..
T Consensus        22 ~~~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~   54 (204)
T 3th5_A           22 ENLYFQGQAIKCVVVGDGAVGKTCLLISYTTNA   54 (204)
Confidence            333444455678999999999999998776543

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=89.99  E-value=0.16  Score=51.08  Aligned_cols=25  Identities=28%  Similarity=0.292  Sum_probs=22.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.+++|+|..|+|||||++.++...
T Consensus       312 Ge~~~i~G~NGsGKSTLlk~l~Gl~  336 (538)
T 1yqt_A          312 GEVIGIVGPNGIGKTTFVKMLAGVE  336 (538)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3689999999999999999998754

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=89.97  E-value=0.22  Score=42.99  Aligned_cols=23  Identities=26%  Similarity=0.427  Sum_probs=21.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .|+|=|..|+||||.++.+++..
T Consensus         2 fI~~EG~DGsGKsTq~~~L~~~L   24 (197)
T 3hjn_A            2 FITFEGIDGSGKSTQIQLLAQYL   24 (197)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            47889999999999999999887

>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=89.92  E-value=0.3  Score=46.17  Aligned_cols=25  Identities=24%  Similarity=0.296  Sum_probs=19.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..++.+.|.||+||||+|..++...
T Consensus        26 ~~i~v~sgKGGvGKTTvA~~LA~~l   50 (349)
T 3ug7_A           26 TKYIMFGGKGGVGKTTMSAATGVYL   50 (349)
T ss_dssp             CEEEEEECSSSTTHHHHHHHHHHHH
T ss_pred             CEEEEEeCCCCccHHHHHHHHHHHH
Confidence            3455666999999999998887665

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=89.90  E-value=0.17  Score=50.99  Aligned_cols=24  Identities=21%  Similarity=0.238  Sum_probs=21.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      -.+++|+|..|+|||||.+.+...
T Consensus        47 Ge~~~LvG~NGaGKSTLlk~l~Gl   70 (538)
T 1yqt_A           47 GMVVGIVGPNGTGKSTAVKILAGQ   70 (538)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            368999999999999999998764

>3iev_A GTP-binding protein ERA; ERA, GTPase, KH domain, anti-SD, 16S rRNA, 30S ribosome ASSE GTP-binding, nucleotide-binding; HET: GNP; 1.90A {Aquifex aeolicus} PDB: 3r9w_A* 3r9x_A*

Probab=89.78  E-value=0.18  Score=46.82  Aligned_cols=26  Identities=35%  Similarity=0.443  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ....|+|+|.+|+|||||...+....
T Consensus         9 ~~g~v~ivG~~nvGKSTLin~l~g~~   34 (308)
T 3iev_A            9 KVGYVAIVGKPNVGKSTLLNNLLGTK   34 (308)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTSC
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            35689999999999999999987654

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=89.76  E-value=0.25  Score=43.67  Aligned_cols=26  Identities=12%  Similarity=0.130  Sum_probs=21.6

Q ss_pred             CceEEEEEc-CCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHG-VSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G-~gGiGKTtLA~~v~~~~  142 (414)
                      ..++|+|++ -||+||||+|..++...
T Consensus         3 ~~~vI~v~s~kGGvGKTt~a~~LA~~l   29 (245)
T 3ea0_A            3 AKRVFGFVSAKGGDGGSCIAANFAFAL   29 (245)
T ss_dssp             CCEEEEEEESSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcchHHHHHHHHHHH
Confidence            457888874 68999999999998877

>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=89.76  E-value=0.27  Score=48.67  Aligned_cols=34  Identities=12%  Similarity=0.027  Sum_probs=24.1

Q ss_pred             HHHHhhc-CCceEEEEEcCCCCcHHHHH-HHHHHhh
Q 043070          109 VWRLVED-NSVRIICLHGVSRLGKTTLL-YNLNKKF  142 (414)
Q Consensus       109 l~~~L~~-~~~~vi~I~G~gGiGKTtLA-~~v~~~~  142 (414)
                      .++.|.. ..-..++|+|..|+|||+|| ..+.|..
T Consensus       152 aID~l~PigrGQR~~I~g~~g~GKT~Lal~~I~~q~  187 (510)
T 2ck3_A          152 AVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQK  187 (510)
T ss_dssp             HHHHHSCCBTTCBCEEEESTTSSHHHHHHHHHHHTH
T ss_pred             eeccccccccCCEEEEecCCCCCchHHHHHHHHHHH
Confidence            4444533 33457899999999999995 4666665

>1byi_A Dethiobiotin synthase; biotin synthesis, cyclo-ligase, ligase; 0.97A {Escherichia coli} SCOP: c.37.1.10 PDB: 1bs1_A* 1a82_A 1dad_A* 1dae_A* 1daf_A* 1dag_A* 1dah_A* 1dai_A* 1dak_A* 1dam_A* 1dbs_A 1dts_A

Probab=89.72  E-value=0.22  Score=43.48  Aligned_cols=24  Identities=21%  Similarity=0.260  Sum_probs=20.5

Q ss_pred             eEEEEEcC-CCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGV-SRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~-gGiGKTtLA~~v~~~~  142 (414)
                      ++|+|.|. ||+||||+|..++...
T Consensus         2 k~I~v~s~kgGvGKTt~a~nLa~~l   26 (224)
T 1byi_A            2 KRYFVTGTDTEVGKTVASCALLQAA   26 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHH
Confidence            57888885 8999999999988776

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=89.70  E-value=0.15  Score=51.29  Aligned_cols=25  Identities=32%  Similarity=0.340  Sum_probs=22.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.+++|+|..|+|||||++.++...
T Consensus       294 Gei~~i~G~nGsGKSTLl~~l~Gl~  318 (538)
T 3ozx_A          294 GEIIGILGPNGIGKTTFARILVGEI  318 (538)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3589999999999999999998754

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens}

Probab=89.68  E-value=0.15  Score=43.21  Aligned_cols=25  Identities=24%  Similarity=0.271  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-|+|+|.+|+|||||...+.+..
T Consensus        21 ~~ki~v~G~~~~GKSsli~~l~~~~   45 (190)
T 2h57_A           21 EVHVLCLGLDNSGKTTIINKLKPSN   45 (190)
T ss_dssp             CEEEEEEECTTSSHHHHHHHTSCGG
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcCC
Confidence            3578999999999999998887654

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=89.68  E-value=0.15  Score=44.11  Aligned_cols=25  Identities=32%  Similarity=0.396  Sum_probs=21.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .--|+|+|.+|+|||||...+.+..
T Consensus        25 ~~ki~vvG~~~~GKSsLi~~l~~~~   49 (217)
T 2f7s_A           25 LIKLLALGDSGVGKTTFLYRYTDNK   49 (217)
T ss_dssp             EEEEEEESCTTSSHHHHHHHHHCSC
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcCC
Confidence            3568999999999999999887643

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=89.54  E-value=0.21  Score=49.07  Aligned_cols=26  Identities=19%  Similarity=0.362  Sum_probs=23.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.++.|.|.+|+||||||..++...
T Consensus       202 ~G~liiI~G~pG~GKTtl~l~ia~~~  227 (454)
T 2r6a_A          202 RSDLIIVAARPSVGKTAFALNIAQNV  227 (454)
T ss_dssp             TTCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHH
Confidence            34699999999999999999998876

>4i1u_A Dephospho-COA kinase; structural genomics, niaid, national institute of allergy AN infectious diseases; 2.05A {Burkholderia vietnamiensis} PDB: 4i1v_A*

Probab=89.51  E-value=0.26  Score=43.02  Aligned_cols=24  Identities=29%  Similarity=0.194  Sum_probs=21.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHH
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNK  140 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~  140 (414)
                      ....|+++|.-|+||||+++.+..
T Consensus         8 ~~~~iglTGgigsGKStv~~~l~~   31 (210)
T 4i1u_A            8 HMYAIGLTGGIGSGKTTVADLFAA   31 (210)
T ss_dssp             SCCEEEEECCTTSCHHHHHHHHHH
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHH
Confidence            456899999999999999999876

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=89.42  E-value=0.19  Score=51.34  Aligned_cols=25  Identities=28%  Similarity=0.292  Sum_probs=22.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.+++|+|..|+|||||.+.++...
T Consensus       382 Gei~~i~G~NGsGKSTLlk~l~Gl~  406 (607)
T 3bk7_A          382 GEVIGIVGPNGIGKTTFVKMLAGVE  406 (607)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3589999999999999999998754

>1fx0_A ATP synthase alpha chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_A*

Probab=89.39  E-value=0.4  Score=47.40  Aligned_cols=25  Identities=16%  Similarity=0.102  Sum_probs=20.0

Q ss_pred             ceEEEEEcCCCCcHHHHHH-HHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLY-NLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~-~v~~~~  142 (414)
                      -..++|+|..|+|||+||. .+.+..
T Consensus       163 GQR~~Ifg~~g~GKT~Lal~~I~~~~  188 (507)
T 1fx0_A          163 GQRELIIGDRQTGKTAVATDTILNQQ  188 (507)
T ss_dssp             TCBCBEEESSSSSHHHHHHHHHHTCC
T ss_pred             CCEEEEecCCCCCccHHHHHHHHHhh
Confidence            3578999999999999965 666654

>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=89.39  E-value=0.25  Score=40.49  Aligned_cols=24  Identities=25%  Similarity=0.264  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+.+|+|..|+||||+..+++--.
T Consensus        24 g~~~I~G~NGsGKStil~Ai~~~l   47 (149)
T 1f2t_A           24 GINLIIGQNGSGKSSLLDAILVGL   47 (149)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHH
Confidence            588999999999999998886533

>3iby_A Ferrous iron transport protein B; G protein, G domain, iron uptake, cell inner membrane, cell GTP-binding, ION transport, membrane; 2.50A {Legionella pneumophila}

Probab=89.39  E-value=0.2  Score=45.20  Aligned_cols=24  Identities=33%  Similarity=0.302  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +.|+++|.+|+|||||...+....
T Consensus         2 ~kI~lvG~~n~GKSTL~n~L~g~~   25 (256)
T 3iby_A            2 THALLIGNPNCGKTTLFNALTNAN   25 (256)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCC
Confidence            578999999999999999987653

>1wcv_1 SOJ, segregation protein; ATPase, bacterial, chromosome segregation; 1.6A {Thermus thermophilus} PDB: 2bej_A* 2bek_A*

Probab=89.33  E-value=0.18  Score=45.35  Aligned_cols=27  Identities=37%  Similarity=0.375  Sum_probs=22.3

Q ss_pred             CCceEEEEE-cCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLH-GVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~-G~gGiGKTtLA~~v~~~~  142 (414)
                      ...++|+|+ +-||+||||+|..++...
T Consensus         4 ~~~~vI~v~s~kGGvGKTt~a~~LA~~l   31 (257)
T 1wcv_1            4 AKVRRIALANQKGGVGKTTTAINLAAYL   31 (257)
T ss_dssp             -CCCEEEECCSSCCHHHHHHHHHHHHHH
T ss_pred             CCCEEEEEEeCCCCchHHHHHHHHHHHH
Confidence            355789997 688999999999988776

>2woo_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; 3.01A {Schizosaccharomyces pombe}

Probab=89.33  E-value=0.26  Score=46.20  Aligned_cols=28  Identities=29%  Similarity=0.388  Sum_probs=22.5

Q ss_pred             cCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          115 DNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       115 ~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +....++.+.|.||+||||+|..++...
T Consensus        16 ~~~~~i~v~sgkGGvGKTTva~~LA~~l   43 (329)
T 2woo_A           16 QTSLKWIFVGGKGGVGKTTTSCSLAIQM   43 (329)
T ss_dssp             CTTCCEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             CCCCEEEEEeCCCCCcHHHHHHHHHHHH
Confidence            3445666778999999999999988776

>2xtp_A GTPase IMAP family member 2; immune system, G protein; HET: MSE; 1.50A {Homo sapiens} PDB: 2xto_A* 2xtm_A* 2xtn_A* 3p1j_A

Probab=89.33  E-value=0.24  Score=44.43  Aligned_cols=26  Identities=27%  Similarity=0.176  Sum_probs=21.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ....|+|+|.+|+|||||...+....
T Consensus        21 ~~~~I~lvG~~g~GKStl~n~l~~~~   46 (260)
T 2xtp_A           21 SELRIILVGKTGTGKSAAGNSILRKQ   46 (260)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHTSC
T ss_pred             CceEEEEECCCCCCHHHHHHHHhCCC
Confidence            34679999999999999999987543

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=89.32  E-value=0.22  Score=43.52  Aligned_cols=25  Identities=36%  Similarity=0.398  Sum_probs=21.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .--|+|+|.+|+|||||...+.+..
T Consensus        13 ~~ki~v~G~~~vGKSsli~~l~~~~   37 (223)
T 3cpj_B           13 LFKIVLIGDSGVGKSNLLSRFTKNE   37 (223)
T ss_dssp             EEEEEEESCTTSSHHHHHHHHHHCC
T ss_pred             eeEEEEECcCCCCHHHHHHHHhcCC
Confidence            3468999999999999999887654

>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=89.30  E-value=0.18  Score=57.24  Aligned_cols=84  Identities=13%  Similarity=0.108  Sum_probs=55.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH---HHHHHHHHHHhcCCCCcc---CcCCHhHHHHHHHHHhC
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV---KRIQHVMGYRLAMSNEVW---DDKTKQGRAIDSSRRLG  190 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv---~~l~~~i~~~l~~~~~~~---~~~~~~~~~~~l~~~L~  190 (414)
                      .-++|-|+|+.|+||||||.++....   ...=...+|+   ..+-...++.+|...+..   .+.+-++....+...++
T Consensus      1430 rg~~iei~g~~~sGkttl~~~~~a~~---~~~g~~~~~i~~e~~~~~~~~~~~Gv~~~~l~~~~p~~~e~~l~~~~~~~~ 1506 (1706)
T 3cmw_A         1430 MGRIVEIYGPESSGKTTLTLQVIAAA---QREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALAR 1506 (1706)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHH---HHTTCCEEEECTTSCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHH---HhcCCeEEEEecCCCCCHHHHHHcCCCHHHeEEeCCCcHHHHHHHHHHHHH
Confidence            34799999999999999999988655   2222344455   222233377777655432   33445666666777665


Q ss_pred             -CCcEEEEEecCCC
Q 043070          191 -QRRFALLLDDLRE  203 (414)
Q Consensus       191 -~kr~LlVlDdv~~  203 (414)
                       +..-+||+|-|..
T Consensus      1507 s~~~~~vvvDsv~a 1520 (1706)
T 3cmw_A         1507 SGAVDVIVVDSVAA 1520 (1706)
T ss_dssp             HTCCSEEEESCSTT
T ss_pred             cCCCCEEEEccHHh
Confidence             4677899997743

>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=89.30  E-value=0.23  Score=47.08  Aligned_cols=27  Identities=22%  Similarity=0.311  Sum_probs=21.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ....++...|-||+||||+|..++...
T Consensus        16 ~~~~i~v~sgKGGvGKTTvaanLA~~l   42 (354)
T 2woj_A           16 TTHKWIFVGGKGGVGKTTSSCSIAIQM   42 (354)
T ss_dssp             SSCCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCcHHHHHHHHHHHH
Confidence            334556667999999999999887766

---

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	414
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	1e-10

>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 = 59.4 bits (143), Expect = 1e-10
 Identities = 25/249 (10%), Positives = 63/249 (25%), Gaps = 50/249 (20%)

Query: 102 DVSRLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNL-NKKFNDTRHNFGLVILV----- 155
            V R+ +    + D     + LHG +  GK+ +     +K       N+  ++ +     
Sbjct: 28  HVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGT 87

Query: 156 ---KRIQHVMGYRLAMSNEVWDDKTKQGRAIDS--------SRRLGQRRFALLLDDLREP 204
                        L + +E           + S        +  + +     + DD+ + 
Sbjct: 88  APKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQE 147

Query: 205 IDLKTAG---------------ASIQNGSKVKY---------AWNLFQLKVTDDVLNSHR 240
             ++ A                ++  + +              ++  +       +    
Sbjct: 148 ETIRWAQELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKE 207

Query: 241 DIRKHAETVAGLCGGLPLSLITTGSAMTSIRNPAVWENAVNDLINYPAEFPGMGDRIFPR 300
                      L  G P +L+    +    +         N L +           +   
Sbjct: 208 --EDVLNKTIELSSGNPATLMMFFKSCEP-KTFEKMAQLNNKLESRGL------VGVECI 258

Query: 301 LKFSYDHLP 309
             +SY  L 
Sbjct: 259 TPYSYKSLA 267

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	414
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	100.0
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	98.9
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	98.39
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.11
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	98.09
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	97.99
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	97.72
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.7
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	97.62
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	97.6
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	97.59
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	97.56
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	97.54
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	97.51
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	97.47
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	97.43
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	97.38
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	97.31
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	97.28
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	97.23
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.2
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.2
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.2
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.13
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	97.11
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.11
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.1
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	97.09
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.09
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.06
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	96.98
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	96.94
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	96.9
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	96.89
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.84
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	96.81
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	96.8
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.79
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	96.79
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	96.78
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	96.78
d2qy9a2	211	GTPase domain of the signal recognition particle r	96.75
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.75
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	96.68
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	96.66
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	96.63
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	96.58
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	96.53
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.52
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.51
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	96.49
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	96.43
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.43
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	96.41
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	96.38
d1okkd2	207	GTPase domain of the signal recognition particle r	96.36
d1vmaa2	213	GTPase domain of the signal recognition particle r	96.33
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.28
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	96.25
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	96.24
d1ls1a2	207	GTPase domain of the signal sequence recognition p	96.23
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	96.18
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	96.17
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	96.15
d1j8yf2	211	GTPase domain of the signal sequence recognition p	96.13
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.12
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.12
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.08
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.07
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	96.03
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	96.03
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	95.99
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	95.92
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	95.85
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	95.8
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	95.78
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	95.76
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	95.74
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	95.74
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	95.71
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	95.7
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	95.62
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	95.53
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	95.48
d1xpua3	289	Transcription termination factor Rho, ATPase domai	95.46
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	95.46
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	95.18
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	95.15
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	95.14
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	95.13
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	95.0
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	94.99
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	94.97
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	94.96
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	94.9
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	94.79
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	94.56
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	94.52
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	94.52
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	94.52
d1g2912	240	Maltose transport protein MalK, N-terminal domain	94.49
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	94.45
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	94.41
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	94.41
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	94.41
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	94.41
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	94.4
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	94.36
d2awna2	232	Maltose transport protein MalK, N-terminal domain	94.35
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.29
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	94.28
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.27
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	94.27
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	94.25
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	94.22
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	94.17
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	94.14
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	94.14
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	94.13
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	94.08
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	94.08
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	94.08
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	93.94
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	93.94
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	93.91
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	93.73
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	93.7
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	93.7
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	93.63
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	93.57
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	93.54
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	93.53
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	93.5
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	93.49
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	93.4
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	93.39
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	93.38
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	93.31
d1nrjb_	209	Signal recognition particle receptor beta-subunit	93.3
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	93.28
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	93.27
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	93.26
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	93.21
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	93.2
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	93.14
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	93.11
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	93.08
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	93.05
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	93.03
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	93.02
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	93.02
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	92.99
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	92.98
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	92.94
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	92.94
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	92.93
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	92.91
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	92.9
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	92.84
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	92.84
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	92.83
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	92.77
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	92.74
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	92.72
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	92.7
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	92.68
d2fh5b1	207	Signal recognition particle receptor beta-subunit	92.68
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	92.56
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	92.55
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	92.53
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	92.52
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	92.52
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	92.51
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	92.51
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	92.42
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	92.41
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	92.4
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	92.35
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	92.33
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	92.26
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	92.24
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	92.21
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	92.18
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	92.11
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	92.06
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	92.06
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	91.95
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	91.91
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	91.9
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	91.87
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	91.8
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	91.74
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	91.72
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	91.67
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	91.57
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	91.49
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	91.44
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	91.41
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	91.24
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	91.23
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	91.17
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	91.09
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	91.04
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	91.02
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	90.99
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	90.94
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	90.9
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	90.82
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	90.81
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	90.75
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	90.59
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	90.51
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	90.27
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	90.11
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	90.04
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	89.96
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	89.52
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	89.25
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	88.64
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	88.44
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	87.82
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	87.68
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	87.61
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	87.31
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	87.3
d1tuea_	205	Replication protein E1 helicase domain {Human papi	87.15
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	86.93
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	86.81
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	86.17
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	85.57
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	84.59
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	84.27
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	84.24
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	83.8
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	83.14
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	83.02
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	82.87
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	82.37
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	82.28
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	82.27
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	81.47
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	81.21
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	80.11

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=100.00  E-value=4.8e-37  Score=285.86  Aligned_cols=211  Identities=9%  Similarity=0.047  Sum_probs=164.3

Q ss_pred             CCCccchH-HHHHHHHHhhc---CCceEEEEEcCCCCcHHHHHHHHHHhhh-hcCCCCcchHhH--------HHHHHHH-
Q 043070           97 MENTVDVS-RLNEVWRLVED---NSVRIICLHGVSRLGKTTLLYNLNKKFN-DTRHNFGLVILV--------KRIQHVM-  162 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~---~~~~vi~I~G~gGiGKTtLA~~v~~~~~-~v~~~F~~~~wv--------~~l~~~i-  162 (414)
                      ...++||+ ++++|+++|.+   ....+|+|+||||+||||||+++|++.. .+..+|++++||        ..+...+ 
T Consensus        19 ~~~~~gR~~~~~~i~~~L~~~~~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~~l~~~~~   98 (277)
T d2a5yb3          19 QMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTD   98 (277)
T ss_dssp             CCCSCCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHH
T ss_pred             CCceeCcHHHHHHHHHHHHhccCCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCCHHHHHHHHH
Confidence            35578999 99999999943   5578999999999999999999999852 257789999999        3443333 


Q ss_pred             --HHHhcCCCCc-----cCcCCHhHHHHHHHHHhCCCcEEEEEecCCCccchhhhccCCCCCCcHh--------------
Q 043070          163 --GYRLAMSNEV-----WDDKTKQGRAIDSSRRLGQRRFALLLDDLREPIDLKTAGASIQNGSKVK--------------  221 (414)
Q Consensus       163 --~~~l~~~~~~-----~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~~p~~~gs~ii--------------  221 (414)
                        +..++.....     ....+.......+.+.|.++|+|+||||||+.++|+.+.   ..||+||              
T Consensus        99 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlVLDDv~~~~~~~~~~---~~~srilvTTR~~~v~~~~~~  175 (277)
T d2a5yb3          99 ILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWAQ---ELRLRCLVTTRDVEISNAASQ  175 (277)
T ss_dssp             HHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHHHHHH---HTTCEEEEEESBGGGGGGCCS
T ss_pred             HHHHHhcchhhcCCccchhhhhHHHHHHHHHHHhccCCeeEecchhhHHhhhhhhc---ccCceEEEEeehHHHHHhcCC
Confidence              3333322111     112223344556788899999999999999999887662   2356666              


Q ss_pred             -------------hHHHHHHHhhcCCcCCCCchHHHHHHHHHHHhCCchhHHHHHHHHhcCCCChhHHHHHHHHhccCCC
Q 043070          222 -------------YAWNLFQLKVTDDVLNSHRDIRKHAETVAGLCGGLPLSLITTGSAMTSIRNPAVWENAVNDLINYPA  288 (414)
Q Consensus       222 -------------~a~~Lf~~~a~~~~~~~~~~l~~~~~~I~~~c~GlPLai~~~g~~L~~~~~~~~w~~~~~~l~~~~~  288 (414)
                                   +|++||+..++...  .++..++++++|+++|+|+||||+++|+.|+. ++.++|.+..+.|.+...
T Consensus       176 ~~~~~~l~~L~~~ea~~Lf~~~~~~~~--~~~~~~~~~~~iv~~c~GlPLAl~~ig~~l~~-k~~~~~~~~~~~L~~~~~  252 (277)
T d2a5yb3         176 TCEFIEVTSLEIDECYDFLEAYGMPMP--VGEKEEDVLNKTIELSSGNPATLMMFFKSCEP-KTFEKMAQLNNKLESRGL  252 (277)
T ss_dssp             CEEEEECCCCCHHHHHHHHHHTSCCCC----CHHHHHHHHHHHHHTTCHHHHHHHHTTCCS-SSHHHHHHHHHHHHHHCS
T ss_pred             CCceEECCCCCHHHHHHHHHHHhCCcc--CchhhHHHHHHHHHHhCCCHHHHHHHHHHhcc-CCHHHHHHHHHHHhcCcH
Confidence                         99999999988654  34567889999999999999999999999987 788999999988875422


Q ss_pred             CCCCCccchhhHHHhchhCCCCCChhHHHhHh
Q 043070          289 EFPGMGDRIFPRLKFSYDHLPVKPTKLIFYFM  320 (414)
Q Consensus       289 ~~~~~~~~~~~~l~~sy~~L~~~~~k~cfl~l  320 (414)
                            .++..++.+||++||++ +|.||.++
T Consensus       253 ------~~v~~il~~sY~~L~~~-lk~c~~~l  277 (277)
T d2a5yb3         253 ------VGVECITPYSYKSLAMA-LQRCVEVL  277 (277)
T ss_dssp             ------STTCCCSSSSSSSHHHH-HHHHHHTS
T ss_pred             ------HHHHHHHHHHHhcccHH-HHHHHHhC
Confidence                  36888999999999999 99999874

>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=98.90  E-value=5.6e-09  Score=94.08  Aligned_cols=42  Identities=17%  Similarity=0.254  Sum_probs=36.7

Q ss_pred             CCCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           97 MENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+.||||+ ++++|.+.    ..+.+.|+|++|+|||+|++++.+..
T Consensus        11 ~~~f~GR~~el~~l~~~----~~~~i~i~G~~G~GKTsLl~~~~~~~   53 (283)
T d2fnaa2          11 RKDFFDREKEIEKLKGL----RAPITLVLGLRRTGKSSIIKIGINEL   53 (283)
T ss_dssp             GGGSCCCHHHHHHHHHT----CSSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             hhhCCChHHHHHHHHhc----cCCEEEEEcCCCCcHHHHHHHHHHHC
Confidence            57899999 99998764    34689999999999999999998876

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=98.39  E-value=7.8e-07  Score=79.31  Aligned_cols=104  Identities=15%  Similarity=0.103  Sum_probs=72.7

Q ss_pred             CCccchH-HHHHHHHHhhc------CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcch-HhH--------HHHHHH
Q 043070           98 ENTVDVS-RLNEVWRLVED------NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLV-ILV--------KRIQHV  161 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~------~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~-~wv--------~~l~~~  161 (414)
                      ..++||+ ++++|.++|..      .....+.|+|++|+||||+|+.+++..   .+.+... +++        ..+...
T Consensus        16 ~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l---~~~~~~~~~~~~~~~~~~~~~~~~~   92 (276)
T d1fnna2          16 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELY---KDKTTARFVYINGFIYRNFTAIIGE   92 (276)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHH---TTSCCCEEEEEETTTCCSHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHH---hcccCCcEEEecchhhhhhhhhhhh
Confidence            4689999 99999999943      345789999999999999999999987   2322211 122        666777


Q ss_pred             HHHHhcCCCCccCcCCHhHHHHHHHHHhC--CCcEEEEEecCCCcc
Q 043070          162 MGYRLAMSNEVWDDKTKQGRAIDSSRRLG--QRRFALLLDDLREPI  205 (414)
Q Consensus       162 i~~~l~~~~~~~~~~~~~~~~~~l~~~L~--~kr~LlVlDdv~~~~  205 (414)
                      +....+..... ...........+.+.+.  ....++++|++++..
T Consensus        93 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~  137 (276)
T d1fnna2          93 IARSLNIPFPR-RGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLA  137 (276)
T ss_dssp             HHHHTTCCCCS-SCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSC
T ss_pred             hHHhhhhhhhh-hccchhHHHHHHHHHHhhcccccccchhHHHHhh
Confidence            77777655432 34455666666666553  357778888877654

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=98.11  E-value=1.2e-06  Score=74.10  Aligned_cols=45  Identities=13%  Similarity=0.290  Sum_probs=39.8

Q ss_pred             CCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...|||+ +++++++.|....-.-+.+||.+|+|||+++..++++.
T Consensus        22 d~~igRd~Ei~~l~~iL~r~~k~n~lLvG~pGVGKTalv~~LA~ri   67 (195)
T d1jbka_          22 DPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRI   67 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCcCcHHHHHHHHHHHhccCCCCeEEEecCCcccHHHHHHHHHHH
Confidence            4589999 99999999987666678899999999999999998876

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=98.09  E-value=1.1e-06  Score=78.43  Aligned_cols=100  Identities=16%  Similarity=0.115  Sum_probs=62.8

Q ss_pred             CCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhhhh--cCCC-CcchHhHHHHHHHHHHHhcCCCCcc
Q 043070           98 ENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKFND--TRHN-FGLVILVKRIQHVMGYRLAMSNEVW  173 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~--v~~~-F~~~~wv~~l~~~i~~~l~~~~~~~  173 (414)
                      ..++||+ +++++++.|....-.-+.+||.+|+|||+++..+++....  +... .+..+|.-++. .   -+.+..   
T Consensus        18 d~~igRd~Ei~~l~~iL~r~~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~-~---liag~~---   90 (268)
T d1r6bx2          18 DPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIG-S---LLAGTK---   90 (268)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC-------CCCC---
T ss_pred             CcccChHHHHHHHHHHHhcCccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeec-h---HhccCc---
Confidence            4589999 9999999997766567779999999999999999887621  0011 11222210000 0   000111   


Q ss_pred             CcCCHhHHHHHHHHHhC-CCcEEEEEecCCCc
Q 043070          174 DDKTKQGRAIDSSRRLG-QRRFALLLDDLREP  204 (414)
Q Consensus       174 ~~~~~~~~~~~l~~~L~-~kr~LlVlDdv~~~  204 (414)
                      .....++....+.+.+. .++.+|++|++...
T Consensus        91 ~~g~~e~r~~~i~~~~~~~~~iIlfiDeih~l  122 (268)
T d1r6bx2          91 YRGDFEKRFKALLKQLEQDTNSILFIDEIHTI  122 (268)
T ss_dssp             CSSCHHHHHHHHHHHHSSSSCEEEEETTTTTT
T ss_pred             cchhHHHHHHHHHHHhhccCCceEEecchHHH
Confidence            23455666666666664 46799999997543

>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=97.99  E-value=4e-06  Score=74.92  Aligned_cols=105  Identities=14%  Similarity=0.066  Sum_probs=66.1

Q ss_pred             CCccchH-HHHHHHHHhhc--------CC-ceEEEEEcCCCCcHHHHHHHHHHhhhhc----CCCCcchHhH--------
Q 043070           98 ENTVDVS-RLNEVWRLVED--------NS-VRIICLHGVSRLGKTTLLYNLNKKFNDT----RHNFGLVILV--------  155 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~--------~~-~~vi~I~G~gGiGKTtLA~~v~~~~~~v----~~~F~~~~wv--------  155 (414)
                      +.++||+ ++++|.+.+..        .. ..++.++|++|+|||++++.+++.....    ...+ ...++        
T Consensus        16 ~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~-~~~~~~~~~~~~~   94 (287)
T d1w5sa2          16 PELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTV-KQAYVNAFNAPNL   94 (287)
T ss_dssp             SSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCE-EEEEEEGGGCCSH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCc-eeeeeccccccch
Confidence            6789999 99999988722        11 2245678999999999999999876210    0011 11111        


Q ss_pred             HHHHHHHHHHhcCCCCccCcCCHhHHHHHHHHHhC--CCcEEEEEecCCCc
Q 043070          156 KRIQHVMGYRLAMSNEVWDDKTKQGRAIDSSRRLG--QRRFALLLDDLREP  204 (414)
Q Consensus       156 ~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~L~--~kr~LlVlDdv~~~  204 (414)
                      ..+...+...++..... ...........+...+.  +...++++|.+...
T Consensus        95 ~~~~~~~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~~iide~d~l  144 (287)
T d1w5sa2          95 YTILSLIVRQTGYPIQV-RGAPALDILKALVDNLYVENHYLLVILDEFQSM  144 (287)
T ss_dssp             HHHHHHHHHHHTCCCCC-TTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHH
T ss_pred             hhHHHHHhhhccccccc-ccchHHHHHHHHHHHHHhccCccccceeEEEEe
Confidence            55566666666554422 34455566666666553  46677888877543

>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=97.72  E-value=2e-05  Score=68.57  Aligned_cols=47  Identities=19%  Similarity=0.316  Sum_probs=42.3

Q ss_pred             cCCCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           96 DMENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        96 ~~~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|.+ .+++|.+++.+...+-+.++|++|+||||+|+.+++..
T Consensus        22 ~~~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtla~~iak~l   69 (231)
T d1iqpa2          22 RLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALAREL   69 (231)
T ss_dssp             STTTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             CHHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCcHHHHHHHHHHHH
Confidence            347899999 99999999988888888999999999999999998865

>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=97.70  E-value=2.5e-05  Score=73.20  Aligned_cols=97  Identities=15%  Similarity=0.162  Sum_probs=57.5

Q ss_pred             CCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhhh--hcC-CCCcchHhH---HHHHHHHHHHhcCCC
Q 043070           98 ENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKFN--DTR-HNFGLVILV---KRIQHVMGYRLAMSN  170 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~--~v~-~~F~~~~wv---~~l~~~i~~~l~~~~  170 (414)
                      .++|||+ +++++++.|....-.-+.+||.+|+|||+++..++++..  .+. ...+.++|.   ..++..    ..   
T Consensus        22 d~~~gr~~ei~~~~~~L~r~~k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag----~~---   94 (387)
T d1qvra2          22 DPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAG----AK---   94 (387)
T ss_dssp             CCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC---------------
T ss_pred             CCCcCcHHHHHHHHHHHhcCCCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhhhcc----cC---
Confidence            4589999 999999999765555667889999999999988777641  111 122344444   222110    00   


Q ss_pred             CccCcCCHhHHHHHHHHHhCC--CcEEEEEecCCCc
Q 043070          171 EVWDDKTKQGRAIDSSRRLGQ--RRFALLLDDLREP  204 (414)
Q Consensus       171 ~~~~~~~~~~~~~~l~~~L~~--kr~LlVlDdv~~~  204 (414)
                         .....++....+...+..  .+++|++|++...
T Consensus        95 ---~~g~~e~r~~~i~~~~~~~~~~~ilfide~h~l  127 (387)
T d1qvra2          95 ---YRGEFEERLKAVIQEVVQSQGEVILFIDELHTV  127 (387)
T ss_dssp             ------CHHHHHHHHHHHHHTTCSSEEEEECCC---
T ss_pred             ---cchhHHHHHHHHHHHhccCCCceEEEeccHHHH
Confidence               112344455455444433  4799999998654

>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=97.62  E-value=2.3e-05  Score=67.83  Aligned_cols=47  Identities=17%  Similarity=0.355  Sum_probs=41.7

Q ss_pred             cCCCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           96 DMENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        96 ~~~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.++||.+ .+++|.+++.+...+-+.++|++|+||||+|+.+++..
T Consensus        13 ~~~d~ig~~~~~~~L~~~~~~~~~~~~ll~Gp~G~GKTt~a~~la~~l   60 (224)
T d1sxjb2          13 VLSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHEL   60 (224)
T ss_dssp             SGGGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CHHHhcCCHHHHHHHHHHHHcCCCCeEEEECCCCCCchhhHHHHHHHH
Confidence            346799999 99999999988777778899999999999999998876

>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=97.60  E-value=2.4e-05  Score=68.08  Aligned_cols=48  Identities=13%  Similarity=0.284  Sum_probs=41.9

Q ss_pred             ccCCCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           95 QDMENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        95 ~~~~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-++++|.+ .++.+.+++.+...+.+.++|++|+||||+|+.+++..
T Consensus         9 ~~~~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtl~~~i~~~l   57 (237)
T d1sxjd2           9 KNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKEL   57 (237)
T ss_dssp             SSTTTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCHHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChHHHHHHHHHHH
Confidence            3346799999 99999999988777778899999999999999998874

>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=97.59  E-value=2.9e-05  Score=67.16  Aligned_cols=47  Identities=15%  Similarity=0.335  Sum_probs=41.5

Q ss_pred             cCCCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           96 DMENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        96 ~~~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.++||.+ .++.|.+++.+...+.+.++|++|+||||+|+.+++..
T Consensus        12 ~~~divg~~~~~~~L~~~i~~~~~~~lLl~Gp~G~GKttl~~~la~~l   59 (227)
T d1sxjc2          12 TLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREI   59 (227)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHH
T ss_pred             CHHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChhHHHHHHHHHh
Confidence            346799999 99999999988777667899999999999999999876

>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=97.56  E-value=8.3e-05  Score=63.81  Aligned_cols=90  Identities=21%  Similarity=0.109  Sum_probs=52.8

Q ss_pred             ccchH---HHHHHHHHhhc--CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH--HHHHHHHHHHhcCCCCc
Q 043070          100 TVDVS---RLNEVWRLVED--NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV--KRIQHVMGYRLAMSNEV  172 (414)
Q Consensus       100 ~vGr~---~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv--~~l~~~i~~~l~~~~~~  172 (414)
                      +||-.   ....+.++...  .....+-|+|.+|+|||.|++++++...   ......+++  ..+...+...+....  
T Consensus        13 ~vg~~N~~a~~~~~~~~~~~~~~~n~l~l~G~~G~GKTHLl~A~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~--   87 (213)
T d1l8qa2          13 IVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAK---KRGYRVIYSSADDFAQAMVEHLKKGT--   87 (213)
T ss_dssp             CCCTTTHHHHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHH---HTTCCEEEEEHHHHHHHHHHHHHHTC--
T ss_pred             cCCCcHHHHHHHHHHHHhCcCCCCCcEEEECCCCCcHHHHHHHHHHHhc---cCccceEEechHHHHHHHHHHHHccc--
Confidence            45654   33444444433  2234588999999999999999999882   222333444  555555555553221  


Q ss_pred             cCcCCHhHHHHHHHHHhCCCcEEEEEecCCCc
Q 043070          173 WDDKTKQGRAIDSSRRLGQRRFALLLDDLREP  204 (414)
Q Consensus       173 ~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~  204 (414)
                           ..+    +.+.++ .--+|+|||+...
T Consensus        88 -----~~~----~~~~~~-~~dll~iDDi~~i  109 (213)
T d1l8qa2          88 -----INE----FRNMYK-SVDLLLLDDVQFL  109 (213)
T ss_dssp             -----HHH----HHHHHH-TCSEEEEECGGGG
T ss_pred             -----hhh----HHHHHh-hccchhhhhhhhh
Confidence                 112    222222 3568899999754

>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=97.54  E-value=3.9e-05  Score=66.83  Aligned_cols=46  Identities=20%  Similarity=0.254  Sum_probs=39.0

Q ss_pred             CCCccchH-HHHHHHHHhhc-----CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           97 MENTVDVS-RLNEVWRLVED-----NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -+++||-+ .+++|..++..     ...+-+.++|++|+||||+|+.+++..
T Consensus         8 ~~divGqe~~~~~l~~~i~~~~~~~~~~~~~L~~GPpGtGKT~lA~~la~~~   59 (238)
T d1in4a2           8 LDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASEL   59 (238)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHH
T ss_pred             HHHcCChHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHhcc
Confidence            36789999 99999998842     345668899999999999999999987

>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=97.51  E-value=0.00012  Score=64.55  Aligned_cols=87  Identities=15%  Similarity=0.156  Sum_probs=54.6

Q ss_pred             CCccchH-HHHHHHHHh---hc---------CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCC-cchHhHHHHHHHHH
Q 043070           98 ENTVDVS-RLNEVWRLV---ED---------NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNF-GLVILVKRIQHVMG  163 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L---~~---------~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F-~~~~wv~~l~~~i~  163 (414)
                      .+++|.+ .+++|.+.+   ..         ...+.+.++|++|+|||++|+.+++..   ...| ..            
T Consensus        12 ~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~---~~~~~~i------------   76 (256)
T d1lv7a_          12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA---KVPFFTI------------   76 (256)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHH---TCCEEEE------------
T ss_pred             HHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHc---CCCEEEE------------
Confidence            5688998 777776543   21         235678899999999999999999877   2222 10            


Q ss_pred             HHhcCCC--CccCcCCHhHHHHHHHHHhCCCcEEEEEecCC
Q 043070          164 YRLAMSN--EVWDDKTKQGRAIDSSRRLGQRRFALLLDDLR  202 (414)
Q Consensus       164 ~~l~~~~--~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~  202 (414)
                         ....  ..+.......+...+...-+..+++|++||++
T Consensus        77 ---~~~~l~~~~~g~~~~~l~~~f~~A~~~~P~il~iDeiD  114 (256)
T d1lv7a_          77 ---SGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEID  114 (256)
T ss_dssp             ---CSCSSTTSCCCCCHHHHHHHHHHHHTTCSEEEEETTHH
T ss_pred             ---EhHHhhhcchhHHHHHHHHHHHHHHHcCCEEEEEEChh
Confidence               0000  00122333444444444446788999999874

>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=97.47  E-value=5.5e-05  Score=65.95  Aligned_cols=45  Identities=20%  Similarity=0.288  Sum_probs=38.1

Q ss_pred             CCccchH-HHHHHHHHhhc-----CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVED-----NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~~-----~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +++||-+ .++++..++..     ..++-+.++|++|+||||+|+.+++..
T Consensus         9 ddivGq~~~~~~L~~~i~~~~~~~~~~~~~Ll~GPpG~GKTtla~~la~~~   59 (239)
T d1ixsb2           9 DEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHEL   59 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHTTSSSCCCCEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHh
Confidence            6789999 88888888742     345677899999999999999999887

>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=97.43  E-value=0.00011  Score=64.88  Aligned_cols=92  Identities=15%  Similarity=0.152  Sum_probs=56.1

Q ss_pred             CCccchH-HHHHHHHHh----hc---------CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhHHHHHHHHH
Q 043070           98 ENTVDVS-RLNEVWRLV----ED---------NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILVKRIQHVMG  163 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L----~~---------~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv~~l~~~i~  163 (414)
                      .+++|.+ .+++|.+.+    ..         ...+-+.++|++|+|||++|+.+++..   ..+|-..-         .
T Consensus         4 ~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~---~~~~~~i~---------~   71 (258)
T d1e32a2           4 DDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFFFLIN---------G   71 (258)
T ss_dssp             GGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHT---TCEEEEEC---------H
T ss_pred             hhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHh---CCeEEEEE---------c
Confidence            3578988 888888764    21         235678999999999999999999987   33331100         0


Q ss_pred             HHhcCCCCccCcCCHhHHHHHHHHHhCCCcEEEEEecCCCc
Q 043070          164 YRLAMSNEVWDDKTKQGRAIDSSRRLGQRRFALLLDDLREP  204 (414)
Q Consensus       164 ~~l~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~  204 (414)
                      ..+....   .......+...+...-..++++|++||++..
T Consensus        72 ~~l~~~~---~g~~~~~l~~~f~~A~~~~p~il~iDeid~l  109 (258)
T d1e32a2          72 PEIMSKL---AGESESNLRKAFEEAEKNAPAIIFIDELDAI  109 (258)
T ss_dssp             HHHTTSC---TTHHHHHHHHHHHHHHHTCSEEEEESSGGGT
T ss_pred             hhhcccc---cccHHHHHHHHHHHHHhcCCeEEEehhhhhh
Confidence            0011000   1112233333333444578899999998754

>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=97.38  E-value=8.7e-05  Score=65.06  Aligned_cols=46  Identities=15%  Similarity=0.216  Sum_probs=39.3

Q ss_pred             CCCccchH-HHHHHHHHhhc-----------------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           97 MENTVDVS-RLNEVWRLVED-----------------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~-----------------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.+++|.+ .+++|.++|..                 ...+.+.++|++|+||||+|+.+++..
T Consensus        13 ~~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~   76 (253)
T d1sxja2          13 LQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQEL   76 (253)
T ss_dssp             GGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             HHHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            46789999 99999998842                 234679999999999999999999987

>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=97.31  E-value=0.00027  Score=61.93  Aligned_cols=45  Identities=18%  Similarity=0.223  Sum_probs=34.0

Q ss_pred             CCccchH-HHHHHHHHhh-------c---CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVE-------D---NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~-------~---~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+||.. .++.+++.+.       .   ...+-|.++|++|+|||++|+.+++..
T Consensus         9 ~~~i~~~~~i~~i~~~~~~~~~~~~~~~~~p~~~vLL~GppGtGKT~la~alA~~~   64 (246)
T d1d2na_           9 NGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEES   64 (246)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cCCcCcCHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECcCCCCHHHHHHHHhhcc
Confidence            4477766 6666665542       1   345678899999999999999999987

>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=97.28  E-value=7.1e-05  Score=65.56  Aligned_cols=46  Identities=17%  Similarity=0.125  Sum_probs=38.2

Q ss_pred             CCCccchH-HHHHHHHHhhcC-CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           97 MENTVDVS-RLNEVWRLVEDN-SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~~-~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -++++|.+ ..+.|.+++... ...-+.|+|++|+||||+|+.+++..
T Consensus        10 ~~diig~~~~~~~L~~~~~~~~~~~~lll~Gp~G~GKTt~~~~la~~l   57 (252)
T d1sxje2          10 LNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESI   57 (252)
T ss_dssp             GGGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHH
T ss_pred             HHHccCcHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHhh
Confidence            36799999 888888888553 44557799999999999999999875

>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=97.23  E-value=0.00041  Score=60.73  Aligned_cols=45  Identities=18%  Similarity=0.228  Sum_probs=34.6

Q ss_pred             CCccchH-HHHHHHHHh---hc---------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLV---ED---------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L---~~---------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+++|-+ .+++|.+.+   ..         ...+-|.++|++|+|||+||+.+++..
T Consensus         9 ~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~   66 (247)
T d1ixza_           9 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA   66 (247)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             HHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHc
Confidence            4688988 666665543   21         234678999999999999999999887

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=97.20  E-value=7.8e-05  Score=60.20  Aligned_cols=24  Identities=33%  Similarity=0.391  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +.|.++|++|+||||+|+.++...
T Consensus         3 k~I~l~G~~GsGKSTvak~La~~L   26 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQQL   26 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            468899999999999999999987

>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=97.20  E-value=9.7e-05  Score=60.21  Aligned_cols=25  Identities=32%  Similarity=0.414  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++|++|+|..|+|||||+..+.+..
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~~l   26 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIPAL   26 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4799999999999999999999875

>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=97.20  E-value=9e-05  Score=61.20  Aligned_cols=25  Identities=24%  Similarity=0.441  Sum_probs=23.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+.|+|.|++|+||||||+.+.+..
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~~   31 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAVF   31 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHh
Confidence            4789999999999999999999887

>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=97.13  E-value=0.00013  Score=58.48  Aligned_cols=24  Identities=29%  Similarity=0.272  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++|.|+|++|+||||||+.+....
T Consensus         3 klIii~G~pGsGKTTla~~L~~~~   26 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIAKN   26 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhC
Confidence            578899999999999999987655

>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=97.11  E-value=0.00021  Score=63.29  Aligned_cols=91  Identities=15%  Similarity=0.126  Sum_probs=54.2

Q ss_pred             CCccchH-HHHHHHHHhh----c---------CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCC-cchHhHHHHHHHH
Q 043070           98 ENTVDVS-RLNEVWRLVE----D---------NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNF-GLVILVKRIQHVM  162 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~----~---------~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F-~~~~wv~~l~~~i  162 (414)
                      .+++|.+ .+++|.+.+.    .         ...+-|.++|++|.|||+||+.+++..   ..+| ....  ..+    
T Consensus         7 ~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~---~~~~~~~~~--~~l----   77 (265)
T d1r7ra3           7 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANEC---QANFISIKG--PEL----   77 (265)
T ss_dssp             SSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHT---TCEEEEECH--HHH----
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHHh---CCcEEEEEH--HHh----
Confidence            4577887 6666665541    1         235678899999999999999999988   2332 2111  111    


Q ss_pred             HHHhcCCCCccCcCCHhHHHHHHHHHhCCCcEEEEEecCCCc
Q 043070          163 GYRLAMSNEVWDDKTKQGRAIDSSRRLGQRRFALLLDDLREP  204 (414)
Q Consensus       163 ~~~l~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~  204 (414)
                      .   + ..   .......+...+...-...+++|+|||++..
T Consensus        78 ~---~-~~---~~~~~~~l~~~f~~A~~~~p~il~ideid~l  112 (265)
T d1r7ra3          78 L---T-MW---FGESEANVREIFDKARQAAPCVLFFDELDSI  112 (265)
T ss_dssp             H---T-SC---TTTHHHHHHHHHHHHHHTCSEEEEESSGGGT
T ss_pred             h---h-cc---ccchHHHHHHHHHHHHhcCCcceeHHhhhhc
Confidence            0   1 10   1122233333333344567899999998643

>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=97.11  E-value=0.00013  Score=59.84  Aligned_cols=26  Identities=23%  Similarity=0.224  Sum_probs=23.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +-.+|.|+|++|+||||+|+.++...
T Consensus         5 ~g~~I~l~G~~GsGKTTia~~La~~L   30 (183)
T d1m8pa3           5 QGFTIFLTGYMNSGKDAIARALQVTL   30 (183)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            34689999999999999999999887

>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=97.10  E-value=0.00013  Score=59.40  Aligned_cols=24  Identities=21%  Similarity=0.403  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++|.|+|++|+||||+|+.+....
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            589999999999999999999876

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=97.09  E-value=0.00024  Score=58.30  Aligned_cols=24  Identities=25%  Similarity=0.286  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +.|.++|++|+||||+|+.+++..
T Consensus         3 ~~Iil~G~~GsGKSTia~~LA~~L   26 (170)
T d1e6ca_           3 EPIFMVGARGCGMTTVGRELARAL   26 (170)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHh
Confidence            356788999999999999999987

>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=97.09  E-value=0.00013  Score=59.62  Aligned_cols=25  Identities=40%  Similarity=0.395  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++.|.|+|++|+||||+|+.+....
T Consensus         4 ~~~I~i~G~pGsGKTTia~~La~~l   28 (173)
T d1rkba_           4 LPNILLTGTPGVGKTTLGKELASKS   28 (173)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHH
Confidence            3568899999999999999999887

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=97.06  E-value=0.00016  Score=60.65  Aligned_cols=28  Identities=21%  Similarity=0.316  Sum_probs=25.3

Q ss_pred             cCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          115 DNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       115 ~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..++.+|.|+|++|+||||+|+.+++.+
T Consensus         3 ~~kp~iI~i~G~pGSGKsT~a~~La~~~   30 (194)
T d1qf9a_           3 KSKPNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CCCCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            3567899999999999999999999887

>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=96.98  E-value=0.00037  Score=58.05  Aligned_cols=27  Identities=33%  Similarity=0.514  Sum_probs=24.2

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+.-+|+|.|.+|+||||||+.+....
T Consensus        20 ~~~~iIgI~G~~GSGKSTla~~L~~~l   46 (198)
T d1rz3a_          20 AGRLVLGIDGLSRSGKTTLANQLSQTL   46 (198)
T ss_dssp             SSSEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            556789999999999999999998876

>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=96.94  E-value=0.00067  Score=56.78  Aligned_cols=27  Identities=30%  Similarity=0.373  Sum_probs=25.1

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +..++|.|.|++|+||||+|+.+++.+
T Consensus         6 ~~~~iI~i~GppGSGKsT~a~~La~~~   32 (196)
T d1ukza_           6 DQVSVIFVLGGPGAGKGTQCEKLVKDY   32 (196)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            467899999999999999999999987

>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=96.90  E-value=0.0003  Score=57.28  Aligned_cols=27  Identities=26%  Similarity=0.402  Sum_probs=24.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...+++.|.|++|+||||+|+.+....
T Consensus         4 ~~~~iivl~G~~GsGKsT~a~~La~~l   30 (171)
T d1knqa_           4 HDHHIYVLMGVSGSGKSAVASEVAHQL   30 (171)
T ss_dssp             TTSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            456899999999999999999999887

>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=96.89  E-value=0.00023  Score=58.49  Aligned_cols=24  Identities=33%  Similarity=0.499  Sum_probs=22.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +.|.|+|++|+|||||+++++...
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l   25 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHH
Confidence            568999999999999999999887

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=96.84  E-value=0.0003  Score=57.90  Aligned_cols=24  Identities=21%  Similarity=0.339  Sum_probs=22.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++|+|.|++|+||||+++.+....
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l   25 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNL   25 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            689999999999999999999887

>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=96.81  E-value=0.00037  Score=56.85  Aligned_cols=26  Identities=19%  Similarity=0.221  Sum_probs=23.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +...|.|.|++|+||||+|+.+++..
T Consensus         4 k~~~I~i~G~~GsGKTT~~~~La~~l   29 (174)
T d1y63a_           4 KGINILITGTPGTGKTSMAEMIAAEL   29 (174)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHh
Confidence            44679999999999999999999877

>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=96.80  E-value=0.00059  Score=59.23  Aligned_cols=46  Identities=17%  Similarity=0.211  Sum_probs=39.5

Q ss_pred             CCCccchH-HHHHHHHHhhcCCc-eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           97 MENTVDVS-RLNEVWRLVEDNSV-RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~~~~-~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.+++|.+ .++.+.+++...++ ..+.|+|++|+||||+|+.+++..
T Consensus        11 ~~dlig~~~~~~~L~~~i~~~~~~~~~Ll~Gp~G~GKtt~a~~~~~~l   58 (239)
T d1njfa_          11 FADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGL   58 (239)
T ss_dssp             GGGSCSCHHHHHHHHHHHHTTCCCSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHccChHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHh
Confidence            36789999 99999999977554 468899999999999999998876

>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=96.79  E-value=0.00022  Score=59.49  Aligned_cols=25  Identities=32%  Similarity=0.376  Sum_probs=22.8

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.+|.++|++|+||||+|+.+....
T Consensus        19 g~vI~L~G~pGSGKTTiAk~La~~l   43 (195)
T d1x6va3          19 GCTVWLTGLSGAGKTTVSMALEEYL   43 (195)
T ss_dssp             CEEEEEESSCHHHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4688999999999999999998876

>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=96.79  E-value=0.00037  Score=56.84  Aligned_cols=25  Identities=32%  Similarity=0.477  Sum_probs=23.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++|.|.|.+|+||||+|+.+.+..
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~l   27 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSVL   27 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHc
Confidence            4789999999999999999999987

>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=96.78  E-value=0.00039  Score=58.71  Aligned_cols=25  Identities=24%  Similarity=0.381  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +.+|.++|.+|+||||+|+++++..
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~~l   26 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTRYL   26 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHH
Confidence            4589999999999999999999876

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.78  E-value=0.00034  Score=57.06  Aligned_cols=22  Identities=32%  Similarity=0.397  Sum_probs=19.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhh
Q 043070          121 ICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       121 i~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      |.++||+|+||||+|+.+++..
T Consensus         4 IvliG~~G~GKSTig~~La~~l   25 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAKAL   25 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5566999999999999999988

>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=96.75  E-value=0.0012  Score=56.02  Aligned_cols=52  Identities=27%  Similarity=0.395  Sum_probs=34.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH---------HHHHHHHHHHhcCCC
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV---------KRIQHVMGYRLAMSN  170 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv---------~~l~~~i~~~l~~~~  170 (414)
                      ..+.||.++|+.|+||||.+.+++... . +.. ..+..+         .+=++...+.++.+.
T Consensus         7 ~~p~vi~lvGptGvGKTTTiAKLA~~~-~-~~g-~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~   67 (211)
T d2qy9a2           7 KAPFVILMVGVNGVGKTTTIGKLARQF-E-QQG-KSVMLAAGDTFRAAAVEQLQVWGQRNNIPV   67 (211)
T ss_dssp             CTTEEEEEECCTTSCHHHHHHHHHHHH-H-TTT-CCEEEECCCTTCHHHHHHHHHHHHHTTCCE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH-H-HCC-CcEEEEecccccccchhhhhhhhhhcCCcc
Confidence            457899999999999999877777776 2 222 122222         455666677776654

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=96.75  E-value=0.00037  Score=56.62  Aligned_cols=22  Identities=36%  Similarity=0.454  Sum_probs=20.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhh
Q 043070          121 ICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       121 i~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      |.|+||+|+||||+|+.++...
T Consensus         3 I~liG~~GsGKsTi~k~La~~l   24 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAKDL   24 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7788999999999999999988

>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=96.68  E-value=0.00085  Score=58.88  Aligned_cols=27  Identities=26%  Similarity=0.225  Sum_probs=24.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +.++.|.++|++|+||||||+.+++..
T Consensus        30 ~~P~~ilL~GpPGtGKT~la~~la~~~   56 (273)
T d1gvnb_          30 ESPTAFLLGGQPGSGKTSLRSAIFEET   56 (273)
T ss_dssp             SSCEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            456779999999999999999999987

>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=96.66  E-value=0.00052  Score=55.86  Aligned_cols=24  Identities=25%  Similarity=0.235  Sum_probs=22.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++++|+|..|+|||||+..+....
T Consensus         2 kii~I~G~~gSGKTTli~~l~~~L   25 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVAAA   25 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHH
Confidence            689999999999999999998876

>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=96.63  E-value=0.00042  Score=56.53  Aligned_cols=26  Identities=27%  Similarity=0.250  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +-++|.|.|++|+||||+|+.+.+..
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            34789999999999999999998765

>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=96.58  E-value=0.00051  Score=56.53  Aligned_cols=27  Identities=15%  Similarity=0.193  Sum_probs=23.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +...+|.++|++|+||||+|+......
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~~~   38 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLVSA   38 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTGGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHhc
Confidence            356799999999999999999887654

>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=96.53  E-value=0.00074  Score=56.34  Aligned_cols=25  Identities=20%  Similarity=0.256  Sum_probs=23.0

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +.+|.|.|++|+||||.|+.+++.+
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            3689999999999999999999877

>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=96.52  E-value=0.0007  Score=57.56  Aligned_cols=25  Identities=28%  Similarity=0.407  Sum_probs=23.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+||+|-|++|+||||+|+.+.+++
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            4699999999999999999999998

>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=96.51  E-value=0.00093  Score=55.05  Aligned_cols=24  Identities=25%  Similarity=0.492  Sum_probs=22.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++|.|.|++|+||||+|+.+....
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~L   25 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEIL   25 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            688999999999999999999887

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=96.49  E-value=0.0014  Score=59.14  Aligned_cols=45  Identities=18%  Similarity=0.196  Sum_probs=34.8

Q ss_pred             CCccchH-HHHHHHHHhh--------------cCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVE--------------DNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~--------------~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..++|-+ .++.+...+.              +...+-+.++|++|+|||.||+.+++..
T Consensus        14 ~~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~   73 (309)
T d1ofha_          14 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA   73 (309)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhcc
Confidence            4568888 7777765441              1245778899999999999999999887

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.43  E-value=0.001  Score=58.71  Aligned_cols=86  Identities=13%  Similarity=0.139  Sum_probs=57.4

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH---HHHHHHHHHHhcCCCCcc---CcCCHhHHHHHHHHHh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV---KRIQHVMGYRLAMSNEVW---DDKTKQGRAIDSSRRL  189 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv---~~l~~~i~~~l~~~~~~~---~~~~~~~~~~~l~~~L  189 (414)
                      +.-+++-|.|.+|+||||||..++... ...+  ...+|+   ..+-.+.+++++...+..   ...+.++..+.+...+
T Consensus        58 ~~g~i~e~~G~~~~GKT~l~l~~~~~~-q~~g--~~~vyIDtE~~~~~e~a~~~GvD~d~il~~~~~~~E~~~~~~~~l~  134 (269)
T d1mo6a1          58 PRGRVIEIYGPESSGKTTVALHAVANA-QAAG--GVAAFIDAEHALDPDYAKKLGVDTDSLLVSQPDTGEQALEIADMLI  134 (269)
T ss_dssp             CSSSEEEEECSSSSSHHHHHHHHHHHH-HHTT--CEEEEEESSCCCCHHHHHHHTCCGGGCEEECCSSHHHHHHHHHHHH
T ss_pred             ccceeEEEecCCCcHHHHHHHHHHHHH-hcCC--CEEEEEECCccCCHHHHHHhCCCHHHeEEecCCCHHHHHHHHHHHH
Confidence            345799999999999999998887766 2222  346777   223334466666654421   4456777777666665


Q ss_pred             C-CCcEEEEEecCCCc
Q 043070          190 G-QRRFALLLDDLREP  204 (414)
Q Consensus       190 ~-~kr~LlVlDdv~~~  204 (414)
                      + ++.-|||+|.+-..
T Consensus       135 ~~~~~~liIiDSi~al  150 (269)
T d1mo6a1         135 RSGALDIVVIDSVAAL  150 (269)
T ss_dssp             HTTCEEEEEEECSTTC
T ss_pred             hcCCCCEEEEeccccc
Confidence            5 45789999987543

>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=96.43  E-value=0.0016  Score=55.27  Aligned_cols=30  Identities=30%  Similarity=0.432  Sum_probs=25.7

Q ss_pred             hhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          113 VEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       113 L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +...+..+|-+.|++|+||||||+.+....
T Consensus        19 ~~~~kg~vIwltGlsGsGKTTia~~L~~~l   48 (208)
T d1m7ga_          19 LRNQRGLTIWLTGLSASGKSTLAVELEHQL   48 (208)
T ss_dssp             HHTSSCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HhCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            444677899999999999999999998765

>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=96.41  E-value=0.00084  Score=54.90  Aligned_cols=23  Identities=30%  Similarity=0.508  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|+|+|++|+|||||++.+....
T Consensus         2 ki~I~G~~G~GKSTLl~~i~~~l   24 (178)
T d1ye8a1           2 KIIITGEPGVGKTTLVKKIVERL   24 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCcHHHHHHHHHHhcC
Confidence            38999999999999999999876

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=96.38  E-value=0.0008  Score=59.28  Aligned_cols=83  Identities=13%  Similarity=0.116  Sum_probs=54.1

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH---HHHHHHHHHHhcCCCCcc---CcCCHhHHHHHHHHHhC
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV---KRIQHVMGYRLAMSNEVW---DDKTKQGRAIDSSRRLG  190 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv---~~l~~~i~~~l~~~~~~~---~~~~~~~~~~~l~~~L~  190 (414)
                      .-+++-|+|.+|+||||||.+++.... ..+  ...+|+   ..+-...++.++...+..   ...+.++..+.+...++
T Consensus        53 ~g~itei~G~~gsGKTtl~l~~~~~~q-~~g--~~~vyidtE~~~~~~~a~~~Gvd~d~v~~~~~~~~E~~~~~i~~l~~  129 (263)
T d1u94a1          53 MGRIVEIYGPESSGKTTLTLQVIAAAQ-REG--KTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALAR  129 (263)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHH-HTT--CCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHH
T ss_pred             CceEEEEecCCCcHHHHHHHHHHHHHH-cCC--CEEEEEccccccCHHHHHHhCCCHHHEEEecCCCHHHHHHHHHHHHh
Confidence            346999999999999999999988772 222  334666   222334466666654321   34556666666666665


Q ss_pred             -CCcEEEEEecCC
Q 043070          191 -QRRFALLLDDLR  202 (414)
Q Consensus       191 -~kr~LlVlDdv~  202 (414)
                       ++.-|+|+|-+-
T Consensus       130 ~~~~~liViDSi~  142 (263)
T d1u94a1         130 SGAVDVIVVDSVA  142 (263)
T ss_dssp             HTCCSEEEEECGG
T ss_pred             cCCCCEEEEECcc
Confidence             345688999774

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=96.36  E-value=0.0026  Score=53.61  Aligned_cols=52  Identities=23%  Similarity=0.343  Sum_probs=35.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH---------HHHHHHHHHHhcCCC
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV---------KRIQHVMGYRLAMSN  170 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv---------~~l~~~i~~~l~~~~  170 (414)
                      ++.++|.++|+.|+||||.+.+++... . +.. ..+..+         .+-++...+.++.+.
T Consensus         4 ~~~~vi~lvGptGvGKTTTiaKLA~~~-~-~~g-~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~   64 (207)
T d1okkd2           4 PKGRVVLVVGVNGVGKTTTIAKLGRYY-Q-NLG-KKVMFCAGDTFRAAGGTQLSEWGKRLSIPV   64 (207)
T ss_dssp             CSSSEEEEECSTTSSHHHHHHHHHHHH-H-TTT-CCEEEECCCCSSTTHHHHHHHHHHHHTCCE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH-H-HCC-CcEEEEEeccccccchhhHhhcccccCceE
Confidence            356899999999999999887777766 2 222 234444         556667777776653

>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=96.33  E-value=0.0023  Score=54.23  Aligned_cols=83  Identities=22%  Similarity=0.243  Sum_probs=45.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH---------HHHHHHHHHHhcCCCCcc-CcCCHhHHHHHH
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV---------KRIQHVMGYRLAMSNEVW-DDKTKQGRAIDS  185 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv---------~~l~~~i~~~l~~~~~~~-~~~~~~~~~~~l  185 (414)
                      .++.||.++|+.|+||||.+.+++... ..++  ..+..+         .+-++...+.++.+.... ...+........
T Consensus         9 ~~p~vi~lvGptGvGKTTTiAKLAa~~-~~~~--~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~~~~~~~~d~~~~~~~~   85 (213)
T d1vmaa2           9 EPPFVIMVVGVNGTGKTTSCGKLAKMF-VDEG--KSVVLAAADTFRAAAIEQLKIWGERVGATVISHSEGADPAAVAFDA   85 (213)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHH-HHTT--CCEEEEEECTTCHHHHHHHHHHHHHHTCEEECCSTTCCHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH-HHCC--CceEEEeecccccchhHHHHHHhhhcCccccccCCCCcHHHHHHHH
Confidence            456799999999999998777777666 2222  233333         445666666666543211 223333333322


Q ss_pred             HH-HhCCCcEEEEEecC
Q 043070          186 SR-RLGQRRFALLLDDL  201 (414)
Q Consensus       186 ~~-~L~~kr~LlVlDdv  201 (414)
                      .. ...+..=++++|-.
T Consensus        86 ~~~~~~~~~d~ilIDTa  102 (213)
T d1vmaa2          86 VAHALARNKDVVIIDTA  102 (213)
T ss_dssp             HHHHHHTTCSEEEEEEC
T ss_pred             HHHHHHcCCCEEEEecc
Confidence            22 22223336677755

>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=96.28  E-value=0.0013  Score=55.73  Aligned_cols=25  Identities=16%  Similarity=0.231  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +-+|+|.|..|+||||+|+.+.+..
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~~l   26 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQLL   26 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHh
Confidence            4589999999999999999998876

>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=96.25  E-value=0.0012  Score=54.79  Aligned_cols=25  Identities=20%  Similarity=0.235  Sum_probs=22.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +..|.|.|++|+||||+|+.+++.+
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            4568899999999999999999888

>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=96.24  E-value=0.002  Score=56.88  Aligned_cols=38  Identities=24%  Similarity=0.330  Sum_probs=32.7

Q ss_pred             HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          105 RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       105 ~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++..+.+.+.....++|.+.|-||+||||+|..++...
T Consensus         7 ~~~~~~~~~~~~~~~iii~sGKGGVGKTT~a~nLA~~l   44 (279)
T d1ihua2           7 SLSALVDDIARNEHGLIMLMGKGGVGKTTMAAAIAVRL   44 (279)
T ss_dssp             CHHHHHHHHHTTSCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cHHHHHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            45667777888889999999999999999998888766

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=96.23  E-value=0.004  Score=52.51  Aligned_cols=82  Identities=20%  Similarity=0.233  Sum_probs=45.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH---------HHHHHHHHHHhcCCCCcc-CcCCHhHHHHHHH
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV---------KRIQHVMGYRLAMSNEVW-DDKTKQGRAIDSS  186 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv---------~~l~~~i~~~l~~~~~~~-~~~~~~~~~~~l~  186 (414)
                      +.+||.++|+.|+||||.+.+++....  +... .+..+         .+-++...+.++.+.... ...+.........
T Consensus         9 ~~~vi~lvGp~GvGKTTTiaKLA~~~~--~~g~-kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~~~~~~~~~~~   85 (207)
T d1ls1a2           9 DRNLWFLVGLQGSGKTTTAAKLALYYK--GKGR-RPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVE   85 (207)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHH--HTTC-CEEEEECCSSCHHHHHHHHHHHHHHTCCEEECCTTCCHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHH--HCCC-cEEEEecccccchHHHHHHHHHHhcCCccccccccchhhHHHHHHH
Confidence            458999999999999988877777662  2222 22333         555666666666553221 2234444433332


Q ss_pred             H--HhCCCcEEEEEecCC
Q 043070          187 R--RLGQRRFALLLDDLR  202 (414)
Q Consensus       187 ~--~L~~kr~LlVlDdv~  202 (414)
                      .  .+.+.. ++++|-..
T Consensus        86 ~~~~~~~~d-~vlIDTaG  102 (207)
T d1ls1a2          86 EKARLEARD-LILVDTAG  102 (207)
T ss_dssp             HHHHHHTCC-EEEEECCC
T ss_pred             HHHhhccCc-ceeecccc
Confidence            2  233444 44456543

>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=96.18  E-value=0.0028  Score=54.49  Aligned_cols=36  Identities=28%  Similarity=0.236  Sum_probs=29.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV  155 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv  155 (414)
                      .-.++.|+|.+|+|||+||.+++.+.   ......++|+
T Consensus        25 ~gsl~li~G~pGsGKT~l~~qia~~~---~~~~~~~~~i   60 (242)
T d1tf7a2          25 KDSIILATGATGTGKTLLVSRFVENA---CANKERAILF   60 (242)
T ss_dssp             SSCEEEEEECTTSSHHHHHHHHHHHH---HTTTCCEEEE
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHH---HHhcccccee
Confidence            45799999999999999999999887   3455555566

>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=96.17  E-value=0.0014  Score=53.86  Aligned_cols=23  Identities=22%  Similarity=0.301  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .|.|.|++|+||||+|+.++..+
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1zina1           2 NLVLMGLPGAGKGTQAEKIVAAY   24 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            37899999999999999999887

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=96.15  E-value=0.0018  Score=57.09  Aligned_cols=84  Identities=14%  Similarity=0.127  Sum_probs=58.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH---HHHHHHHHHHhcCCCCcc---CcCCHhHHHHHHHHHhC
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV---KRIQHVMGYRLAMSNEVW---DDKTKQGRAIDSSRRLG  190 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv---~~l~~~i~~~l~~~~~~~---~~~~~~~~~~~l~~~L~  190 (414)
                      .-+++-|.|.+|+||||||..++.... ..+  ..++|+   ..+-.++++.+|...+..   ...+.++..+.+...++
T Consensus        56 ~g~itei~G~~~sGKT~l~l~~~~~aq-k~g--~~v~yiDtE~~~~~~~a~~~Gvd~d~i~~~~~~~~E~~~~~~~~l~~  132 (268)
T d1xp8a1          56 RGRITEIYGPESGGKTTLALAIVAQAQ-KAG--GTCAFIDAEHALDPVYARALGVNTDELLVSQPDNGEQALEIMELLVR  132 (268)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHH-HTT--CCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHT
T ss_pred             CceEEEEecCCccchHHHHHHHHHHHH-hCC--CEEEEEECCccCCHHHHHHhCCCchhEEEEcCCCHHHHHHHHHHHHh
Confidence            457999999999999999999887762 222  345677   233335777887765432   45667777777776665


Q ss_pred             C-CcEEEEEecCCC
Q 043070          191 Q-RRFALLLDDLRE  203 (414)
Q Consensus       191 ~-kr~LlVlDdv~~  203 (414)
                      . ..-|+|+|-+-.
T Consensus       133 ~~~~~liIiDSi~a  146 (268)
T d1xp8a1         133 SGAIDVVVVDSVAA  146 (268)
T ss_dssp             TTCCSEEEEECTTT
T ss_pred             cCCCcEEEEecccc
Confidence            4 567899998754

>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=96.13  E-value=0.003  Score=53.37  Aligned_cols=52  Identities=25%  Similarity=0.285  Sum_probs=29.8

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH---------HHHHHHHHHHhcCCC
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV---------KRIQHVMGYRLAMSN  170 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv---------~~l~~~i~~~l~~~~  170 (414)
                      ..+.||.++|+.|+||||.+.+++... . .... .+..|         .+-++...+.++.+.
T Consensus        10 k~p~vi~lvGptGvGKTTTiAKLA~~~-~-~~g~-kV~lit~Dt~R~ga~eQL~~~a~~l~v~~   70 (211)
T d1j8yf2          10 KIPYVIMLVGVQGTGKATTAGKLAYFY-K-KKGF-KVGLVGADVYRPAALEQLQQLGQQIGVPV   70 (211)
T ss_dssp             SSSEEEEEECSCCC----HHHHHHHHH-H-HTTC-CEEEEECCCSSHHHHHHHHHHHHHHTCCE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH-H-HCCC-ceEEEEeeccccchhHHHHHhccccCcce
Confidence            457899999999999998777776666 2 2222 23333         444555666666543

>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=96.12  E-value=0.0016  Score=54.23  Aligned_cols=26  Identities=27%  Similarity=0.335  Sum_probs=23.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +.++|.|.|++|+||||+|+.+.+.+
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            45799999999999999999999887

>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=96.12  E-value=0.0016  Score=55.43  Aligned_cols=41  Identities=20%  Similarity=0.254  Sum_probs=29.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhHHHHHHHHHHH
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILVKRIQHVMGYR  165 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv~~l~~~i~~~  165 (414)
                      -+|+|-|++|+||||+|+.+..++. . .|++.    ..+++.++..
T Consensus         4 i~IaIdGp~GsGKgT~ak~La~~lg-~-~~ist----Gdl~R~~a~~   44 (223)
T d1q3ta_           4 IQIAIDGPASSGKSTVAKIIAKDFG-F-TYLDT----GAMYRAATYM   44 (223)
T ss_dssp             CEEEEECSSCSSHHHHHHHHHHHHC-C-EEEEH----HHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC-C-cEECH----HHHHHHHHHH
Confidence            4689999999999999999999982 1 22233    4555555543

>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=96.08  E-value=0.0019  Score=53.56  Aligned_cols=25  Identities=40%  Similarity=0.490  Sum_probs=21.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +.++| |+|++|+||||+|+.++..+
T Consensus         3 ~~rii-l~G~pGSGKsT~a~~La~~~   27 (190)
T d1ak2a1           3 GVRAV-LLGPPGAGKGTQAPKLAKNF   27 (190)
T ss_dssp             CCEEE-EECCTTSSHHHHHHHHHHHH
T ss_pred             ccEEE-EECCCCCCHHHHHHHHHHHh
Confidence            34555 78999999999999999887

>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=96.07  E-value=0.0019  Score=53.82  Aligned_cols=26  Identities=23%  Similarity=0.330  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ....|.|.|++|+||||+|+.++..+
T Consensus         5 r~mrIiliG~PGSGKtT~a~~La~~~   30 (189)
T d2ak3a1           5 RLLRAAIMGAPGSGKGTVSSRITKHF   30 (189)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHB
T ss_pred             cceeEEEECCCCCCHHHHHHHHHHHH
Confidence            34567788999999999999999887

>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=96.03  E-value=0.0058  Score=53.64  Aligned_cols=95  Identities=17%  Similarity=0.197  Sum_probs=53.7

Q ss_pred             HHHHHhhc-CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH---------HHHHHHHHHHhcC--CC---Cc
Q 043070          108 EVWRLVED-NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV---------KRIQHVMGYRLAM--SN---EV  172 (414)
Q Consensus       108 ~l~~~L~~-~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv---------~~l~~~i~~~l~~--~~---~~  172 (414)
                      +.++.|.. .+-..++|.|..|+|||+|+..+.++..  +.+=+..+++         .++.+++.+.--.  ..   ..
T Consensus        57 raID~l~pigkGQr~~If~~~g~GKt~l~~~i~~~~~--~~~~~v~V~~~iGer~~ev~~~~~~~~~~~~~~~~~~~~~t  134 (276)
T d2jdid3          57 KVVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVA--KAHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSKV  134 (276)
T ss_dssp             HHHHHHSCEETTCEEEEEECTTSSHHHHHHHHHHHHT--TTCSSEEEEEEESCCHHHHHHHHHHHHHHTSSCSSSSCCCE
T ss_pred             eeeeeeccccCCCEEEeeCCCCCCHHHHHHHHHHHHH--hhCCCeEEEEEeccChHHHHHHHHHHHhcCccccccccceE
Confidence            44555533 2334699999999999999999988751  3333445555         4455555543110  00   00


Q ss_pred             -----cCcCCHh------HHHHHHHHHhC---CCcEEEEEecCCCc
Q 043070          173 -----WDDKTKQ------GRAIDSSRRLG---QRRFALLLDDLREP  204 (414)
Q Consensus       173 -----~~~~~~~------~~~~~l~~~L~---~kr~LlVlDdv~~~  204 (414)
                           ..+.+..      ...-.+.+++.   ++.+|+++||+-..
T Consensus       135 vvv~~~s~~~~~~r~~~~~~a~~iAEyf~~~~G~~VLv~~Dsltr~  180 (276)
T d2jdid3         135 ALVYGQMNEPPGARARVALTGLTVAEYFRDQEGQDVLLFIDNIFRF  180 (276)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHHHHHHHHTTCSCEEEEEECTHHH
T ss_pred             EEEEECCCCCHHHHHHHHHHHHHHHHHHHhcCCCeEEEEEcchhHH
Confidence                 0111111      11223555653   78999999998443

>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=96.03  E-value=0.0018  Score=53.40  Aligned_cols=23  Identities=30%  Similarity=0.385  Sum_probs=21.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .|.|.|++|+||||+|+.++..+
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            47799999999999999999988

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.99  E-value=0.0019  Score=53.15  Aligned_cols=23  Identities=30%  Similarity=0.328  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|.|.|++|+||||+|+.+++.+
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            47888999999999999999988

>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=95.92  E-value=0.0022  Score=53.21  Aligned_cols=24  Identities=29%  Similarity=0.241  Sum_probs=20.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHH
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNK  140 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~  140 (414)
                      .+.+|+|+|+.|+||||+|..+-.
T Consensus         2 ~p~IIgitG~~gSGKstva~~l~~   25 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAALLRS   25 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999998743

>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=95.85  E-value=0.0023  Score=53.26  Aligned_cols=23  Identities=39%  Similarity=0.481  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .|.|+|++|+|||||++.+....
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~~   24 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQEH   24 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHhC
Confidence            47799999999999999998876

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Clostridium pasteurianum [TaxId: 1501]

Probab=95.80  E-value=0.0024  Score=56.08  Aligned_cols=24  Identities=29%  Similarity=0.458  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +.|+|+|-||+||||+|..++...
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA~~L   25 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLTSGL   25 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCcCCHHHHHHHHHHHH
Confidence            689999999999999999988776

>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=95.78  E-value=0.0042  Score=55.95  Aligned_cols=24  Identities=25%  Similarity=0.437  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++.++|++|+|||.||+.++...
T Consensus       124 g~~l~~G~pG~GKT~la~ala~~~  147 (321)
T d1w44a_         124 GMVIVTGKGNSGKTPLVHALGEAL  147 (321)
T ss_dssp             EEEEEECSSSSCHHHHHHHHHHHH
T ss_pred             ceEEEECCCCccHHHHHHHHHHHh
Confidence            456668999999999999999886

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.76  E-value=0.0027  Score=52.21  Aligned_cols=23  Identities=35%  Similarity=0.430  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .|.|.|++|+||||+|+.++...
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            35577999999999999999887

>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=95.74  E-value=0.0027  Score=52.02  Aligned_cols=23  Identities=30%  Similarity=0.294  Sum_probs=21.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .|.|.|++|+||||+|+.++...
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            46789999999999999999887

>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=95.74  E-value=0.0025  Score=52.77  Aligned_cols=24  Identities=42%  Similarity=0.566  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +.|.|+|++|+|||||++.+.+..
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~~~   25 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhC
Confidence            357899999999999999998876

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=95.71  E-value=0.0078  Score=51.71  Aligned_cols=26  Identities=31%  Similarity=0.218  Sum_probs=22.2

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|+.|+|||||.+.+..-.
T Consensus        31 ~Ge~~~liGpsGaGKSTLl~~i~Gl~   56 (239)
T d1v43a3          31 DGEFLVLLGPSGCGKTTTLRMIAGLE   56 (239)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcCC
Confidence            34689999999999999999987543

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.70  E-value=0.003  Score=52.02  Aligned_cols=24  Identities=33%  Similarity=0.638  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++|.|+|++|+|||||++.+..+.
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~~~   26 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRERI   26 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhC
Confidence            578999999999999999998775

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.62  E-value=0.0035  Score=51.55  Aligned_cols=24  Identities=21%  Similarity=0.380  Sum_probs=21.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +.|.|+|+.|+|||||++.+..+.
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~~~   27 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLITKH   27 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CcEEEECCCCCCHHHHHHHHHHhC
Confidence            578999999999999999998765

>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=95.53  E-value=0.021  Score=47.53  Aligned_cols=37  Identities=16%  Similarity=0.153  Sum_probs=31.4

Q ss_pred             HHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          106 LNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       106 ~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++.+.+++.......+.++|.+|+||||+|..+.+..
T Consensus         3 ~~~l~~~i~~~~~~~~l~~G~~g~gk~~~a~~l~~~i   39 (198)
T d2gnoa2           3 LETLKRIIEKSEGISILINGEDLSYPREVSLELPEYV   39 (198)
T ss_dssp             HHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            4556667777788999999999999999999998766

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=95.48  E-value=0.0087  Score=53.87  Aligned_cols=45  Identities=16%  Similarity=0.232  Sum_probs=36.1

Q ss_pred             CCccchH-HHHHHHHHhh-------c--CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           98 ENTVDVS-RLNEVWRLVE-------D--NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        98 ~~~vGr~-~~~~l~~~L~-------~--~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..++|-+ .++.+...+.       +  ....++.++|+.|+|||.||+.++.-.
T Consensus        22 ~~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l   76 (315)
T d1r6bx3          22 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL   76 (315)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhhc
Confidence            5578998 8888877662       1  234588999999999999999999876

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

Probab=95.46  E-value=0.0081  Score=53.01  Aligned_cols=95  Identities=19%  Similarity=0.180  Sum_probs=53.2

Q ss_pred             HHHHHhhc-CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH------HHHHHHHHHHhcCCCC-ccCcCCH-
Q 043070          108 EVWRLVED-NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV------KRIQHVMGYRLAMSNE-VWDDKTK-  178 (414)
Q Consensus       108 ~l~~~L~~-~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv------~~l~~~i~~~l~~~~~-~~~~~~~-  178 (414)
                      ++++.|.. ..-..++|.|..|+|||+|+..+.+...  .++-++++.+      .+-..++........- ...+.+. 
T Consensus        32 r~ID~l~PigrGQr~~I~g~~g~GKT~l~~~i~~~~~--~~~~~~v~~~~~iger~~ev~~~~~~~~~~vv~~t~d~~~~  109 (289)
T d1xpua3          32 RVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIA--YNHPDCVLMVLLIDERPEEVTEMQRLVKGEVVASTFDEPAS  109 (289)
T ss_dssp             HHHHHHSCCBTTCEEEEEECSSSSHHHHHHHHHHHHH--HHCTTSEEEEEEEEECHHHHHHHHHHCSSEEEEEETTSCHH
T ss_pred             eeeeecccccCCCeeeEeCCCCCCHHHHHHHHHHHHh--hcCCCeEEEEEeeceeHHHHHhHHhhcceEEEeccCCCchh
Confidence            66777754 3446899999999999999999998762  2333333333      2222333333211000 0011111 


Q ss_pred             -----hHHHHHHHHHh--CCCcEEEEEecCCCc
Q 043070          179 -----QGRAIDSSRRL--GQRRFALLLDDLREP  204 (414)
Q Consensus       179 -----~~~~~~l~~~L--~~kr~LlVlDdv~~~  204 (414)
                           ....-.+.+++  +++.+||++||+-..
T Consensus       110 ~r~~~~~~a~~iAEyfrd~G~dVLli~Dsltr~  142 (289)
T d1xpua3         110 RHVQVAEMVIEKAKRLVEHKKDVIILLDSITRL  142 (289)
T ss_dssp             HHHHHHHHHHHHHHHHHTTTCEEEEEESCHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhccCceeecCcHHHH
Confidence                 11222344444  478999999998544

>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=95.46  E-value=0.0029  Score=52.58  Aligned_cols=27  Identities=26%  Similarity=0.233  Sum_probs=23.7

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+..+|+|-|..|+||||+++.+.+..
T Consensus         7 ~kp~~I~ieG~~GsGKTTl~~~L~~~l   33 (197)
T d2vp4a1           7 TQPFTVLIEGNIGSGKTTYLNHFEKYK   33 (197)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGGGT
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            455689999999999999999998776

>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=95.18  E-value=0.0057  Score=54.24  Aligned_cols=25  Identities=28%  Similarity=0.372  Sum_probs=21.2

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+.|+|.|-||+||||+|..++...
T Consensus         2 Mr~IaisgKGGVGKTT~a~NLA~~L   26 (289)
T d2afhe1           2 MRQCAIYGKGGIGKSTTTQNLVAAL   26 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHHHHH
Confidence            3678999999999999988876655

>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=95.15  E-value=0.01  Score=49.81  Aligned_cols=38  Identities=11%  Similarity=0.334  Sum_probs=31.6

Q ss_pred             HHHHHHHHhhcCC-ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          105 RLNEVWRLVEDNS-VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       105 ~~~~l~~~L~~~~-~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+++.+.+..++ ...+.++|+.|+||||+|+.+++..
T Consensus        10 ~~~~l~~~~~~~~l~h~lLl~Gp~G~GKtt~a~~~a~~l   48 (207)
T d1a5ta2          10 DFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYL   48 (207)
T ss_dssp             HHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCcCeEEEEECCCCCcHHHHHHHHHHhc
Confidence            6777888887655 4469999999999999999998865

>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=95.14  E-value=0.006  Score=52.16  Aligned_cols=23  Identities=30%  Similarity=0.452  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ||+|+|+.|+|||||...+.+..
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~~   24 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRYL   24 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHH
Confidence            79999999999999999987654

>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=95.13  E-value=0.011  Score=53.33  Aligned_cols=36  Identities=14%  Similarity=0.198  Sum_probs=28.0

Q ss_pred             HHHHHHhh--cCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          107 NEVWRLVE--DNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       107 ~~l~~~L~--~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++++.+.  ..+..+|+|+|.+|+|||||...+....
T Consensus        41 ~~ll~~~~~~~~~~~~IgitG~pGaGKSTLi~~l~~~~   78 (327)
T d2p67a1          41 TQLLDAIMPYCGNTLRLGVTGTPGAGKSTFLEAFGMLL   78 (327)
T ss_dssp             HHHHHHHGGGCSCSEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHhhhccCCceEEEeeCCCCCCHHHHHHHHHHHH
Confidence            44444442  3568899999999999999999887665

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=95.00  E-value=0.0081  Score=53.07  Aligned_cols=27  Identities=19%  Similarity=0.287  Sum_probs=23.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...++|.+.|-||+||||+|..++...
T Consensus         6 ~~p~~i~~sGKGGVGKTTvaa~lA~~l   32 (296)
T d1ihua1           6 NIPPYLFFTGKGGVGKTSISCATAIRL   32 (296)
T ss_dssp             SCCSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCcChHHHHHHHHHHHH
Confidence            456889999999999999999988877

>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=94.99  E-value=0.014  Score=52.63  Aligned_cols=38  Identities=18%  Similarity=0.306  Sum_probs=29.2

Q ss_pred             HHHHHHHHh--hcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          105 RLNEVWRLV--EDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       105 ~~~~l~~~L--~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...++++.+  ...+..+|+|.|++|+|||||.-.+....
T Consensus        36 ~~~~~~~~~~~~~~~~~~igitG~pGaGKSTli~~l~~~~   75 (323)
T d2qm8a1          36 AVRDLIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGSLL   75 (323)
T ss_dssp             HHHHHHHHHGGGCCCSEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhccCCceEEeeeCCCCCCHHHHHHHHHHHH
Confidence            344555555  23567899999999999999999988765

>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=94.97  E-value=0.0058  Score=55.42  Aligned_cols=44  Identities=16%  Similarity=0.108  Sum_probs=31.7

Q ss_pred             CCCccchH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHH
Q 043070           97 MENTVDVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNK  140 (414)
Q Consensus        97 ~~~~vGr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~  140 (414)
                      -+.++|.+ -+..|.-.+-..+..-+.|.|.+|+||||||+.+..
T Consensus         6 f~~I~Gq~~~kral~laa~~~~~h~vLl~G~pG~GKT~lar~~~~   50 (333)
T d1g8pa_           6 FSAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAA   50 (333)
T ss_dssp             GGGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHH
T ss_pred             hhhccCcHHHHHHHHHHHhccCCCeEEEECCCCccHHHHHHHHHH
Confidence            35689999 666554333222223578999999999999999875

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.96  E-value=0.0075  Score=51.69  Aligned_cols=26  Identities=27%  Similarity=0.465  Sum_probs=23.8

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +++.|+|-|+-|+||||+++.+.+..
T Consensus         1 ~pk~IviEG~~GsGKST~~~~L~~~l   26 (241)
T d2ocpa1           1 GPRRLSIEGNIAVGKSTFVKLLTKTY   26 (241)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHC
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            36899999999999999999999876

>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=94.90  E-value=0.011  Score=52.93  Aligned_cols=73  Identities=14%  Similarity=0.010  Sum_probs=43.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCc-chH-hH--------HHHHHHHHHHhcCCCCccCcCCHhHHHHHH
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFG-LVI-LV--------KRIQHVMGYRLAMSNEVWDDKTKQGRAIDS  185 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~-~~~-wv--------~~l~~~i~~~l~~~~~~~~~~~~~~~~~~l  185 (414)
                      ..+-+|+|.|..|+||||+|+.+....   ...+. ..+ -+        ...+..  ..+.........-|.+.+.+.|
T Consensus        78 k~P~iIGIaG~sgSGKSTla~~L~~lL---~~~~~~~~v~~Is~D~F~~~~~~l~~--~~~~~~~g~Pes~D~~~L~~~L  152 (308)
T d1sq5a_          78 RIPYIISIAGSVAVGKSTTARVLQALL---SRWPEHRRVELITTDGFLHPNQVLKE--RGLMKKKGFPESYDMHRLVKFV  152 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHHH---TTSTTCCCEEEEEGGGGBCCHHHHHH--HTCTTCTTSGGGBCHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCCCcHHHHHHHHHH---hhhcCCCceEEEeeeeeECCchHHHH--hcCCccCCchHhhhHHHHHHHH
Confidence            346799999999999999999998876   22221 111 11        222211  1111111112457788888888


Q ss_pred             HHHhCCCc
Q 043070          186 SRRLGQRR  193 (414)
Q Consensus       186 ~~~L~~kr  193 (414)
                      .....++.
T Consensus       153 ~~lk~g~~  160 (308)
T d1sq5a_         153 SDLKSGVP  160 (308)
T ss_dssp             HHHTTTCS
T ss_pred             HHHHcCCC
Confidence            88777754

>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=94.79  E-value=0.0047  Score=54.66  Aligned_cols=26  Identities=27%  Similarity=0.407  Sum_probs=20.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +..+|+|.|.+|+||||+|+.+.+..
T Consensus         3 k~pIIgIaG~SGSGKTTva~~l~~i~   28 (288)
T d1a7ja_           3 KHPIISVTGSSGAGTSTVKHTFDQIF   28 (288)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHH
Confidence            56799999999999999999887765

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=94.56  E-value=0.01  Score=46.84  Aligned_cols=22  Identities=41%  Similarity=0.581  Sum_probs=19.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhh
Q 043070          121 ICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       121 i~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      |.|+|.+|+|||||...+..+.
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~~   24 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLGE   24 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            6799999999999999987654

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=94.52  E-value=0.011  Score=49.65  Aligned_cols=24  Identities=25%  Similarity=0.285  Sum_probs=21.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++|.|+|++|+|||||.+.+....
T Consensus         3 ~livi~GPSG~GK~tl~~~L~~~~   26 (205)
T d1s96a_           3 TLYIVSAPSGAGKSSLIQALLKTQ   26 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhC
Confidence            578999999999999999998765

>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=94.52  E-value=0.011  Score=49.74  Aligned_cols=24  Identities=38%  Similarity=0.533  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..|+|-|+.|+||||+++.+.+..
T Consensus         4 ~lI~ieG~dGsGKsT~~~~L~~~L   27 (209)
T d1nn5a_           4 ALIVLEGVDRAGKSTQSRKLVEAL   27 (209)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            578999999999999999999877

>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=94.52  E-value=0.0055  Score=52.40  Aligned_cols=25  Identities=24%  Similarity=0.382  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+.|+|-|+-|+||||+|+.+.+..
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L~~~l   26 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNILKQLC   26 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGGGC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHH
Confidence            4789999999999999999998876

>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=94.49  E-value=0.01  Score=51.05  Aligned_cols=25  Identities=32%  Similarity=0.202  Sum_probs=22.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.+++|+|+.|+|||||++.++.-.
T Consensus        29 Ge~~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          29 GEFMILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCChHHHHHHHHhcCC
Confidence            4689999999999999999998655

>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=94.45  E-value=0.027  Score=49.35  Aligned_cols=34  Identities=15%  Similarity=0.088  Sum_probs=24.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV  155 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv  155 (414)
                      .-++|+|..|+|||+|+.......   ..+-+.++++
T Consensus        68 Qr~~Ifg~~g~GKt~l~~~~~~~~---~~~~~v~V~~  101 (276)
T d1fx0a3          68 QRELIIGDRQTGKTAVATDTILNQ---QGQNVICVYV  101 (276)
T ss_dssp             CBCBEEESSSSSHHHHHHHHHHTC---CTTTCEEEEE
T ss_pred             ceEeeccCCCCChHHHHHHHHhhh---cccCceeeee
Confidence            458899999999999999876555   3333444554

>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=94.41  E-value=0.022  Score=50.22  Aligned_cols=27  Identities=15%  Similarity=0.191  Sum_probs=22.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+-+|+|.|..|+||||||..+....
T Consensus        25 ~~P~iIGi~G~qGSGKSTl~~~l~~~L   51 (286)
T d1odfa_          25 KCPLFIFFSGPQGSGKSFTSIQIYNHL   51 (286)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEeECCCCCCHHHHHHHHHHHH
Confidence            345699999999999999999887665

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=94.41  E-value=0.0077  Score=50.40  Aligned_cols=26  Identities=31%  Similarity=0.538  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|+.|+|||||.+.++.-.
T Consensus        26 ~Gei~~l~G~NGsGKSTLl~~i~gl~   51 (200)
T d1sgwa_          26 KGNVVNFHGPNGIGKTTLLKTISTYL   51 (200)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhccc
Confidence            34689999999999999999998755

>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=94.41  E-value=0.01  Score=51.18  Aligned_cols=26  Identities=27%  Similarity=0.339  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-..++|+|..|+|||||++.+..-.
T Consensus        28 ~Ge~vaIvG~sGsGKSTLl~ll~gl~   53 (241)
T d2pmka1          28 QGEVIGIVGRSGSGKSTLTKLIQRFY   53 (241)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcC
Confidence            34689999999999999999998755

>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=94.41  E-value=0.012  Score=48.95  Aligned_cols=23  Identities=39%  Similarity=0.655  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .|+|-|+.|+||||+++.+.+..
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~l   24 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGAF   24 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            58999999999999999998876

>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=94.40  E-value=0.018  Score=49.83  Aligned_cols=44  Identities=18%  Similarity=0.197  Sum_probs=34.7

Q ss_pred             CccchH-HHHHHHHHhhc--CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           99 NTVDVS-RLNEVWRLVED--NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        99 ~~vGr~-~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++||.. .++++.+.+..  ..-.-|.|.|..|+|||++|+.+++..
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            478888 88888888743  233457899999999999999998755

>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=94.36  E-value=0.01  Score=51.60  Aligned_cols=26  Identities=23%  Similarity=0.354  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        40 ~Ge~iaivG~sGsGKSTLl~ll~gl~   65 (253)
T d3b60a1          40 AGKTVALVGRSGSGKSTIASLITRFY   65 (253)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHTTTT
T ss_pred             CCCEEEEECCCCChHHHHHHHHhccc
Confidence            44689999999999999999987655

>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=94.35  E-value=0.011  Score=50.44  Aligned_cols=26  Identities=27%  Similarity=0.247  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +-.+++|+|+.|+|||||.+.++--.
T Consensus        25 ~Gei~~liGpsGsGKSTLl~~i~Gl~   50 (232)
T d2awna2          25 EGEFVVFVGPSGCGKSTLLRMIAGLE   50 (232)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcCC
Confidence            44689999999999999999987654

>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=94.29  E-value=0.011  Score=46.93  Aligned_cols=23  Identities=39%  Similarity=0.514  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|+|+|.+|+|||||...+.++.
T Consensus         7 kI~ivG~~~vGKSSLi~~~~~~~   29 (169)
T d1upta_           7 RILILGLDGAGKTTILYRLQVGE   29 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            37899999999999999887654

>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=94.28  E-value=0.01  Score=50.74  Aligned_cols=26  Identities=23%  Similarity=0.221  Sum_probs=22.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|..|+|||||.+.+..-.
T Consensus        30 ~Ge~~~iiG~sGsGKSTLl~~i~gl~   55 (230)
T d1l2ta_          30 EGEFVSIMGPSGSGKSTMLNIIGCLD   55 (230)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCcchhhHhccCCC
Confidence            44689999999999999999777644

>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=94.27  E-value=0.019  Score=46.17  Aligned_cols=34  Identities=29%  Similarity=0.670  Sum_probs=25.2

Q ss_pred             HHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHh
Q 043070          107 NEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       107 ~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      .++..++.+... -|.|+|.+|+|||||...+...
T Consensus         5 ~~~~~~~~~k~~-kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1           5 TRIWRLFNHQEH-KVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             HHHHHHHTTSCE-EEEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHHHHhCCCeE-EEEEECCCCCCHHHHHHHHhcC
Confidence            345555555554 4679999999999999887654

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=94.27  E-value=0.012  Score=48.49  Aligned_cols=26  Identities=27%  Similarity=0.480  Sum_probs=22.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      ++++.|+|+|.+|+|||||...+.+.
T Consensus        21 ~~~~~I~lvG~~n~GKSTLin~L~g~   46 (195)
T d1svia_          21 GGLPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             SCCCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHhcCC
Confidence            35678999999999999999999853

>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=94.25  E-value=0.0099  Score=51.08  Aligned_cols=26  Identities=31%  Similarity=0.276  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|..|+|||||++.++--.
T Consensus        30 ~Ge~~~iiG~sGsGKSTLl~~i~Gl~   55 (240)
T d3dhwc1          30 AGQIYGVIGASGAGKSTLIRCVNLLE   55 (240)
T ss_dssp             SSCEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcCCc
Confidence            34689999999999999999987654

>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=94.22  E-value=0.012  Score=49.47  Aligned_cols=20  Identities=30%  Similarity=0.403  Sum_probs=18.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q 043070          120 IICLHGVSRLGKTTLLYNLN  139 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~  139 (414)
                      +|+|+|+.|+||||+|+.+-
T Consensus         5 iIgitG~igSGKStv~~~l~   24 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAFA   24 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHHH
Confidence            89999999999999998653

>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=94.17  E-value=0.012  Score=51.03  Aligned_cols=27  Identities=22%  Similarity=0.287  Sum_probs=23.3

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-..++|+|..|+|||||++.+..-.
T Consensus        38 ~~Ge~vaivG~sGsGKSTLl~li~gl~   64 (251)
T d1jj7a_          38 RPGEVTALVGPNGSGKSTVAALLQNLY   64 (251)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhccc
Confidence            345799999999999999999987765

>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=94.14  E-value=0.011  Score=51.54  Aligned_cols=26  Identities=31%  Similarity=0.303  Sum_probs=22.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        27 ~GEi~~iiG~sGsGKSTLl~~i~Gl~   52 (258)
T d1b0ua_          27 AGDVISIIGSSGSGKSTFLRCINFLE   52 (258)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHcCc
Confidence            44699999999999999999997544

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=94.14  E-value=0.016  Score=49.05  Aligned_cols=25  Identities=40%  Similarity=0.497  Sum_probs=21.8

Q ss_pred             ceEEEEE-cCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLH-GVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~-G~gGiGKTtLA~~v~~~~  142 (414)
                      .++|+|+ |-||+||||+|..++...
T Consensus         1 ~kvIav~s~KGGvGKTtia~nlA~~l   26 (232)
T d1hyqa_           1 VRTITVASGKGGTGKTTITANLGVAL   26 (232)
T ss_dssp             CEEEEEEESSSCSCHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCChHHHHHHHHHHHH
Confidence            3789888 899999999999988776

>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=94.13  E-value=0.024  Score=50.84  Aligned_cols=44  Identities=18%  Similarity=0.254  Sum_probs=34.1

Q ss_pred             CccchH-HHHHHHHHhhc---------CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070           99 NTVDVS-RLNEVWRLVED---------NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus        99 ~~vGr~-~~~~l~~~L~~---------~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++|.+ .++.+.+.+..         ....++.++|+.|+|||.||+.+++..
T Consensus        24 ~v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l   77 (315)
T d1qvra3          24 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATL   77 (315)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHH
T ss_pred             eEeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHHHh
Confidence            467888 88887776621         224478899999999999999998765

>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=94.08  E-value=0.015  Score=50.05  Aligned_cols=27  Identities=30%  Similarity=0.410  Sum_probs=22.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-..++|+|..|+|||||++.+..-.
T Consensus        26 ~~Ge~vaivG~sGsGKSTLl~ll~gl~   52 (242)
T d1mv5a_          26 QPNSIIAFAGPSGGGKSTIFSLLERFY   52 (242)
T ss_dssp             CTTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            345799999999999999999987654

>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=94.08  E-value=0.013  Score=51.67  Aligned_cols=27  Identities=22%  Similarity=0.383  Sum_probs=23.2

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-.+++|+|+.|+|||||++.+....
T Consensus        60 ~~Ge~vaivG~nGsGKSTLl~~i~Gl~   86 (281)
T d1r0wa_          60 EKGEMLAITGSTGSGKTSLLMLILGEL   86 (281)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhCCC
Confidence            344789999999999999999998654

>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=94.08  E-value=0.028  Score=51.35  Aligned_cols=27  Identities=30%  Similarity=0.197  Sum_probs=24.6

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +..+.+.++|++|+|||++|..+++..
T Consensus       152 ~~~~~~~~~g~~~~gk~~~~~~~~~~~  178 (362)
T d1svma_         152 PKKRYWLFKGPIDSGKTTLAAALLELC  178 (362)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCcCeEEEECCCCCCHHHHHHHHHHHc
Confidence            455799999999999999999999988

>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=93.94  E-value=0.016  Score=47.99  Aligned_cols=26  Identities=27%  Similarity=0.253  Sum_probs=22.9

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.++.|.|.+|+|||+||.+++.+.
T Consensus        22 ~G~v~~i~G~~GsGKT~l~l~la~~~   47 (242)
T d1n0wa_          22 TGSITEMFGEFRTGKTQICHTLAVTC   47 (242)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHHH
Confidence            34699999999999999999998765

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=93.94  E-value=0.015  Score=49.80  Aligned_cols=24  Identities=21%  Similarity=0.212  Sum_probs=21.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -+++|+|+.|+|||||.+.++.-.
T Consensus        25 e~~~liGpnGaGKSTll~~i~Gl~   48 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEECCCCChHHHHHHHHHcCC
Confidence            478899999999999999998765

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=93.91  E-value=0.015  Score=48.67  Aligned_cols=21  Identities=33%  Similarity=0.317  Sum_probs=18.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHH
Q 043070          119 RIICLHGVSRLGKTTLLYNLN  139 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~  139 (414)
                      -+|+|+|..|+||||+|+.+-
T Consensus         3 ~iIgITG~igSGKStv~~~l~   23 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFT   23 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            479999999999999998664

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.73  E-value=0.017  Score=46.15  Aligned_cols=23  Identities=35%  Similarity=0.385  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|.++|.+|+|||||...+.+..
T Consensus         4 Kv~liG~~~vGKTsLl~~~~~~~   26 (165)
T d1z06a1           4 KIIVIGDSNVGKTCLTYRFCAGR   26 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            37899999999999999987654

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=93.70  E-value=0.013  Score=49.81  Aligned_cols=26  Identities=23%  Similarity=0.180  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|+.|+|||||.+.+..-.
T Consensus        25 ~Ge~~~liGpsGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          25 SGEYFVILGPTGAGKTLFLELIAGFH   50 (229)
T ss_dssp             TTCEEEEECCCTHHHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCc
Confidence            34689999999999999999998755

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.70  E-value=0.017  Score=46.66  Aligned_cols=23  Identities=26%  Similarity=0.366  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|.|+|.+|+|||||+..+.++.
T Consensus         5 KivvvG~~~vGKTsli~r~~~~~   27 (173)
T d2a5ja1           5 KYIIIGDTGVGKSCLLLQFTDKR   27 (173)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHhcCC
Confidence            37799999999999999877653

>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=93.63  E-value=0.023  Score=47.77  Aligned_cols=25  Identities=40%  Similarity=0.517  Sum_probs=22.9

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -+.|+|-|+-|+||||+++.+.+..
T Consensus         3 Gk~I~iEG~DGsGKST~~~~L~~~L   27 (214)
T d1tmka_           3 GKLILIEGLDRTGKTTQCNILYKKL   27 (214)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             eEEEEEECCCCCcHHHHHHHHHHHH
Confidence            4689999999999999999999877

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.57  E-value=0.02  Score=45.74  Aligned_cols=21  Identities=19%  Similarity=0.407  Sum_probs=18.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHHh
Q 043070          121 ICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       121 i~I~G~gGiGKTtLA~~v~~~  141 (414)
                      |+++|.+|+|||||...+.+.
T Consensus         5 v~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999887754

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.54  E-value=0.019  Score=45.98  Aligned_cols=23  Identities=26%  Similarity=0.301  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|.|+|.+|+|||||+..+.++.
T Consensus         6 KivlvG~~~vGKTsli~~~~~~~   28 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTEKK   28 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            37899999999999999887643

>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=93.53  E-value=0.022  Score=47.58  Aligned_cols=24  Identities=25%  Similarity=0.367  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +.|+|-|+.|+||||+++.+.+..
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~~L   26 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVETL   26 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            578999999999999999998876

>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=93.50  E-value=0.027  Score=45.36  Aligned_cols=26  Identities=31%  Similarity=0.423  Sum_probs=20.4

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      ++..-|+|+|.+|+|||||...+...
T Consensus        11 ~k~~kI~lvG~~~vGKTsLl~~l~~~   36 (186)
T d1f6ba_          11 KKTGKLVFLGLDNAGKTTLLHMLKDD   36 (186)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHHSCC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            34456889999999999998776443

>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=93.49  E-value=0.023  Score=48.61  Aligned_cols=26  Identities=27%  Similarity=0.186  Sum_probs=23.0

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-+++.|.|.+|+||||+|.++..+.
T Consensus        35 ~G~~~li~G~pGsGKT~~~lq~~~~~   60 (254)
T d1pzna2          35 TQAITEVFGEFGSGKTQLAHTLAVMV   60 (254)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHh
Confidence            44799999999999999999998765

>d1g3qa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=93.40  E-value=0.025  Score=47.80  Aligned_cols=24  Identities=42%  Similarity=0.533  Sum_probs=21.1

Q ss_pred             eEEEEE-cCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLH-GVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~-G~gGiGKTtLA~~v~~~~  142 (414)
                      ++|+|+ +-||+||||+|..++...
T Consensus         3 ~vIav~~~kGGvGKTtia~nLA~~l   27 (237)
T d1g3qa_           3 RIISIVSGKGGTGKTTVTANLSVAL   27 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHHH
Confidence            689999 779999999999988766

>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=93.39  E-value=0.02  Score=48.61  Aligned_cols=26  Identities=31%  Similarity=0.404  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++|..|.|.-|+|||||.+.+.+..
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~~   27 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNEQ   27 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHSC
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhcC
Confidence            57899999999999999998887654

>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=93.38  E-value=0.02  Score=45.69  Aligned_cols=22  Identities=32%  Similarity=0.516  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      -|.|+|.+|+|||||...+.+.
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~~   25 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNGE   25 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHcCC
Confidence            3779999999999999987543

>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=93.31  E-value=0.021  Score=45.47  Aligned_cols=22  Identities=23%  Similarity=0.362  Sum_probs=19.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhh
Q 043070          121 ICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       121 i~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      |.|+|.+|+|||||...+.++.
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~~   24 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYDS   24 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7899999999999999887643

>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=93.30  E-value=0.023  Score=47.10  Aligned_cols=24  Identities=33%  Similarity=0.343  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +.|+|+|.+|+|||||...+.+..
T Consensus         4 p~V~lvG~~n~GKTSLln~l~~~~   27 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLLTTDS   27 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            578999999999999999987653

>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=93.28  E-value=0.05  Score=49.68  Aligned_cols=26  Identities=35%  Similarity=0.333  Sum_probs=22.5

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...-+..+|+.|+|||.||+.++...
T Consensus        67 p~~niLfiGPTGvGKTElAk~LA~~~   92 (364)
T d1um8a_          67 SKSNILLIGPTGSGKTLMAQTLAKHL   92 (364)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCcceeeeCCCCccHHHHHHHHHhhc
Confidence            45668899999999999999998765

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=93.27  E-value=0.022  Score=45.74  Aligned_cols=22  Identities=32%  Similarity=0.532  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      -|.++|.+|+|||||...+.++
T Consensus         7 Ki~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           7 KILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            3789999999999999988754

>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=93.26  E-value=0.022  Score=45.85  Aligned_cols=23  Identities=30%  Similarity=0.450  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|.|+|.+|+|||||.+.+.+..
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~~   29 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQGL   29 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47899999999999999887643

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

Probab=93.21  E-value=0.039  Score=48.49  Aligned_cols=34  Identities=12%  Similarity=-0.004  Sum_probs=24.5

Q ss_pred             HHHHhhc-CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          109 VWRLVED-NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       109 l~~~L~~-~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++.|.. ..-..++|.|.+|+|||+|+..+....
T Consensus        58 aID~l~pig~GQr~~If~~~g~GKt~ll~~~~~~~   92 (285)
T d2jdia3          58 AVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQ   92 (285)
T ss_dssp             HHHHHSCCBTTCBCEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEecccCccCCCEEEeecCCCCChHHHHHHHHHhH
Confidence            4444433 233578999999999999998877654

>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=93.20  E-value=0.02  Score=49.19  Aligned_cols=26  Identities=31%  Similarity=0.341  Sum_probs=22.6

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +-.+++|+|+.|+|||||.+.+.--.
T Consensus        31 ~Gei~~liGpnGaGKSTl~~~i~Gl~   56 (240)
T d1ji0a_          31 RGQIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            34689999999999999999998655

>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=93.14  E-value=0.027  Score=48.02  Aligned_cols=24  Identities=33%  Similarity=0.497  Sum_probs=21.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++|+|+|..|+||||+|+.+.+..
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e~~   25 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMSNY   25 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhC
Confidence            689999999999999999997764

>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=93.11  E-value=0.026  Score=45.30  Aligned_cols=23  Identities=35%  Similarity=0.479  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .|+|+|.+|+|||||...+....
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~~   24 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKKK   24 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC--
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            68999999999999999887533

>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=93.08  E-value=0.021  Score=49.49  Aligned_cols=25  Identities=20%  Similarity=0.248  Sum_probs=22.3

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.+++|+|+.|+|||||++.+.--.
T Consensus        30 Gei~~liG~nGaGKSTLl~~i~Gl~   54 (254)
T d1g6ha_          30 GDVTLIIGPNGSGKSTLINVITGFL   54 (254)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHHCCC
Confidence            3689999999999999999998765

>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=93.05  E-value=0.024  Score=45.25  Aligned_cols=23  Identities=35%  Similarity=0.365  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|.++|.+|+|||||...+.+..
T Consensus         4 Ki~vvG~~~vGKTSli~~l~~~~   26 (166)
T d1g16a_           4 KILLIGDSGVGKSCLLVRFVEDK   26 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            37899999999999999887643

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.03  E-value=0.025  Score=45.28  Aligned_cols=23  Identities=26%  Similarity=0.358  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|.|+|.+|+|||+|...+.+..
T Consensus         5 KivlvG~~~vGKTsLi~r~~~~~   27 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCENK   27 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47899999999999999877543

>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=93.02  E-value=0.022  Score=48.84  Aligned_cols=26  Identities=31%  Similarity=0.273  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|+.|+|||||.+.+....
T Consensus        27 ~Gei~glvG~nGaGKSTLl~~l~G~~   52 (238)
T d1vpla_          27 EGEIFGLIGPNGAGKTTTLRIISTLI   52 (238)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            44699999999999999999888655

>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=93.02  E-value=0.025  Score=45.53  Aligned_cols=23  Identities=26%  Similarity=0.320  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|+|+|.+|+|||||...+.+..
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~~~~   26 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYVNDK   26 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHcCC
Confidence            47899999999999999876543

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=92.99  E-value=0.016  Score=49.76  Aligned_cols=26  Identities=23%  Similarity=0.132  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-.+++|+|..|+|||||.+.+..-.
T Consensus        30 ~Ge~~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          30 NGERFGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHcCc
Confidence            34699999999999999999998754

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.98  E-value=0.026  Score=45.17  Aligned_cols=23  Identities=22%  Similarity=0.611  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|+|+|.+|+|||||...+.++.
T Consensus         6 Ki~lvG~~~vGKTsli~rl~~~~   28 (167)
T d1z0ja1           6 KVCLLGDTGVGKSSIMWRFVEDS   28 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36789999999999999887654

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.94  E-value=0.026  Score=45.49  Aligned_cols=22  Identities=27%  Similarity=0.321  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      -|+++|.+|+|||||+..+...
T Consensus         7 KI~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           7 KFLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4889999999999999987654

>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=92.94  E-value=0.023  Score=45.61  Aligned_cols=21  Identities=24%  Similarity=0.540  Sum_probs=18.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHHh
Q 043070          121 ICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       121 i~I~G~gGiGKTtLA~~v~~~  141 (414)
                      |+++|.+|+|||||...+.++
T Consensus         5 i~viG~~~vGKTsLi~r~~~~   25 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKG   25 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            679999999999999887754

>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=92.93  E-value=0.026  Score=45.07  Aligned_cols=23  Identities=17%  Similarity=0.270  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|.++|-+|+|||||...+.++.
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~~   27 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47899999999999999887653

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.91  E-value=0.029  Score=44.01  Aligned_cols=23  Identities=35%  Similarity=0.416  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|+++|.+|+|||||...+.+..
T Consensus         2 KI~liG~~nvGKSSLln~l~~~~   24 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKNDR   24 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999877643

>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=92.90  E-value=0.027  Score=45.19  Aligned_cols=23  Identities=30%  Similarity=0.423  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|.++|.+|+|||||+..+.+..
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~~   30 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVKGQ   30 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47899999999999999887543

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.84  E-value=0.027  Score=45.41  Aligned_cols=23  Identities=17%  Similarity=0.371  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|.|+|.+|+|||||...+.+..
T Consensus         8 Kv~lvG~~~vGKTsLi~r~~~~~   30 (173)
T d2fn4a1           8 KLVVVGGGGVGKSALTIQFIQSY   30 (173)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47799999999999998877543

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.84  E-value=0.022  Score=46.42  Aligned_cols=22  Identities=36%  Similarity=0.508  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      -|.|+|.+|+|||||+..+.+.
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~~   28 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTDN   28 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            4789999999999999888753

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.83  E-value=0.026  Score=45.23  Aligned_cols=23  Identities=22%  Similarity=0.223  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|.++|.+|+|||||++.+.+..
T Consensus         3 Ki~lvG~~~vGKTsLi~~~~~~~   25 (168)
T d2gjsa1           3 KVLLLGAPGVGKSALARIFGGVE   25 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC-
T ss_pred             EEEEECCCCcCHHHHHHHHhCCc
Confidence            37899999999999998876543

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.77  E-value=0.029  Score=45.31  Aligned_cols=22  Identities=32%  Similarity=0.511  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      -|+|+|..|+|||||+..+.+.
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999987664

>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=92.74  E-value=0.027  Score=45.32  Aligned_cols=23  Identities=43%  Similarity=0.502  Sum_probs=19.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      --|+++|.+|+|||||...+...
T Consensus        17 ~kI~vvG~~~vGKSsLi~~l~~~   39 (176)
T d1fzqa_          17 VRILLLGLDNAGKTTLLKQLASE   39 (176)
T ss_dssp             EEEEEEESTTSSHHHHHHHHCCS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            45889999999999999887543

>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=92.72  E-value=0.029  Score=44.93  Aligned_cols=22  Identities=23%  Similarity=0.433  Sum_probs=19.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhh
Q 043070          121 ICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       121 i~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      |.++|.+|+|||+|...+.++.
T Consensus         5 i~lvG~~~vGKTsli~r~~~~~   26 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTKR   26 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            6789999999999999888654

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.70  E-value=0.029  Score=45.04  Aligned_cols=22  Identities=18%  Similarity=0.306  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      -|.|+|.+|+|||||...+.++
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999987764

>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=92.68  E-value=0.017  Score=50.06  Aligned_cols=27  Identities=22%  Similarity=0.356  Sum_probs=22.4

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-..++|+|..|+|||||++.+..-.
T Consensus        42 ~~Ge~vaivG~sGsGKSTLl~ll~gl~   68 (255)
T d2hyda1          42 EKGETVAFVGMSGGGKSTLINLIPRFY   68 (255)
T ss_dssp             CTTCEEEEECSTTSSHHHHHTTTTTSS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHHhcC
Confidence            344689999999999999998876544

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.68  E-value=0.032  Score=46.33  Aligned_cols=24  Identities=29%  Similarity=0.351  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +-|+|+|.+|+|||||...+....
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~~~   24 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLTGQ   24 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCC
Confidence            468999999999999999987654

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.56  E-value=0.032  Score=44.59  Aligned_cols=24  Identities=25%  Similarity=0.386  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-|+|+|.+|+|||||...+.+..
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~~~   28 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVEGQ   28 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCcCHHHHHHHHHhCC
Confidence            457899999999999999876543

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.55  E-value=0.032  Score=44.60  Aligned_cols=22  Identities=18%  Similarity=0.379  Sum_probs=19.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhh
Q 043070          121 ICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       121 i~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      |.++|.+|+|||+|...+.+..
T Consensus         6 ivvvG~~~vGKTsli~r~~~~~   27 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            7899999999999999887654

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.53  E-value=0.032  Score=44.57  Aligned_cols=23  Identities=22%  Similarity=0.384  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|+++|.+|+|||||...+.++.
T Consensus         5 Ki~viG~~~vGKTsli~~l~~~~   27 (166)
T d1ctqa_           5 KLVVVGAGGVGKSALTIQLIQNH   27 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            37899999999999999887653

>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=92.52  E-value=0.022  Score=46.15  Aligned_cols=21  Identities=29%  Similarity=0.509  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHHh
Q 043070          121 ICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       121 i~I~G~gGiGKTtLA~~v~~~  141 (414)
                      |+|+|.+|+|||||...+.+.
T Consensus         4 VaivG~~nvGKSTLin~L~~~   24 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTRA   24 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCSS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            899999999999999988653

>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=92.52  E-value=0.038  Score=47.06  Aligned_cols=27  Identities=33%  Similarity=0.240  Sum_probs=23.4

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-+++.|+|.+|+|||++|.+++...
T Consensus        35 p~G~~~~i~G~~GsGKT~lalq~~~~~   61 (258)
T d1v5wa_          35 ESMAITEAFGEFRTGKTQLSHTLCVTA   61 (258)
T ss_dssp             CSSEEEEEECCTTCTHHHHHHHHHHHT
T ss_pred             cCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            345799999999999999999998754

>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=92.51  E-value=0.034  Score=44.75  Aligned_cols=25  Identities=32%  Similarity=0.424  Sum_probs=21.7

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...|+|+|.+|+|||||...+.+..
T Consensus         5 ~~~I~iiG~~nvGKSSLin~L~~~~   29 (179)
T d1egaa1           5 CGFIAIVGRPNVGKSTLLNKLLGQK   29 (179)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHTCS
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCCC
Confidence            4578999999999999999998643

>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=92.51  E-value=0.076  Score=42.12  Aligned_cols=27  Identities=26%  Similarity=0.319  Sum_probs=23.9

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..-.+|.+.|.=|+||||+++.+.+..
T Consensus        31 ~~g~ii~L~G~LGaGKTtfvr~~~~~l   57 (158)
T d1htwa_          31 EKAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCCeEEEEecCCCccHHHHHHHHHhhc
Confidence            344689999999999999999999887

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=92.42  E-value=0.026  Score=48.17  Aligned_cols=23  Identities=35%  Similarity=0.427  Sum_probs=20.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHH
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNK  140 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~  140 (414)
                      -.+++|+|..|+|||||.+.+..
T Consensus        25 Gei~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          25 GEILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             TCEEECBCCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            36899999999999999988875

>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=92.41  E-value=0.033  Score=45.87  Aligned_cols=23  Identities=30%  Similarity=0.424  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|+|+|.+|+|||||...+.+..
T Consensus         8 KivvvG~~~vGKTsli~~l~~~~   30 (194)
T d2bcgy1           8 KLLLIGNSGVGKSCLLLRFSDDT   30 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHhhCC
Confidence            47899999999999999887643

>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=92.40  E-value=0.035  Score=44.87  Aligned_cols=25  Identities=32%  Similarity=0.400  Sum_probs=21.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ...|+|+|.+|+|||||...+.+..
T Consensus         5 ~~~I~lvG~~~~GKSSLin~l~~~~   29 (178)
T d1wf3a1           5 SGFVAIVGKPNVGKSTLLNNLLGVK   29 (178)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTSC
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCC
Confidence            3579999999999999999988653

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.35  E-value=0.035  Score=44.42  Aligned_cols=23  Identities=17%  Similarity=0.345  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|+++|..|+|||+|...+.+..
T Consensus         5 Ki~vvG~~~vGKTsLi~~~~~~~   27 (170)
T d1ek0a_           5 KLVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36789999999999999877653

>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=92.33  E-value=0.042  Score=46.48  Aligned_cols=25  Identities=20%  Similarity=0.224  Sum_probs=22.6

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.++.|.|.+|+|||++|..++.+.
T Consensus        34 G~l~~i~G~~G~GKT~~~l~~a~~~   58 (258)
T d2i1qa2          34 QSVTEFAGVFGSGKTQIMHQSCVNL   58 (258)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            4799999999999999999998765

>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=92.26  E-value=0.035  Score=46.99  Aligned_cols=26  Identities=31%  Similarity=0.271  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-+++-|.|.+|+||||||.++....
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            45799999999999999999887654

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.24  E-value=0.036  Score=44.73  Aligned_cols=23  Identities=30%  Similarity=0.283  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|.|+|.+|+|||+|...+.+..
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~~   26 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKDQ   26 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            46789999999999998876543

>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=92.21  E-value=0.032  Score=45.14  Aligned_cols=23  Identities=43%  Similarity=0.644  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|+|+|.+|+|||||...+.+..
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~~   24 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGKK   24 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            48999999999999999987643

>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=92.18  E-value=0.043  Score=44.61  Aligned_cols=23  Identities=22%  Similarity=0.335  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|.++|-+|+|||+|.+.+..+.
T Consensus         4 KivllG~~~vGKTsl~~r~~~~~   26 (195)
T d1svsa1           4 KLLLLGAGESGKSTIVKQMKIIH   26 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhhCC
Confidence            36899999999999998875544

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.11  E-value=0.042  Score=43.99  Aligned_cols=22  Identities=36%  Similarity=0.455  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      -|+|+|.+|+|||+|+..+.+.
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4899999999999999987654

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.06  E-value=0.04  Score=44.78  Aligned_cols=23  Identities=26%  Similarity=0.306  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|.|+|.+|+|||+|...+.++.
T Consensus         7 KivviG~~~vGKTsli~~~~~~~   29 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTNA   29 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            47899999999999999887643

>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=92.06  E-value=0.04  Score=43.80  Aligned_cols=23  Identities=26%  Similarity=0.294  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|+++|.+|+|||||...+....
T Consensus         4 ki~i~G~~~~GKTsLl~~l~~~~   26 (164)
T d1zd9a1           4 ELTLVGLQYSGKTTFVNVIASGQ   26 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            36789999999999998876543

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=91.95  E-value=0.03  Score=45.49  Aligned_cols=23  Identities=30%  Similarity=0.400  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      .-|+|+|.+++|||||...+.+.
T Consensus         2 ~~VaiiG~~nvGKSSLin~L~~~   24 (185)
T d1lnza2           2 ADVGLVGFPSVGKSTLLSVVSSA   24 (185)
T ss_dssp             CCEEEESSTTSSHHHHHHHSEEE
T ss_pred             CeEEEECCCCCCHHHHHHHHhCC
Confidence            35899999999999999987543

>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=91.91  E-value=0.045  Score=44.46  Aligned_cols=23  Identities=30%  Similarity=0.377  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|+++|.+|+|||||+..+.+..
T Consensus         4 Kv~vvG~~~vGKSSLi~~l~~~~   26 (184)
T d1vg8a_           4 KVIILGDSGVGKTSLMNQYVNKK   26 (184)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            37899999999999999887643

>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=91.90  E-value=0.057  Score=43.29  Aligned_cols=32  Identities=31%  Similarity=0.474  Sum_probs=22.8

Q ss_pred             HHHhh-cCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          110 WRLVE-DNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       110 ~~~L~-~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+.+. ...++ |.++|.+|+|||||...+.+..
T Consensus         4 ~~~~~~~k~~k-IvlvG~~~vGKTSli~rl~~~~   36 (173)
T d1e0sa_           4 LSKIFGNKEMR-ILMLGLDAAGKTTILYKLKLGQ   36 (173)
T ss_dssp             HHHHHTTCCEE-EEEEEETTSSHHHHHHHTTCCC
T ss_pred             hhhhhCCCeEE-EEEECCCCCCHHHHHHHHhcCC
Confidence            33343 34455 6689999999999999876543

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.87  E-value=0.042  Score=44.79  Aligned_cols=23  Identities=26%  Similarity=0.307  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|.|+|.+|+|||+|...+.++.
T Consensus        11 Ki~lvG~~~vGKTsLi~r~~~~~   33 (185)
T d2atxa1          11 KCVVVGDGAVGKTCLLMSYANDA   33 (185)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhhCC
Confidence            47899999999999998876643

>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=91.80  E-value=0.06  Score=44.65  Aligned_cols=24  Identities=21%  Similarity=0.246  Sum_probs=21.1

Q ss_pred             eEEEEEcCC-CCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVS-RLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~g-GiGKTtLA~~v~~~~  142 (414)
                      +.+-|.|-| |+||||++..++...
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aL   26 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAA   26 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHH
Confidence            568899998 999999998888776

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.74  E-value=0.045  Score=43.97  Aligned_cols=22  Identities=23%  Similarity=0.366  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      -|.++|.+|+|||||...+.+.
T Consensus         8 KI~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           8 KVILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4889999999999999887654

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.72  E-value=0.046  Score=44.10  Aligned_cols=22  Identities=32%  Similarity=0.504  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhh
Q 043070          121 ICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       121 i~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      |.++|.+|+|||||...+.+..
T Consensus        10 i~vvG~~~vGKTsli~~l~~~~   31 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDDT   31 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7899999999999999876543

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=91.67  E-value=0.043  Score=44.91  Aligned_cols=19  Identities=37%  Similarity=0.511  Sum_probs=17.2

Q ss_pred             EEEEEcCCCCcHHHHHHHH
Q 043070          120 IICLHGVSRLGKTTLLYNL  138 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v  138 (414)
                      -|.|+|.+|+|||||...+
T Consensus         4 KivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4679999999999999887

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.57  E-value=0.049  Score=43.76  Aligned_cols=22  Identities=27%  Similarity=0.297  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      -|.++|.+|+|||||...+...
T Consensus         5 Kv~lvG~~~vGKTsLi~~~~~~   26 (172)
T d2g3ya1           5 RVVLIGEQGVGKSTLANIFAGV   26 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999887643

>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=91.49  E-value=0.081  Score=49.56  Aligned_cols=24  Identities=29%  Similarity=0.347  Sum_probs=21.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +=|.++|+.|+|||.||+.++.-.
T Consensus        50 sNILliGPTGvGKTlLAr~LAk~l   73 (443)
T d1g41a_          50 KNILMIGPTGVGKTEIARRLAKLA   73 (443)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             ccEEEECCCCCCHHHHHHHHHHHh
Confidence            458899999999999999999866

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=91.44  E-value=0.051  Score=43.49  Aligned_cols=23  Identities=22%  Similarity=0.358  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|.++|.+|+|||||...+.++.
T Consensus         6 Ki~lvG~~~vGKTsll~~~~~~~   28 (169)
T d1x1ra1           6 KLVVVGDGGVGKSALTIQFFQKI   28 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36788999999999999987654

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=91.41  E-value=0.052  Score=43.39  Aligned_cols=24  Identities=17%  Similarity=0.248  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-|.++|-+|+|||||...+.++.
T Consensus         5 ~KivlvG~~~vGKTsli~~~~~~~   28 (168)
T d1u8za_           5 HKVIMVGSGGVGKSALTLQFMYDE   28 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCcCHHHHHHHHHhCC
Confidence            457899999999999999876543

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=91.24  E-value=0.054  Score=43.87  Aligned_cols=22  Identities=41%  Similarity=0.467  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHhh
Q 043070          121 ICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       121 i~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      |.++|..|+|||+|.+.+.+..
T Consensus         5 ivliG~~~vGKTsli~r~~~~~   26 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKDC   26 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6789999999999999887654

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=91.23  E-value=0.056  Score=42.57  Aligned_cols=22  Identities=27%  Similarity=0.478  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      -|+++|.+|+|||||...+...
T Consensus         3 kI~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3679999999999999988754

>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=91.17  E-value=0.097  Score=44.10  Aligned_cols=35  Identities=26%  Similarity=0.495  Sum_probs=26.9

Q ss_pred             HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          105 RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       105 ~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+++|.++|.+   +..+++|.+|+|||||...+..+.
T Consensus        85 g~~~L~~~l~~---kt~~~~G~SGVGKSTLiN~L~~~~  119 (225)
T d1u0la2          85 GIEELKEYLKG---KISTMAGLSGVGKSSLLNAINPGL  119 (225)
T ss_dssp             THHHHHHHHSS---SEEEEECSTTSSHHHHHHHHSTTC
T ss_pred             hHhhHHHHhcC---CeEEEECCCCCCHHHHHHhhcchh
Confidence            45566666642   578899999999999999886554

>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=91.09  E-value=0.03  Score=45.02  Aligned_cols=22  Identities=27%  Similarity=0.235  Sum_probs=17.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      -|.++|.+|+|||||...+.+.
T Consensus         5 Ki~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           5 KLVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEEECTTSSHHHHHHTTC--
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3788999999999999876544

>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=91.04  E-value=0.063  Score=43.71  Aligned_cols=23  Identities=22%  Similarity=0.329  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|.++|.+|+|||+|...+....
T Consensus         4 Kiv~lG~~~vGKTsll~r~~~~~   26 (200)
T d2bcjq2           4 KLLLLGTGESGKSTFIKQMRIIH   26 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            36789999999999999885544

>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=91.02  E-value=0.056  Score=43.75  Aligned_cols=23  Identities=26%  Similarity=0.398  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|+|+|.+|+|||||...+.+..
T Consensus        10 kV~iiG~~~~GKSTLin~l~~~~   32 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILNKE   32 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTST
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC
Confidence            48999999999999999887643

>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=90.99  E-value=0.065  Score=43.39  Aligned_cols=24  Identities=21%  Similarity=0.203  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +-|.|.|.+|+||||||..+..+-
T Consensus        15 ~gvl~~G~sG~GKStlal~l~~~g   38 (176)
T d1kkma_          15 LGVLITGDSGVGKSETALELVQRG   38 (176)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHTT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHcC
Confidence            568899999999999999877643

>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=90.94  E-value=0.068  Score=44.73  Aligned_cols=24  Identities=25%  Similarity=0.163  Sum_probs=20.3

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHH
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNK  140 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~  140 (414)
                      .-.++.|.|.+|+|||+||.+++.
T Consensus        25 ~G~~~~I~G~~G~GKT~la~~~~~   48 (242)
T d1tf7a1          25 IGRSTLVSGTSGTGKTLFSIQFLY   48 (242)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHH
Confidence            457999999999999999977543

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.90  E-value=0.061  Score=43.44  Aligned_cols=23  Identities=22%  Similarity=0.271  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|+++|.+|+|||||...+.+..
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~~~   29 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLTGS   29 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            57899999999999999887654

>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=90.82  E-value=0.043  Score=44.18  Aligned_cols=25  Identities=24%  Similarity=0.348  Sum_probs=21.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHH
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNK  140 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~  140 (414)
                      ++...|+|+|.+++|||||...+..
T Consensus        14 ~~~~~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          14 DTGIEVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             SCSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHhC
Confidence            3457899999999999999987744

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=90.81  E-value=0.044  Score=44.37  Aligned_cols=26  Identities=38%  Similarity=0.497  Sum_probs=20.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      .+---|.++|.+|+|||||...+.+.
T Consensus        15 ~k~~KI~lvG~~~vGKTsLi~~l~~~   40 (182)
T d1moza_          15 NKELRILILGLDGAGKTTILYRLQIG   40 (182)
T ss_dssp             SSCEEEEEEEETTSSHHHHHHHTCCS
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcC
Confidence            33345679999999999999876443

>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=90.75  E-value=0.063  Score=43.84  Aligned_cols=23  Identities=26%  Similarity=0.291  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|.++|.+|+|||+|...+.+..
T Consensus         5 KvvllG~~~vGKTSli~r~~~~~   27 (191)
T d2ngra_           5 KCVVVGDGAVGKTCLLISYTTNK   27 (191)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36789999999999998876543

>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=90.59  E-value=0.068  Score=46.23  Aligned_cols=24  Identities=21%  Similarity=0.248  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+..|+|.+|+||||||..++-..
T Consensus        30 ~~~~i~G~~G~GKS~l~l~la~~i   53 (274)
T d1nlfa_          30 TVGALVSPGGAGKSMLALQLAAQI   53 (274)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHH
Confidence            578899999999999998887665

>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=90.51  E-value=1.3  Score=36.99  Aligned_cols=52  Identities=17%  Similarity=0.079  Sum_probs=39.4

Q ss_pred             chH-HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhH
Q 043070          102 DVS-RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILV  155 (414)
Q Consensus       102 Gr~-~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv  155 (414)
                      ... ..+++.+.+..+......++|-.|+|||-++-......-  ...+...+-+
T Consensus        59 ~Q~~~~~~i~~~~~~~~~~~~LL~GdvGsGKT~V~~~a~~~~~--~~g~qv~~l~  111 (233)
T d2eyqa3          59 DQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAV--DNHKQVAVLV  111 (233)
T ss_dssp             HHHHHHHHHHHHHHSSSCCEEEEECCCCTTTHHHHHHHHHHHH--TTTCEEEEEC
T ss_pred             hHHHHHHHHHHHHhccCccCeEEEcCCCCCcHHHHHHHHHHHH--HcCCceEEEc
Confidence            455 788888888888888999999999999999988776651  3444444444

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=90.27  E-value=0.044  Score=44.06  Aligned_cols=22  Identities=32%  Similarity=0.536  Sum_probs=8.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      -|.|+|-+|+|||||...+.++
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           8 KLLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEEECCCCC------------
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999877643

>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=90.11  E-value=0.074  Score=43.05  Aligned_cols=23  Identities=30%  Similarity=0.339  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKK  141 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~  141 (414)
                      .-|.|.|.+|+||||||..+..+
T Consensus        16 ~gvli~G~sG~GKS~lal~l~~~   38 (177)
T d1knxa2          16 VGVLLTGRSGIGKSECALDLINK   38 (177)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHTT
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHc
Confidence            46789999999999999888754

>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=90.04  E-value=0.087  Score=42.31  Aligned_cols=24  Identities=25%  Similarity=0.235  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-|.|.|.+|+||||||.....+-
T Consensus        16 ~gvli~G~sg~GKS~la~~l~~~g   39 (169)
T d1ko7a2          16 VGVLITGDSGIGKSETALELIKRG   39 (169)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHTT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHcC
Confidence            568899999999999998877654

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=89.96  E-value=0.093  Score=44.05  Aligned_cols=24  Identities=21%  Similarity=0.318  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .-|.++|.+|+|||||.+.+....
T Consensus         7 ~KilllG~~~vGKTsll~~~~~~~   30 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMRILH   30 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            457899999999999998875433

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=89.52  E-value=0.034  Score=43.83  Aligned_cols=23  Identities=30%  Similarity=0.400  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|+++|.+|+|||||...+....
T Consensus         2 kI~liG~~n~GKSSLin~l~g~~   24 (160)
T d1xzpa2           2 RMVIVGKPNVGKSTLLNRLLNED   24 (160)
T ss_dssp             EEEEECCHHHHTCHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            37899999999999999987654

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=89.25  E-value=0.1  Score=45.45  Aligned_cols=26  Identities=23%  Similarity=0.078  Sum_probs=22.7

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +++-|+|+|-+|.|||||+-.+....
T Consensus         5 ~iRni~i~gh~~~GKTtL~e~ll~~~   30 (276)
T d2bv3a2           5 RLRNIGIAAHIDAGKTTTTERILYYT   30 (276)
T ss_dssp             GEEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             hceEEEEEeCCCCCHHHHHHHHHHhc
Confidence            56789999999999999999887655

>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=88.64  E-value=0.14  Score=43.11  Aligned_cols=24  Identities=33%  Similarity=0.398  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++|+|+|-.++|||||...+....
T Consensus         6 p~IaIiGh~d~GKSTL~~~L~~~~   29 (227)
T d1g7sa4           6 PIVSVLGHVDHGKTTLLDHIRGSA   29 (227)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEeCCCccHHHHHHHHHhhc
Confidence            579999999999999998886654

>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=88.44  E-value=0.21  Score=42.83  Aligned_cols=38  Identities=16%  Similarity=0.195  Sum_probs=27.5

Q ss_pred             HHHHHHHHhhc--CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          105 RLNEVWRLVED--NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       105 ~~~~l~~~L~~--~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .+.++...+.+  ...--|+++|..|+|||||...+....
T Consensus        17 ~l~e~~~~l~~~~~~~l~I~LvG~tg~GKSSliN~ilg~~   56 (257)
T d1h65a_          17 KLLELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGER   56 (257)
T ss_dssp             HHHHHHHHHHHTTCCEEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             HHHHHHHHHhhcCCCCcEEEEECCCCCcHHHHHHHHhCCC
Confidence            44455555543  234568899999999999999998754

>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=87.82  E-value=0.17  Score=43.84  Aligned_cols=25  Identities=40%  Similarity=0.398  Sum_probs=21.1

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++-|+|+|-.|.|||||+-.+....
T Consensus         2 iRNv~iiGh~~~GKTtL~e~ll~~~   26 (267)
T d2dy1a2           2 IRTVALVGHAGSGKTTLTEALLYKT   26 (267)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             eeEEEEEcCCCCcHHHHHHHHHHHc
Confidence            3679999999999999999885443

>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=87.68  E-value=0.17  Score=43.64  Aligned_cols=24  Identities=21%  Similarity=0.373  Sum_probs=21.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      .++.|.|.+|+||||++..+..+.
T Consensus        36 ~l~vi~G~~G~GKT~~~~~la~~~   59 (277)
T d1cr2a_          36 EVIMVTSGSGMGKSTFVRQQALQW   59 (277)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHhh
Confidence            588899999999999999988664

>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=87.61  E-value=0.92  Score=38.04  Aligned_cols=26  Identities=19%  Similarity=0.215  Sum_probs=22.4

Q ss_pred             CceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          117 SVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       117 ~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +.+++.|.|+...||||+.+.+.-..
T Consensus        40 ~~~~~iiTGpN~~GKSt~lk~i~l~~   65 (234)
T d1wb9a2          40 QRRMLIITGPNMGGKSTYMRQTALIA   65 (234)
T ss_dssp             SSCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CceEEEEeccCchhhHHHHHHHHHHH
Confidence            44789999999999999999987654

>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=87.31  E-value=0.18  Score=45.75  Aligned_cols=35  Identities=23%  Similarity=0.166  Sum_probs=25.2

Q ss_pred             HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          105 RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       105 ~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ....+...+.   .++..|.|.+|.||||++..+....
T Consensus       153 Q~~A~~~al~---~~~~vI~G~pGTGKTt~i~~~l~~l  187 (359)
T d1w36d1         153 QKVAAAVALT---RRISVISGGPGTGKTTTVAKLLAAL  187 (359)
T ss_dssp             HHHHHHHHHT---BSEEEEECCTTSTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHc---CCeEEEEcCCCCCceehHHHHHHHH
Confidence            4445555553   3689999999999999987665444

>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=87.15  E-value=0.27  Score=40.33  Aligned_cols=38  Identities=11%  Similarity=0.131  Sum_probs=29.6

Q ss_pred             HHHHHHHHhhc-CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          105 RLNEVWRLVED-NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       105 ~~~~l~~~L~~-~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -+..+..+|.. ++...+.++|+++.|||++|..+.+-.
T Consensus        39 Fl~~l~~~l~~~PKkn~i~~~GP~~TGKS~f~~sl~~~l   77 (205)
T d1tuea_          39 FLGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFI   77 (205)
T ss_dssp             HHHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCCceEEEEECCCCccHHHHHHHHHHHh
Confidence            44555566633 566899999999999999998887765

>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=86.93  E-value=0.18  Score=45.16  Aligned_cols=25  Identities=28%  Similarity=0.275  Sum_probs=22.4

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +-.|.|=|.-|+||||+++.+.+..
T Consensus         6 ~~rI~iEG~iGsGKSTl~~~L~~~l   30 (333)
T d1p6xa_           6 IVRIYLDGVYGIGKSTTGRVMASAA   30 (333)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHSGG
T ss_pred             eEEEEEECCccCCHHHHHHHHHHHh
Confidence            4578889999999999999999876

>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=86.81  E-value=0.14  Score=45.66  Aligned_cols=84  Identities=14%  Similarity=0.065  Sum_probs=45.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhHHHHHHHHHHHhcCCCC--ccCcCCHhHHHHHHHHHhCCCcEEEE
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILVKRIQHVMGYRLAMSNE--VWDDKTKQGRAIDSSRRLGQRRFALL  197 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv~~l~~~i~~~l~~~~~--~~~~~~~~~~~~~l~~~L~~kr~LlV  197 (414)
                      -|.|+|..|+||||+.+.+.....   ..- .++-+++-.+-   .+.....  .......-...+.++..|+...=.||
T Consensus       168 nili~G~tgSGKTT~l~al~~~i~---~~~-rivtiEd~~El---~l~~~~~~~~~~~~~~~~~~~ll~~~lR~~pd~ii  240 (323)
T d1g6oa_         168 NVIVCGGTGSGKTTYIKSIMEFIP---KEE-RIISIEDTEEI---VFKHHKNYTQLFFGGNITSADCLKSCLRMRPDRII  240 (323)
T ss_dssp             CEEEEESTTSSHHHHHHHHGGGSC---TTC-CEEEEESSCCC---CCSSCSSEEEEECBTTBCHHHHHHHHTTSCCSEEE
T ss_pred             CEEEEeeccccchHHHHHHhhhcc---ccc-ceeeccchhhh---hcccccccceeccccchhHHHHHHHHhccCCCccc
Confidence            478999999999999999887552   100 00000000000   0000000  00111112345567778888888889


Q ss_pred             EecCCCccchhhh
Q 043070          198 LDDLREPIDLKTA  210 (414)
Q Consensus       198 lDdv~~~~~~~~~  210 (414)
                      +..+.+.+.+..+
T Consensus       241 vgEiR~~ea~~~l  253 (323)
T d1g6oa_         241 LGELRSSEAYDFY  253 (323)
T ss_dssp             ESCCCSTHHHHHH
T ss_pred             CCccCchhHHHHH
Confidence            9999887766544

>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=86.17  E-value=0.19  Score=40.42  Aligned_cols=21  Identities=33%  Similarity=0.309  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 043070          120 IICLHGVSRLGKTTLLYNLNK  140 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~  140 (414)
                      -|+|+|..++|||||...+..
T Consensus         7 nIaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            589999999999999998864

>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=85.57  E-value=0.27  Score=44.04  Aligned_cols=36  Identities=22%  Similarity=0.326  Sum_probs=27.8

Q ss_pred             HHHHHHhhc-CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          107 NEVWRLVED-NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       107 ~~l~~~L~~-~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +.+.+++.+ ++++=|+|+|-.|.|||||+-.+....
T Consensus         5 ~~~~~lm~~~~~IRNI~iiGhvd~GKTTL~d~Ll~~~   41 (341)
T d1n0ua2           5 DQMRSLMDKVTNVRNMSVIAHVDHGKSTLTDSLVQRA   41 (341)
T ss_dssp             HHHHHHHHCGGGEEEEEEECCGGGTHHHHHHHHHHHH
T ss_pred             HHHHHHhcCcccCcEEEEEeCCCCcHHHHHHHHHHHC
Confidence            455555544 567789999999999999998886544

>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=84.59  E-value=0.33  Score=42.13  Aligned_cols=27  Identities=26%  Similarity=0.448  Sum_probs=24.0

Q ss_pred             CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          116 NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       116 ~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +++.||+|+|.-+.|||||...++...
T Consensus        30 ~~v~vvsi~G~~~sGKS~llN~l~~~~   56 (277)
T d1f5na2          30 QPMVVVAIVGLYRTGKSYLMNKLAGKK   56 (277)
T ss_dssp             SBEEEEEEEEBTTSSHHHHHHHHTTCS
T ss_pred             CCEEEEEEECCCCCCHHHHHHHHcCCC
Confidence            568899999999999999999988644

>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=84.27  E-value=0.23  Score=44.34  Aligned_cols=24  Identities=33%  Similarity=0.386  Sum_probs=21.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -.|+|=|.-|+||||+++.+.+..
T Consensus         6 lrI~IEG~iGsGKSTl~~~L~~~l   29 (331)
T d1osna_           6 LRIYLDGAYGIGKTTAAEEFLHHF   29 (331)
T ss_dssp             EEEEEEESSSSCTTHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            458999999999999999999876

>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=84.24  E-value=0.22  Score=44.36  Aligned_cols=25  Identities=24%  Similarity=0.149  Sum_probs=20.5

Q ss_pred             ceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          118 VRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       118 ~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +..|+|=|.-|+||||+++.+.+..
T Consensus         4 ~lrI~IEG~iGsGKTTl~~~La~~l   28 (329)
T d1e2ka_           4 LLRVYIDGPHGMGKTTTTQLLVALG   28 (329)
T ss_dssp             EEEEEECSCTTSSHHHHHHHHTC--
T ss_pred             ceEEEEECCcCCCHHHHHHHHHHHh
Confidence            4568999999999999999997655

>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=83.80  E-value=0.56  Score=42.90  Aligned_cols=92  Identities=18%  Similarity=0.213  Sum_probs=56.3

Q ss_pred             cchH--HHHHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhhhhcCCCCcchHhHHHHHHHHHHHhcCCCC-------
Q 043070          101 VDVS--RLNEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKFNDTRHNFGLVILVKRIQHVMGYRLAMSNE-------  171 (414)
Q Consensus       101 vGr~--~~~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~~~v~~~F~~~~wv~~l~~~i~~~l~~~~~-------  171 (414)
                      .|..  ..+.+.++ .......|.|.|+.|+||||....+.+....-..++   +=           +..+.+       
T Consensus       140 LG~~~~~~~~l~~l-~~~~~GliLvtGpTGSGKSTTl~~~l~~~~~~~~~i---~t-----------iEdPiE~~~~~~~  204 (401)
T d1p9ra_         140 LGMTAHNHDNFRRL-IKRPHGIILVTGPTGSGKSTTLYAGLQELNSSERNI---LT-----------VEDPIEFDIDGIG  204 (401)
T ss_dssp             SCCCHHHHHHHHHH-HTSSSEEEEEECSTTSCHHHHHHHHHHHHCCTTSCE---EE-----------EESSCCSCCSSSE
T ss_pred             hcccHHHHHHHHHH-HhhhhceEEEEcCCCCCccHHHHHHhhhhcCCCceE---EE-----------eccCcccccCCCC
Confidence            3655  44455444 445568999999999999999988887662111111   10           110000       


Q ss_pred             --ccCcCCHhHHHHHHHHHhCCCcEEEEEecCCCccch
Q 043070          172 --VWDDKTKQGRAIDSSRRLGQRRFALLLDDLREPIDL  207 (414)
Q Consensus       172 --~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~  207 (414)
                        .....+...-...++..|+.-+=.|++.++.+.+.-
T Consensus       205 q~~v~~~~~~~~~~~l~~~lR~dPDvi~igEiRd~~ta  242 (401)
T d1p9ra_         205 QTQVNPRVDMTFARGLRAILRQDPDVVMVGEIRDLETA  242 (401)
T ss_dssp             EEECBGGGTBCHHHHHHHHGGGCCSEEEESCCCSHHHH
T ss_pred             eeeecCCcCCCHHHHHHHHHhhcCCEEEecCcCChHHH
Confidence              001122234567788889888889999999888643

>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=83.14  E-value=1.4  Score=36.66  Aligned_cols=24  Identities=21%  Similarity=0.289  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          119 RIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       119 ~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +++.|.|+...||||+.+.+.-..
T Consensus        36 ~~~iiTGpN~~GKSt~lk~i~l~~   59 (224)
T d1ewqa2          36 ELVLITGPNMAGKSTFLRQTALIA   59 (224)
T ss_dssp             CEEEEESCSSSSHHHHHHHHHHHH
T ss_pred             cEEEEECCCccccchhhhhhHHHH
Confidence            478999999999999999887554

>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=83.02  E-value=0.15  Score=43.03  Aligned_cols=33  Identities=21%  Similarity=0.441  Sum_probs=22.9

Q ss_pred             HHHHHHhhcCCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          107 NEVWRLVEDNSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       107 ~~l~~~L~~~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ++|.++|.+   +...++|.+|+|||||...+..+.
T Consensus        89 ~~L~~~l~~---~~~vl~G~SGVGKSSLiN~L~~~~  121 (231)
T d1t9ha2          89 ADIIPHFQD---KTTVFAGQSGVGKSSLLNAISPEL  121 (231)
T ss_dssp             TTTGGGGTT---SEEEEEESHHHHHHHHHHHHCC--
T ss_pred             HHHHHhhcc---ceEEEECCCCccHHHHHHhhccHh
Confidence            344455532   456789999999999998887654

>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=82.37  E-value=0.34  Score=42.07  Aligned_cols=20  Identities=10%  Similarity=-0.032  Sum_probs=16.2

Q ss_pred             CCeEEECHHHHHHHHHHHcc
Q 043070          375 GNFVKMHDMIRDLALWIASE  394 (414)
Q Consensus       375 ~~~~~mH~lv~~~a~~~~~~  394 (414)
                      ...||.|.-|.++|..+...
T Consensus       273 ~~nyRs~~~I~~~an~l~~~  292 (306)
T d1uaaa1         273 EQNYRSSGRILKAANILIAN  292 (306)
T ss_dssp             CCBSSSCHHHHHHHHHHHHT
T ss_pred             CCCCCCCHHHHHHHHHHHHc
Confidence            35789999999999887654

>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=82.28  E-value=0.41  Score=39.35  Aligned_cols=23  Identities=30%  Similarity=0.141  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|+|+|-++.|||||+.++....
T Consensus         5 ni~iiGhvd~GKSTL~~~Ll~~~   27 (204)
T d2c78a3           5 NVGTIGHVDHGKTTLTAALTYVA   27 (204)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEEeCCCCcHHHHHHHHHHHh
Confidence            38999999999999998886543

>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=82.27  E-value=0.75  Score=39.50  Aligned_cols=36  Identities=17%  Similarity=0.200  Sum_probs=27.7

Q ss_pred             HHHHHHhhc--CCceEEEEEcCCCCcHHHHHHHHHHhh
Q 043070          107 NEVWRLVED--NSVRIICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       107 ~~l~~~L~~--~~~~vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      ..+..+|..  +....+.++|.|+.|||+++..+.+-.
T Consensus        91 ~~l~~~L~~~~~k~n~~~l~G~~~tGKS~f~~~i~~~l  128 (267)
T d1u0ja_          91 SVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             HHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             HHHHHHHcCCCCccEEEEEEcCCCCCHHHHHHHHHHHh
Confidence            344455532  556789999999999999999888755

>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=81.47  E-value=0.34  Score=42.49  Aligned_cols=21  Identities=10%  Similarity=-0.042  Sum_probs=16.8

Q ss_pred             CCeEEECHHHHHHHHHHHccc
Q 043070          375 GNFVKMHDMIRDLALWIASED  395 (414)
Q Consensus       375 ~~~~~mH~lv~~~a~~~~~~e  395 (414)
                      ...||.|.-|.++|..+....
T Consensus       283 ~~nyRs~~~I~~~an~ll~~~  303 (318)
T d1pjra1         283 EQNYRSTKRILQAANEVIEHN  303 (318)
T ss_dssp             CBCSSSCHHHHHHHHHHHTTC
T ss_pred             CCCCCCcHHHHHHHHHHHHcC
Confidence            356889999999999887763

>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=81.21  E-value=0.14  Score=41.28  Aligned_cols=23  Identities=22%  Similarity=0.322  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      +..|+|..|+||||+..++.--.
T Consensus        26 ~tvi~G~NGsGKStil~Ai~~~L   48 (222)
T d1qhla_          26 VTTLSGGNGAGKSTTMAAFVTAL   48 (222)
T ss_dssp             HHHHHSCCSHHHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            55688999999999999987543

>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=80.11  E-value=0.44  Score=41.20  Aligned_cols=23  Identities=30%  Similarity=0.388  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHhh
Q 043070          120 IICLHGVSRLGKTTLLYNLNKKF  142 (414)
Q Consensus       120 vi~I~G~gGiGKTtLA~~v~~~~  142 (414)
                      -|+|+|++.+|||||-..+-+..
T Consensus         4 ~~GivG~Pn~GKSTlf~~lt~~~   26 (278)
T d1jala1           4 KCGIVGLPNVGKSTLFNALTKAG   26 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHTC
T ss_pred             eEEEECCCCCCHHHHHHHHHCCC
Confidence            58999999999999999887654