Citrus Sinensis ID: 047559

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440----
Protein Sequence
MAVGELLLSAVFQVLFDRLAPHGGDLLNFVSQLGGGVASELKKWEDCLMMIQAVLRDAEEKQLTDEAVKLWLDDLRDLAYDAEDILDEFATKALDRKFIADRDHGASSSKVQMLVPAPCFGCFKIQNTVNFNGKMRSSIKDITGRFDQLCNQRIHLGLQLTPGGTSSTTTAQRRTPTSSVSTERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAATMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLLRSKRHDEWDEILNSNILDLPQQNGILSVLRLSYHYLPSQLKRCFAY
Secondary Structure (PSIPRED)
cccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccHHHHHHHHHHHcccccccccccEEEEEEccccccHHHHHHHHHccccccccccccEEEEEEcccccHHHHHHHHHHHHcccccccccHHHHHHHHHHHHcccEEEEEEcccccccHHHHHHHHHHHHccccccEEEEEcccHHHHHHHccccccccccccHHHHHHHHHHHHcccccccccccHHHHHHHHHHHccccHHHHHHHHHHHccccHHHHHHHHHHccccccccccccHHHHHccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccEEEEEcccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHccccEccccccccccccccccccccEccccEEcccHHHHHHHHHHHcccccccccEEEEEEEccccccHHHHHHHHHccHHHHHccccEEEEEEEcccccHHHHHHHHHHHHcccccccccHHHHHHHHHHHHcccEEEEEEEccccccHHHHHHHHcHHHccccccEEEEEEccHHHHHHHccccccccccccHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHcccHHHHHHHHHHHccccHHHHHHHHHcHHHccccccccHHHHHEcHHcccHHHHHHccc
Coil and Loop (DISEMBL)
MAVGELLLSAVFQVLFDrlaphggdlLNFVSQLGGGVASELKKWEDCLMMIQAVLRDAEEKQLTDEAVKLWLDDLRDLAYDAEDILDEFATKALDRkfiadrdhgassskvqmlvpapcfgcfkiqntvnfngkmrsSIKDITGRFDQLCNQRIHlglqltpggtsstttaqrrtptssvsteravfgRQQDKAKMLEMVLTdtssdhsnlaviPIVGMAGVGKTTLAREVyndravedskfdvkawvcvsddfdVLNISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVwnedyclwedlkapflaaapnskiIVTTRHAHVAATMEPIQQYnlqclsdedcWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLLRSKRHDEWDEILNsnildlpqqngiLSVLRLSYhylpsqlkrcfay
Flexible Loop (DISEMBL)
MAVGELLLSAVFQVLFDRLAPHGGDLLNFVSQLGGGVASELKKWEDCLMMIQAVLRDAEEKQLTDEAVKLWLDDLRDLAYDAEDILDEFATKALDRKFIADRDHGASSSKVQMLVPAPCFGCFKIQNTVNFNGKMRSSIKDITGRFDQLCNQRIHLglqltpggtsstttaqrrtptssvsteravfgrqqDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDravedskfdvkAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAATMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLLRSKRHDEWDEILNSNILDLPQQNGILSVLRLSYHylpsqlkrcfay
Low Complexity Region (SEG)
MAVGELLLSAVFQVLFDRLAPHGGDLLNFVSQLGGGVASELKKWEDCLMMIQAVLRDAEEKQLTDEAVKLWLDDLRDLAYDAEDILDEFATKALDRKFIADRDHGASSSKVQMLVPAPCFGCFKIQNTVNFNGKMRSSIKDITGRFDQLCNQRIHLGLQLTPGGTSSTTTAQRRTPTSSVSTERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGkklllvlddvWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAATMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLLRSKRHDEWDEILNSNILDLPQQNGILSVLRLSYHYLPSQLKRCFAY
Disordered region (IsUnstruct)
***GELLLSAVFQVLFDRLAPHGGDLLNFVSQLGGGVASELKKWEDCLMMIQAVLRDAEEKQLTDEAVKLWLDDLRDLAYDAEDILDEFATKALDRKFIADRDHGA**SKVQMLVPAPCFGCFKIQNTVNFNGKMRSSIKDITGRFDQLCNQRIHLGLQL************************************************SNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAATMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLLRSKRHDEWDEILNSNILDLPQQNGILSVLRLSYHYLPSQLKRCF**
Disordered Region (DISOPRED)
MAVGELLLSAVFQVLFDRLAPHGGDLLNFVSQLGGGVASELKKWEDCLMMIQAVLRDAEEKQLTDEAVKLWLDDLRDLAYDAEDILDEFATKALD*******************VPAPCFGCFKIQNTVNFNGKMRSSIKDITGRFDQLCNQRIHLGLQ********************VSTERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESI************VQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAATMEPIQQYNLQCLSDEDCWSLFMMHAFV****T***ISDLFREKVVGKCGGLPLAAKTLGGLLRSKRHDEWDEILNSNILDLPQQNGILSVLRLSYHYLPSQLKRCFAY
Disordered Region (DISEMBL)
MAVGELLLSAVFQVLFDRLAPHGGDLLNFVSQLGGGVASELKKWEDCLMMIQAVLRDAEEKQLTDEAVKLWLDDLRDLAYDAEDILDEFATKALDRKFIADRDHGASSSKVQMLVPAPCFGCFKIQNTVNFNGKMRSSIKDITGRFDQLCNQRIHLGLQLTP**********************AVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAATMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLLRSKRHDEWDEILNSNILDLPQQNGILSVLRLSYHYLPSQLKRCFAY
Disordered Region (DISPRO)
MAVGELLLSAVFQVLFDRLAPHGGDLLNFVSQLGGGVASELKKWEDCLMMIQAVLRDAEEKQLTDEAVKLWLDDLRDLAYDAEDILDEFATKALDRKFIADRDHGASSSKVQMLVPAPCFGCFKIQNTVNFNGKMRSSIKDITGRFDQLCNQRIHLGLQLT****************SSVSTERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAATMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLLRSKRHDEWDEILNSNILDLPQQNGILSVLRLSYHYLPSQLKRCFAY
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
oooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
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Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAVGELLLSAVFQVLFDRLAPHGGDLLNFVSQLGGGVASELKKWEDCLMMIQAVLRDAEEKQLTDEAVKLWLDDLRDLAYDAEDILDEFATKALDRKFIADRDHGASSSKVQMLVPAPCFGCFKIQNTVNFNGKMRSSIKDITGRFDQLCNQRIHLGLQLTPGGTSSTTTAQRRTPTSSVSTERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAATMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLLRSKRHDEWDEILNSNILDLPQQNGILSVLRLSYHYLPSQLKRCFAY
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	444	2.2.26 [Sep-21-2011]
Q9LRR4	1054	Putative disease resistan	yes	no	0.957	0.403	0.404	8e-82
Q7XA40	992	Putative disease resistan	N/A	no	0.900	0.403	0.384	7e-73
Q7XA42	979	Putative disease resistan	N/A	no	0.905	0.410	0.374	1e-70
Q7XBQ9	970	Disease resistance protei	N/A	no	0.898	0.411	0.371	6e-67
Q7XA39	988	Putative disease resistan	N/A	no	0.907	0.407	0.366	6e-67
Q9LRR5	1424	Putative disease resistan	no	no	0.878	0.273	0.327	4e-51
Q38834	852	Disease resistance RPP13-	no	no	0.876	0.456	0.311	7e-40
Q9SX38	857	Putative disease resistan	no	no	0.869	0.450	0.296	3e-39
P0C8S1	906	Probable disease resistan	no	no	0.882	0.432	0.296	6e-37
A7XGN8	910	Disease susceptibility pr	no	no	0.887	0.432	0.290	1e-36

>sp|Q9LRR4|R13L1_ARATH Putative disease resistance RPP13-like protein 1 OS=Arabidopsis thaliana GN=RPPL1 PE=3 SV=1

 Score =  304 bits (779), Expect = 8e-82,   Method: Compositional matrix adjust.
 Identities = 181/448 (40%), Positives = 274/448 (61%), Gaps = 23/448 (5%)

Query: 2   AVGELLLSAVFQVLFDRLAPHGGDLLNFVSQLGGGVASELKKWEDCLMMIQAVLRDAEEK 61
            +GE+ L+A  Q LF  L            +L   +   L++    L+ I AVL DAEEK
Sbjct: 3   GIGEMFLAAFLQALFQTLVSEPFRSFFKRRELNENL---LERLSTALLTITAVLIDAEEK 59

Query: 62  QLTDEAVKLWLDDLRDLAYDAEDILDEFATKALDRKFIADRDHGASSSKVQMLVPAPCFG 121
           Q+T+  V+ W+++LRD+ Y AED LD+ AT+AL     A+    +SS++++ L      G
Sbjct: 60  QITNPVVEKWVNELRDVVYHAEDALDDIATEALRLNIGAE---SSSSNRLRQLRGRMSLG 116

Query: 122 CFKIQNTVNFNGKMRSSIKDITGRFDQLCNQRIHLGLQLTPGGTSSTTTAQRRTPTSSVS 181
            F   N+ +    + + ++ +T R ++L +QR  LGL+       +    ++R PT+S+ 
Sbjct: 117 DFLDGNSEH----LETRLEKVTIRLERLASQRNILGLK-----ELTAMIPKQRLPTTSLV 167

Query: 182 TERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSK 241
            E  VFGR  DK +++  ++ +   D + + V+ IVG+ GVGKTTL++ +YND+ V  S 
Sbjct: 168 DESEVFGRDDDKDEIMRFLIPENGKD-NGITVVAIVGIGGVGKTTLSQLLYNDQHVR-SY 225

Query: 242 FDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGKKL--LLVLDD 299
           F  K W  VS++FDV  I++ + ES+T   C+   L+ +QV++K  + G  L  LLVLDD
Sbjct: 226 FGTKVWAHVSEEFDVFKITKKVYESVTSRPCEFTDLDVLQVKLKERLTGTGLPFLLVLDD 285

Query: 300 VWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAATMEPIQQYNLQCLSDEDCWSLFMM 359
           +WNE++  W+ L+ PF+ AA  S+I+VTTR   VA+ M  +  +NLQ LSD DCWSLFM 
Sbjct: 286 LWNENFADWDLLRQPFIHAAQGSQILVTTRSQRVASIMCAVHVHNLQPLSDGDCWSLFMK 345

Query: 360 HAFVGQD-ITAQQISDLFREKVVGKCGGLPLAAKTLGGLLRSK-RHDEWDEILNSNILDL 417
             F  Q+    ++I DL  E++V KC GLPLA KTLGG+LR + +  EW+ +L+S I DL
Sbjct: 346 TVFGNQEPCLNREIGDL-AERIVHKCRGLPLAVKTLGGVLRFEGKVIEWERVLSSRIWDL 404

Query: 418 P-QQNGILSVLRLSYHYLPSQLKRCFAY 444
           P  ++ +L VLR+SY+YLP+ LKRCFAY
Sbjct: 405 PADKSNLLPVLRVSYYYLPAHLKRCFAY 432

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

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

 Score =  275 bits (702), Expect = 7e-73,   Method: Compositional matrix adjust.
 Identities = 169/440 (38%), Positives = 251/440 (57%), Gaps = 40/440 (9%)

Query: 10  AVFQVLFDRLAPHGGDLLNFVSQLGGGVASELKKWEDCLMMIQAVLRDAEEKQLTDEAVK 69
           A  QVL D L       L  V     G   E KK      MIQAVL DA+EKQL  +A+K
Sbjct: 4   AFLQVLLDNLTFFIQGELGLVF----GFEKEFKKLSSMFSMIQAVLEDAQEKQLKYKAIK 59

Query: 70  LWLDDLRDLAYDAEDILDEFATKALD-RKFIADRDHGASSSKVQMLVPAPCFGCFKIQNT 128
            WL  L   AY+ +DILD+  T+A   ++ +  R H                       T
Sbjct: 60  NWLQKLNVAAYEVDDILDDCKTEAARFKQAVLGRYH---------------------PRT 98

Query: 129 VNFNGKMRSSIKDITGRFDQLCNQR--IHLGLQLTPGGTSSTTTAQRRTPTSSVSTERAV 186
           + F  K+   +K++  + D +  +R   HL  ++          A RR  T  V TE  V
Sbjct: 99  ITFCYKVGKRMKEMMEKLDAIAEERRNFHLDERII------ERQAARRQ-TGFVLTEPKV 151

Query: 187 FGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKA 246
           +GR++++ +++++++ + S     + V+PI+GM G+GKTTLA+ V+ND+ + +  F++K 
Sbjct: 152 YGREKEEDEIVKILINNVSYSEE-VPVLPILGMGGLGKTTLAQMVFNDQRITEH-FNLKI 209

Query: 247 WVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYC 306
           WVCVSDDFD   + +A++ESI   S     L  +Q +++  ++GK+  LVLDDVWNED  
Sbjct: 210 WVCVSDDFDEKRLIKAIVESIEGKSLGDMDLAPLQKKLQELLNGKRYFLVLDDVWNEDQE 269

Query: 307 LWEDLKAPFLAAAPNSKIIVTTRHAHVAATMEPIQQYNLQCLSDEDCWSLFMMHAFVGQD 366
            W++L+A     A  + I++TTR   + + M  +Q Y L  LS EDCW LF   AF  Q 
Sbjct: 270 KWDNLRAVLKIGASGASILITTRLEKIGSIMGTLQLYQLSNLSQEDCWLLFKQRAFCHQT 329

Query: 367 ITAQQISDLFREKVVGKCGGLPLAAKTLGGLLRSKRHD-EWDEILNSNILDLPQ-QNGIL 424
            T+ ++ ++ +E +V KCGG+PLAAKTLGGLLR KR + EW+ + +S I +LPQ +N +L
Sbjct: 330 ETSPKLMEIGKE-IVKKCGGVPLAAKTLGGLLRFKREESEWEHVRDSEIWNLPQDENSVL 388

Query: 425 SVLRLSYHYLPSQLKRCFAY 444
             LRLSYH+LP  L++CFAY
Sbjct: 389 PALRLSYHHLPLDLRQCFAY 408

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via a direct or indirect interaction with this avirulence protein. That triggers a defense system which restricts the pathogen growth.

Solanum bulbocastanum (taxid: 147425)

>sp|Q7XA42|RGA1_SOLBU Putative disease resistance protein RGA1 OS=Solanum bulbocastanum GN=RGA1 PE=2 SV=2

 Score =  267 bits (683), Expect = 1e-70,   Method: Compositional matrix adjust.
 Identities = 164/438 (37%), Positives = 247/438 (56%), Gaps = 36/438 (8%)

Query: 10  AVFQVLFDRLAPH-GGDLLNFVSQLGGGVASELKKWEDCLMMIQAVLRDAEEKQLTDEAV 68
           A  QV+ D L     G+L+     L  G   E ++       IQAVL DA+EKQL D+ +
Sbjct: 4   AFIQVVLDNLTSFLKGELV-----LLFGFQDEFQRLSSMFSTIQAVLEDAQEKQLNDKPL 58

Query: 69  KLWLDDLRDLAYDAEDILDEFATKALDRKFIADRDHGASSSKVQMLVPAPCFGCFKIQNT 128
           + WL  L    Y+ +DILDE+ TKA   +F+   ++G    KV                 
Sbjct: 59  ENWLQKLNAATYEVDDILDEYKTKA--TRFLQS-EYGRYHPKV----------------- 98

Query: 129 VNFNGKMRSSIKDITGRFDQLCNQRIHLGLQLTPGGTSSTTTAQRRTPTSSVSTERAVFG 188
           + F  K+   +  +  + + +  +R    LQ       + T       T SV TE  V+G
Sbjct: 99  IPFRHKVGKRMDQVMKKLNAIAEERKKFHLQEKIIERQAATRE-----TGSVLTEPQVYG 153

Query: 189 RQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWV 248
           R ++K ++++ +L +T+SD   L+V+PI+GM G+GKTTL++ V+ND+ V + +F  K W+
Sbjct: 154 RDKEKDEIVK-ILINTASDAQKLSVLPILGMGGLGKTTLSQMVFNDQRVTE-RFYPKIWI 211

Query: 249 CVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLW 308
           C+SDDF+   + +A++ESI   S     L  +Q +++  ++GK+  LVLDDVWNED   W
Sbjct: 212 CISDDFNEKRLIKAIVESIEGKSLSDMDLAPLQKKLQELLNGKRYFLVLDDVWNEDQHKW 271

Query: 309 EDLKAPFLAAAPNSKIIVTTRHAHVAATMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDIT 368
            +L+A     A  + ++ TTR   V + M  +Q Y L  LS EDCW LFM  AF  Q+  
Sbjct: 272 ANLRAVLKVGASGAFVLTTTRLEKVGSIMGTLQPYELSNLSPEDCWFLFMQRAFGHQEEI 331

Query: 369 AQQISDLFREKVVGKCGGLPLAAKTLGGLLRSKRHD-EWDEILNSNILDLPQ-QNGILSV 426
              +  + +E +V KCGG+PLAAKTLGG+LR KR + EW+ + +S I +LPQ ++ IL  
Sbjct: 332 NPNLMAIGKE-IVKKCGGVPLAAKTLGGILRFKREEREWEHVRDSPIWNLPQDESSILPA 390

Query: 427 LRLSYHYLPSQLKRCFAY 444
           LRLSYH+LP  L++CF Y
Sbjct: 391 LRLSYHHLPLDLRQCFVY 408

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via a direct or indirect interaction with this avirulence protein. That triggers a defense system which restricts the pathogen growth.

Solanum bulbocastanum (taxid: 147425)

>sp|Q7XBQ9|RGA2_SOLBU Disease resistance protein RGA2 OS=Solanum bulbocastanum GN=RGA2 PE=1 SV=1

 Score =  255 bits (651), Expect = 6e-67,   Method: Compositional matrix adjust.
 Identities = 164/442 (37%), Positives = 239/442 (54%), Gaps = 43/442 (9%)

Query: 10  AVFQVLFDRLAPH-GGDLLNFVSQLGGGVASELKKWEDCLMMIQAVLRDAEEKQLTDEAV 68
           A  QVL D L     G+L+     L  G   E ++       IQAVL DA+EKQL ++ +
Sbjct: 4   AFIQVLLDNLTSFLKGELV-----LLFGFQDEFQRLSSMFSTIQAVLEDAQEKQLNNKPL 58

Query: 69  KLWLDDLRDLAYDAEDILDEFATKALDRKFIADRDHGASSSKVQMLVPAPCFGCFKIQNT 128
           + WL  L    Y+ +DILDE+ TKA      +  ++G    KV                 
Sbjct: 59  ENWLQKLNAATYEVDDILDEYKTKATR---FSQSEYGRYHPKV----------------- 98

Query: 129 VNFNGKMRSSIKDITGRFDQLCNQRIHLGLQLTPGGTSSTTTAQRRTPTSSVSTERAVFG 188
           + F  K+   +  +  +   +  +R +  L               R  T SV TE  V+G
Sbjct: 99  IPFRHKVGKRMDQVMKKLKAIAEERKNFHLH-----EKIVERQAVRRETGSVLTEPQVYG 153

Query: 189 RQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWV 248
           R ++K ++++ +L +  SD  +L+V+PI+GM G+GKTTLA+ V+ND+ V +  F  K W+
Sbjct: 154 RDKEKDEIVK-ILINNVSDAQHLSVLPILGMGGLGKTTLAQMVFNDQRVTEH-FHSKIWI 211

Query: 249 CVSDDFDVLNISRALLESIT----FASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNED 304
           CVS+DFD   + +A++ESI         DL  L   Q +++  ++GK+ LLVLDDVWNED
Sbjct: 212 CVSEDFDEKRLIKAIVESIEGRPLLGEMDLAPL---QKKLQELLNGKRYLLVLDDVWNED 268

Query: 305 YCLWEDLKAPFLAAAPNSKIIVTTRHAHVAATMEPIQQYNLQCLSDEDCWSLFMMHAFVG 364
              W +L+A     A  + ++ TTR   V + M  +Q Y L  LS EDCW LFM  AF  
Sbjct: 269 QQKWANLRAVLKVGASGASVLTTTRLEKVGSIMGTLQPYELSNLSQEDCWLLFMQRAFGH 328

Query: 365 QDITAQQISDLFREKVVGKCGGLPLAAKTLGGLLRSKRHDE-WDEILNSNILDLPQ-QNG 422
           Q+     +  + +E +V K GG+PLAAKTLGG+L  KR +  W+ + +S I +LPQ ++ 
Sbjct: 329 QEEINPNLVAIGKE-IVKKSGGVPLAAKTLGGILCFKREERAWEHVRDSPIWNLPQDESS 387

Query: 423 ILSVLRLSYHYLPSQLKRCFAY 444
           IL  LRLSYH LP  LK+CFAY
Sbjct: 388 ILPALRLSYHQLPLDLKQCFAY 409

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via a direct or indirect interaction with this avirulence protein. That triggers a defense system which restricts the pathogen growth. Confers a broad resistance to all known races of P.infestans.

Solanum bulbocastanum (taxid: 147425)

>sp|Q7XA39|RGA4_SOLBU Putative disease resistance protein RGA4 OS=Solanum bulbocastanum GN=RGA4 PE=2 SV=1

 Score =  255 bits (651), Expect = 6e-67,   Method: Compositional matrix adjust.
 Identities = 161/439 (36%), Positives = 241/439 (54%), Gaps = 36/439 (8%)

Query: 10  AVFQVLFDRLAPHGGDLLNFVSQLGGGVASELKKWEDCLMMIQAVLRDAEEKQLTDEAVK 69
           A  QVL + L    GD L  +     G   E +K       IQAVL+DA+EKQL D+A++
Sbjct: 4   AFLQVLLENLTSFIGDKLVLIF----GFEKECEKLSSVFSTIQAVLQDAQEKQLKDKAIE 59

Query: 70  LWLDDLRDLAYDAEDILDEFATKALDRKFIADRDHGASSSKVQMLVPAPCFGCFKIQNTV 129
            WL  L   AY+ +DIL E   +A+  +F          S++    P            +
Sbjct: 60  NWLQKLNSAAYEVDDILGECKNEAI--RF--------EQSRLGFYHPG----------II 99

Query: 130 NFNGKMRSSIKDITGRFDQLCNQR--IHLGLQLTPGGTSSTTTAQRRTPTSSVSTERAVF 187
           NF  K+   +K+I  + D +  +R   H   ++T    ++ T       T  V TE  V+
Sbjct: 100 NFRHKIGRRMKEIMEKLDAISEERRKFHFLEKITERQAAAATRE-----TGFVLTEPKVY 154

Query: 188 GRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAW 247
           GR +++ +++++++ + +     L V PI+GM G+GKTTLA+ ++ND  V    F+ K W
Sbjct: 155 GRDKEEDEIVKILINNVNVAEE-LPVFPIIGMGGLGKTTLAQMIFNDERV-TKHFNPKIW 212

Query: 248 VCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCL 307
           VCVSDDFD   + + ++ +I  +S  ++ L   Q +++  ++GK+ LLVLDDVWN+D   
Sbjct: 213 VCVSDDFDEKRLIKTIIGNIERSSPHVEDLASFQKKLQELLNGKRYLLVLDDVWNDDLEK 272

Query: 308 WEDLKAPFLAAAPNSKIIVTTRHAHVAATMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDI 367
           W  L+A     A  + I+ TTR   V + M  +Q Y+L  LS  D   LFM  AF GQ  
Sbjct: 273 WAKLRAVLTVGARGASILATTRLEKVGSIMGTLQPYHLSNLSPHDSLLLFMQRAF-GQQK 331

Query: 368 TAQQISDLFREKVVGKCGGLPLAAKTLGGLLRSKRHD-EWDEILNSNILDLPQ-QNGILS 425
            A        +++V KCGG+PLAAKTLGGLLR KR + EW+ + ++ I  LPQ ++ IL 
Sbjct: 332 EANPNLVAIGKEIVKKCGGVPLAAKTLGGLLRFKREESEWEHVRDNEIWSLPQDESSILP 391

Query: 426 VLRLSYHYLPSQLKRCFAY 444
            LRLSYH+LP  L++CFAY
Sbjct: 392 ALRLSYHHLPLDLRQCFAY 410

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via a direct or indirect interaction with this avirulence protein. That triggers a defense system which restricts the pathogen growth.

Solanum bulbocastanum (taxid: 147425)

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

 Score =  202 bits (514), Expect = 4e-51,   Method: Compositional matrix adjust.
 Identities = 136/415 (32%), Positives = 217/415 (52%), Gaps = 25/415 (6%)

Query: 34  GGGVASELKKWEDCLMMIQAVLRDAEEKQLTDEAVKLWLDDLRDLAYDAEDILDEFATKA 93
           G   ++ LK+ +  L+    VL DA+++      VK WL  ++D  + AEDILDE  T+A
Sbjct: 29  GKSSSALLKRLKVALVTANPVLADADQRAEHVREVKHWLTGIKDAFFQAEDILDELQTEA 88

Query: 94  LDRKFIADRDHGASSSKVQMLVPAPCFGCFKIQNTVNFNGKMRSSIKDITGRFDQLCNQR 153
           L R+ +A+   G      Q L+     G   IQ       K+   ++ +    +      
Sbjct: 89  LRRRVVAE--AGGLGGLFQNLMA----GREAIQK------KIEPKMEKVVRLLEHHVKHI 136

Query: 154 IHLGLQLTPGGTSSTTTAQRRTPTSSVS---TERAVFGRQQDKAKMLEMVLTDTSSDHSN 210
             +GL+      S T   Q R  + S      +  + GR +DK  ++ ++L+D       
Sbjct: 137 EVIGLK----EYSETREPQWRQASRSRPDDLPQGRLVGRVEDKLALVNLLLSDDEISIGK 192

Query: 211 LAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFA 270
            AVI +VGM GVGKTTL   V+ND  V +  F+VK W+    +F+V  +++A+L+ IT +
Sbjct: 193 PAVISVVGMPGVGKTTLTEIVFNDYRVTE-HFEVKMWISAGINFNVFTVTKAVLQDITSS 251

Query: 271 SCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRH 330
           + + + L  +Q+Q+K+ + GK+ LLVLDD W+E    WE  +  F  A   SKI++TTR 
Sbjct: 252 AVNTEDLPSLQIQLKKTLSGKRFLLVLDDFWSESDSEWESFQVAFTDAEEGSKIVLTTRS 311

Query: 331 AHVAATMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDI-TAQQISDLFREKVVGKCGGLPL 389
             V+   +  + Y ++ +++E+CW L    AF    + +  Q  +   +++  +C GLPL
Sbjct: 312 EIVSTVAKAEKIYQMKLMTNEECWELISRFAFGNISVGSINQELEGIGKRIAEQCKGLPL 371

Query: 390 AAKTLGGLLRSKRH-DEWDEILNSNILDLPQQNGILSVLRLSYHYLPSQLKRCFA 443
           AA+ +   LRSK + D+W  + + N       N IL VL+LSY  LP QLKRCFA
Sbjct: 372 AARAIASHLRSKPNPDDWYAV-SKNFSSY--TNSILPVLKLSYDSLPPQLKRCFA 423

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q38834|R13L4_ARATH Disease resistance RPP13-like protein 4 OS=Arabidopsis thaliana GN=RPP13L4 PE=2 SV=2

 Score =  165 bits (417), Expect = 7e-40,   Method: Compositional matrix adjust.
 Identities = 135/433 (31%), Positives = 218/433 (50%), Gaps = 44/433 (10%)

Query: 27  LNFVSQLGGGVASELKKWEDC---LMMIQAVLRDAEEKQLTDEAVKLWLDDLRDLAYDAE 83
           LN + + G  V+   K+ ED    L  +Q+ L+DAE ++ T+E ++  + DLR+L Y+AE
Sbjct: 14  LNILEEKGRTVSDYRKQLEDLQSELKYMQSFLKDAERQKRTNETLRTLVADLRELVYEAE 73

Query: 84  DILDEFATKALDRKFIADRDHG----ASSSKVQMLVPAPCFGCFKIQNTVNFNGKMRSSI 139
           DIL +          +AD D G    +S++ +  L PA           V    K    +
Sbjct: 74  DILVDCQ--------LADGDDGNEQRSSNAWLSRLHPA----------RVPLQYKKSKRL 115

Query: 140 KDITGRFDQLCNQRIHLGLQLTPGGTSSTTTAQRRTPTSSVSTERAVFGRQQDKAKMLEM 199
           ++I  R  ++ +Q       +TP          R +  S V     V G + DK K+ E 
Sbjct: 116 QEINERITKIKSQVEPYFEFITPSNVGRDNGTDRWS--SPVYDHTQVVGLEGDKRKIKEW 173

Query: 200 VLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNI 259
           +     S+ S L ++  VGM G+GKTT+A+EV+ND+ +E  +F+ + WV VS  F    I
Sbjct: 174 LF---RSNDSQLLIMAFVGMGGLGKTTIAQEVFNDKEIE-HRFERRIWVSVSQTFTEEQI 229

Query: 260 SRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAA 319
            R++L ++  AS     +  +  +I++ + GK+ L+V+DDVW+++   W+ +    L   
Sbjct: 230 MRSILRNLGDASVG-DDIGTLLRKIQQYLLGKRYLIVMDDVWDKNLSWWDKIYQG-LPRG 287

Query: 320 PNSKIIVTTRHAHVAATMEPI--QQYNLQCLSDEDCWSLFMMHAFVGQDITAQ--QISDL 375
               +IVTTR   VA  ++    + +  + LS ++ W LF   AF   D T +  ++ D+
Sbjct: 288 QGGSVIVTTRSESVAKRVQARDDKTHRPELLSPDNSWLLFCNVAFAANDGTCERPELEDV 347

Query: 376 FREKVVGKCGGLPLAAKTLGGLLRSKRH--DEWDEILNSNILDL----PQQNGILSVLRL 429
            +E +V KC GLPL  K +GGLL  K H   EW  I      +L     + + ++S L+L
Sbjct: 348 GKE-IVTKCKGLPLTIKAVGGLLLCKDHVYHEWRRIAEHFQDELRGNTSETDNVMSSLQL 406

Query: 430 SYHYLPSQLKRCF 442
           SY  LPS LK C 
Sbjct: 407 SYDELPSHLKSCI 419

Disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SX38|DRL4_ARATH Putative disease resistance protein At1g50180 OS=Arabidopsis thaliana GN=At1g50180 PE=3 SV=2

 Score =  163 bits (412), Expect = 3e-39,   Method: Compositional matrix adjust.
 Identities = 127/429 (29%), Positives = 218/429 (50%), Gaps = 43/429 (10%)

Query: 36  GVASELKKWEDCLMMIQAVLRDAEEKQLTDEAVKLWLDDLRDLAYDAEDILDEFATKALD 95
           G+  ++K+ +D L  +   L+DA+EKQ   E V+ W+  +R+ +YDAEDIL+ F  KA  
Sbjct: 26  GIGDQVKQLQDELKRLNCFLKDADEKQHESERVRNWVAGIREASYDAEDILEAFFLKAES 85

Query: 96  RKFIADRDHGASSSKVQMLVPAPCFGCFKIQNTVNFNGKMRSSIKDITGRFDQLCNQRIH 155
           RK              ++L    C     +   V+ +  + S I++IT R  ++    + 
Sbjct: 86  RK---------QKGMKRVLRRLACI----LNEAVSLHS-VGSEIREITSRLSKIAASMLD 131

Query: 156 LGLQLTPG--GTSSTTTAQRRTPTSSVSTERAVFGRQQDKAKMLEMVLTDTSSDHSNLAV 213
            G++ + G  G S + + + +  +     E  + G +Q     LE ++ D  S    L V
Sbjct: 132 FGIKESMGREGLSLSDSLREQRQSFPYVVEHNLVGLEQS----LEKLVNDLVSGGEKLRV 187

Query: 214 IPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCD 273
             I GM G+GKTTLA+++++   V    FD  AWV VS D    ++ + +  ++++   +
Sbjct: 188 TSICGMGGLGKTTLAKQIFHHHKVR-RHFDRFAWVYVSQDCRRRHVWQDIFLNLSYKDEN 246

Query: 274 LKALN----EVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTR 329
            + L+    ++  ++ R +   K L+VLDD+W +D   W+ LK  F      S+II+TTR
Sbjct: 247 QRILSLRDEQLGEELHRFLKRNKCLIVLDDIWGKDA--WDCLKHVF-PHETGSEIILTTR 303

Query: 330 HAHVAATMEPIQQ-YNLQCLSDEDCWSLFMMHAFVGQD----ITAQQISDLFREKVVGKC 384
           +  VA   +P    +  Q L+ E+ W L    +  G++    +  +++ ++ ++ VV +C
Sbjct: 304 NKEVALYADPRGVLHEPQLLTCEESWELLEKISLSGRENIEPMLVKKMEEIGKQIVV-RC 362

Query: 385 GGLPLAAKTLGGLLRSKRH-DEWDEI---LNSNILDLPQQNG-----ILSVLRLSYHYLP 435
           GGLPLA   LGGLL +K   +EW  +   + S + +    NG     +  VL LSY YLP
Sbjct: 363 GGLPLAITVLGGLLATKSTWNEWQRVCENIKSYVSNGGSSNGSKNMLVADVLCLSYEYLP 422

Query: 436 SQLKRCFAY 444
             +K+CF Y
Sbjct: 423 PHVKQCFLY 431

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|P0C8S1|RP8L2_ARATH Probable disease resistance RPP8-like protein 2 OS=Arabidopsis thaliana GN=RPP8L2 PE=1 SV=1

 Score =  155 bits (392), Expect = 6e-37,   Method: Compositional matrix adjust.
 Identities = 130/438 (29%), Positives = 220/438 (50%), Gaps = 46/438 (10%)

Query: 25  DLLNFVSQLGGGVASELKKWEDCLMMIQAVLRDAEEKQLTDEAVKLWLDDLRDLAYDAED 84
           +LL+  S    G+  ++   +  L  +Q++L+DA+ K+   E V+ +L+D++D+ YDA+D
Sbjct: 15  ELLSRESARLNGIDEQVDGLKRQLGRLQSLLKDADAKKNETERVRNFLEDVKDIVYDADD 74

Query: 85  ILDEFATKALDRKFIADRDHGASSSKVQMLVPAPCFGCFKIQNTVNFNGKMRSSIKDITG 144
           I++ F    L  K            +V+ L       CF +        K  S I+ IT 
Sbjct: 75  IIESFLLNELRGK------EKGIKKQVRTL------ACFLVDRR-----KFASDIEGITK 117

Query: 145 RFDQLCNQRIHLGLQ-LTPGGTSSTTTAQRRTP---TSSVSTERAVFGRQQDKAKMLEMV 200
           R  ++      LG+Q +  GG  S +  +R+     T S ++E  + G  Q   ++++ +
Sbjct: 118 RISEVIVGMQSLGIQHIADGGGRSLSLQERQREIRQTFSRNSESDLVGLDQSVEELVDHL 177

Query: 201 LTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNIS 260
           + + S     + V+ + GM G+GKTTLAR+V++   V    FD  +WVCVS  F   ++ 
Sbjct: 178 VENDS-----VQVVSVSGMGGIGKTTLARQVFHHDIVR-RHFDGFSWVCVSQQFTRKDVW 231

Query: 261 RALLESITFASCDLKALNE--VQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAA 318
           + +L+ +      +  ++E  +Q ++   ++  + LLVLDDVW E+   W+ +KA F   
Sbjct: 232 QRILQDLRPYDEGIIQMDEYTLQGELFELLESGRYLLVLDDVWKEED--WDRIKAVF-PH 288

Query: 319 APNSKIIVTTRHAHVAATMEPI-QQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFR 377
               K+++T+R+  +    +P    +  + L+ E  W LF       +D T  ++ +   
Sbjct: 289 KRGWKMLLTSRNEGLGLHADPTCFAFRPRILTPEQSWKLFERIVSSRRDKTEFKVDEAMG 348

Query: 378 EKVVGKCGGLPLAAKTLGGLLRSKRHD--EWDEILNSNI---------LDLPQQNGILSV 426
           +++V  CGGLPLA K LGGLL +K+H   EW  + +SNI         L     N +  V
Sbjct: 349 KEMVTYCGGLPLAVKVLGGLL-AKKHTVLEWKRV-HSNIVTHIVGKSGLSDDNSNSVYRV 406

Query: 427 LRLSYHYLPSQLKRCFAY 444
           L LSY  LP QLK CF Y
Sbjct: 407 LSLSYEDLPMQLKHCFFY 424

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|A7XGN8|LOV1B_ARATH Disease susceptibility protein LOV1 OS=Arabidopsis thaliana GN=LOV1 PE=1 SV=1

 Score =  154 bits (390), Expect = 1e-36,   Method: Compositional matrix adjust.
 Identities = 129/444 (29%), Positives = 211/444 (47%), Gaps = 50/444 (11%)

Query: 25  DLLNFVSQLGGGVASELKKWEDCLMMIQAVLRDAEEKQLTDEAVKLWLDDLRDLAYDAED 84
           +LLN  S    G+  ++   +  L  +Q++L+DA+ K+   E V+ +L+D+RD+ YDAED
Sbjct: 15  ELLNRESARLNGIGEQVDGLKRQLGRLQSLLKDADAKKHESERVRNFLEDVRDIVYDAED 74

Query: 85  ILDEFATKALDRKFIADRDHGASSSKVQMLVPAPCFGCFKIQNTVNFNGKMRSSIKDITG 144
           I++ F       K    + H            A    CF +        K  S IK IT 
Sbjct: 75  IIESFLLNEFRTKEKGIKKH------------ARRLACFLVDRR-----KFASDIKGITK 117

Query: 145 RFDQLCNQRIHLGLQLTPGGTSSTTTAQRRTPTSSV------STERAVFGRQQDKAKMLE 198
           +  ++      LG+Q    G SS +  +R+     +      S+E  + G +Q       
Sbjct: 118 KISEVIGGMKSLGIQEIIDGASSMSLQERQREQKEIRQTFANSSESDLVGVEQSVE---- 173

Query: 199 MVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLN 258
             L     ++ N+ V+ I GM G+GKTTLAR+V++   V+   FD  AWV VS  F   +
Sbjct: 174 -ALAGHLVENDNIQVVSISGMGGIGKTTLARQVFHHDMVQ-RHFDGFAWVFVSQQFTQKH 231

Query: 259 ISRALLESITFASCDLKALNE--VQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFL 316
           + + + + +   + D+  ++E  +Q ++ + ++  + L+VLDDVW E+   W+ +KA F 
Sbjct: 232 VWQRIWQELQPQNGDISHMDEHILQGKLFKLLETGRYLVVLDDVWKEED--WDRIKAVF- 288

Query: 317 AAAPNSKIIVTTRHAHVAATMEPIQ-QYNLQCLSDEDCWSLFMMHAFVGQDITAQ----- 370
                 K+++T+R+  V    +P    +  + L+ E+ W L     F  +D T       
Sbjct: 289 PRKRGWKMLLTSRNEGVGIHADPKSFGFKTRILTPEESWKLCEKIVFHRRDETGTLSEVR 348

Query: 371 --QISDLFREKVVGKCGGLPLAAKTLGGLLRSKRH-DEWDEILNSNILDLPQQ------- 420
             +  +   +++V  CGGLPLA K LGGLL +K    EW  + ++    L  +       
Sbjct: 349 VDEDMEAMGKEMVTCCGGLPLAVKVLGGLLATKHTVPEWKRVYDNIGPHLAGRSSLDDNL 408

Query: 421 NGILSVLRLSYHYLPSQLKRCFAY 444
           N I  VL LSY  LP  LK CF Y
Sbjct: 409 NSIYRVLSLSYEDLPMCLKHCFLY 432

Confers susceptibility to the fungus Cochliobolus victoriae by conditioning victorin-dependent (victorin is a toxin synthesized by C.victoriae) induction of defense-associated proteins.

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	444
224132258	880	cc-nbs-lrr resistance protein [Populus t	0.984	0.496	0.505	1e-119
284026888	1424	CC-NBS-LRR protein [Quercus suber]	0.959	0.299	0.474	1e-108
225449649	1418	PREDICTED: putative disease resistance p	0.968	0.303	0.5	1e-107
147862409	1466	hypothetical protein VITISV_042289 [Viti	0.968	0.293	0.495	1e-105
359487182	2283	PREDICTED: putative disease resistance p	0.968	0.188	0.493	1e-105
147806087	1274	hypothetical protein VITISV_033712 [Viti	0.961	0.335	0.493	1e-103
147775060	1330	hypothetical protein VITISV_014782 [Viti	0.961	0.321	0.494	1e-103
359487155	1310	PREDICTED: putative disease resistance p	0.961	0.325	0.492	1e-102
255556671	1318	Disease resistance protein RPS2, putativ	0.963	0.324	0.490	1e-100
359487158	1245	PREDICTED: putative disease resistance p	0.945	0.337	0.488	1e-99

>gi|224132258|ref|XP_002328224.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222837739|gb|EEE76104.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  436 bits (1120), Expect = e-119,   Method: Compositional matrix adjust.
 Identities = 226/447 (50%), Positives = 309/447 (69%), Gaps = 10/447 (2%)

Query: 1   MAVGELLLSAVFQVLFDRLAPHGGDLLNFVSQLGGGVASELKKWEDCLMMIQAVLRDAEE 60
           MA+GE+ L+A   +LF RL     + L F  +   G+  +  KW   L+ +Q VL DAEE
Sbjct: 1   MAIGEIFLAAFLGMLFTRLT--SPEFLKFARR--EGIWKKADKWRGMLLKVQEVLDDAEE 56

Query: 61  KQLTDEAVKLWLDDLRDLAYDAEDILDEFATKALDRKFIADRDHGASSSKVQMLVPAPCF 120
           KQLT++AVK+WLDDLRDLAYD ED+LDEFAT++L R+ +A  +  AS+SKV+ +V     
Sbjct: 57  KQLTEKAVKIWLDDLRDLAYDVEDLLDEFATESLRRELMAAEE--ASTSKVRRIVSTTLS 114

Query: 121 GCFKIQNTVNFNGKMRSSIKDITGRFDQLCNQRIHLGLQLTPGGTSSTTTAQRRTPTSSV 180
                 + + FN KMRS +K+++ R D +  QRI LGL+   GG  ++T   ++ P++SV
Sbjct: 115 FTKISASAIKFNPKMRSKMKEVSSRLDGMAKQRIELGLEKMSGGRRTSTDVWQKPPSASV 174

Query: 181 STERAVFGRQQDKAKMLEMVLTDTSSD-HSNLAVIPIVGMAGVGKTTLAREVYNDRAVED 239
             E  ++GR  DK K+++++LT+ ++   +N  V+PIVGM G+GKTTLA+ V+ D  V++
Sbjct: 175 PNEPVIYGRDGDKKKVIDLLLTEEANHGDTNFHVVPIVGMGGIGKTTLAQHVFQDELVKE 234

Query: 240 SKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDD 299
             F  KAW CVSDDFDV+ IS+A+LES+T   CD K  N+VQV+++ A+ GKK LLVLDD
Sbjct: 235 W-FSTKAWACVSDDFDVMRISKAILESVTPHPCDFKEYNQVQVKLREALAGKKFLLVLDD 293

Query: 300 VWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAATMEPIQQYNLQCLSDEDCWSLFMM 359
           VWN++Y LW  LK PF A AP SKII+TTR A VA  + P + + L+ LSD+DCWS+F+ 
Sbjct: 294 VWNKNYGLWVALKTPFAAGAPGSKIILTTRDADVALMVGPTEYHCLKPLSDQDCWSVFVK 353

Query: 360 HAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLLRSK-RHDEWDEILNSNILDLP 418
           HAF  +D+ AQ       E++V KC GLPLAA+TLGGLLR+K R DEW++ILNS I DL 
Sbjct: 354 HAFENRDLGAQTNLQSVCERIVTKCKGLPLAARTLGGLLRTKQREDEWEDILNSKIWDLS 413

Query: 419 -QQNGILSVLRLSYHYLPSQLKRCFAY 444
             Q+ IL VLRLSY++LPS LKRCF Y
Sbjct: 414 DSQSDILPVLRLSYYHLPSHLKRCFTY 440

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|284026888|gb|ADB66335.1| CC-NBS-LRR protein [Quercus suber]

 Score =  399 bits (1026), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 210/443 (47%), Positives = 286/443 (64%), Gaps = 17/443 (3%)

Query: 3   VGELLLSAVFQVLFDRLAPHGGDLLNFVSQLGGGVASELKKWEDCLMMIQAVLRDAEEKQ 62
           + E+ L AV  VL D LAP   +L++ V    G V  +L+KW   L+ IQ VL+DAEEKQ
Sbjct: 2   LAEVFLGAVLPVLLDMLAPQ--ELMSLV--FSGSVKKKLEKWRQTLLAIQMVLKDAEEKQ 57

Query: 63  LTDEAVKLWLDDLRDLAYDAEDILDEFATKALDRKFIADRDHGASSSKVQMLVPAPCFGC 122
           LTD  V  WL+ +R+LAYD ED+ D+FA +A+ RK  A  +  + +S V+ LVP      
Sbjct: 58  LTDADVNQWLEAIRELAYDLEDLFDDFAIEAMQRKLKAQPESSSPASMVRSLVPTRF--- 114

Query: 123 FKIQNTVNFNGKMRSSIKDITGRFDQLCNQRIHLGLQLTPGGTSSTTTAQRRTPTSSVST 182
               + V FN KM+  I+ I+ R  ++  Q+  LGL+    G  S    +R  P+S+   
Sbjct: 115 --TPSAVKFNLKMKFEIEKISNRLKEITEQKDRLGLK---DGGMSVKIWKR--PSSTSVP 167

Query: 183 ERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKF 242
              V GR +D+ K++E++L D  +D SN  VI IVGMAGVGKTTLAR VYND AV+   F
Sbjct: 168 YGPVIGRDEDRKKIIELILKDEQTDDSNYHVISIVGMAGVGKTTLARLVYNDDAVKH--F 225

Query: 243 DVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWN 302
           + +AW+CVSDDFDV+ +++ALLES+T   C LK LNEVQV++   ++GKK LLVLDD+WN
Sbjct: 226 NPRAWICVSDDFDVMMVTKALLESVTSQPCHLKELNEVQVKLASELEGKKFLLVLDDLWN 285

Query: 303 EDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAATMEPIQQYNLQCLSDEDCWSLFMMHAF 362
           E+Y LWE L  PF A A  S+IIVTTR+A V   M  +Q YNL  +S+ DCW++F+ H+ 
Sbjct: 286 ENYGLWEALLPPFRAGAAGSRIIVTTRNASVGKVMGAVQSYNLDFISNNDCWAIFVQHSL 345

Query: 363 VGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLLRSKRHDEWDEILNSNILDLPQQNG 422
           + ++      S L RE+++ +C GLPLAA+TLGGL R K  DEW++I+NS +        
Sbjct: 346 MNENFGRPGNSGLIRERILERCRGLPLAARTLGGLFRGKELDEWEDIMNSKLWSSSNMGS 405

Query: 423 -ILSVLRLSYHYLPSQLKRCFAY 444
            I  +LRLSYH+LP  LKRCFAY
Sbjct: 406 DIFPILRLSYHHLPHHLKRCFAY 428

Source: Quercus suber

Species: Quercus suber

Genus: Quercus

Family: Fagaceae

Order: Fagales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225449649|ref|XP_002262753.1| PREDICTED: putative disease resistance protein At3g14460 [Vitis vinifera]

 Score =  394 bits (1011), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 223/446 (50%), Positives = 301/446 (67%), Gaps = 16/446 (3%)

Query: 2   AVGELLLSAVFQVLFDRLAPHGGDLLNFVSQLGGGVASELKKWEDCLMMIQAVLRDAEEK 61
           AVG  +LSA+F VLFD+L     DL  F  +    + SELKKWE  LM I AVL DAEEK
Sbjct: 3   AVGGAVLSALFGVLFDKLT--SADL-TFARR--EQIHSELKKWEKTLMKINAVLDDAEEK 57

Query: 62  QLTDEAVKLWLDDLRDLAYDAEDILDEFATKALDRKFIADRDHGASSSKVQMLVPAPCFG 121
           Q+++  VK+WL +LRDLAYDA+DILDEFAT+A  R  +     G S SKV  L+P  C  
Sbjct: 58  QMSNRFVKIWLSELRDLAYDADDILDEFATQAALRPNLISESQG-SPSKVWSLIPTCCTT 116

Query: 122 CFKIQNTVNFNGKMRSSIKDITGRFDQLCNQRIHLGLQLTPGGTSSTTTAQRRTPTSSVS 181
                + + FN +M S IKDIT R   +  +RI LGL+   GG  ST    +R PT+ + 
Sbjct: 117 LISPTDFM-FNVEMGSKIKDITARLMDISTRRIELGLEKV-GGPVST---WQRPPTTCLV 171

Query: 182 TERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSK 241
            E  V+GR +D+  +++++L D  S+ S + V+PIVGM GVGKTTLAR V+ND  ++   
Sbjct: 172 NEPCVYGRDKDEKMIVDLLLRDGGSE-SKVGVVPIVGMGGVGKTTLARLVFNDETIKQY- 229

Query: 242 FDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVW 301
           F +++WVCVSD+FD++ I++A+L+SIT  +  L  LN++QV++  A+ GK+ LLVLDDVW
Sbjct: 230 FTLRSWVCVSDEFDIIRITKAILDSITSQTTALSDLNQLQVKLSDALAGKRFLLVLDDVW 289

Query: 302 NEDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAATMEPIQQYN-LQCLSDEDCWSLFMMH 360
           N++Y  W  L++PF   A  SKIIVTTR A VA  M     Y+ ++ LS +DCWS+F+ H
Sbjct: 290 NKNYGDWVLLRSPFSTGAAGSKIIVTTRDAEVARMMAGSDNYHYVKALSYDDCWSVFVQH 349

Query: 361 AFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLLRSK-RHDEWDEILNSNILDLP- 418
           AF  ++I A    ++  +K+V KCGGLPLAAKTLGGLLRSK + DEW+++L S I + P 
Sbjct: 350 AFENRNICAHPSLEVIGKKIVQKCGGLPLAAKTLGGLLRSKSKDDEWEDVLYSKIWNFPD 409

Query: 419 QQNGILSVLRLSYHYLPSQLKRCFAY 444
           +++ IL  LRLSYHYLPS LKRCFAY
Sbjct: 410 KESDILPALRLSYHYLPSHLKRCFAY 435

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147862409|emb|CAN81911.1| hypothetical protein VITISV_042289 [Vitis vinifera]

 Score =  388 bits (997), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 220/444 (49%), Positives = 291/444 (65%), Gaps = 14/444 (3%)

Query: 3   VGELLLSAVFQVLFDRLAPHGGDLLNFVSQLGGGVASELKKWEDCLMMIQAVLRDAEEKQ 62
           VGE +LSA+F+ LF +LA    DLL F  Q    V +ELKKWE  L+ I AVL DAEEKQ
Sbjct: 4   VGEAILSALFETLFFKLA--SSDLLKFARQ--EQVHAELKKWEKILLKIHAVLDDAEEKQ 59

Query: 63  LTDEAVKLWLDDLRDLAYDAEDILDEFATKALDRKFIADRDHGASSSKVQMLVPAPCFGC 122
           +TD  VK+WLD+LRDLAYD EDILDEF T+AL RK +A+ +   S+S V  L+P+ C   
Sbjct: 60  MTDRLVKIWLDELRDLAYDVEDILDEFGTEALRRKLMAETE--PSTSMVCSLIPS-CCTS 116

Query: 123 FKIQNTVNFNGKMRSSIKDITGRFDQLCNQRIHLGLQLTPGGTSSTTTAQRRTPTSSVST 182
           F   +TV FN KM S I++IT R  ++  Q+  L L+   GG+S T  +  R PT+S+  
Sbjct: 117 FN-PSTVRFNVKMGSKIEEITARLQEISGQKNDLHLRENAGGSSYTMKS--RLPTTSLVD 173

Query: 183 ERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKF 242
           E  V+GR+ DK  +L ++L D  SD   + VIPIVGM G+GKTTLA+  +ND  VED  F
Sbjct: 174 ESRVYGRETDKEAILNLLLKDEPSD-DEVCVIPIVGMGGIGKTTLAQLAFNDCKVED-HF 231

Query: 243 DVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWN 302
           D++AWVCVSDDFDV+ +++ +L+S++  + D+  LN +QV +K  + G K LLVLDDVWN
Sbjct: 232 DLRAWVCVSDDFDVVRVTKTILQSVSLDTHDVNDLNLLQVMLKEKLSGNKFLLVLDDVWN 291

Query: 303 EDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAATMEPIQQYNLQCLSDEDCWSLFMMHAF 362
           E+   W+ L +P  A AP SK+I+TTR+  VA+       Y LQ LS  DC SLF   A 
Sbjct: 292 ENCEEWDILCSPMRAGAPGSKVIITTRNKGVASVAGTGSAYPLQELSHGDCLSLFTQQAL 351

Query: 363 VGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLLRSK-RHDEWDEILNSNILDLPQQ- 420
             +   A        E++V +C GLPLAAK LGG+LR++  +D W  IL S I DLPQ+ 
Sbjct: 352 GTRSFEAHPHLKELGEEIVRRCKGLPLAAKALGGMLRNEVNYDAWVNILKSKIWDLPQEK 411

Query: 421 NGILSVLRLSYHYLPSQLKRCFAY 444
           + +L  L+LSYH+LPS LKRCFAY
Sbjct: 412 SSVLPALKLSYHHLPSNLKRCFAY 435

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359487182|ref|XP_003633528.1| PREDICTED: putative disease resistance protein At3g14460-like [Vitis vinifera]

 Score =  387 bits (993), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 219/444 (49%), Positives = 291/444 (65%), Gaps = 14/444 (3%)

Query: 3    VGELLLSAVFQVLFDRLAPHGGDLLNFVSQLGGGVASELKKWEDCLMMIQAVLRDAEEKQ 62
            VGE +LSA+F+ LF +LA    DLL F  Q    V +ELKKWE  L+ I AVL DAEEKQ
Sbjct: 1015 VGEAILSALFETLFFKLA--SSDLLKFARQ--EQVHAELKKWEKILLKIHAVLDDAEEKQ 1070

Query: 63   LTDEAVKLWLDDLRDLAYDAEDILDEFATKALDRKFIADRDHGASSSKVQMLVPAPCFGC 122
            +TD  VK+WLD+LRDLAYD EDILDEF T+AL RK +A+ +   S+S V  L+P+ C   
Sbjct: 1071 MTDRLVKIWLDELRDLAYDVEDILDEFGTEALRRKLMAETE--PSTSMVCSLIPS-CCTS 1127

Query: 123  FKIQNTVNFNGKMRSSIKDITGRFDQLCNQRIHLGLQLTPGGTSSTTTAQRRTPTSSVST 182
            F   +TV FN KM S I++IT R  ++  Q+  L L+   GG+S T  +  R PT+S+  
Sbjct: 1128 FN-PSTVRFNVKMGSKIEEITARLQEISGQKNDLHLRENAGGSSYTMKS--RLPTTSLVD 1184

Query: 183  ERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKF 242
            E  V+GR+ DK  +L ++L D  SD   + VIPIVGM G+GKTTLA+  +ND  V+D  F
Sbjct: 1185 ESRVYGRETDKEAILNLLLKDEPSD-DEVCVIPIVGMGGIGKTTLAQLAFNDCKVKD-HF 1242

Query: 243  DVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWN 302
            D++AWVCVSDDFDV+ +++ +L+S++  + D+  LN +QV +K  + G K LLVLDDVWN
Sbjct: 1243 DLRAWVCVSDDFDVVRVTKTILQSVSLDTHDVNDLNLLQVMLKEKLSGNKFLLVLDDVWN 1302

Query: 303  EDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAATMEPIQQYNLQCLSDEDCWSLFMMHAF 362
            E+   W+ L +P  A AP SK+I+TTR+  VA+       Y LQ LS  DC SLF   A 
Sbjct: 1303 ENCEEWDILCSPMRAGAPGSKVIITTRNKGVASVAGTGSAYPLQELSHGDCLSLFTQQAL 1362

Query: 363  VGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLLRSK-RHDEWDEILNSNILDLPQQ- 420
              +   A        E++V +C GLPLAAK LGG+LR++  +D W  IL S I DLPQ+ 
Sbjct: 1363 GTRSFEAHPHLKELGEEIVRRCKGLPLAAKALGGMLRNEVNYDAWVNILKSKIWDLPQEK 1422

Query: 421  NGILSVLRLSYHYLPSQLKRCFAY 444
            + +L  L+LSYH+LPS LKRCFAY
Sbjct: 1423 SSVLPALKLSYHHLPSNLKRCFAY 1446

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147806087|emb|CAN63338.1| hypothetical protein VITISV_033712 [Vitis vinifera]

 Score =  382 bits (981), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 223/452 (49%), Positives = 291/452 (64%), Gaps = 25/452 (5%)

Query: 2   AVGELLLSAVFQVLFDRLAPHGGDLLNFVSQLGGGVASELKKWEDCLMMIQAVLRDAEEK 61
            VGELLLSA FQVLFD+LA    D L F  Q    + S+LKKWE  L  I+ VL DAE+K
Sbjct: 3   VVGELLLSAAFQVLFDKLA--SSDFLTFARQ--EHIHSQLKKWETQLFNIREVLNDAEDK 58

Query: 62  QLTDEAVKLWLDDLRDLAYDAEDILDEFATKALDRKFIADRDHGA-----SSSKVQMLVP 116
           Q+T  +VKLWL DLR+L YD EDILDEF T+ L RK   +    A     ++SKV  L+P
Sbjct: 59  QITSSSVKLWLADLRNLTYDMEDILDEFNTEMLRRKLAVNPQAAAAAAAATTSKVWSLIP 118

Query: 117 APCFGCFKIQNTVNFNGKMRSSIKDITGRFDQLCNQRIHLGLQLTPGGTSSTTTAQRRTP 176
           + C       + V FN  M S IKDIT R + +  ++  LGL+   G T++T        
Sbjct: 119 SCCTSF--TPSHVTFNVSMGSKIKDITSRLEDISTRKAQLGLEKVAGTTTTTWKRTP--- 173

Query: 177 TSSVSTERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRA 236
           T+S+  E  V GR  DK K+++++L+D S      A++PIVGM G+GKTTLAR  YND A
Sbjct: 174 TTSLFNEPQVHGRDDDKNKIVDLLLSDES------AIVPIVGMGGLGKTTLARLAYNDDA 227

Query: 237 VEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLV 296
           V    F  +AWVCVSD+FDV+ I++A+L +I+  S D    N++QV++ +++ GK+ LLV
Sbjct: 228 VV-KHFSSRAWVCVSDEFDVVKITKAILGAISQQSNDSNDFNKLQVELSQSLAGKRFLLV 286

Query: 297 LDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAATMEPIQQYN--LQCLSDEDCW 354
           LDDVWN++Y  W +L++ F   A  SK+IVTTR+ HVA  MEP   Y+  L+ LS +DCW
Sbjct: 287 LDDVWNKNYEDWNNLRSAFRGGAKGSKVIVTTRNTHVALMMEPSVTYHHSLKPLSYDDCW 346

Query: 355 SLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLLRSK-RHDEWDEILNSN 413
           S+F+ HAF  +DI          +K+V KC GLPLAAK LGGLLRSK R DEW+ ILNS 
Sbjct: 347 SVFVQHAFENRDIQEHPNLKSIGKKIVEKCDGLPLAAKVLGGLLRSKHRDDEWEHILNSK 406

Query: 414 ILDLP-QQNGILSVLRLSYHYLPSQLKRCFAY 444
           I  LP  + GI+  LRLSYH+LP QLKRCF Y
Sbjct: 407 IWSLPDTECGIIPALRLSYHHLPVQLKRCFVY 438

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147775060|emb|CAN77204.1| hypothetical protein VITISV_014782 [Vitis vinifera]

 Score =  380 bits (977), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 222/449 (49%), Positives = 287/449 (63%), Gaps = 22/449 (4%)

Query: 2   AVGELLLSAVFQVLFDRLAPHGGDLLNFVSQLGGGVASELKKWEDCLMMIQAVLRDAEEK 61
            VGELLLSA FQVLFD+LA    D L F  Q    + S+LKKWE  L  I+ VL DAE+K
Sbjct: 3   VVGELLLSAAFQVLFDKLA--SSDFLTFARQ--EHIHSQLKKWETQLFNIREVLNDAEDK 58

Query: 62  QLTDEAVKLWLDDLRDLAYDAEDILDEFATKALDRKFIADRDHGASS--SKVQMLVPAPC 119
           Q+   +VKLWL +LR LAYD EDILDEF T+ L RK         ++  SKV  L+P  C
Sbjct: 59  QIASSSVKLWLAELRILAYDMEDILDEFNTEMLRRKLAVQPQAAXAATTSKVWSLIPTCC 118

Query: 120 FGCFKIQNTVNFNGKMRSSIKDITGRFDQLCNQRIHLGLQLTPGGTSSTTTAQRRTPTSS 179
                  + V FN  M S IKDIT R + +  ++  LGL+   G T++T        T+S
Sbjct: 119 TSF--TPSHVTFNVSMGSKIKDITSRLEDISTRKAQLGLEKVAGTTTTTWKRTP---TTS 173

Query: 180 VSTERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVED 239
           +  E  V GR  DK K+++++L+D S      AV+PIVGM G+GKTTLAR  YND AV  
Sbjct: 174 LFNEPQVHGRDDDKNKIVDLLLSDES------AVVPIVGMGGLGKTTLARFAYNDDAVV- 226

Query: 240 SKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDD 299
             F  +AWVCVSD+FDV+ I++A+L +I+    D K  N++QV++  ++ GK+ LLVLDD
Sbjct: 227 KHFSPRAWVCVSDEFDVVKITKAILNAISPQGNDSKDFNQLQVELSHSLAGKRFLLVLDD 286

Query: 300 VWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAATMEPIQQYN--LQCLSDEDCWSLF 357
           VWN +Y  W +L++PF   A  SK+IVTTR+ HVA  MEP   Y+  L+ LS +DCWS+F
Sbjct: 287 VWNRNYEDWNNLRSPFRGGAKGSKVIVTTRNTHVALMMEPSVTYHHSLKPLSYDDCWSVF 346

Query: 358 MMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLLRSK-RHDEWDEILNSNILD 416
           + HAF  +DI          +K+V KC GLPLAAK LGGLLRSK R DEW+ +LNS I  
Sbjct: 347 VQHAFENRDIQEHPNLKSIGKKIVEKCDGLPLAAKVLGGLLRSKHRDDEWEHVLNSKIWI 406

Query: 417 LP-QQNGILSVLRLSYHYLPSQLKRCFAY 444
           LP  + GI+  LRLSYH+LP+QLKRCF Y
Sbjct: 407 LPDTECGIIPALRLSYHHLPAQLKRCFVY 435

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359487155|ref|XP_002264397.2| PREDICTED: putative disease resistance protein At3g14460-like [Vitis vinifera]

 Score =  377 bits (969), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 220/447 (49%), Positives = 282/447 (63%), Gaps = 20/447 (4%)

Query: 2   AVGELLLSAVFQVLFDRLAPHGGDLLNFVSQLGGGVASELKKWEDCLMMIQAVLRDAEEK 61
            VGELLLSA FQVLFD+LA    D L F  Q    + S+LKKWE  L  I+ VL DAE+K
Sbjct: 41  VVGELLLSAAFQVLFDKLA--SSDFLTFARQ--EHIHSQLKKWETQLFNIREVLNDAEDK 96

Query: 62  QLTDEAVKLWLDDLRDLAYDAEDILDEFATKALDRKFIADRDHGASSSKVQMLVPAPCFG 121
           Q+   +VKLWL DLR LAYD EDILDEF T+ L RK        A+SSKV  L+P  C  
Sbjct: 97  QIASSSVKLWLADLRILAYDMEDILDEFNTEMLRRKLAVQPQAAAASSKVWSLIPTCCTS 156

Query: 122 CFKIQNTVNFNGKMRSSIKDITGRFDQLCNQRIHLGLQLTPGGTSSTTTAQRRTPTSSVS 181
                + V FN  M S IKDIT R + +  ++  LGL+   G T++T        T+S+ 
Sbjct: 157 F--APSHVTFNVSMGSKIKDITSRLEDISTRKAQLGLEKVAGTTTTTWKRTP---TTSLF 211

Query: 182 TERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSK 241
            E  V GR  DK K+++++L+D S      AV+PIVGM G+GKTTL R  YND AV    
Sbjct: 212 NEPQVHGRDDDKNKIVDLLLSDES------AVVPIVGMGGLGKTTLTRLAYNDDAVV-KH 264

Query: 242 FDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVW 301
           F  +AWVCVS + DV  I++A+L  I+  S D    N +QV++ +++ GK+ LLVLDDVW
Sbjct: 265 FSPRAWVCVSVESDVEKITKAILSDISPQSSDFNNFNRLQVELSQSLAGKRFLLVLDDVW 324

Query: 302 NEDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAATMEPIQQYN--LQCLSDEDCWSLFMM 359
           N +Y  W +L++PF   A  SK+IVTTR   VA  M+P   Y+  L+ LSD+DCWS+F+ 
Sbjct: 325 NMNYEDWNNLRSPFRGGAKGSKVIVTTRDRGVALIMQPSDNYHHSLEPLSDDDCWSIFVQ 384

Query: 360 HAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLLRSKRHD-EWDEILNSNILDLP 418
           HAF  +DI          +K+V KC GLPLAAK LGG+LRSK+ D EW+ ILNS I  LP
Sbjct: 385 HAFENRDIQEHPNLKSIGKKIVEKCRGLPLAAKVLGGILRSKQRDNEWEHILNSKIWTLP 444

Query: 419 -QQNGILSVLRLSYHYLPSQLKRCFAY 444
             + GI+  LRLSYH+LP+QLKRCF Y
Sbjct: 445 DTECGIIPALRLSYHHLPAQLKRCFVY 471

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255556671|ref|XP_002519369.1| Disease resistance protein RPS2, putative [Ricinus communis] gi|223541436|gb|EEF42986.1| Disease resistance protein RPS2, putative [Ricinus communis]

 Score =  370 bits (951), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 218/444 (49%), Positives = 294/444 (66%), Gaps = 16/444 (3%)

Query: 3   VGELLLSAVFQVLFDRLAPHGGDLLNFVSQLGGGVASELKKWEDCLMMIQAVLRDAEEKQ 62
           +GE +LSA  QVLFD+LA    +LL F  Q    V +++KKWE  L+ I AVL DAEEKQ
Sbjct: 25  IGEAVLSAFLQVLFDKLA--SPELLKFARQ--EQVYADIKKWEKILLKIHAVLDDAEEKQ 80

Query: 63  LTDEAVKLWLDDLRDLAYDAEDILDEFATKALDRKFIADRDHGASSSKVQMLVPAPCFGC 122
           LT++ VK+WL +LRDLAYD EDILDEFAT+A+ R  I + +  A++SK+  L+   C G 
Sbjct: 81  LTNQFVKIWLAELRDLAYDVEDILDEFATEAVHRGLIFESE--ANTSKLLKLIHT-CNGL 137

Query: 123 FKIQNTVNFNGKMRSSIKDITGRFDQLCNQRIHLGLQLTPGGTSSTTTAQRRTPTSSVST 182
               N+V F  +M S +K IT R   + NQ+ +L L+    G+S  T  ++R PT+S+  
Sbjct: 138 IS-SNSV-FRVRMISKMKGITTRLQAISNQKNYLNLRENLEGSS--TKVRKRLPTTSLVN 193

Query: 183 ERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKF 242
           E  VFGR++DK  +LE++LTD ++D S + VI I+GM GVGKTTLA+ V+ND  V+DS F
Sbjct: 194 ETQVFGRERDKEAVLELLLTDYAND-SKVCVIAIIGMGGVGKTTLAQLVFNDTKVKDS-F 251

Query: 243 DVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWN 302
           D+K W CVSD+FDVLNI++++LESIT  S     LN +Q +++  +  K+ LLVLDDVWN
Sbjct: 252 DLKVWACVSDEFDVLNITKSILESITNRSVG-SNLNLLQGRLQDILTEKRFLLVLDDVWN 310

Query: 303 EDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAATMEPIQQYNLQCLSDEDCWSLFMMHAF 362
           E+Y  W+ L +PF   AP SKI+VTTR   VA+ M  +  Y+L+ L  + C  LF   + 
Sbjct: 311 ENYQYWDALCSPFSNGAPGSKILVTTRCESVASVMGSVAIYHLKELPYDSCLLLFTQLSL 370

Query: 363 VGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLLRSK-RHDEWDEILNSNILDLP-QQ 420
              +  A        E +V KC GLPLAAKTLG LL +K   DEW++I +S I DL  +Q
Sbjct: 371 GTNNFDAHPSLKEIGEGIVEKCKGLPLAAKTLGSLLHTKVSQDEWEDIFSSKIWDLSEEQ 430

Query: 421 NGILSVLRLSYHYLPSQLKRCFAY 444
           +GIL  LRLSYH+LPS LK+CFAY
Sbjct: 431 SGILPALRLSYHHLPSHLKQCFAY 454

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359487158|ref|XP_003633523.1| PREDICTED: putative disease resistance protein RGA4-like, partial [Vitis vinifera]

 Score =  370 bits (949), Expect = 1e-99,   Method: Compositional matrix adjust.
 Identities = 216/442 (48%), Positives = 284/442 (64%), Gaps = 22/442 (4%)

Query: 9   SAVFQVLFDRLAPHGGDLLNFVSQLGGGVASELKKWEDCLMMIQAVLRDAEEKQLTDEAV 68
           SA FQVLF++LA    DLL F  Q    + S+LKKWE  L  I+ VL DAE+KQ+   +V
Sbjct: 1   SAAFQVLFNKLA--SSDLLTFARQ--EHIHSQLKKWETQLFNIREVLNDAEDKQIATSSV 56

Query: 69  KLWLDDLRDLAYDAEDILDEFATKALDRKFIADRDHGA--SSSKVQMLVPAPCFGCFKIQ 126
           KLWL +LR LAYD EDILDEF T+ L RK           ++SKV  L+P  C       
Sbjct: 57  KLWLAELRILAYDMEDILDEFNTEMLRRKLAVQPQAAVAATTSKVWSLIPTCCTSF--TP 114

Query: 127 NTVNFNGKMRSSIKDITGRFDQLCNQRIHLGLQLTPGGTSSTTTAQRRTPTSSVSTERAV 186
           + V FN  M S IKDIT R + +  ++  LGL+   G T++T        T+S+  E  V
Sbjct: 115 SHVTFNVSMGSKIKDITSRLEDISTRKAQLGLEKVAGTTTTTWKRTP---TTSLFNEPQV 171

Query: 187 FGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKA 246
            GR  DK K+++++L+D S      AV+PI+GM G+GKTTLAR  YND AV    F  +A
Sbjct: 172 HGRDDDKNKIVDLLLSDES------AVVPIIGMGGLGKTTLARFAYNDDAVV-KHFSPRA 224

Query: 247 WVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYC 306
           WVCVSD+FDV+ I++A+L +I+  S D    N++QV++ +++ GK+ LLVLDDVWN++Y 
Sbjct: 225 WVCVSDEFDVVKITKAILGAISQLSNDSNDFNKLQVELSQSLAGKRFLLVLDDVWNKNYE 284

Query: 307 LWEDLKAPFLAAAPNSKIIVTTRHAHVAATMEPIQQYN--LQCLSDEDCWSLFMMHAFVG 364
            W +L++PF   A  SK+IVTTR+ HVA  MEP   Y+  L+ LS +DCWS+F+ HAF  
Sbjct: 285 DWNNLRSPFKGGAKGSKVIVTTRNTHVALMMEPSVTYHHSLKPLSYDDCWSVFVQHAFEN 344

Query: 365 QDITAQQISDLFREKVVGKCGGLPLAAKTLGGLLRSK-RHDEWDEILNSNILDLP-QQNG 422
           +DI          +K+V KC GLPLAAK LGGLLRSK R DEW+ ILNS I  LP  + G
Sbjct: 345 RDIQEHPNLKSIGKKIVEKCDGLPLAAKVLGGLLRSKHRDDEWEHILNSKIWILPDTECG 404

Query: 423 ILSVLRLSYHYLPSQLKRCFAY 444
           I+  LRLSYH+LP+QLKRCF Y
Sbjct: 405 IIPALRLSYHHLPAQLKRCFVY 426

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	444
TAIR|locus:2091672	1054	AT3G14470 [Arabidopsis thalian	0.952	0.401	0.392	1.9e-73
TAIR|locus:2091662	1424	AT3G14460 [Arabidopsis thalian	0.880	0.274	0.314	1.1e-44
TAIR|locus:504956483	847	AT3G46730 [Arabidopsis thalian	0.900	0.472	0.303	2.2e-36
TAIR|locus:2011982	857	AT1G50180 [Arabidopsis thalian	0.869	0.450	0.286	4.4e-35
UNIPROTKB|O48647	1802	O48647 "XA1" [Oryza sativa (ta	0.691	0.170	0.297	5e-35
TAIR|locus:2176486	908	RPP8 "RECOGNITION OF PERONOSPO	0.880	0.430	0.286	2.1e-33
TAIR|locus:2169523	901	AT5G35450 [Arabidopsis thalian	0.806	0.397	0.270	1.6e-32
TAIR|locus:2037623	899	AT1G58410 [Arabidopsis thalian	0.700	0.345	0.278	6.4e-32
TAIR|locus:2152536	908	AT5G48620 [Arabidopsis thalian	0.887	0.433	0.263	3.4e-30
TAIR|locus:2037639	907	AT1G58390 "AT1G58390" [Arabido	0.907	0.444	0.266	1.9e-29

TAIR|locus:2091672 AT3G14470 [Arabidopsis thaliana (taxid:3702)]

 Score = 743 (266.6 bits), Expect = 1.9e-73, P = 1.9e-73
 Identities = 176/448 (39%), Positives = 267/448 (59%)

Query:     3 VGELLLSAVFQVLFDRLAPHGGDLLNFVSQLGGGVASELKKWEDCLMMIQAVLRDAEEKQ 62
             +GE+ L+A  Q LF  L            +L   +   L++    L+ I AVL DAEEKQ
Sbjct:     4 IGEMFLAAFLQALFQTLVSEPFRSFFKRRELNENL---LERLSTALLTITAVLIDAEEKQ 60

Query:    63 LTDEAVKLWLDDLRDLAYDAEDILDEFATKALDRKFIADRDHGASSSKVQMLVPAPCFGC 122
             +T+  V+ W+++LRD+ Y AED LD+ AT+AL     A+    +SS++++ L      G 
Sbjct:    61 ITNPVVEKWVNELRDVVYHAEDALDDIATEALRLNIGAE---SSSSNRLRQLRGRMSLGD 117

Query:   123 FKIQNTVNFNGKMRSSIKDITGRFDQLCNQRIHLGL-QLTPGGTSSTTTAQRRTPTSSVS 181
             F   N+ +    + + ++ +T R ++L +QR  LGL +LT          ++R PT+S+ 
Sbjct:   118 FLDGNSEH----LETRLEKVTIRLERLASQRNILGLKELT------AMIPKQRLPTTSLV 167

Query:   182 TERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSK 241
              E  VFGR  DK +++  ++ +   D+  + V+ IVG+ GVGKTTL++ +YND+ V  S 
Sbjct:   168 DESEVFGRDDDKDEIMRFLIPENGKDNG-ITVVAIVGIGGVGKTTLSQLLYNDQHVR-SY 225

Query:   242 FDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGXXX--XXXXXX 299
             F  K W  VS++FDV  I++ + ES+T   C+   L+ +QV++K  + G           
Sbjct:   226 FGTKVWAHVSEEFDVFKITKKVYESVTSRPCEFTDLDVLQVKLKERLTGTGLPFLLVLDD 285

Query:   300 XWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAATMEPIQQYNLQCLSDEDCWSLFMM 359
              WNE++  W+ L+ PF+ AA  S+I+VTTR   VA+ M  +  +NLQ LSD DCWSLFM 
Sbjct:   286 LWNENFADWDLLRQPFIHAAQGSQILVTTRSQRVASIMCAVHVHNLQPLSDGDCWSLFMK 345

Query:   360 HAFVGQD-ITAQQISDLFREKVVGKCGGLPLAAKTLGGLLRSK-RHDEWDEILNSNILDL 417
               F  Q+    ++I DL  E++V KC GLPLA KTLGG+LR + +  EW+ +L+S I DL
Sbjct:   346 TVFGNQEPCLNREIGDL-AERIVHKCRGLPLAVKTLGGVLRFEGKVIEWERVLSSRIWDL 404

Query:   418 P-QQNGILSVLRLSYHYLPSQLKRCFAY 444
             P  ++ +L VLR+SY+YLP+ LKRCFAY
Sbjct:   405 PADKSNLLPVLRVSYYYLPAHLKRCFAY 432

GO:0005576 "extracellular region" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0009627 "systemic acquired resistance" evidence=RCA

GO:0009697 "salicylic acid biosynthetic process" evidence=RCA

TAIR|locus:2091662 AT3G14460 [Arabidopsis thaliana (taxid:3702)]

 Score = 483 (175.1 bits), Expect = 1.1e-44, P = 1.1e-44
 Identities = 130/414 (31%), Positives = 212/414 (51%)

Query:    34 GGGVASELKKWEDCLMMIQAVLRDAEEKQLTDEAVKLWLDDLRDLAYDAEDILDEFATKA 93
             G   ++ LK+ +  L+    VL DA+++      VK WL  ++D  + AEDILDE  T+A
Sbjct:    29 GKSSSALLKRLKVALVTANPVLADADQRAEHVREVKHWLTGIKDAFFQAEDILDELQTEA 88

Query:    94 LDRKFIADRDHGASSSKVQMLVPAPCFGCFKIQNTVNFNGKMRSSIKDITGRFDQLCNQR 153
             L R+ +A+   G      Q L+     G   IQ  +    KM   ++ +      +    
Sbjct:    89 LRRRVVAEA--GGLGGLFQNLMA----GREAIQKKIE--PKMEKVVRLLEHHVKHI---E 137

Query:   154 IHLGL-QLTPGGTSSTTTAQRRTPTSSVSTERAVFGRQQDKAKMLEMVLTDTSSDHSNLA 212
             + +GL + +         A R  P   +   R V GR +DK  ++ ++L+D        A
Sbjct:   138 V-IGLKEYSETREPQWRQASRSRP-DDLPQGRLV-GRVEDKLALVNLLLSDDEISIGKPA 194

Query:   213 VIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASC 272
             VI +VGM GVGKTTL   V+ND  V +  F+VK W+    +F+V  +++A+L+ IT ++ 
Sbjct:   195 VISVVGMPGVGKTTLTEIVFNDYRVTEH-FEVKMWISAGINFNVFTVTKAVLQDITSSAV 253

Query:   273 DLKALNEVQVQIKRAVDGXXXXXXXXXXWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAH 332
             + + L  +Q+Q+K+ + G          W+E    WE  +  F  A   SKI++TTR   
Sbjct:   254 NTEDLPSLQIQLKKTLSGKRFLLVLDDFWSESDSEWESFQVAFTDAEEGSKIVLTTRSEI 313

Query:   333 VAATMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITA--QQISDLFREKVVGKCGGLPLA 390
             V+   +  + Y ++ +++E+CW L    AF    + +  Q++  + + ++  +C GLPLA
Sbjct:   314 VSTVAKAEKIYQMKLMTNEECWELISRFAFGNISVGSINQELEGIGK-RIAEQCKGLPLA 372

Query:   391 AKTLGGLLRSKRH-DEWDEILNSNILDLPQQNGILSVLRLSYHYLPSQLKRCFA 443
             A+ +   LRSK + D+W  + + N       N IL VL+LSY  LP QLKRCFA
Sbjct:   373 ARAIASHLRSKPNPDDWYAV-SKNFSSYT--NSILPVLKLSYDSLPPQLKRCFA 423

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:504956483 AT3G46730 [Arabidopsis thaliana (taxid:3702)]

 Score = 401 (146.2 bits), Expect = 2.2e-36, P = 2.2e-36
 Identities = 131/432 (30%), Positives = 202/432 (46%)

Query:    23 GGDLLNFVSQLGGGVASELKKWEDCLMMIQAVLRDAEEKQLTDEAVKLWLDDLRDLAYDA 82
             GG L+N V  L G V  +L++ +  L  I   L+D E ++  DE  K W   + D+AYD 
Sbjct:    14 GGYLINEVLALMG-VKDDLEELKTELTCIHGYLKDVEAREREDEVSKEWTKLVLDIAYDI 72

Query:    83 EDILDEFATKALDRKFIADRDHGASSSKVQMLVPAPCFGCFKIQNTVNFNGKMRSSIKDI 142
             ED+LD +  K  +R     R     ++K+     A         N V     ++  I DI
Sbjct:    73 EDVLDTYFLKLEERSL--RRGLLRLTNKIGKKRDA--------YNIVEDIRTLKRRILDI 122

Query:   143 TGRFDQLCNQRIHLGLQLTPGGTSSTTTAQRRTPTSS-VSTERAVFGRQQDKAKMLEMVL 201
             T +      +   +G    P G + T    R+   +  V  E  V G + D   +L  +L
Sbjct:   123 TRK-----RETFGIGSFNEPRGENITNVRVRQLRRAPPVDQEELVVGLEDDVKILLVKLL 177

Query:   202 TDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISR 261
             +D   D S   +I I GM G+GKT LAR++YN   V+  +FD +AW  VS ++   +I  
Sbjct:   178 SDNEKDKSY--IISIFGMGGLGKTALARKLYNSGDVK-RRFDCRAWTYVSQEYKTRDILI 234

Query:   262 ALLESITFASCD----LKALNE---VQVQIKRAVDGXXXXXXXXXXWNEDYCLWEDLKAP 314
              ++ S+   S +    +K   E   ++V +   ++G          W+ D   WE LK  
Sbjct:   235 RIIRSLGIVSAEEMEKIKMFEEDEELEVYLYGLLEGKNYMVVVDDVWDPD--AWESLKRA 292

Query:   315 FLAAAPNSKIIVTTRHAHVAATME-PIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQIS 373
                    SK+I+TTR   +A  +E  +  + L+ L+ E+ W+LF   AF   +   + + 
Sbjct:   293 LPCDHRGSKVIITTRIRAIAEGVEGTVYAHKLRFLTFEESWTLFERKAFSNIEKVDEDLQ 352

Query:   374 DLFREKVVGKCGGLPLAAKTLGGLLRSKRHDEWDEILNSNILDLPQQN-GILSVLRLSYH 432
                +E +V KCGGLPLA   L GLL  KR +EW E+  S    L   +  I +V  LS+ 
Sbjct:   353 RTGKE-MVKKCGGLPLAIVVLSGLLSRKRTNEWHEVCASLWRRLKDNSIHISTVFDLSFK 411

Query:   433 YLPSQLKRCFAY 444
              +  +LK CF Y
Sbjct:   412 EMRHELKLCFLY 423

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2011982 AT1G50180 [Arabidopsis thaliana (taxid:3702)]

 Score = 389 (142.0 bits), Expect = 4.4e-35, P = 4.4e-35
 Identities = 123/429 (28%), Positives = 212/429 (49%)

Query:    36 GVASELKKWEDCLMMIQAVLRDAEEKQLTDEAVKLWLDDLRDLAYDAEDILDEFATKALD 95
             G+  ++K+ +D L  +   L+DA+EKQ   E V+ W+  +R+ +YDAEDIL+ F  KA  
Sbjct:    26 GIGDQVKQLQDELKRLNCFLKDADEKQHESERVRNWVAGIREASYDAEDILEAFFLKAES 85

Query:    96 RKFIADRDHGASSSKVQMLVPAPCFGCFKIQNTVNFNGKMRSSIKDITGRFDQLCNQRIH 155
             RK       G      ++L    C     +   V+ +  + S I++IT R  ++    + 
Sbjct:    86 RK-----QKGMK----RVLRRLACI----LNEAVSLHS-VGSEIREITSRLSKIAASMLD 131

Query:   156 LGLQLTPG--GTSSTTTAQRRTPTSSVSTERAVFGRQQDKAKMLEMVLTDTSSDHSNLAV 213
              G++ + G  G S + + + +  +     E  + G +Q     LE ++ D  S    L V
Sbjct:   132 FGIKESMGREGLSLSDSLREQRQSFPYVVEHNLVGLEQS----LEKLVNDLVSGGEKLRV 187

Query:   214 IPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCD 273
               I GM G+GKTTLA+++++   V    FD  AWV VS D    ++ + +  ++++   +
Sbjct:   188 TSICGMGGLGKTTLAKQIFHHHKVR-RHFDRFAWVYVSQDCRRRHVWQDIFLNLSYKDEN 246

Query:   274 LK--ALNEVQV--QIKRAVDGXXXXXXXXXXWNEDYCLWEDLKAPFLAAAPNSKIIVTTR 329
              +  +L + Q+  ++ R +            W +D   W+ LK  F      S+II+TTR
Sbjct:   247 QRILSLRDEQLGEELHRFLKRNKCLIVLDDIWGKD--AWDCLKHVF-PHETGSEIILTTR 303

Query:   330 HAHVAATMEPIQQ-YNLQCLSDEDCWSLFMMHAFVGQD----ITAQQISDLFREKVVGKC 384
             +  VA   +P    +  Q L+ E+ W L    +  G++    +  +++ ++ ++ VV +C
Sbjct:   304 NKEVALYADPRGVLHEPQLLTCEESWELLEKISLSGRENIEPMLVKKMEEIGKQIVV-RC 362

Query:   385 GGLPLAAKTLGGLLRSKRH-DEWDEI---LNSNILDLPQQNG-----ILSVLRLSYHYLP 435
             GGLPLA   LGGLL +K   +EW  +   + S + +    NG     +  VL LSY YLP
Sbjct:   363 GGLPLAITVLGGLLATKSTWNEWQRVCENIKSYVSNGGSSNGSKNMLVADVLCLSYEYLP 422

Query:   436 SQLKRCFAY 444
               +K+CF Y
Sbjct:   423 PHVKQCFLY 431

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

GO:0043531 "ADP binding" evidence=IEA

GO:0009506 "plasmodesma" evidence=IDA

UNIPROTKB|O48647 O48647 "XA1" [Oryza sativa (taxid:4530)]

 Score = 371 (135.7 bits), Expect = 5.0e-35, Sum P(2) = 5.0e-35
 Identities = 96/323 (29%), Positives = 165/323 (51%)

Query:   134 KMRSSIKDITGRFDQLCNQRIHLGLQLTPGGTSSTTTAQRRTPTSSVSTERAVFGRQQDK 193
             ++ + I+ +T + ++  N+ + L    +   +   T       TSS   E  V+GR  + 
Sbjct:   245 ELSNRIQCMTHQLEEAVNEVMRLCRSSSSNQSRQGTPPATNATTSSYLPEPIVYGRAAEM 304

Query:   194 AKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDD 253
               + ++++++ S+    + V+PIVG  G+GKTTLA+ V  D  ++ S+F+VK WV VSD 
Sbjct:   305 ETIKQLIMSNRSN---GITVLPIVGNGGIGKTTLAQLVCKDLVIK-SQFNVKIWVYVSDK 360

Query:   254 FDVLNISRALLESITFASCD-LKALNEVQVQIKRAVDGXXXXXXXXXXWNEDYCLWEDLK 312
             FDV+ I+R +L+ ++  S + +  L+ +Q  ++  +            W      W+ L 
Sbjct:   361 FDVVKITRQILDHVSNQSHEGISNLDTLQQDLEEQMKSKKFLIVLDDVWEIRTDDWKKLL 420

Query:   313 APFLA---------AAPNSKIIVTTRHAHVAATMEPIQQYNLQCLSDEDCWSLFMMHAFV 363
             AP             A  + II+TTR   +A ++  +Q   L+ L D+D WSLF +HAF 
Sbjct:   421 APLRPNDQVNSSQEEATGNMIILTTRIQSIAKSLGTVQSIKLEALKDDDIWSLFKVHAFG 480

Query:   364 GQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLLRSKRH-DEWDEILNSNIL-DLPQQN 421
                  +     +  +++  +  G PLAAKT+G LL +    D WD I+ S     L Q  
Sbjct:   481 NDKHDSSPGLQVLGKQIASELKGNPLAAKTVGSLLGTNLTIDHWDSIIKSEEWKSLQQAY 540

Query:   422 GILSVLRLSYHYLPSQLKRCFAY 444
             GI+  L+LSY +L + L++C +Y
Sbjct:   541 GIMQALKLSYDHLSNPLQQCVSY 563

GO:0006915 "apoptotic process" evidence=IGI

GO:0006952 "defense response" evidence=IGI

TAIR|locus:2176486 RPP8 "RECOGNITION OF PERONOSPORA PARASITICA 8" [Arabidopsis thaliana (taxid:3702)]

 Score = 374 (136.7 bits), Expect = 2.1e-33, P = 2.1e-33
 Identities = 126/440 (28%), Positives = 211/440 (47%)

Query:    25 DLLNFVSQLGGGVASELKKWEDCLMMIQAVLRDAEEKQLTDEAVKLWLDDLRDLAYDAED 84
             DLL+  S+   G+  +L   +  L  +Q++L+DA+ K+   + V+ +L+D++DL +DAED
Sbjct:    15 DLLSRESERLQGIDGQLDGLKRQLRSLQSLLKDADAKKHGSDRVRNFLEDVKDLVFDAED 74

Query:    85 ILDEFATKALDRKFIADRDHGASSSKVQMLVPAPCFGCFKIQNTVNFNGKMRSSIKDITG 144
             I++ +    L  K    + H      V+ L       CF     +    K+ S I+ IT 
Sbjct:    75 IIESYVLNKLSGKGKGVKKH------VRRLA------CF-----LTDRHKVASDIEGITK 117

Query:   145 RFDQLCNQRIHLGLQ-LTPGGTSSTTTAQRRTP-----TSSVSTERAVFGRQQDKAKML- 197
             R  ++  +    G+Q +  GG S +   ++R       T   S+E  + G +Q   +++ 
Sbjct:   118 RISEVIGEMQSFGIQQIIDGGRSLSLQERQRVQREIRQTYPDSSESDLVGVEQSVKELVG 177

Query:   198 EMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVL 257
              +V  D    H    V+ I GM G+GKTTLAR+V++   V    FD  AWVCVS  F   
Sbjct:   178 HLVENDV---HQ---VVSIAGMGGIGKTTLARQVFHHDLVR-RHFDGFAWVCVSQQFTQK 230

Query:   258 NISRALLESITFASCDLKALNEVQVQIK--RAVDGXXXXXXXXXXWNEDYCLWEDLKAPF 315
             ++ + +L+ +     D+  ++E  +Q K  + ++           W ++   W+ +KA F
Sbjct:   231 HVWQRILQELQPHDGDILQMDEYALQRKLFQLLEAGRYLVVLDDVWKKED--WDVIKAVF 288

Query:   316 LAAAPNSKIIVTTRHAHVAATMEPI-QQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISD 374
                    K+++T+R+  V    +P    +    L+ E+ W L     F  +D T  ++ +
Sbjct:   289 -PRKRGWKMLLTSRNEGVGIHADPTCLTFRASILNPEESWKLCERIVFPRRDETEVRLDE 347

Query:   375 LFR---EKVVGKCGGLPLAAKTLGGLLRSKRH-DEWDEI---LNSNI-----LDLPQQNG 422
                   +++V  CGGLPLA K LGGLL +K    EW  +   + S I     LD    N 
Sbjct:   348 EMEAMGKEMVTHCGGLPLAVKALGGLLANKHTVPEWKRVFDNIGSQIVGGSWLDDNSLNS 407

Query:   423 ILSVLRLSYHYLPSQLKRCF 442
             +  +L LSY  LP+ LK CF
Sbjct:   408 VYRILSLSYEDLPTHLKHCF 427

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

GO:0043531 "ADP binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=ISS

GO:0009416 "response to light stimulus" evidence=IMP

GO:0051607 "defense response to virus" evidence=IMP

GO:0005886 "plasma membrane" evidence=IDA

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

GO:0051707 "response to other organism" evidence=IMP

TAIR|locus:2169523 AT5G35450 [Arabidopsis thaliana (taxid:3702)]

 Score = 310 (114.2 bits), Expect = 1.6e-32, Sum P(2) = 1.6e-32
 Identities = 107/396 (27%), Positives = 183/396 (46%)

Query:    66 EAVKLWLDDLRDLAYDAEDILDEFATKALDRKFIADRDHGASSSKVQMLVPAPCFGCFKI 125
             +A K   D +R+   D +D++  F  + +   ++ ++  G        +    CF     
Sbjct:    49 DAKKHGSDRVRNFLEDVKDLV--FDAEDIIESYVLNKLRGEGKGVKNHVRRLACF----- 101

Query:   126 QNTVNFNGKMRSSIKDITGRFDQLCNQRIHLGLQ--LTPGGTS-STTTAQRRT-PTSSVS 181
                +    K+ S I+ IT R  ++  +   LG+Q  +  GG S S    QR    T   S
Sbjct:   102 ---LTDRHKVASDIEGITKRISKVIGEMQSLGIQQQIIDGGRSLSLQDIQREIRQTFPNS 158

Query:   182 TERAVFGRQQDKAKML-EMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDS 240
             +E  + G +Q   +++  MV  D      N+ V+ I GM G+GKTTLAR++++   V   
Sbjct:   159 SESDLVGVEQSVEELVGPMVEID------NIQVVSISGMGGIGKTTLARQIFHHDLVR-R 211

Query:   241 KFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIK--RAVDGXXXXXXXX 298
              FD  AWVCVS  F   ++ + +L+ +     ++  ++E  +Q K  + ++         
Sbjct:   212 HFDGFAWVCVSQQFTQKHVWQRILQELRPHDGEILQMDEYTIQGKLFQLLETGRYLVVLD 271

Query:   299 XXWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAATMEPI-QQYNLQCLSDEDCWSLF 357
               W E+   W+ +K  F       K+++T+R+  V    +P    +  + L+ ++ W LF
Sbjct:   272 DVWKEED--WDRIKEVF-PRKRGWKMLLTSRNEGVGLHADPTCLSFRARILNPKESWKLF 328

Query:   358 MMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLLRSKRH-DEWD--------E 408
                    ++ T  +  +   +++V  CGGLPLA K LGGLL +K    EW         +
Sbjct:   329 E-RIVPRRNETEYEEMEAIGKEMVTYCGGLPLAVKVLGGLLANKHTASEWKRVSENIGAQ 387

Query:   409 ILNSNILDLPQQNGILSVLRLSYHYLPSQLKRCFAY 444
             I+  + LD    N +  +L LSY  LP+ LK CF Y
Sbjct:   388 IVGKSCLDDNSLNSVYRILSLSYEDLPTDLKHCFLY 423

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005886 "plasma membrane" evidence=IDA

TAIR|locus:2037623 AT1G58410 [Arabidopsis thaliana (taxid:3702)]

 Score = 308 (113.5 bits), Expect = 6.4e-32, Sum P(3) = 6.4e-32
 Identities = 95/341 (27%), Positives = 166/341 (48%)

Query:   124 KIQNTVNFNGKMRSSIKDITGRFDQLCNQRIHLGLQ--LTPGGTSSTTTAQRRTP---TS 178
             +  +T+    ++ S I  I+ R  ++       G+Q  +T G  SS    +R+     T 
Sbjct:    95 RFASTIMDRRELASDIGGISKRISKVIQDMQSFGVQQIITDGSRSSHPLQERQREMRHTF 154

Query:   179 SVSTERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVE 238
             S  +E    G + +  K++  ++     D+    ++ + GM G+GKTTLAR+V+N   V+
Sbjct:   155 SRDSENDFVGMEANVKKLVGYLVE--KDDYQ---IVSLTGMGGLGKTTLARQVFNHDVVK 209

Query:   239 DSKFDVKAWVCVSDDFDVLNISRALLESITFASC--DLKALNEVQVQ--IKRAVDGXXXX 294
             D +FD  AWV VS +F  +++ + +L+++T      +++ + E  +   + R ++     
Sbjct:   210 D-RFDGFAWVSVSQEFTRISVWQTILQNLTSKERKDEIQNMKEADLHDDLFRLLESSKTL 268

Query:   295 XXXXXXWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAATMEPIQ-QYNLQCLSDEDC 353
                   W E+   W DL  P        K+++T+R   +A   +     +  +CLS  D 
Sbjct:   269 IVLDDIWKEED--W-DLIKPIFPPKKGWKVLLTSRTESIAMRGDTTYISFKPKCLSIPDS 325

Query:   354 WSLFMMHAFVGQDITAQQISDLFR---EKVVGKCGGLPLAAKTLGGLLRSKR--HDEW-- 406
             W+LF   A   +D +  ++ +      +K++  CGGL LA K LGGLL +K   HD W  
Sbjct:   326 WTLFQSIAMPRKDTSEFKVDEEMENMGKKMIKHCGGLSLAVKVLGGLLAAKYTLHD-WKR 384

Query:   407 -DEILNSNILDLPQQNG--ILSVLRLSYHYLPSQLKRCFAY 444
               E + S+I++    N   I  VL +S+  LP+ LK CF Y
Sbjct:   385 LSENIGSHIVERTSGNNSSIDHVLSVSFEELPNYLKHCFLY 425

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2152536 AT5G48620 [Arabidopsis thaliana (taxid:3702)]

 Score = 344 (126.2 bits), Expect = 3.4e-30, P = 3.4e-30
 Identities = 116/441 (26%), Positives = 206/441 (46%)

Query:    25 DLLNFVSQLGGGVASELKKWEDCLMMIQAVLRDAEEKQLTDEAVKLWLDDLRDLAYDAED 84
             DLL+  S+   G+  +L   +  L  +Q++L+DA+ K+   + V+ +L+D++DL +DAED
Sbjct:    15 DLLSRESERLQGIDEQLDGLKRQLRSLQSLLKDADAKKHGSDRVRNFLEDVKDLVFDAED 74

Query:    85 ILDEFATKALDRKFIADRDHGASSSKVQMLVPAPCFGCFKIQNTVNFNGKMRSSIKDITG 144
             I++ +    L       R  G    K             ++   +    K+ S I+ IT 
Sbjct:    75 IIESYVLNKL-------RGEGKGVKKHVR----------RLARFLTDRHKVASDIEGITK 117

Query:   145 RFDQLCNQRIHLGLQLTPGGTSSTTTAQRRTPTSSV------STERAVFGRQQDKAKMLE 198
             R   +  +    G+Q    G  S +  +R+     +      S+E  + G +Q   +++ 
Sbjct:   118 RISDVIGEMQSFGIQQIIDGVRSLSLQERQRVQREIRQTYPDSSESDLVGVEQSVEELVG 177

Query:   199 MVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLN 258
              ++     ++    V+ I GM G+GKTTLAR+V++   V    FD  AWVCVS  F + +
Sbjct:   178 HLV-----ENDIYQVVSIAGMGGIGKTTLARQVFHHDLVR-RHFDGFAWVCVSQQFTLKH 231

Query:   259 ISRALLESITFASCDLKALNEVQVQIK--RAVDGXXXXXXXXXXWNEDYCLWEDLKAPFL 316
             + + +L+ +     ++  ++E  +Q K  + ++           W ++   W+ +KA F 
Sbjct:   232 VWQRILQELQPHDGNILQMDESALQPKLFQLLETGRYLLVLDDVWKKED--WDRIKAVF- 288

Query:   317 AAAPNSKIIVTTRHAHVAATMEPI-QQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDL 375
                   K+++T+R+  V    +P    +    L+ E+ W L     F  +D T  ++ + 
Sbjct:   289 PRKRGWKMLLTSRNEGVGIHADPTCLTFRASILNPEESWKLCERIVFPRRDETEVRLDEE 348

Query:   376 FR---EKVVGKCGGLPLAAKTLGGLLRSKRH-DEW--------DEILNSNILDLPQQNGI 423
                  +++V  CGGLPLA K LGGLL +K    EW         +I+  + LD    N +
Sbjct:   349 MEAMGKEMVTHCGGLPLAVKALGGLLANKHTVPEWKRVSDNIGSQIVGGSCLDDNSLNSV 408

Query:   424 LSVLRLSYHYLPSQLKRCFAY 444
               +L LSY  LP+ LK  F Y
Sbjct:   409 NRILSLSYEDLPTHLKHRFLY 429

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005886 "plasma membrane" evidence=IDA

TAIR|locus:2037639 AT1G58390 "AT1G58390" [Arabidopsis thaliana (taxid:3702)]

 Score = 337 (123.7 bits), Expect = 1.9e-29, P = 1.9e-29
 Identities = 118/442 (26%), Positives = 214/442 (48%)

Query:    24 GDLLNF-VSQLGGGVASELKKWEDCLMMIQAVLRDAE--EKQLTD-EAVKLWLDDLRDLA 79
             G+L++F + +L   ++ E ++++     +  + RD       L D +A K     +R++ 
Sbjct:     3 GELVSFGIKKLWDLLSQECEQFQGVEDQVTGLKRDLNLLSSFLKDADAKKHTTAVVRNVV 62

Query:    80 YDAEDILDEFATKALDRKFIADRDHGASSSKVQMLVPAPCFGCFKIQNTVNFNGKMRSSI 139
              + ++I+ + A   ++   + ++    S  K+++   A C    + +N ++  G +R+ I
Sbjct:    63 EEIKEIVYD-AEDIIETYLLKEKLWKTSGIKMRIRRHA-CIISDRRRNALDVGG-IRTRI 119

Query:   140 KDITGRFDQL-CNQRIHLGLQLTPGGTSSTTTAQRRTPTSSVSTERAVFGRQQDKAKMLE 198
              D+          Q I  G  + P G       Q    T S   E    G + +  K++ 
Sbjct:   120 SDVIRDMQSFGVQQAIVDGGYMQPQGDRQREMRQ----TFSKDYESDFVGLEVNVKKLVG 175

Query:   199 MVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLN 258
              ++     D  N+ V+ I GM G+GKTTLAR+V+N   V+  +FD  AWVCVS +F   N
Sbjct:   176 YLV-----DEENVQVVSITGMGGLGKTTLARQVFNHEDVKH-QFDRLAWVCVSQEFTRKN 229

Query:   259 ISRALLESITFASC--DLKALNEVQVQIK--RAVDGXXXXXXXXXXWNEDYCLWEDLKAP 314
             + + +L+++T      ++  + E ++  K  + ++           W ++   W DL  P
Sbjct:   230 VWQMILQNLTSREKKDEILQMEEAELHDKLFQLLETSKSLIVFDDIWKDED--W-DLIKP 286

Query:   315 FLAAAPNSKIIVTTRHAHVAATMEPIQQYNL--QCLSDEDCWSLFMMHAFVGQDITAQQI 372
                     K+++T+++  VA   + I+  N   +CL+ ED W+LF   AF  +D +  ++
Sbjct:   287 IFPPNKGWKVLLTSQNESVAVRGD-IKYLNFKPECLAIEDSWTLFQRIAFPKKDASESKV 345

Query:   373 SDLFRE---KVVGKCGGLPLAAKTLGGLLRSK--RHDEWDEI---LNSNILDLPQQNG-- 422
              +   +   +++  CGGLPLA K LGGLL +K   HD W+ +   + S+I+     N   
Sbjct:   346 DEEMEDMGKQMLKHCGGLPLAIKVLGGLLAAKYTMHD-WERLSVNIGSDIVGRTSSNNSS 404

Query:   423 ILSVLRLSYHYLPSQLKRCFAY 444
             I  VL +S+  LPS LK CF Y
Sbjct:   405 IYHVLSMSFEELPSYLKHCFLY 426

GO:0005575 "cellular_component" evidence=ND

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

Your Input: fgenesh4_pm.C_scaffold_66000039 cc-nbs-lrr resistance protein (880 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	444
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	1e-63
PLN03210	1153	PLN03210, PLN03210, Resistant to P	3e-06
pfam13191	154	pfam13191, AAA_16, AAA ATPase domain	5e-05
pfam13401	124	pfam13401, AAA_22, AAA domain	0.004
cd00009	151	cd00009, AAA, The AAA+ (ATPases Associated with a	0.004
PRK13695	174	PRK13695, PRK13695, putative NTPase; Provisional	0.004

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

 Score =  206 bits (526), Expect = 1e-63
 Identities = 97/257 (37%), Positives = 140/257 (54%), Gaps = 11/257 (4%)

Query: 195 KMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDF 254
            M+E ++        NL V+ IVGM GVGKTTLA+++YND +V    FD  AWV VS  +
Sbjct: 3   DMIEALIEKLLEMSDNLGVVGIVGMGGVGKTTLAKQIYNDDSVG-GHFDSVAWVVVSKTY 61

Query: 255 DVLNISRALLESI--TFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLK 312
               + + +L+ +    +    K  +E+ V+IK A+  K+ LLVLDDVW ++   W+ + 
Sbjct: 62  TEFRLQKDILQELGLDDSDWVEKNESELAVKIKEALLRKRFLLVLDDVWEKN--DWDKIG 119

Query: 313 APFLAAAPNSKIIVTTRHAHVAATM-EPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQ 371
            PF      S++IVTTR   VA  M    + + ++ L  E+ W LF    F  +     +
Sbjct: 120 VPFPDGENGSRVIVTTRSESVAGRMGGTSKPHEVESLEPEESWELFSNKVFEKELPPCPE 179

Query: 372 ISDLFREKVVGKCGGLPLAAKTLGGLLRSKRH-DEWDEILNSNILDLPQ---QNGILSVL 427
           + ++ +E +V KC GLPLA K LGGLL  K    EW+ +L     +L      N +LS+L
Sbjct: 180 LEEVAKE-IVEKCKGLPLALKVLGGLLAFKSTVQEWEHVLEQLNNELAGRDGLNEVLSIL 238

Query: 428 RLSYHYLPSQLKRCFAY 444
            LSY  LP  LKRCF Y
Sbjct: 239 SLSYDNLPMHLKRCFLY 255

Length = 285

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

 Score = 49.5 bits (118), Expect = 3e-06
 Identities = 66/237 (27%), Positives = 113/237 (47%), Gaps = 39/237 (16%)

Query: 216 IVGMAGVGKTTLAREVYN--DRAVEDSKFDVKAWVCVS---------DDFDV-LNISRAL 263
           I G +G+GKTT+AR +++   R  + S F  +A++  S         DD+++ L++ RA 
Sbjct: 212 IWGSSGIGKTTIARALFSRLSRQFQSSVFIDRAFISKSMEIYSSANPDDYNMKLHLQRAF 271

Query: 264 LESITFASCDLKA--LNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPN 321
           L  I     D+K   L  ++ ++K     +K+L+ +DD+  +D  + + L          
Sbjct: 272 LSEI-LDKKDIKIYHLGAMEERLKH----RKVLIFIDDL--DDQDVLDALAGQTQWFGSG 324

Query: 322 SKIIVTTRHAHV--AATMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREK 379
           S+IIV T+  H   A  ++ I  Y +   S+E    +F   AF  ++       +L  E 
Sbjct: 325 SRIIVITKDKHFLRAHGIDHI--YEVCLPSNELALEMFCRSAF-KKNSPPDGFMELASE- 380

Query: 380 VVGKCGGLPLAAKTLGGLLRSKRHDEWDEILNSNILDLPQ-QNG----ILSVLRLSY 431
           V  + G LPL    LG  LR +  ++W ++       LP+ +NG    I   LR+SY
Sbjct: 381 VALRAGNLPLGLNVLGSYLRGRDKEDWMDM-------LPRLRNGLDGKIEKTLRVSY 430

syringae 6; Provisional. Length = 1153

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

 Score = 43.0 bits (101), Expect = 5e-05
 Identities = 31/161 (19%), Positives = 57/161 (35%), Gaps = 29/161 (18%)

Query: 186 VFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVK 245
           + GR+++  ++L+ +     +       + + G +G GKT+L RE+     V   K D  
Sbjct: 2   LVGREEELERLLDAL---RRARSGGPPSVLLTGPSGTGKTSLLRELLEGLLVAAGKCD-- 56

Query: 246 AWVCVSDDFDVLNISRALLESI------------------TFASCDLKALNEVQVQIKRA 287
                +  +      R LL  +                    A       + V++  +  
Sbjct: 57  -QAERNPPYAFSQALRELLRQLLRELAAELLLLREALLAALGAELIEGLQDLVELLERLL 115

Query: 288 VDGKKLLLVLDDVWNEDYCLWEDLK--APFLAAAPNSKIIV 326
              + L+LVLDD+   D    E L   A  L       ++V
Sbjct: 116 ARARPLVLVLDDLQWAD---EESLDLLAALLRRLERLPLLV 153

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

>gnl|CDD|222104 pfam13401, AAA_22, AAA domain

 Score = 36.9 bits (86), Expect = 0.004
 Identities = 15/85 (17%), Positives = 32/85 (37%), Gaps = 5/85 (5%)

Query: 216 IVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLK 275
           + G +G GKTTL R +      +     V  +V         ++ R +L ++        
Sbjct: 9   LTGESGSGKTTLLRRLAR----QLPNRRV-VYVEAPSLGTPKDLLRKILRALGLPLSGGT 63

Query: 276 ALNEVQVQIKRAVDGKKLLLVLDDV 300
               ++  +       + LL++D+ 
Sbjct: 64  TAELLEAILDALKRRGRPLLIIDEA 88

Length = 124

>gnl|CDD|99707 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

 Score = 37.5 bits (87), Expect = 0.004
 Identities = 17/85 (20%), Positives = 30/85 (35%), Gaps = 15/85 (17%)

Query: 216 IVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLK 275
           + G  G GKTTLAR +              A          L ++ + L      +    
Sbjct: 24  LYGPPGTGKTTLARAI--------------ANELFRPGAPFLYLNASDLLEGLVVAELFG 69

Query: 276 ALNEVQVQIKRAVDGKKLLLVLDDV 300
               V++  + A   K  +L +D++
Sbjct: 70  -HFLVRLLFELAEKAKPGVLFIDEI 93

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. Length = 151

>gnl|CDD|237475 PRK13695, PRK13695, putative NTPase; Provisional

 Score = 37.6 bits (88), Expect = 0.004
 Identities = 20/102 (19%), Positives = 46/102 (45%), Gaps = 21/102 (20%)

Query: 214 IPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVC--VSDD-----FDVLNIS---RAL 263
           I I G  GVGKTTL  ++     +++  + V  +    V +      F ++++      +
Sbjct: 3   IGITGPPGVGKTTLVLKIA--ELLKEEGYKVGGFYTEEVREGGKRIGFKIIDLDTGEEGI 60

Query: 264 LESITFAS--------CDLKALNEVQVQ-IKRAVDGKKLLLV 296
           L  + F S         +L+ L  + +  ++RA++   ++++
Sbjct: 61  LARVGFPSRPRVGKYVVNLEDLERIGIPALERALEEADVIII 102

Length = 174

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	444
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
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.48
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	99.46
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	99.39
PRK04841	903	transcriptional regulator MalT; Provisional	99.28
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.26
PF05729	166	NACHT: NACHT domain	99.23
COG2256	436	MGS1 ATPase related to the helicase subunit of the	99.1
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.04
PRK06893	229	DNA replication initiation factor; Validated	99.01
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.01
PRK13342	413	recombination factor protein RarA; Reviewed	98.97
PTZ00112	1164	origin recognition complex 1 protein; Provisional	98.93
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.92
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	98.88
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	98.87
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	98.86
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.86
PRK05564	313	DNA polymerase III subunit delta'; Validated	98.85
PRK12402	337	replication factor C small subunit 2; Reviewed	98.83
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	98.81
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	98.81
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	98.81
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	98.8
KOG2028	554	consensus ATPase related to the helicase subunit o	98.78
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	98.77
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	98.74
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.73
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	98.73
PF13173	128	AAA_14: AAA domain	98.72
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	98.72
PRK00440	319	rfc replication factor C small subunit; Reviewed	98.71
PLN03025	319	replication factor C subunit; Provisional	98.71
PTZ00202	550	tuzin; Provisional	98.71
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	98.7
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	98.69
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	98.69
COG3899	849	Predicted ATPase [General function prediction only	98.69
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	98.68
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	98.67
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	98.67
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	98.66
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	98.66
PRK08727	233	hypothetical protein; Validated	98.65
PRK07471	365	DNA polymerase III subunit delta'; Validated	98.64
cd01128	249	rho_factor Transcription termination factor rho is	98.64
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	98.64
PRK04195	482	replication factor C large subunit; Provisional	98.63
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	98.62
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	98.61
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	98.59
PRK08903	227	DnaA regulatory inactivator Hda; Validated	98.59
PRK09087	226	hypothetical protein; Validated	98.59
PRK09112	351	DNA polymerase III subunit delta'; Validated	98.59
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	98.58
PRK13341	725	recombination factor protein RarA/unknown domain f	98.58
PRK07940	394	DNA polymerase III subunit delta'; Validated	98.57
PRK08084	235	DNA replication initiation factor; Provisional	98.56
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	98.54
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	98.53
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	98.53
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	98.51
PRK09376	416	rho transcription termination factor Rho; Provisio	98.51
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	98.51
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	98.5
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	98.49
PRK05642	234	DNA replication initiation factor; Validated	98.47
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	98.46
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	98.43
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	98.43
PRK14087	450	dnaA chromosomal replication initiation protein; P	98.43
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	98.4
TIGR00767	415	rho transcription termination factor Rho. Members	98.36
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	98.36
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	98.36
PHA02544	316	44 clamp loader, small subunit; Provisional	98.35
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	98.35
PF14516	331	AAA_35: AAA-like domain	98.33
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	98.33
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	98.32
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	98.32
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	98.32
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	98.31
CHL00181	287	cbbX CbbX; Provisional	98.31
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	98.28
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	98.28
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	98.28
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	98.27
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	98.27
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	98.26
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	98.24
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	98.23
PRK14088	440	dnaA chromosomal replication initiation protein; P	98.22
PRK14086	617	dnaA chromosomal replication initiation protein; P	98.21
CHL00095	821	clpC Clp protease ATP binding subunit	98.21
PRK00149	450	dnaA chromosomal replication initiation protein; R	98.2
PRK06620	214	hypothetical protein; Validated	98.19
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	98.19
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	98.19
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	98.17
PRK03992	389	proteasome-activating nucleotidase; Provisional	98.15
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	98.14
PRK12422	445	chromosomal replication initiation protein; Provis	98.13
PF00004	132	AAA: ATPase family associated with various cellula	98.13
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	98.09
COG3903	414	Predicted ATPase [General function prediction only	98.08
PRK05707	328	DNA polymerase III subunit delta'; Validated	98.07
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	98.07
PRK07399	314	DNA polymerase III subunit delta'; Validated	98.01
PRK10865	857	protein disaggregation chaperone; Provisional	97.97
COG0593	408	DnaA ATPase involved in DNA replication initiation	97.94
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	97.93
PRK08116	268	hypothetical protein; Validated	97.91
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	97.89
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	97.88
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	97.87
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	97.87
smart00382	148	AAA ATPases associated with a variety of cellular	97.86
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	97.83
PRK10536	262	hypothetical protein; Provisional	97.82
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	97.82
PRK06871	325	DNA polymerase III subunit delta'; Validated	97.78
PRK08118	167	topology modulation protein; Reviewed	97.77
PRK06090	319	DNA polymerase III subunit delta'; Validated	97.77
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	97.76
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	97.76
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.74
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	97.73
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	97.72
PRK08058	329	DNA polymerase III subunit delta'; Validated	97.71
PRK08769	319	DNA polymerase III subunit delta'; Validated	97.7
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	97.66
CHL00176	638	ftsH cell division protein; Validated	97.66
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.65
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	97.63
PRK07261	171	topology modulation protein; Provisional	97.63
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	97.61
PRK10865	857	protein disaggregation chaperone; Provisional	97.6
PRK07993	334	DNA polymerase III subunit delta'; Validated	97.6
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	97.59
PRK12608	380	transcription termination factor Rho; Provisional	97.59
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	97.58
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	97.55
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	97.55
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	97.54
PRK08181	269	transposase; Validated	97.53
PRK13531	498	regulatory ATPase RavA; Provisional	97.53
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.53
PRK12377	248	putative replication protein; Provisional	97.52
PRK06964	342	DNA polymerase III subunit delta'; Validated	97.51
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	97.5
PRK04132	846	replication factor C small subunit; Provisional	97.5
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	97.49
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	97.48
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	97.43
KOG1514	767	consensus Origin recognition complex, subunit 1, a	97.42
PRK06526	254	transposase; Provisional	97.41
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	97.38
CHL00095	821	clpC Clp protease ATP binding subunit	97.37
PRK06921	266	hypothetical protein; Provisional	97.36
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	97.36
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	97.35
PRK09183	259	transposase/IS protein; Provisional	97.34
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.34
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	97.33
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	97.32
TIGR02237	209	recomb_radB DNA repair and recombination protein R	97.31
PRK08699	325	DNA polymerase III subunit delta'; Validated	97.31
PRK07952	244	DNA replication protein DnaC; Validated	97.31
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	97.3
PRK04296	190	thymidine kinase; Provisional	97.29
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	97.29
COG2884	223	FtsE Predicted ATPase involved in cell division [C	97.29
PRK08939	306	primosomal protein DnaI; Reviewed	97.29
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	97.28
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	97.26
CHL00195	489	ycf46 Ycf46; Provisional	97.22
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	97.22
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.21
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.2
KOG1969	877	consensus DNA replication checkpoint protein CHL12	97.19
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	97.18
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	97.17
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	97.17
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	97.15
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	97.14
cd01394	218	radB RadB. The archaeal protein radB shares simila	97.13
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	97.12
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	97.12
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	97.1
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	97.1
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.09
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	97.08
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	97.08
PRK05541	176	adenylylsulfate kinase; Provisional	97.07
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	97.06
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	97.05
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	97.05
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	97.05
COG1484	254	DnaC DNA replication protein [DNA replication, rec	97.04
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	97.04
COG1875	436	NYN ribonuclease and ATPase of PhoH family domains	97.03
PRK13695	174	putative NTPase; Provisional	97.02
PRK06835	329	DNA replication protein DnaC; Validated	97.02
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	97.01
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	97.0
cd03216	163	ABC_Carb_Monos_I This family represents the domain	96.99
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	96.98
PRK06696	223	uridine kinase; Validated	96.97
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	96.97
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	96.96
PTZ00494	664	tuzin-like protein; Provisional	96.95
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	96.95
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	96.94
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	96.91
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	96.9
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	96.89
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	96.87
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	96.87
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	96.86
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	96.86
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	96.84
COG0714	329	MoxR-like ATPases [General function prediction onl	96.83
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	96.83
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	96.83
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	96.82
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	96.8
PTZ00088	229	adenylate kinase 1; Provisional	96.79
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	96.78
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	96.77
PRK15455	644	PrkA family serine protein kinase; Provisional	96.77
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	96.77
PRK06067	234	flagellar accessory protein FlaH; Validated	96.75
PRK09354	349	recA recombinase A; Provisional	96.74
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	96.74
PRK03839	180	putative kinase; Provisional	96.74
COG0396	251	sufC Cysteine desulfurase activator ATPase [Posttr	96.73
cd00983	325	recA RecA is a bacterial enzyme which has roles in	96.73
PTZ00035	337	Rad51 protein; Provisional	96.72
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	96.72
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	96.71
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	96.71
PRK04301	317	radA DNA repair and recombination protein RadA; Va	96.71
PRK11608	326	pspF phage shock protein operon transcriptional ac	96.7
PRK00625	173	shikimate kinase; Provisional	96.7
cd03246	173	ABCC_Protease_Secretion This family represents the	96.69
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	96.68
PHA02244	383	ATPase-like protein	96.68
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	96.67
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	96.67
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	96.66
COG4618	580	ArpD ABC-type protease/lipase transport system, AT	96.65
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	96.64
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	96.63
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	96.62
TIGR02236	310	recomb_radA DNA repair and recombination protein R	96.61
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	96.6
TIGR01069	771	mutS2 MutS2 family protein. Function of MutS2 is u	96.6
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	96.59
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	96.58
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	96.57
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	96.57
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	96.56
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	96.56
cd03215	182	ABC_Carb_Monos_II This family represents domain II	96.54
PRK08972	444	fliI flagellum-specific ATP synthase; Validated	96.53
cd03369	207	ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-ty	96.52
PRK07132	299	DNA polymerase III subunit delta'; Validated	96.52
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	96.52
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	96.51
PRK05022	509	anaerobic nitric oxide reductase transcription reg	96.51
cd03269	210	ABC_putative_ATPase This subfamily is involved in	96.5
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	96.5
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	96.48
PRK06217	183	hypothetical protein; Validated	96.47
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	96.47
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	96.47
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	96.47
cd03245	220	ABCC_bacteriocin_exporters ABC-type bacteriocin ex	96.47
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	96.45
TIGR02329	526	propionate_PrpR propionate catabolism operon regul	96.44
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	96.44
PRK13540	200	cytochrome c biogenesis protein CcmA; Provisional	96.42
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	96.42
KOG2170	344	consensus ATPase of the AAA+ superfamily [General	96.42
PRK07667	193	uridine kinase; Provisional	96.4
cd03115	173	SRP The signal recognition particle (SRP) mediates	96.39
TIGR03522	301	GldA_ABC_ATP gliding motility-associated ABC trans	96.38
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	96.38
PRK06002	450	fliI flagellum-specific ATP synthase; Validated	96.38
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	96.38
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	96.36
KOG0736	953	consensus Peroxisome assembly factor 2 containing	96.35
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	96.35
cd03220	224	ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transpo	96.34
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	96.33
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	96.33
cd03282	204	ABC_MSH4_euk MutS4 homolog in eukaryotes. The MutS	96.32
PRK13543	214	cytochrome c biogenesis protein CcmA; Provisional	96.32
PRK05439	311	pantothenate kinase; Provisional	96.31
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	96.31
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	96.31
PRK08233	182	hypothetical protein; Provisional	96.3
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	96.3
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	96.29
PRK08927	442	fliI flagellum-specific ATP synthase; Validated	96.28
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	96.27
PRK13538	204	cytochrome c biogenesis protein CcmA; Provisional	96.27
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	96.27
PRK12678	672	transcription termination factor Rho; Provisional	96.27
cd01135	276	V_A-ATPase_B V/A-type ATP synthase (non-catalytic)	96.26
PRK00409	782	recombination and DNA strand exchange inhibitor pr	96.26
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	96.26
PRK05917	290	DNA polymerase III subunit delta'; Validated	96.25
cd03233	202	ABC_PDR_domain1 The pleiotropic drug resistance (P	96.25
cd03254	229	ABCC_Glucan_exporter_like Glucan exporter ATP-bind	96.25
TIGR00235	207	udk uridine kinase. Model contains a number of lon	96.25
cd03244	221	ABCC_MRP_domain2 Domain 2 of the ABC subfamily C.	96.25
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	96.25
cd03217	200	ABC_FeS_Assembly ABC-type transport system involve	96.24
cd03231	201	ABC_CcmA_heme_exporter CcmA, the ATP-binding compo	96.24
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	96.23
PRK08149	428	ATP synthase SpaL; Validated	96.23
PTZ00301	210	uridine kinase; Provisional	96.22
cd03251	234	ABCC_MsbA MsbA is an essential ABC transporter, cl	96.22
PRK05480	209	uridine/cytidine kinase; Provisional	96.21
PRK00771	437	signal recognition particle protein Srp54; Provisi	96.19
PRK13949	169	shikimate kinase; Provisional	96.19
cd03237	246	ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 o	96.18
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	96.18
TIGR00959	428	ffh signal recognition particle protein. This mode	96.17
PRK08533	230	flagellar accessory protein FlaH; Reviewed	96.16
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	96.16
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	96.15
TIGR03498	418	FliI_clade3 flagellar protein export ATPase FliI.	96.15
cd01136	326	ATPase_flagellum-secretory_path_III Flagellum-spec	96.14
cd03266	218	ABC_NatA_sodium_exporter NatA is the ATPase compon	96.14
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	96.14
PRK06762	166	hypothetical protein; Provisional	96.13
PRK14527	191	adenylate kinase; Provisional	96.13
cd03252	237	ABCC_Hemolysin The ABC-transporter hemolysin B is	96.12
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	96.12
TIGR01188	302	drrA daunorubicin resistance ABC transporter ATP-b	96.12
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	96.12
PRK09544	251	znuC high-affinity zinc transporter ATPase; Review	96.11
PRK00279	215	adk adenylate kinase; Reviewed	96.1
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	96.1
PRK07594	433	type III secretion system ATPase SsaN; Validated	96.1
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	96.1
TIGR01277	213	thiQ thiamine ABC transporter, ATP-binding protein	96.1
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	96.09
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	96.08
PRK06547	172	hypothetical protein; Provisional	96.08
cd03213	194	ABCG_EPDR ABCG transporters are involved in eye pi	96.06
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	96.06
TIGR03771	223	anch_rpt_ABC anchored repeat-type ABC transporter,	96.06
cd03283	199	ABC_MutS-like MutS-like homolog in eukaryotes. The	96.05
PRK11247	257	ssuB aliphatic sulfonates transport ATP-binding su	96.05
PRK14269	246	phosphate ABC transporter ATP-binding protein; Pro	96.05
COG5635	824	Predicted NTPase (NACHT family) [Signal transducti	96.05
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	96.04
cd03267	236	ABC_NatA_like Similar in sequence to NatA, this is	96.04
PRK13650	279	cbiO cobalt transporter ATP-binding subunit; Provi	96.03
TIGR03740	223	galliderm_ABC gallidermin-class lantibiotic protec	96.03
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	96.02
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	96.02
PRK10867	433	signal recognition particle protein; Provisional	96.02
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	96.0
PRK06936	439	type III secretion system ATPase; Provisional	96.0
PRK09099	441	type III secretion system ATPase; Provisional	96.0
cd03250	204	ABCC_MRP_domain1 Domain 1 of the ABC subfamily C.	95.99
PRK13948	182	shikimate kinase; Provisional	95.99
PF00406	151	ADK: Adenylate kinase; InterPro: IPR000850 Adenyla	95.96
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	95.95
PRK13647	274	cbiO cobalt transporter ATP-binding subunit; Provi	95.95
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	95.94
PRK13537	306	nodulation ABC transporter NodI; Provisional	95.92
COG4133	209	CcmA ABC-type transport system involved in cytochr	95.92
PF00154	322	RecA: recA bacterial DNA recombination protein; In	95.89
TIGR03496	411	FliI_clade1 flagellar protein export ATPase FliI.	95.89
cd03253	236	ABCC_ATM1_transporter ATM1 is an ABC transporter t	95.89
PRK05922	434	type III secretion system ATPase; Validated	95.87
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	95.87
PRK14974	336	cell division protein FtsY; Provisional	95.85
cd03300	232	ABC_PotA_N PotA is an ABC-type transporter and the	95.85
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	95.85
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	95.85
PRK12597	461	F0F1 ATP synthase subunit beta; Provisional	95.85
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	95.82
PRK11160	574	cysteine/glutathione ABC transporter membrane/ATP-	95.82
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	95.81
TIGR01818	463	ntrC nitrogen regulation protein NR(I). This model	95.81
TIGR03411	242	urea_trans_UrtD urea ABC transporter, ATP-binding	95.8
cd01132	274	F1_ATPase_alpha F1 ATP synthase alpha, central dom	95.8
PTZ00185	574	ATPase alpha subunit; Provisional	95.79
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	95.79
cd03240	204	ABC_Rad50 The catalytic domains of Rad50 are simil	95.79
PRK00131	175	aroK shikimate kinase; Reviewed	95.79
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	95.78
PRK09280	463	F0F1 ATP synthase subunit beta; Validated	95.78
PRK04040	188	adenylate kinase; Provisional	95.78
TIGR03497	413	FliI_clade2 flagellar protein export ATPase FliI.	95.78
TIGR00968	237	3a0106s01 sulfate ABC transporter, ATP-binding pro	95.76
PRK05986	191	cob(I)alamin adenolsyltransferase/cobinamide ATP-d	95.75
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	95.75
TIGR02314	343	ABC_MetN D-methionine ABC transporter, ATP-binding	95.74
PF12061	402	DUF3542: Protein of unknown function (DUF3542); In	95.74
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	95.74
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	95.74
PRK05688	451	fliI flagellum-specific ATP synthase; Validated	95.73
PRK07721	438	fliI flagellum-specific ATP synthase; Validated	95.72
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	95.72
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	95.72
COG1131	293	CcmA ABC-type multidrug transport system, ATPase c	95.71
PRK13545	549	tagH teichoic acids export protein ATP-binding sub	95.71
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	95.71
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	95.68
) 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	95.68
TIGR02857	529	CydD thiol reductant ABC exporter, CydD subunit. U	95.65
smart00534	185	MUTSac ATPase domain of DNA mismatch repair MUTS f	95.64
PRK06793	432	fliI flagellum-specific ATP synthase; Validated	95.64
PHA00729	226	NTP-binding motif containing protein	95.64
cd01134	369	V_A-ATPase_A V/A-type ATP synthase catalytic subun	95.64
PRK13657	588	cyclic beta-1,2-glucan ABC transporter; Provisiona	95.64
PRK14249	251	phosphate ABC transporter ATP-binding protein; Pro	95.64
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	95.63
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	95.63
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	95.63
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	95.63
cd03243	202	ABC_MutS_homologs The MutS protein initiates DNA m	95.63
PRK13546	264	teichoic acids export protein ATP-binding subunit;	95.62
PRK04328	249	hypothetical protein; Provisional	95.62
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	95.62
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	95.62
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	95.62
TIGR03375	694	type_I_sec_LssB type I secretion system ATPase, Ls	95.6
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	95.58
cd03285	222	ABC_MSH2_euk MutS2 homolog in eukaryotes. The MutS	95.58
PRK02496	184	adk adenylate kinase; Provisional	95.57
TIGR03305	449	alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit	95.57
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	95.57
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	95.56
PRK06820	440	type III secretion system ATPase; Validated	95.55
PRK11153	343	metN DL-methionine transporter ATP-binding subunit	95.54
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	95.54
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	95.54
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	95.53
TIGR00041	195	DTMP_kinase thymidylate kinase. Function: phosphor	95.52
PRK00889	175	adenylylsulfate kinase; Provisional	95.52
PRK13536	340	nodulation factor exporter subunit NodI; Provision	95.51
PF07726	131	AAA_3: ATPase family associated with various cellu	95.51
TIGR01288	303	nodI ATP-binding ABC transporter family nodulation	95.51
PHA02774	613	E1; Provisional	95.5
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	95.5
PF10236	309	DAP3: Mitochondrial ribosomal death-associated pro	95.49
cd03289	275	ABCC_CFTR2 The CFTR subfamily domain 2. The cystic	95.49
PRK11432	351	fbpC ferric transporter ATP-binding subunit; Provi	95.48
PRK11650	356	ugpC glycerol-3-phosphate transporter ATP-binding	95.46
cd03287	222	ABC_MSH3_euk MutS3 homolog in eukaryotes. The MutS	95.45
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	95.44
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	95.44
PRK08472	434	fliI flagellum-specific ATP synthase; Validated	95.44
PRK11000	369	maltose/maltodextrin transporter ATP-binding prote	95.43
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	95.43
PRK13409	590	putative ATPase RIL; Provisional	95.43
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	95.43
PRK11174	588	cysteine/glutathione ABC transporter membrane/ATP-	95.42
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	95.41
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	95.41
TIGR03258	362	PhnT 2-aminoethylphosphonate ABC transport system,	95.4
TIGR00064	272	ftsY signal recognition particle-docking protein F	95.4
PRK09519	790	recA DNA recombination protein RecA; Reviewed	95.37
PRK11176	582	lipid transporter ATP-binding/permease protein; Pr	95.37
PRK09452	375	potA putrescine/spermidine ABC transporter ATPase	95.36
PRK15424	538	propionate catabolism operon regulatory protein Pr	95.36
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	95.36
PRK13635	279	cbiO cobalt transporter ATP-binding subunit; Provi	95.36
PF13479	213	AAA_24: AAA domain	95.35
PRK14528	186	adenylate kinase; Provisional	95.35
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	95.34
TIGR01193	708	bacteriocin_ABC ABC-type bacteriocin transporter.	95.34
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	95.32
TIGR03575	340	selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryoti	95.32
PRK03846	198	adenylylsulfate kinase; Provisional	95.32
cd03284	216	ABC_MutS1 MutS1 homolog in eukaryotes. The MutS pr	95.31
PRK13947	171	shikimate kinase; Provisional	95.31
PRK00300	205	gmk guanylate kinase; Provisional	95.31
PRK14738	206	gmk guanylate kinase; Provisional	95.31
PRK07196	434	fliI flagellum-specific ATP synthase; Validated	95.3
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	95.29
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	95.29
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	95.29
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	95.29
TIGR02203	571	MsbA_lipidA lipid A export permease/ATP-binding pr	95.28
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	95.27
COG2842	297	Uncharacterized ATPase, putative transposase [Gene	95.26
TIGR01192	585	chvA glucan exporter ATP-binding protein. This mod	95.26
PRK15439	510	autoinducer 2 ABC transporter ATP-binding protein	95.25

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=3.5e-54  Score=450.07  Aligned_cols=385  Identities=30%  Similarity=0.486  Sum_probs=307.6

Q ss_pred             CChHHHHHHHHHHHHHHHHHHHHHhhcccCcHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHhhhhhccCCCCcccccccc
Q 047559           35 GGVASELKKWEDCLMMIQAVLRDAEEKQLTDEAVKLWLDDLRDLAYDAEDILDEFATKALDRKFIADRDHGASSSKVQML  114 (444)
Q Consensus        35 ~gv~~~~~~L~~~l~~i~~~l~~a~~~~~~~~~~~~Wl~~lr~~ayd~eD~lD~~~~~~~~~~~~~~~~~~~~~~~~~~~  114 (444)
                      .|+++.+..|+++|..++++++|+++++.....+..|.+.+++++|++||.++.|..+....+...  ... ......+.
T Consensus        24 ~~~~~~i~~Lk~~L~~l~~~l~d~~a~~~~~~~~~~~~e~~~~~~~~~e~~~~~~~v~~~~~~~~~--~l~-~~~~~~~~  100 (889)
T KOG4658|consen   24 DGKDNYILELKENLKALQSALEDLDAKRDDLERRVNWEEDVGDLVYLAEDIIWLFLVEEIERKAND--LLS-TRSVERQR  100 (889)
T ss_pred             hchHHHHHHHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH--Hhh-hhHHHHHH
Confidence            368889999999999999999999999988899999999999999999999999998877654322  000 00011111


Q ss_pred             ccCCcccccccCcccccchHHHHHHHHHHHHHHHHHHHhhhcCCcccCCCCCCccccccCCCCCCCCcCCcccccchhHH
Q 047559          115 VPAPCFGCFKIQNTVNFNGKMRSSIKDITGRFDQLCNQRIHLGLQLTPGGTSSTTTAQRRTPTSSVSTERAVFGRQQDKA  194 (444)
Q Consensus       115 ~~~~~~~~~~~~~~~~~~~~~~~~i~~i~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vGr~~~~~  194 (444)
                      ..           ...+.++....+..+.+++-.+......++.............+....+..+...... ||.+..++
T Consensus       101 ~c-----------~~~~~~~~~~~~~~~~~rv~~~l~~ve~l~~~~~~~~~~~~~~~~~~~e~~~~~~~~~-VG~e~~~~  168 (889)
T KOG4658|consen  101 LC-----------LCGFCSKNVSDSYKYGKRVSKVLREVESLGSKGVFEVVGESLDPREKVETRPIQSESD-VGLETMLE  168 (889)
T ss_pred             Hh-----------hhhhHhHhhhhhHhHHHHHHHHHHHHHHhccccceecccccccchhhcccCCCCcccc-ccHHHHHH
Confidence            11           0134455666666666666666666666654332111110001111122333333444 99999999


Q ss_pred             HHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccc-cccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCC
Q 047559          195 KMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRA-VEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCD  273 (444)
Q Consensus       195 ~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~-~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~  273 (444)
                      .+.+.|..++.      .+++|+||||+||||||++++|+.. ++. +|+.++||+||++++...+..+|+..++.....
T Consensus       169 kl~~~L~~d~~------~iv~i~GMGGvGKTTL~~qi~N~~~~v~~-~Fd~~iWV~VSk~f~~~~iq~~Il~~l~~~~~~  241 (889)
T KOG4658|consen  169 KLWNRLMEDDV------GIVGIYGMGGVGKTTLARQIFNKFDEVGN-HFDGVIWVVVSKEFTTRKIQQTILERLGLLDEE  241 (889)
T ss_pred             HHHHHhccCCC------CEEEEECCCcccHHHHHHHHhcccchhcc-cCceEEEEEEcccccHHhHHHHHHHHhccCCcc
Confidence            99999987643      7999999999999999999999998 777 999999999999999999999999998874442


Q ss_pred             --cccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCChHHHhh-cCCCCcccCCCCCh
Q 047559          274 --LKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAAT-MEPIQQYNLQCLSD  350 (444)
Q Consensus       274 --~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~~va~~-~~~~~~~~l~~L~~  350 (444)
                        ..+..+++..|.++|++|||||||||||+.  .+|+.+..++|...+||+|++|||+..|+.. +++...++++.|++
T Consensus       242 ~~~~~~~~~~~~i~~~L~~krfllvLDDIW~~--~dw~~I~~~~p~~~~g~KvvlTTRs~~V~~~~m~~~~~~~v~~L~~  319 (889)
T KOG4658|consen  242 WEDKEEDELASKLLNLLEGKRFLLVLDDIWEE--VDWDKIGVPFPSRENGSKVVLTTRSEEVCGRAMGVDYPIEVECLTP  319 (889)
T ss_pred             cchhhHHHHHHHHHHHhccCceEEEEeccccc--ccHHhcCCCCCCccCCeEEEEEeccHhhhhccccCCccccccccCc
Confidence              333478899999999999999999999997  5799999999999999999999999999988 77778899999999


Q ss_pred             HhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHHHhcCC-CHHHHHHHHhcccCC----CCC-ccChH
Q 047559          351 EDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLLRSK-RHDEWDEILNSNILD----LPQ-QNGIL  424 (444)
Q Consensus       351 ~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~~L~~~-~~~~w~~~l~~~~~~----~~~-~~~i~  424 (444)
                      +|||+||.+.+|.... ...+.++.+|++|+++|+|+|||++++|+.|+.+ +..+|+++++...+.    .++ .+.++
T Consensus       320 ~eaW~LF~~~v~~~~~-~~~~~i~~lak~v~~kC~GLPLAl~viG~~ma~K~t~~eW~~~~~~l~s~~~~~~~~~~~~i~  398 (889)
T KOG4658|consen  320 EEAWDLFQKKVGPNTL-GSHPDIEELAKEVAEKCGGLPLALNVLGGLLACKKTVQEWRRALNVLKSSLAADFSGMEESIL  398 (889)
T ss_pred             cccHHHHHHhhccccc-cccccHHHHHHHHHHHhCChHHHHHHHHHHhcCCCcHHHHHHHHccccccccCCCCchhhhhH
Confidence            9999999999976532 2334489999999999999999999999999999 889999999876554    222 46799


Q ss_pred             HHHHHhhcCCchhhhcccCC
Q 047559          425 SVLRLSYHYLPSQLKRCFAY  444 (444)
Q Consensus       425 ~~l~~sy~~Lp~~lk~cflY  444 (444)
                      ++|.+||++||+++|.||+|
T Consensus       399 ~iLklSyd~L~~~lK~CFLy  418 (889)
T KOG4658|consen  399 PILKLSYDNLPEELKSCFLY  418 (889)
T ss_pred             HhhhccHhhhhHHHHHHHHh
Confidence            99999999999999999998

>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=4e-41  Score=317.76  Aligned_cols=248  Identities=36%  Similarity=0.603  Sum_probs=197.5

Q ss_pred             cchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhc
Q 047559          189 RQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESIT  268 (444)
Q Consensus       189 r~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~  268 (444)
                      |+.++++|.+.|....    .+.++|+|+||||+||||||..++++...+. +|+.++|++++...+..+++..|+.++.
T Consensus         1 re~~~~~l~~~L~~~~----~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~-~f~~v~wv~~~~~~~~~~~~~~i~~~l~   75 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNS----NEVRVVAIVGMGGIGKTTLARQVARDLRIKN-RFDGVIWVSLSKNPSLEQLLEQILRQLG   75 (287)
T ss_dssp             -HHHHHHHHHHHHTTT----TSSEEEEEEESTTSSHHHHHHHHHCHHHHCC-CCTEEEEEEEES-SCCHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHhhCCC----CCeEEEEEEcCCcCCcceeeeeccccccccc-cccccccccccccccccccccccccccc
Confidence            7889999999998744    4569999999999999999999999877777 9999999999999999999999999998


Q ss_pred             cCCC---CcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCChHHHhhcCC-CCccc
Q 047559          269 FASC---DLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAATMEP-IQQYN  344 (444)
Q Consensus       269 ~~~~---~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~~va~~~~~-~~~~~  344 (444)
                      ....   ...+.......+.+.|.++++||||||||+.  ..|+.+...++....|++||||||+..++..+.. ...++
T Consensus        76 ~~~~~~~~~~~~~~~~~~l~~~L~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~~~~~~  153 (287)
T PF00931_consen   76 EPDSSISDPKDIEELQDQLRELLKDKRCLLVLDDVWDE--EDLEELREPLPSFSSGSKILVTTRDRSVAGSLGGTDKVIE  153 (287)
T ss_dssp             CC-STSSCCSSHHHHHHHHHHHHCCTSEEEEEEEE-SH--HHH-------HCHHSS-EEEEEESCGGGGTTHHSCEEEEE
T ss_pred             ccccccccccccccccccchhhhccccceeeeeeeccc--cccccccccccccccccccccccccccccccccccccccc
Confidence            7643   4567778999999999999999999999876  5888888887777789999999999988766544 57899


Q ss_pred             CCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHHHhcCC-CHHHHHHHHhcccCCCC---C-
Q 047559          345 LQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLLRSK-RHDEWDEILNSNILDLP---Q-  419 (444)
Q Consensus       345 l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~~L~~~-~~~~w~~~l~~~~~~~~---~-  419 (444)
                      +++|+++++++||.+.++... ....+.++.++++|+++|+|+||||+++|++|+.+ +..+|..++++......   + 
T Consensus       154 l~~L~~~ea~~L~~~~~~~~~-~~~~~~~~~~~~~i~~~c~glPLal~~~a~~l~~~~~~~~w~~~~~~l~~~~~~~~~~  232 (287)
T PF00931_consen  154 LEPLSEEEALELFKKRAGRKE-SESPEDLEDLAKEIVEKCGGLPLALKLIASYLRSKSTVDEWEEALEELENSLRESRDY  232 (287)
T ss_dssp             CSS--HHHHHHHHHHHHTSHS-----TTSCTHHHHHHHHTTT-HHHHHHHHHHHHHHHSSSSHHHHHHHHHHCHTCSSGS
T ss_pred             ccccccccccccccccccccc-cccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            999999999999999986544 22334456678899999999999999999999776 78889998876433322   1 


Q ss_pred             ccChHHHHHHhhcCCchhhhcccCC
Q 047559          420 QNGILSVLRLSYHYLPSQLKRCFAY  444 (444)
Q Consensus       420 ~~~i~~~l~~sy~~Lp~~lk~cflY  444 (444)
                      ...+..++.+||+.||+++|.||+|
T Consensus       233 ~~~~~~~l~~s~~~L~~~~~~~f~~  257 (287)
T PF00931_consen  233 DRSVFSALELSYDSLPDELRRCFLY  257 (287)
T ss_dssp             CHHHHHHHHHHHHSSHTCCHHHHHH
T ss_pred             cccccccceechhcCCccHHHHHhh
Confidence            4679999999999999999999976

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=5.6e-33  Score=305.02  Aligned_cols=246  Identities=23%  Similarity=0.342  Sum_probs=194.0

Q ss_pred             cCCcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEe---CCC-----
Q 047559          182 TERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCV---SDD-----  253 (444)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~v---s~~-----  253 (444)
                      ..+.+||++..++++..+|....    .++++|+|+||||+||||||+.+|+.  +.. +|++.+|+..   +..     
T Consensus       182 ~~~~~vG~~~~l~~l~~lL~l~~----~~~~vvgI~G~gGiGKTTLA~~l~~~--l~~-~F~g~vfv~~~~v~~~~~~~~  254 (1153)
T PLN03210        182 DFEDFVGIEDHIAKMSSLLHLES----EEVRMVGIWGSSGIGKTTIARALFSR--LSR-QFQSSVFIDRAFISKSMEIYS  254 (1153)
T ss_pred             ccccccchHHHHHHHHHHHcccc----CceEEEEEEcCCCCchHHHHHHHHHH--Hhh-cCCeEEEeeccccccchhhcc
Confidence            45579999999999998875432    56799999999999999999999987  445 7888888742   111     


Q ss_pred             ------CC-HHHHHHHHHHHhccCCC-CcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEE
Q 047559          254 ------FD-VLNISRALLESITFASC-DLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKII  325 (444)
Q Consensus       254 ------~~-~~~~~~~il~~l~~~~~-~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ii  325 (444)
                            ++ ...+...++..+..... ....    ...+++.+.++|+||||||||+.  ..|+.+.......++||+||
T Consensus       255 ~~~~~~~~~~~~l~~~~l~~il~~~~~~~~~----~~~~~~~L~~krvLLVLDdv~~~--~~l~~L~~~~~~~~~GsrII  328 (1153)
T PLN03210        255 SANPDDYNMKLHLQRAFLSEILDKKDIKIYH----LGAMEERLKHRKVLIFIDDLDDQ--DVLDALAGQTQWFGSGSRII  328 (1153)
T ss_pred             cccccccchhHHHHHHHHHHHhCCCCcccCC----HHHHHHHHhCCeEEEEEeCCCCH--HHHHHHHhhCccCCCCcEEE
Confidence                  01 12334445554433211 1111    14567788999999999999875  57888877666667899999


Q ss_pred             EecCChHHHhhcCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHHHhcCCCHHH
Q 047559          326 VTTRHAHVAATMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLLRSKRHDE  405 (444)
Q Consensus       326 vTTr~~~va~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~~L~~~~~~~  405 (444)
                      ||||+..++..++..++|+++.|++++||+||+.+||....+  ++.+.+++++|+++|+|+|||++++|++|+.++..+
T Consensus       329 iTTrd~~vl~~~~~~~~~~v~~l~~~ea~~LF~~~Af~~~~~--~~~~~~l~~~iv~~c~GLPLAl~vlgs~L~~k~~~~  406 (1153)
T PLN03210        329 VITKDKHFLRAHGIDHIYEVCLPSNELALEMFCRSAFKKNSP--PDGFMELASEVALRAGNLPLGLNVLGSYLRGRDKED  406 (1153)
T ss_pred             EEeCcHHHHHhcCCCeEEEecCCCHHHHHHHHHHHhcCCCCC--cHHHHHHHHHHHHHhCCCcHHHHHHHHHHcCCCHHH
Confidence            999999999877777899999999999999999999975432  356888999999999999999999999999999999


Q ss_pred             HHHHHhcccCCCCCccChHHHHHHhhcCCch-hhhcccCC
Q 047559          406 WDEILNSNILDLPQQNGILSVLRLSYHYLPS-QLKRCFAY  444 (444)
Q Consensus       406 w~~~l~~~~~~~~~~~~i~~~l~~sy~~Lp~-~lk~cflY  444 (444)
                      |..++++.....  +..|..+|++||++|++ ..|.||+|
T Consensus       407 W~~~l~~L~~~~--~~~I~~~L~~SYd~L~~~~~k~~Fl~  444 (1153)
T PLN03210        407 WMDMLPRLRNGL--DGKIEKTLRVSYDGLNNKKDKAIFRH  444 (1153)
T ss_pred             HHHHHHHHHhCc--cHHHHHHHHHhhhccCccchhhhhhe
Confidence            999998754322  35799999999999987 49999986

syringae 6; Provisional

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.48  E-value=6.8e-12  Score=123.86  Aligned_cols=227  Identities=13%  Similarity=0.122  Sum_probs=141.9

Q ss_pred             cCCcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHH
Q 047559          182 TERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISR  261 (444)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~  261 (444)
                      .++.++||++++++|...|...-.+  .....+.|+|++|+|||++++.++++..... ..-..+++++....+...++.
T Consensus        28 ~P~~l~~Re~e~~~l~~~l~~~~~~--~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~-~~~~~v~in~~~~~~~~~~~~  104 (394)
T PRK00411         28 VPENLPHREEQIEELAFALRPALRG--SRPLNVLIYGPPGTGKTTTVKKVFEELEEIA-VKVVYVYINCQIDRTRYAIFS  104 (394)
T ss_pred             cCCCCCCHHHHHHHHHHHHHHHhCC--CCCCeEEEECCCCCCHHHHHHHHHHHHHHhc-CCcEEEEEECCcCCCHHHHHH
Confidence            4567999999999999988543211  2234578999999999999999998754332 234567777777778888999


Q ss_pred             HHHHHhccC-CC-CcccHHHHHHHHHHHhC--CceEEEEEeCCCCCC----hhcHHHhhcccCCCCCC--cEEEEecCCh
Q 047559          262 ALLESITFA-SC-DLKALNEVQVQIKRAVD--GKKLLLVLDDVWNED----YCLWEDLKAPFLAAAPN--SKIIVTTRHA  331 (444)
Q Consensus       262 ~il~~l~~~-~~-~~~~~~~~~~~l~~~l~--~kr~LlVlDdv~~~~----~~~~~~l~~~l~~~~~g--s~iivTTr~~  331 (444)
                      .++.++... .+ ...+..++...+.+.+.  +++.+||||+++...    ...+..+...+.. ..+  ..+|.++...
T Consensus       105 ~i~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~~~-~~~~~v~vI~i~~~~  183 (394)
T PRK00411        105 EIARQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAHEE-YPGARIGVIGISSDL  183 (394)
T ss_pred             HHHHHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhhhc-cCCCeEEEEEEECCc
Confidence            999998752 21 22345666677777764  457899999997642    1223333332222 223  3356666554


Q ss_pred             HHHhhcC-------CCCcccCCCCChHhHHHHHHHhhccC--CCCCccchHHHHHHHHHHHcCCChHHHHHHHHHh----
Q 047559          332 HVAATME-------PIQQYNLQCLSDEDCWSLFMMHAFVG--QDITAQQISDLFREKVVGKCGGLPLAAKTLGGLL----  398 (444)
Q Consensus       332 ~va~~~~-------~~~~~~l~~L~~~~~~~lf~~~~~~~--~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~~L----  398 (444)
                      .+.....       ....+.+.+++.++..+++..++-..  .....+..++.+++......|..+.|+..+-...    
T Consensus       184 ~~~~~l~~~~~s~~~~~~i~f~py~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~  263 (394)
T PRK00411        184 TFLYILDPRVKSVFRPEEIYFPPYTADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAE  263 (394)
T ss_pred             chhhhcCHHHHhcCCcceeecCCCCHHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHH
Confidence            4332221       12457899999999999998876322  1223344455555544444566777777664322    


Q ss_pred             -cC--C-CHHHHHHHHhc
Q 047559          399 -RS--K-RHDEWDEILNS  412 (444)
Q Consensus       399 -~~--~-~~~~w~~~l~~  412 (444)
                       +.  . +.+....+++.
T Consensus       264 ~~~~~~I~~~~v~~a~~~  281 (394)
T PRK00411        264 REGSRKVTEEDVRKAYEK  281 (394)
T ss_pred             HcCCCCcCHHHHHHHHHH
Confidence             11  1 55666665554

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

Probab=99.46  E-value=3e-11  Score=112.77  Aligned_cols=181  Identities=22%  Similarity=0.228  Sum_probs=116.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHH----HH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIK----RA  287 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~----~~  287 (444)
                      ..+.|+|++|+|||||++.+++.....  .+ ...|+ +....+..+++..+...++..... .+...+...+.    ..
T Consensus        44 ~~~~l~G~~G~GKTtl~~~l~~~l~~~--~~-~~~~~-~~~~~~~~~~l~~i~~~lG~~~~~-~~~~~~~~~l~~~l~~~  118 (269)
T TIGR03015        44 GFILITGEVGAGKTTLIRNLLKRLDQE--RV-VAAKL-VNTRVDAEDLLRMVAADFGLETEG-RDKAALLRELEDFLIEQ  118 (269)
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHhcCCC--Ce-EEeee-eCCCCCHHHHHHHHHHHcCCCCCC-CCHHHHHHHHHHHHHHH
Confidence            589999999999999999999875321  11 22233 333457778888898888654332 22222223333    32


Q ss_pred             -hCCceEEEEEeCCCCCChhcHHHhhcccC---CCCCCcEEEEecCChHHHhhcC----------CCCcccCCCCChHhH
Q 047559          288 -VDGKKLLLVLDDVWNEDYCLWEDLKAPFL---AAAPNSKIIVTTRHAHVAATME----------PIQQYNLQCLSDEDC  353 (444)
Q Consensus       288 -l~~kr~LlVlDdv~~~~~~~~~~l~~~l~---~~~~gs~iivTTr~~~va~~~~----------~~~~~~l~~L~~~~~  353 (444)
                       ..+++++||+||+|..+...++.+.....   .......|++|.... ....+.          ....+.+.+++.++.
T Consensus       119 ~~~~~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~~-~~~~l~~~~~~~l~~r~~~~~~l~~l~~~e~  197 (269)
T TIGR03015       119 FAAGKRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQPE-FRETLQSPQLQQLRQRIIASCHLGPLDREET  197 (269)
T ss_pred             HhCCCCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCHH-HHHHHcCchhHHHHhheeeeeeCCCCCHHHH
Confidence             26788999999999877666776653221   112233556666543 222211          123578999999999


Q ss_pred             HHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHHHh
Q 047559          354 WSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLL  398 (444)
Q Consensus       354 ~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~~L  398 (444)
                      .+++...+..........-..+..+.|++.|+|.|..+..++..+
T Consensus       198 ~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~  242 (269)
T TIGR03015       198 REYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRL  242 (269)
T ss_pred             HHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHH
Confidence            999987764322111112334567889999999999999998876

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.

>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP

Probab=99.39  E-value=3.1e-12  Score=116.67  Aligned_cols=195  Identities=18%  Similarity=0.231  Sum_probs=102.2

Q ss_pred             ccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHH--
Q 047559          186 VFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRAL--  263 (444)
Q Consensus       186 ~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~i--  263 (444)
                      |+||+.|++.|.+++..+.      ...+.|+|+.|+|||+|++.+.+.....  .+ ..+|+......... ....+  
T Consensus         1 F~gR~~el~~l~~~l~~~~------~~~~~l~G~rg~GKTsLl~~~~~~~~~~--~~-~~~y~~~~~~~~~~-~~~~~~~   70 (234)
T PF01637_consen    1 FFGREKELEKLKELLESGP------SQHILLYGPRGSGKTSLLKEFINELKEK--GY-KVVYIDFLEESNES-SLRSFIE   70 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH--------SSEEEEEESTTSSHHHHHHHHHHHCT----EE-CCCHHCCTTBSHHH-HHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhhc------CcEEEEEcCCcCCHHHHHHHHHHHhhhc--CC-cEEEEecccchhhh-HHHHHHH
Confidence            7899999999999887532      2689999999999999999999875221  12 34455444433222 12222  


Q ss_pred             --------HHHhccCCC----------CcccHHHHHHHHHHHh--CCceEEEEEeCCCCCC------hhcHHHhhcccCC
Q 047559          264 --------LESITFASC----------DLKALNEVQVQIKRAV--DGKKLLLVLDDVWNED------YCLWEDLKAPFLA  317 (444)
Q Consensus       264 --------l~~l~~~~~----------~~~~~~~~~~~l~~~l--~~kr~LlVlDdv~~~~------~~~~~~l~~~l~~  317 (444)
                              ...+....+          ...........+.+.+  .+++++||+||+....      ......+...+..
T Consensus        71 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~  150 (234)
T PF01637_consen   71 ETSLADELSEALGISIPSITLEKISKDLSEDSFSALERLLEKLKKKGKKVIIVIDEFQYLAIASEEDKDFLKSLRSLLDS  150 (234)
T ss_dssp             HHHHHCHCHHHHHHHCCTSTTEEEECTS-GG-G--HHHHHHHHHHCHCCEEEEEETGGGGGBCTTTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhcccccchhhhhcchhhHHHHHHHHHHHHHhcCCcEEEEEecHHHHhhcccchHHHHHHHHHHHhh
Confidence                    111211111          1112223333333334  3345999999996654      1112233333332


Q ss_pred             --CCCCcEEEEecCChHHHhh--------cCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCC
Q 047559          318 --AAPNSKIIVTTRHAHVAAT--------MEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGL  387 (444)
Q Consensus       318 --~~~gs~iivTTr~~~va~~--------~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~  387 (444)
                        ......+|+++....+...        .+....+.+++|+.+++++++....-..  ..- +.-+...++|+..+||+
T Consensus       151 ~~~~~~~~~v~~~S~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~e~~~~~~~~~~~~--~~~-~~~~~~~~~i~~~~gG~  227 (234)
T PF01637_consen  151 LLSQQNVSIVITGSSDSLMEEFLDDKSPLFGRFSHIELKPLSKEEAREFLKELFKEL--IKL-PFSDEDIEEIYSLTGGN  227 (234)
T ss_dssp             ----TTEEEEEEESSHHHHHHTT-TTSTTTT---EEEE----HHHHHHHHHHHHHCC---------HHHHHHHHHHHTT-
T ss_pred             ccccCCceEEEECCchHHHHHhhcccCccccccceEEEeeCCHHHHHHHHHHHHHHh--hcc-cCCHHHHHHHHHHhCCC
Confidence              2334445555555544433        1222458999999999999998764322  111 11233347899999999


Q ss_pred             hHHHHH
Q 047559          388 PLAAKT  393 (444)
Q Consensus       388 Plai~~  393 (444)
                      |..|..
T Consensus       228 P~~l~~  233 (234)
T PF01637_consen  228 PRYLQE  233 (234)
T ss_dssp             HHHHHH
T ss_pred             HHHHhc
Confidence            998864

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

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.28  E-value=1.4e-10  Score=126.77  Aligned_cols=196  Identities=17%  Similarity=0.161  Sum_probs=123.6

Q ss_pred             CCcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeC-CCCCHHHHHH
Q 047559          183 ERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVS-DDFDVLNISR  261 (444)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs-~~~~~~~~~~  261 (444)
                      .+.++-|..-.+.+-    ..     ...+++.|+|++|.||||++.++...       ++.++|+++. .+.++..++.
T Consensus        13 ~~~~~~R~rl~~~l~----~~-----~~~~~~~v~apaG~GKTtl~~~~~~~-------~~~~~w~~l~~~d~~~~~f~~   76 (903)
T PRK04841         13 LHNTVVRERLLAKLS----GA-----NNYRLVLVTSPAGYGKTTLISQWAAG-------KNNLGWYSLDESDNQPERFAS   76 (903)
T ss_pred             ccccCcchHHHHHHh----cc-----cCCCeEEEECCCCCCHHHHHHHHHHh-------CCCeEEEecCcccCCHHHHHH
Confidence            345667765444442    21     34589999999999999999998753       2368899996 4456677778


Q ss_pred             HHHHHhccCCCC-------------cccHHHHHHHHHHHh-C-CceEEEEEeCCCCCChhcHHHhhcccC-CCCCCcEEE
Q 047559          262 ALLESITFASCD-------------LKALNEVQVQIKRAV-D-GKKLLLVLDDVWNEDYCLWEDLKAPFL-AAAPNSKII  325 (444)
Q Consensus       262 ~il~~l~~~~~~-------------~~~~~~~~~~l~~~l-~-~kr~LlVlDdv~~~~~~~~~~l~~~l~-~~~~gs~ii  325 (444)
                      .++..+......             ..+...+...+...+ . +.+++|||||++..+......+...+. ....+.++|
T Consensus        77 ~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~lv  156 (903)
T PRK04841         77 YLIAALQQATNGHCSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTLV  156 (903)
T ss_pred             HHHHHHHHhcCcccchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEEE
Confidence            888777422111             012223333333333 2 678999999998765444443333433 345567888


Q ss_pred             EecCChHH---HhhcCCCCcccCC----CCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHHHh
Q 047559          326 VTTRHAHV---AATMEPIQQYNLQ----CLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLL  398 (444)
Q Consensus       326 vTTr~~~v---a~~~~~~~~~~l~----~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~~L  398 (444)
                      ||||....   ....-......+.    +|+.+|+.+||......   ..    .......|.+.|+|.|+++..++..+
T Consensus       157 ~~sR~~~~~~~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~~~~---~~----~~~~~~~l~~~t~Gwp~~l~l~~~~~  229 (903)
T PRK04841        157 VLSRNLPPLGIANLRVRDQLLEIGSQQLAFDHQEAQQFFDQRLSS---PI----EAAESSRLCDDVEGWATALQLIALSA  229 (903)
T ss_pred             EEeCCCCCCchHhHHhcCcceecCHHhCCCCHHHHHHHHHhccCC---CC----CHHHHHHHHHHhCChHHHHHHHHHHH
Confidence            99997421   1111111234444    89999999999765311   11    12234679999999999999988776


Q ss_pred             cCC
Q 047559          399 RSK  401 (444)
Q Consensus       399 ~~~  401 (444)
                      ...
T Consensus       230 ~~~  232 (903)
T PRK04841        230 RQN  232 (903)
T ss_pred             hhC
Confidence            544

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.26  E-value=6.7e-10  Score=108.52  Aligned_cols=207  Identities=13%  Similarity=0.088  Sum_probs=125.2

Q ss_pred             CCcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCc---ceeEEEEeCCCCCHHHH
Q 047559          183 ERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKF---DVKAWVCVSDDFDVLNI  259 (444)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f---~~~~wv~vs~~~~~~~~  259 (444)
                      ++.++||+.+++.|...|...-.+  .....+.|+|++|+|||++++.+++.........   -..+|+++....+...+
T Consensus        14 p~~l~gRe~e~~~l~~~l~~~~~~--~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~~   91 (365)
T TIGR02928        14 PDRIVHRDEQIEELAKALRPILRG--SRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQV   91 (365)
T ss_pred             CCCCCCcHHHHHHHHHHHHHHHcC--CCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHHH
Confidence            347999999999999998642111  2235789999999999999999998643111011   24578888777778889


Q ss_pred             HHHHHHHhc---cCCC-CcccHHHHHHHHHHHh--CCceEEEEEeCCCCCC---hhcHHHhhccc-CCCC--CCcEEEEe
Q 047559          260 SRALLESIT---FASC-DLKALNEVQVQIKRAV--DGKKLLLVLDDVWNED---YCLWEDLKAPF-LAAA--PNSKIIVT  327 (444)
Q Consensus       260 ~~~il~~l~---~~~~-~~~~~~~~~~~l~~~l--~~kr~LlVlDdv~~~~---~~~~~~l~~~l-~~~~--~gs~iivT  327 (444)
                      +..|+.++.   ...+ ...+..+....+.+.+  .+++++||||+++...   ......+.... ....  ....+|.+
T Consensus        92 ~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L~~~~~~~L~~l~~~~~~~~~~~~~v~lI~i  171 (365)
T TIGR02928        92 LVELANQLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYLVGDDDDLLYQLSRARSNGDLDNAKVGVIGI  171 (365)
T ss_pred             HHHHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhhccCCcHHHHhHhccccccCCCCCeEEEEEE
Confidence            999999884   2211 1223445555566665  3568899999997752   11122222221 1111  23344555


Q ss_pred             cCChHHHhhc-----CC--CCcccCCCCChHhHHHHHHHhhccC--CCCCccchHHHHHHHHHHHcCCChHHHH
Q 047559          328 TRHAHVAATM-----EP--IQQYNLQCLSDEDCWSLFMMHAFVG--QDITAQQISDLFREKVVGKCGGLPLAAK  392 (444)
Q Consensus       328 Tr~~~va~~~-----~~--~~~~~l~~L~~~~~~~lf~~~~~~~--~~~~~~~~~~~~~~~i~~~~~G~Plai~  392 (444)
                      |........+     ..  ...+.+.+++.++..+++..++-..  .....+..++ ....++..+.|.|-.+.
T Consensus       172 ~n~~~~~~~l~~~~~s~~~~~~i~f~p~~~~e~~~il~~r~~~~~~~~~~~~~~l~-~i~~~~~~~~Gd~R~al  244 (365)
T TIGR02928       172 SNDLKFRENLDPRVKSSLCEEEIIFPPYDAEELRDILENRAEKAFYDGVLDDGVIP-LCAALAAQEHGDARKAI  244 (365)
T ss_pred             ECCcchHhhcCHHHhccCCcceeeeCCCCHHHHHHHHHHHHHhhccCCCCChhHHH-HHHHHHHHhcCCHHHHH
Confidence            5444332111     11  1457899999999999999886311  1112222233 33456777788885543

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.

>PF05729 NACHT: NACHT domain

Probab=99.23  E-value=9.1e-11  Score=100.91  Aligned_cols=143  Identities=24%  Similarity=0.319  Sum_probs=89.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCC----cceeEEEEeCCCCCHH---HHHHHHHHHhccCCCCcccHHHHHHHH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSK----FDVKAWVCVSDDFDVL---NISRALLESITFASCDLKALNEVQVQI  284 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~----f~~~~wv~vs~~~~~~---~~~~~il~~l~~~~~~~~~~~~~~~~l  284 (444)
                      +++.|+|.+|+||||+++.++....... .    +...+|++........   .+...+..+......   ....   .+
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~---~~~~---~~   73 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLAEEE-PPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESIA---PIEE---LL   73 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHHhcC-cccccceEEEEEeehhhhhccccchHHHHHHHhhccchh---hhHH---HH
Confidence            4799999999999999999987754333 2    4566777766543322   233333333322111   1111   22


Q ss_pred             HHHh-CCceEEEEEeCCCCCChh-------cHHHhhcccCC--CCCCcEEEEecCChHH---HhhcCCCCcccCCCCChH
Q 047559          285 KRAV-DGKKLLLVLDDVWNEDYC-------LWEDLKAPFLA--AAPNSKIIVTTRHAHV---AATMEPIQQYNLQCLSDE  351 (444)
Q Consensus       285 ~~~l-~~kr~LlVlDdv~~~~~~-------~~~~l~~~l~~--~~~gs~iivTTr~~~v---a~~~~~~~~~~l~~L~~~  351 (444)
                      ...+ ..++++||||++++....       .+..+...+..  ..+++++|||+|....   .........+.+.+|+++
T Consensus        74 ~~~~~~~~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~~~~  153 (166)
T PF05729_consen   74 QELLEKNKRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPFSEE  153 (166)
T ss_pred             HHHHHcCCceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCCCHH
Confidence            2222 578999999999775321       12333333333  3568999999998766   333444467999999999


Q ss_pred             hHHHHHHHhh
Q 047559          352 DCWSLFMMHA  361 (444)
Q Consensus       352 ~~~~lf~~~~  361 (444)
                      +..+++.+..
T Consensus       154 ~~~~~~~~~f  163 (166)
T PF05729_consen  154 DIKQYLRKYF  163 (166)
T ss_pred             HHHHHHHHHh
Confidence            9999987653

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

Probab=99.10  E-value=5.3e-10  Score=104.58  Aligned_cols=158  Identities=20%  Similarity=0.233  Sum_probs=98.6

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHH-HHH
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQI-KRA  287 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l-~~~  287 (444)
                      +.+....+||++|+||||||+.+.....  . .     |..+|...+-.+-++.+                 .+.- +..
T Consensus        46 ~~l~SmIl~GPPG~GKTTlA~liA~~~~--~-~-----f~~~sAv~~gvkdlr~i-----------------~e~a~~~~  100 (436)
T COG2256          46 GHLHSMILWGPPGTGKTTLARLIAGTTN--A-A-----FEALSAVTSGVKDLREI-----------------IEEARKNR  100 (436)
T ss_pred             CCCceeEEECCCCCCHHHHHHHHHHhhC--C-c-----eEEeccccccHHHHHHH-----------------HHHHHHHH
Confidence            4567889999999999999999987532  1 2     23333333222222222                 2222 223


Q ss_pred             hCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEE--ecCChHHH---hhcCCCCcccCCCCChHhHHHHHHHhhc
Q 047559          288 VDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIV--TTRHAHVA---ATMEPIQQYNLQCLSDEDCWSLFMMHAF  362 (444)
Q Consensus       288 l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiv--TTr~~~va---~~~~~~~~~~l~~L~~~~~~~lf~~~~~  362 (444)
                      ..|++.+|++|+|+..+..+.+.+   ||.-.+|.-|+|  ||.++...   ...+...++.+++|+.++...++.+.+.
T Consensus       101 ~~gr~tiLflDEIHRfnK~QQD~l---Lp~vE~G~iilIGATTENPsF~ln~ALlSR~~vf~lk~L~~~di~~~l~ra~~  177 (436)
T COG2256         101 LLGRRTILFLDEIHRFNKAQQDAL---LPHVENGTIILIGATTENPSFELNPALLSRARVFELKPLSSEDIKKLLKRALL  177 (436)
T ss_pred             hcCCceEEEEehhhhcChhhhhhh---hhhhcCCeEEEEeccCCCCCeeecHHHhhhhheeeeecCCHHHHHHHHHHHHh
Confidence            358999999999988776655544   344567887777  66665432   2234457899999999999999988432


Q ss_pred             cC-CCCC--ccchHHHHHHHHHHHcCCChHHHHHH
Q 047559          363 VG-QDIT--AQQISDLFREKVVGKCGGLPLAAKTL  394 (444)
Q Consensus       363 ~~-~~~~--~~~~~~~~~~~i~~~~~G~Plai~~~  394 (444)
                      .. ....  .....+++...++..++|---++-..
T Consensus       178 ~~~rgl~~~~~~i~~~a~~~l~~~s~GD~R~aLN~  212 (436)
T COG2256         178 DEERGLGGQIIVLDEEALDYLVRLSNGDARRALNL  212 (436)
T ss_pred             hhhcCCCcccccCCHHHHHHHHHhcCchHHHHHHH
Confidence            21 1111  11122445577889999875544333

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=99.04  E-value=1.6e-09  Score=103.17  Aligned_cols=193  Identities=16%  Similarity=0.112  Sum_probs=104.0

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHH
Q 047559          185 AVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALL  264 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il  264 (444)
                      .|+|++..++.+..++....... .....+.++|++|+|||+||+.+.+....   .+   ..+..+...... .+...+
T Consensus         5 ~~iG~~~~~~~l~~~l~~~~~~~-~~~~~~ll~Gp~G~GKT~la~~ia~~~~~---~~---~~~~~~~~~~~~-~l~~~l   76 (305)
T TIGR00635         5 EFIGQEKVKEQLQLFIEAAKMRQ-EALDHLLLYGPPGLGKTTLAHIIANEMGV---NL---KITSGPALEKPG-DLAAIL   76 (305)
T ss_pred             HHcCHHHHHHHHHHHHHHHHhcC-CCCCeEEEECCCCCCHHHHHHHHHHHhCC---CE---EEeccchhcCch-hHHHHH
Confidence            58999999999988886422111 33456889999999999999999886422   11   112211111111 122222


Q ss_pred             HHhccCCC----Cccc-HHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCChHHHhhc-C
Q 047559          265 ESITFASC----DLKA-LNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAATM-E  338 (444)
Q Consensus       265 ~~l~~~~~----~~~~-~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~~va~~~-~  338 (444)
                      ..+....-    +... .......+...+.+.+..+|+++..+..  .|.   ..   ..+.+-|..||+...+...+ .
T Consensus        77 ~~~~~~~vl~iDEi~~l~~~~~e~l~~~~~~~~~~~v~~~~~~~~--~~~---~~---~~~~~li~~t~~~~~l~~~l~s  148 (305)
T TIGR00635        77 TNLEEGDVLFIDEIHRLSPAVEELLYPAMEDFRLDIVIGKGPSAR--SVR---LD---LPPFTLVGATTRAGMLTSPLRD  148 (305)
T ss_pred             HhcccCCEEEEehHhhhCHHHHHHhhHHHhhhheeeeeccCcccc--cee---ec---CCCeEEEEecCCccccCHHHHh
Confidence            22221110    0000 0111233444444445555555543321  110   11   12245555677754433221 1


Q ss_pred             -CCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHHH
Q 047559          339 -PIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGL  397 (444)
Q Consensus       339 -~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~~  397 (444)
                       -...+.+++++.++..+++.+.+......    ...+....|++.|+|.|-.+..++..
T Consensus       149 R~~~~~~l~~l~~~e~~~il~~~~~~~~~~----~~~~al~~ia~~~~G~pR~~~~ll~~  204 (305)
T TIGR00635       149 RFGIILRLEFYTVEELAEIVSRSAGLLNVE----IEPEAALEIARRSRGTPRIANRLLRR  204 (305)
T ss_pred             hcceEEEeCCCCHHHHHHHHHHHHHHhCCC----cCHHHHHHHHHHhCCCcchHHHHHHH
Confidence             12457899999999999998876432211    12334567999999999776555543

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.

>PRK06893 DNA replication initiation factor; Validated

Probab=99.01  E-value=8.4e-09  Score=93.52  Aligned_cols=155  Identities=18%  Similarity=0.177  Sum_probs=95.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGK  291 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  291 (444)
                      +.+.|+|++|+|||+|++.+++.....   ...+.|+++...   ......                     +.+.+. +
T Consensus        40 ~~l~l~G~~G~GKThL~~ai~~~~~~~---~~~~~y~~~~~~---~~~~~~---------------------~~~~~~-~   91 (229)
T PRK06893         40 PFFYIWGGKSSGKSHLLKAVSNHYLLN---QRTAIYIPLSKS---QYFSPA---------------------VLENLE-Q   91 (229)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHc---CCCeEEeeHHHh---hhhhHH---------------------HHhhcc-c
Confidence            578999999999999999999874322   224456665321   000001                     111121 2


Q ss_pred             eEEEEEeCCCCCC-hhcHHH-hhcccCCC-CCCcEEE-EecCC---------hHHHhhcCCCCcccCCCCChHhHHHHHH
Q 047559          292 KLLLVLDDVWNED-YCLWED-LKAPFLAA-APNSKII-VTTRH---------AHVAATMEPIQQYNLQCLSDEDCWSLFM  358 (444)
Q Consensus       292 r~LlVlDdv~~~~-~~~~~~-l~~~l~~~-~~gs~ii-vTTr~---------~~va~~~~~~~~~~l~~L~~~~~~~lf~  358 (444)
                      .-+|+|||+|... ...|+. +...+... ..|..+| +|+..         +.+...+.....+++++++.++.++++.
T Consensus        92 ~dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illits~~~p~~l~~~~~~L~sRl~~g~~~~l~~pd~e~~~~iL~  171 (229)
T PRK06893         92 QDLVCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLISADCSPHALSIKLPDLASRLTWGEIYQLNDLTDEQKIIVLQ  171 (229)
T ss_pred             CCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeCCCChHHccccchhHHHHHhcCCeeeCCCCCHHHHHHHHH
Confidence            3489999998742 234553 33333221 2455554 45543         3555555556789999999999999999


Q ss_pred             HhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHHHh
Q 047559          359 MHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLL  398 (444)
Q Consensus       359 ~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~~L  398 (444)
                      +.++...-    ..-+++..-|++.+.|..-.+..+-..|
T Consensus       172 ~~a~~~~l----~l~~~v~~~L~~~~~~d~r~l~~~l~~l  207 (229)
T PRK06893        172 RNAYQRGI----ELSDEVANFLLKRLDRDMHTLFDALDLL  207 (229)
T ss_pred             HHHHHcCC----CCCHHHHHHHHHhccCCHHHHHHHHHHH
Confidence            88864321    1223455678999998877766655544

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=99.01  E-value=2.4e-09  Score=102.77  Aligned_cols=194  Identities=16%  Similarity=0.148  Sum_probs=102.0

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRAL  263 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~i  263 (444)
                      ..|+|++..++.+..++....... .....+.|+|++|+|||+||+.+++....   .+   .+++.+ .......+..+
T Consensus        25 ~~~vG~~~~~~~l~~~l~~~~~~~-~~~~~~ll~GppG~GKT~la~~ia~~l~~---~~---~~~~~~-~~~~~~~l~~~   96 (328)
T PRK00080         25 DEFIGQEKVKENLKIFIEAAKKRG-EALDHVLLYGPPGLGKTTLANIIANEMGV---NI---RITSGP-ALEKPGDLAAI   96 (328)
T ss_pred             HHhcCcHHHHHHHHHHHHHHHhcC-CCCCcEEEECCCCccHHHHHHHHHHHhCC---Ce---EEEecc-cccChHHHHHH
Confidence            469999999999888775421111 34467889999999999999999987432   11   112211 11111222233


Q ss_pred             HHHhccCCC----CcccH-HHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCChHHHhhc-
Q 047559          264 LESITFASC----DLKAL-NEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAATM-  337 (444)
Q Consensus       264 l~~l~~~~~----~~~~~-~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~~va~~~-  337 (444)
                      +..+....-    +...+ ....+.+...+.+.+..+++|+..+....     ...+   .+.+-|..||+...+...+ 
T Consensus        97 l~~l~~~~vl~IDEi~~l~~~~~e~l~~~~e~~~~~~~l~~~~~~~~~-----~~~l---~~~~li~at~~~~~l~~~L~  168 (328)
T PRK00080         97 LTNLEEGDVLFIDEIHRLSPVVEEILYPAMEDFRLDIMIGKGPAARSI-----RLDL---PPFTLIGATTRAGLLTSPLR  168 (328)
T ss_pred             HHhcccCCEEEEecHhhcchHHHHHHHHHHHhcceeeeeccCccccce-----eecC---CCceEEeecCCcccCCHHHH
Confidence            332211100    00000 01112223333333444444443221100     0001   1234455666644333221 


Q ss_pred             C-CCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHHH
Q 047559          338 E-PIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGL  397 (444)
Q Consensus       338 ~-~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~~  397 (444)
                      . -...+.+++++.++..+++.+.+....-.    ..++....|++.|+|.|-.+..+...
T Consensus       169 sRf~~~~~l~~~~~~e~~~il~~~~~~~~~~----~~~~~~~~ia~~~~G~pR~a~~~l~~  225 (328)
T PRK00080        169 DRFGIVQRLEFYTVEELEKIVKRSARILGVE----IDEEGALEIARRSRGTPRIANRLLRR  225 (328)
T ss_pred             HhcCeeeecCCCCHHHHHHHHHHHHHHcCCC----cCHHHHHHHHHHcCCCchHHHHHHHH
Confidence            1 12458899999999999999876432211    22334677999999999766665553

>PRK13342 recombination factor protein RarA; Reviewed

Probab=98.97  E-value=8.9e-09  Score=101.82  Aligned_cols=193  Identities=19%  Similarity=0.214  Sum_probs=112.3

Q ss_pred             cccccchhHHH---HHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHH
Q 047559          185 AVFGRQQDKAK---MLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISR  261 (444)
Q Consensus       185 ~~vGr~~~~~~---l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~  261 (444)
                      .++|++..+..   +..++...      ....+.|+|++|+||||||+.+++...  . .     |+.++.......-++
T Consensus        13 d~vGq~~~v~~~~~L~~~i~~~------~~~~ilL~GppGtGKTtLA~~ia~~~~--~-~-----~~~l~a~~~~~~~ir   78 (413)
T PRK13342         13 EVVGQEHLLGPGKPLRRMIEAG------RLSSMILWGPPGTGKTTLARIIAGATD--A-P-----FEALSAVTSGVKDLR   78 (413)
T ss_pred             HhcCcHHHhCcchHHHHHHHcC------CCceEEEECCCCCCHHHHHHHHHHHhC--C-C-----EEEEecccccHHHHH
Confidence            58888776555   66666432      335788899999999999999987632  1 2     222222211111122


Q ss_pred             HHHHHhccCCCCcccHHHHHHHHHHH-hCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEE--ecCChHHH---h
Q 047559          262 ALLESITFASCDLKALNEVQVQIKRA-VDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIV--TTRHAHVA---A  335 (444)
Q Consensus       262 ~il~~l~~~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiv--TTr~~~va---~  335 (444)
                      .++.                 ..... ..+++.+|+||+++.......+.+...+..   |..++|  ||.+....   .
T Consensus        79 ~ii~-----------------~~~~~~~~g~~~vL~IDEi~~l~~~~q~~LL~~le~---~~iilI~att~n~~~~l~~a  138 (413)
T PRK13342         79 EVIE-----------------EARQRRSAGRRTILFIDEIHRFNKAQQDALLPHVED---GTITLIGATTENPSFEVNPA  138 (413)
T ss_pred             HHHH-----------------HHHHhhhcCCceEEEEechhhhCHHHHHHHHHHhhc---CcEEEEEeCCCChhhhccHH
Confidence            2222                 11111 246788999999988766666666555432   444554  34433211   1


Q ss_pred             hcCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHHHh---cCC-CHHHHHHHHh
Q 047559          336 TMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLL---RSK-RHDEWDEILN  411 (444)
Q Consensus       336 ~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~~L---~~~-~~~~w~~~l~  411 (444)
                      ..+....+.+.+++.++...++.+.+....... ....++....|++.|+|.|..+..+...+   ... +.+....++.
T Consensus       139 L~SR~~~~~~~~ls~e~i~~lL~~~l~~~~~~~-i~i~~~al~~l~~~s~Gd~R~aln~Le~~~~~~~~It~~~v~~~~~  217 (413)
T PRK13342        139 LLSRAQVFELKPLSEEDIEQLLKRALEDKERGL-VELDDEALDALARLANGDARRALNLLELAALGVDSITLELLEEALQ  217 (413)
T ss_pred             HhccceeeEeCCCCHHHHHHHHHHHHHHhhcCC-CCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHccCCCCHHHHHHHHh
Confidence            223336789999999999999987653211100 02223455778999999998776555443   122 5555555544


Q ss_pred             c
Q 047559          412 S  412 (444)
Q Consensus       412 ~  412 (444)
                      .
T Consensus       218 ~  218 (413)
T PRK13342        218 K  218 (413)
T ss_pred             h
Confidence            3

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=98.93  E-value=5e-08  Score=100.28  Aligned_cols=214  Identities=11%  Similarity=0.045  Sum_probs=126.8

Q ss_pred             CCcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccc--cCCc--ceeEEEEeCCCCCHHH
Q 047559          183 ERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVE--DSKF--DVKAWVCVSDDFDVLN  258 (444)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~--~~~f--~~~~wv~vs~~~~~~~  258 (444)
                      ++.+.||+.|+++|...|...-.+. ....++.|+|++|.|||++++.|.+.....  ....  -..++|++..-.+...
T Consensus       754 PD~LPhREeEIeeLasfL~paIkgs-gpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp~s  832 (1164)
T PTZ00112        754 PKYLPCREKEIKEVHGFLESGIKQS-GSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHPNA  832 (1164)
T ss_pred             CCcCCChHHHHHHHHHHHHHHHhcC-CCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCHHH
Confidence            4578999999999998886532211 223678899999999999999998764211  1011  1356788777677888


Q ss_pred             HHHHHHHHhccCCCC-cccHHHHHHHHHHHh-C--CceEEEEEeCCCCCChhcHHHhhcccC-CCCCCcEEEE--ecCCh
Q 047559          259 ISRALLESITFASCD-LKALNEVQVQIKRAV-D--GKKLLLVLDDVWNEDYCLWEDLKAPFL-AAAPNSKIIV--TTRHA  331 (444)
Q Consensus       259 ~~~~il~~l~~~~~~-~~~~~~~~~~l~~~l-~--~kr~LlVlDdv~~~~~~~~~~l~~~l~-~~~~gs~iiv--TTr~~  331 (444)
                      ++..|..++....+. ..........+...+ .  ....+||||+++......-+.|...+. ....+++|+|  +|..-
T Consensus       833 IYqvI~qqL~g~~P~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L~kK~QDVLYnLFR~~~~s~SKLiLIGISNdl  912 (1164)
T PTZ00112        833 AYQVLYKQLFNKKPPNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYLITKTQKVLFTLFDWPTKINSKLVLIAISNTM  912 (1164)
T ss_pred             HHHHHHHHHcCCCCCccccHHHHHHHHHhhhhcccccceEEEeehHhhhCccHHHHHHHHHHHhhccCCeEEEEEecCch
Confidence            888998888544332 222333444444444 2  224589999997643211122222221 1223455544  33321


Q ss_pred             H--------HHhhcCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHHHh
Q 047559          332 H--------VAATMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLL  398 (444)
Q Consensus       332 ~--------va~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~~L  398 (444)
                      +        +...++ ...+...|++.++..+++..++-.......+..++.+++.++...|-.=.||.++-...
T Consensus       913 DLperLdPRLRSRLg-~eeIvF~PYTaEQL~dILk~RAe~A~gVLdDdAIELIArkVAq~SGDARKALDILRrAg  986 (1164)
T PTZ00112        913 DLPERLIPRCRSRLA-FGRLVFSPYKGDEIEKIIKERLENCKEIIDHTAIQLCARKVANVSGDIRKALQICRKAF  986 (1164)
T ss_pred             hcchhhhhhhhhccc-cccccCCCCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhhcCCHHHHHHHHHHHHH
Confidence            1        111221 23467799999999999999885433334455666666655555455555555554433

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

Probab=98.92  E-value=4.9e-09  Score=86.37  Aligned_cols=117  Identities=20%  Similarity=0.264  Sum_probs=82.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcccccc--CCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhC
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVED--SKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVD  289 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~--~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~  289 (444)
                      +++.|+|.+|+|||++++.+.+......  ..-...+|+.++...+...+...++.+++.......+...+...+.+.+.
T Consensus         5 ~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~l~~~~~~~l~   84 (131)
T PF13401_consen    5 RILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKSRQTSDELRSLLIDALD   84 (131)
T ss_dssp             --EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSSTS-HHHHHHHHHHHHH
T ss_pred             cccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccccCCHHHHHHHHHHHHH
Confidence            7899999999999999999998742210  01345679999888899999999999998776654566666777777775


Q ss_pred             Cc-eEEEEEeCCCCC-ChhcHHHhhcccCCCCCCcEEEEecCC
Q 047559          290 GK-KLLLVLDDVWNE-DYCLWEDLKAPFLAAAPNSKIIVTTRH  330 (444)
Q Consensus       290 ~k-r~LlVlDdv~~~-~~~~~~~l~~~l~~~~~gs~iivTTr~  330 (444)
                      .. ..+||+|+++.. +...++.+.....  ..+.++|+..+.
T Consensus        85 ~~~~~~lviDe~~~l~~~~~l~~l~~l~~--~~~~~vvl~G~~  125 (131)
T PF13401_consen   85 RRRVVLLVIDEADHLFSDEFLEFLRSLLN--ESNIKVVLVGTP  125 (131)
T ss_dssp             HCTEEEEEEETTHHHHTHHHHHHHHHHTC--SCBEEEEEEESS
T ss_pred             hcCCeEEEEeChHhcCCHHHHHHHHHHHh--CCCCeEEEEECh
Confidence            44 469999999776 5555555644333  566777777664

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=98.88  E-value=3e-08  Score=90.02  Aligned_cols=171  Identities=15%  Similarity=0.093  Sum_probs=99.2

Q ss_pred             cchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhc
Q 047559          189 RQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESIT  268 (444)
Q Consensus       189 r~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~  268 (444)
                      ....++.+..++..      .....+.|+|++|+|||+||+.+++....   .....++++++.-.+      ..     
T Consensus        22 ~~~~~~~l~~~~~~------~~~~~lll~G~~G~GKT~la~~~~~~~~~---~~~~~~~i~~~~~~~------~~-----   81 (226)
T TIGR03420        22 NAELLAALRQLAAG------KGDRFLYLWGESGSGKSHLLQAACAAAEE---RGKSAIYLPLAELAQ------AD-----   81 (226)
T ss_pred             cHHHHHHHHHHHhc------CCCCeEEEECCCCCCHHHHHHHHHHHHHh---cCCcEEEEeHHHHHH------hH-----
Confidence            34456666666532      22368999999999999999999886421   223445665443211      00     


Q ss_pred             cCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChh-cH-HHhhcccCC-CCCCcEEEEecCChH---------HHhh
Q 047559          269 FASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYC-LW-EDLKAPFLA-AAPNSKIIVTTRHAH---------VAAT  336 (444)
Q Consensus       269 ~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~-~~-~~l~~~l~~-~~~gs~iivTTr~~~---------va~~  336 (444)
                                   ..+...+.+ .-+|||||++..... .| +.+...+.. ...+..+|+||+...         +...
T Consensus        82 -------------~~~~~~~~~-~~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~~~~~~~~~~L~~r  147 (226)
T TIGR03420        82 -------------PEVLEGLEQ-ADLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPLRLPDLRTR  147 (226)
T ss_pred             -------------HHHHhhccc-CCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCChHHCCcccHHHHHH
Confidence                         011111222 238999999765432 23 334433322 123457888887532         2222


Q ss_pred             cCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHHH
Q 047559          337 MEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGL  397 (444)
Q Consensus       337 ~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~~  397 (444)
                      +.....+++.+++.++...++...+....-..    -.+..+.|++.+.|+|..+..+...
T Consensus       148 ~~~~~~i~l~~l~~~e~~~~l~~~~~~~~~~~----~~~~l~~L~~~~~gn~r~L~~~l~~  204 (226)
T TIGR03420       148 LAWGLVFQLPPLSDEEKIAALQSRAARRGLQL----PDEVADYLLRHGSRDMGSLMALLDA  204 (226)
T ss_pred             HhcCeeEecCCCCHHHHHHHHHHHHHHcCCCC----CHHHHHHHHHhccCCHHHHHHHHHH
Confidence            22235789999999999999877543221111    2233456777899999887776543

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.

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.87  E-value=1.3e-07  Score=91.89  Aligned_cols=184  Identities=16%  Similarity=0.158  Sum_probs=110.2

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcccccc------------------CCccee
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVED------------------SKFDVK  245 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~------------------~~f~~~  245 (444)
                      ..++|.+.-++.+...+..+.     -...+.++|+.|+||||+|+.+.+...-..                  +.+...
T Consensus        16 ~~iiGq~~~~~~l~~~~~~~~-----~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~~~pc~~c~~c~~~~~~~~~d~   90 (363)
T PRK14961         16 RDIIGQKHIVTAISNGLSLGR-----IHHAWLLSGTRGVGKTTIARLLAKSLNCQNGITSNPCRKCIICKEIEKGLCLDL   90 (363)
T ss_pred             hhccChHHHHHHHHHHHHcCC-----CCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCce
Confidence            358999999999988886532     125679999999999999999987532110                  000011


Q ss_pred             EEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHH-hCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEE
Q 047559          246 AWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRA-VDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKI  324 (444)
Q Consensus       246 ~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~i  324 (444)
                      .++..+....+                  .+..++...+... ..+++-++|+|+++..+...++.+...+.......++
T Consensus        91 ~~~~~~~~~~v------------------~~ir~i~~~~~~~p~~~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~f  152 (363)
T PRK14961         91 IEIDAASRTKV------------------EEMREILDNIYYSPSKSRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKF  152 (363)
T ss_pred             EEecccccCCH------------------HHHHHHHHHHhcCcccCCceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEE
Confidence            11111110111                  1111111111110 1244569999999887766788888777766667777


Q ss_pred             EEecCCh-HHHhh-cCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHH
Q 047559          325 IVTTRHA-HVAAT-MEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTL  394 (444)
Q Consensus       325 ivTTr~~-~va~~-~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~  394 (444)
                      |++|.+. .+... .+....+++.+++.++..+.+.+.+...+...    .++....|++.++|.|-.+...
T Consensus       153 Il~t~~~~~l~~tI~SRc~~~~~~~l~~~el~~~L~~~~~~~g~~i----~~~al~~ia~~s~G~~R~al~~  220 (363)
T PRK14961        153 ILATTDVEKIPKTILSRCLQFKLKIISEEKIFNFLKYILIKESIDT----DEYALKLIAYHAHGSMRDALNL  220 (363)
T ss_pred             EEEcCChHhhhHHHHhhceEEeCCCCCHHHHHHHHHHHHHHcCCCC----CHHHHHHHHHHcCCCHHHHHHH
Confidence            7776543 23222 22336789999999999988877653322111    1234466888999988644433

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=98.86  E-value=7.2e-08  Score=98.51  Aligned_cols=180  Identities=16%  Similarity=0.155  Sum_probs=112.0

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcccccc------------------CCccee
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVED------------------SKFDVK  245 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~------------------~~f~~~  245 (444)
                      ..++|.+..++.|.+++..+.-     ...+.++|..|+||||+|+.+.+...-..                  +.|...
T Consensus        16 dEVIGQe~Vv~~L~~aL~~gRL-----~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C~sCr~I~~G~h~Dv   90 (830)
T PRK07003         16 ASLVGQEHVVRALTHALDGGRL-----HHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRACREIDEGRFVDY   90 (830)
T ss_pred             HHHcCcHHHHHHHHHHHhcCCC-----CeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCcccHHHHHHhcCCCceE
Confidence            3589999999999998865421     24667999999999999998876532110                  011112


Q ss_pred             EEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHH----hCCceEEEEEeCCCCCChhcHHHhhcccCCCCCC
Q 047559          246 AWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRA----VDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPN  321 (444)
Q Consensus       246 ~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~g  321 (444)
                      ++++.+...                     ..++....+...    ..++.-++|||+++..+...|+.|...+......
T Consensus        91 iEIDAas~r---------------------gVDdIReLIe~a~~~P~~gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~  149 (830)
T PRK07003         91 VEMDAASNR---------------------GVDEMAALLERAVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPH  149 (830)
T ss_pred             EEecccccc---------------------cHHHHHHHHHHHHhccccCCceEEEEeChhhCCHHHHHHHHHHHHhcCCC
Confidence            222221111                     122222222211    1344558899999988877889888887766677


Q ss_pred             cEEEEecCChH-HH-hhcCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChH-HHHH
Q 047559          322 SKIIVTTRHAH-VA-ATMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPL-AAKT  393 (444)
Q Consensus       322 s~iivTTr~~~-va-~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl-ai~~  393 (444)
                      .++|+||++.. +. ...+....++++.++.++..+.+.+.+-..+-...    .+....|++.++|..- ++..
T Consensus       150 v~FILaTtd~~KIp~TIrSRCq~f~Fk~Ls~eeIv~~L~~Il~~EgI~id----~eAL~lIA~~A~GsmRdALsL  220 (830)
T PRK07003        150 VKFILATTDPQKIPVTVLSRCLQFNLKQMPAGHIVSHLERILGEERIAFE----PQALRLLARAAQGSMRDALSL  220 (830)
T ss_pred             eEEEEEECChhhccchhhhheEEEecCCcCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHHHHH
Confidence            88888777643 22 12223367999999999999988876532221112    2334668889988653 4444

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

Probab=98.86  E-value=5.6e-09  Score=91.53  Aligned_cols=51  Identities=22%  Similarity=0.386  Sum_probs=34.3

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccc
Q 047559          185 AVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVE  238 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~  238 (444)
                      .|+||+.+++++...|.....   ...+++.|+|++|+|||+|.+.++......
T Consensus         1 ~fvgR~~e~~~l~~~l~~~~~---~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~   51 (185)
T PF13191_consen    1 QFVGREEEIERLRDLLDAAQS---GSPRNLLLTGESGSGKTSLLRALLDRLAER   51 (185)
T ss_dssp             --TT-HHHHHHHHHTTGGTSS--------EEE-B-TTSSHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHc---CCCcEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            389999999999999952221   445899999999999999999998876544

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=98.85  E-value=1.3e-07  Score=90.17  Aligned_cols=177  Identities=16%  Similarity=0.221  Sum_probs=115.9

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcc----ccccCCcceeEEEEe-CCCCCHHHH
Q 047559          185 AVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDR----AVEDSKFDVKAWVCV-SDDFDVLNI  259 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~----~~~~~~f~~~~wv~v-s~~~~~~~~  259 (444)
                      +++|.+.-++.+..++..+.-     .....++|+.|+||||+|+.++...    .... |+|...|... +....+.+ 
T Consensus         5 ~i~g~~~~~~~l~~~~~~~~~-----~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~-h~D~~~~~~~~~~~i~v~~-   77 (313)
T PRK05564          5 TIIGHENIKNRIKNSIIKNRF-----SHAHIIVGEDGIGKSLLAKEIALKILGKSQQRE-YVDIIEFKPINKKSIGVDD-   77 (313)
T ss_pred             hccCcHHHHHHHHHHHHcCCC-----CceEEeECCCCCCHHHHHHHHHHHHcCCCCCCC-CCCeEEeccccCCCCCHHH-
Confidence            578988889999998865432     2577899999999999999988742    1223 6777666542 22233333 


Q ss_pred             HHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCChHHH-h-hc
Q 047559          260 SRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVA-A-TM  337 (444)
Q Consensus       260 ~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~~va-~-~~  337 (444)
                      .+++.+.+....                ..+++=++|+|+++..+...++.+...+.....++.+|++|.+.+.. . ..
T Consensus        78 ir~~~~~~~~~p----------------~~~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~  141 (313)
T PRK05564         78 IRNIIEEVNKKP----------------YEGDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIK  141 (313)
T ss_pred             HHHHHHHHhcCc----------------ccCCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHH
Confidence            233333332211                12455577788887777778999999998878899999888765422 1 12


Q ss_pred             CCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHH
Q 047559          338 EPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAK  392 (444)
Q Consensus       338 ~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~  392 (444)
                      +....+++.++++++....+.+...   .. .    ...+..++..++|.|.-+.
T Consensus       142 SRc~~~~~~~~~~~~~~~~l~~~~~---~~-~----~~~~~~l~~~~~g~~~~a~  188 (313)
T PRK05564        142 SRCQIYKLNRLSKEEIEKFISYKYN---DI-K----EEEKKSAIAFSDGIPGKVE  188 (313)
T ss_pred             hhceeeeCCCcCHHHHHHHHHHHhc---CC-C----HHHHHHHHHHcCCCHHHHH
Confidence            2336789999999999887765431   11 1    1224567888999886543

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=98.83  E-value=1.1e-07  Score=91.78  Aligned_cols=216  Identities=14%  Similarity=0.075  Sum_probs=115.6

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcc-eeEEEEeCCCCCH-HHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFD-VKAWVCVSDDFDV-LNISR  261 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~-~~~wv~vs~~~~~-~~~~~  261 (444)
                      ..++|++..++.+..++..+      ..+.+.++|++|+||||+|+.+.+...- . .+. ..+.+++++-... ...+.
T Consensus        15 ~~~~g~~~~~~~L~~~~~~~------~~~~lll~Gp~GtGKT~la~~~~~~l~~-~-~~~~~~~~i~~~~~~~~~~~~~~   86 (337)
T PRK12402         15 EDILGQDEVVERLSRAVDSP------NLPHLLVQGPPGSGKTAAVRALARELYG-D-PWENNFTEFNVADFFDQGKKYLV   86 (337)
T ss_pred             HHhcCCHHHHHHHHHHHhCC------CCceEEEECCCCCCHHHHHHHHHHHhcC-c-ccccceEEechhhhhhcchhhhh
Confidence            45889999999998887543      2246889999999999999998876421 1 221 2234444321100 00000


Q ss_pred             ---HHHHHhccC-CCCcccHHHHHHHHHHH---h--CCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCChH
Q 047559          262 ---ALLESITFA-SCDLKALNEVQVQIKRA---V--DGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAH  332 (444)
Q Consensus       262 ---~il~~l~~~-~~~~~~~~~~~~~l~~~---l--~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~~  332 (444)
                         .....+... .......+.....+...   .  .+.+-+|||||++.........+...+......+++|+||....
T Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~  166 (337)
T PRK12402         87 EDPRFAHFLGTDKRIRSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATRQPS  166 (337)
T ss_pred             cCcchhhhhhhhhhhccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCCHHHHHHHHHHHHhccCCCeEEEEeCChh
Confidence               000000000 00000111111112221   1  23445899999977654455556665554445577887775432


Q ss_pred             -HHh-hcCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHHHhc--C-C-CHHHH
Q 047559          333 -VAA-TMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLLR--S-K-RHDEW  406 (444)
Q Consensus       333 -va~-~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~~L~--~-~-~~~~w  406 (444)
                       +.. .......+.+.+++.++...++...+...+-..    ..+....+++.++|.+-.+......+.  . . +.+.-
T Consensus       167 ~~~~~L~sr~~~v~~~~~~~~~~~~~l~~~~~~~~~~~----~~~al~~l~~~~~gdlr~l~~~l~~~~~~~~~It~~~v  242 (337)
T PRK12402        167 KLIPPIRSRCLPLFFRAPTDDELVDVLESIAEAEGVDY----DDDGLELIAYYAGGDLRKAILTLQTAALAAGEITMEAA  242 (337)
T ss_pred             hCchhhcCCceEEEecCCCHHHHHHHHHHHHHHcCCCC----CHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCCCHHHH
Confidence             111 112235688899999999888887653322111    233456688888887766554443322  1 2 55554


Q ss_pred             HHHHh
Q 047559          407 DEILN  411 (444)
Q Consensus       407 ~~~l~  411 (444)
                      ..++.
T Consensus       243 ~~~~~  247 (337)
T PRK12402        243 YEALG  247 (337)
T ss_pred             HHHhC
Confidence            44443

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.81  E-value=1.3e-07  Score=95.41  Aligned_cols=181  Identities=14%  Similarity=0.138  Sum_probs=112.4

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcccccc-----------------------C
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVED-----------------------S  240 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~-----------------------~  240 (444)
                      .++||.+.-++.|.+++..+.-     ...+.++|+.|+||||+|+.+.+...-..                       +
T Consensus        16 ddVIGQe~vv~~L~~al~~gRL-----pHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~~~PCG~C~sC~~I~aG   90 (700)
T PRK12323         16 TTLVGQEHVVRALTHALEQQRL-----HHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGITAQPCGQCRACTEIDAG   90 (700)
T ss_pred             HHHcCcHHHHHHHHHHHHhCCC-----ceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCCCCCCcccHHHHHHHcC
Confidence            3689999999999998875432     25678999999999999999876532100                       0


Q ss_pred             CcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHH----hCCceEEEEEeCCCCCChhcHHHhhcccC
Q 047559          241 KFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRA----VDGKKLLLVLDDVWNEDYCLWEDLKAPFL  316 (444)
Q Consensus       241 ~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~  316 (444)
                      .|...++++.+..                     ...++..+.+...    ..++.-++|||+++..+...++.|...+.
T Consensus        91 ~hpDviEIdAas~---------------------~gVDdIReLie~~~~~P~~gr~KViIIDEah~Ls~~AaNALLKTLE  149 (700)
T PRK12323         91 RFVDYIEMDAASN---------------------RGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLTNHAFNAMLKTLE  149 (700)
T ss_pred             CCCcceEeccccc---------------------CCHHHHHHHHHHHHhchhcCCceEEEEEChHhcCHHHHHHHHHhhc
Confidence            0001112211111                     1122222222221    14556699999999888788888888877


Q ss_pred             CCCCCcEEEEecCC-hHHHh-hcCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHH
Q 047559          317 AAAPNSKIIVTTRH-AHVAA-TMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTL  394 (444)
Q Consensus       317 ~~~~gs~iivTTr~-~~va~-~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~  394 (444)
                      ....++++|++|.+ ..+.. ..+....+.+..++.++..+.+.+.+-......+    .+..+.|++.++|.|.-...+
T Consensus       150 EPP~~v~FILaTtep~kLlpTIrSRCq~f~f~~ls~eei~~~L~~Il~~Egi~~d----~eAL~~IA~~A~Gs~RdALsL  225 (700)
T PRK12323        150 EPPEHVKFILATTDPQKIPVTVLSRCLQFNLKQMPPGHIVSHLDAILGEEGIAHE----VNALRLLAQAAQGSMRDALSL  225 (700)
T ss_pred             cCCCCceEEEEeCChHhhhhHHHHHHHhcccCCCChHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHHHHH
Confidence            65566666665554 44332 2222367899999999999888766532211111    223466899999998755544

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.81  E-value=2.2e-08  Score=100.48  Aligned_cols=198  Identities=16%  Similarity=0.129  Sum_probs=112.1

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRAL  263 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~i  263 (444)
                      .+++|.+.-++.|..++....-     ...+.++|++|+||||+|+.+++...-.+ .+....|.|.+... +.......
T Consensus        14 ~dvvGq~~v~~~L~~~i~~~~l-----~ha~Lf~GppGtGKTTlA~~lA~~l~c~~-~~~~~cg~C~sc~~-i~~~~h~d   86 (504)
T PRK14963         14 DEVVGQEHVKEVLLAALRQGRL-----GHAYLFSGPRGVGKTTTARLIAMAVNCSG-EDPKPCGECESCLA-VRRGAHPD   86 (504)
T ss_pred             HHhcChHHHHHHHHHHHHcCCC-----CeEEEEECCCCCCHHHHHHHHHHHHhccC-CCCCCCCcChhhHH-HhcCCCCc
Confidence            3589999888888888765421     24679999999999999999987643211 12212222211100 00000000


Q ss_pred             HHHhccC-CCCcccHHHHHHHHHHH-hCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCC-hHHHhhc-CC
Q 047559          264 LESITFA-SCDLKALNEVQVQIKRA-VDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRH-AHVAATM-EP  339 (444)
Q Consensus       264 l~~l~~~-~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~-~~va~~~-~~  339 (444)
                      +..+... ......+.++...+... ..+++-+||||+++......++.|...+......+.+|++|.. ..+...+ ..
T Consensus        87 v~el~~~~~~~vd~iR~l~~~~~~~p~~~~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~~~~kl~~~I~SR  166 (504)
T PRK14963         87 VLEIDAASNNSVEDVRDLREKVLLAPLRGGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPPTILSR  166 (504)
T ss_pred             eEEecccccCCHHHHHHHHHHHhhccccCCCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcCChhhCChHHhcc
Confidence            0000000 00111112222222211 1345668999999887767788888887665556666655543 3332222 23


Q ss_pred             CCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHH
Q 047559          340 IQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAK  392 (444)
Q Consensus       340 ~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~  392 (444)
                      ...+++.+++.++....+.+.+...+-..    .++....|++.++|.+--+.
T Consensus       167 c~~~~f~~ls~~el~~~L~~i~~~egi~i----~~~Al~~ia~~s~GdlR~al  215 (504)
T PRK14963        167 TQHFRFRRLTEEEIAGKLRRLLEAEGREA----EPEALQLVARLADGAMRDAE  215 (504)
T ss_pred             eEEEEecCCCHHHHHHHHHHHHHHcCCCC----CHHHHHHHHHHcCCCHHHHH
Confidence            35799999999999999988764322111    22345669999999886553

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.81  E-value=1.7e-07  Score=94.77  Aligned_cols=184  Identities=15%  Similarity=0.121  Sum_probs=112.8

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcccccc------------------CCccee
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVED------------------SKFDVK  245 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~------------------~~f~~~  245 (444)
                      ..++|.+..++.|..++..+.-     ...+.++|+.|+||||+|+.+.+...-..                  +.|.-.
T Consensus        15 ddVIGQe~vv~~L~~aI~~grl-----~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg~C~sC~~I~~g~hpDv   89 (702)
T PRK14960         15 NELVGQNHVSRALSSALERGRL-----HHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCEVCATCKAVNEGRFIDL   89 (702)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCC-----CeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCccCHHHHHHhcCCCCce
Confidence            3689999999999999875422     36789999999999999998876531100                  011111


Q ss_pred             EEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHH-hCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEE
Q 047559          246 AWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRA-VDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKI  324 (444)
Q Consensus       246 ~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~i  324 (444)
                      +.++.+....+                  .++.++...+... ..++.-++|+|+++..+....+.|...+.....+.++
T Consensus        90 iEIDAAs~~~V------------------ddIReli~~~~y~P~~gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~F  151 (702)
T PRK14960         90 IEIDAASRTKV------------------EDTRELLDNVPYAPTQGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKF  151 (702)
T ss_pred             EEecccccCCH------------------HHHHHHHHHHhhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEE
Confidence            11211111111                  1111111111111 2356668999999888777788888877766667778


Q ss_pred             EEecCChH-HH-hhcCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHH
Q 047559          325 IVTTRHAH-VA-ATMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTL  394 (444)
Q Consensus       325 ivTTr~~~-va-~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~  394 (444)
                      |++|.+.. +. ........+++.+++.++....+.+.+-..+-...    ......|++.++|.+-.+..+
T Consensus       152 ILaTtd~~kIp~TIlSRCq~feFkpLs~eEI~k~L~~Il~kEgI~id----~eAL~~IA~~S~GdLRdALnL  219 (702)
T PRK14960        152 LFATTDPQKLPITVISRCLQFTLRPLAVDEITKHLGAILEKEQIAAD----QDAIWQIAESAQGSLRDALSL  219 (702)
T ss_pred             EEEECChHhhhHHHHHhhheeeccCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHHHHH
Confidence            87776532 22 22233467999999999999888776533222222    223456888999987555443

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.80  E-value=1.5e-07  Score=98.13  Aligned_cols=184  Identities=15%  Similarity=0.149  Sum_probs=113.6

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcccccc------------------CCccee
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVED------------------SKFDVK  245 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~------------------~~f~~~  245 (444)
                      ..++|.+.-+..|.+++..+.-     ...+.++|+.|+||||+|+.+++...-..                  +.|.-.
T Consensus        16 ddIIGQe~Iv~~LknaI~~~rl-----~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~sC~~i~~g~~~Dv   90 (944)
T PRK14949         16 EQMVGQSHVLHALTNALTQQRL-----HHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCSSCVEIAQGRFVDL   90 (944)
T ss_pred             HHhcCcHHHHHHHHHHHHhCCC-----CeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCchHHHHHhcCCCceE
Confidence            3589999999999888865322     24568999999999999999987642110                  001111


Q ss_pred             EEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHH-HhCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEE
Q 047559          246 AWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKR-AVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKI  324 (444)
Q Consensus       246 ~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~-~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~i  324 (444)
                      +++..+...                  ....+.++...+.. -..+++-++|||+++......++.|+..+.......++
T Consensus        91 iEidAas~~------------------kVDdIReLie~v~~~P~~gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrF  152 (944)
T PRK14949         91 IEVDAASRT------------------KVDDTRELLDNVQYRPSRGRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKF  152 (944)
T ss_pred             EEecccccc------------------CHHHHHHHHHHHHhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhccCCCeEE
Confidence            222111101                  11112222222221 12467779999999988878888888888766666777


Q ss_pred             EEecCC-hHHHh-hcCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHH
Q 047559          325 IVTTRH-AHVAA-TMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTL  394 (444)
Q Consensus       325 ivTTr~-~~va~-~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~  394 (444)
                      |++|.+ ..+.. .......|++.+|+.++....+.+.+-...-.    .-.+....|++.++|.|--+..+
T Consensus       153 ILaTTe~~kLl~TIlSRCq~f~fkpLs~eEI~~~L~~il~~EgI~----~edeAL~lIA~~S~Gd~R~ALnL  220 (944)
T PRK14949        153 LLATTDPQKLPVTVLSRCLQFNLKSLTQDEIGTQLNHILTQEQLP----FEAEALTLLAKAANGSMRDALSL  220 (944)
T ss_pred             EEECCCchhchHHHHHhheEEeCCCCCHHHHHHHHHHHHHHcCCC----CCHHHHHHHHHHcCCCHHHHHHH
Confidence            666554 33332 22233679999999999999888765322111    12234466899999988654444

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

Probab=98.78  E-value=1.3e-07  Score=87.33  Aligned_cols=158  Identities=16%  Similarity=0.187  Sum_probs=101.1

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHh
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAV  288 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l  288 (444)
                      +.+..+.+||++|+||||||+.+.+.....     ...||..|.......-.+.|+++-..               ...+
T Consensus       160 ~~ipSmIlWGppG~GKTtlArlia~tsk~~-----SyrfvelSAt~a~t~dvR~ife~aq~---------------~~~l  219 (554)
T KOG2028|consen  160 NRIPSMILWGPPGTGKTTLARLIASTSKKH-----SYRFVELSATNAKTNDVRDIFEQAQN---------------EKSL  219 (554)
T ss_pred             CCCCceEEecCCCCchHHHHHHHHhhcCCC-----ceEEEEEeccccchHHHHHHHHHHHH---------------HHhh
Confidence            556789999999999999999999874322     24577777654433334444433211               1234


Q ss_pred             CCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEE--ecCChHHH---hhcCCCCcccCCCCChHhHHHHHHHhhc-
Q 047559          289 DGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIV--TTRHAHVA---ATMEPIQQYNLQCLSDEDCWSLFMMHAF-  362 (444)
Q Consensus       289 ~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiv--TTr~~~va---~~~~~~~~~~l~~L~~~~~~~lf~~~~~-  362 (444)
                      ..+|.+|++|+|+..+..+.+   ..||.-.+|+-++|  ||.++...   ..+....++.|++|..++...++.+..- 
T Consensus       220 ~krkTilFiDEiHRFNksQQD---~fLP~VE~G~I~lIGATTENPSFqln~aLlSRC~VfvLekL~~n~v~~iL~raia~  296 (554)
T KOG2028|consen  220 TKRKTILFIDEIHRFNKSQQD---TFLPHVENGDITLIGATTENPSFQLNAALLSRCRVFVLEKLPVNAVVTILMRAIAS  296 (554)
T ss_pred             hcceeEEEeHHhhhhhhhhhh---cccceeccCceEEEecccCCCccchhHHHHhccceeEeccCCHHHHHHHHHHHHHh
Confidence            678999999999776544433   33555677887776  66665543   2234447899999999999999887432 


Q ss_pred             -cCCC-----CCcc--chHHHHHHHHHHHcCCChH
Q 047559          363 -VGQD-----ITAQ--QISDLFREKVVGKCGGLPL  389 (444)
Q Consensus       363 -~~~~-----~~~~--~~~~~~~~~i~~~~~G~Pl  389 (444)
                       +...     .+.+  .....+..-++..|.|-.-
T Consensus       297 l~dser~~~~l~n~s~~ve~siidyla~lsdGDaR  331 (554)
T KOG2028|consen  297 LGDSERPTDPLPNSSMFVEDSIIDYLAYLSDGDAR  331 (554)
T ss_pred             hccccccCCCCCCcchhhhHHHHHHHHHhcCchHH
Confidence             2211     1111  1344556677788888644

>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=98.77  E-value=7.6e-08  Score=84.40  Aligned_cols=182  Identities=20%  Similarity=0.234  Sum_probs=96.7

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRAL  263 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~i  263 (444)
                      .+|+|.++-+..+.-++...... ...+..+.++|++|+||||||+.+.+....   .|.   +++.+.--..       
T Consensus        24 ~efiGQ~~l~~~l~i~i~aa~~r-~~~l~h~lf~GPPG~GKTTLA~IIA~e~~~---~~~---~~sg~~i~k~-------   89 (233)
T PF05496_consen   24 DEFIGQEHLKGNLKILIRAAKKR-GEALDHMLFYGPPGLGKTTLARIIANELGV---NFK---ITSGPAIEKA-------   89 (233)
T ss_dssp             CCS-S-HHHHHHHHHHHHHHHCT-TS---EEEEESSTTSSHHHHHHHHHHHCT-----EE---EEECCC--SC-------
T ss_pred             HHccCcHHHHhhhHHHHHHHHhc-CCCcceEEEECCCccchhHHHHHHHhccCC---CeE---eccchhhhhH-------
Confidence            46999998888765544321111 145678999999999999999999987432   331   2322110001       


Q ss_pred             HHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCC--------CCC-----------cEE
Q 047559          264 LESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAA--------APN-----------SKI  324 (444)
Q Consensus       264 l~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~--------~~g-----------s~i  324 (444)
                                    .++...+.+ + +++-+|++|+++..+...-+.|..++.++        +.+           +-|
T Consensus        90 --------------~dl~~il~~-l-~~~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~FTli  153 (233)
T PF05496_consen   90 --------------GDLAAILTN-L-KEGDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARSIRINLPPFTLI  153 (233)
T ss_dssp             --------------HHHHHHHHT----TT-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE----EEE
T ss_pred             --------------HHHHHHHHh-c-CCCcEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccceeeccCCCceEe
Confidence                          111111111 2 24557888999887655444444433221        111           223


Q ss_pred             EEecCChHHHhhcCCC-C-cccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHHHhc
Q 047559          325 IVTTRHAHVAATMEPI-Q-QYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLLR  399 (444)
Q Consensus       325 ivTTr~~~va~~~~~~-~-~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~~L~  399 (444)
                      =.|||...+...+..- . +.+++..+.+|-..+..+.+-.-    .-+..++.+.+|++.|.|-|--..-+....+
T Consensus       154 gATTr~g~ls~pLrdRFgi~~~l~~Y~~~el~~Iv~r~a~~l----~i~i~~~~~~~Ia~rsrGtPRiAnrll~rvr  226 (233)
T PF05496_consen  154 GATTRAGLLSSPLRDRFGIVLRLEFYSEEELAKIVKRSARIL----NIEIDEDAAEEIARRSRGTPRIANRLLRRVR  226 (233)
T ss_dssp             EEESSGCCTSHCCCTTSSEEEE----THHHHHHHHHHCCHCT----T-EE-HHHHHHHHHCTTTSHHHHHHHHHHHC
T ss_pred             eeeccccccchhHHhhcceecchhcCCHHHHHHHHHHHHHHh----CCCcCHHHHHHHHHhcCCChHHHHHHHHHHH
Confidence            3577765554433332 2 34799999999999998765321    2233455678899999999987666655443

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.

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

Probab=98.74  E-value=1.4e-06  Score=83.99  Aligned_cols=205  Identities=14%  Similarity=0.170  Sum_probs=130.3

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHH
Q 047559          185 AVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALL  264 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il  264 (444)
                      .+.+|+.+++++...|...-.++  ...-+.|+|.+|+|||+.++.+.+.........+ .++|++-...+.-+++..|+
T Consensus        18 ~l~~Re~ei~~l~~~l~~~~~~~--~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~-~~yINc~~~~t~~~i~~~i~   94 (366)
T COG1474          18 ELPHREEEINQLASFLAPALRGE--RPSNIIIYGPTGTGKTATVKFVMEELEESSANVE-VVYINCLELRTPYQVLSKIL   94 (366)
T ss_pred             cccccHHHHHHHHHHHHHHhcCC--CCccEEEECCCCCCHhHHHHHHHHHHHhhhccCc-eEEEeeeeCCCHHHHHHHHH
Confidence            48899999999998876633222  1223899999999999999999988644321122 78999999999999999999


Q ss_pred             HHhccCCCCcccHHHHHHHHHHHh--CCceEEEEEeCCCCCChhcHHHhhcccCCC-CCCcEE--EEecCChHHHhhc--
Q 047559          265 ESITFASCDLKALNEVQVQIKRAV--DGKKLLLVLDDVWNEDYCLWEDLKAPFLAA-APNSKI--IVTTRHAHVAATM--  337 (444)
Q Consensus       265 ~~l~~~~~~~~~~~~~~~~l~~~l--~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~-~~gs~i--ivTTr~~~va~~~--  337 (444)
                      +.++..........+....+.+.+  .++.++||||+++......-+.+...+... ...++|  |..+.+..+...+  
T Consensus        95 ~~~~~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~~~~LY~L~r~~~~~~~~v~vi~i~n~~~~~~~ld~  174 (366)
T COG1474          95 NKLGKVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDGEVLYSLLRAPGENKVKVSIIAVSNDDKFLDYLDP  174 (366)
T ss_pred             HHcCCCCCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhccccchHHHHHHhhccccceeEEEEEEeccHHHHHHhhh
Confidence            999754444455566666777766  467899999999664222112222222221 124443  3344444333222  


Q ss_pred             ------CCCCcccCCCCChHhHHHHHHHhhccC--CCCCccchHHHHHHHHHHHcCCChHHHHH
Q 047559          338 ------EPIQQYNLQCLSDEDCWSLFMMHAFVG--QDITAQQISDLFREKVVGKCGGLPLAAKT  393 (444)
Q Consensus       338 ------~~~~~~~l~~L~~~~~~~lf~~~~~~~--~~~~~~~~~~~~~~~i~~~~~G~Plai~~  393 (444)
                            +. ..+...|-+.+|-..++..++-.+  .....+..++.++...++..|-.=.|+..
T Consensus       175 rv~s~l~~-~~I~F~pY~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aidi  237 (366)
T COG1474         175 RVKSSLGP-SEIVFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDI  237 (366)
T ss_pred             hhhhccCc-ceeeeCCCCHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHH
Confidence                  22 337788999999999999887432  22333445555555444444433344433

>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=98.73  E-value=1.2e-07  Score=79.31  Aligned_cols=125  Identities=19%  Similarity=0.159  Sum_probs=71.9

Q ss_pred             cccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHH
Q 047559          187 FGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLES  266 (444)
Q Consensus       187 vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~  266 (444)
                      +|++..+..+...+....      ...+.|+|++|+|||+|++.+++...  . .-...+++..+...........+...
T Consensus         1 ~~~~~~~~~i~~~~~~~~------~~~v~i~G~~G~GKT~l~~~i~~~~~--~-~~~~v~~~~~~~~~~~~~~~~~~~~~   71 (151)
T cd00009           1 VGQEEAIEALREALELPP------PKNLLLYGPPGTGKTTLARAIANELF--R-PGAPFLYLNASDLLEGLVVAELFGHF   71 (151)
T ss_pred             CchHHHHHHHHHHHhCCC------CCeEEEECCCCCCHHHHHHHHHHHhh--c-CCCCeEEEehhhhhhhhHHHHHhhhh
Confidence            377888888888875532      26899999999999999999998753  1 22345666655433322211111000


Q ss_pred             hccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCC------CCCcEEEEecCChH
Q 047559          267 ITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAA------APNSKIIVTTRHAH  332 (444)
Q Consensus       267 l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~------~~gs~iivTTr~~~  332 (444)
                                  ............++.+|++||++.........+...+...      ..+..||+||....
T Consensus        72 ------------~~~~~~~~~~~~~~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~~  131 (151)
T cd00009          72 ------------LVRLLFELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRPL  131 (151)
T ss_pred             ------------hHhHHHHhhccCCCeEEEEeChhhhhHHHHHHHHHHHHhcCceeccCCCeEEEEecCccc
Confidence                        0011112223456789999999754222222232222221      35778888887543

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.

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=98.73  E-value=5.8e-07  Score=91.88  Aligned_cols=199  Identities=17%  Similarity=0.163  Sum_probs=129.3

Q ss_pred             CCcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCC-CCHHHHHH
Q 047559          183 ERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDD-FDVLNISR  261 (444)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~-~~~~~~~~  261 (444)
                      +...+-|.    .+++.|...     .+.+.+.|.-|+|.|||||+-+.....  .  .-..+.|.+++.. .++..++.
T Consensus        18 ~~~~v~R~----rL~~~L~~~-----~~~RL~li~APAGfGKttl~aq~~~~~--~--~~~~v~Wlslde~dndp~rF~~   84 (894)
T COG2909          18 PDNYVVRP----RLLDRLRRA-----NDYRLILISAPAGFGKTTLLAQWRELA--A--DGAAVAWLSLDESDNDPARFLS   84 (894)
T ss_pred             cccccccH----HHHHHHhcC-----CCceEEEEeCCCCCcHHHHHHHHHHhc--C--cccceeEeecCCccCCHHHHHH
Confidence            34455555    445555432     456999999999999999999997632  1  2357899998764 67888899


Q ss_pred             HHHHHhccCCCC-------------cccHHHHHHHHHHHhC--CceEEEEEeCCCCCChhcHH-HhhcccCCCCCCcEEE
Q 047559          262 ALLESITFASCD-------------LKALNEVQVQIKRAVD--GKKLLLVLDDVWNEDYCLWE-DLKAPFLAAAPNSKII  325 (444)
Q Consensus       262 ~il~~l~~~~~~-------------~~~~~~~~~~l~~~l~--~kr~LlVlDdv~~~~~~~~~-~l~~~l~~~~~gs~ii  325 (444)
                      .++..+..-.+.             ..++..+...+..-+.  .++.++||||.+-......+ .+...+...+.+-..|
T Consensus        85 yLi~al~~~~p~~~~~a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~P~~l~lv  164 (894)
T COG2909          85 YLIAALQQATPTLGDEAQTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLKHAPENLTLV  164 (894)
T ss_pred             HHHHHHHHhCccccHHHHHHHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHHhCCCCeEEE
Confidence            999888744332             1233344444444442  45799999998664323333 3444455567788999


Q ss_pred             EecCChHHHhhcC---CCCcccC----CCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHHHh
Q 047559          326 VTTRHAHVAATME---PIQQYNL----QCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLL  398 (444)
Q Consensus       326 vTTr~~~va~~~~---~~~~~~l----~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~~L  398 (444)
                      ||||+..-.....   ....+++    =.|+.+|+-++|....-   .    +..+.-.+.+.+..+|-+-|+..++=.+
T Consensus       165 v~SR~rP~l~la~lRlr~~llEi~~~~Lrf~~eE~~~fl~~~~~---l----~Ld~~~~~~L~~~teGW~~al~L~aLa~  237 (894)
T COG2909         165 VTSRSRPQLGLARLRLRDELLEIGSEELRFDTEEAAAFLNDRGS---L----PLDAADLKALYDRTEGWAAALQLIALAL  237 (894)
T ss_pred             EEeccCCCCcccceeehhhHHhcChHhhcCChHHHHHHHHHcCC---C----CCChHHHHHHHhhcccHHHHHHHHHHHc
Confidence            9999764322111   1122222    24789999999986631   1    1122234679999999999999998888


Q ss_pred             cCC
Q 047559          399 RSK  401 (444)
Q Consensus       399 ~~~  401 (444)
                      +.+
T Consensus       238 ~~~  240 (894)
T COG2909         238 RNN  240 (894)
T ss_pred             cCC
Confidence            844

>PF13173 AAA_14: AAA domain

Probab=98.72  E-value=5.7e-08  Score=79.67  Aligned_cols=119  Identities=22%  Similarity=0.244  Sum_probs=78.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGK  291 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  291 (444)
                      +++.|.|+.|+|||||+++++.+..    .....++++..+........                .+ ....+.+....+
T Consensus         3 ~~~~l~G~R~vGKTtll~~~~~~~~----~~~~~~yi~~~~~~~~~~~~----------------~~-~~~~~~~~~~~~   61 (128)
T PF13173_consen    3 KIIILTGPRGVGKTTLLKQLAKDLL----PPENILYINFDDPRDRRLAD----------------PD-LLEYFLELIKPG   61 (128)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhc----ccccceeeccCCHHHHHHhh----------------hh-hHHHHHHhhccC
Confidence            6899999999999999999997742    12456777665532211000                00 122333333347


Q ss_pred             eEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCChHHHhhc------CCCCcccCCCCChHhH
Q 047559          292 KLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAATM------EPIQQYNLQCLSDEDC  353 (444)
Q Consensus       292 r~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~~va~~~------~~~~~~~l~~L~~~~~  353 (444)
                      +.+|+||++...  ..|......+.+.....+|++|+........-      +....+++.||+-.|.
T Consensus        62 ~~~i~iDEiq~~--~~~~~~lk~l~d~~~~~~ii~tgS~~~~l~~~~~~~l~gr~~~~~l~Plsf~E~  127 (128)
T PF13173_consen   62 KKYIFIDEIQYL--PDWEDALKFLVDNGPNIKIILTGSSSSLLSKDIAESLAGRVIEIELYPLSFREF  127 (128)
T ss_pred             CcEEEEehhhhh--ccHHHHHHHHHHhccCceEEEEccchHHHhhcccccCCCeEEEEEECCCCHHHh
Confidence            788999999665  46877777777666678999999877665321      1224578888887663

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.72  E-value=5.1e-07  Score=91.00  Aligned_cols=179  Identities=18%  Similarity=0.161  Sum_probs=108.6

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcccccc------------------CCccee
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVED------------------SKFDVK  245 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~------------------~~f~~~  245 (444)
                      ..++|.+..+..|...+....     -...+.++|+.|+||||+|+.+++...-..                  +.|...
T Consensus        16 ~diiGq~~~v~~L~~~i~~~r-----l~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~~~~~dl   90 (546)
T PRK14957         16 AEVAGQQHALNSLVHALETQK-----VHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINNNSFIDL   90 (546)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhcCCCCce
Confidence            358999999999998886532     124678999999999999999986431100                  011122


Q ss_pred             EEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHH-hCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEE
Q 047559          246 AWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRA-VDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKI  324 (444)
Q Consensus       246 ~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~i  324 (444)
                      +++.......+                  .+...+...+... ..+++-++|+|+++..+...++.|...+......+.+
T Consensus        91 ieidaas~~gv------------------d~ir~ii~~~~~~p~~g~~kViIIDEa~~ls~~a~naLLK~LEepp~~v~f  152 (546)
T PRK14957         91 IEIDAASRTGV------------------EETKEILDNIQYMPSQGRYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKF  152 (546)
T ss_pred             EEeecccccCH------------------HHHHHHHHHHHhhhhcCCcEEEEEechhhccHHHHHHHHHHHhcCCCCceE
Confidence            22222111111                  1122222222211 2456679999999887777788888888766666766


Q ss_pred             EEecCC-hHHHhh-cCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChH
Q 047559          325 IVTTRH-AHVAAT-MEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPL  389 (444)
Q Consensus       325 ivTTr~-~~va~~-~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl  389 (444)
                      |++|.+ ..+... ......+++.+++.++....+.+.+-..+ ..   ..+.....|++.++|.+-
T Consensus       153 IL~Ttd~~kil~tI~SRc~~~~f~~Ls~~eI~~~L~~il~~eg-i~---~e~~Al~~Ia~~s~GdlR  215 (546)
T PRK14957        153 ILATTDYHKIPVTILSRCIQLHLKHISQADIKDQLKIILAKEN-IN---SDEQSLEYIAYHAKGSLR  215 (546)
T ss_pred             EEEECChhhhhhhHHHheeeEEeCCCCHHHHHHHHHHHHHHcC-CC---CCHHHHHHHHHHcCCCHH
Confidence            655543 333322 23346789999999998887776542221 11   122334568888998765

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=98.71  E-value=6.8e-07  Score=85.62  Aligned_cols=184  Identities=15%  Similarity=0.098  Sum_probs=106.6

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEe--CCCCCHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCV--SDDFDVLNISR  261 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~v--s~~~~~~~~~~  261 (444)
                      .+++|++..++.+..++...      ..+.+.|+|++|+||||+|+.+.+.....  .+.. .++.+  +...... ...
T Consensus        17 ~~~~g~~~~~~~l~~~i~~~------~~~~~ll~G~~G~GKt~~~~~l~~~l~~~--~~~~-~~i~~~~~~~~~~~-~~~   86 (319)
T PRK00440         17 DEIVGQEEIVERLKSYVKEK------NMPHLLFAGPPGTGKTTAALALARELYGE--DWRE-NFLELNASDERGID-VIR   86 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhCC------CCCeEEEECCCCCCHHHHHHHHHHHHcCC--cccc-ceEEeccccccchH-HHH
Confidence            35889999999999888542      22457999999999999999998764221  1111 12222  2221111 111


Q ss_pred             HHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCChH-HH-hhcCC
Q 047559          262 ALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAH-VA-ATMEP  339 (444)
Q Consensus       262 ~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~~-va-~~~~~  339 (444)
                      ..+..+....+              .....+-+|++|+++......+..+...+......+.+|+++.... +. .....
T Consensus        87 ~~i~~~~~~~~--------------~~~~~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~l~sr  152 (319)
T PRK00440         87 NKIKEFARTAP--------------VGGAPFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQSR  152 (319)
T ss_pred             HHHHHHHhcCC--------------CCCCCceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeCCccccchhHHHH
Confidence            11111111000              0012356899999977655555666666655455667777764321 11 11122


Q ss_pred             CCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHH
Q 047559          340 IQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLG  395 (444)
Q Consensus       340 ~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~  395 (444)
                      ...+++.+++.++....+...+....-...    +.....+++.++|.+--+....
T Consensus       153 ~~~~~~~~l~~~ei~~~l~~~~~~~~~~i~----~~al~~l~~~~~gd~r~~~~~l  204 (319)
T PRK00440        153 CAVFRFSPLKKEAVAERLRYIAENEGIEIT----DDALEAIYYVSEGDMRKAINAL  204 (319)
T ss_pred             hheeeeCCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHHHHHH
Confidence            346889999999998888876643221122    2345668889999877644433

>PLN03025 replication factor C subunit; Provisional

Probab=98.71  E-value=4.6e-07  Score=86.55  Aligned_cols=185  Identities=12%  Similarity=0.122  Sum_probs=106.3

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcc-eeEEEEeCCCCCHHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFD-VKAWVCVSDDFDVLNISRA  262 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~-~~~wv~vs~~~~~~~~~~~  262 (444)
                      ..++|.++.+..|..++...      ....+.++|++|+||||+|+.+.+...- . .|. ..+-++.++.... +.++.
T Consensus        13 ~~~~g~~~~~~~L~~~~~~~------~~~~lll~Gp~G~GKTtla~~la~~l~~-~-~~~~~~~eln~sd~~~~-~~vr~   83 (319)
T PLN03025         13 DDIVGNEDAVSRLQVIARDG------NMPNLILSGPPGTGKTTSILALAHELLG-P-NYKEAVLELNASDDRGI-DVVRN   83 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhcC------CCceEEEECCCCCCHHHHHHHHHHHHhc-c-cCccceeeecccccccH-HHHHH
Confidence            35789888888887776532      2245779999999999999999876311 1 221 1112222222221 12222


Q ss_pred             HHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCChH-HHh-hcCCC
Q 047559          263 LLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAH-VAA-TMEPI  340 (444)
Q Consensus       263 il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~~-va~-~~~~~  340 (444)
                      ++..+......             ...++.-+++||+++.......+.+...+......+++|+++.... +.. .....
T Consensus        84 ~i~~~~~~~~~-------------~~~~~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~L~SRc  150 (319)
T PLN03025         84 KIKMFAQKKVT-------------LPPGRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSRC  150 (319)
T ss_pred             HHHHHHhcccc-------------CCCCCeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCCccccchhHHHhh
Confidence            22221110000             0024566999999988766666666666654455677777765432 111 11122


Q ss_pred             CcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHH
Q 047559          341 QQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTL  394 (444)
Q Consensus       341 ~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~  394 (444)
                      ..+++.++++++....+...+-..+-...    .+....|++.++|..-.+...
T Consensus       151 ~~i~f~~l~~~~l~~~L~~i~~~egi~i~----~~~l~~i~~~~~gDlR~aln~  200 (319)
T PLN03025        151 AIVRFSRLSDQEILGRLMKVVEAEKVPYV----PEGLEAIIFTADGDMRQALNN  200 (319)
T ss_pred             hcccCCCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHHHHH
Confidence            57899999999999888776633222222    233466888898876544433

>PTZ00202 tuzin; Provisional

Probab=98.71  E-value=1.9e-07  Score=89.42  Aligned_cols=169  Identities=14%  Similarity=0.208  Sum_probs=100.0

Q ss_pred             CCCCCcCCcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCH
Q 047559          177 TSSVSTERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDV  256 (444)
Q Consensus       177 ~~~~~~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~  256 (444)
                      ...+.+.+.|+||+.++..+...|...+.   ...+++.|+|++|+|||||++.+....     ++ . .++.  +..+.
T Consensus       255 ~~lPa~~~~FVGReaEla~Lr~VL~~~d~---~~privvLtG~~G~GKTTLlR~~~~~l-----~~-~-qL~v--Nprg~  322 (550)
T PTZ00202        255 QSAPAVIRQFVSREAEESWVRQVLRRLDT---AHPRIVVFTGFRGCGKSSLCRSAVRKE-----GM-P-AVFV--DVRGT  322 (550)
T ss_pred             cCCCCCccCCCCcHHHHHHHHHHHhccCC---CCceEEEEECCCCCCHHHHHHHHHhcC-----Cc-e-EEEE--CCCCH
Confidence            33445677899999999999998865333   233699999999999999999998653     21 1 2222  22267


Q ss_pred             HHHHHHHHHHhccCCCCcccHHHHHHHHHHHh-----C-CceEEEEEeCCCCCC-hhcHHHhhcccCCCCCCcEEEEecC
Q 047559          257 LNISRALLESITFASCDLKALNEVQVQIKRAV-----D-GKKLLLVLDDVWNED-YCLWEDLKAPFLAAAPNSKIIVTTR  329 (444)
Q Consensus       257 ~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l-----~-~kr~LlVlDdv~~~~-~~~~~~l~~~l~~~~~gs~iivTTr  329 (444)
                      .++++.++.+++....  ....++...|.+.+     . +++.+||+-==.-.+ ..-+++.. .|.....-|.|++---
T Consensus       323 eElLr~LL~ALGV~p~--~~k~dLLrqIqeaLl~~~~e~GrtPVLII~lreg~~l~rvyne~v-~la~drr~ch~v~evp  399 (550)
T PTZ00202        323 EDTLRSVVKALGVPNV--EACGDLLDFISEACRRAKKMNGETPLLVLKLREGSSLQRVYNEVV-ALACDRRLCHVVIEVP  399 (550)
T ss_pred             HHHHHHHHHHcCCCCc--ccHHHHHHHHHHHHHHHHHhCCCCEEEEEEecCCCcHHHHHHHHH-HHHccchhheeeeeeh
Confidence            9999999999997332  22233334443333     3 667776654221111 01122221 2233344566665433


Q ss_pred             ChHHH--hh-cCCCCcccCCCCChHhHHHHHHHh
Q 047559          330 HAHVA--AT-MEPIQQYNLQCLSDEDCWSLFMMH  360 (444)
Q Consensus       330 ~~~va--~~-~~~~~~~~l~~L~~~~~~~lf~~~  360 (444)
                      .+.+.  +. +.....|-+..++.+++..+..+.
T Consensus       400 leslt~~~~~lprldf~~vp~fsr~qaf~y~~h~  433 (550)
T PTZ00202        400 LESLTIANTLLPRLDFYLVPNFSRSQAFAYTQHA  433 (550)
T ss_pred             HhhcchhcccCccceeEecCCCCHHHHHHHHhhc
Confidence            22221  11 112256788888888888776554

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=98.70  E-value=8.6e-07  Score=88.79  Aligned_cols=197  Identities=18%  Similarity=0.171  Sum_probs=112.8

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcc-eeEEEEeCCCCCHHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFD-VKAWVCVSDDFDVLNISRA  262 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~-~~~wv~vs~~~~~~~~~~~  262 (444)
                      .+++|.+.-+..|...+..+.     -...+.++|+.|+||||+|+.+++...-.. ... ...+..+....+    ...
T Consensus        21 ~dliGq~~vv~~L~~ai~~~r-----i~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~-~~~~~~~~~~C~~C~~----C~~   90 (507)
T PRK06645         21 AELQGQEVLVKVLSYTILNDR-----LAGGYLLTGIRGVGKTTSARIIAKAVNCSA-LITENTTIKTCEQCTN----CIS   90 (507)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCceEEEECCCCCCHHHHHHHHHHHhcCcc-ccccCcCcCCCCCChH----HHH
Confidence            358999998888888775532     225789999999999999999987532110 000 000000000000    000


Q ss_pred             HHHH-------hcc-CCCCcccHHHHHHHHHHH-hCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEE-ecCChH
Q 047559          263 LLES-------ITF-ASCDLKALNEVQVQIKRA-VDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIV-TTRHAH  332 (444)
Q Consensus       263 il~~-------l~~-~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiv-TTr~~~  332 (444)
                      +...       +.. +.....++.++....... +.+++-++|+|+++......|+.|...+......+.+|+ ||+...
T Consensus        91 i~~~~h~Dv~eidaas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aTte~~k  170 (507)
T PRK06645         91 FNNHNHPDIIEIDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQK  170 (507)
T ss_pred             HhcCCCCcEEEeeccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEeCChHH
Confidence            0000       000 000111122222221111 245677899999998877788888888876666666665 444444


Q ss_pred             HHhhc-CCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHH
Q 047559          333 VAATM-EPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTL  394 (444)
Q Consensus       333 va~~~-~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~  394 (444)
                      +...+ .....+++.+++.++....+.+.+-..+....    .+....|++.++|.+--+...
T Consensus       171 I~~tI~SRc~~~ef~~ls~~el~~~L~~i~~~egi~ie----~eAL~~Ia~~s~GslR~al~~  229 (507)
T PRK06645        171 IPATIISRCQRYDLRRLSFEEIFKLLEYITKQENLKTD----IEALRIIAYKSEGSARDAVSI  229 (507)
T ss_pred             hhHHHHhcceEEEccCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHHHHH
Confidence            44332 23356899999999999999887743322122    223456888999987555443

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=98.69  E-value=1.1e-06  Score=85.40  Aligned_cols=184  Identities=18%  Similarity=0.186  Sum_probs=110.3

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcccccc-------------------CCcce
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVED-------------------SKFDV  244 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~-------------------~~f~~  244 (444)
                      ..++|.+..++.+..++....     -...+.++|++|+||||+|+.+.....-..                   .+++.
T Consensus        14 ~~iig~~~~~~~l~~~~~~~~-----~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~~~   88 (355)
T TIGR02397        14 EDVIGQEHIVQTLKNAIKNGR-----IAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEINSGSSLDV   88 (355)
T ss_pred             hhccCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCCE
Confidence            358999999999999886532     225788999999999999988875531110                   01222


Q ss_pred             eEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHH-hCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcE
Q 047559          245 KAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRA-VDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSK  323 (444)
Q Consensus       245 ~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~  323 (444)
                       +++..+..... +                 +...+...+... ..+++-++|+|++........+.+...+......+.
T Consensus        89 -~~~~~~~~~~~-~-----------------~~~~l~~~~~~~p~~~~~~vviidea~~l~~~~~~~Ll~~le~~~~~~~  149 (355)
T TIGR02397        89 -IEIDAASNNGV-D-----------------DIREILDNVKYAPSSGKYKVYIIDEVHMLSKSAFNALLKTLEEPPEHVV  149 (355)
T ss_pred             -EEeeccccCCH-H-----------------HHHHHHHHHhcCcccCCceEEEEeChhhcCHHHHHHHHHHHhCCcccee
Confidence             22222111111 1                 111122221111 124455889999976655567777777755556677


Q ss_pred             EEEecCChH-HHh-hcCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHH
Q 047559          324 IIVTTRHAH-VAA-TMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLG  395 (444)
Q Consensus       324 iivTTr~~~-va~-~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~  395 (444)
                      +|++|.+.. +.. .......+++.++++++...++...+-..+...    .++....+++.++|.|..+....
T Consensus       150 lIl~~~~~~~l~~~l~sr~~~~~~~~~~~~~l~~~l~~~~~~~g~~i----~~~a~~~l~~~~~g~~~~a~~~l  219 (355)
T TIGR02397       150 FILATTEPHKIPATILSRCQRFDFKRIPLEDIVERLKKILDKEGIKI----EDEALELIARAADGSLRDALSLL  219 (355)
T ss_pred             EEEEeCCHHHHHHHHHhheeEEEcCCCCHHHHHHHHHHHHHHcCCCC----CHHHHHHHHHHcCCChHHHHHHH
Confidence            777765543 222 222335688899999999888887653322111    12445678899999987665554

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.

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.69  E-value=3.4e-07  Score=89.97  Aligned_cols=199  Identities=14%  Similarity=0.080  Sum_probs=114.0

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRAL  263 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~i  263 (444)
                      ..++|.+.-+..|..++....-     ...+.++|+.|+||||+|+.+.+...-.  +...  ...+.....-..+....
T Consensus        18 ~dvVGQe~iv~~L~~~i~~~ri-----~ha~Lf~GP~GtGKTTlAriLAk~Lnce--~~~~--~~pCg~C~sC~~i~~g~   88 (484)
T PRK14956         18 RDVIHQDLAIGALQNALKSGKI-----GHAYIFFGPRGVGKTTIARILAKRLNCE--NPIG--NEPCNECTSCLEITKGI   88 (484)
T ss_pred             HHHhChHHHHHHHHHHHHcCCC-----CeEEEEECCCCCCHHHHHHHHHHhcCcc--cccC--ccccCCCcHHHHHHccC
Confidence            3589999999998888865421     2468999999999999999998753211  1100  00111111111111111


Q ss_pred             HHHhc---c-CCCCcccHHHHHHHHHHH-hCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCC-hHHHh-h
Q 047559          264 LESIT---F-ASCDLKALNEVQVQIKRA-VDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRH-AHVAA-T  336 (444)
Q Consensus       264 l~~l~---~-~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~-~~va~-~  336 (444)
                      ...+.   . ......++.++...+... ..++.-++|+|+++..+...++.|...+........+|++|.. ..+.. .
T Consensus        89 ~~dviEIdaas~~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~kI~~TI  168 (484)
T PRK14956         89 SSDVLEIDAASNRGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHKIPETI  168 (484)
T ss_pred             CccceeechhhcccHHHHHHHHHHHHhhhhcCCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChhhccHHH
Confidence            00000   0 001112222333333222 2456669999999988888888888877655555665555543 33322 2


Q ss_pred             cCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHH
Q 047559          337 MEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLG  395 (444)
Q Consensus       337 ~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~  395 (444)
                      ......|.+.+++.++..+.+.+.+-..+-..    .++....|++.++|.+--...+.
T Consensus       169 ~SRCq~~~f~~ls~~~i~~~L~~i~~~Egi~~----e~eAL~~Ia~~S~Gd~RdAL~lL  223 (484)
T PRK14956        169 LSRCQDFIFKKVPLSVLQDYSEKLCKIENVQY----DQEGLFWIAKKGDGSVRDMLSFM  223 (484)
T ss_pred             HhhhheeeecCCCHHHHHHHHHHHHHHcCCCC----CHHHHHHHHHHcCChHHHHHHHH
Confidence            22335689999999998888877653322111    23345679999999985544443

>COG3899 Predicted ATPase [General function prediction only]

Probab=98.69  E-value=1.7e-07  Score=100.09  Aligned_cols=209  Identities=18%  Similarity=0.190  Sum_probs=122.8

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCC---HHHHHH
Q 047559          185 AVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFD---VLNISR  261 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~---~~~~~~  261 (444)
                      +++||+.|++.|...+.....   ....++.+.|..|||||+|++.|.....-..+.|-...+-....+..   ..+.++
T Consensus         1 ~l~GRe~ev~~Ll~~f~~v~~---g~~~~~lv~G~sGIGKsalv~ev~~~i~~~~~~~i~~~f~q~~~~ipl~~lvq~~r   77 (849)
T COG3899           1 PLYGRETELAQLLAAFDRVSK---GRGEVVLVAGESGIGKSALVNEVHKPITQQRGYFIKGKFDQFERNIPLSPLVQAFR   77 (849)
T ss_pred             CCCchHhHHHHHHHHHHHHhC---CCeEEEEEeecCCCcHHHHHHHHHHHHhccceeeeHhhcccccCCCchHHHHHHHH
Confidence            378999999999999876544   34469999999999999999999876322211121111111222221   223444


Q ss_pred             HHHHHhccCC-------------------CC----------------------cccHH-----HHHHHHHHHh-CCceEE
Q 047559          262 ALLESITFAS-------------------CD----------------------LKALN-----EVQVQIKRAV-DGKKLL  294 (444)
Q Consensus       262 ~il~~l~~~~-------------------~~----------------------~~~~~-----~~~~~l~~~l-~~kr~L  294 (444)
                      +++.++....                   ..                      ....+     ..+..+.... +.++.+
T Consensus        78 ~l~~~ll~~~~~~~~~~~~~il~~~g~~~~~~~~vip~L~~i~g~~~~~~el~~~~~~~r~n~~~~~~i~~~~~~~~plV  157 (849)
T COG3899          78 DLMGQLLSESDTRILSWRARLLAALGENGQVIIDVIPELELIIGKRPPALELSPTAAQNRFNLAFLRFIQVFTAEEHPLV  157 (849)
T ss_pred             HHHHHHhhccchHHHHHHHHHHHHhcccchhHHhhhHHHHhhcCCCcchhhcccchhHHHHHHHHHHHHHHHHhccCCeE
Confidence            4444431110                   00                      00000     1122233333 456999


Q ss_pred             EEEeCCCCCChhcHHHhhcccCCCCC----CcEEE--EecCCh--HHHhhcCCCCcccCCCCChHhHHHHHHHhhccCCC
Q 047559          295 LVLDDVWNEDYCLWEDLKAPFLAAAP----NSKII--VTTRHA--HVAATMEPIQQYNLQCLSDEDCWSLFMMHAFVGQD  366 (444)
Q Consensus       295 lVlDdv~~~~~~~~~~l~~~l~~~~~----gs~ii--vTTr~~--~va~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~  366 (444)
                      +|+||+++.|....+-|.........    ...|.  .|.+..  .+-........+.|.||+..+...+......... 
T Consensus       158 i~leDlhWaD~~SL~lL~~lm~~~~~~~~~~n~v~~~h~~~~~~~~~~~~~~~i~~I~L~PL~~~d~~~lV~~~l~~~~-  236 (849)
T COG3899         158 IVLEDLHWADSASLKLLQLLMDRIAIGAYRDNEVLLLHPLRPTLGEILKSATNITTITLAPLSRADTNQLVAATLGCTK-  236 (849)
T ss_pred             EEEecccccChhHHHHHHHHHHhcchhhhhccccccCCCccchhhHHhhcCCceeEEecCcCchhhHHHHHHHHhCCcc-
Confidence            99999988877666655444332211    11222  222322  1112223346799999999999999987753211 


Q ss_pred             CCccchHHHHHHHHHHHcCCChHHHHHHHHHhcCC
Q 047559          367 ITAQQISDLFREKVVGKCGGLPLAAKTLGGLLRSK  401 (444)
Q Consensus       367 ~~~~~~~~~~~~~i~~~~~G~Plai~~~~~~L~~~  401 (444)
                          ....+....|+++..|+|+-+..+-..|..+
T Consensus       237 ----~~~~p~~~~i~~kt~GnPfFi~e~lk~l~~~  267 (849)
T COG3899         237 ----LLPAPLLELIFEKTKGNPFFIEEFLKALYEE  267 (849)
T ss_pred             ----cccchHHHHHHHHhcCCCccHHHHHHHHHhC
Confidence                2223345679999999999999998888764

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=98.68  E-value=4.9e-07  Score=92.31  Aligned_cols=185  Identities=15%  Similarity=0.146  Sum_probs=110.7

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcccccc------------------CCccee
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVED------------------SKFDVK  245 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~------------------~~f~~~  245 (444)
                      .+++|.+..+..|..++....     -...+.++|+.|+||||+|+.+.+...-..                  +.|...
T Consensus        16 ddIIGQe~vv~~L~~ai~~~r-----l~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~~~pCg~C~sCr~i~~g~~~Dv   90 (709)
T PRK08691         16 ADLVGQEHVVKALQNALDEGR-----LHHAYLLTGTRGVGKTTIARILAKSLNCENAQHGEPCGVCQSCTQIDAGRYVDL   90 (709)
T ss_pred             HHHcCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCcHHHHHHHHHHHhcccCCCCCCCCcccHHHHHHhccCccce
Confidence            368999999999999887542     125789999999999999998876521110                  001011


Q ss_pred             EEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHH-hCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEE
Q 047559          246 AWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRA-VDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKI  324 (444)
Q Consensus       246 ~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~i  324 (444)
                      +.++.+....+                  ..+.++...+... ..+++-++|||+++..+....+.|...+......+++
T Consensus        91 lEidaAs~~gV------------------d~IRelle~a~~~P~~gk~KVIIIDEad~Ls~~A~NALLKtLEEPp~~v~f  152 (709)
T PRK08691         91 LEIDAASNTGI------------------DNIREVLENAQYAPTAGKYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKF  152 (709)
T ss_pred             EEEeccccCCH------------------HHHHHHHHHHHhhhhhCCcEEEEEECccccCHHHHHHHHHHHHhCCCCcEE
Confidence            11211111111                  1111222111111 1356668999999877666677777777655556677


Q ss_pred             EEecCChH-HHh-hcCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHH
Q 047559          325 IVTTRHAH-VAA-TMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLG  395 (444)
Q Consensus       325 ivTTr~~~-va~-~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~  395 (444)
                      |++|.+.. +.. ..+....+.+.+++.++....+.+.+-..+-..    .......|++.++|.+.-+..+.
T Consensus       153 ILaTtd~~kL~~TIrSRC~~f~f~~Ls~eeI~~~L~~Il~kEgi~i----d~eAL~~Ia~~A~GslRdAlnLL  221 (709)
T PRK08691        153 ILATTDPHKVPVTVLSRCLQFVLRNMTAQQVADHLAHVLDSEKIAY----EPPALQLLGRAAAGSMRDALSLL  221 (709)
T ss_pred             EEEeCCccccchHHHHHHhhhhcCCCCHHHHHHHHHHHHHHcCCCc----CHHHHHHHHHHhCCCHHHHHHHH
Confidence            77765432 221 112225688999999999998887663322111    22344679999999986555544

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.67  E-value=7.1e-07  Score=91.14  Aligned_cols=198  Identities=14%  Similarity=0.144  Sum_probs=110.8

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccC-CcceeEEEEeCCCCCHHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDS-KFDVKAWVCVSDDFDVLNISRA  262 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~-~f~~~~wv~vs~~~~~~~~~~~  262 (444)
                      .+++|.+.-+..|.+++....-     ...+.++|+.|+||||+|+.+.+...-... .......-.++.    -...+.
T Consensus        16 ~dviGQe~vv~~L~~~l~~~rl-----~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~~pCg~----C~~C~~   86 (618)
T PRK14951         16 SEMVGQEHVVQALTNALTQQRL-----HHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITATPCGV----CQACRD   86 (618)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCC-----CeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCCCCCCc----cHHHHH
Confidence            3588988888888888865432     256789999999999999998654210000 000000000000    011111


Q ss_pred             HHHHh-----ccCCCCcccHHHHHHHHHHH----hCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCC-hH
Q 047559          263 LLESI-----TFASCDLKALNEVQVQIKRA----VDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRH-AH  332 (444)
Q Consensus       263 il~~l-----~~~~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~-~~  332 (444)
                      |...-     ..........++..+.+...    ..++.-++|||+++..+...++.+...+......+++|++|.+ ..
T Consensus        87 i~~g~h~D~~eldaas~~~Vd~iReli~~~~~~p~~g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~Ttd~~k  166 (618)
T PRK14951         87 IDSGRFVDYTELDAASNRGVDEVQQLLEQAVYKPVQGRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTDPQK  166 (618)
T ss_pred             HHcCCCCceeecCcccccCHHHHHHHHHHHHhCcccCCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEECCchh
Confidence            10000     00000011122222222111    1244558999999998888888888888766666677666543 33


Q ss_pred             HH-hhcCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHH
Q 047559          333 VA-ATMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTL  394 (444)
Q Consensus       333 va-~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~  394 (444)
                      +. ........+++++++.++....+.+.+-..+-...    ......|++.++|.+--+..+
T Consensus       167 il~TIlSRc~~~~f~~Ls~eei~~~L~~i~~~egi~ie----~~AL~~La~~s~GslR~al~l  225 (618)
T PRK14951        167 VPVTVLSRCLQFNLRPMAPETVLEHLTQVLAAENVPAE----PQALRLLARAARGSMRDALSL  225 (618)
T ss_pred             hhHHHHHhceeeecCCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHHHHH
Confidence            33 22233467999999999998888776533221111    233466888999987655554

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=98.67  E-value=5.1e-07  Score=92.42  Aligned_cols=195  Identities=16%  Similarity=0.144  Sum_probs=112.8

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRAL  263 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~i  263 (444)
                      ..++|.+.-+..|...+....-     ...+.++|+.|+||||+|+.+.+...-.. .+.       +.++..-...+.|
T Consensus        16 ~divGQe~vv~~L~~~l~~~rl-----~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~-~~~-------~~pCg~C~~C~~i   82 (647)
T PRK07994         16 AEVVGQEHVLTALANALDLGRL-----HHAYLFSGTRGVGKTTIARLLAKGLNCET-GIT-------ATPCGECDNCREI   82 (647)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCC-----CeEEEEECCCCCCHHHHHHHHHHhhhhcc-CCC-------CCCCCCCHHHHHH
Confidence            3589999999999888865321     24578999999999999999876531110 000       0000000111111


Q ss_pred             HHH-------hccC-CCCcccHHHHHHHHHHH-hCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCC-hHH
Q 047559          264 LES-------ITFA-SCDLKALNEVQVQIKRA-VDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRH-AHV  333 (444)
Q Consensus       264 l~~-------l~~~-~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~-~~v  333 (444)
                      ...       +... .....++.++...+... ..++.-++|||+++..+....+.|...+.......++|++|.+ ..+
T Consensus        83 ~~g~~~D~ieidaas~~~VddiR~li~~~~~~p~~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~kL  162 (647)
T PRK07994         83 EQGRFVDLIEIDAASRTKVEDTRELLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKL  162 (647)
T ss_pred             HcCCCCCceeecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCcccc
Confidence            100       0000 00111122222222211 2466779999999988877888888888766666666665554 333


Q ss_pred             Hh-hcCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHH
Q 047559          334 AA-TMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLG  395 (444)
Q Consensus       334 a~-~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~  395 (444)
                      .. ..+....+++.+++.++....+.+.+-.......    +.....|++.++|.+--+..+.
T Consensus       163 l~TI~SRC~~~~f~~Ls~~ei~~~L~~il~~e~i~~e----~~aL~~Ia~~s~Gs~R~Al~ll  221 (647)
T PRK07994        163 PVTILSRCLQFHLKALDVEQIRQQLEHILQAEQIPFE----PRALQLLARAADGSMRDALSLT  221 (647)
T ss_pred             chHHHhhheEeeCCCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHHHHHH
Confidence            32 2233467999999999999888776522211111    2334568889999887554443

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.66  E-value=9e-07  Score=87.97  Aligned_cols=185  Identities=18%  Similarity=0.187  Sum_probs=112.7

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccc------------------cccCCccee
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRA------------------VEDSKFDVK  245 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~------------------~~~~~f~~~  245 (444)
                      .+++|.+.-++.+.+.+..+.-     ...+.++|+.|+||||+|+.+.....                  +..+.+.-+
T Consensus        13 ~dliGQe~vv~~L~~a~~~~ri-----~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~Dv   87 (491)
T PRK14964         13 KDLVGQDVLVRILRNAFTLNKI-----PQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHPDV   87 (491)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCC-----CceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCCCE
Confidence            3589999888888887754321     24789999999999999998875310                  000011122


Q ss_pred             EEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEE
Q 047559          246 AWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKII  325 (444)
Q Consensus       246 ~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ii  325 (444)
                      +.++.+....+.+ .+.++......                -+.++.-++|+|+++..+....+.|...+......+++|
T Consensus        88 ~eidaas~~~vdd-IR~Iie~~~~~----------------P~~~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~fI  150 (491)
T PRK14964         88 IEIDAASNTSVDD-IKVILENSCYL----------------PISSKFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFI  150 (491)
T ss_pred             EEEecccCCCHHH-HHHHHHHHHhc----------------cccCCceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEEE
Confidence            3333332222222 12222221100                013456689999998877777888888887766777777


Q ss_pred             EecCC-hHHHhh-cCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHH
Q 047559          326 VTTRH-AHVAAT-MEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTL  394 (444)
Q Consensus       326 vTTr~-~~va~~-~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~  394 (444)
                      ++|.. ..+... ......+++.+++.++....+.+.+...+....    ++....|++.++|.+-.+...
T Consensus       151 latte~~Kl~~tI~SRc~~~~f~~l~~~el~~~L~~ia~~Egi~i~----~eAL~lIa~~s~GslR~alsl  217 (491)
T PRK14964        151 LATTEVKKIPVTIISRCQRFDLQKIPTDKLVEHLVDIAKKENIEHD----EESLKLIAENSSGSMRNALFL  217 (491)
T ss_pred             EEeCChHHHHHHHHHhheeeecccccHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHHHHH
Confidence            66643 344332 233467899999999998888876643222222    233456888999987654443

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.66  E-value=8.3e-07  Score=89.42  Aligned_cols=186  Identities=17%  Similarity=0.144  Sum_probs=111.6

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcccccc------------------CCccee
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVED------------------SKFDVK  245 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~------------------~~f~~~  245 (444)
                      .+++|.+.-+..|..++....-     ...+.++|+.|+||||+|+.+.+...-..                  +.|.-.
T Consensus        16 ~divGq~~v~~~L~~~~~~~~l-----~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~g~~~d~   90 (509)
T PRK14958         16 QEVIGQAPVVRALSNALDQQYL-----HHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENCREIDEGRFPDL   90 (509)
T ss_pred             HHhcCCHHHHHHHHHHHHhCCC-----CeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHHHHhcCCCceE
Confidence            3589999999999999865432     24678999999999999998876431110                  011112


Q ss_pred             EEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEE
Q 047559          246 AWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKII  325 (444)
Q Consensus       246 ~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ii  325 (444)
                      +.+..+....+.++ +.++..+...                -..++.-++|+|+++..+....+.+...+......+++|
T Consensus        91 ~eidaas~~~v~~i-R~l~~~~~~~----------------p~~~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~fI  153 (509)
T PRK14958         91 FEVDAASRTKVEDT-RELLDNIPYA----------------PTKGRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFI  153 (509)
T ss_pred             EEEcccccCCHHHH-HHHHHHHhhc----------------cccCCcEEEEEEChHhcCHHHHHHHHHHHhccCCCeEEE
Confidence            22322222222211 1222211110                113556689999999887778888888877666677777


Q ss_pred             EecCCh-HHHh-hcCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHH
Q 047559          326 VTTRHA-HVAA-TMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLG  395 (444)
Q Consensus       326 vTTr~~-~va~-~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~  395 (444)
                      ++|.+. .+.. ..+....+++.+++.++....+.+.+-..+-...    ......|++.++|.+.-+..+.
T Consensus       154 lattd~~kl~~tI~SRc~~~~f~~l~~~~i~~~l~~il~~egi~~~----~~al~~ia~~s~GslR~al~lL  221 (509)
T PRK14958        154 LATTDHHKLPVTVLSRCLQFHLAQLPPLQIAAHCQHLLKEENVEFE----NAALDLLARAANGSVRDALSLL  221 (509)
T ss_pred             EEECChHhchHHHHHHhhhhhcCCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCcHHHHHHHH
Confidence            766543 3221 2223356889999999887776655432221111    2234568889999886555443

>PRK08727 hypothetical protein; Validated

Probab=98.65  E-value=9.9e-07  Score=80.17  Aligned_cols=151  Identities=16%  Similarity=0.089  Sum_probs=89.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGK  291 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  291 (444)
                      ..+.|+|.+|+|||+|++.+++....   ....+.|+++.+      ....+.                 ..+. .+ .+
T Consensus        42 ~~l~l~G~~G~GKThL~~a~~~~~~~---~~~~~~y~~~~~------~~~~~~-----------------~~~~-~l-~~   93 (233)
T PRK08727         42 DWLYLSGPAGTGKTHLALALCAAAEQ---AGRSSAYLPLQA------AAGRLR-----------------DALE-AL-EG   93 (233)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHH---cCCcEEEEeHHH------hhhhHH-----------------HHHH-HH-hc
Confidence            46999999999999999999876432   222445665322      111111                 0111 11 12


Q ss_pred             eEEEEEeCCCCCC-hhcHHH-hhcccCC-CCCCcEEEEecCCh---------HHHhhcCCCCcccCCCCChHhHHHHHHH
Q 047559          292 KLLLVLDDVWNED-YCLWED-LKAPFLA-AAPNSKIIVTTRHA---------HVAATMEPIQQYNLQCLSDEDCWSLFMM  359 (444)
Q Consensus       292 r~LlVlDdv~~~~-~~~~~~-l~~~l~~-~~~gs~iivTTr~~---------~va~~~~~~~~~~l~~L~~~~~~~lf~~  359 (444)
                      .-+|||||+.... ...|.. +...+.. ...|..||+|++..         ++...+.....+++++++.++-.+++.+
T Consensus        94 ~dlLiIDDi~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~~~p~~l~~~~~dL~SRl~~~~~~~l~~~~~e~~~~iL~~  173 (233)
T PRK08727         94 RSLVALDGLESIAGQREDEVALFDFHNRARAAGITLLYTARQMPDGLALVLPDLRSRLAQCIRIGLPVLDDVARAAVLRE  173 (233)
T ss_pred             CCEEEEeCcccccCChHHHHHHHHHHHHHHHcCCeEEEECCCChhhhhhhhHHHHHHHhcCceEEecCCCHHHHHHHHHH
Confidence            3589999996532 123433 2222221 23466799999842         2223333446789999999999999998


Q ss_pred             hhccCCCCCccchHHHHHHHHHHHcCCChHHHHHH
Q 047559          360 HAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTL  394 (444)
Q Consensus       360 ~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~  394 (444)
                      ++.... .   ...++...-|++.++|-.-.+..+
T Consensus       174 ~a~~~~-l---~l~~e~~~~La~~~~rd~r~~l~~  204 (233)
T PRK08727        174 RAQRRG-L---ALDEAAIDWLLTHGERELAGLVAL  204 (233)
T ss_pred             HHHHcC-C---CCCHHHHHHHHHhCCCCHHHHHHH
Confidence            764322 1   122344566888888776665433

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=98.64  E-value=1.8e-06  Score=83.42  Aligned_cols=194  Identities=16%  Similarity=0.136  Sum_probs=113.6

Q ss_pred             CCcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccC-Ccc------eeEEEEeCCCCC
Q 047559          183 ERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDS-KFD------VKAWVCVSDDFD  255 (444)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~-~f~------~~~wv~vs~~~~  255 (444)
                      -..++|.+..+..+.+.+..+.-     ...+.++|+.|+||+|+|..+.+..--... ...      ...-+  .... 
T Consensus        18 ~~~iiGq~~~~~~L~~~~~~~rl-----~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~~l~~--~~~c-   89 (365)
T PRK07471         18 TTALFGHAAAEAALLDAYRSGRL-----HHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPTSLAI--DPDH-   89 (365)
T ss_pred             hhhccChHHHHHHHHHHHHcCCC-----CceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccccccccC--CCCC-
Confidence            35689999999999998876432     247899999999999999887654310000 000      00000  0000 


Q ss_pred             HHHHHHHHHHHhccC-------C-C------CcccHHHHHHHHHHHh-----CCceEEEEEeCCCCCChhcHHHhhcccC
Q 047559          256 VLNISRALLESITFA-------S-C------DLKALNEVQVQIKRAV-----DGKKLLLVLDDVWNEDYCLWEDLKAPFL  316 (444)
Q Consensus       256 ~~~~~~~il~~l~~~-------~-~------~~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~  316 (444)
                        ...+.+...-...       . .      ..-.+++ +..+.+++     .+.+-++|+|+++..+....+.|...+.
T Consensus        90 --~~c~~i~~~~HPDl~~i~~~~~~~~~~~~~~I~Vdq-iR~l~~~~~~~~~~~~~kVviIDead~m~~~aanaLLK~LE  166 (365)
T PRK07471         90 --PVARRIAAGAHGGLLTLERSWNEKGKRLRTVITVDE-VRELISFFGLTAAEGGWRVVIVDTADEMNANAANALLKVLE  166 (365)
T ss_pred             --hHHHHHHccCCCCeEEEecccccccccccccccHHH-HHHHHHHhCcCcccCCCEEEEEechHhcCHHHHHHHHHHHh
Confidence              0111111000000       0 0      0112233 22333333     2456799999998888888888888887


Q ss_pred             CCCCCcEEEEecCChH-HHhh-cCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHH
Q 047559          317 AAAPNSKIIVTTRHAH-VAAT-MEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTL  394 (444)
Q Consensus       317 ~~~~gs~iivTTr~~~-va~~-~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~  394 (444)
                      ....++.+|++|.+.. +... .+....+.+.+++.++..+++......   . ..   .. ...++..++|.|+....+
T Consensus       167 epp~~~~~IL~t~~~~~llpti~SRc~~i~l~~l~~~~i~~~L~~~~~~---~-~~---~~-~~~l~~~s~Gsp~~Al~l  238 (365)
T PRK07471        167 EPPARSLFLLVSHAPARLLPTIRSRCRKLRLRPLAPEDVIDALAAAGPD---L-PD---DP-RAALAALAEGSVGRALRL  238 (365)
T ss_pred             cCCCCeEEEEEECCchhchHHhhccceEEECCCCCHHHHHHHHHHhccc---C-CH---HH-HHHHHHHcCCCHHHHHHH
Confidence            6666677777776653 3222 233367999999999999998765311   1 11   11 156889999999866554


Q ss_pred             H
Q 047559          395 G  395 (444)
Q Consensus       395 ~  395 (444)
                      .
T Consensus       239 l  239 (365)
T PRK07471        239 A  239 (365)
T ss_pred             h
Confidence            3

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

Probab=98.64  E-value=7.1e-08  Score=87.84  Aligned_cols=89  Identities=24%  Similarity=0.253  Sum_probs=63.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCC--CCHHHHHHHHHHHhccCCCCcccHH------HHHHH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDD--FDVLNISRALLESITFASCDLKALN------EVQVQ  283 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~--~~~~~~~~~il~~l~~~~~~~~~~~------~~~~~  283 (444)
                      ..+.|+|++|+|||||++.++++....  +|+..+|+.++..  +++.++++.+...+-....+.+...      .....
T Consensus        17 qr~~I~G~~G~GKTTLlr~I~n~l~~~--~fdv~~~v~vI~er~~ev~el~~~I~~~~v~~~~~~~~~~~~~~~~~~~~~   94 (249)
T cd01128          17 QRGLIVAPPKAGKTTLLQSIANAITKN--HPEVYLIVLLIDERPEEVTDMQRSVKGEVIASTFDEPPERHVQVAEMVLEK   94 (249)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhccccc--cCCeEEEEEEccCCCccHHHHHHHhccEEEEecCCCCHHHHHHHHHHHHHH
Confidence            689999999999999999999986443  7999999997776  7999999998544433322222111      22222


Q ss_pred             HHHH-hCCceEEEEEeCCCC
Q 047559          284 IKRA-VDGKKLLLVLDDVWN  302 (444)
Q Consensus       284 l~~~-l~~kr~LlVlDdv~~  302 (444)
                      ...+ -.+++++|++|++..
T Consensus        95 a~~~~~~G~~vll~iDei~r  114 (249)
T cd01128          95 AKRLVEHGKDVVILLDSITR  114 (249)
T ss_pred             HHHHHHCCCCEEEEEECHHH
Confidence            3222 258999999999954

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.

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=98.64  E-value=8.2e-07  Score=91.72  Aligned_cols=202  Identities=17%  Similarity=0.158  Sum_probs=118.5

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCc---ceeEEEEeCCC---CCHHH
Q 047559          185 AVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKF---DVKAWVCVSDD---FDVLN  258 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f---~~~~wv~vs~~---~~~~~  258 (444)
                      .++|+...+..+...+...      ....+.|+|++|+||||||+.+++...... .+   ...-|+.+...   .+...
T Consensus       155 ~iiGqs~~~~~l~~~ia~~------~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~-~~~~~~~~~fv~i~~~~l~~d~~~  227 (615)
T TIGR02903       155 EIVGQERAIKALLAKVASP------FPQHIILYGPPGVGKTTAARLALEEAKKLK-HTPFAEDAPFVEVDGTTLRWDPRE  227 (615)
T ss_pred             hceeCcHHHHHHHHHHhcC------CCCeEEEECCCCCCHHHHHHHHHHhhhhcc-CCcccCCCCeEEEechhccCCHHH
Confidence            5889999999888877432      235799999999999999999987653322 22   12345544321   12222


Q ss_pred             HHHHH---------------HHHhccCCC----------------Cccc-HHHHHHHHHHHhCCceEEEEEeCCCCCChh
Q 047559          259 ISRAL---------------LESITFASC----------------DLKA-LNEVQVQIKRAVDGKKLLLVLDDVWNEDYC  306 (444)
Q Consensus       259 ~~~~i---------------l~~l~~~~~----------------~~~~-~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~  306 (444)
                      +...+               +...+....                +... ....+..+.+.+.+++++++-|+.|..+..
T Consensus       228 i~~~llg~~~~~~~~~a~~~l~~~gl~~~~~g~v~~asgGvL~LDEi~~Ld~~~Q~~Ll~~Le~~~v~~~~~~~~~~~~~  307 (615)
T TIGR02903       228 VTNPLLGSVHDPIYQGARRDLAETGVPEPKTGLVTDAHGGVLFIDEIGELDPLLQNKLLKVLEDKRVEFSSSYYDPDDPN  307 (615)
T ss_pred             HhHHhcCCccHHHHHHHHHHHHHcCCCchhcCchhhcCCCeEEEeccccCCHHHHHHHHHHHhhCeEEeecceeccCCcc
Confidence            21111               111110000                0111 123567788888889999998888877767


Q ss_pred             cHHHhhcccCCCCCCcEEEE--ecCChHH-Hhh-cCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHH
Q 047559          307 LWEDLKAPFLAAAPNSKIIV--TTRHAHV-AAT-MEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVG  382 (444)
Q Consensus       307 ~~~~l~~~l~~~~~gs~iiv--TTr~~~v-a~~-~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~  382 (444)
                      .|+.+...+....+...|++  ||++... ... ......+.+.+++.++.+.++.+.+-.. ....   .+++.+.|.+
T Consensus       308 ~~~~ik~~~~~~~~~~~VLI~aTt~~~~~l~~aLrSR~~~i~~~pls~edi~~Il~~~a~~~-~v~l---s~eal~~L~~  383 (615)
T TIGR02903       308 VPKYIKKLFEEGAPADFVLIGATTRDPEEINPALRSRCAEVFFEPLTPEDIALIVLNAAEKI-NVHL---AAGVEELIAR  383 (615)
T ss_pred             cchhhhhhcccCccceEEEEEeccccccccCHHHHhceeEEEeCCCCHHHHHHHHHHHHHHc-CCCC---CHHHHHHHHH
Confidence            78888776665555555555  5554321 111 1122457889999999999999876322 1111   1233445555


Q ss_pred             HcCCChHHHHHHHHH
Q 047559          383 KCGGLPLAAKTLGGL  397 (444)
Q Consensus       383 ~~~G~Plai~~~~~~  397 (444)
                      .+..-+-++..++..
T Consensus       384 ys~~gRraln~L~~~  398 (615)
T TIGR02903       384 YTIEGRKAVNILADV  398 (615)
T ss_pred             CCCcHHHHHHHHHHH
Confidence            555556666666443

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.

>PRK04195 replication factor C large subunit; Provisional

Probab=98.63  E-value=8.2e-07  Score=89.66  Aligned_cols=186  Identities=16%  Similarity=0.123  Sum_probs=109.2

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRAL  263 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~i  263 (444)
                      ..++|++..++.+..|+.....+  ...+.+.|+|++|+||||+|+.+++..     .|+. +-++.++..+ ...+..+
T Consensus        14 ~dlvg~~~~~~~l~~~l~~~~~g--~~~~~lLL~GppG~GKTtla~ala~el-----~~~~-ielnasd~r~-~~~i~~~   84 (482)
T PRK04195         14 SDVVGNEKAKEQLREWIESWLKG--KPKKALLLYGPPGVGKTSLAHALANDY-----GWEV-IELNASDQRT-ADVIERV   84 (482)
T ss_pred             HHhcCCHHHHHHHHHHHHHHhcC--CCCCeEEEECCCCCCHHHHHHHHHHHc-----CCCE-EEEccccccc-HHHHHHH
Confidence            45899999999999998653221  225789999999999999999999874     2222 2334443222 2223333


Q ss_pred             HHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCCh----hcHHHhhcccCCCCCCcEEEEecCChH-HHh--h
Q 047559          264 LESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDY----CLWEDLKAPFLAAAPNSKIIVTTRHAH-VAA--T  336 (444)
Q Consensus       264 l~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~----~~~~~l~~~l~~~~~gs~iivTTr~~~-va~--~  336 (444)
                      +.......              .....++-+||||+++....    ..+..+...+..  .+..||+|+.+.. ...  .
T Consensus        85 i~~~~~~~--------------sl~~~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~~--~~~~iIli~n~~~~~~~k~L  148 (482)
T PRK04195         85 AGEAATSG--------------SLFGARRKLILLDEVDGIHGNEDRGGARAILELIKK--AKQPIILTANDPYDPSLREL  148 (482)
T ss_pred             HHHhhccC--------------cccCCCCeEEEEecCcccccccchhHHHHHHHHHHc--CCCCEEEeccCccccchhhH
Confidence            32221110              00113677999999976532    234555555442  2345666664321 111  1


Q ss_pred             cCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHHHh
Q 047559          337 MEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLL  398 (444)
Q Consensus       337 ~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~~L  398 (444)
                      -.....+.+.+++.++....+.+.+...+-...    ..+...|++.++|..-.+......+
T Consensus       149 rsr~~~I~f~~~~~~~i~~~L~~i~~~egi~i~----~eaL~~Ia~~s~GDlR~ain~Lq~~  206 (482)
T PRK04195        149 RNACLMIEFKRLSTRSIVPVLKRICRKEGIECD----DEALKEIAERSGGDLRSAINDLQAI  206 (482)
T ss_pred             hccceEEEecCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            122356889999999998888776643322222    2344668888888766655444333

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=98.62  E-value=1.3e-06  Score=88.23  Aligned_cols=191  Identities=14%  Similarity=0.150  Sum_probs=106.9

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRAL  263 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~i  263 (444)
                      ..++|++..++.+...+..+..     ...+.++|+.|+||||+|+.+.+...-.       -|.... ++..-...+.+
T Consensus        16 ~dIIGQe~iv~~L~~aI~~~rl-----~hA~Lf~GP~GvGKTTlA~~lAk~L~C~-------~~~~~~-~Cg~C~sCr~i   82 (605)
T PRK05896         16 KQIIGQELIKKILVNAILNNKL-----THAYIFSGPRGIGKTSIAKIFAKAINCL-------NPKDGD-CCNSCSVCESI   82 (605)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCC-----CceEEEECCCCCCHHHHHHHHHHHhcCC-------CCCCCC-CCcccHHHHHH
Confidence            3589999999999998865422     2578899999999999999987653111       111100 01111111111


Q ss_pred             HHHhc-------cC-CCCcccHHHHHHHHHHH-hCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecC-ChHH
Q 047559          264 LESIT-------FA-SCDLKALNEVQVQIKRA-VDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTR-HAHV  333 (444)
Q Consensus       264 l~~l~-------~~-~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr-~~~v  333 (444)
                      .....       .. ......+..+...+... ..+++-++|+|+++..+...++.|...+......+.+|++|. ...+
T Consensus        83 ~~~~h~DiieIdaas~igVd~IReIi~~~~~~P~~~~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfIL~Tt~~~KL  162 (605)
T PRK05896         83 NTNQSVDIVELDAASNNGVDEIRNIIDNINYLPTTFKYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATTEFQKI  162 (605)
T ss_pred             HcCCCCceEEeccccccCHHHHHHHHHHHHhchhhCCcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEEEECCChHhh
Confidence            11000       00 00001111222111111 123344699999988776778888887766555666665554 3333


Q ss_pred             Hh-hcCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHH
Q 047559          334 AA-TMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAA  391 (444)
Q Consensus       334 a~-~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai  391 (444)
                      .. .......+++.++++++....+...+-..+....    ...+..+++.++|.+--+
T Consensus       163 l~TI~SRcq~ieF~~Ls~~eL~~~L~~il~kegi~Is----~eal~~La~lS~GdlR~A  217 (605)
T PRK05896        163 PLTIISRCQRYNFKKLNNSELQELLKSIAKKEKIKIE----DNAIDKIADLADGSLRDG  217 (605)
T ss_pred             hHHHHhhhhhcccCCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCcHHHH
Confidence            32 2233467899999999998888776532211111    223466888999976533

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.61  E-value=1.5e-06  Score=86.76  Aligned_cols=201  Identities=17%  Similarity=0.162  Sum_probs=113.6

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccC------------------Cccee
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDS------------------KFDVK  245 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~------------------~f~~~  245 (444)
                      .+++|.+.-...|...+..+.     -...+.++|++|+||||+|+.+.+...-...                  .+...
T Consensus        14 ~divGq~~i~~~L~~~i~~~~-----l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i~~g~~~dv   88 (472)
T PRK14962         14 SEVVGQDHVKKLIINALKKNS-----ISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSIDEGTFMDV   88 (472)
T ss_pred             HHccCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHHhcCCCCcc
Confidence            358999888787777765432     1246899999999999999999765321100                  00011


Q ss_pred             EEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHH-HhCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEE
Q 047559          246 AWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKR-AVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKI  324 (444)
Q Consensus       246 ~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~-~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~i  324 (444)
                      ..++.+......++ +.+.                 ..+.. -..+++-++|+|+++.......+.+...+........+
T Consensus        89 ~el~aa~~~gid~i-R~i~-----------------~~~~~~p~~~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~~vv~  150 (472)
T PRK14962         89 IELDAASNRGIDEI-RKIR-----------------DAVGYRPMEGKYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVF  150 (472)
T ss_pred             EEEeCcccCCHHHH-HHHH-----------------HHHhhChhcCCeEEEEEEChHHhHHHHHHHHHHHHHhCCCcEEE
Confidence            12222111111111 1111                 11111 12345679999999776555566677766554444555


Q ss_pred             EEecCC-hHHHhh-cCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCC-ChHHHHHHHHHhc--
Q 047559          325 IVTTRH-AHVAAT-MEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGG-LPLAAKTLGGLLR--  399 (444)
Q Consensus       325 ivTTr~-~~va~~-~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G-~Plai~~~~~~L~--  399 (444)
                      |++|.+ ..+... ......+.+.+++.++....+...+....-...    ++....|++.++| ++.++..+-.+..  
T Consensus       151 Ilattn~~kl~~~L~SR~~vv~f~~l~~~el~~~L~~i~~~egi~i~----~eal~~Ia~~s~GdlR~aln~Le~l~~~~  226 (472)
T PRK14962        151 VLATTNLEKVPPTIISRCQVIEFRNISDELIIKRLQEVAEAEGIEID----REALSFIAKRASGGLRDALTMLEQVWKFS  226 (472)
T ss_pred             EEEeCChHhhhHHHhcCcEEEEECCccHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHhCCCHHHHHHHHHHHHHhc
Confidence            544443 333332 233467899999999998888876643221222    2334568887765 4666666655432  


Q ss_pred             -CC-CHHHHHHHHh
Q 047559          400 -SK-RHDEWDEILN  411 (444)
Q Consensus       400 -~~-~~~~w~~~l~  411 (444)
                       .. +.+....++.
T Consensus       227 ~~~It~e~V~~~l~  240 (472)
T PRK14962        227 EGKITLETVHEALG  240 (472)
T ss_pred             CCCCCHHHHHHHHc
Confidence             22 6666666554

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=98.59  E-value=2.6e-06  Score=74.85  Aligned_cols=91  Identities=19%  Similarity=0.219  Sum_probs=64.1

Q ss_pred             CceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCCh-HHHhh-cCCCCcccCCCCChHhHHHHHHHhhccCCCC
Q 047559          290 GKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHA-HVAAT-MEPIQQYNLQCLSDEDCWSLFMMHAFVGQDI  367 (444)
Q Consensus       290 ~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~-~va~~-~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~  367 (444)
                      +.+-++|+||++..+...++.+...+......+.+|++|++. .+... ......+.+.+++.++..+.+.+.  +   .
T Consensus        95 ~~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~i~sr~~~~~~~~~~~~~~~~~l~~~--g---i  169 (188)
T TIGR00678        95 SGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPTIRSRCQVLPFPPLSEEALLQWLIRQ--G---I  169 (188)
T ss_pred             CCeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhChHHHHhhcEEeeCCCCCHHHHHHHHHHc--C---C
Confidence            456689999998877667888888887666667777777653 22211 123367999999999999888776  1   1


Q ss_pred             CccchHHHHHHHHHHHcCCChHH
Q 047559          368 TAQQISDLFREKVVGKCGGLPLA  390 (444)
Q Consensus       368 ~~~~~~~~~~~~i~~~~~G~Pla  390 (444)
                       .    ++.+..|++.++|.|..
T Consensus       170 -~----~~~~~~i~~~~~g~~r~  187 (188)
T TIGR00678       170 -S----EEAAELLLALAGGSPGA  187 (188)
T ss_pred             -C----HHHHHHHHHHcCCCccc
Confidence             1    23457799999998853

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.

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=98.59  E-value=1.1e-06  Score=79.85  Aligned_cols=174  Identities=18%  Similarity=0.114  Sum_probs=96.7

Q ss_pred             ccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHH
Q 047559          186 VFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLE  265 (444)
Q Consensus       186 ~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~  265 (444)
                      +.|..++....+..+....    .....+.|+|.+|+|||+||+.+++.....+   ....+++.....      ..   
T Consensus        21 ~~~~~~~~~~~l~~~~~~~----~~~~~~~l~G~~G~GKT~La~ai~~~~~~~~---~~~~~i~~~~~~------~~---   84 (227)
T PRK08903         21 VAGENAELVARLRELAAGP----VADRFFYLWGEAGSGRSHLLQALVADASYGG---RNARYLDAASPL------LA---   84 (227)
T ss_pred             ccCCcHHHHHHHHHHHhcc----CCCCeEEEECCCCCCHHHHHHHHHHHHHhCC---CcEEEEehHHhH------HH---
Confidence            3455554444444433211    2236789999999999999999998642221   133444433211      00   


Q ss_pred             HhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCC-CCCCc-EEEEecCChHHHh--------
Q 047559          266 SITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLA-AAPNS-KIIVTTRHAHVAA--------  335 (444)
Q Consensus       266 ~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~-~~~gs-~iivTTr~~~va~--------  335 (444)
                       +                  ... ...-+||+||++..+...-..+...+.. ...+. .+|+|++......        
T Consensus        85 -~------------------~~~-~~~~~liiDdi~~l~~~~~~~L~~~~~~~~~~~~~~vl~~~~~~~~~~~l~~~L~s  144 (227)
T PRK08903         85 -F------------------DFD-PEAELYAVDDVERLDDAQQIALFNLFNRVRAHGQGALLVAGPAAPLALPLREDLRT  144 (227)
T ss_pred             -H------------------hhc-ccCCEEEEeChhhcCchHHHHHHHHHHHHHHcCCcEEEEeCCCCHHhCCCCHHHHH
Confidence             0                  011 2334789999976543333334444432 12344 4666666433221        


Q ss_pred             hcCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHHHhc
Q 047559          336 TMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLLR  399 (444)
Q Consensus       336 ~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~~L~  399 (444)
                      .+.....+++.++++++-..++.+.+-.. ...   .-++....+++.+.|++..+..+...|.
T Consensus       145 r~~~~~~i~l~pl~~~~~~~~l~~~~~~~-~v~---l~~~al~~L~~~~~gn~~~l~~~l~~l~  204 (227)
T PRK08903        145 RLGWGLVYELKPLSDADKIAALKAAAAER-GLQ---LADEVPDYLLTHFRRDMPSLMALLDALD  204 (227)
T ss_pred             HHhcCeEEEecCCCHHHHHHHHHHHHHHc-CCC---CCHHHHHHHHHhccCCHHHHHHHHHHHH
Confidence            22223578999999988777766543221 111   2234456688889999998887766553

>PRK09087 hypothetical protein; Validated

Probab=98.59  E-value=1.4e-06  Score=78.68  Aligned_cols=143  Identities=13%  Similarity=0.104  Sum_probs=86.4

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGK  291 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  291 (444)
                      +.+.|+|++|+|||+|++.++.....        .+++..      .+...++..                     +.+ 
T Consensus        45 ~~l~l~G~~GsGKThLl~~~~~~~~~--------~~i~~~------~~~~~~~~~---------------------~~~-   88 (226)
T PRK09087         45 PVVVLAGPVGSGKTHLASIWREKSDA--------LLIHPN------EIGSDAANA---------------------AAE-   88 (226)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhcCC--------EEecHH------HcchHHHHh---------------------hhc-
Confidence            57899999999999999988865311        133221      111111111                     111 


Q ss_pred             eEEEEEeCCCCCChhcHHHhhcccCC-CCCCcEEEEecCC---------hHHHhhcCCCCcccCCCCChHhHHHHHHHhh
Q 047559          292 KLLLVLDDVWNEDYCLWEDLKAPFLA-AAPNSKIIVTTRH---------AHVAATMEPIQQYNLQCLSDEDCWSLFMMHA  361 (444)
Q Consensus       292 r~LlVlDdv~~~~~~~~~~l~~~l~~-~~~gs~iivTTr~---------~~va~~~~~~~~~~l~~L~~~~~~~lf~~~~  361 (444)
                       -+|++||+..... .-+.+...+.. ...|..||+|++.         ++....+....++++++++.++-.+++.+++
T Consensus        89 -~~l~iDDi~~~~~-~~~~lf~l~n~~~~~g~~ilits~~~p~~~~~~~~dL~SRl~~gl~~~l~~pd~e~~~~iL~~~~  166 (226)
T PRK09087         89 -GPVLIEDIDAGGF-DETGLFHLINSVRQAGTSLLMTSRLWPSSWNVKLPDLKSRLKAATVVEIGEPDDALLSQVIFKLF  166 (226)
T ss_pred             -CeEEEECCCCCCC-CHHHHHHHHHHHHhCCCeEEEECCCChHHhccccccHHHHHhCCceeecCCCCHHHHHHHHHHHH
Confidence             2788899965321 11223332221 2346678888873         3344445556789999999999999998887


Q ss_pred             ccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHH
Q 047559          362 FVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGG  396 (444)
Q Consensus       362 ~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~  396 (444)
                      -.. ..   ..-+++..-|++.+.|..-++..+..
T Consensus       167 ~~~-~~---~l~~ev~~~La~~~~r~~~~l~~~l~  197 (226)
T PRK09087        167 ADR-QL---YVDPHVVYYLVSRMERSLFAAQTIVD  197 (226)
T ss_pred             HHc-CC---CCCHHHHHHHHHHhhhhHHHHHHHHH
Confidence            432 11   12244556788888887777665433

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=98.59  E-value=2.8e-06  Score=81.60  Aligned_cols=199  Identities=14%  Similarity=0.120  Sum_probs=115.4

Q ss_pred             cCCcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcccccc-CCcceeEEEEeCCCCCHHHHH
Q 047559          182 TERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVED-SKFDVKAWVCVSDDFDVLNIS  260 (444)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~-~~f~~~~wv~vs~~~~~~~~~  260 (444)
                      .-..++|.+.....+...+.....     ...+.|+|+.|+||||+|..+....--.. ..+...   ....+.......
T Consensus        21 ~~~~l~Gh~~a~~~L~~a~~~grl-----~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~---~~~~~~~~c~~c   92 (351)
T PRK09112         21 ENTRLFGHEEAEAFLAQAYREGKL-----HHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPE---TLADPDPASPVW   92 (351)
T ss_pred             chhhccCcHHHHHHHHHHHHcCCC-----CeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCcc---ccCCCCCCCHHH
Confidence            345689999999999998865432     24789999999999999998876532100 001110   001111111122


Q ss_pred             HHHHHHhc-------cCC-C------CcccHHHHHHHHHHHh-----CCceEEEEEeCCCCCChhcHHHhhcccCCCCCC
Q 047559          261 RALLESIT-------FAS-C------DLKALNEVQVQIKRAV-----DGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPN  321 (444)
Q Consensus       261 ~~il~~l~-------~~~-~------~~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~g  321 (444)
                      +.+...-.       ... .      ..-..++. ..+.+++     .+++-++|+|+++..+....+.|...+.....+
T Consensus        93 ~~i~~~~hPdl~~l~~~~~~~~~~~~~~I~vd~i-R~l~~~l~~~~~~g~~rVviIDeAd~l~~~aanaLLk~LEEpp~~  171 (351)
T PRK09112         93 RQIAQGAHPNLLHITRPFDEKTGKFKTAITVDEI-RRVGHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLEEPPAR  171 (351)
T ss_pred             HHHHcCCCCCEEEeecccccccccccccCCHHHH-HHHHHHhhhccccCCceEEEEEchhhcCHHHHHHHHHHHhcCCCC
Confidence            22221100       000 0      01112332 2344443     356679999999988877788887777654445


Q ss_pred             cEEEEec-CChHHHhh-cCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHH
Q 047559          322 SKIIVTT-RHAHVAAT-MEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLG  395 (444)
Q Consensus       322 s~iivTT-r~~~va~~-~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~  395 (444)
                      ..+|++| +...+... .+....+.+.+++.++..+++.+....   ..   ..+.....|++.++|.|.....+.
T Consensus       172 ~~fiLit~~~~~llptIrSRc~~i~l~pl~~~~~~~~L~~~~~~---~~---~~~~~~~~i~~~s~G~pr~Al~ll  241 (351)
T PRK09112        172 ALFILISHSSGRLLPTIRSRCQPISLKPLDDDELKKALSHLGSS---QG---SDGEITEALLQRSKGSVRKALLLL  241 (351)
T ss_pred             ceEEEEECChhhccHHHHhhccEEEecCCCHHHHHHHHHHhhcc---cC---CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            5555544 43333222 122367999999999999999874211   11   112234678999999998766554

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.58  E-value=2.7e-06  Score=86.35  Aligned_cols=184  Identities=17%  Similarity=0.158  Sum_probs=107.9

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcccccc------------------CCccee
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVED------------------SKFDVK  245 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~------------------~~f~~~  245 (444)
                      ..++|.+.-++.+..++....-     ...+.++|+.|+||||+|+.+.....-..                  +.|...
T Consensus        16 ~divGq~~v~~~L~~~i~~~~~-----~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C~~C~~i~~~~~~d~   90 (527)
T PRK14969         16 SELVGQEHVVRALTNALEQQRL-----HHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSACLEIDSGRFVDL   90 (527)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCC-----CEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCce
Confidence            3589999999999988865422     24678999999999999999876531100                  011112


Q ss_pred             EEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEE
Q 047559          246 AWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKII  325 (444)
Q Consensus       246 ~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ii  325 (444)
                      +++..+....+. .++.++..+...                -..+++-++|+|+++..+....+.+...+......+.+|
T Consensus        91 ~ei~~~~~~~vd-~ir~l~~~~~~~----------------p~~~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~fI  153 (527)
T PRK14969         91 IEVDAASNTQVD-AMRELLDNAQYA----------------PTRGRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFI  153 (527)
T ss_pred             eEeeccccCCHH-HHHHHHHHHhhC----------------cccCCceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEEE
Confidence            222211111111 111121111100                013566799999998877667788888877655667677


Q ss_pred             EecCCh-HHHh-hcCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHH
Q 047559          326 VTTRHA-HVAA-TMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKT  393 (444)
Q Consensus       326 vTTr~~-~va~-~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~  393 (444)
                      ++|.+. .+.. ..+....+++.+++.++....+.+.+-..+-..    .+.....|++.++|.+--+..
T Consensus       154 L~t~d~~kil~tI~SRc~~~~f~~l~~~~i~~~L~~il~~egi~~----~~~al~~la~~s~Gslr~al~  219 (527)
T PRK14969        154 LATTDPQKIPVTVLSRCLQFNLKQMPPPLIVSHLQHILEQENIPF----DATALQLLARAAAGSMRDALS  219 (527)
T ss_pred             EEeCChhhCchhHHHHHHHHhcCCCCHHHHHHHHHHHHHHcCCCC----CHHHHHHHHHHcCCCHHHHHH
Confidence            666443 2221 111225789999999999888776553221111    123346688899998764333

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

Probab=98.58  E-value=8.8e-07  Score=92.50  Aligned_cols=175  Identities=19%  Similarity=0.195  Sum_probs=98.2

Q ss_pred             CcccccchhHH---HHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHH
Q 047559          184 RAVFGRQQDKA---KMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNIS  260 (444)
Q Consensus       184 ~~~vGr~~~~~---~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~  260 (444)
                      ..|+|++..+.   .+...+..      .....+.|+|++|+||||||+.+++...  . +|.   .++.+. ....   
T Consensus        28 dd~vGQe~ii~~~~~L~~~i~~------~~~~slLL~GPpGtGKTTLA~aIA~~~~--~-~f~---~lna~~-~~i~---   91 (725)
T PRK13341         28 EEFVGQDHILGEGRLLRRAIKA------DRVGSLILYGPPGVGKTTLARIIANHTR--A-HFS---SLNAVL-AGVK---   91 (725)
T ss_pred             HHhcCcHHHhhhhHHHHHHHhc------CCCceEEEECCCCCCHHHHHHHHHHHhc--C-cce---eehhhh-hhhH---
Confidence            35889887764   45555543      2335678999999999999999997632  2 331   111110 0000   


Q ss_pred             HHHHHHhccCCCCcccHHHHHHHHHHHh--CCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEe--cCChH--HH
Q 047559          261 RALLESITFASCDLKALNEVQVQIKRAV--DGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVT--TRHAH--VA  334 (444)
Q Consensus       261 ~~il~~l~~~~~~~~~~~~~~~~l~~~l--~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivT--Tr~~~--va  334 (444)
                                     +..+......+.+  .+++.+|+|||++..+...++.+...+.   .|+.++++  |.+..  +.
T Consensus        92 ---------------dir~~i~~a~~~l~~~~~~~IL~IDEIh~Ln~~qQdaLL~~lE---~g~IiLI~aTTenp~~~l~  153 (725)
T PRK13341         92 ---------------DLRAEVDRAKERLERHGKRTILFIDEVHRFNKAQQDALLPWVE---NGTITLIGATTENPYFEVN  153 (725)
T ss_pred             ---------------HHHHHHHHHHHHhhhcCCceEEEEeChhhCCHHHHHHHHHHhc---CceEEEEEecCCChHhhhh
Confidence                           1111111222222  2467799999998776666666655443   35555553  33332  11


Q ss_pred             h-hcCCCCcccCCCCChHhHHHHHHHhhccCC---CCCccchHHHHHHHHHHHcCCChHHHH
Q 047559          335 A-TMEPIQQYNLQCLSDEDCWSLFMMHAFVGQ---DITAQQISDLFREKVVGKCGGLPLAAK  392 (444)
Q Consensus       335 ~-~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~---~~~~~~~~~~~~~~i~~~~~G~Plai~  392 (444)
                      . ..+....+.+++|+.++...++.+.+-...   ........++....|++.+.|..-.+.
T Consensus       154 ~aL~SR~~v~~l~pLs~edi~~IL~~~l~~~~~~~g~~~v~I~deaL~~La~~s~GD~R~ll  215 (725)
T PRK13341        154 KALVSRSRLFRLKSLSDEDLHQLLKRALQDKERGYGDRKVDLEPEAEKHLVDVANGDARSLL  215 (725)
T ss_pred             hHhhccccceecCCCCHHHHHHHHHHHHHHHHhhcCCcccCCCHHHHHHHHHhCCCCHHHHH
Confidence            1 122335799999999999999887653100   000111223345668888888654433

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=98.57  E-value=2.1e-06  Score=83.61  Aligned_cols=180  Identities=14%  Similarity=0.108  Sum_probs=106.2

Q ss_pred             cccccchhHHHHHHHHhcCCCC----CCCCceEEEEEecCCChHHHHHHHHhhccccc------------------cCCc
Q 047559          185 AVFGRQQDKAKMLEMVLTDTSS----DHSNLAVIPIVGMAGVGKTTLAREVYNDRAVE------------------DSKF  242 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~----~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~------------------~~~f  242 (444)
                      .++|.+.-++.|...+..+...    ...-...+.++|++|+|||++|+.+.....-.                  ..|+
T Consensus         6 ~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~~~~Cg~C~~C~~~~~~~hp   85 (394)
T PRK07940          6 DLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPDEPGCGECRACRTVLAGTHP   85 (394)
T ss_pred             hccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCC
Confidence            5889999999999988764310    00123568899999999999999886542110                  0011


Q ss_pred             ceeEEEEeC-CCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHH-hCCceEEEEEeCCCCCChhcHHHhhcccCCCCC
Q 047559          243 DVKAWVCVS-DDFDVLNISRALLESITFASCDLKALNEVQVQIKRA-VDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAP  320 (444)
Q Consensus       243 ~~~~wv~vs-~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~  320 (444)
                      |. .++... ....+.+                  +..+...+... ..+++-++++|+++..+....+.|...+.....
T Consensus        86 D~-~~i~~~~~~i~i~~------------------iR~l~~~~~~~p~~~~~kViiIDead~m~~~aanaLLk~LEep~~  146 (394)
T PRK07940         86 DV-RVVAPEGLSIGVDE------------------VRELVTIAARRPSTGRWRIVVIEDADRLTERAANALLKAVEEPPP  146 (394)
T ss_pred             CE-EEeccccccCCHHH------------------HHHHHHHHHhCcccCCcEEEEEechhhcCHHHHHHHHHHhhcCCC
Confidence            11 111110 0011111                  11111111111 124555888899988877777777777766566


Q ss_pred             CcEEEEecCCh-HHHhh-cCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHH
Q 047559          321 NSKIIVTTRHA-HVAAT-MEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAK  392 (444)
Q Consensus       321 gs~iivTTr~~-~va~~-~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~  392 (444)
                      +..+|++|.+. .+... .+....+.+.+++.++..+.+....    .. .    .+.+..++..++|.|....
T Consensus       147 ~~~fIL~a~~~~~llpTIrSRc~~i~f~~~~~~~i~~~L~~~~----~~-~----~~~a~~la~~s~G~~~~A~  211 (394)
T PRK07940        147 RTVWLLCAPSPEDVLPTIRSRCRHVALRTPSVEAVAEVLVRRD----GV-D----PETARRAARASQGHIGRAR  211 (394)
T ss_pred             CCeEEEEECChHHChHHHHhhCeEEECCCCCHHHHHHHHHHhc----CC-C----HHHHHHHHHHcCCCHHHHH
Confidence            67676666653 33322 2333678999999999988886432    11 1    2234668899999987543

>PRK08084 DNA replication initiation factor; Provisional

Probab=98.56  E-value=2.2e-06  Score=78.03  Aligned_cols=155  Identities=15%  Similarity=0.153  Sum_probs=91.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGK  291 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  291 (444)
                      ..+.|+|++|+|||+|++.+++....   ....+.++++.....                    ...+....+.+     
T Consensus        46 ~~l~l~Gp~G~GKThLl~a~~~~~~~---~~~~v~y~~~~~~~~--------------------~~~~~~~~~~~-----   97 (235)
T PRK08084         46 GYIYLWSREGAGRSHLLHAACAELSQ---RGRAVGYVPLDKRAW--------------------FVPEVLEGMEQ-----   97 (235)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHh---CCCeEEEEEHHHHhh--------------------hhHHHHHHhhh-----
Confidence            57899999999999999999876432   222345555432100                    00111111111     


Q ss_pred             eEEEEEeCCCCCCh-hcHHH-hhcccCC-CCCC-cEEEEecCCh---------HHHhhcCCCCcccCCCCChHhHHHHHH
Q 047559          292 KLLLVLDDVWNEDY-CLWED-LKAPFLA-AAPN-SKIIVTTRHA---------HVAATMEPIQQYNLQCLSDEDCWSLFM  358 (444)
Q Consensus       292 r~LlVlDdv~~~~~-~~~~~-l~~~l~~-~~~g-s~iivTTr~~---------~va~~~~~~~~~~l~~L~~~~~~~lf~  358 (444)
                      --+|+|||+..... ..|+. +...+.. ...| .++|+||+..         ++...+....++++++++.++-.+++.
T Consensus        98 ~dlliiDdi~~~~~~~~~~~~lf~l~n~~~e~g~~~li~ts~~~p~~l~~~~~~L~SRl~~g~~~~l~~~~~~~~~~~l~  177 (235)
T PRK08084         98 LSLVCIDNIECIAGDELWEMAIFDLYNRILESGRTRLLITGDRPPRQLNLGLPDLASRLDWGQIYKLQPLSDEEKLQALQ  177 (235)
T ss_pred             CCEEEEeChhhhcCCHHHHHHHHHHHHHHHHcCCCeEEEeCCCChHHcCcccHHHHHHHhCCceeeecCCCHHHHHHHHH
Confidence            23789999965421 24543 2222222 1233 4788888754         333444555789999999999999988


Q ss_pred             HhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHHHh
Q 047559          359 MHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLL  398 (444)
Q Consensus       359 ~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~~L  398 (444)
                      +++...+ .   ...+++..-|++.+.|..-.+..+-..|
T Consensus       178 ~~a~~~~-~---~l~~~v~~~L~~~~~~d~r~l~~~l~~l  213 (235)
T PRK08084        178 LRARLRG-F---ELPEDVGRFLLKRLDREMRTLFMTLDQL  213 (235)
T ss_pred             HHHHHcC-C---CCCHHHHHHHHHhhcCCHHHHHHHHHHH
Confidence            7664321 1   2234556778888888776665554443

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

Probab=98.54  E-value=4.3e-06  Score=76.93  Aligned_cols=199  Identities=15%  Similarity=0.110  Sum_probs=119.9

Q ss_pred             hHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcc----eeEEEEeCCCCCHHHHHHHHHHHh
Q 047559          192 DKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFD----VKAWVCVSDDFDVLNISRALLESI  267 (444)
Q Consensus       192 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~----~~~wv~vs~~~~~~~~~~~il~~l  267 (444)
                      -++.+.++|..+..   .....+.|||.+|+|||++++++...+.... .-+    .++.|.....++...++..|+.++
T Consensus        45 ~L~~L~~Ll~~P~~---~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~-d~~~~~~PVv~vq~P~~p~~~~~Y~~IL~~l  120 (302)
T PF05621_consen   45 ALDRLEELLEYPKR---HRMPNLLIVGDSNNGKTMIIERFRRLHPPQS-DEDAERIPVVYVQMPPEPDERRFYSAILEAL  120 (302)
T ss_pred             HHHHHHHHHhCCcc---cCCCceEEecCCCCcHHHHHHHHHHHCCCCC-CCCCccccEEEEecCCCCChHHHHHHHHHHh
Confidence            34455555544433   4456799999999999999999987653222 111    467788888999999999999999


Q ss_pred             ccCCCCcccHHHHHHHHHHHhCC-ceEEEEEeCCCCC---C---hhcHHHhhcccCCCCCCcEEEEecCChHHHhhc---
Q 047559          268 TFASCDLKALNEVQVQIKRAVDG-KKLLLVLDDVWNE---D---YCLWEDLKAPFLAAAPNSKIIVTTRHAHVAATM---  337 (444)
Q Consensus       268 ~~~~~~~~~~~~~~~~l~~~l~~-kr~LlVlDdv~~~---~---~~~~~~l~~~l~~~~~gs~iivTTr~~~va~~~---  337 (444)
                      +.......+...+...+...++. +-=+||+|++++.   .   +...-.....|.+...=+-|.+-|+...-+-..   
T Consensus       121 gaP~~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~~A~~al~~D~Q  200 (302)
T PF05621_consen  121 GAPYRPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTREAYRALRTDPQ  200 (302)
T ss_pred             CcccCCCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccHHHHHHhccCHH
Confidence            98766666666666666666643 3348899999773   1   111222223343334445666666643322111   


Q ss_pred             --CCCCcccCCCCCh-HhHHHHHHHhh--ccCCCCCccchHHHHHHHHHHHcCCChHHHHHHH
Q 047559          338 --EPIQQYNLQCLSD-EDCWSLFMMHA--FVGQDITAQQISDLFREKVVGKCGGLPLAAKTLG  395 (444)
Q Consensus       338 --~~~~~~~l~~L~~-~~~~~lf~~~~--~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~  395 (444)
                        +....+.+..-.. ++...|+....  +.-..+ +.-...++++.|...++|+.=-+..+-
T Consensus       201 La~RF~~~~Lp~W~~d~ef~~LL~s~e~~LPLr~~-S~l~~~~la~~i~~~s~G~iG~l~~ll  262 (302)
T PF05621_consen  201 LASRFEPFELPRWELDEEFRRLLASFERALPLRKP-SNLASPELARRIHERSEGLIGELSRLL  262 (302)
T ss_pred             HHhccCCccCCCCCCCcHHHHHHHHHHHhCCCCCC-CCCCCHHHHHHHHHHcCCchHHHHHHH
Confidence              1224455555443 34455543321  111122 222346678999999999875554443

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

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=98.53  E-value=3.2e-06  Score=89.50  Aligned_cols=180  Identities=13%  Similarity=0.080  Sum_probs=109.0

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccC---------------------Ccc
Q 047559          185 AVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDS---------------------KFD  243 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~---------------------~f~  243 (444)
                      .++|.+..++.|..++....-     ...+.++|+.|+||||+|+.+.+...-...                     +++
T Consensus        16 eiiGqe~v~~~L~~~i~~~ri-----~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~pCg~C~sC~~~~~g~~~~~d   90 (824)
T PRK07764         16 EVIGQEHVTEPLSTALDSGRI-----NHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGECDSCVALAPGGPGSLD   90 (824)
T ss_pred             HhcCcHHHHHHHHHHHHhCCC-----CceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCcccHHHHHHHcCCCCCCc
Confidence            589999999999998865432     246889999999999999998765321000                     011


Q ss_pred             eeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHH-HhCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCc
Q 047559          244 VKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKR-AVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNS  322 (444)
Q Consensus       244 ~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~-~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs  322 (444)
                       ++++.......                  ..++.++...+.. -..++.-++|||+++..+...++.|+..+......+
T Consensus        91 -v~eidaas~~~------------------Vd~iR~l~~~~~~~p~~~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~  151 (824)
T PRK07764         91 -VTEIDAASHGG------------------VDDARELRERAFFAPAESRYKIFIIDEAHMVTPQGFNALLKIVEEPPEHL  151 (824)
T ss_pred             -EEEecccccCC------------------HHHHHHHHHHHHhchhcCCceEEEEechhhcCHHHHHHHHHHHhCCCCCe
Confidence             11111111101                  1111222211111 123555588999999888888888988887766677


Q ss_pred             EEEEecCC-hHHHhh-cCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHH
Q 047559          323 KIIVTTRH-AHVAAT-MEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAK  392 (444)
Q Consensus       323 ~iivTTr~-~~va~~-~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~  392 (444)
                      .+|++|.+ +.+... ......|++..++.++...++.+.+-...-...    ......|++.++|.+..+.
T Consensus       152 ~fIl~tt~~~kLl~TIrSRc~~v~F~~l~~~~l~~~L~~il~~EGv~id----~eal~lLa~~sgGdlR~Al  219 (824)
T PRK07764        152 KFIFATTEPDKVIGTIRSRTHHYPFRLVPPEVMRGYLERICAQEGVPVE----PGVLPLVIRAGGGSVRDSL  219 (824)
T ss_pred             EEEEEeCChhhhhHHHHhheeEEEeeCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHHH
Confidence            77665543 344332 233467899999999988888765422211111    2233568889999885443

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=98.53  E-value=3e-06  Score=86.73  Aligned_cols=198  Identities=16%  Similarity=0.147  Sum_probs=113.3

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcc--eeEEEEeCCCCCHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFD--VKAWVCVSDDFDVLNISR  261 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~--~~~wv~vs~~~~~~~~~~  261 (444)
                      .+++|.+..++.|.+.+..+.-     ...+.++|+.|+||||+|+.+.+...-.. ...  ...+-.+...    .-.+
T Consensus        24 ~dliGq~~~v~~L~~~~~~gri-----~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~-~~~~~~~~~~~cg~c----~~C~   93 (598)
T PRK09111         24 DDLIGQEAMVRTLTNAFETGRI-----AQAFMLTGVRGVGKTTTARILARALNYEG-PDGDGGPTIDLCGVG----EHCQ   93 (598)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCC-----CceEEEECCCCCCHHHHHHHHHHhhCcCC-ccccCCCccccCccc----HHHH
Confidence            4689999999999998865432     24788999999999999999986532110 000  0000000000    0011


Q ss_pred             HHHHHhcc--------CCCCcccHHHHHHHHHHH-hCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEec-CCh
Q 047559          262 ALLESITF--------ASCDLKALNEVQVQIKRA-VDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTT-RHA  331 (444)
Q Consensus       262 ~il~~l~~--------~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTT-r~~  331 (444)
                      .|....+.        +.....++.++...+... ..+++-++|+|+++..+....+.|...+.....++++|++| ...
T Consensus        94 ~i~~g~h~Dv~e~~a~s~~gvd~IReIie~~~~~P~~a~~KVvIIDEad~Ls~~a~naLLKtLEePp~~~~fIl~tte~~  173 (598)
T PRK09111         94 AIMEGRHVDVLEMDAASHTGVDDIREIIESVRYRPVSARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHVKFIFATTEIR  173 (598)
T ss_pred             HHhcCCCCceEEecccccCCHHHHHHHHHHHHhchhcCCcEEEEEEChHhCCHHHHHHHHHHHHhCCCCeEEEEEeCChh
Confidence            11111000        000111122222222111 12445579999998877667888888877666677776655 333


Q ss_pred             HHHhh-cCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHH
Q 047559          332 HVAAT-MEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLG  395 (444)
Q Consensus       332 ~va~~-~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~  395 (444)
                      .+... .+....+++..++.++....+.+.+-.......    .+....|++.++|.+.-+....
T Consensus       174 kll~tI~SRcq~~~f~~l~~~el~~~L~~i~~kegi~i~----~eAl~lIa~~a~Gdlr~al~~L  234 (598)
T PRK09111        174 KVPVTVLSRCQRFDLRRIEADVLAAHLSRIAAKEGVEVE----DEALALIARAAEGSVRDGLSLL  234 (598)
T ss_pred             hhhHHHHhheeEEEecCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHHHHHH
Confidence            33322 223367899999999999888876532221111    2344668999999987665544

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

Probab=98.51  E-value=4.5e-06  Score=75.02  Aligned_cols=190  Identities=14%  Similarity=0.125  Sum_probs=105.1

Q ss_pred             CCcccccchh-HHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHH
Q 047559          183 ERAVFGRQQD-KAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISR  261 (444)
Q Consensus       183 ~~~~vGr~~~-~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~  261 (444)
                      +.-++|..++ .-.....+.....   .....+.|+|..|+|||.|.+.+++...... .-..+++++      ..++..
T Consensus         8 dnfv~g~~N~~a~~~~~~ia~~~~---~~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~-~~~~v~y~~------~~~f~~   77 (219)
T PF00308_consen    8 DNFVVGESNELAYAAAKAIAENPG---ERYNPLFLYGPSGLGKTHLLQAIANEAQKQH-PGKRVVYLS------AEEFIR   77 (219)
T ss_dssp             CCS--TTTTHHHHHHHHHHHHSTT---TSSSEEEEEESTTSSHHHHHHHHHHHHHHHC-TTS-EEEEE------HHHHHH
T ss_pred             ccCCcCCcHHHHHHHHHHHHhcCC---CCCCceEEECCCCCCHHHHHHHHHHHHHhcc-ccccceeec------HHHHHH
Confidence            4445675333 3344444544422   3345689999999999999999998753321 112344553      456666


Q ss_pred             HHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChh-cHHH-hhcccCC-CCCCcEEEEecCCh-------
Q 047559          262 ALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYC-LWED-LKAPFLA-AAPNSKIIVTTRHA-------  331 (444)
Q Consensus       262 ~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~-~~~~-l~~~l~~-~~~gs~iivTTr~~-------  331 (444)
                      .+...+...     ..    ..+.+.+. .-=+|+|||++..... .|.. +...+.. ...|.+||+|+...       
T Consensus        78 ~~~~~~~~~-----~~----~~~~~~~~-~~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~~P~~l~~~  147 (219)
T PF00308_consen   78 EFADALRDG-----EI----EEFKDRLR-SADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDRPPSELSGL  147 (219)
T ss_dssp             HHHHHHHTT-----SH----HHHHHHHC-TSSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS-TTTTTTS
T ss_pred             HHHHHHHcc-----cc----hhhhhhhh-cCCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCCCCcccccc
Confidence            666655431     11    22333443 3348899999764322 3443 2222222 23567899999643       


Q ss_pred             --HHHhhcCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHH
Q 047559          332 --HVAATMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGG  396 (444)
Q Consensus       332 --~va~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~  396 (444)
                        .+.+.+...-++++++++.++...++.+.+-...-    ...+++..-|++.+.+..-.+..+-.
T Consensus       148 ~~~L~SRl~~Gl~~~l~~pd~~~r~~il~~~a~~~~~----~l~~~v~~~l~~~~~~~~r~L~~~l~  210 (219)
T PF00308_consen  148 LPDLRSRLSWGLVVELQPPDDEDRRRILQKKAKERGI----ELPEEVIEYLARRFRRDVRELEGALN  210 (219)
T ss_dssp             -HHHHHHHHCSEEEEE----HHHHHHHHHHHHHHTT------S-HHHHHHHHHHTTSSHHHHHHHHH
T ss_pred             ChhhhhhHhhcchhhcCCCCHHHHHHHHHHHHHHhCC----CCcHHHHHHHHHhhcCCHHHHHHHHH
Confidence              23344445567899999999999999888743221    13345566677777776665554433

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.

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=98.51  E-value=3e-07  Score=87.48  Aligned_cols=89  Identities=24%  Similarity=0.287  Sum_probs=62.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCC--CHHHHHHHHHHHhccCCCCcccHHH------HHHH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDF--DVLNISRALLESITFASCDLKALNE------VQVQ  283 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~--~~~~~~~~il~~l~~~~~~~~~~~~------~~~~  283 (444)
                      .-..|+|++|+|||||++.+|+.....  +|++++||.+++..  .+.++.+.+...+-.+..+......      ....
T Consensus       170 QR~lIvgppGvGKTTLaK~Ian~I~~n--hFDv~~~VvLIgER~~EVtdiqrsIlg~vv~st~d~~~~~~~~~a~~~ie~  247 (416)
T PRK09376        170 QRGLIVAPPKAGKTVLLQNIANSITTN--HPEVHLIVLLIDERPEEVTDMQRSVKGEVVASTFDEPAERHVQVAEMVIEK  247 (416)
T ss_pred             ceEEEeCCCCCChhHHHHHHHHHHHhh--cCCeEEEEEEeCCchhHHHHHHHHhcCcEEEECCCCCHHHHHHHHHHHHHH
Confidence            578999999999999999999986543  89999999999887  7778888776433333332222111      1112


Q ss_pred             HHHH-hCCceEEEEEeCCCC
Q 047559          284 IKRA-VDGKKLLLVLDDVWN  302 (444)
Q Consensus       284 l~~~-l~~kr~LlVlDdv~~  302 (444)
                      -..+ -.++++||++|++..
T Consensus       248 Ae~~~e~G~dVlL~iDsItR  267 (416)
T PRK09376        248 AKRLVEHGKDVVILLDSITR  267 (416)
T ss_pred             HHHHHHcCCCEEEEEEChHH
Confidence            2222 268999999999954

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.51  E-value=2.2e-06  Score=84.25  Aligned_cols=200  Identities=14%  Similarity=0.176  Sum_probs=109.3

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEE-eCCCCCHHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVC-VSDDFDVLNISRA  262 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~-vs~~~~~~~~~~~  262 (444)
                      ..++|.+.-++.|..++..+.-     ...+.++|+.|+||||+|+.+.+...-.. .+....|.. ...+...-..-+.
T Consensus        16 ~eiiGq~~~~~~L~~~~~~~~~-----~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~-~~~~~~~~~~~~~~c~~c~~c~~   89 (397)
T PRK14955         16 ADITAQEHITRTIQNSLRMGRV-----GHGYIFSGLRGVGKTTAARVFAKAVNCQR-MIDDADYLQEVTEPCGECESCRD   89 (397)
T ss_pred             hhccChHHHHHHHHHHHHhCCc-----ceeEEEECCCCCCHHHHHHHHHHHhcCCC-CcCcccccccCCCCCCCCHHHHH
Confidence            3588999888888888864321     24588999999999999998876532110 010000100 0000000000011


Q ss_pred             HHHHhcc-----CCCCcccHHHHHHHHHHHh-----CCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEec-CCh
Q 047559          263 LLESITF-----ASCDLKALNEVQVQIKRAV-----DGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTT-RHA  331 (444)
Q Consensus       263 il~~l~~-----~~~~~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTT-r~~  331 (444)
                      +......     ........+++.+ +.+.+     .+++-++|+|+++..+...++.+...+......+.+|++| +..
T Consensus        90 ~~~~~~~n~~~~~~~~~~~id~Ir~-l~~~~~~~p~~~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t~~Il~t~~~~  168 (397)
T PRK14955         90 FDAGTSLNISEFDAASNNSVDDIRL-LRENVRYGPQKGRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATTELH  168 (397)
T ss_pred             HhcCCCCCeEeecccccCCHHHHHH-HHHHHhhchhcCCeEEEEEeChhhCCHHHHHHHHHHHhcCCCCeEEEEEeCChH
Confidence            1100000     0000111222222 22222     3455688999998877667888888887666677766655 333


Q ss_pred             HHHhhc-CCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHH
Q 047559          332 HVAATM-EPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTL  394 (444)
Q Consensus       332 ~va~~~-~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~  394 (444)
                      .+...+ .....+++.++++++....+...+-.....    -.++.+..|++.++|.+--+...
T Consensus       169 kl~~tl~sR~~~v~f~~l~~~ei~~~l~~~~~~~g~~----i~~~al~~l~~~s~g~lr~a~~~  228 (397)
T PRK14955        169 KIPATIASRCQRFNFKRIPLEEIQQQLQGICEAEGIS----VDADALQLIGRKAQGSMRDAQSI  228 (397)
T ss_pred             HhHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHHcCCC----CCHHHHHHHHHHcCCCHHHHHHH
Confidence            333221 122568899999999888877665322111    12334567899999988654443

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.50  E-value=5.3e-06  Score=84.37  Aligned_cols=197  Identities=14%  Similarity=0.138  Sum_probs=110.2

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRAL  263 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~i  263 (444)
                      .+++|.+..+..|...+....     -...+.++|+.|+||||+|+.+.+...-.. ..+.       .+++.-...+.|
T Consensus        16 ~dIiGQe~v~~~L~~ai~~~r-----i~ha~Lf~GPpG~GKTtiArilAk~L~C~~-~~~~-------~pCg~C~sC~~i   82 (624)
T PRK14959         16 AEVAGQETVKAILSRAAQENR-----VAPAYLFSGTRGVGKTTIARIFAKALNCET-APTG-------EPCNTCEQCRKV   82 (624)
T ss_pred             HHhcCCHHHHHHHHHHHHcCC-----CCceEEEECCCCCCHHHHHHHHHHhccccC-CCCC-------CCCcccHHHHHH
Confidence            357898888888888876432     125788999999999999999886542110 0000       000000111111


Q ss_pred             HHHhcc--------CCCCcccHHHHHHHHHH-HhCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCC-hHH
Q 047559          264 LESITF--------ASCDLKALNEVQVQIKR-AVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRH-AHV  333 (444)
Q Consensus       264 l~~l~~--------~~~~~~~~~~~~~~l~~-~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~-~~v  333 (444)
                      ......        ..........+...+.. -..+++-+||||+++..+...++.|...+........+|++|.. ..+
T Consensus        83 ~~g~hpDv~eId~a~~~~Id~iR~L~~~~~~~p~~g~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifILaTt~~~kl  162 (624)
T PRK14959         83 TQGMHVDVVEIDGASNRGIDDAKRLKEAIGYAPMEGRYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTEPHKF  162 (624)
T ss_pred             hcCCCCceEEEecccccCHHHHHHHHHHHHhhhhcCCceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEEecCChhhh
Confidence            110000        00001111111111111 12356679999999887777778888877654445556665544 444


Q ss_pred             Hhh-cCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCCh-HHHHHHHHH
Q 047559          334 AAT-MEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLP-LAAKTLGGL  397 (444)
Q Consensus       334 a~~-~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P-lai~~~~~~  397 (444)
                      ... ......+++.+++.++....+...+........    .+....|++.++|.+ .|+..+..+
T Consensus       163 l~TI~SRcq~i~F~pLs~~eL~~~L~~il~~egi~id----~eal~lIA~~s~GdlR~Al~lLeql  224 (624)
T PRK14959        163 PVTIVSRCQHFTFTRLSEAGLEAHLTKVLGREGVDYD----PAAVRLIARRAAGSVRDSMSLLGQV  224 (624)
T ss_pred             hHHHHhhhhccccCCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            322 223357899999999999888775533221112    234466888899865 566655443

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.49  E-value=2.6e-06  Score=87.80  Aligned_cols=197  Identities=15%  Similarity=0.137  Sum_probs=111.5

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRAL  263 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~i  263 (444)
                      ..++|.+.-++.|..++....     -...+.++|+.|+||||+|+.+.+...-.. .+.      -...++.-...+.+
T Consensus        16 ~eiiGq~~~~~~L~~~i~~~~-----i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~-~~~------~~~~c~~c~~c~~i   83 (585)
T PRK14950         16 AELVGQEHVVQTLRNAIAEGR-----VAHAYLFTGPRGVGKTSTARILAKAVNCTT-NDP------KGRPCGTCEMCRAI   83 (585)
T ss_pred             HHhcCCHHHHHHHHHHHHhCC-----CceEEEEECCCCCCHHHHHHHHHHHhcCCC-CCC------CCCCCccCHHHHHH
Confidence            368999999999988886532     124678999999999999999986532110 000      00011111222222


Q ss_pred             HHHhccC-----CCCcccHHH---HHHHHHHH-hCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCC-hHH
Q 047559          264 LESITFA-----SCDLKALNE---VQVQIKRA-VDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRH-AHV  333 (444)
Q Consensus       264 l~~l~~~-----~~~~~~~~~---~~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~-~~v  333 (444)
                      ....+..     .......++   +...+... ..+++-++|+|+++..+....+.|...+......+.+|++|.+ ..+
T Consensus        84 ~~~~~~d~~~i~~~~~~~vd~ir~ii~~~~~~p~~~~~kVvIIDEa~~L~~~a~naLLk~LEepp~~tv~Il~t~~~~kl  163 (585)
T PRK14950         84 AEGSAVDVIEMDAASHTSVDDAREIIERVQFRPALARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATTEVHKV  163 (585)
T ss_pred             hcCCCCeEEEEeccccCCHHHHHHHHHHHhhCcccCCeEEEEEeChHhCCHHHHHHHHHHHhcCCCCeEEEEEeCChhhh
Confidence            2111110     000111222   22211111 1245668999999877666677787777665556666666543 333


Q ss_pred             Hhh-cCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHH
Q 047559          334 AAT-MEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGG  396 (444)
Q Consensus       334 a~~-~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~  396 (444)
                      ... ......+.+..++.++....+...+...+....    .+....|++.++|.+..+.....
T Consensus       164 l~tI~SR~~~i~f~~l~~~el~~~L~~~a~~egl~i~----~eal~~La~~s~Gdlr~al~~Le  223 (585)
T PRK14950        164 PATILSRCQRFDFHRHSVADMAAHLRKIAAAEGINLE----PGALEAIARAATGSMRDAENLLQ  223 (585)
T ss_pred             hHHHHhccceeeCCCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHHHHHHH
Confidence            322 223356888899999988888776533221111    23456789999998876554433

>PRK05642 DNA replication initiation factor; Validated

Probab=98.47  E-value=5.6e-06  Score=75.26  Aligned_cols=155  Identities=15%  Similarity=0.186  Sum_probs=92.3

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGK  291 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  291 (444)
                      ..+.|+|..|+|||.|++.+++....   .-..++|++...      +...              .    ..+.+.+.+-
T Consensus        46 ~~l~l~G~~G~GKTHLl~a~~~~~~~---~~~~v~y~~~~~------~~~~--------------~----~~~~~~~~~~   98 (234)
T PRK05642         46 SLIYLWGKDGVGRSHLLQAACLRFEQ---RGEPAVYLPLAE------LLDR--------------G----PELLDNLEQY   98 (234)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHh---CCCcEEEeeHHH------HHhh--------------h----HHHHHhhhhC
Confidence            57899999999999999999875422   223456665432      2111              0    1122222222


Q ss_pred             eEEEEEeCCCCCC-hhcHHH-hhcccCC-CCCCcEEEEecCChHH---------HhhcCCCCcccCCCCChHhHHHHHHH
Q 047559          292 KLLLVLDDVWNED-YCLWED-LKAPFLA-AAPNSKIIVTTRHAHV---------AATMEPIQQYNLQCLSDEDCWSLFMM  359 (444)
Q Consensus       292 r~LlVlDdv~~~~-~~~~~~-l~~~l~~-~~~gs~iivTTr~~~v---------a~~~~~~~~~~l~~L~~~~~~~lf~~  359 (444)
                      . +|++||+.... ...|.. +...+.. ...|..+|+|++....         ...+....++++++++.++-.+++..
T Consensus        99 d-~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~~~p~~l~~~~~~L~SRl~~gl~~~l~~~~~e~~~~il~~  177 (234)
T PRK05642         99 E-LVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAASKSPRELPIKLPDLKSRLTLALVFQMRGLSDEDKLRALQL  177 (234)
T ss_pred             C-EEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCCCCHHHcCccCccHHHHHhcCeeeecCCCCHHHHHHHHHH
Confidence            2 67899996432 234544 3333322 2346678888875332         12223336688999999999999986


Q ss_pred             hhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHHHh
Q 047559          360 HAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLL  398 (444)
Q Consensus       360 ~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~~L  398 (444)
                      ++.... .   ...+++..-|++.+.|..-.+..+-..|
T Consensus       178 ka~~~~-~---~l~~ev~~~L~~~~~~d~r~l~~~l~~l  212 (234)
T PRK05642        178 RASRRG-L---HLTDEVGHFILTRGTRSMSALFDLLERL  212 (234)
T ss_pred             HHHHcC-C---CCCHHHHHHHHHhcCCCHHHHHHHHHHH
Confidence            664321 1   1224556778888888876665555444

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.46  E-value=9.6e-06  Score=82.66  Aligned_cols=189  Identities=14%  Similarity=0.089  Sum_probs=108.2

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRAL  263 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~i  263 (444)
                      ..++|.+.-++.|..++..+.     -...+.++|+.|+||||+|+.+.....-.. ..+   +-.++..    ...+.+
T Consensus        13 ~eivGq~~i~~~L~~~i~~~r-----~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~-~~~---~~pCg~C----~~C~~i   79 (584)
T PRK14952         13 AEVVGQEHVTEPLSSALDAGR-----INHAYLFSGPRGCGKTSSARILARSLNCAQ-GPT---ATPCGVC----ESCVAL   79 (584)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhcccc-CCC---CCccccc----HHHHHh
Confidence            358999999999999886542     224678999999999999999886531100 000   0000000    000010


Q ss_pred             HHH---------hcc-CCCCcccHHHHHHHHHHH-hCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecC-Ch
Q 047559          264 LES---------ITF-ASCDLKALNEVQVQIKRA-VDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTR-HA  331 (444)
Q Consensus       264 l~~---------l~~-~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr-~~  331 (444)
                      ...         +.. +......+.++...+... ..+++-++|+|+++..+....+.|...+......+.+|++|. ..
T Consensus        80 ~~~~~~~~dvieidaas~~gvd~iRel~~~~~~~P~~~~~KVvIIDEah~Lt~~A~NALLK~LEEpp~~~~fIL~tte~~  159 (584)
T PRK14952         80 APNGPGSIDVVELDAASHGGVDDTRELRDRAFYAPAQSRYRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATTEPE  159 (584)
T ss_pred             hcccCCCceEEEeccccccCHHHHHHHHHHHHhhhhcCCceEEEEECCCcCCHHHHHHHHHHHhcCCCCeEEEEEeCChH
Confidence            000         000 000111222222222211 134556899999988887788888888877666666665554 34


Q ss_pred             HHHh-hcCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChH
Q 047559          332 HVAA-TMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPL  389 (444)
Q Consensus       332 ~va~-~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl  389 (444)
                      .+.. ..+....+++.+++.++..+.+.+.+-..+....    ......|++.++|.+-
T Consensus       160 kll~TI~SRc~~~~F~~l~~~~i~~~L~~i~~~egi~i~----~~al~~Ia~~s~GdlR  214 (584)
T PRK14952        160 KVLPTIRSRTHHYPFRLLPPRTMRALIARICEQEGVVVD----DAVYPLVIRAGGGSPR  214 (584)
T ss_pred             hhHHHHHHhceEEEeeCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHH
Confidence            4332 2233467999999999988888765533221111    2234568888888775

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.43  E-value=1e-05  Score=79.07  Aligned_cols=184  Identities=16%  Similarity=0.177  Sum_probs=103.9

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcccccc-----CCcceeE-EEEeCCCCCHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVED-----SKFDVKA-WVCVSDDFDVL  257 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~-----~~f~~~~-wv~vs~~~~~~  257 (444)
                      ..++|.+..++.+.+.+....     -...+.++|++|+||||+|+.+.+...-..     ..|...+ -+........ 
T Consensus        17 ~~iig~~~~~~~l~~~i~~~~-----~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~-   90 (367)
T PRK14970         17 DDVVGQSHITNTLLNAIENNH-----LAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFELDAASNNSV-   90 (367)
T ss_pred             HhcCCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEeccccCCCH-
Confidence            357899999999999886532     235889999999999999999876532110     0111111 1111111111 


Q ss_pred             HHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCC-hHHHh-
Q 047559          258 NISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRH-AHVAA-  335 (444)
Q Consensus       258 ~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~-~~va~-  335 (444)
                      +....++..+...                -..+++-++++|+++......++.+...+......+.+|++|.. ..+.. 
T Consensus        91 ~~i~~l~~~~~~~----------------p~~~~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~~~~kl~~~  154 (367)
T PRK14970         91 DDIRNLIDQVRIP----------------PQTGKYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKIIPT  154 (367)
T ss_pred             HHHHHHHHHHhhc----------------cccCCcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeCCcccCCHH
Confidence            1111222211100                01244558999999766555677776666544445556655532 22221 


Q ss_pred             hcCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHH
Q 047559          336 TMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKT  393 (444)
Q Consensus       336 ~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~  393 (444)
                      .......++..++++++....+...+...+-...    .+....+++.++|.+-.+..
T Consensus       155 l~sr~~~v~~~~~~~~~l~~~l~~~~~~~g~~i~----~~al~~l~~~~~gdlr~~~~  208 (367)
T PRK14970        155 ILSRCQIFDFKRITIKDIKEHLAGIAVKEGIKFE----DDALHIIAQKADGALRDALS  208 (367)
T ss_pred             HHhcceeEecCCccHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHhCCCCHHHHHH
Confidence            1223356889999999998888776543221111    23456688888887664433

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.43  E-value=1.5e-05  Score=79.99  Aligned_cols=185  Identities=13%  Similarity=0.111  Sum_probs=107.8

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcccc--cc----------------CCccee
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAV--ED----------------SKFDVK  245 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~--~~----------------~~f~~~  245 (444)
                      ..++|.+.-+..+..++....-     .....++|+.|+||||+|+.+.....-  ..                +.|...
T Consensus        16 ~diiGq~~i~~~L~~~i~~~~i-----~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c~nc~~i~~g~~~d~   90 (486)
T PRK14953         16 KEVIGQEIVVRILKNAVKLQRV-----SHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKCENCVEIDKGSFPDL   90 (486)
T ss_pred             HHccChHHHHHHHHHHHHcCCC-----CeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCccHHHHHHhcCCCCcE
Confidence            3588999999999998865422     246778999999999999988764210  00                001111


Q ss_pred             EEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHH-hCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEE
Q 047559          246 AWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRA-VDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKI  324 (444)
Q Consensus       246 ~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~i  324 (444)
                      +++..+...                  ...+...+...+... ..+++-++|+|+++.......+.|...+........+
T Consensus        91 ~eidaas~~------------------gvd~ir~I~~~~~~~P~~~~~KVvIIDEad~Lt~~a~naLLk~LEepp~~~v~  152 (486)
T PRK14953         91 IEIDAASNR------------------GIDDIRALRDAVSYTPIKGKYKVYIIDEAHMLTKEAFNALLKTLEEPPPRTIF  152 (486)
T ss_pred             EEEeCccCC------------------CHHHHHHHHHHHHhCcccCCeeEEEEEChhhcCHHHHHHHHHHHhcCCCCeEE
Confidence            222111111                  011112222222211 1356679999999877666677777777665555566


Q ss_pred             EEec-CChHHHh-hcCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHH
Q 047559          325 IVTT-RHAHVAA-TMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLG  395 (444)
Q Consensus       325 ivTT-r~~~va~-~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~  395 (444)
                      |++| +...+.. .......+.+.+++.++....+...+-..+-...    ......|++.++|.+..+....
T Consensus       153 Il~tt~~~kl~~tI~SRc~~i~f~~ls~~el~~~L~~i~k~egi~id----~~al~~La~~s~G~lr~al~~L  221 (486)
T PRK14953        153 ILCTTEYDKIPPTILSRCQRFIFSKPTKEQIKEYLKRICNEEKIEYE----EKALDLLAQASEGGMRDAASLL  221 (486)
T ss_pred             EEEECCHHHHHHHHHHhceEEEcCCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHHHHHH
Confidence            5555 3333332 1223357889999999998888776533221111    2334568888999876555444

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=98.43  E-value=1.2e-05  Score=80.11  Aligned_cols=185  Identities=13%  Similarity=0.081  Sum_probs=109.6

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCC
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDG  290 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~  290 (444)
                      ...+.|+|..|+|||+|++.+.+...... .-..+++++      ..+++..+...+....       .....+.+.+. 
T Consensus       141 ~npl~i~G~~G~GKTHLl~Ai~~~l~~~~-~~~~v~yv~------~~~f~~~~~~~l~~~~-------~~~~~~~~~~~-  205 (450)
T PRK14087        141 YNPLFIYGESGMGKTHLLKAAKNYIESNF-SDLKVSYMS------GDEFARKAVDILQKTH-------KEIEQFKNEIC-  205 (450)
T ss_pred             cCceEEECCCCCcHHHHHHHHHHHHHHhC-CCCeEEEEE------HHHHHHHHHHHHHHhh-------hHHHHHHHHhc-
Confidence            35689999999999999999988543221 112333443      3466667666654311       11223333333 


Q ss_pred             ceEEEEEeCCCCCCh-hcH-HHhhcccCC-CCCCcEEEEecCCh---------HHHhhcCCCCcccCCCCChHhHHHHHH
Q 047559          291 KKLLLVLDDVWNEDY-CLW-EDLKAPFLA-AAPNSKIIVTTRHA---------HVAATMEPIQQYNLQCLSDEDCWSLFM  358 (444)
Q Consensus       291 kr~LlVlDdv~~~~~-~~~-~~l~~~l~~-~~~gs~iivTTr~~---------~va~~~~~~~~~~l~~L~~~~~~~lf~  358 (444)
                      ..-+|||||+..... ..+ +.+...+.. ...|..||+|+...         .+...+...-++.+++++.++..+++.
T Consensus       206 ~~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd~~P~~l~~l~~rL~SR~~~Gl~~~L~~pd~e~r~~iL~  285 (450)
T PRK14087        206 QNDVLIIDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSDKSPELLNGFDNRLITRFNMGLSIAIQKLDNKTATAIIK  285 (450)
T ss_pred             cCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECCCCHHHHhhccHHHHHHHhCCceeccCCcCHHHHHHHHH
Confidence            334888999966431 122 233333322 23455788887643         222333444567899999999999999


Q ss_pred             HhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHHHh------c---CC-CHHHHHHHHhc
Q 047559          359 MHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLL------R---SK-RHDEWDEILNS  412 (444)
Q Consensus       359 ~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~~L------~---~~-~~~~w~~~l~~  412 (444)
                      +++-..+ .. ....+++..-|++.++|.|-.+..+...|      .   .. +.+.-+.++..
T Consensus       286 ~~~~~~g-l~-~~l~~evl~~Ia~~~~gd~R~L~gaL~~l~~~a~~~~~~~~it~~~v~~~l~~  347 (450)
T PRK14087        286 KEIKNQN-IK-QEVTEEAINFISNYYSDDVRKIKGSVSRLNFWSQQNPEEKIITIEIVSDLFRD  347 (450)
T ss_pred             HHHHhcC-CC-CCCCHHHHHHHHHccCCCHHHHHHHHHHHHHHHhcccCCCCCCHHHHHHHHhh
Confidence            8874321 10 12335566789999999998776665433      2   12 55666666654

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

Probab=98.40  E-value=1.4e-05  Score=76.77  Aligned_cols=209  Identities=16%  Similarity=0.131  Sum_probs=124.5

Q ss_pred             cCCcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHH
Q 047559          182 TERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISR  261 (444)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~  261 (444)
                      .+..++||+.|+..+.+++...-..  ...+.+-|.|.+|.|||.+...++.+..-.. .-.+++++++-.-.....++.
T Consensus       148 ~p~~l~gRe~e~~~v~~F~~~hle~--~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~-~~~~~v~inc~sl~~~~aiF~  224 (529)
T KOG2227|consen  148 PPGTLKGRELEMDIVREFFSLHLEL--NTSGSLYVSGQPGTGKTALLSRVLDSLSKSS-KSPVTVYINCTSLTEASAIFK  224 (529)
T ss_pred             CCCCccchHHHHHHHHHHHHhhhhc--ccCcceEeeCCCCcchHHHHHHHHHhhhhhc-ccceeEEEeeccccchHHHHH
Confidence            3567999999999999988653221  4457899999999999999999998753222 122557777766567788888


Q ss_pred             HHHHHhccCCCCcccHHHHHHHHHHHhCC-c-eEEEEEeCCCCCChhcHHHhhcccCC-CCCCcEEEEecCChHH--H--
Q 047559          262 ALLESITFASCDLKALNEVQVQIKRAVDG-K-KLLLVLDDVWNEDYCLWEDLKAPFLA-AAPNSKIIVTTRHAHV--A--  334 (444)
Q Consensus       262 ~il~~l~~~~~~~~~~~~~~~~l~~~l~~-k-r~LlVlDdv~~~~~~~~~~l~~~l~~-~~~gs~iivTTr~~~v--a--  334 (444)
                      .|...+...........+.+..+.....+ + .+|+|+|+++......-..+...|.+ ..+++++|+.---..+  .  
T Consensus       225 kI~~~~~q~~~s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~~~vLy~lFewp~lp~sr~iLiGiANslDlTdR  304 (529)
T KOG2227|consen  225 KIFSSLLQDLVSPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHLITRSQTVLYTLFEWPKLPNSRIILIGIANSLDLTDR  304 (529)
T ss_pred             HHHHHHHHHhcCCchhHHHHHHHHHHHhcccceEEEEechhhHHhhcccceeeeehhcccCCcceeeeeeehhhhhHHHH
Confidence            88887722211111224455566666643 3 68999999965422222233333332 3456666654321111  1  


Q ss_pred             --hhc-----CCCCcccCCCCChHhHHHHHHHhhccCCCC-CccchHHHHHHHHHHHcCCChHHHHH
Q 047559          335 --ATM-----EPIQQYNLQCLSDEDCWSLFMMHAFVGQDI-TAQQISDLFREKVVGKCGGLPLAAKT  393 (444)
Q Consensus       335 --~~~-----~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~-~~~~~~~~~~~~i~~~~~G~Plai~~  393 (444)
                        ..+     .....+...|.+.++..++|..+.-..... ..+..++..+++++.-.|.+=-|+.+
T Consensus       305 ~LprL~~~~~~~P~~l~F~PYTk~qI~~Il~~rl~~~~t~~~~~~Aie~~ArKvaa~SGDlRkaLdv  371 (529)
T KOG2227|consen  305 FLPRLNLDLTIKPKLLVFPPYTKDQIVEILQQRLSEESTSIFLNAAIELCARKVAAPSGDLRKALDV  371 (529)
T ss_pred             HhhhhhhccCCCCceeeecCCCHHHHHHHHHHHHhcccccccchHHHHHHHHHhccCchhHHHHHHH
Confidence              111     123567788999999999999987443221 22223444444444433444444433

>TIGR00767 rho transcription termination factor Rho

Probab=98.36  E-value=1.1e-06  Score=84.02  Aligned_cols=89  Identities=21%  Similarity=0.230  Sum_probs=64.4

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCC--CCHHHHHHHHHHHhccCCCCcccHH------HHHHH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDD--FDVLNISRALLESITFASCDLKALN------EVQVQ  283 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~--~~~~~~~~~il~~l~~~~~~~~~~~------~~~~~  283 (444)
                      ..++|+|++|+|||||++.+++.....  +|+..+|+.+++.  .++.++++.++..+-....+.....      ...+.
T Consensus       169 q~~~IvG~~g~GKTtL~~~i~~~I~~n--hfdv~v~VlLIgER~~EVtDLqrsIlg~Vvast~d~p~~~~~~va~~v~e~  246 (415)
T TIGR00767       169 QRGLIVAPPKAGKTVLLQKIAQAITRN--HPEVELIVLLIDERPEEVTDMQRSVKGEVVASTFDEPASRHVQVAEMVIEK  246 (415)
T ss_pred             CEEEEECCCCCChhHHHHHHHHhhccc--CCceEEEEEEcCCCCccHHHHHHHhhceEEEecCCCChHHHHHHHHHHHHH
Confidence            689999999999999999999985432  7999999999866  7899999998665544333322111      11222


Q ss_pred             HHHH-hCCceEEEEEeCCCC
Q 047559          284 IKRA-VDGKKLLLVLDDVWN  302 (444)
Q Consensus       284 l~~~-l~~kr~LlVlDdv~~  302 (444)
                      ...+ -.+++++|++|++..
T Consensus       247 Ae~~~~~GkdVVLlIDEitR  266 (415)
T TIGR00767       247 AKRLVEHKKDVVILLDSITR  266 (415)
T ss_pred             HHHHHHcCCCeEEEEEChhH
Confidence            2222 268999999999965

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

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.36  E-value=1.6e-05  Score=81.69  Aligned_cols=198  Identities=14%  Similarity=0.151  Sum_probs=106.9

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEE-eCCCCCHHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVC-VSDDFDVLNISRA  262 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~-vs~~~~~~~~~~~  262 (444)
                      ..++|.+.-+..|...+..+.-     ...+.++|+.|+||||+|+.+.+...-.. .++.-.|.. +..++..-...+.
T Consensus        16 ~eivGQe~i~~~L~~~i~~~ri-----~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~-~~~~~~~~~~~~~~Cg~C~sC~~   89 (620)
T PRK14954         16 ADITAQEHITHTIQNSLRMDRV-----GHGYIFSGLRGVGKTTAARVFAKAVNCQR-MIDDPVYLQEVTEPCGECESCRD   89 (620)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCC-----CeeEEEECCCCCCHHHHHHHHHHHhCCCC-cCCccccccccCCCCccCHHHHH
Confidence            3589999999988888765322     24588999999999999988876532110 010000110 0000000000011


Q ss_pred             HHHHhcc-----CCCCcccHHHHHHHHHHH----hCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEec-CChH
Q 047559          263 LLESITF-----ASCDLKALNEVQVQIKRA----VDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTT-RHAH  332 (444)
Q Consensus       263 il~~l~~-----~~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTT-r~~~  332 (444)
                      +...-..     ........+++...+...    ..+++-++|+|+++..+....+.|...+......+.+|++| +...
T Consensus        90 ~~~g~~~n~~~~d~~s~~~vd~Ir~l~e~~~~~P~~~~~KVvIIdEad~Lt~~a~naLLK~LEePp~~tv~IL~t~~~~k  169 (620)
T PRK14954         90 FDAGTSLNISEFDAASNNSVDDIRQLRENVRYGPQKGRYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHAIFIFATTELHK  169 (620)
T ss_pred             HhccCCCCeEEecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEeChhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhh
Confidence            1000000     000011122222221111    23445578999998876667788888877655566655554 4344


Q ss_pred             HHh-hcCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHH
Q 047559          333 VAA-TMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAA  391 (444)
Q Consensus       333 va~-~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai  391 (444)
                      +.. .......+++.+++.++....+.+.+-..+...    ..+.+..|++.++|..--+
T Consensus       170 Ll~TI~SRc~~vef~~l~~~ei~~~L~~i~~~egi~I----~~eal~~La~~s~Gdlr~a  225 (620)
T PRK14954        170 IPATIASRCQRFNFKRIPLDEIQSQLQMICRAEGIQI----DADALQLIARKAQGSMRDA  225 (620)
T ss_pred             hhHHHHhhceEEecCCCCHHHHHHHHHHHHHHcCCCC----CHHHHHHHHHHhCCCHHHH
Confidence            432 223446799999999998887776543221111    1234466889999966543

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=98.36  E-value=7.3e-06  Score=79.85  Aligned_cols=179  Identities=15%  Similarity=0.132  Sum_probs=98.5

Q ss_pred             CCcccccchhHHHHHHHHhcCCCC-------CCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCC
Q 047559          183 ERAVFGRQQDKAKMLEMVLTDTSS-------DHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFD  255 (444)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~~~~-------~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~  255 (444)
                      ..++.|.+..+++|.+.+...-..       +....+.+.|+|++|+|||+||+.+++...  . .|     +.+..   
T Consensus       121 ~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~--~-~~-----~~v~~---  189 (364)
T TIGR01242       121 YEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETN--A-TF-----IRVVG---  189 (364)
T ss_pred             HHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCC--C-CE-----Eecch---
Confidence            457899999999998876432110       012245699999999999999999998642  1 22     22221   


Q ss_pred             HHHHHHHHHHHhccCCCCcccHHHHHHHHHHHh-CCceEEEEEeCCCCCC-----------hhc---HHHhhcccC--CC
Q 047559          256 VLNISRALLESITFASCDLKALNEVQVQIKRAV-DGKKLLLVLDDVWNED-----------YCL---WEDLKAPFL--AA  318 (444)
Q Consensus       256 ~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l-~~kr~LlVlDdv~~~~-----------~~~---~~~l~~~l~--~~  318 (444)
                       .++.....   +       ........+.+.. ...+.+|+|||++...           ...   +..+...+.  ..
T Consensus       190 -~~l~~~~~---g-------~~~~~i~~~f~~a~~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~~  258 (364)
T TIGR01242       190 -SELVRKYI---G-------EGARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFDP  258 (364)
T ss_pred             -HHHHHHhh---h-------HHHHHHHHHHHHHHhcCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCCC
Confidence             11111110   0       0011112222222 3457899999986531           111   222222221  12


Q ss_pred             CCCcEEEEecCChHHHh-h-cC---CCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCCh
Q 047559          319 APNSKIIVTTRHAHVAA-T-ME---PIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLP  388 (444)
Q Consensus       319 ~~gs~iivTTr~~~va~-~-~~---~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  388 (444)
                      ..+..||.||....... . ..   -...+.+...+.++..++|..+..... ....-.+    ..+++.+.|..
T Consensus       259 ~~~v~vI~ttn~~~~ld~al~r~grfd~~i~v~~P~~~~r~~Il~~~~~~~~-l~~~~~~----~~la~~t~g~s  328 (364)
T TIGR01242       259 RGNVKVIAATNRPDILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMK-LAEDVDL----EAIAKMTEGAS  328 (364)
T ss_pred             CCCEEEEEecCChhhCChhhcCcccCceEEEeCCcCHHHHHHHHHHHHhcCC-CCccCCH----HHHHHHcCCCC
Confidence            34677888887543221 1 11   124688999999999999988764322 1111123    45777787764

Many proteins may score above the trusted cutoff because an internal

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=98.35  E-value=5.2e-06  Score=79.39  Aligned_cols=147  Identities=16%  Similarity=0.162  Sum_probs=84.4

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRAL  263 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~i  263 (444)
                      ..++|.+...+.+..++...     .-..++.++|++|+|||++|+.+++...  .    ....++.+. .. .+.++..
T Consensus        21 ~~~~~~~~~~~~l~~~~~~~-----~~~~~lll~G~~G~GKT~la~~l~~~~~--~----~~~~i~~~~-~~-~~~i~~~   87 (316)
T PHA02544         21 DECILPAADKETFKSIVKKG-----RIPNMLLHSPSPGTGKTTVAKALCNEVG--A----EVLFVNGSD-CR-IDFVRNR   87 (316)
T ss_pred             HHhcCcHHHHHHHHHHHhcC-----CCCeEEEeeCcCCCCHHHHHHHHHHHhC--c----cceEeccCc-cc-HHHHHHH
Confidence            46899999999999988643     2236788899999999999999987631  1    123344433 11 1111111


Q ss_pred             HHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCC-ChhcHHHhhcccCCCCCCcEEEEecCChHHH-h-hcCCC
Q 047559          264 LESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNE-DYCLWEDLKAPFLAAAPNSKIIVTTRHAHVA-A-TMEPI  340 (444)
Q Consensus       264 l~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~-~~~~~~~l~~~l~~~~~gs~iivTTr~~~va-~-~~~~~  340 (444)
                      +..+...             .  .+.+.+-+||+||++.. .......+...+.....++++|+||...... . ..+..
T Consensus        88 l~~~~~~-------------~--~~~~~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~~~l~~~l~sR~  152 (316)
T PHA02544         88 LTRFAST-------------V--SLTGGGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNKNGIIEPLRSRC  152 (316)
T ss_pred             HHHHHHh-------------h--cccCCCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCChhhchHHHHhhc
Confidence            1111000             0  01134557899999765 2223344544454445677888888654311 1 11222


Q ss_pred             CcccCCCCChHhHHHHHH
Q 047559          341 QQYNLQCLSDEDCWSLFM  358 (444)
Q Consensus       341 ~~~~l~~L~~~~~~~lf~  358 (444)
                      ..+.+...+.++..+++.
T Consensus       153 ~~i~~~~p~~~~~~~il~  170 (316)
T PHA02544        153 RVIDFGVPTKEEQIEMMK  170 (316)
T ss_pred             eEEEeCCCCHHHHHHHHH
Confidence            456777777777765544

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=98.35  E-value=2.8e-05  Score=78.25  Aligned_cols=181  Identities=13%  Similarity=0.107  Sum_probs=110.6

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcccccc-------------------CCcce
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVED-------------------SKFDV  244 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~-------------------~~f~~  244 (444)
                      ..++|.+.-...+...+....     -.....++|+.|+||||+|+.+.+..--..                   .|++ 
T Consensus        14 deiiGqe~v~~~L~~~I~~gr-----l~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C~~C~~~~~~~h~d-   87 (535)
T PRK08451         14 DELIGQESVSKTLSLALDNNR-----LAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTCIQCQSALENRHID-   87 (535)
T ss_pred             HHccCcHHHHHHHHHHHHcCC-----CCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhhcCCCe-
Confidence            358999988899988886432     224678999999999999998775431000                   0111 


Q ss_pred             eEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHH--H--hCCceEEEEEeCCCCCChhcHHHhhcccCCCCC
Q 047559          245 KAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKR--A--VDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAP  320 (444)
Q Consensus       245 ~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~--~--l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~  320 (444)
                      .+.+..+...                     ..+.+...+..  +  ..+++-++|+|+++..+....+.|...+.....
T Consensus        88 v~eldaas~~---------------------gId~IRelie~~~~~P~~~~~KVvIIDEad~Lt~~A~NALLK~LEEpp~  146 (535)
T PRK08451         88 IIEMDAASNR---------------------GIDDIRELIEQTKYKPSMARFKIFIIDEVHMLTKEAFNALLKTLEEPPS  146 (535)
T ss_pred             EEEecccccc---------------------CHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHHhhcCC
Confidence            1111111111                     12222222211  0  124556899999988877778888888876666


Q ss_pred             CcEEEEecCCh-HHHh-hcCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHH
Q 047559          321 NSKIIVTTRHA-HVAA-TMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLG  395 (444)
Q Consensus       321 gs~iivTTr~~-~va~-~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~  395 (444)
                      .+++|++|.+. .+.. .......+++.+++.++....+.+.+-..+-...    +.....|++.++|.+--+..+.
T Consensus       147 ~t~FIL~ttd~~kL~~tI~SRc~~~~F~~Ls~~ei~~~L~~Il~~EGi~i~----~~Al~~Ia~~s~GdlR~alnlL  219 (535)
T PRK08451        147 YVKFILATTDPLKLPATILSRTQHFRFKQIPQNSIISHLKTILEKEGVSYE----PEALEILARSGNGSLRDTLTLL  219 (535)
T ss_pred             ceEEEEEECChhhCchHHHhhceeEEcCCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCcHHHHHHHH
Confidence            77777777653 2111 1223367899999999998888766533221111    2345678999999886555543

>PF14516 AAA_35: AAA-like domain

Probab=98.33  E-value=4.8e-05  Score=72.94  Aligned_cols=201  Identities=14%  Similarity=0.098  Sum_probs=118.8

Q ss_pred             CCcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCC-----CCHH
Q 047559          183 ERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDD-----FDVL  257 (444)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~-----~~~~  257 (444)
                      .+.+|.|....+++.+.|...+       ..+.|.|+..+|||+|...+.+.....  .+ ..+++++..-     .+..
T Consensus        10 ~~~Yi~R~~~e~~~~~~i~~~G-------~~~~I~apRq~GKTSll~~l~~~l~~~--~~-~~v~id~~~~~~~~~~~~~   79 (331)
T PF14516_consen   10 SPFYIERPPAEQECYQEIVQPG-------SYIRIKAPRQMGKTSLLLRLLERLQQQ--GY-RCVYIDLQQLGSAIFSDLE   79 (331)
T ss_pred             CCcccCchHHHHHHHHHHhcCC-------CEEEEECcccCCHHHHHHHHHHHHHHC--CC-EEEEEEeecCCCcccCCHH
Confidence            4457788867777777776532       589999999999999999998775433  23 4457776542     2456


Q ss_pred             HHHHHHHHHhccCCCC-----------cccHHHHHHHHHHHh---CCceEEEEEeCCCCCCh--h---c-HHHhhcccCC
Q 047559          258 NISRALLESITFASCD-----------LKALNEVQVQIKRAV---DGKKLLLVLDDVWNEDY--C---L-WEDLKAPFLA  317 (444)
Q Consensus       258 ~~~~~il~~l~~~~~~-----------~~~~~~~~~~l~~~l---~~kr~LlVlDdv~~~~~--~---~-~~~l~~~l~~  317 (444)
                      ++++.++..+...-.-           ..........+.+++   .+++.+|+||+++..-.  .   + +..|+.-...
T Consensus        80 ~f~~~~~~~i~~~L~l~~~l~~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~l~~~~~~~~dF~~~LR~~~~~  159 (331)
T PF14516_consen   80 QFLRWFCEEISRQLKLDEKLDEYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDRLFEYPQIADDFFGLLRSWYEQ  159 (331)
T ss_pred             HHHHHHHHHHHHHcCCChhHHHHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhhhccCcchHHHHHHHHHHHHHh
Confidence            6666666555432210           111222333444433   36899999999965321  1   1 1222211111


Q ss_pred             CC-----CCcE-EEEecCChHHHhh-----cCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCC
Q 047559          318 AA-----PNSK-IIVTTRHAHVAAT-----MEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGG  386 (444)
Q Consensus       318 ~~-----~gs~-iivTTr~~~va~~-----~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G  386 (444)
                      ..     ..-+ |++.+........     ++....++|.+++.+|...|+..+-..    ...+.    .++|...++|
T Consensus       160 ~~~~~~~~~L~li~~~~t~~~~~~~~~~SPFNIg~~i~L~~Ft~~ev~~L~~~~~~~----~~~~~----~~~l~~~tgG  231 (331)
T PF14516_consen  160 RKNNPIWQKLRLILAGSTEDYIILDINQSPFNIGQPIELPDFTPEEVQELAQRYGLE----FSQEQ----LEQLMDWTGG  231 (331)
T ss_pred             cccCcccceEEEEEecCcccccccCCCCCCcccccceeCCCCCHHHHHHHHHhhhcc----CCHHH----HHHHHHHHCC
Confidence            00     1112 2222211111111     111246899999999999998765311    11111    5779999999


Q ss_pred             ChHHHHHHHHHhcCC
Q 047559          387 LPLAAKTLGGLLRSK  401 (444)
Q Consensus       387 ~Plai~~~~~~L~~~  401 (444)
                      +|..+..++..+..+
T Consensus       232 hP~Lv~~~~~~l~~~  246 (331)
T PF14516_consen  232 HPYLVQKACYLLVEE  246 (331)
T ss_pred             CHHHHHHHHHHHHHc
Confidence            999999999999765

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=98.33  E-value=2.6e-05  Score=80.64  Aligned_cols=191  Identities=13%  Similarity=0.171  Sum_probs=107.6

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCc------ceeEEEEeCCCCCHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKF------DVKAWVCVSDDFDVL  257 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f------~~~~wv~vs~~~~~~  257 (444)
                      ..++|.+.-+..|...+....-     ...+.++|+.|+||||+|+.+....--.....      .|...  ....++..
T Consensus        18 ~dIiGQe~~v~~L~~aI~~~rl-----~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC~~C~~~--~~~~~Dvi   90 (725)
T PRK07133         18 DDIVGQDHIVQTLKNIIKSNKI-----SHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPCQECIEN--VNNSLDII   90 (725)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCC-----CeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCchhHHHHh--hcCCCcEE
Confidence            3588999999999998865422     25678999999999999999876421100000      00000  00000000


Q ss_pred             HHHHHHHHHhcc-CCCCcccHHHHHHHHHHH-hCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEE-ecCChHHH
Q 047559          258 NISRALLESITF-ASCDLKALNEVQVQIKRA-VDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIV-TTRHAHVA  334 (444)
Q Consensus       258 ~~~~~il~~l~~-~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiv-TTr~~~va  334 (444)
                      +        +.. +......+.++...+... ..+++-++|+|+++......+..|...+......+.+|+ |+....+.
T Consensus        91 e--------idaasn~~vd~IReLie~~~~~P~~g~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~tifILaTte~~KLl  162 (725)
T PRK07133         91 E--------MDAASNNGVDEIRELIENVKNLPTQSKYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEVHKIP  162 (725)
T ss_pred             E--------EeccccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhCCHHHHHHHHHHhhcCCCceEEEEEcCChhhhh
Confidence            0        000 000111122222222221 135666899999988777778888877766555555554 54444443


Q ss_pred             h-hcCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHH
Q 047559          335 A-TMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKT  393 (444)
Q Consensus       335 ~-~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~  393 (444)
                      . .......+++.+++.++....+...+-..+-...    ...+..|++.++|.+--+..
T Consensus       163 ~TI~SRcq~ieF~~L~~eeI~~~L~~il~kegI~id----~eAl~~LA~lS~GslR~Als  218 (725)
T PRK07133        163 LTILSRVQRFNFRRISEDEIVSRLEFILEKENISYE----KNALKLIAKLSSGSLRDALS  218 (725)
T ss_pred             HHHHhhceeEEccCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHHHH
Confidence            2 2233467999999999998888765432211111    22346688899887654433

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.32  E-value=2.9e-05  Score=80.15  Aligned_cols=184  Identities=16%  Similarity=0.175  Sum_probs=109.7

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccc--------------------cCCcc
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVE--------------------DSKFD  243 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~--------------------~~~f~  243 (444)
                      ..++|.+..++.|..++....     -...+.++|+.|+||||+|+.+.....-.                    ..+|+
T Consensus        17 ~~viGq~~~~~~L~~~i~~~~-----l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~~~~~~~~~n   91 (614)
T PRK14971         17 ESVVGQEALTTTLKNAIATNK-----LAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCVAFNEQRSYN   91 (614)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHHHHhcCCCCc
Confidence            358999999999999886532     22568899999999999998876543100                    00232


Q ss_pred             eeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcE
Q 047559          244 VKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSK  323 (444)
Q Consensus       244 ~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~  323 (444)
                      . ..+..+......+ ++.++.++....                ..+++=++|+|+++..+...++.|...+.....++.
T Consensus        92 ~-~~ld~~~~~~vd~-Ir~li~~~~~~P----------------~~~~~KVvIIdea~~Ls~~a~naLLK~LEepp~~ti  153 (614)
T PRK14971         92 I-HELDAASNNSVDD-IRNLIEQVRIPP----------------QIGKYKIYIIDEVHMLSQAAFNAFLKTLEEPPSYAI  153 (614)
T ss_pred             e-EEecccccCCHHH-HHHHHHHHhhCc----------------ccCCcEEEEEECcccCCHHHHHHHHHHHhCCCCCeE
Confidence            2 1222221111111 112222111100                123455889999988777778888888876666676


Q ss_pred             EEEec-CChHHHhh-cCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHH
Q 047559          324 IIVTT-RHAHVAAT-MEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTL  394 (444)
Q Consensus       324 iivTT-r~~~va~~-~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~  394 (444)
                      +|++| ....+... ......+++.+++.++....+.+.+-..+-...    ......|++.++|..--+...
T Consensus       154 fIL~tt~~~kIl~tI~SRc~iv~f~~ls~~ei~~~L~~ia~~egi~i~----~~al~~La~~s~gdlr~al~~  222 (614)
T PRK14971        154 FILATTEKHKILPTILSRCQIFDFNRIQVADIVNHLQYVASKEGITAE----PEALNVIAQKADGGMRDALSI  222 (614)
T ss_pred             EEEEeCCchhchHHHHhhhheeecCCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHHHHH
Confidence            66555 44444332 233467899999999998888765532221111    223466888999877644443

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=98.32  E-value=1.2e-05  Score=74.62  Aligned_cols=161  Identities=13%  Similarity=0.068  Sum_probs=80.9

Q ss_pred             cccccchhHHHHHH---HHhc------CCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCC
Q 047559          185 AVFGRQQDKAKMLE---MVLT------DTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFD  255 (444)
Q Consensus       185 ~~vGr~~~~~~l~~---~L~~------~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~  255 (444)
                      .++|.+..++.|.+   +...      .+-...+....+.++|++|+||||+|+.+++...... .-....++.++..  
T Consensus         7 ~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l~~~~-~~~~~~~v~~~~~--   83 (261)
T TIGR02881         7 RMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLFKEMN-VLSKGHLIEVERA--   83 (261)
T ss_pred             HhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHHHhcC-cccCCceEEecHH--
Confidence            37787766665543   2211      1111113456788999999999999999976531111 1111123333221  


Q ss_pred             HHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCC--------hhcHHHhhcccCCCCCCcEEEEe
Q 047559          256 VLNISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNED--------YCLWEDLKAPFLAAAPNSKIIVT  327 (444)
Q Consensus       256 ~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~--------~~~~~~l~~~l~~~~~gs~iivT  327 (444)
                        ++.    ....+     .........+...   ..-+|+||+++...        ....+.+...+........+|++
T Consensus        84 --~l~----~~~~g-----~~~~~~~~~~~~a---~~~VL~IDE~~~L~~~~~~~~~~~~i~~Ll~~~e~~~~~~~vila  149 (261)
T TIGR02881        84 --DLV----GEYIG-----HTAQKTREVIKKA---LGGVLFIDEAYSLARGGEKDFGKEAIDTLVKGMEDNRNEFVLILA  149 (261)
T ss_pred             --Hhh----hhhcc-----chHHHHHHHHHhc---cCCEEEEechhhhccCCccchHHHHHHHHHHHHhccCCCEEEEec
Confidence              111    11100     0111111222221   23488999997532        11233444444443334455666


Q ss_pred             cCChHHHh-------hcCC-CCcccCCCCChHhHHHHHHHhhc
Q 047559          328 TRHAHVAA-------TMEP-IQQYNLQCLSDEDCWSLFMMHAF  362 (444)
Q Consensus       328 Tr~~~va~-------~~~~-~~~~~l~~L~~~~~~~lf~~~~~  362 (444)
                      +.......       .... ...+.+++++.++..+++.+.+.
T Consensus       150 ~~~~~~~~~~~~~p~L~sRf~~~i~f~~~~~~el~~Il~~~~~  192 (261)
T TIGR02881       150 GYSDEMDYFLSLNPGLRSRFPISIDFPDYTVEELMEIAERMVK  192 (261)
T ss_pred             CCcchhHHHHhcChHHHhccceEEEECCCCHHHHHHHHHHHHH
Confidence            55433211       1111 13578899999999999987763

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.

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=98.32  E-value=2.7e-05  Score=77.03  Aligned_cols=181  Identities=15%  Similarity=0.077  Sum_probs=100.2

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCC
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDG  290 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~  290 (444)
                      ...+.|+|++|+|||+|++.+++...... .-..+++++      ..++...+...+...     ....    +.+.+.+
T Consensus       136 ~n~l~l~G~~G~GKThL~~ai~~~l~~~~-~~~~v~yi~------~~~~~~~~~~~~~~~-----~~~~----~~~~~~~  199 (405)
T TIGR00362       136 YNPLFIYGGVGLGKTHLLHAIGNEILENN-PNAKVVYVS------SEKFTNDFVNALRNN-----KMEE----FKEKYRS  199 (405)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHHHhC-CCCcEEEEE------HHHHHHHHHHHHHcC-----CHHH----HHHHHHh
Confidence            35689999999999999999998753221 112345554      334444555544321     1222    2223322


Q ss_pred             ceEEEEEeCCCCCChhc-H-HHhhcccCC-CCCCcEEEEecCCh-H--------HHhhcCCCCcccCCCCChHhHHHHHH
Q 047559          291 KKLLLVLDDVWNEDYCL-W-EDLKAPFLA-AAPNSKIIVTTRHA-H--------VAATMEPIQQYNLQCLSDEDCWSLFM  358 (444)
Q Consensus       291 kr~LlVlDdv~~~~~~~-~-~~l~~~l~~-~~~gs~iivTTr~~-~--------va~~~~~~~~~~l~~L~~~~~~~lf~  358 (444)
                       .-+|+|||++...... + +.+...+.. ...+..+|+|+... .        +...+.....+.+++.+.++-..++.
T Consensus       200 -~dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~~~~~iiits~~~p~~l~~l~~~l~SRl~~g~~v~i~~pd~~~r~~il~  278 (405)
T TIGR00362       200 -VDLLLIDDIQFLAGKERTQEEFFHTFNALHENGKQIVLTSDRPPKELPGLEERLRSRFEWGLVVDIEPPDLETRLAILQ  278 (405)
T ss_pred             -CCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCCEEEecCCCHHHHhhhhhhhhhhccCCeEEEeCCCCHHHHHHHHH
Confidence             3388999997542221 1 223322221 12345677777642 1        11222223468899999999999998


Q ss_pred             HhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHHH-------hcCC-CHHHHHHHHhc
Q 047559          359 MHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGL-------LRSK-RHDEWDEILNS  412 (444)
Q Consensus       359 ~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~~-------L~~~-~~~~w~~~l~~  412 (444)
                      +.+......    ..+++...|++.+.|.+-.+.-+-..       .... +.+..+.++..
T Consensus       279 ~~~~~~~~~----l~~e~l~~ia~~~~~~~r~l~~~l~~l~~~a~~~~~~it~~~~~~~L~~  336 (405)
T TIGR00362       279 KKAEEEGLE----LPDEVLEFIAKNIRSNVRELEGALNRLLAYASLTGKPITLELAKEALKD  336 (405)
T ss_pred             HHHHHcCCC----CCHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHH
Confidence            887432211    12345566888888766543332211       1222 66677777664

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).

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

Probab=98.31  E-value=4.9e-05  Score=71.25  Aligned_cols=169  Identities=15%  Similarity=0.195  Sum_probs=104.6

Q ss_pred             CCcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHH
Q 047559          183 ERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRA  262 (444)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~  262 (444)
                      ++.|.+|+.++..+...+...+.   .-..+|.|.|-+|.|||.+.+++++....      ..+|+++-..++..-++..
T Consensus         5 ~~~v~~Re~qi~~L~~Llg~~~~---~~PS~~~iyG~sgTGKT~~~r~~l~~~n~------~~vw~n~~ecft~~~lle~   75 (438)
T KOG2543|consen    5 EPNVPCRESQIRRLKSLLGNNSC---TIPSIVHIYGHSGTGKTYLVRQLLRKLNL------ENVWLNCVECFTYAILLEK   75 (438)
T ss_pred             ccCccchHHHHHHHHHHhCCCCc---ccceeEEEeccCCCchhHHHHHHHhhcCC------cceeeehHHhccHHHHHHH
Confidence            56788999999999998865442   23466799999999999999999987522      3489999999999999999


Q ss_pred             HHHHhccCCCCc-------ccHHHHHHHHHHH--h--CCceEEEEEeCCCCCChh---cHHHhhcccCCCCCCcEEEEec
Q 047559          263 LLESITFASCDL-------KALNEVQVQIKRA--V--DGKKLLLVLDDVWNEDYC---LWEDLKAPFLAAAPNSKIIVTT  328 (444)
Q Consensus       263 il~~l~~~~~~~-------~~~~~~~~~l~~~--l--~~kr~LlVlDdv~~~~~~---~~~~l~~~l~~~~~gs~iivTT  328 (444)
                      |+.+......+.       .+.......+.++  .  .++.++||||+++.....   -...+.....--.....+|+++
T Consensus        76 IL~~~~~~d~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~lrD~~a~ll~~l~~L~el~~~~~i~iils  155 (438)
T KOG2543|consen   76 ILNKSQLADKDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADALRDMDAILLQCLFRLYELLNEPTIVIILS  155 (438)
T ss_pred             HHHHhccCCCchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHhhhccchHHHHHHHHHHHHhCCCceEEEEe
Confidence            999985222211       2222333333331  1  256899999999654211   1121111111111123344444


Q ss_pred             CChHHH---hhcCCC--CcccCCCCChHhHHHHHHHh
Q 047559          329 RHAHVA---ATMEPI--QQYNLQCLSDEDCWSLFMMH  360 (444)
Q Consensus       329 r~~~va---~~~~~~--~~~~l~~L~~~~~~~lf~~~  360 (444)
                      -...-.   ..++..  .++....-+.++...++.+.
T Consensus       156 ~~~~e~~y~~n~g~~~i~~l~fP~Ys~~e~~~Il~~~  192 (438)
T KOG2543|consen  156 APSCEKQYLINTGTLEIVVLHFPQYSVEETQVILSRD  192 (438)
T ss_pred             ccccHHHhhcccCCCCceEEecCCCCHHHHHHHHhcC
Confidence            332222   113333  33556777888888887654

>CHL00181 cbbX CbbX; Provisional

Probab=98.31  E-value=5.5e-05  Score=70.81  Aligned_cols=135  Identities=13%  Similarity=0.084  Sum_probs=74.1

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGK  291 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  291 (444)
                      ..+.++|++|+||||+|+.++......+ .-...-|+.++..    +    +...+.+..     .......+.+.   .
T Consensus        60 ~~ill~G~pGtGKT~lAr~la~~~~~~g-~~~~~~~~~v~~~----~----l~~~~~g~~-----~~~~~~~l~~a---~  122 (287)
T CHL00181         60 LHMSFTGSPGTGKTTVALKMADILYKLG-YIKKGHLLTVTRD----D----LVGQYIGHT-----APKTKEVLKKA---M  122 (287)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHcC-CCCCCceEEecHH----H----HHHHHhccc-----hHHHHHHHHHc---c
Confidence            4588999999999999999976532111 1111225554421    2    222221111     01111222222   2


Q ss_pred             eEEEEEeCCCCC---------ChhcHHHhhcccCCCCCCcEEEEecCChHHHhhc--------CCCCcccCCCCChHhHH
Q 047559          292 KLLLVLDDVWNE---------DYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAATM--------EPIQQYNLQCLSDEDCW  354 (444)
Q Consensus       292 r~LlVlDdv~~~---------~~~~~~~l~~~l~~~~~gs~iivTTr~~~va~~~--------~~~~~~~l~~L~~~~~~  354 (444)
                      .-+|+||++...         .......|...+.+...+.+||+++....+....        .-...+.+++++.++..
T Consensus       123 ggVLfIDE~~~l~~~~~~~~~~~e~~~~L~~~me~~~~~~~vI~ag~~~~~~~~~~~np~L~sR~~~~i~F~~~t~~el~  202 (287)
T CHL00181        123 GGVLFIDEAYYLYKPDNERDYGSEAIEILLQVMENQRDDLVVIFAGYKDRMDKFYESNPGLSSRIANHVDFPDYTPEELL  202 (287)
T ss_pred             CCEEEEEccchhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhcCHHHHHhCCceEEcCCcCHHHHH
Confidence            349999999642         1122333444454445566777777654443211        11246889999999999


Q ss_pred             HHHHHhhcc
Q 047559          355 SLFMMHAFV  363 (444)
Q Consensus       355 ~lf~~~~~~  363 (444)
                      +++...+-.
T Consensus       203 ~I~~~~l~~  211 (287)
T CHL00181        203 QIAKIMLEE  211 (287)
T ss_pred             HHHHHHHHH
Confidence            998877643

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

Probab=98.28  E-value=5.3e-06  Score=80.80  Aligned_cols=117  Identities=15%  Similarity=0.148  Sum_probs=77.0

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRAL  263 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~i  263 (444)
                      ..+++.+...+.+...|...        +.+.++|++|+|||++|+.+++...... .|+.+.||+++..++..+++..+
T Consensus       175 ~d~~i~e~~le~l~~~L~~~--------~~iil~GppGtGKT~lA~~la~~l~~~~-~~~~v~~VtFHpsySYeDFI~G~  245 (459)
T PRK11331        175 NDLFIPETTIETILKRLTIK--------KNIILQGPPGVGKTFVARRLAYLLTGEK-APQRVNMVQFHQSYSYEDFIQGY  245 (459)
T ss_pred             hcccCCHHHHHHHHHHHhcC--------CCEEEECCCCCCHHHHHHHHHHHhcCCc-ccceeeEEeecccccHHHHhccc
Confidence            45788899999999988643        4688899999999999999998764444 68888999999988877665433


Q ss_pred             HHHhccCCCCccc-HHHHHHHHHHHh--CCceEEEEEeCCCCCChhc-HHHhhc
Q 047559          264 LESITFASCDLKA-LNEVQVQIKRAV--DGKKLLLVLDDVWNEDYCL-WEDLKA  313 (444)
Q Consensus       264 l~~l~~~~~~~~~-~~~~~~~l~~~l--~~kr~LlVlDdv~~~~~~~-~~~l~~  313 (444)
                      .    .......- .....+.+....  .+++++||+|++...+... +..+..
T Consensus       246 r----P~~vgy~~~~G~f~~~~~~A~~~p~~~~vliIDEINRani~kiFGel~~  295 (459)
T PRK11331        246 R----PNGVGFRRKDGIFYNFCQQAKEQPEKKYVFIIDEINRANLSKVFGEVMM  295 (459)
T ss_pred             C----CCCCCeEecCchHHHHHHHHHhcccCCcEEEEehhhccCHHHhhhhhhh
Confidence            1    11101000 011122222222  2468999999997765443 444433

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=98.28  E-value=4.5e-05  Score=76.04  Aligned_cols=180  Identities=14%  Similarity=0.145  Sum_probs=104.5

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcccccc--------------------CCcc
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVED--------------------SKFD  243 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~--------------------~~f~  243 (444)
                      .+++|.+..+..+..++....     -...+.++|+.|+||||+|+.+.+...-..                    .+++
T Consensus        17 ~diiGq~~~v~~L~~~i~~~~-----i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C~~i~~~~~~d   91 (451)
T PRK06305         17 SEILGQDAVVAVLKNALRFNR-----AAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASCKEISSGTSLD   91 (451)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHHHHHhcCCCCc
Confidence            468999999999999886532     125688999999999999998876431110                    0111


Q ss_pred             eeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHH-hCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCc
Q 047559          244 VKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRA-VDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNS  322 (444)
Q Consensus       244 ~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs  322 (444)
                       .+++........                  ..+.++...+... ..+++-++|+|+++.......+.|...+......+
T Consensus        92 -~~~i~g~~~~gi------------------d~ir~i~~~l~~~~~~~~~kvvIIdead~lt~~~~n~LLk~lEep~~~~  152 (451)
T PRK06305         92 -VLEIDGASHRGI------------------EDIRQINETVLFTPSKSRYKIYIIDEVHMLTKEAFNSLLKTLEEPPQHV  152 (451)
T ss_pred             -eEEeeccccCCH------------------HHHHHHHHHHHhhhhcCCCEEEEEecHHhhCHHHHHHHHHHhhcCCCCc
Confidence             111111111001                  1111111111111 12556688999997766556677777776655566


Q ss_pred             EEEEecCCh-HHHh-hcCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHH
Q 047559          323 KIIVTTRHA-HVAA-TMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAA  391 (444)
Q Consensus       323 ~iivTTr~~-~va~-~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai  391 (444)
                      .+|++|... .+.. .......+++.++++++....+...+-..+-..    .++....|++.++|.+--+
T Consensus       153 ~~Il~t~~~~kl~~tI~sRc~~v~f~~l~~~el~~~L~~~~~~eg~~i----~~~al~~L~~~s~gdlr~a  219 (451)
T PRK06305        153 KFFLATTEIHKIPGTILSRCQKMHLKRIPEETIIDKLALIAKQEGIET----SREALLPIARAAQGSLRDA  219 (451)
T ss_pred             eEEEEeCChHhcchHHHHhceEEeCCCCCHHHHHHHHHHHHHHcCCCC----CHHHHHHHHHHcCCCHHHH
Confidence            677666432 2221 122335789999999998888776543211111    2234566888999876533

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=98.28  E-value=2.7e-06  Score=91.05  Aligned_cols=155  Identities=17%  Similarity=0.159  Sum_probs=86.4

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcccccc---CCcceeEE-EEeCCCCCHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVED---SKFDVKAW-VCVSDDFDVLNI  259 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~---~~f~~~~w-v~vs~~~~~~~~  259 (444)
                      ..++||+.++.++++.|.....      .-+.++|++|+||||+|+.+.+......   ...+..+| +.++.-      
T Consensus       187 d~~iGr~~ei~~~i~~l~r~~~------~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~l------  254 (852)
T TIGR03345       187 DPVLGRDDEIRQMIDILLRRRQ------NNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGLL------  254 (852)
T ss_pred             CcccCCHHHHHHHHHHHhcCCc------CceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhhh------
Confidence            4689999999999999876543      3457999999999999999987632111   01223333 222210      


Q ss_pred             HHHHHHHhccCCCCcccH-HHHHHHHHHHh-CCceEEEEEeCCCCCCh-------hcHH-HhhcccCCCCCCcEEEEecC
Q 047559          260 SRALLESITFASCDLKAL-NEVQVQIKRAV-DGKKLLLVLDDVWNEDY-------CLWE-DLKAPFLAAAPNSKIIVTTR  329 (444)
Q Consensus       260 ~~~il~~l~~~~~~~~~~-~~~~~~l~~~l-~~kr~LlVlDdv~~~~~-------~~~~-~l~~~l~~~~~gs~iivTTr  329 (444)
                              .......... ..+...+.+.- .+++.+|++|+++....       .+-. .++..+.  ...-++|-||.
T Consensus       255 --------~ag~~~~ge~e~~lk~ii~e~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp~l~--~G~l~~IgaTT  324 (852)
T TIGR03345       255 --------QAGASVKGEFENRLKSVIDEVKASPQPIILFIDEAHTLIGAGGQAGQGDAANLLKPALA--RGELRTIAATT  324 (852)
T ss_pred             --------hcccccchHHHHHHHHHHHHHHhcCCCeEEEEeChHHhccCCCccccccHHHHhhHHhh--CCCeEEEEecC
Confidence                    0000000011 11112222221 24689999999976421       1111 1222221  12345666666


Q ss_pred             ChHHHhh-------cCCCCcccCCCCChHhHHHHHHHh
Q 047559          330 HAHVAAT-------MEPIQQYNLQCLSDEDCWSLFMMH  360 (444)
Q Consensus       330 ~~~va~~-------~~~~~~~~l~~L~~~~~~~lf~~~  360 (444)
                      .+.+...       ......+.+++++.++..+++...
T Consensus       325 ~~e~~~~~~~d~AL~rRf~~i~v~eps~~~~~~iL~~~  362 (852)
T TIGR03345       325 WAEYKKYFEKDPALTRRFQVVKVEEPDEETAIRMLRGL  362 (852)
T ss_pred             HHHHhhhhhccHHHHHhCeEEEeCCCCHHHHHHHHHHH
Confidence            5433221       133467999999999999997543

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.

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.27  E-value=4.1e-05  Score=79.02  Aligned_cols=198  Identities=15%  Similarity=0.156  Sum_probs=109.2

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRAL  263 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~i  263 (444)
                      ..++|.+.-+..|..++....-     ...+.++|+.|+||||+|+.++....-.  .++...    ...+..-...+.+
T Consensus        16 ~~liGq~~i~~~L~~~l~~~rl-----~~a~Lf~Gp~G~GKttlA~~lAk~L~c~--~~~~~~----~~~Cg~C~~C~~i   84 (620)
T PRK14948         16 DELVGQEAIATTLKNALISNRI-----APAYLFTGPRGTGKTSSARILAKSLNCL--NSDKPT----PEPCGKCELCRAI   84 (620)
T ss_pred             hhccChHHHHHHHHHHHHcCCC-----CceEEEECCCCCChHHHHHHHHHHhcCC--CcCCCC----CCCCcccHHHHHH
Confidence            3588999999999888865421     2467899999999999999998764211  110000    0011111111222


Q ss_pred             HHHhcc-----CCCCcccHHHHHHHHHHH----hCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCC-hHH
Q 047559          264 LESITF-----ASCDLKALNEVQVQIKRA----VDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRH-AHV  333 (444)
Q Consensus       264 l~~l~~-----~~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~-~~v  333 (444)
                      ....+.     ........+...+.+...    ..+++-++|+|+++......++.|...+......+.+|++|.+ ..+
T Consensus        85 ~~g~h~D~~ei~~~~~~~vd~IReii~~a~~~p~~~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~t~~~~~l  164 (620)
T PRK14948         85 AAGNALDVIEIDAASNTGVDNIRELIERAQFAPVQARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLATTDPQRV  164 (620)
T ss_pred             hcCCCccEEEEeccccCCHHHHHHHHHHHhhChhcCCceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEEeCChhhh
Confidence            111110     000011122222222111    1245568899999887777788888887765555655555543 333


Q ss_pred             Hhh-cCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHH
Q 047559          334 AAT-MEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGG  396 (444)
Q Consensus       334 a~~-~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~  396 (444)
                      ... ......+++..++.++....+...+-.......    ......|++.++|.+..+..+..
T Consensus       165 lpTIrSRc~~~~f~~l~~~ei~~~L~~ia~kegi~is----~~al~~La~~s~G~lr~A~~lLe  224 (620)
T PRK14948        165 LPTIISRCQRFDFRRIPLEAMVQHLSEIAEKESIEIE----PEALTLVAQRSQGGLRDAESLLD  224 (620)
T ss_pred             hHHHHhheeEEEecCCCHHHHHHHHHHHHHHhCCCCC----HHHHHHHHHHcCCCHHHHHHHHH
Confidence            222 223356788889998888777665432111111    22356788899998865544433

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

Probab=98.27  E-value=9.8e-06  Score=85.99  Aligned_cols=156  Identities=15%  Similarity=0.141  Sum_probs=86.9

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccc---cCCcceeEEEEeCCCCCHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVE---DSKFDVKAWVCVSDDFDVLNIS  260 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~---~~~f~~~~wv~vs~~~~~~~~~  260 (444)
                      +.++||+.++..+++.|.....      .-+.++|++|+|||++|+.+.+.....   ....+..+|. +    +...+.
T Consensus       182 ~~~igr~~ei~~~~~~L~~~~~------~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~-~----~~~~l~  250 (731)
T TIGR02639       182 DPLIGREDELERTIQVLCRRKK------NNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYS-L----DMGSLL  250 (731)
T ss_pred             CcccCcHHHHHHHHHHHhcCCC------CceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEE-e----cHHHHh
Confidence            3689999999999998866433      346799999999999999998764211   1011344443 1    111111


Q ss_pred             HHHHHHhccCCCCcccHHHHHHHHHHHh-CCceEEEEEeCCCCCC---------hhcHHHhhcccCCCCCC-cEEEEecC
Q 047559          261 RALLESITFASCDLKALNEVQVQIKRAV-DGKKLLLVLDDVWNED---------YCLWEDLKAPFLAAAPN-SKIIVTTR  329 (444)
Q Consensus       261 ~~il~~l~~~~~~~~~~~~~~~~l~~~l-~~kr~LlVlDdv~~~~---------~~~~~~l~~~l~~~~~g-s~iivTTr  329 (444)
                      .       ... .....++....+.+.+ ..++.+|++|+++...         ...-+.++..+.   .| -++|-+|.
T Consensus       251 a-------~~~-~~g~~e~~l~~i~~~~~~~~~~ILfiDEih~l~~~g~~~~~~~~~~~~L~~~l~---~g~i~~IgaTt  319 (731)
T TIGR02639       251 A-------GTK-YRGDFEERLKAVVSEIEKEPNAILFIDEIHTIVGAGATSGGSMDASNLLKPALS---SGKLRCIGSTT  319 (731)
T ss_pred             h-------hcc-ccchHHHHHHHHHHHHhccCCeEEEEecHHHHhccCCCCCccHHHHHHHHHHHh---CCCeEEEEecC
Confidence            0       000 0011222222222222 3467899999997431         111222333332   23 34555554


Q ss_pred             ChHHHh-------hcCCCCcccCCCCChHhHHHHHHHhh
Q 047559          330 HAHVAA-------TMEPIQQYNLQCLSDEDCWSLFMMHA  361 (444)
Q Consensus       330 ~~~va~-------~~~~~~~~~l~~L~~~~~~~lf~~~~  361 (444)
                      ...+..       .......+.++.++.++..+++....
T Consensus       320 ~~e~~~~~~~d~al~rRf~~i~v~~p~~~~~~~il~~~~  358 (731)
T TIGR02639       320 YEEYKNHFEKDRALSRRFQKIDVGEPSIEETVKILKGLK  358 (731)
T ss_pred             HHHHHHHhhhhHHHHHhCceEEeCCCCHHHHHHHHHHHH
Confidence            433221       11234678999999999999998644

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.26  E-value=3.9e-05  Score=78.89  Aligned_cols=189  Identities=16%  Similarity=0.171  Sum_probs=104.8

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRAL  263 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~i  263 (444)
                      ..++|.+.-+..|...+....     -...+.++|+.|+||||+|+.+.+..--.. ..+.       .++..-.....|
T Consensus        16 ~~iiGq~~v~~~L~~~i~~~~-----~~hayLf~Gp~G~GKtt~A~~lak~l~c~~-~~~~-------~~c~~c~~c~~i   82 (576)
T PRK14965         16 SDLTGQEHVSRTLQNAIDTGR-----VAHAFLFTGARGVGKTSTARILAKALNCEQ-GLTA-------EPCNVCPPCVEI   82 (576)
T ss_pred             HHccCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHhhcCCC-CCCC-------CCCCccHHHHHH
Confidence            368999998999998886532     125678999999999999998876531100 0000       000000000000


Q ss_pred             HHH-------hcc-CCCCcccHHHHHHHHHHH-hCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecC-ChHH
Q 047559          264 LES-------ITF-ASCDLKALNEVQVQIKRA-VDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTR-HAHV  333 (444)
Q Consensus       264 l~~-------l~~-~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr-~~~v  333 (444)
                      ...       +.. +.....++.++...+... ..+++-++|+|+++..+....+.|...+......+.+|++|. ...+
T Consensus        83 ~~g~~~d~~eid~~s~~~v~~ir~l~~~~~~~p~~~~~KVvIIdev~~Lt~~a~naLLk~LEepp~~~~fIl~t~~~~kl  162 (576)
T PRK14965         83 TEGRSVDVFEIDGASNTGVDDIRELRENVKYLPSRSRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFATTEPHKV  162 (576)
T ss_pred             hcCCCCCeeeeeccCccCHHHHHHHHHHHHhccccCCceEEEEEChhhCCHHHHHHHHHHHHcCCCCeEEEEEeCChhhh
Confidence            000       000 000111222222222211 124455889999988777778888888876556666665554 4444


Q ss_pred             Hhh-cCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChH
Q 047559          334 AAT-MEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPL  389 (444)
Q Consensus       334 a~~-~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl  389 (444)
                      ... ......+++.+++.++....+...+-..+-...    ......|++.++|..-
T Consensus       163 ~~tI~SRc~~~~f~~l~~~~i~~~L~~i~~~egi~i~----~~al~~la~~a~G~lr  215 (576)
T PRK14965        163 PITILSRCQRFDFRRIPLQKIVDRLRYIADQEGISIS----DAALALVARKGDGSMR  215 (576)
T ss_pred             hHHHHHhhhhhhcCCCCHHHHHHHHHHHHHHhCCCCC----HHHHHHHHHHcCCCHH
Confidence            332 223357889999999988777665422211111    2334568888888664

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

Probab=98.24  E-value=9.9e-06  Score=73.68  Aligned_cols=183  Identities=16%  Similarity=0.156  Sum_probs=110.2

Q ss_pred             CCcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEE-EEeCCCCCHHHHHH
Q 047559          183 ERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAW-VCVSDDFDVLNISR  261 (444)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~w-v~vs~~~~~~~~~~  261 (444)
                      -..++|.+..+.-+...+...      .......+|++|.|||+-|..+....--.+ .|.+++- .++|..-... +.+
T Consensus        35 ~de~~gQe~vV~~L~~a~~~~------~lp~~LFyGPpGTGKTStalafar~L~~~~-~~~~rvl~lnaSderGis-vvr  106 (346)
T KOG0989|consen   35 FDELAGQEHVVQVLKNALLRR------ILPHYLFYGPPGTGKTSTALAFARALNCEQ-LFPCRVLELNASDERGIS-VVR  106 (346)
T ss_pred             HHhhcchHHHHHHHHHHHhhc------CCceEEeeCCCCCcHhHHHHHHHHHhcCcc-ccccchhhhccccccccc-chh
Confidence            346899999999999888762      346899999999999999988876643333 5655543 3444322111 100


Q ss_pred             HHHHHhccCCCCcccHHHHHHHHHHHh--CCce-EEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCChH-HHhh-
Q 047559          262 ALLESITFASCDLKALNEVQVQIKRAV--DGKK-LLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAH-VAAT-  336 (444)
Q Consensus       262 ~il~~l~~~~~~~~~~~~~~~~l~~~l--~~kr-~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~~-va~~-  336 (444)
                      .          ...+...+........  ..++ -.||||+.+....+.|..+...+......++.|+.+..-. +... 
T Consensus       107 ~----------Kik~fakl~~~~~~~~~~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s~~trFiLIcnylsrii~pi  176 (346)
T KOG0989|consen  107 E----------KIKNFAKLTVLLKRSDGYPCPPFKIIILDECDSMTSDAQAALRRTMEDFSRTTRFILICNYLSRIIRPL  176 (346)
T ss_pred             h----------hhcCHHHHhhccccccCCCCCcceEEEEechhhhhHHHHHHHHHHHhccccceEEEEEcCChhhCChHH
Confidence            0          0111111111110000  1123 3788999999888999999999888777777766555322 2111 


Q ss_pred             cCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCC
Q 047559          337 MEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGL  387 (444)
Q Consensus       337 ~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~  387 (444)
                      ...-..|..++|.+++...-+...+-..+-..++.    ..+.|++.++|.
T Consensus       177 ~SRC~KfrFk~L~d~~iv~rL~~Ia~~E~v~~d~~----al~~I~~~S~Gd  223 (346)
T KOG0989|consen  177 VSRCQKFRFKKLKDEDIVDRLEKIASKEGVDIDDD----ALKLIAKISDGD  223 (346)
T ss_pred             HhhHHHhcCCCcchHHHHHHHHHHHHHhCCCCCHH----HHHHHHHHcCCc
Confidence            11224588899999888877776653322222222    335688888884

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=98.23  E-value=6.8e-05  Score=76.55  Aligned_cols=199  Identities=17%  Similarity=0.115  Sum_probs=111.2

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRAL  263 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~i  263 (444)
                      ..++|.+.-+..|..++....     -...+.++|+.|+||||+|+.+.+..--.. ...   ...+....+-..+....
T Consensus        16 ~diiGqe~iv~~L~~~i~~~~-----i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~-~~~---~~pC~~C~~C~~i~~~~   86 (563)
T PRK06647         16 NSLEGQDFVVETLKHSIESNK-----IANAYIFSGPRGVGKTSSARAFARCLNCVN-GPT---PMPCGECSSCKSIDNDN   86 (563)
T ss_pred             HHccCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHhhcccc-CCC---CCCCccchHHHHHHcCC
Confidence            368999999999999886542     235788999999999999999987532110 000   00000000000000000


Q ss_pred             H---HHhccCC-CCcccHHHHHHHHHHH-hCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCC-hHHHhh-
Q 047559          264 L---ESITFAS-CDLKALNEVQVQIKRA-VDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRH-AHVAAT-  336 (444)
Q Consensus       264 l---~~l~~~~-~~~~~~~~~~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~-~~va~~-  336 (444)
                      .   ..+.+.. ....++.++...+... ..+++-++|+|+++..+...++.|...+......+.+|++|.. ..+... 
T Consensus        87 ~~dv~~idgas~~~vddIr~l~e~~~~~p~~~~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI~~tte~~kL~~tI  166 (563)
T PRK06647         87 SLDVIEIDGASNTSVQDVRQIKEEIMFPPASSRYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTEVHKLPATI  166 (563)
T ss_pred             CCCeEEecCcccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEEEecCChHHhHHHH
Confidence            0   0000000 0011111222221211 2355668999999887777788888887765666777666543 333222 


Q ss_pred             cCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHH
Q 047559          337 MEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLG  395 (444)
Q Consensus       337 ~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~  395 (444)
                      ......+++.+++.++....+...+...+-..    -.+....|++.++|.+-.+..+.
T Consensus       167 ~SRc~~~~f~~l~~~el~~~L~~i~~~egi~i----d~eAl~lLa~~s~GdlR~alslL  221 (563)
T PRK06647        167 KSRCQHFNFRLLSLEKIYNMLKKVCLEDQIKY----EDEALKWIAYKSTGSVRDAYTLF  221 (563)
T ss_pred             HHhceEEEecCCCHHHHHHHHHHHHHHcCCCC----CHHHHHHHHHHcCCCHHHHHHHH
Confidence            22335688999999998888877653322111    12344568889999886554443

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=98.22  E-value=4.8e-05  Score=75.71  Aligned_cols=158  Identities=16%  Similarity=0.098  Sum_probs=90.3

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhccccccCCcc-eeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhC
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFD-VKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVD  289 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~-~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~  289 (444)
                      ...+.|+|.+|+|||+|++.+.+.....  ++. .++|++.      .+++..+...+...     ....    +.+...
T Consensus       130 ~n~l~lyG~~G~GKTHLl~ai~~~l~~~--~~~~~v~yi~~------~~f~~~~~~~~~~~-----~~~~----f~~~~~  192 (440)
T PRK14088        130 YNPLFIYGGVGLGKTHLLQSIGNYVVQN--EPDLRVMYITS------EKFLNDLVDSMKEG-----KLNE----FREKYR  192 (440)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHh--CCCCeEEEEEH------HHHHHHHHHHHhcc-----cHHH----HHHHHH
Confidence            3469999999999999999999875322  233 3456653      45566666655321     1222    222333


Q ss_pred             CceEEEEEeCCCCCC-hhcH-HHhhcccCC-CCCCcEEEEecC-ChHHH--------hhcCCCCcccCCCCChHhHHHHH
Q 047559          290 GKKLLLVLDDVWNED-YCLW-EDLKAPFLA-AAPNSKIIVTTR-HAHVA--------ATMEPIQQYNLQCLSDEDCWSLF  357 (444)
Q Consensus       290 ~kr~LlVlDdv~~~~-~~~~-~~l~~~l~~-~~~gs~iivTTr-~~~va--------~~~~~~~~~~l~~L~~~~~~~lf  357 (444)
                      .+.-+|+|||++... ...+ ..+...+.. ...|..||+||. .+.-.        ..+....++.+++.+.+.-.+++
T Consensus       193 ~~~dvLlIDDi~~l~~~~~~q~elf~~~n~l~~~~k~iIitsd~~p~~l~~l~~rL~SR~~~gl~v~i~~pd~e~r~~IL  272 (440)
T PRK14088        193 KKVDVLLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEETRKKIA  272 (440)
T ss_pred             hcCCEEEEechhhhcCcHHHHHHHHHHHHHHHHcCCeEEEECCCCHHHHHHHHHHHhhHHhcCceEeeCCCCHHHHHHHH
Confidence            345589999997531 1111 223222221 123456888875 32211        12233356789999999999999


Q ss_pred             HHhhccCCCCCccchHHHHHHHHHHHcCCChH
Q 047559          358 MMHAFVGQDITAQQISDLFREKVVGKCGGLPL  389 (444)
Q Consensus       358 ~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl  389 (444)
                      .+.+....-.    ..+++...|++.+.|..-
T Consensus       273 ~~~~~~~~~~----l~~ev~~~Ia~~~~~~~R  300 (440)
T PRK14088        273 RKMLEIEHGE----LPEEVLNFVAENVDDNLR  300 (440)
T ss_pred             HHHHHhcCCC----CCHHHHHHHHhccccCHH
Confidence            8876432111    123445667777776533

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=98.21  E-value=9.9e-05  Score=74.99  Aligned_cols=157  Identities=15%  Similarity=0.066  Sum_probs=89.3

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGK  291 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  291 (444)
                      ..+.|+|..|+|||.|++.+++...... .--.+++++      ..+++..+...+...     ..+    .+.+.+.. 
T Consensus       315 NpL~LyG~sGsGKTHLL~AIa~~a~~~~-~g~~V~Yit------aeef~~el~~al~~~-----~~~----~f~~~y~~-  377 (617)
T PRK14086        315 NPLFIYGESGLGKTHLLHAIGHYARRLY-PGTRVRYVS------SEEFTNEFINSIRDG-----KGD----SFRRRYRE-  377 (617)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHHHHhC-CCCeEEEee------HHHHHHHHHHHHHhc-----cHH----HHHHHhhc-
Confidence            4589999999999999999998743211 112334554      344455554444321     111    22333322 


Q ss_pred             eEEEEEeCCCCCCh-hcHHH-hhcccCC-CCCCcEEEEecCCh---------HHHhhcCCCCcccCCCCChHhHHHHHHH
Q 047559          292 KLLLVLDDVWNEDY-CLWED-LKAPFLA-AAPNSKIIVTTRHA---------HVAATMEPIQQYNLQCLSDEDCWSLFMM  359 (444)
Q Consensus       292 r~LlVlDdv~~~~~-~~~~~-l~~~l~~-~~~gs~iivTTr~~---------~va~~~~~~~~~~l~~L~~~~~~~lf~~  359 (444)
                      -=+|+|||+..... ..|.. +...+.. ...|..|||||...         .+...+...-++.++..+.+.-.+++.+
T Consensus       378 ~DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~gk~IIITSd~~P~eL~~l~~rL~SRf~~GLvv~I~~PD~EtR~aIL~k  457 (617)
T PRK14086        378 MDILLVDDIQFLEDKESTQEEFFHTFNTLHNANKQIVLSSDRPPKQLVTLEDRLRNRFEWGLITDVQPPELETRIAILRK  457 (617)
T ss_pred             CCEEEEehhccccCCHHHHHHHHHHHHHHHhcCCCEEEecCCChHhhhhccHHHHhhhhcCceEEcCCCCHHHHHHHHHH
Confidence            24788999966432 22332 3332222 13356688888752         2333344456789999999999999988


Q ss_pred             hhccCCCCCccchHHHHHHHHHHHcCCChH
Q 047559          360 HAFVGQDITAQQISDLFREKVVGKCGGLPL  389 (444)
Q Consensus       360 ~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl  389 (444)
                      ++....-.    .-+++..-|++.+.+..-
T Consensus       458 ka~~r~l~----l~~eVi~yLa~r~~rnvR  483 (617)
T PRK14086        458 KAVQEQLN----APPEVLEFIASRISRNIR  483 (617)
T ss_pred             HHHhcCCC----CCHHHHHHHHHhccCCHH
Confidence            87432211    123444556666665533

>CHL00095 clpC Clp protease ATP binding subunit

Probab=98.21  E-value=8.6e-06  Score=87.49  Aligned_cols=156  Identities=17%  Similarity=0.151  Sum_probs=85.4

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccc---cCCcceeEEEEeCCCCCHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVE---DSKFDVKAWVCVSDDFDVLNIS  260 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~---~~~f~~~~wv~vs~~~~~~~~~  260 (444)
                      ..++||+.+++.+++.|.....      .-+.++|++|+|||++|+.++......   ...-+..+|. +    +...++
T Consensus       179 ~~~igr~~ei~~~~~~L~r~~~------~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~-l----~~~~l~  247 (821)
T CHL00095        179 DPVIGREKEIERVIQILGRRTK------NNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVIT-L----DIGLLL  247 (821)
T ss_pred             CCCCCcHHHHHHHHHHHccccc------CCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEE-e----eHHHHh
Confidence            3589999999999999976543      245799999999999999998764211   1011244553 1    111111


Q ss_pred             HHHHHHhccCCCCcccHHHHHH-HHHHHhCCceEEEEEeCCCCCCh-------hcHHHhhcccCCCCCCcEEEEecCChH
Q 047559          261 RALLESITFASCDLKALNEVQV-QIKRAVDGKKLLLVLDDVWNEDY-------CLWEDLKAPFLAAAPNSKIIVTTRHAH  332 (444)
Q Consensus       261 ~~il~~l~~~~~~~~~~~~~~~-~l~~~l~~kr~LlVlDdv~~~~~-------~~~~~l~~~l~~~~~gs~iivTTr~~~  332 (444)
                             .+... ....++... .+.+.-..++.+|++|+++..-.       .+-..+..+.... ..-++|.+|..+.
T Consensus       248 -------ag~~~-~ge~e~rl~~i~~~~~~~~~~ILfiDEih~l~~~g~~~g~~~~a~lLkp~l~r-g~l~~IgaTt~~e  318 (821)
T CHL00095        248 -------AGTKY-RGEFEERLKRIFDEIQENNNIILVIDEVHTLIGAGAAEGAIDAANILKPALAR-GELQCIGATTLDE  318 (821)
T ss_pred             -------ccCCC-ccHHHHHHHHHHHHHHhcCCeEEEEecHHHHhcCCCCCCcccHHHHhHHHHhC-CCcEEEEeCCHHH
Confidence                   11111 111222222 22222235689999999964210       1112222222111 2245565665554


Q ss_pred             HHhh-------cCCCCcccCCCCChHhHHHHHHH
Q 047559          333 VAAT-------MEPIQQYNLQCLSDEDCWSLFMM  359 (444)
Q Consensus       333 va~~-------~~~~~~~~l~~L~~~~~~~lf~~  359 (444)
                      +...       ......+.+...+.++...++..
T Consensus       319 y~~~ie~D~aL~rRf~~I~v~ep~~~e~~aILr~  352 (821)
T CHL00095        319 YRKHIEKDPALERRFQPVYVGEPSVEETIEILFG  352 (821)
T ss_pred             HHHHHhcCHHHHhcceEEecCCCCHHHHHHHHHH
Confidence            4321       12335678888888888887764

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=98.20  E-value=4.4e-05  Score=76.56  Aligned_cols=181  Identities=15%  Similarity=0.099  Sum_probs=100.9

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCC
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDG  290 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~  290 (444)
                      ...+.|+|++|+|||+|++.+.+...... .--.+++++.      .++...+...+...     ...    .+.+.+. 
T Consensus       148 ~~~l~l~G~~G~GKThL~~ai~~~~~~~~-~~~~v~yi~~------~~~~~~~~~~~~~~-----~~~----~~~~~~~-  210 (450)
T PRK00149        148 YNPLFIYGGVGLGKTHLLHAIGNYILEKN-PNAKVVYVTS------EKFTNDFVNALRNN-----TME----EFKEKYR-  210 (450)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHhC-CCCeEEEEEH------HHHHHHHHHHHHcC-----cHH----HHHHHHh-
Confidence            35689999999999999999998753221 1123445543      23344444444321     112    2233333 


Q ss_pred             ceEEEEEeCCCCCChhc-H-HHhhcccCC-CCCCcEEEEecCChH---------HHhhcCCCCcccCCCCChHhHHHHHH
Q 047559          291 KKLLLVLDDVWNEDYCL-W-EDLKAPFLA-AAPNSKIIVTTRHAH---------VAATMEPIQQYNLQCLSDEDCWSLFM  358 (444)
Q Consensus       291 kr~LlVlDdv~~~~~~~-~-~~l~~~l~~-~~~gs~iivTTr~~~---------va~~~~~~~~~~l~~L~~~~~~~lf~  358 (444)
                      +.-+|+|||++...... + +.+...+.. ...|..||+||....         +...+....++++++++.++-..++.
T Consensus       211 ~~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~~~~~~iiits~~~p~~l~~l~~~l~SRl~~gl~v~i~~pd~~~r~~il~  290 (450)
T PRK00149        211 SVDVLLIDDIQFLAGKERTQEEFFHTFNALHEAGKQIVLTSDRPPKELPGLEERLRSRFEWGLTVDIEPPDLETRIAILK  290 (450)
T ss_pred             cCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHHHhHhcCCeeEEecCCCHHHHHHHHH
Confidence            23489999996542211 1 223332221 123455777776432         12233344578999999999999999


Q ss_pred             HhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHHHh------cCC--CHHHHHHHHhc
Q 047559          359 MHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLL------RSK--RHDEWDEILNS  412 (444)
Q Consensus       359 ~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~~L------~~~--~~~~w~~~l~~  412 (444)
                      +.+-... .   ...+++...|++.+.|..-.+.-+-..|      ..+  +....+.++..
T Consensus       291 ~~~~~~~-~---~l~~e~l~~ia~~~~~~~R~l~~~l~~l~~~~~~~~~~it~~~~~~~l~~  348 (450)
T PRK00149        291 KKAEEEG-I---DLPDEVLEFIAKNITSNVRELEGALNRLIAYASLTGKPITLELAKEALKD  348 (450)
T ss_pred             HHHHHcC-C---CCCHHHHHHHHcCcCCCHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHH
Confidence            8874321 1   1223445668888888765433222111      222  66677777765

>PRK06620 hypothetical protein; Validated

Probab=98.19  E-value=4.3e-05  Score=68.32  Aligned_cols=139  Identities=16%  Similarity=0.088  Sum_probs=80.4

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGK  291 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  291 (444)
                      +.+.|+|++|+|||+|++.+.+....        .++.  ..+..                     .       +.. ..
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~~~--------~~~~--~~~~~---------------------~-------~~~-~~   85 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLSNA--------YIIK--DIFFN---------------------E-------EIL-EK   85 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhccCC--------EEcc--hhhhc---------------------h-------hHH-hc
Confidence            67999999999999999987765311        1111  00000                     0       011 12


Q ss_pred             eEEEEEeCCCCCChhcHHHhhcccCC-CCCCcEEEEecCChH-------HHhhcCCCCcccCCCCChHhHHHHHHHhhcc
Q 047559          292 KLLLVLDDVWNEDYCLWEDLKAPFLA-AAPNSKIIVTTRHAH-------VAATMEPIQQYNLQCLSDEDCWSLFMMHAFV  363 (444)
Q Consensus       292 r~LlVlDdv~~~~~~~~~~l~~~l~~-~~~gs~iivTTr~~~-------va~~~~~~~~~~l~~L~~~~~~~lf~~~~~~  363 (444)
                      .-+|++||++.....   .+...+.. ...|..||+|++.+.       ..+.+...-++++++++.++...++.+.+..
T Consensus        86 ~d~lliDdi~~~~~~---~lf~l~N~~~e~g~~ilits~~~p~~l~l~~L~SRl~~gl~~~l~~pd~~~~~~~l~k~~~~  162 (214)
T PRK06620         86 YNAFIIEDIENWQEP---ALLHIFNIINEKQKYLLLTSSDKSRNFTLPDLSSRIKSVLSILLNSPDDELIKILIFKHFSI  162 (214)
T ss_pred             CCEEEEeccccchHH---HHHHHHHHHHhcCCEEEEEcCCCccccchHHHHHHHhCCceEeeCCCCHHHHHHHHHHHHHH
Confidence            347889999643211   22222111 145678999887432       2233444457999999999988888776532


Q ss_pred             CCCCCccchHHHHHHHHHHHcCCChHHHHHHHH
Q 047559          364 GQDITAQQISDLFREKVVGKCGGLPLAAKTLGG  396 (444)
Q Consensus       364 ~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~  396 (444)
                      . ..   ...+++..-|++.+.|.--.+.-+-.
T Consensus       163 ~-~l---~l~~ev~~~L~~~~~~d~r~l~~~l~  191 (214)
T PRK06620        163 S-SV---TISRQIIDFLLVNLPREYSKIIEILE  191 (214)
T ss_pred             c-CC---CCCHHHHHHHHHHccCCHHHHHHHHH
Confidence            1 11   12245566788888776555444433

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=98.19  E-value=3.2e-05  Score=72.40  Aligned_cols=134  Identities=13%  Similarity=0.078  Sum_probs=73.3

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGK  291 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  291 (444)
                      .-+.++|++|+|||++|+.+........ ......|+.++.    .++    +..+.+..     .......+.+.   .
T Consensus        59 ~~vll~G~pGTGKT~lA~~ia~~l~~~g-~~~~~~~v~v~~----~~l----~~~~~g~~-----~~~~~~~~~~a---~  121 (284)
T TIGR02880        59 LHMSFTGNPGTGKTTVALRMAQILHRLG-YVRKGHLVSVTR----DDL----VGQYIGHT-----APKTKEILKRA---M  121 (284)
T ss_pred             ceEEEEcCCCCCHHHHHHHHHHHHHHcC-CcccceEEEecH----HHH----hHhhcccc-----hHHHHHHHHHc---c
Confidence            3588999999999999977765432211 111113444442    122    22222111     11111222222   2


Q ss_pred             eEEEEEeCCCCC---------ChhcHHHhhcccCCCCCCcEEEEecCChHHHhhc--C------CCCcccCCCCChHhHH
Q 047559          292 KLLLVLDDVWNE---------DYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAATM--E------PIQQYNLQCLSDEDCW  354 (444)
Q Consensus       292 r~LlVlDdv~~~---------~~~~~~~l~~~l~~~~~gs~iivTTr~~~va~~~--~------~~~~~~l~~L~~~~~~  354 (444)
                      .-+|+||++...         ....++.+...+.....+.+||+++.........  .      -...+.+++++.+|..
T Consensus       122 ~gvL~iDEi~~L~~~~~~~~~~~~~~~~Ll~~le~~~~~~~vI~a~~~~~~~~~~~~np~L~sR~~~~i~fp~l~~edl~  201 (284)
T TIGR02880       122 GGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENQRDDLVVILAGYKDRMDSFFESNPGFSSRVAHHVDFPDYSEAELL  201 (284)
T ss_pred             CcEEEEechhhhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhhCHHHHhhCCcEEEeCCcCHHHHH
Confidence            358899999632         1122344555555555566777777654332211  1      1245889999999999


Q ss_pred             HHHHHhhc
Q 047559          355 SLFMMHAF  362 (444)
Q Consensus       355 ~lf~~~~~  362 (444)
                      .++.+.+-
T Consensus       202 ~I~~~~l~  209 (284)
T TIGR02880       202 VIAGLMLK  209 (284)
T ss_pred             HHHHHHHH
Confidence            99887653

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.

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

Probab=98.19  E-value=1.5e-05  Score=71.74  Aligned_cols=182  Identities=17%  Similarity=0.212  Sum_probs=104.8

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRAL  263 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~i  263 (444)
                      ..|+|.++-++++.=++......+ ..+--+.++|++|.||||||.-+.+...+.-       -++-+...         
T Consensus        26 ~efiGQ~~vk~~L~ifI~AAk~r~-e~lDHvLl~GPPGlGKTTLA~IIA~Emgvn~-------k~tsGp~l---------   88 (332)
T COG2255          26 DEFIGQEKVKEQLQIFIKAAKKRG-EALDHVLLFGPPGLGKTTLAHIIANELGVNL-------KITSGPAL---------   88 (332)
T ss_pred             HHhcChHHHHHHHHHHHHHHHhcC-CCcCeEEeeCCCCCcHHHHHHHHHHHhcCCe-------Eecccccc---------
Confidence            469999988888876665533222 6678899999999999999999998754321       11111111         


Q ss_pred             HHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhccc--------CCCCCCcEE-----------
Q 047559          264 LESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPF--------LAAAPNSKI-----------  324 (444)
Q Consensus       264 l~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l--------~~~~~gs~i-----------  324 (444)
                                 .....+...|.. | .+.=++++|+++......-+.+..++        ...++++|.           
T Consensus        89 -----------eK~gDlaaiLt~-L-e~~DVLFIDEIHrl~~~vEE~LYpaMEDf~lDI~IG~gp~Arsv~ldLppFTLI  155 (332)
T COG2255          89 -----------EKPGDLAAILTN-L-EEGDVLFIDEIHRLSPAVEEVLYPAMEDFRLDIIIGKGPAARSIRLDLPPFTLI  155 (332)
T ss_pred             -----------cChhhHHHHHhc-C-CcCCeEEEehhhhcChhHHHHhhhhhhheeEEEEEccCCccceEeccCCCeeEe
Confidence                       111111222221 2 23345667887665433222222211        112333433           


Q ss_pred             EEecCChHHHhhcCC--CCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHHHhc
Q 047559          325 IVTTRHAHVAATMEP--IQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLLR  399 (444)
Q Consensus       325 ivTTr~~~va~~~~~--~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~~L~  399 (444)
                      =-|||.-.+.+-+..  .-+.+++.-+.+|-.++..+.+..- +.   +..++.+.+|++...|-|--..-+.+..+
T Consensus       156 GATTr~G~lt~PLrdRFGi~~rlefY~~~eL~~Iv~r~a~~l-~i---~i~~~~a~eIA~rSRGTPRIAnRLLrRVR  228 (332)
T COG2255         156 GATTRAGMLTNPLRDRFGIIQRLEFYTVEELEEIVKRSAKIL-GI---EIDEEAALEIARRSRGTPRIANRLLRRVR  228 (332)
T ss_pred             eeccccccccchhHHhcCCeeeeecCCHHHHHHHHHHHHHHh-CC---CCChHHHHHHHHhccCCcHHHHHHHHHHH
Confidence            258886555433322  1356788889999989888876321 11   22234467799999999987665555443

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=98.17  E-value=0.00013  Score=74.87  Aligned_cols=195  Identities=14%  Similarity=0.136  Sum_probs=107.6

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRAL  263 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~i  263 (444)
                      ..++|.+.....+.+.+.....     ...+.++|+.|+||||+|+.+.....-.. ..+       ..+++.-...+.+
T Consensus        16 ~~viGq~~v~~~L~~~i~~~~~-----~hayLf~Gp~GtGKTt~Ak~lAkal~c~~-~~~-------~~pC~~C~~C~~i   82 (559)
T PRK05563         16 EDVVGQEHITKTLKNAIKQGKI-----SHAYLFSGPRGTGKTSAAKIFAKAVNCLN-PPD-------GEPCNECEICKAI   82 (559)
T ss_pred             HhccCcHHHHHHHHHHHHcCCC-----CeEEEEECCCCCCHHHHHHHHHHHhcCCC-CCC-------CCCCCccHHHHHH
Confidence            3689999999999998876432     25678899999999999998875421110 000       0000000111111


Q ss_pred             HHHhcc-------C-CCCcccHHHHHHHHHHH-hCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecC-ChHH
Q 047559          264 LESITF-------A-SCDLKALNEVQVQIKRA-VDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTR-HAHV  333 (444)
Q Consensus       264 l~~l~~-------~-~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr-~~~v  333 (444)
                      ......       . ......+.++...+... ..++.-++|+|+++......++.|...+........+|++|. ...+
T Consensus        83 ~~g~~~dv~eidaas~~~vd~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlatt~~~ki  162 (559)
T PRK05563         83 TNGSLMDVIEIDAASNNGVDEIRDIRDKVKYAPSEAKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTEPHKI  162 (559)
T ss_pred             hcCCCCCeEEeeccccCCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEeCChhhC
Confidence            100000       0 00111122222222211 135566889999988776778888877765555555555553 3333


Q ss_pred             Hh-hcCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHH
Q 047559          334 AA-TMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLG  395 (444)
Q Consensus       334 a~-~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~  395 (444)
                      .. ..+....+.+.+++.++....+...+-..+-...    ......|++.++|.+..+....
T Consensus       163 ~~tI~SRc~~~~f~~~~~~ei~~~L~~i~~~egi~i~----~~al~~ia~~s~G~~R~al~~L  221 (559)
T PRK05563        163 PATILSRCQRFDFKRISVEDIVERLKYILDKEGIEYE----DEALRLIARAAEGGMRDALSIL  221 (559)
T ss_pred             cHHHHhHheEEecCCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHHHHHH
Confidence            22 1223356888999999988888776532211111    2334567888888776544333

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=98.15  E-value=2e-05  Score=77.19  Aligned_cols=179  Identities=13%  Similarity=0.141  Sum_probs=97.0

Q ss_pred             CCcccccchhHHHHHHHHhcCCC-------CCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCC
Q 047559          183 ERAVFGRQQDKAKMLEMVLTDTS-------SDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFD  255 (444)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~~~-------~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~  255 (444)
                      ..++.|++..++++.+.+...-.       -+....+-|.++|++|+|||++|+.+++...  . .     |+.++.   
T Consensus       130 ~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~--~-~-----~i~v~~---  198 (389)
T PRK03992        130 YEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETN--A-T-----FIRVVG---  198 (389)
T ss_pred             HHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhC--C-C-----EEEeeh---
Confidence            34689999999999886632110       0013346789999999999999999998632  1 2     222221   


Q ss_pred             HHHHHHHHHHHhccCCCCcccHHHHHHHHHHHh-CCceEEEEEeCCCCCC-----------hhcHHHhhccc---CC--C
Q 047559          256 VLNISRALLESITFASCDLKALNEVQVQIKRAV-DGKKLLLVLDDVWNED-----------YCLWEDLKAPF---LA--A  318 (444)
Q Consensus       256 ~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l-~~kr~LlVlDdv~~~~-----------~~~~~~l~~~l---~~--~  318 (444)
                       .++.    ....+     .. ......+.+.. ...+.+|+|||++..-           ...+..+...+   ..  .
T Consensus       199 -~~l~----~~~~g-----~~-~~~i~~~f~~a~~~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~~  267 (389)
T PRK03992        199 -SELV----QKFIG-----EG-ARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFDP  267 (389)
T ss_pred             -HHHh----Hhhcc-----ch-HHHHHHHHHHHHhcCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccCC
Confidence             1111    11100     00 11122222222 3457899999996531           11112222222   11  1


Q ss_pred             CCCcEEEEecCChHHHh--hcCC---CCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCCh
Q 047559          319 APNSKIIVTTRHAHVAA--TMEP---IQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLP  388 (444)
Q Consensus       319 ~~gs~iivTTr~~~va~--~~~~---~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  388 (444)
                      ..+..||.||.......  ...+   ...+.+.+.+.++-.++|..+.... .....-.+    ..+++.+.|.-
T Consensus       268 ~~~v~VI~aTn~~~~ld~allRpgRfd~~I~v~~P~~~~R~~Il~~~~~~~-~~~~~~~~----~~la~~t~g~s  337 (389)
T PRK03992        268 RGNVKIIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKM-NLADDVDL----EELAELTEGAS  337 (389)
T ss_pred             CCCEEEEEecCChhhCCHHHcCCccCceEEEECCCCHHHHHHHHHHHhccC-CCCCcCCH----HHHHHHcCCCC
Confidence            23567777887643321  1121   2468899999999999998775332 11111223    44677777653

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

Probab=98.14  E-value=5.8e-05  Score=67.44  Aligned_cols=126  Identities=21%  Similarity=0.243  Sum_probs=74.1

Q ss_pred             CcCCcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHH
Q 047559          181 STERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNIS  260 (444)
Q Consensus       181 ~~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~  260 (444)
                      +.-..++|-+.+++.|++....--.+  .+..-+.++|..|+|||+|++.+.+.....+     .--|.+++        
T Consensus        24 ~~l~~L~Gie~Qk~~l~~Nt~~Fl~G--~pannvLL~G~rGtGKSSlVkall~~y~~~G-----LRlIev~k--------   88 (249)
T PF05673_consen   24 IRLDDLIGIERQKEALIENTEQFLQG--LPANNVLLWGARGTGKSSLVKALLNEYADQG-----LRLIEVSK--------   88 (249)
T ss_pred             CCHHHhcCHHHHHHHHHHHHHHHHcC--CCCcceEEecCCCCCHHHHHHHHHHHHhhcC-----ceEEEECH--------
Confidence            34567999999998887654331111  2235678899999999999999988753222     11222222        


Q ss_pred             HHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCC-ChhcHHHhhcccCC----CCCCcEEEEecCChHHH
Q 047559          261 RALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNE-DYCLWEDLKAPFLA----AAPNSKIIVTTRHAHVA  334 (444)
Q Consensus       261 ~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~-~~~~~~~l~~~l~~----~~~gs~iivTTr~~~va  334 (444)
                                 .+..++..+...|+.  ...+|+|++||+--+ ....+..++..|.-    ......|..||...+..
T Consensus        89 -----------~~L~~l~~l~~~l~~--~~~kFIlf~DDLsFe~~d~~yk~LKs~LeGgle~~P~NvliyATSNRRHLv  154 (249)
T PF05673_consen   89 -----------EDLGDLPELLDLLRD--RPYKFILFCDDLSFEEGDTEYKALKSVLEGGLEARPDNVLIYATSNRRHLV  154 (249)
T ss_pred             -----------HHhccHHHHHHHHhc--CCCCEEEEecCCCCCCCcHHHHHHHHHhcCccccCCCcEEEEEecchhhcc
Confidence                       122233333333332  356999999999432 33456777766543    22344555666655543

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=98.13  E-value=0.00013  Score=72.43  Aligned_cols=182  Identities=14%  Similarity=0.071  Sum_probs=96.6

Q ss_pred             CCcccccchhHH-HHHHHHhcCCC-CCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHH
Q 047559          183 ERAVFGRQQDKA-KMLEMVLTDTS-SDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNIS  260 (444)
Q Consensus       183 ~~~~vGr~~~~~-~l~~~L~~~~~-~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~  260 (444)
                      +.-++|...... .....+..... ........+.|+|+.|+|||+|++.+.+.....   ...+++++      ..++.
T Consensus       111 dnFv~g~~N~~a~~~a~~~a~~~~~~~~~~~npl~L~G~~G~GKTHLl~Ai~~~l~~~---~~~v~yi~------~~~f~  181 (445)
T PRK12422        111 ANFLVTPENDLPHRILQEFTKVSEQGKGFPFNPIYLFGPEGSGKTHLMQAAVHALRES---GGKILYVR------SELFT  181 (445)
T ss_pred             cceeeCCcHHHHHHHHHHHHhccccccCCCCceEEEEcCCCCCHHHHHHHHHHHHHHc---CCCEEEee------HHHHH
Confidence            444567666543 23333322111 111233578999999999999999999874321   12234443      23444


Q ss_pred             HHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcH--HHhhcccCC-CCCCcEEEEecCCh------
Q 047559          261 RALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLW--EDLKAPFLA-AAPNSKIIVTTRHA------  331 (444)
Q Consensus       261 ~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~--~~l~~~l~~-~~~gs~iivTTr~~------  331 (444)
                      ..+...+...     ..    ..++..+. ..-+|++||+.......|  +.+...+.. ...|..||+||...      
T Consensus       182 ~~~~~~l~~~-----~~----~~f~~~~~-~~dvLiIDDiq~l~~k~~~qeelf~l~N~l~~~~k~IIlts~~~p~~l~~  251 (445)
T PRK12422        182 EHLVSAIRSG-----EM----QRFRQFYR-NVDALFIEDIEVFSGKGATQEEFFHTFNSLHTEGKLIVISSTCAPQDLKA  251 (445)
T ss_pred             HHHHHHHhcc-----hH----HHHHHHcc-cCCEEEEcchhhhcCChhhHHHHHHHHHHHHHCCCcEEEecCCCHHHHhh
Confidence            4555544321     11    12333333 344888999966432222  223222221 12355788888542      


Q ss_pred             ---HHHhhcCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCC
Q 047559          332 ---HVAATMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGL  387 (444)
Q Consensus       332 ---~va~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~  387 (444)
                         .+...+.....+.+.+++.++...++.+++-...-.    ..+++..-|+..+.|.
T Consensus       252 l~~rL~SR~~~Gl~~~l~~pd~e~r~~iL~~k~~~~~~~----l~~evl~~la~~~~~d  306 (445)
T PRK12422        252 MEERLISRFEWGIAIPLHPLTKEGLRSFLERKAEALSIR----IEETALDFLIEALSSN  306 (445)
T ss_pred             hHHHHHhhhcCCeEEecCCCCHHHHHHHHHHHHHHcCCC----CCHHHHHHHHHhcCCC
Confidence               122233334678899999999999998877432211    1233444566666544

>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport

Probab=98.13  E-value=1.2e-05  Score=66.00  Aligned_cols=96  Identities=22%  Similarity=0.144  Sum_probs=52.6

Q ss_pred             EEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCC-ce
Q 047559          214 IPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDG-KK  292 (444)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~-kr  292 (444)
                      |.|+|++|+|||++|+.+.+....      ..+.++.+.-.+               .........+...+.+.-.. ++
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~~------~~~~i~~~~~~~---------------~~~~~~~~~i~~~~~~~~~~~~~   59 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLGF------PFIEIDGSELIS---------------SYAGDSEQKIRDFFKKAKKSAKP   59 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTTS------EEEEEETTHHHT---------------SSTTHHHHHHHHHHHHHHHTSTS
T ss_pred             CEEECcCCCCeeHHHHHHHhhccc------cccccccccccc---------------ccccccccccccccccccccccc
Confidence            579999999999999999987421      124444332110               01111222222233332223 47


Q ss_pred             EEEEEeCCCCCChhc-----------HHHhhcccCCCC---CCcEEEEecCC
Q 047559          293 LLLVLDDVWNEDYCL-----------WEDLKAPFLAAA---PNSKIIVTTRH  330 (444)
Q Consensus       293 ~LlVlDdv~~~~~~~-----------~~~l~~~l~~~~---~gs~iivTTr~  330 (444)
                      .+|++||++......           ...+...+....   .+..||.||..
T Consensus        60 ~vl~iDe~d~l~~~~~~~~~~~~~~~~~~L~~~l~~~~~~~~~~~vI~ttn~  111 (132)
T PF00004_consen   60 CVLFIDEIDKLFPKSQPSSSSFEQRLLNQLLSLLDNPSSKNSRVIVIATTNS  111 (132)
T ss_dssp             EEEEEETGGGTSHHCSTSSSHHHHHHHHHHHHHHHTTTTTSSSEEEEEEESS
T ss_pred             eeeeeccchhcccccccccccccccccceeeecccccccccccceeEEeeCC
Confidence            999999997653332           333444443322   34566777765

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 ....

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=98.09  E-value=4.3e-05  Score=82.42  Aligned_cols=157  Identities=17%  Similarity=0.149  Sum_probs=84.5

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcccccc---CCcceeEEEEeCCCCCHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVED---SKFDVKAWVCVSDDFDVLNIS  260 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~---~~f~~~~wv~vs~~~~~~~~~  260 (444)
                      ..++||+.++.+++..|.....      .-+.++|++|+|||++|+.+........   ......+|.-     ++..++
T Consensus       173 ~~~igr~~ei~~~~~~l~r~~~------~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l-----~~~~l~  241 (852)
T TIGR03346       173 DPVIGRDEEIRRTIQVLSRRTK------NNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLAL-----DMGALI  241 (852)
T ss_pred             CcCCCcHHHHHHHHHHHhcCCC------CceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEe-----eHHHHh
Confidence            3599999999999999876433      3456899999999999999887632111   0112333321     111111


Q ss_pred             HHHHHHhccCCCCcccHHHHHHHHHHHh--CCceEEEEEeCCCCCCh-------hcHHHhhcccCCCCCCcEEEEecCCh
Q 047559          261 RALLESITFASCDLKALNEVQVQIKRAV--DGKKLLLVLDDVWNEDY-------CLWEDLKAPFLAAAPNSKIIVTTRHA  331 (444)
Q Consensus       261 ~~il~~l~~~~~~~~~~~~~~~~l~~~l--~~kr~LlVlDdv~~~~~-------~~~~~l~~~l~~~~~gs~iivTTr~~  331 (444)
                             ...... ...+.....+.+.+  .+++.+|++|+++....       .+-..+..+....+ .-++|-+|..+
T Consensus       242 -------a~~~~~-g~~e~~l~~~l~~~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~~~Lk~~l~~g-~i~~IgaTt~~  312 (852)
T TIGR03346       242 -------AGAKYR-GEFEERLKAVLNEVTKSEGQIILFIDELHTLVGAGKAEGAMDAGNMLKPALARG-ELHCIGATTLD  312 (852)
T ss_pred             -------hcchhh-hhHHHHHHHHHHHHHhcCCCeEEEeccHHHhhcCCCCcchhHHHHHhchhhhcC-ceEEEEeCcHH
Confidence                   000000 11122222222222  24689999999975310       01112222222212 23555555544


Q ss_pred             HHHhh-------cCCCCcccCCCCChHhHHHHHHHh
Q 047559          332 HVAAT-------MEPIQQYNLQCLSDEDCWSLFMMH  360 (444)
Q Consensus       332 ~va~~-------~~~~~~~~l~~L~~~~~~~lf~~~  360 (444)
                      .+...       ......+.+...+.++...++...
T Consensus       313 e~r~~~~~d~al~rRf~~i~v~~p~~~~~~~iL~~~  348 (852)
T TIGR03346       313 EYRKYIEKDAALERRFQPVFVDEPTVEDTISILRGL  348 (852)
T ss_pred             HHHHHhhcCHHHHhcCCEEEeCCCCHHHHHHHHHHH
Confidence            43221       123356788888999999988754

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.

>COG3903 Predicted ATPase [General function prediction only]

Probab=98.08  E-value=5e-06  Score=78.82  Aligned_cols=216  Identities=23%  Similarity=0.244  Sum_probs=131.3

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhccccccCCc-ceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHh
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKF-DVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAV  288 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f-~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l  288 (444)
                      ..+.+.++|.|||||||++-.+..   +.. -| +.+.++....-.+...+.-.+...+......   -+.....+....
T Consensus        13 ~~RlvtL~g~ggvgkttl~~~~a~---~~~-~~~~~v~~vdl~pitD~~~v~~~~ag~~gl~~~~---g~~~~~~~~~~~   85 (414)
T COG3903          13 ALRLVTLTGAGGVGKTTLALQAAH---AAS-EYADGVAFVDLAPITDPALVFPTLAGALGLHVQP---GDSAVDTLVRRI   85 (414)
T ss_pred             hhheeeeeccCccceehhhhhhHh---Hhh-hcccceeeeeccccCchhHhHHHHHhhccccccc---chHHHHHHHHHH
Confidence            348999999999999999988877   222 34 4555666655555555555555555543221   122334556667


Q ss_pred             CCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCChHHHhhcCCCCcccCCCCChH-hHHHHHHHhhccCC-C
Q 047559          289 DGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAATMEPIQQYNLQCLSDE-DCWSLFMMHAFVGQ-D  366 (444)
Q Consensus       289 ~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~~va~~~~~~~~~~l~~L~~~-~~~~lf~~~~~~~~-~  366 (444)
                      .++|.++|+||....- ..-..+.-.+..+...-.|+.|+|.....   .......+.+|+.. ++.++|...+.... .
T Consensus        86 ~~rr~llvldncehl~-~~~a~~i~all~~~~~~~~~atsre~~l~---~ge~~~~~~~L~~~d~a~~lf~~ra~~~~~~  161 (414)
T COG3903          86 GDRRALLVLDNCEHLL-DACAALIVALLGACPRLAILATSREAILV---AGEVHRRVPSLSLFDEAIELFVCRAVLVALS  161 (414)
T ss_pred             hhhhHHHHhcCcHHHH-HHHHHHHHHHHccchhhhhHHHhHhhhcc---cccccccCCccccCCchhHHHHHHHHHhccc
Confidence            7899999999983321 11122333444555666788888865433   23355677777654 78888877663321 1


Q ss_pred             CCccchHHHHHHHHHHHcCCChHHHHHHHHHhcCCCHHHHHHHHhcccCCCCC--------ccChHHHHHHhhcCCch
Q 047559          367 ITAQQISDLFREKVVGKCGGLPLAAKTLGGLLRSKRHDEWDEILNSNILDLPQ--------QNGILSVLRLSYHYLPS  436 (444)
Q Consensus       367 ~~~~~~~~~~~~~i~~~~~G~Plai~~~~~~L~~~~~~~w~~~l~~~~~~~~~--------~~~i~~~l~~sy~~Lp~  436 (444)
                      ..-...-......|.++.+|.|++|...++..++-...+....++.....+.+        ....+..+.+||.=|..
T Consensus       162 f~l~~~~~a~v~~icr~ldg~~laielaaarv~sl~~~~i~~~L~drf~ll~~~~r~a~~~~qtl~asl~ws~~lLtg  239 (414)
T COG3903         162 FWLTDDNAAAVAEICRRLDGIPLAIELAAARVRSLSPDEIAAGLRDRFRLLTGGARLAVLRQQTLRASLDWSYALLTG  239 (414)
T ss_pred             eeecCCchHHHHHHHHHhhcchHHHHHHHHHHHhcCHHHHHHHHhhHHHHHhcccccchhHHHhccchhhhhhHhhhh
Confidence            11112223345779999999999999999988887544444433332111111        24466778888866543

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=98.07  E-value=0.00011  Score=70.03  Aligned_cols=97  Identities=13%  Similarity=0.160  Sum_probs=65.5

Q ss_pred             CceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCChH-HH-hhcCCCCcccCCCCChHhHHHHHHHhhccCCCC
Q 047559          290 GKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAH-VA-ATMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDI  367 (444)
Q Consensus       290 ~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~~-va-~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~  367 (444)
                      +++-++|+|+++..+....+.+...+.....++.+|+||.+.. +. ...+....+.+.+++.+++.+.+.... ..   
T Consensus       105 ~~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SRc~~~~~~~~~~~~~~~~L~~~~-~~---  180 (328)
T PRK05707        105 GGRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRCQQQACPLPSNEESLQWLQQAL-PE---  180 (328)
T ss_pred             CCCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhhceeeeCCCcCHHHHHHHHHHhc-cc---
Confidence            3344556799988888888888888877667778888777653 22 222333668999999999998887653 11   


Q ss_pred             CccchHHHHHHHHHHHcCCChHHHHHH
Q 047559          368 TAQQISDLFREKVVGKCGGLPLAAKTL  394 (444)
Q Consensus       368 ~~~~~~~~~~~~i~~~~~G~Plai~~~  394 (444)
                      ..    .+.+..++..++|.|+....+
T Consensus       181 ~~----~~~~~~~l~la~Gsp~~A~~l  203 (328)
T PRK05707        181 SD----ERERIELLTLAGGSPLRALQL  203 (328)
T ss_pred             CC----hHHHHHHHHHcCCCHHHHHHH
Confidence            11    112345788999999755443

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

Probab=98.07  E-value=3.3e-05  Score=81.28  Aligned_cols=156  Identities=15%  Similarity=0.200  Sum_probs=87.5

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccC---CcceeEEEEeCCCCCHHHHHH
Q 047559          185 AVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDS---KFDVKAWVCVSDDFDVLNISR  261 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~---~f~~~~wv~vs~~~~~~~~~~  261 (444)
                      .++||+.++.++++.|.....      .-+.++|++|+|||++|+.++........   ..++.+|..     +...+  
T Consensus       187 ~liGR~~ei~~~i~iL~r~~~------~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l-----~~~~l--  253 (758)
T PRK11034        187 PLIGREKELERAIQVLCRRRK------NNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSL-----DIGSL--  253 (758)
T ss_pred             cCcCCCHHHHHHHHHHhccCC------CCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEec-----cHHHH--
Confidence            589999999999998876432      23468999999999999998865321110   124455521     11111  


Q ss_pred             HHHHHhccCCCCcccHHHHHHHHHHHh-CCceEEEEEeCCCCC--------ChhcHHHhhcccCCCCCCcEEEEecCChH
Q 047559          262 ALLESITFASCDLKALNEVQVQIKRAV-DGKKLLLVLDDVWNE--------DYCLWEDLKAPFLAAAPNSKIIVTTRHAH  332 (444)
Q Consensus       262 ~il~~l~~~~~~~~~~~~~~~~l~~~l-~~kr~LlVlDdv~~~--------~~~~~~~l~~~l~~~~~gs~iivTTr~~~  332 (444)
                        +   .+.. ...+.+.....+.+.+ +.++.+|++|+++..        ...+...+..++... ..-++|-+|..+.
T Consensus       254 --l---aG~~-~~Ge~e~rl~~l~~~l~~~~~~ILfIDEIh~L~g~g~~~~g~~d~~nlLkp~L~~-g~i~vIgATt~~E  326 (758)
T PRK11034        254 --L---AGTK-YRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSS-GKIRVIGSTTYQE  326 (758)
T ss_pred             --h---cccc-hhhhHHHHHHHHHHHHHhcCCCEEEeccHHHHhccCCCCCcHHHHHHHHHHHHhC-CCeEEEecCChHH
Confidence              1   1100 0111222222222223 345789999999742        111222223333222 2345555555444


Q ss_pred             HHhh-------cCCCCcccCCCCChHhHHHHHHHh
Q 047559          333 VAAT-------MEPIQQYNLQCLSDEDCWSLFMMH  360 (444)
Q Consensus       333 va~~-------~~~~~~~~l~~L~~~~~~~lf~~~  360 (444)
                      +...       ......+.++.++.++..+++...
T Consensus       327 ~~~~~~~D~AL~rRFq~I~v~ePs~~~~~~IL~~~  361 (758)
T PRK11034        327 FSNIFEKDRALARRFQKIDITEPSIEETVQIINGL  361 (758)
T ss_pred             HHHHhhccHHHHhhCcEEEeCCCCHHHHHHHHHHH
Confidence            3221       123467899999999999998864

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=98.01  E-value=0.0003  Score=66.69  Aligned_cols=198  Identities=15%  Similarity=0.106  Sum_probs=111.9

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccc------------cccCCcceeEEEEeCC
Q 047559          185 AVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRA------------VEDSKFDVKAWVCVSD  252 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~------------~~~~~f~~~~wv~vs~  252 (444)
                      .++|.+..++.+...+..+.-     .....++|+.|+||+++|..+.+..-            +....++-..|+.-..
T Consensus         5 ~iiGq~~~~~~L~~~i~~~rl-----~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~hPDl~~i~p~~   79 (314)
T PRK07399          5 NLIGQPLAIELLTAAIKQNRI-----APAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNHPDLLWVEPTY   79 (314)
T ss_pred             HhCCHHHHHHHHHHHHHhCCC-----CceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCCCCEEEEeccc
Confidence            588999999999998865432     26899999999999999987764421            0011122223432110


Q ss_pred             CCCHHHHHHHHHHHhc--cCCCCcccHHHHHHHHHHHh-----CCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEE
Q 047559          253 DFDVLNISRALLESIT--FASCDLKALNEVQVQIKRAV-----DGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKII  325 (444)
Q Consensus       253 ~~~~~~~~~~il~~l~--~~~~~~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ii  325 (444)
                      ...-..+....+...+  ......-.+++ .+.+.+.+     .+++-++|+|+++..+....+.|...+.... .+.+|
T Consensus        80 ~~~g~~~~~~~~~~~~~~~~~~~~I~id~-ir~i~~~l~~~p~~~~~kVvII~~ae~m~~~aaNaLLK~LEEPp-~~~fI  157 (314)
T PRK07399         80 QHQGKLITASEAEEAGLKRKAPPQIRLEQ-IREIKRFLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLEEPG-NGTLI  157 (314)
T ss_pred             cccccccchhhhhhccccccccccCcHHH-HHHHHHHHccCcccCCceEEEEEchhhcCHHHHHHHHHHHhCCC-CCeEE
Confidence            0000000001111111  00111111222 22333333     3556689999998877777888888876545 44555


Q ss_pred             EecCC-hHHHh-hcCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHH
Q 047559          326 VTTRH-AHVAA-TMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGG  396 (444)
Q Consensus       326 vTTr~-~~va~-~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~  396 (444)
                      ++|.+ +.+.. ..+....+.+.++++++..+.+.+....  +.. ..    ....++..++|.|..+.....
T Consensus       158 Li~~~~~~Ll~TI~SRcq~i~f~~l~~~~~~~~L~~~~~~--~~~-~~----~~~~l~~~a~Gs~~~al~~l~  223 (314)
T PRK07399        158 LIAPSPESLLPTIVSRCQIIPFYRLSDEQLEQVLKRLGDE--EIL-NI----NFPELLALAQGSPGAAIANIE  223 (314)
T ss_pred             EEECChHhCcHHHHhhceEEecCCCCHHHHHHHHHHhhcc--ccc-hh----HHHHHHHHcCCCHHHHHHHHH
Confidence            55544 33332 2233467999999999999999876421  110 11    124688899999976655443

>PRK10865 protein disaggregation chaperone; Provisional

Probab=97.97  E-value=9.5e-05  Score=79.58  Aligned_cols=46  Identities=22%  Similarity=0.405  Sum_probs=38.6

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..++||+.++.++++.|.....      .-+.++|++|+|||+||+.+....
T Consensus       178 ~~vigr~~ei~~~i~iL~r~~~------~n~lL~G~pGvGKT~l~~~la~~i  223 (857)
T PRK10865        178 DPVIGRDEEIRRTIQVLQRRTK------NNPVLIGEPGVGKTAIVEGLAQRI  223 (857)
T ss_pred             CcCCCCHHHHHHHHHHHhcCCc------CceEEECCCCCCHHHHHHHHHHHh
Confidence            3599999999999999976543      346699999999999999988764

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

Probab=97.94  E-value=0.00043  Score=67.01  Aligned_cols=163  Identities=15%  Similarity=0.127  Sum_probs=93.7

Q ss_pred             CcCCcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHH
Q 047559          181 STERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNIS  260 (444)
Q Consensus       181 ~~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~  260 (444)
                      ..+.-++|-......-...-.....+  .....+.|+|..|.|||.|++.+.+....   +......+.+    +.+.+.
T Consensus        85 tFdnFv~g~~N~~A~aa~~~va~~~g--~~~nplfi~G~~GlGKTHLl~Aign~~~~---~~~~a~v~y~----~se~f~  155 (408)
T COG0593          85 TFDNFVVGPSNRLAYAAAKAVAENPG--GAYNPLFIYGGVGLGKTHLLQAIGNEALA---NGPNARVVYL----TSEDFT  155 (408)
T ss_pred             chhheeeCCchHHHHHHHHHHHhccC--CcCCcEEEECCCCCCHHHHHHHHHHHHHh---hCCCceEEec----cHHHHH
Confidence            34455677665544433322222111  24578999999999999999999987533   2222222222    234455


Q ss_pred             HHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCCh-hcHHH-hhcccCC-CCCCcEEEEecCCh------
Q 047559          261 RALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDY-CLWED-LKAPFLA-AAPNSKIIVTTRHA------  331 (444)
Q Consensus       261 ~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~-~~~~~-l~~~l~~-~~~gs~iivTTr~~------  331 (444)
                      ..++..+...         -...+++..  .-=++++||++.... ..|+. +...|.. ...|-.||+|++..      
T Consensus       156 ~~~v~a~~~~---------~~~~Fk~~y--~~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~kqIvltsdr~P~~l~~  224 (408)
T COG0593         156 NDFVKALRDN---------EMEKFKEKY--SLDLLLIDDIQFLAGKERTQEEFFHTFNALLENGKQIVLTSDRPPKELNG  224 (408)
T ss_pred             HHHHHHHHhh---------hHHHHHHhh--ccCeeeechHhHhcCChhHHHHHHHHHHHHHhcCCEEEEEcCCCchhhcc
Confidence            5555544321         122344444  233888999966321 12322 3333322 22344899998642      


Q ss_pred             ---HHHhhcCCCCcccCCCCChHhHHHHHHHhhcc
Q 047559          332 ---HVAATMEPIQQYNLQCLSDEDCWSLFMMHAFV  363 (444)
Q Consensus       332 ---~va~~~~~~~~~~l~~L~~~~~~~lf~~~~~~  363 (444)
                         .+...+...-++.+.+++.+....++.+++..
T Consensus       225 ~~~rL~SR~~~Gl~~~I~~Pd~e~r~aiL~kka~~  259 (408)
T COG0593         225 LEDRLRSRLEWGLVVEIEPPDDETRLAILRKKAED  259 (408)
T ss_pred             ccHHHHHHHhceeEEeeCCCCHHHHHHHHHHHHHh
Confidence               34444555577999999999999999887643

>TIGR00602 rad24 checkpoint protein rad24

Probab=97.93  E-value=6.6e-05  Score=77.18  Aligned_cols=52  Identities=12%  Similarity=0.199  Sum_probs=40.6

Q ss_pred             CCcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          183 ERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      -..++|.++.+.++..++....... ...+++.|+|++|+||||+++.+....
T Consensus        83 ldel~~~~~ki~~l~~~l~~~~~~~-~~~~illL~GP~GsGKTTl~~~la~~l  134 (637)
T TIGR00602        83 QHELAVHKKKIEEVETWLKAQVLEN-APKRILLITGPSGCGKSTTIKILSKEL  134 (637)
T ss_pred             HHHhcCcHHHHHHHHHHHHhccccc-CCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            3568999999999999886533211 233689999999999999999998763

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

>PRK08116 hypothetical protein; Validated

Probab=97.91  E-value=5.5e-05  Score=70.11  Aligned_cols=104  Identities=22%  Similarity=0.184  Sum_probs=60.3

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGK  291 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  291 (444)
                      ..+.|+|.+|+|||.||..+++....   ....+++++      ..+++..+...+....  ....    ..+.+.+.+-
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~~l~~---~~~~v~~~~------~~~ll~~i~~~~~~~~--~~~~----~~~~~~l~~~  179 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIANELIE---KGVPVIFVN------FPQLLNRIKSTYKSSG--KEDE----NEIIRSLVNA  179 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHH---cCCeEEEEE------HHHHHHHHHHHHhccc--cccH----HHHHHHhcCC
Confidence            46899999999999999999988532   222345554      3445555554443211  1111    1233334333


Q ss_pred             eEEEEEeCCCCCChhcHHH--hhcccCC-CCCCcEEEEecCCh
Q 047559          292 KLLLVLDDVWNEDYCLWED--LKAPFLA-AAPNSKIIVTTRHA  331 (444)
Q Consensus       292 r~LlVlDdv~~~~~~~~~~--l~~~l~~-~~~gs~iivTTr~~  331 (444)
                      . ||||||+......+|..  +...+.. ...+..+||||...
T Consensus       180 d-lLviDDlg~e~~t~~~~~~l~~iin~r~~~~~~~IiTsN~~  221 (268)
T PRK08116        180 D-LLILDDLGAERDTEWAREKVYNIIDSRYRKGLPTIVTTNLS  221 (268)
T ss_pred             C-EEEEecccCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence            3 89999996544445543  3332222 13566799999743

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

Probab=97.89  E-value=0.00072  Score=60.39  Aligned_cols=177  Identities=17%  Similarity=0.198  Sum_probs=106.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCC-CCCHHHHHHHHHHHhccCCCCcccHH----HHHHHHHH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSD-DFDVLNISRALLESITFASCDLKALN----EVQVQIKR  286 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~-~~~~~~~~~~il~~l~~~~~~~~~~~----~~~~~l~~  286 (444)
                      .++.++|.-|+|||.+.+.+..... +    +.++=+.++. ..+...+...++..+..  ....+..    ...+.+..
T Consensus        52 g~~~vtGevGsGKTv~~Ral~~s~~-~----d~~~~v~i~~~~~s~~~~~~ai~~~l~~--~p~~~~~~~~e~~~~~L~a  124 (269)
T COG3267          52 GILAVTGEVGSGKTVLRRALLASLN-E----DQVAVVVIDKPTLSDATLLEAIVADLES--QPKVNVNAVLEQIDRELAA  124 (269)
T ss_pred             ceEEEEecCCCchhHHHHHHHHhcC-C----CceEEEEecCcchhHHHHHHHHHHHhcc--CccchhHHHHHHHHHHHHH
Confidence            6999999999999999995443321 1    1122244444 35677788888888876  2223333    33333444


Q ss_pred             Hh-CCce-EEEEEeCCCCCChhcHHHhhcccCCCCCCc---EEEEecCC--------hHHHhhcCCCCc-ccCCCCChHh
Q 047559          287 AV-DGKK-LLLVLDDVWNEDYCLWEDLKAPFLAAAPNS---KIIVTTRH--------AHVAATMEPIQQ-YNLQCLSDED  352 (444)
Q Consensus       287 ~l-~~kr-~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs---~iivTTr~--------~~va~~~~~~~~-~~l~~L~~~~  352 (444)
                      .. ++++ ..+++||.+.......+.++....-...++   +|+.....        ......-..... |++.|++.++
T Consensus       125 l~~~g~r~v~l~vdEah~L~~~~le~Lrll~nl~~~~~~~l~ivL~Gqp~L~~~lr~~~l~e~~~R~~ir~~l~P~~~~~  204 (269)
T COG3267         125 LVKKGKRPVVLMVDEAHDLNDSALEALRLLTNLEEDSSKLLSIVLIGQPKLRPRLRLPVLRELEQRIDIRIELPPLTEAE  204 (269)
T ss_pred             HHHhCCCCeEEeehhHhhhChhHHHHHHHHHhhcccccCceeeeecCCcccchhhchHHHHhhhheEEEEEecCCcChHH
Confidence            33 6777 999999998876666666554433222222   23333321        111111112234 8999999999


Q ss_pred             HHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHH
Q 047559          353 CWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGG  396 (444)
Q Consensus       353 ~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~  396 (444)
                      ...++..+.-+...+. +-.-+.....|.....|.|.++..++.
T Consensus       205 t~~yl~~~Le~a~~~~-~l~~~~a~~~i~~~sqg~P~lin~~~~  247 (269)
T COG3267         205 TGLYLRHRLEGAGLPE-PLFSDDALLLIHEASQGIPRLINNLAT  247 (269)
T ss_pred             HHHHHHHHHhccCCCc-ccCChhHHHHHHHHhccchHHHHHHHH
Confidence            9888888765442221 111223345688999999999987764

>TIGR03689 pup_AAA proteasome ATPase

Probab=97.88  E-value=0.00031  Score=70.40  Aligned_cols=168  Identities=14%  Similarity=0.129  Sum_probs=90.8

Q ss_pred             CcccccchhHHHHHHHHhcCCC-------CCCCCceEEEEEecCCChHHHHHHHHhhcccccc--CCcceeEEEEeCCCC
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTS-------SDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVED--SKFDVKAWVCVSDDF  254 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~-------~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~--~~f~~~~wv~vs~~~  254 (444)
                      .++.|.+..+++|.+.+..+-.       .+-...+-+.++|++|+|||++|+.+++......  ..+....|+++... 
T Consensus       182 ~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~fl~v~~~-  260 (512)
T TIGR03689       182 ADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSYFLNIKGP-  260 (512)
T ss_pred             HHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccccccccCCceeEEeccch-
Confidence            3578899999888877532100       0112346789999999999999999998753221  01123345554432 


Q ss_pred             CHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHh-CCceEEEEEeCCCCCC-------hhc-----HHHhhcccCC--CC
Q 047559          255 DVLNISRALLESITFASCDLKALNEVQVQIKRAV-DGKKLLLVLDDVWNED-------YCL-----WEDLKAPFLA--AA  319 (444)
Q Consensus       255 ~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l-~~kr~LlVlDdv~~~~-------~~~-----~~~l~~~l~~--~~  319 (444)
                         ++    +......  ....+..+.....+.. .+++++|+||+++..-       ..+     ...+...+..  ..
T Consensus       261 ---eL----l~kyvGe--te~~ir~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~LDgl~~~  331 (512)
T TIGR03689       261 ---EL----LNKYVGE--TERQIRLIFQRAREKASDGRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSELDGVESL  331 (512)
T ss_pred             ---hh----cccccch--HHHHHHHHHHHHHHHhhcCCCceEEEehhhhhhcccCCCccchHHHHHHHHHHHHhcccccC
Confidence               11    1110000  0011122222222222 3578999999997521       011     1233333322  12


Q ss_pred             CCcEEEEecCChHHHh--hcCCC---CcccCCCCChHhHHHHHHHhh
Q 047559          320 PNSKIIVTTRHAHVAA--TMEPI---QQYNLQCLSDEDCWSLFMMHA  361 (444)
Q Consensus       320 ~gs~iivTTr~~~va~--~~~~~---~~~~l~~L~~~~~~~lf~~~~  361 (444)
                      .+..||.||.......  ...+.   ..+++...+.++..++|.++.
T Consensus       332 ~~ViVI~ATN~~d~LDpALlRpGRfD~~I~~~~Pd~e~r~~Il~~~l  378 (512)
T TIGR03689       332 DNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFSKYL  378 (512)
T ss_pred             CceEEEeccCChhhCCHhhcCccccceEEEeCCCCHHHHHHHHHHHh
Confidence            3455666776554321  12222   358999999999999998875

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.

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

Probab=97.87  E-value=0.00023  Score=62.33  Aligned_cols=103  Identities=17%  Similarity=0.222  Sum_probs=62.5

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRAL  263 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~i  263 (444)
                      .++||-++.++.+.-.-.+      ++..-+.|.||+|+||||-+..+++..--.. +-+.+.=.+.|+           
T Consensus        27 ~dIVGNe~tv~rl~via~~------gnmP~liisGpPG~GKTTsi~~LAr~LLG~~-~ke~vLELNASd-----------   88 (333)
T KOG0991|consen   27 QDIVGNEDTVERLSVIAKE------GNMPNLIISGPPGTGKTTSILCLARELLGDS-YKEAVLELNASD-----------   88 (333)
T ss_pred             HHhhCCHHHHHHHHHHHHc------CCCCceEeeCCCCCchhhHHHHHHHHHhChh-hhhHhhhccCcc-----------
Confidence            4689999988888776544      3346789999999999998777665532111 112222223332           


Q ss_pred             HHHhccCCCCcccHHHHHHHHHHHh-------CCceEEEEEeCCCCCChhcHHHhhcc
Q 047559          264 LESITFASCDLKALNEVQVQIKRAV-------DGKKLLLVLDDVWNEDYCLWEDLKAP  314 (444)
Q Consensus       264 l~~l~~~~~~~~~~~~~~~~l~~~l-------~~kr~LlVlDdv~~~~~~~~~~l~~~  314 (444)
                                ...++-....++.+.       .++.-+||||+.++........+++.
T Consensus        89 ----------eRGIDvVRn~IK~FAQ~kv~lp~grhKIiILDEADSMT~gAQQAlRRt  136 (333)
T KOG0991|consen   89 ----------ERGIDVVRNKIKMFAQKKVTLPPGRHKIIILDEADSMTAGAQQALRRT  136 (333)
T ss_pred             ----------ccccHHHHHHHHHHHHhhccCCCCceeEEEeeccchhhhHHHHHHHHH
Confidence                      233444444444433       24556899999988655554555443

>TIGR00763 lon ATP-dependent protease La

Probab=97.87  E-value=0.00037  Score=74.63  Aligned_cols=166  Identities=16%  Similarity=0.196  Sum_probs=85.3

Q ss_pred             CCcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHH
Q 047559          183 ERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRA  262 (444)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~  262 (444)
                      ...++|.+.-++.|.+++............++.++|++|+|||++|+.+.+....   .|   +-++++...+..++...
T Consensus       319 ~~~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~l~~---~~---~~i~~~~~~~~~~i~g~  392 (775)
T TIGR00763       319 DEDHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKALNR---KF---VRFSLGGVRDEAEIRGH  392 (775)
T ss_pred             hhhcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHHhcC---Ce---EEEeCCCcccHHHHcCC
Confidence            3458899998999888664321111122358999999999999999999987421   22   11223332232222110


Q ss_pred             HHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhc----HHHhhccc--------CCC-------CCCcE
Q 047559          263 LLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCL----WEDLKAPF--------LAA-------APNSK  323 (444)
Q Consensus       263 il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~----~~~l~~~l--------~~~-------~~gs~  323 (444)
                            ...........+...+... ..++-+|+||+++......    -..+...+        .+.       ..+..
T Consensus       393 ------~~~~~g~~~g~i~~~l~~~-~~~~~villDEidk~~~~~~~~~~~aLl~~ld~~~~~~f~d~~~~~~~d~s~v~  465 (775)
T TIGR00763       393 ------RRTYVGAMPGRIIQGLKKA-KTKNPLFLLDEIDKIGSSFRGDPASALLEVLDPEQNNAFSDHYLDVPFDLSKVI  465 (775)
T ss_pred             ------CCceeCCCCchHHHHHHHh-CcCCCEEEEechhhcCCccCCCHHHHHHHhcCHHhcCccccccCCceeccCCEE
Confidence                  0000011111222233332 2334488999996653210    11122211        111       12334


Q ss_pred             EEEecCChHH-H-hhcCCCCcccCCCCChHhHHHHHHHhh
Q 047559          324 IIVTTRHAHV-A-ATMEPIQQYNLQCLSDEDCWSLFMMHA  361 (444)
Q Consensus       324 iivTTr~~~v-a-~~~~~~~~~~l~~L~~~~~~~lf~~~~  361 (444)
                      +|.||..... . .......++++.+++.++-.+++..+.
T Consensus       466 ~I~TtN~~~~i~~~L~~R~~vi~~~~~~~~e~~~I~~~~l  505 (775)
T TIGR00763       466 FIATANSIDTIPRPLLDRMEVIELSGYTEEEKLEIAKKYL  505 (775)
T ss_pred             EEEecCCchhCCHHHhCCeeEEecCCCCHHHHHHHHHHHH
Confidence            4555544321 1 122334678999999998888876653

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.

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.86  E-value=9.7e-05  Score=60.89  Aligned_cols=88  Identities=20%  Similarity=0.046  Sum_probs=46.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGK  291 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  291 (444)
                      ..+.|+|++|+||||+++.+.......   ....++++.+........... ...... .............+.......
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~---~~~~~~~~~~~~~~~~~~~~~-~~~~~~-~~~~~~~~~~~~~~~~~~~~~   77 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELGPP---GGGVIYIDGEDILEEVLDQLL-LIIVGG-KKASGSGELRLRLALALARKL   77 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccCCC---CCCEEEECCEEccccCHHHHH-hhhhhc-cCCCCCHHHHHHHHHHHHHhc
Confidence            579999999999999999998874221   123555555443322111111 001111 111111222222334444333


Q ss_pred             -eEEEEEeCCCCCC
Q 047559          292 -KLLLVLDDVWNED  304 (444)
Q Consensus       292 -r~LlVlDdv~~~~  304 (444)
                       ..+|++|++....
T Consensus        78 ~~~viiiDei~~~~   91 (148)
T smart00382       78 KPDVLILDEITSLL   91 (148)
T ss_pred             CCCEEEEECCcccC
Confidence             4899999997753

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.

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=97.83  E-value=0.00061  Score=63.10  Aligned_cols=141  Identities=17%  Similarity=0.148  Sum_probs=72.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHH--------HHh----ccCCCCcccHHH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALL--------ESI----TFASCDLKALNE  279 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il--------~~l----~~~~~~~~~~~~  279 (444)
                      ..+.|.|++|+|||+||+.+....  .    ...+.+++....+..+++....        ..+    ...... .+..-
T Consensus        22 ~~vLL~G~~GtGKT~lA~~la~~l--g----~~~~~i~~~~~~~~~dllg~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~   94 (262)
T TIGR02640        22 YPVHLRGPAGTGKTTLAMHVARKR--D----RPVMLINGDAELTTSDLVGSYAGYTRKKVHDQFIHNVVKLEDI-VRQNW   94 (262)
T ss_pred             CeEEEEcCCCCCHHHHHHHHHHHh--C----CCEEEEeCCccCCHHHHhhhhcccchhhHHHHHHHHhhhhhcc-cceee
Confidence            457799999999999999998632  1    1334566666555555443211        000    000000 00000


Q ss_pred             HHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCC----------------CCCcEEEEecCChHHHh-------h
Q 047559          280 VQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAA----------------APNSKIIVTTRHAHVAA-------T  336 (444)
Q Consensus       280 ~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~----------------~~gs~iivTTr~~~va~-------~  336 (444)
                      ....+.... .+...|++|++...+...+..|...+...                .++.+||+|+.......       .
T Consensus        95 ~~g~l~~A~-~~g~~lllDEi~r~~~~~q~~Ll~~Le~~~~~i~~~~~~~~~i~~~~~frvIaTsN~~~~~g~~~l~~aL  173 (262)
T TIGR02640        95 VDNRLTLAV-REGFTLVYDEFTRSKPETNNVLLSVFEEGVLELPGKRGTSRYVDVHPEFRVIFTSNPVEYAGVHETQDAL  173 (262)
T ss_pred             cCchHHHHH-HcCCEEEEcchhhCCHHHHHHHHHHhcCCeEEccCCCCCCceEecCCCCEEEEeeCCccccceecccHHH
Confidence            000111111 23468999999877666666555544221                13567888887542110       0


Q ss_pred             cCCCCcccCCCCChHhHHHHHHHh
Q 047559          337 MEPIQQYNLQCLSDEDCWSLFMMH  360 (444)
Q Consensus       337 ~~~~~~~~l~~L~~~~~~~lf~~~  360 (444)
                      ......+.+...+.++-.+++..+
T Consensus       174 ~~R~~~i~i~~P~~~~e~~Il~~~  197 (262)
T TIGR02640       174 LDRLITIFMDYPDIDTETAILRAK  197 (262)
T ss_pred             HhhcEEEECCCCCHHHHHHHHHHh
Confidence            111223455555666655665554

Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).

>PRK10536 hypothetical protein; Provisional

Probab=97.82  E-value=0.00069  Score=61.36  Aligned_cols=134  Identities=15%  Similarity=0.182  Sum_probs=74.3

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEE----eCC-----CCC
Q 047559          185 AVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVC----VSD-----DFD  255 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~----vs~-----~~~  255 (444)
                      .+.++......++.+|...        .++.+.|++|+|||+||..+..+.-..+ .|+..+-+.    .+.     +-+
T Consensus        56 ~i~p~n~~Q~~~l~al~~~--------~lV~i~G~aGTGKT~La~a~a~~~l~~~-~~~kIiI~RP~v~~ge~LGfLPG~  126 (262)
T PRK10536         56 PILARNEAQAHYLKAIESK--------QLIFATGEAGCGKTWISAAKAAEALIHK-DVDRIIVTRPVLQADEDLGFLPGD  126 (262)
T ss_pred             cccCCCHHHHHHHHHHhcC--------CeEEEECCCCCCHHHHHHHHHHHHHhcC-CeeEEEEeCCCCCchhhhCcCCCC
Confidence            4667888888888888531        4899999999999999998876532222 444333221    111     011


Q ss_pred             HHH----HHHHHHHHhccCCCCcccHHHHHH--------HHHHHhCCceE---EEEEeCCCCCChhcHHHhhcccCCCCC
Q 047559          256 VLN----ISRALLESITFASCDLKALNEVQV--------QIKRAVDGKKL---LLVLDDVWNEDYCLWEDLKAPFLAAAP  320 (444)
Q Consensus       256 ~~~----~~~~il~~l~~~~~~~~~~~~~~~--------~l~~~l~~kr~---LlVlDdv~~~~~~~~~~l~~~l~~~~~  320 (444)
                      ..+    .+.-+...+..-. +....+....        .=..+++|..+   +||+|+..+.+......+..   .-+.
T Consensus       127 ~~eK~~p~~~pi~D~L~~~~-~~~~~~~~~~~~~~~Iei~~l~ymRGrtl~~~~vIvDEaqn~~~~~~k~~lt---R~g~  202 (262)
T PRK10536        127 IAEKFAPYFRPVYDVLVRRL-GASFMQYCLRPEIGKVEIAPFAYMRGRTFENAVVILDEAQNVTAAQMKMFLT---RLGE  202 (262)
T ss_pred             HHHHHHHHHHHHHHHHHHHh-ChHHHHHHHHhccCcEEEecHHHhcCCcccCCEEEEechhcCCHHHHHHHHh---hcCC
Confidence            211    1122222221100 0011111100        01135667655   99999998876655444443   3467


Q ss_pred             CcEEEEecCCh
Q 047559          321 NSKIIVTTRHA  331 (444)
Q Consensus       321 gs~iivTTr~~  331 (444)
                      +|++|+|--..
T Consensus       203 ~sk~v~~GD~~  213 (262)
T PRK10536        203 NVTVIVNGDIT  213 (262)
T ss_pred             CCEEEEeCChh
Confidence            99999987543

>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A

Probab=97.82  E-value=0.0003  Score=59.99  Aligned_cols=139  Identities=14%  Similarity=0.175  Sum_probs=76.6

Q ss_pred             ccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcccccc-----------------CCcceeEEEEe
Q 047559          188 GRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVED-----------------SKFDVKAWVCV  250 (444)
Q Consensus       188 Gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~-----------------~~f~~~~wv~v  250 (444)
                      |.++..+.|...+..+.-     ...+.++|+.|+||+++|..+.+..--..                 ....-..|+.-
T Consensus         1 gq~~~~~~L~~~~~~~~l-----~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~   75 (162)
T PF13177_consen    1 GQEEIIELLKNLIKSGRL-----PHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIKP   75 (162)
T ss_dssp             S-HHHHHHHHHHHHCTC-------SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEET
T ss_pred             CcHHHHHHHHHHHHcCCc-----ceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEec
Confidence            455666777777655422     24789999999999999988765421111                 01112233322


Q ss_pred             CCC---CCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEe
Q 047559          251 SDD---FDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVT  327 (444)
Q Consensus       251 s~~---~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivT  327 (444)
                      ...   ...+++ +.+...+....                ..++.=++|+|+++..+...++.|...+.....++.+|++
T Consensus        76 ~~~~~~i~i~~i-r~i~~~~~~~~----------------~~~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fiL~  138 (162)
T PF13177_consen   76 DKKKKSIKIDQI-REIIEFLSLSP----------------SEGKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYFILI  138 (162)
T ss_dssp             TTSSSSBSHHHH-HHHHHHCTSS-----------------TTSSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEEEE
T ss_pred             ccccchhhHHHH-HHHHHHHHHHH----------------hcCCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEEEE
Confidence            221   122221 12222222111                1234568999999998888899999999888889999988


Q ss_pred             cCChH-HH-hhcCCCCcccCCCC
Q 047559          328 TRHAH-VA-ATMEPIQQYNLQCL  348 (444)
Q Consensus       328 Tr~~~-va-~~~~~~~~~~l~~L  348 (444)
                      |.+.. +. ...+....+.+.++
T Consensus       139 t~~~~~il~TI~SRc~~i~~~~l  161 (162)
T PF13177_consen  139 TNNPSKILPTIRSRCQVIRFRPL  161 (162)
T ss_dssp             ES-GGGS-HHHHTTSEEEEE---
T ss_pred             ECChHHChHHHHhhceEEecCCC
Confidence            88654 22 22223344555544

...

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=97.78  E-value=0.0015  Score=61.92  Aligned_cols=93  Identities=11%  Similarity=0.075  Sum_probs=65.4

Q ss_pred             CceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCCh-HHHhh-cCCCCcccCCCCChHhHHHHHHHhhccCCCC
Q 047559          290 GKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHA-HVAAT-MEPIQQYNLQCLSDEDCWSLFMMHAFVGQDI  367 (444)
Q Consensus       290 ~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~-~va~~-~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~  367 (444)
                      +++=++|+|+++..+....+.+...+.....++.+|++|.+. .+... .+....+.+.+++.++..+.+.....    .
T Consensus       106 g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~SRC~~~~~~~~~~~~~~~~L~~~~~----~  181 (325)
T PRK06871        106 GGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYSRCQTWLIHPPEEQQALDWLQAQSS----A  181 (325)
T ss_pred             CCceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHHhhceEEeCCCCCHHHHHHHHHHHhc----c
Confidence            556688899998888888888888888777778887777654 33322 23346789999999999988876531    1


Q ss_pred             CccchHHHHHHHHHHHcCCChHHH
Q 047559          368 TAQQISDLFREKVVGKCGGLPLAA  391 (444)
Q Consensus       368 ~~~~~~~~~~~~i~~~~~G~Plai  391 (444)
                       ...    .+...+..++|.|+.+
T Consensus       182 -~~~----~~~~~~~l~~g~p~~A  200 (325)
T PRK06871        182 -EIS----EILTALRINYGRPLLA  200 (325)
T ss_pred             -ChH----HHHHHHHHcCCCHHHH
Confidence             111    1345678889999643

>PRK08118 topology modulation protein; Reviewed

Probab=97.77  E-value=1.3e-05  Score=68.81  Aligned_cols=35  Identities=31%  Similarity=0.543  Sum_probs=29.3

Q ss_pred             EEEEEecCCChHHHHHHHHhhccccccCCcceeEE
Q 047559          213 VIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAW  247 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~w  247 (444)
                      -|.|+|++|+||||||+.+++.......+||..+|
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~   37 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFW   37 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCceecchhhc
Confidence            58999999999999999999887655336787776

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=97.77  E-value=0.002  Score=61.02  Aligned_cols=93  Identities=16%  Similarity=0.146  Sum_probs=66.7

Q ss_pred             CceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCChH-HH-hhcCCCCcccCCCCChHhHHHHHHHhhccCCCC
Q 047559          290 GKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAH-VA-ATMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDI  367 (444)
Q Consensus       290 ~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~~-va-~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~  367 (444)
                      ++.=++|+|+++..+....+.+...+.....++.+|++|.+.+ +. ...+....+.+.+++.++..+.+....     .
T Consensus       107 ~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTI~SRCq~~~~~~~~~~~~~~~L~~~~-----~  181 (319)
T PRK06090        107 NGYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKRLLPTIVSRCQQWVVTPPSTAQAMQWLKGQG-----I  181 (319)
T ss_pred             CCceEEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhcceeEeCCCCCHHHHHHHHHHcC-----C
Confidence            3455889999988888888988888887777777777766543 33 333344678999999999988886531     1


Q ss_pred             CccchHHHHHHHHHHHcCCChHHHHHH
Q 047559          368 TAQQISDLFREKVVGKCGGLPLAAKTL  394 (444)
Q Consensus       368 ~~~~~~~~~~~~i~~~~~G~Plai~~~  394 (444)
                      .       ....++..++|.|+....+
T Consensus       182 ~-------~~~~~l~l~~G~p~~A~~~  201 (319)
T PRK06090        182 T-------VPAYALKLNMGSPLKTLAM  201 (319)
T ss_pred             c-------hHHHHHHHcCCCHHHHHHH
Confidence            1       1245788999999977655

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

Probab=97.76  E-value=0.0004  Score=68.19  Aligned_cols=117  Identities=18%  Similarity=0.123  Sum_probs=73.4

Q ss_pred             EEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCce
Q 047559          213 VIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGKK  292 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr  292 (444)
                      ++.|.|+.++||||+++.+....  .+    ..++++.-+......-+.+.                 ...+.+.-..++
T Consensus        39 i~~i~GpR~~GKTtll~~l~~~~--~~----~~iy~~~~d~~~~~~~l~d~-----------------~~~~~~~~~~~~   95 (398)
T COG1373          39 IILILGPRQVGKTTLLKLLIKGL--LE----EIIYINFDDLRLDRIELLDL-----------------LRAYIELKEREK   95 (398)
T ss_pred             EEEEECCccccHHHHHHHHHhhC--Cc----ceEEEEecchhcchhhHHHH-----------------HHHHHHhhccCC
Confidence            99999999999999997666542  11    14555433221111100111                 111111112277


Q ss_pred             EEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCChHHHhh------cCCCCcccCCCCChHhHHH
Q 047559          293 LLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAAT------MEPIQQYNLQCLSDEDCWS  355 (444)
Q Consensus       293 ~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~~va~~------~~~~~~~~l~~L~~~~~~~  355 (444)
                      .+|+||.|...  ..|......+.+..+. +|++|+-+......      .+....+.+-||+..|...
T Consensus        96 ~yifLDEIq~v--~~W~~~lk~l~d~~~~-~v~itgsss~ll~~~~~~~L~GR~~~~~l~PlSF~Efl~  161 (398)
T COG1373          96 SYIFLDEIQNV--PDWERALKYLYDRGNL-DVLITGSSSSLLSKEISESLAGRGKDLELYPLSFREFLK  161 (398)
T ss_pred             ceEEEecccCc--hhHHHHHHHHHccccc-eEEEECCchhhhccchhhhcCCCceeEEECCCCHHHHHh
Confidence            89999999665  6788887888776666 88888887654422      1334568999999999865

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

Probab=97.76  E-value=0.0004  Score=73.92  Aligned_cols=122  Identities=15%  Similarity=0.167  Sum_probs=70.2

Q ss_pred             CcccccchhHHHHHHHHhcCCC---CCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTS---SDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNIS  260 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~  260 (444)
                      ..++|.+..++.+...+.....   +......++.++|++|+|||+||+.+....      +...+.++++.-.+...  
T Consensus       454 ~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l------~~~~~~~d~se~~~~~~--  525 (731)
T TIGR02639       454 AKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEAL------GVHLERFDMSEYMEKHT--  525 (731)
T ss_pred             cceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHh------cCCeEEEeCchhhhccc--
Confidence            4588999888888887764211   111234578999999999999999998753      22335555544222111  


Q ss_pred             HHHHHHhccCCCCcccHHHHHHHHHHHhCCc-eEEEEEeCCCCCChhcHHHhhcccCC
Q 047559          261 RALLESITFASCDLKALNEVQVQIKRAVDGK-KLLLVLDDVWNEDYCLWEDLKAPFLA  317 (444)
Q Consensus       261 ~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k-r~LlVlDdv~~~~~~~~~~l~~~l~~  317 (444)
                         ...+.+..+.....+ ....+.+.++.+ .-+|+||+++..+...++.|...+..
T Consensus       526 ---~~~lig~~~gyvg~~-~~~~l~~~~~~~p~~VvllDEieka~~~~~~~Ll~~ld~  579 (731)
T TIGR02639       526 ---VSRLIGAPPGYVGFE-QGGLLTEAVRKHPHCVLLLDEIEKAHPDIYNILLQVMDY  579 (731)
T ss_pred             ---HHHHhcCCCCCcccc-hhhHHHHHHHhCCCeEEEEechhhcCHHHHHHHHHhhcc
Confidence               111111111111111 011233344333 45999999988877777777766543

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

Probab=97.74  E-value=0.0001  Score=76.47  Aligned_cols=122  Identities=17%  Similarity=0.233  Sum_probs=80.7

Q ss_pred             CCcccccchhHHHHHHHHhcCCC---CCCCCceEEEEEecCCChHHHHHHHHhhccccccCCc---ceeEEEEeCCCCCH
Q 047559          183 ERAVFGRQQDKAKMLEMVLTDTS---SDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKF---DVKAWVCVSDDFDV  256 (444)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f---~~~~wv~vs~~~~~  256 (444)
                      ...++|.+.-+..+.+.+.....   +...++.+....|+.|+|||.||+.+...      -|   +..+-++.|     
T Consensus       490 ~~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~------Lfg~e~aliR~DMS-----  558 (786)
T COG0542         490 KKRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEA------LFGDEQALIRIDMS-----  558 (786)
T ss_pred             hcceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHH------hcCCCccceeechH-----
Confidence            35699999999999887755322   22255678888999999999999998875      34   333444333     


Q ss_pred             HHHH-HHHHHHhccCCCCcccHHHHHHHHHHHhCCceE-EEEEeCCCCCChhcHHHhhcccCC
Q 047559          257 LNIS-RALLESITFASCDLKALNEVQVQIKRAVDGKKL-LLVLDDVWNEDYCLWEDLKAPFLA  317 (444)
Q Consensus       257 ~~~~-~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~-LlVlDdv~~~~~~~~~~l~~~l~~  317 (444)
                       +.. +.-.+.+-+..++--..++ -..|.+.++.++| +|.||++...+++-.+.+...|.+
T Consensus       559 -Ey~EkHsVSrLIGaPPGYVGyee-GG~LTEaVRr~PySViLlDEIEKAHpdV~nilLQVlDd  619 (786)
T COG0542         559 -EYMEKHSVSRLIGAPPGYVGYEE-GGQLTEAVRRKPYSVILLDEIEKAHPDVFNLLLQVLDD  619 (786)
T ss_pred             -HHHHHHHHHHHhCCCCCCceecc-ccchhHhhhcCCCeEEEechhhhcCHHHHHHHHHHhcC
Confidence             332 2333444444443222222 3356667778887 888999988888878877777654

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

Probab=97.73  E-value=0.0004  Score=67.99  Aligned_cols=179  Identities=16%  Similarity=0.141  Sum_probs=93.8

Q ss_pred             CcccccchhHHHHHHHHhcCC-------CCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDT-------SSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDV  256 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~-------~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~  256 (444)
                      .++.|.+..+++|.+.+...-       .-+-...+-+.++|++|+|||+||+.+++....   .|   +.+..      
T Consensus       145 ~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l~~---~f---i~i~~------  212 (398)
T PTZ00454        145 SDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTA---TF---IRVVG------  212 (398)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCC---CE---EEEeh------
Confidence            458898888888776553210       001133467999999999999999999986321   22   12211      


Q ss_pred             HHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCC-----------hh---cHHHhhcccCC--CCC
Q 047559          257 LNISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNED-----------YC---LWEDLKAPFLA--AAP  320 (444)
Q Consensus       257 ~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~-----------~~---~~~~l~~~l~~--~~~  320 (444)
                      .++.    ....+     .....+...+.......+.+|+||+++..-           ..   .+..+...+..  ...
T Consensus       213 s~l~----~k~~g-----e~~~~lr~lf~~A~~~~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~~~~  283 (398)
T PTZ00454        213 SEFV----QKYLG-----EGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFDQTT  283 (398)
T ss_pred             HHHH----HHhcc-----hhHHHHHHHHHHHHhcCCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhccCCCC
Confidence            1111    11100     011111222222334578999999986420           00   11122222211  234


Q ss_pred             CcEEEEecCChHHHh--hcCC---CCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCCh
Q 047559          321 NSKIIVTTRHAHVAA--TMEP---IQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLP  388 (444)
Q Consensus       321 gs~iivTTr~~~va~--~~~~---~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  388 (444)
                      +..||.||...+...  ...+   ...+.+...+.++..++|..... ......+-++    ..+++.+.|..
T Consensus       284 ~v~VI~aTN~~d~LDpAllR~GRfd~~I~~~~P~~~~R~~Il~~~~~-~~~l~~dvd~----~~la~~t~g~s  351 (398)
T PTZ00454        284 NVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITS-KMNLSEEVDL----EDFVSRPEKIS  351 (398)
T ss_pred             CEEEEEecCCchhCCHHHcCCCcccEEEEeCCcCHHHHHHHHHHHHh-cCCCCcccCH----HHHHHHcCCCC
Confidence            567888887654321  2222   24578888888888888876542 2222222233    34666676653

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

Probab=97.72  E-value=0.00016  Score=72.10  Aligned_cols=186  Identities=14%  Similarity=0.150  Sum_probs=108.1

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHH
Q 047559          185 AVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALL  264 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il  264 (444)
                      +++|.+.-...|...+....-     ..--...|+.|+||||+|+.+....--..       | ....++..-..-+.|.
T Consensus        17 evvGQe~v~~~L~nal~~~ri-----~hAYlfsG~RGvGKTt~Ari~AkalNC~~-------~-~~~ePC~~C~~Ck~I~   83 (515)
T COG2812          17 DVVGQEHVVKTLSNALENGRI-----AHAYLFSGPRGVGKTTIARILAKALNCEN-------G-PTAEPCGKCISCKEIN   83 (515)
T ss_pred             HhcccHHHHHHHHHHHHhCcc-----hhhhhhcCCCCcCchhHHHHHHHHhcCCC-------C-CCCCcchhhhhhHhhh
Confidence            479999999999998876432     23456789999999999998876431111       1 1111111111112221


Q ss_pred             HH--------hccCCCCcccHHHHHHHHHHHh-CCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCChH-HH
Q 047559          265 ES--------ITFASCDLKALNEVQVQIKRAV-DGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAH-VA  334 (444)
Q Consensus       265 ~~--------l~~~~~~~~~~~~~~~~l~~~l-~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~~-va  334 (444)
                      ..        -..+.....++.++.+.+.-.- .++-=++|+|+|+-.....|+.+...+.........|+.|++.. +.
T Consensus        84 ~g~~~DviEiDaASn~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIlATTe~~Kip  163 (515)
T COG2812          84 EGSLIDVIEIDAASNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATTEPQKIP  163 (515)
T ss_pred             cCCcccchhhhhhhccChHHHHHHHHHhccCCccccceEEEEecHHhhhHHHHHHHhcccccCccCeEEEEecCCcCcCc
Confidence            11        0001111222222222222211 34445889999998888889999998877777777777666543 32


Q ss_pred             -hhcCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCC
Q 047559          335 -ATMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGL  387 (444)
Q Consensus       335 -~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~  387 (444)
                       ...+..+.|.++.++.++-...+...+-...-..++.    ....|++..+|.
T Consensus       164 ~TIlSRcq~f~fkri~~~~I~~~L~~i~~~E~I~~e~~----aL~~ia~~a~Gs  213 (515)
T COG2812         164 NTILSRCQRFDFKRLDLEEIAKHLAAILDKEGINIEED----ALSLIARAAEGS  213 (515)
T ss_pred             hhhhhccccccccCCCHHHHHHHHHHHHHhcCCccCHH----HHHHHHHHcCCC
Confidence             3344557899999999988888776653322222222    223466666664

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=97.71  E-value=0.0008  Score=64.50  Aligned_cols=150  Identities=11%  Similarity=0.075  Sum_probs=89.5

Q ss_pred             cccc-cchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcccccc-------------------CCcce
Q 047559          185 AVFG-RQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVED-------------------SKFDV  244 (444)
Q Consensus       185 ~~vG-r~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~-------------------~~f~~  244 (444)
                      .++| .+.-++.+...+..+.     -.....++|+.|+||||+|+.+.+..--..                   .|.|.
T Consensus         6 ~i~~~q~~~~~~L~~~~~~~~-----l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~~cg~C~~c~~~~~~~hpD~   80 (329)
T PRK08058          6 QLTALQPVVVKMLQNSIAKNR-----LSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEPCGTCTNCKRIDSGNHPDV   80 (329)
T ss_pred             HHHhhHHHHHHHHHHHHHcCC-----CCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCcCHHHHHHhcCCCCCE
Confidence            3566 5666677777765432     225779999999999999988865421000                   01121


Q ss_pred             eEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHH----hCCceEEEEEeCCCCCChhcHHHhhcccCCCCC
Q 047559          245 KAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRA----VDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAP  320 (444)
Q Consensus       245 ~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~----l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~  320 (444)
                      . ++....                    .....++....+...    ..+.+=++|+|+++..+....+.|...+.....
T Consensus        81 ~-~i~~~~--------------------~~i~id~ir~l~~~~~~~~~~~~~kvviI~~a~~~~~~a~NaLLK~LEEPp~  139 (329)
T PRK08058         81 H-LVAPDG--------------------QSIKKDQIRYLKEEFSKSGVESNKKVYIIEHADKMTASAANSLLKFLEEPSG  139 (329)
T ss_pred             E-Eecccc--------------------ccCCHHHHHHHHHHHhhCCcccCceEEEeehHhhhCHHHHHHHHHHhcCCCC
Confidence            1 111000                    011122222222111    234455799999988777777888888877677


Q ss_pred             CcEEEEecCChH-HHh-hcCCCCcccCCCCChHhHHHHHHHh
Q 047559          321 NSKIIVTTRHAH-VAA-TMEPIQQYNLQCLSDEDCWSLFMMH  360 (444)
Q Consensus       321 gs~iivTTr~~~-va~-~~~~~~~~~l~~L~~~~~~~lf~~~  360 (444)
                      ++.+|++|.+.. +.. ..+....+++.+++.++....+...
T Consensus       140 ~~~~Il~t~~~~~ll~TIrSRc~~i~~~~~~~~~~~~~L~~~  181 (329)
T PRK08058        140 GTTAILLTENKHQILPTILSRCQVVEFRPLPPESLIQRLQEE  181 (329)
T ss_pred             CceEEEEeCChHhCcHHHHhhceeeeCCCCCHHHHHHHHHHc
Confidence            888887776533 222 2233467899999999988877643

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=97.70  E-value=0.0025  Score=60.39  Aligned_cols=96  Identities=9%  Similarity=0.152  Sum_probs=65.6

Q ss_pred             CceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCCh-HHHh-hcCCCCcccCCCCChHhHHHHHHHhhccCCCC
Q 047559          290 GKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHA-HVAA-TMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDI  367 (444)
Q Consensus       290 ~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~-~va~-~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~  367 (444)
                      +++=++|+|+++..+...-+.|...+.....++.+|++|.+. .+.. ..+....+.+.+++.+++.+.+....     .
T Consensus       112 g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIrSRCq~i~~~~~~~~~~~~~L~~~~-----~  186 (319)
T PRK08769        112 GIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRSRCQRLEFKLPPAHEALAWLLAQG-----V  186 (319)
T ss_pred             CCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHHhhheEeeCCCcCHHHHHHHHHHcC-----C
Confidence            456689999998877777777878777666777777777653 3332 22333668899999999988886431     1


Q ss_pred             CccchHHHHHHHHHHHcCCChHHHHHHH
Q 047559          368 TAQQISDLFREKVVGKCGGLPLAAKTLG  395 (444)
Q Consensus       368 ~~~~~~~~~~~~i~~~~~G~Plai~~~~  395 (444)
                       .    +..+..++..++|.|+....+.
T Consensus       187 -~----~~~a~~~~~l~~G~p~~A~~~~  209 (319)
T PRK08769        187 -S----ERAAQEALDAARGHPGLAAQWL  209 (319)
T ss_pred             -C----hHHHHHHHHHcCCCHHHHHHHh
Confidence             1    1113567899999998765443

>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=97.66  E-value=2.5e-05  Score=64.87  Aligned_cols=87  Identities=24%  Similarity=0.183  Sum_probs=48.3

Q ss_pred             EEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceE
Q 047559          214 IPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGKKL  293 (444)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~  293 (444)
                      |.|+|++|+|||+||+.++....      ....-+.++...+..+++...--.  ..... .....+...+     .+..
T Consensus         2 vlL~G~~G~GKt~l~~~la~~~~------~~~~~i~~~~~~~~~dl~g~~~~~--~~~~~-~~~~~l~~a~-----~~~~   67 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAALLG------RPVIRINCSSDTTEEDLIGSYDPS--NGQFE-FKDGPLVRAM-----RKGG   67 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHHHT------CEEEEEE-TTTSTHHHHHCEEET---TTTTC-EEE-CCCTTH-----HEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHhh------cceEEEEeccccccccceeeeeec--ccccc-cccccccccc-----ccee
Confidence            68999999999999999987641      133446777777777665332211  00000 0000000000     1789


Q ss_pred             EEEEeCCCCCChhcHHHhhcc
Q 047559          294 LLVLDDVWNEDYCLWEDLKAP  314 (444)
Q Consensus       294 LlVlDdv~~~~~~~~~~l~~~  314 (444)
                      ++|||++...+...+..+...
T Consensus        68 il~lDEin~a~~~v~~~L~~l   88 (139)
T PF07728_consen   68 ILVLDEINRAPPEVLESLLSL   88 (139)
T ss_dssp             EEEESSCGG--HHHHHTTHHH
T ss_pred             EEEECCcccCCHHHHHHHHHH
Confidence            999999976555545544443

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.

>CHL00176 ftsH cell division protein; Validated

Probab=97.66  E-value=0.00095  Score=69.21  Aligned_cols=177  Identities=16%  Similarity=0.216  Sum_probs=93.5

Q ss_pred             CcccccchhHHHH---HHHHhcCCC---CCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHH
Q 047559          184 RAVFGRQQDKAKM---LEMVLTDTS---SDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVL  257 (444)
Q Consensus       184 ~~~vGr~~~~~~l---~~~L~~~~~---~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~  257 (444)
                      .++.|.++.++++   ++.+.....   -+....+-+.++|++|+|||+||+.++....+        -|+.++.    .
T Consensus       183 ~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~~~--------p~i~is~----s  250 (638)
T CHL00176        183 RDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEV--------PFFSISG----S  250 (638)
T ss_pred             HhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCC--------CeeeccH----H
Confidence            3577876655554   444433211   01122457999999999999999999876321        1233321    1


Q ss_pred             HHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCC----------hhc----HHHhhcccCC--CCCC
Q 047559          258 NISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNED----------YCL----WEDLKAPFLA--AAPN  321 (444)
Q Consensus       258 ~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~----------~~~----~~~l~~~l~~--~~~g  321 (444)
                      ++..    ....     .....+...+.......+++|+|||++...          ...    +..+...+..  ...+
T Consensus       251 ~f~~----~~~g-----~~~~~vr~lF~~A~~~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~~~~  321 (638)
T CHL00176        251 EFVE----MFVG-----VGAARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGNKG  321 (638)
T ss_pred             HHHH----Hhhh-----hhHHHHHHHHHHHhcCCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccCCCC
Confidence            1110    0000     011122233444446778999999996431          011    2222222211  2345


Q ss_pred             cEEEEecCChHHHh--hcCC---CCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCC
Q 047559          322 SKIIVTTRHAHVAA--TMEP---IQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGG  386 (444)
Q Consensus       322 s~iivTTr~~~va~--~~~~---~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G  386 (444)
                      ..||.||.......  ...+   ...+.+...+.++-.++|+.++-.. ....    ......+++.+.|
T Consensus       322 ViVIaaTN~~~~LD~ALlRpGRFd~~I~v~lPd~~~R~~IL~~~l~~~-~~~~----d~~l~~lA~~t~G  386 (638)
T CHL00176        322 VIVIAATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARNK-KLSP----DVSLELIARRTPG  386 (638)
T ss_pred             eeEEEecCchHhhhhhhhccccCceEEEECCCCHHHHHHHHHHHHhhc-ccch----hHHHHHHHhcCCC
Confidence            66777776644322  1222   2567888889999888888776331 1111    1223557777777

>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=97.65  E-value=0.00011  Score=65.98  Aligned_cols=36  Identities=31%  Similarity=0.419  Sum_probs=29.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEe
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCV  250 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~v  250 (444)
                      --++|+|..|+|||||...+...  ... .|.++++++-
T Consensus        14 fr~viIG~sGSGKT~li~~lL~~--~~~-~f~~I~l~t~   49 (241)
T PF04665_consen   14 FRMVIIGKSGSGKTTLIKSLLYY--LRH-KFDHIFLITP   49 (241)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHh--hcc-cCCEEEEEec
Confidence            47899999999999999998876  344 7877777754

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

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

Probab=97.63  E-value=0.00036  Score=68.85  Aligned_cols=157  Identities=17%  Similarity=0.186  Sum_probs=85.0

Q ss_pred             CcccccchhHHHHHHHHhcCCC-------CCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTS-------SDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDV  256 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~-------~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~  256 (444)
                      .++.|.+..+++|.+.+.-.-.       -+-...+.+.++|++|+|||++|+.+++...  . .|   +.+..+.    
T Consensus       183 ~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el~--~-~f---i~V~~se----  252 (438)
T PTZ00361        183 ADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETS--A-TF---LRVVGSE----  252 (438)
T ss_pred             HHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhhC--C-CE---EEEecch----
Confidence            3578888888888776632100       0012345688999999999999999998632  2 33   1121111    


Q ss_pred             HHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCC-----------hhc---HHHhhcccC--CCCC
Q 047559          257 LNISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNED-----------YCL---WEDLKAPFL--AAAP  320 (444)
Q Consensus       257 ~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~-----------~~~---~~~l~~~l~--~~~~  320 (444)
                        +..    ...+     .....+...+.....+.+.+|+||+++..-           ...   ...+...+.  ....
T Consensus       253 --L~~----k~~G-----e~~~~vr~lF~~A~~~~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~~~~~  321 (438)
T PTZ00361        253 --LIQ----KYLG-----DGPKLVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFDSRG  321 (438)
T ss_pred             --hhh----hhcc-----hHHHHHHHHHHHHHhCCCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHhhhcccC
Confidence              111    1100     011111122222224567899999975320           000   111111111  1234


Q ss_pred             CcEEEEecCChHHHhh--cCC---CCcccCCCCChHhHHHHHHHhh
Q 047559          321 NSKIIVTTRHAHVAAT--MEP---IQQYNLQCLSDEDCWSLFMMHA  361 (444)
Q Consensus       321 gs~iivTTr~~~va~~--~~~---~~~~~l~~L~~~~~~~lf~~~~  361 (444)
                      +..||.||........  ..+   ...+++...+.++..++|..+.
T Consensus       322 ~V~VI~ATNr~d~LDpaLlRpGRfd~~I~~~~Pd~~~R~~Il~~~~  367 (438)
T PTZ00361        322 DVKVIMATNRIESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHT  367 (438)
T ss_pred             CeEEEEecCChHHhhHHhccCCeeEEEEEeCCCCHHHHHHHHHHHH
Confidence            5678888876544322  222   2468899999999999998765

>PRK07261 topology modulation protein; Provisional

Probab=97.63  E-value=0.00016  Score=62.31  Aligned_cols=35  Identities=31%  Similarity=0.480  Sum_probs=25.9

Q ss_pred             EEEEEecCCChHHHHHHHHhhccccccCCcceeEE
Q 047559          213 VIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAW  247 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~w  247 (444)
                      -|.|+|++|+||||||+.+........-+.|...|
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~~~~~i~~D~~~~   36 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHYNCPVLHLDTLHF   36 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhCCCeEecCCEEe
Confidence            48999999999999999998664333224555555

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.61  E-value=0.0021  Score=62.94  Aligned_cols=162  Identities=18%  Similarity=0.206  Sum_probs=90.5

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHh
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAV  288 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l  288 (444)
                      ..+..+.+.|++|+|||+||..+....     .|+.+=-++-.+   +          ++.+  +..............-
T Consensus       536 s~lvSvLl~Gp~~sGKTaLAA~iA~~S-----~FPFvKiiSpe~---m----------iG~s--EsaKc~~i~k~F~DAY  595 (744)
T KOG0741|consen  536 SPLVSVLLEGPPGSGKTALAAKIALSS-----DFPFVKIISPED---M----------IGLS--ESAKCAHIKKIFEDAY  595 (744)
T ss_pred             CcceEEEEecCCCCChHHHHHHHHhhc-----CCCeEEEeChHH---c----------cCcc--HHHHHHHHHHHHHHhh
Confidence            667889999999999999999998762     565543332111   0          0000  0011111122222333


Q ss_pred             CCceEEEEEeCCCCCChhcHHHh------------hccc---CCCCCCcEEEEecCChHHHhhcCCC----CcccCCCCC
Q 047559          289 DGKKLLLVLDDVWNEDYCLWEDL------------KAPF---LAAAPNSKIIVTTRHAHVAATMEPI----QQYNLQCLS  349 (444)
Q Consensus       289 ~~kr~LlVlDdv~~~~~~~~~~l------------~~~l---~~~~~gs~iivTTr~~~va~~~~~~----~~~~l~~L~  349 (444)
                      +..--.||+||+..  ..+|-.+            .-.|   |+.+..--|+-||....+...|+-.    ..|.++.++
T Consensus       596 kS~lsiivvDdiEr--LiD~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~m~i~~~F~~~i~Vpnl~  673 (744)
T KOG0741|consen  596 KSPLSIIVVDDIER--LLDYVPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQEMGILDCFSSTIHVPNLT  673 (744)
T ss_pred             cCcceEEEEcchhh--hhcccccCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHHHcCHHHhhhheeecCccC
Confidence            55667999999944  2344322            2222   2223333344466667777666532    457888887


Q ss_pred             h-HhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHHHhc
Q 047559          350 D-EDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLLR  399 (444)
Q Consensus       350 ~-~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~~L~  399 (444)
                      . ++..+.++..     +...+...+.++.+...+|  +-.+|+.+..++.
T Consensus       674 ~~~~~~~vl~~~-----n~fsd~~~~~~~~~~~~~~--~~vgIKklL~lie  717 (744)
T KOG0741|consen  674 TGEQLLEVLEEL-----NIFSDDEVRAIAEQLLSKK--VNVGIKKLLMLIE  717 (744)
T ss_pred             chHHHHHHHHHc-----cCCCcchhHHHHHHHhccc--cchhHHHHHHHHH
Confidence            6 7777776543     2234456666777777777  3344555555544

>PRK10865 protein disaggregation chaperone; Provisional

Probab=97.60  E-value=0.00054  Score=73.85  Aligned_cols=138  Identities=17%  Similarity=0.172  Sum_probs=76.4

Q ss_pred             CcccccchhHHHHHHHHhcCC---CCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDT---SSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNIS  260 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~---~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~  260 (444)
                      ..++|.+.-+..+...+....   .+...+..++.++|++|+|||+||+.+.+..--   .-...+.++++.-.. .   
T Consensus       568 ~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l~~---~~~~~i~id~se~~~-~---  640 (857)
T PRK10865        568 HRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFMFD---SDDAMVRIDMSEFME-K---  640 (857)
T ss_pred             CeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHhhc---CCCcEEEEEhHHhhh-h---
Confidence            468899999888888775421   111123457899999999999999999865311   112234444433111 1   


Q ss_pred             HHHHHHhccCCCCcccHHHHHHHHHHHhCC-ceEEEEEeCCCCCChhcHHHhhcccCCC----C-------CCcEEEEec
Q 047559          261 RALLESITFASCDLKALNEVQVQIKRAVDG-KKLLLVLDDVWNEDYCLWEDLKAPFLAA----A-------PNSKIIVTT  328 (444)
Q Consensus       261 ~~il~~l~~~~~~~~~~~~~~~~l~~~l~~-kr~LlVlDdv~~~~~~~~~~l~~~l~~~----~-------~gs~iivTT  328 (444)
                       .....+.+..+.....+. ...+.+.++. ..-+|+|||+...+...++.+...+..+    +       ..+.||+||
T Consensus       641 -~~~~~LiG~~pgy~g~~~-~g~l~~~v~~~p~~vLllDEieka~~~v~~~Ll~ile~g~l~d~~gr~vd~rn~iiI~TS  718 (857)
T PRK10865        641 -HSVSRLVGAPPGYVGYEE-GGYLTEAVRRRPYSVILLDEVEKAHPDVFNILLQVLDDGRLTDGQGRTVDFRNTVVIMTS  718 (857)
T ss_pred             -hhHHHHhCCCCcccccch-hHHHHHHHHhCCCCeEEEeehhhCCHHHHHHHHHHHhhCceecCCceEEeecccEEEEeC
Confidence             112222222221111110 1123333322 2359999999887777777777665432    1       223377787


Q ss_pred             CC
Q 047559          329 RH  330 (444)
Q Consensus       329 r~  330 (444)
                      ..
T Consensus       719 N~  720 (857)
T PRK10865        719 NL  720 (857)
T ss_pred             Cc
Confidence            75

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=97.60  E-value=0.0039  Score=59.71  Aligned_cols=93  Identities=13%  Similarity=0.036  Sum_probs=64.9

Q ss_pred             CceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCCh-HHHh-hcCCCCcccCCCCChHhHHHHHHHhhccCCCC
Q 047559          290 GKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHA-HVAA-TMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDI  367 (444)
Q Consensus       290 ~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~-~va~-~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~  367 (444)
                      +++=++|+|+++..+...-+.|...+.....++.+|++|.+. .+.. ..+....+.+.+++.++....+....    ..
T Consensus       107 g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTIrSRCq~~~~~~~~~~~~~~~L~~~~----~~  182 (334)
T PRK07993        107 GGAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLATLRSRCRLHYLAPPPEQYALTWLSREV----TM  182 (334)
T ss_pred             CCceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhccccccCCCCCHHHHHHHHHHcc----CC
Confidence            566689999998887778888888888777777777777653 3332 23334678999999999988775431    11


Q ss_pred             CccchHHHHHHHHHHHcCCChHHH
Q 047559          368 TAQQISDLFREKVVGKCGGLPLAA  391 (444)
Q Consensus       368 ~~~~~~~~~~~~i~~~~~G~Plai  391 (444)
                       .    ...+..++..++|.|...
T Consensus       183 -~----~~~a~~~~~la~G~~~~A  201 (334)
T PRK07993        183 -S----QDALLAALRLSAGAPGAA  201 (334)
T ss_pred             -C----HHHHHHHHHHcCCCHHHH
Confidence             1    112356788999999744

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

Probab=97.59  E-value=0.0037  Score=58.58  Aligned_cols=200  Identities=14%  Similarity=0.180  Sum_probs=109.7

Q ss_pred             cccccchhHHHHHHHHhcCCCC-------CCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHH
Q 047559          185 AVFGRQQDKAKMLEMVLTDTSS-------DHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVL  257 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~-------~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~  257 (444)
                      .+-|-++.+++|.+...-+-.+       +-.+.+-|.++|++|.|||-||+.|+++...        .|+.|...    
T Consensus       152 dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T~A--------tFIrvvgS----  219 (406)
T COG1222         152 DIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTDA--------TFIRVVGS----  219 (406)
T ss_pred             hccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhccCc--------eEEEeccH----
Confidence            4677888888887765332111       1144578999999999999999999987422        23433331    


Q ss_pred             HHHHHHHHHhccCCCCcccHHHHHHHHHHHhCC-ceEEEEEeCCCCCCh-----------hc---HHHhhcccC--CCCC
Q 047559          258 NISRALLESITFASCDLKALNEVQVQIKRAVDG-KKLLLVLDDVWNEDY-----------CL---WEDLKAPFL--AAAP  320 (444)
Q Consensus       258 ~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~-kr~LlVlDdv~~~~~-----------~~---~~~l~~~l~--~~~~  320 (444)
                      ++.+..+   +.       -..+...+.+..+. .+.+|++|.++....           +-   .-+|...+.  +...
T Consensus       220 ElVqKYi---GE-------GaRlVRelF~lArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~~~  289 (406)
T COG1222         220 ELVQKYI---GE-------GARLVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDPRG  289 (406)
T ss_pred             HHHHHHh---cc-------chHHHHHHHHHHhhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCCCCC
Confidence            2221111   11       12244455555544 478999999865210           11   112223332  2244


Q ss_pred             CcEEEEecCChHHHh--hcCCC---CcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCCh----HHH
Q 047559          321 NSKIIVTTRHAHVAA--TMEPI---QQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLP----LAA  391 (444)
Q Consensus       321 gs~iivTTr~~~va~--~~~~~---~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P----lai  391 (444)
                      ..|||..|...++..  .+.+.   ..+++..-+.+.-.++|.-+. .......+-+++.    +++.|.|.-    -|+
T Consensus       290 nvKVI~ATNR~D~LDPALLRPGR~DRkIEfplPd~~gR~~Il~IHt-rkM~l~~dvd~e~----la~~~~g~sGAdlkai  364 (406)
T COG1222         290 NVKVIMATNRPDILDPALLRPGRFDRKIEFPLPDEEGRAEILKIHT-RKMNLADDVDLEL----LARLTEGFSGADLKAI  364 (406)
T ss_pred             CeEEEEecCCccccChhhcCCCcccceeecCCCCHHHHHHHHHHHh-hhccCccCcCHHH----HHHhcCCCchHHHHHH
Confidence            578998887665542  23333   457777555555556665554 3333333344544    666776654    345


Q ss_pred             HHHHHHhcCC------CHHHHHHHHh
Q 047559          392 KTLGGLLRSK------RHDEWDEILN  411 (444)
Q Consensus       392 ~~~~~~L~~~------~~~~w~~~l~  411 (444)
                      .+=||+++-+      +.+.+.+..+
T Consensus       365 ctEAGm~AiR~~R~~Vt~~DF~~Av~  390 (406)
T COG1222         365 CTEAGMFAIRERRDEVTMEDFLKAVE  390 (406)
T ss_pred             HHHHhHHHHHhccCeecHHHHHHHHH
Confidence            6666665432      4455544444

>PRK12608 transcription termination factor Rho; Provisional

Probab=97.59  E-value=0.00045  Score=66.03  Aligned_cols=102  Identities=17%  Similarity=0.228  Sum_probs=66.6

Q ss_pred             HHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcce-eEEEEeCCC-CCHHHHHHHHHHHhccC
Q 047559          193 KAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDV-KAWVCVSDD-FDVLNISRALLESITFA  270 (444)
Q Consensus       193 ~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~-~~wv~vs~~-~~~~~~~~~il~~l~~~  270 (444)
                      ..++++.+..-..     -.-+.|+|.+|+|||||++.+.+.....  +.+. ++|+.+.+. .++.++++.+...+..+
T Consensus       120 ~~RvID~l~PiGk-----GQR~LIvG~pGtGKTTLl~~la~~i~~~--~~dv~~vv~lIgER~~EV~df~~~i~~~Vvas  192 (380)
T PRK12608        120 SMRVVDLVAPIGK-----GQRGLIVAPPRAGKTVLLQQIAAAVAAN--HPEVHLMVLLIDERPEEVTDMRRSVKGEVYAS  192 (380)
T ss_pred             hHhhhhheeecCC-----CceEEEECCCCCCHHHHHHHHHHHHHhc--CCCceEEEEEecCCCCCHHHHHHHHhhhEEee
Confidence            3457777754322     1456999999999999999988764221  3444 477777764 56788888888877655


Q ss_pred             CCCcccHH-----HHHHHHHHHh--CCceEEEEEeCCC
Q 047559          271 SCDLKALN-----EVQVQIKRAV--DGKKLLLVLDDVW  301 (444)
Q Consensus       271 ~~~~~~~~-----~~~~~l~~~l--~~kr~LlVlDdv~  301 (444)
                      ..+.....     .....+.+++  ++++++||+|++.
T Consensus       193 t~de~~~~~~~v~~~~~~~Ae~f~~~GkdVVLvlDslt  230 (380)
T PRK12608        193 TFDRPPDEHIRVAELVLERAKRLVEQGKDVVILLDSLT  230 (380)
T ss_pred             cCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEEeCcH
Confidence            43322211     1222233333  6899999999994

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

Probab=97.58  E-value=0.00031  Score=71.20  Aligned_cols=166  Identities=16%  Similarity=0.219  Sum_probs=91.3

Q ss_pred             CCcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHH
Q 047559          183 ERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRA  262 (444)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~  262 (444)
                      +.+.+|-++-+++|++.|.-..-...-+-.++++||++|+|||+|++.+++...  . .|   +-++++.--|..++-. 
T Consensus       322 d~dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al~--R-kf---vR~sLGGvrDEAEIRG-  394 (782)
T COG0466         322 DKDHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKALG--R-KF---VRISLGGVRDEAEIRG-  394 (782)
T ss_pred             cccccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHHhC--C-CE---EEEecCccccHHHhcc-
Confidence            456789999999999988553221113337999999999999999999998632  1 33   2334444444333210 


Q ss_pred             HHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhc----HHHhhcccCC-------------CCCCcEEE
Q 047559          263 LLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCL----WEDLKAPFLA-------------AAPNSKII  325 (444)
Q Consensus       263 il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~----~~~l~~~l~~-------------~~~gs~ii  325 (444)
                          ... +.-..-...+.+.+. ..+.++-|++||.++......    -..+...|.+             .-.=|.|+
T Consensus       395 ----HRR-TYIGamPGrIiQ~mk-ka~~~NPv~LLDEIDKm~ss~rGDPaSALLEVLDPEQN~~F~DhYLev~yDLS~Vm  468 (782)
T COG0466         395 ----HRR-TYIGAMPGKIIQGMK-KAGVKNPVFLLDEIDKMGSSFRGDPASALLEVLDPEQNNTFSDHYLEVPYDLSKVM  468 (782)
T ss_pred             ----ccc-cccccCChHHHHHHH-HhCCcCCeEEeechhhccCCCCCChHHHHHhhcCHhhcCchhhccccCccchhheE
Confidence                000 000111112222222 235678899999996632110    0112222211             11113343


Q ss_pred             -EecCC-hH--HHhhcCCCCcccCCCCChHhHHHHHHHhh
Q 047559          326 -VTTRH-AH--VAATMEPIQQYNLQCLSDEDCWSLFMMHA  361 (444)
Q Consensus       326 -vTTr~-~~--va~~~~~~~~~~l~~L~~~~~~~lf~~~~  361 (444)
                       |||-+ -+  .+..+....++++.+-+++|=.++-+++.
T Consensus       469 FiaTANsl~tIP~PLlDRMEiI~lsgYt~~EKl~IAk~~L  508 (782)
T COG0466         469 FIATANSLDTIPAPLLDRMEVIRLSGYTEDEKLEIAKRHL  508 (782)
T ss_pred             EEeecCccccCChHHhcceeeeeecCCChHHHHHHHHHhc
Confidence             34432 22  12334455789999999999888777665

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=97.55  E-value=0.0018  Score=65.85  Aligned_cols=204  Identities=17%  Similarity=0.185  Sum_probs=102.5

Q ss_pred             CcccccchhHHHHHHHH---hcCCC---CCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHH
Q 047559          184 RAVFGRQQDKAKMLEMV---LTDTS---SDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVL  257 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L---~~~~~---~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~  257 (444)
                      .+++|.+..+.++.+.+   .....   .+....+-+.++|++|+|||+||+.+++....   .     ++.++.    .
T Consensus        55 ~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~~~---~-----~~~i~~----~  122 (495)
T TIGR01241        55 KDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGV---P-----FFSISG----S  122 (495)
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCC---C-----eeeccH----H
Confidence            35788876665554433   22110   00123356899999999999999999876322   1     222221    1


Q ss_pred             HHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCCh----------hcHH----HhhcccC--CCCCC
Q 047559          258 NISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDY----------CLWE----DLKAPFL--AAAPN  321 (444)
Q Consensus       258 ~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~----------~~~~----~l~~~l~--~~~~g  321 (444)
                      ++.    .....     .....+...+.......+.+|+|||++....          ..+.    .+...+.  ....+
T Consensus       123 ~~~----~~~~g-----~~~~~l~~~f~~a~~~~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~~~~  193 (495)
T TIGR01241       123 DFV----EMFVG-----VGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGTNTG  193 (495)
T ss_pred             HHH----HHHhc-----ccHHHHHHHHHHHHhcCCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccccCCCC
Confidence            111    11100     0111222233333345678999999955210          1111    1222221  12334


Q ss_pred             cEEEEecCChHHH-h-hcC---CCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCCh-HHHHHHH
Q 047559          322 SKIIVTTRHAHVA-A-TME---PIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLP-LAAKTLG  395 (444)
Q Consensus       322 s~iivTTr~~~va-~-~~~---~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P-lai~~~~  395 (444)
                      ..||.||...... . ...   -...+.+...+.++-.++|....... .......+    ..+++.+.|.- --+..+.
T Consensus       194 v~vI~aTn~~~~ld~al~r~gRfd~~i~i~~Pd~~~R~~il~~~l~~~-~~~~~~~l----~~la~~t~G~sgadl~~l~  268 (495)
T TIGR01241       194 VIVIAATNRPDVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNK-KLAPDVDL----KAVARRTPGFSGADLANLL  268 (495)
T ss_pred             eEEEEecCChhhcCHHHhcCCcceEEEEcCCCCHHHHHHHHHHHHhcC-CCCcchhH----HHHHHhCCCCCHHHHHHHH
Confidence            5666677654321 1 111   12468888888888888887765322 11111222    45778887743 3333332


Q ss_pred             H---H--hc-CC---CHHHHHHHHhcc
Q 047559          396 G---L--LR-SK---RHDEWDEILNSN  413 (444)
Q Consensus       396 ~---~--L~-~~---~~~~w~~~l~~~  413 (444)
                      .   .  .+ .+   +.+.+..+++..
T Consensus       269 ~eA~~~a~~~~~~~i~~~~l~~a~~~~  295 (495)
T TIGR01241       269 NEAALLAARKNKTEITMNDIEEAIDRV  295 (495)
T ss_pred             HHHHHHHHHcCCCCCCHHHHHHHHHHH
Confidence            2   1  11 11   566777766654

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.

>PRK10787 DNA-binding ATP-dependent protease La; Provisional

Probab=97.55  E-value=0.00057  Score=72.68  Aligned_cols=166  Identities=15%  Similarity=0.239  Sum_probs=88.8

Q ss_pred             CCcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHH
Q 047559          183 ERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRA  262 (444)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~  262 (444)
                      +...+|.++-++.|+++|............++.++|++|+||||+++.+.....  . .|   +-++.+...+..++...
T Consensus       321 ~~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~l~--~-~~---~~i~~~~~~d~~~i~g~  394 (784)
T PRK10787        321 DTDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKATG--R-KY---VRMALGGVRDEAEIRGH  394 (784)
T ss_pred             hhhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHHhC--C-CE---EEEEcCCCCCHHHhccc
Confidence            456899999999999888642211112336899999999999999999987532  1 22   12333333333222111


Q ss_pred             HHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhc----HHHhhcccCC---------------CCCCcE
Q 047559          263 LLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCL----WEDLKAPFLA---------------AAPNSK  323 (444)
Q Consensus       263 il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~----~~~l~~~l~~---------------~~~gs~  323 (444)
                      - +...+.     ....+...+.. ....+-+|+||+++......    ...+...+.+               .....-
T Consensus       395 ~-~~~~g~-----~~G~~~~~l~~-~~~~~~villDEidk~~~~~~g~~~~aLlevld~~~~~~~~d~~~~~~~dls~v~  467 (784)
T PRK10787        395 R-RTYIGS-----MPGKLIQKMAK-VGVKNPLFLLDEIDKMSSDMRGDPASALLEVLDPEQNVAFSDHYLEVDYDLSDVM  467 (784)
T ss_pred             h-hccCCC-----CCcHHHHHHHh-cCCCCCEEEEEChhhcccccCCCHHHHHHHHhccccEEEEecccccccccCCceE
Confidence            1 001000     11122222322 22234578999996653321    1233333221               112333


Q ss_pred             EEEecCChHHHh-hcCCCCcccCCCCChHhHHHHHHHhh
Q 047559          324 IIVTTRHAHVAA-TMEPIQQYNLQCLSDEDCWSLFMMHA  361 (444)
Q Consensus       324 iivTTr~~~va~-~~~~~~~~~l~~L~~~~~~~lf~~~~  361 (444)
                      +|.|+....+.. ......++.+.+++.++-.++..++.
T Consensus       468 ~i~TaN~~~i~~aLl~R~~ii~~~~~t~eek~~Ia~~~L  506 (784)
T PRK10787        468 FVATSNSMNIPAPLLDRMEVIRLSGYTEDEKLNIAKRHL  506 (784)
T ss_pred             EEEcCCCCCCCHHHhcceeeeecCCCCHHHHHHHHHHhh
Confidence            444554332211 12233678999999999888877765

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=97.54  E-value=0.00064  Score=73.49  Aligned_cols=138  Identities=18%  Similarity=0.188  Sum_probs=78.2

Q ss_pred             CcccccchhHHHHHHHHhcCCC---CCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTS---SDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNIS  260 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~  260 (444)
                      ..++|.+..++.+...+.....   .......++.++|++|+|||++|+.+.....-   .....+.++++.-.....  
T Consensus       565 ~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~~---~~~~~i~~d~s~~~~~~~--  639 (852)
T TIGR03346       565 ERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFLFD---DEDAMVRIDMSEYMEKHS--  639 (852)
T ss_pred             cccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhcC---CCCcEEEEechhhcccch--
Confidence            4689999999999988865321   11123467889999999999999999875311   112333444443222111  


Q ss_pred             HHHHHHhccCCCCcccHHHHHHHHHHHhCCc-eEEEEEeCCCCCChhcHHHhhcccCCC-----------CCCcEEEEec
Q 047559          261 RALLESITFASCDLKALNEVQVQIKRAVDGK-KLLLVLDDVWNEDYCLWEDLKAPFLAA-----------APNSKIIVTT  328 (444)
Q Consensus       261 ~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k-r~LlVlDdv~~~~~~~~~~l~~~l~~~-----------~~gs~iivTT  328 (444)
                         ...+.+..++....++ ...+.+.+..+ ..+|+||++...++..++.|...+..+           -..+-||+||
T Consensus       640 ---~~~l~g~~~g~~g~~~-~g~l~~~v~~~p~~vlllDeieka~~~v~~~Ll~~l~~g~l~d~~g~~vd~rn~iiI~TS  715 (852)
T TIGR03346       640 ---VARLIGAPPGYVGYEE-GGQLTEAVRRKPYSVVLFDEVEKAHPDVFNVLLQVLDDGRLTDGQGRTVDFRNTVIIMTS  715 (852)
T ss_pred             ---HHHhcCCCCCccCccc-ccHHHHHHHcCCCcEEEEeccccCCHHHHHHHHHHHhcCceecCCCeEEecCCcEEEEeC
Confidence               1122111111111110 11233333223 348999999888888888777766433           1234477777


Q ss_pred             CC
Q 047559          329 RH  330 (444)
Q Consensus       329 r~  330 (444)
                      ..
T Consensus       716 n~  717 (852)
T TIGR03346       716 NL  717 (852)
T ss_pred             Cc
Confidence            65

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.

>PRK08181 transposase; Validated

Probab=97.53  E-value=0.00029  Score=65.06  Aligned_cols=101  Identities=21%  Similarity=0.101  Sum_probs=54.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGK  291 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  291 (444)
                      .-+.|+|++|+|||.||..+.+...-   ....+.|++      ..+++..+......     ......   +. .+ .+
T Consensus       107 ~nlll~Gp~GtGKTHLa~Aia~~a~~---~g~~v~f~~------~~~L~~~l~~a~~~-----~~~~~~---l~-~l-~~  167 (269)
T PRK08181        107 ANLLLFGPPGGGKSHLAAAIGLALIE---NGWRVLFTR------TTDLVQKLQVARRE-----LQLESA---IA-KL-DK  167 (269)
T ss_pred             ceEEEEecCCCcHHHHHHHHHHHHHH---cCCceeeee------HHHHHHHHHHHHhC-----CcHHHH---HH-HH-hc
Confidence            45899999999999999999876421   222334554      34455544332211     112221   22 22 13


Q ss_pred             eEEEEEeCCCCCChhcHH--HhhcccCCCCCCcEEEEecCCh
Q 047559          292 KLLLVLDDVWNEDYCLWE--DLKAPFLAAAPNSKIIVTTRHA  331 (444)
Q Consensus       292 r~LlVlDdv~~~~~~~~~--~l~~~l~~~~~gs~iivTTr~~  331 (444)
                      -=||||||+.......|.  .+...+.....+..+||||...
T Consensus       168 ~dLLIIDDlg~~~~~~~~~~~Lf~lin~R~~~~s~IiTSN~~  209 (269)
T PRK08181        168 FDLLILDDLAYVTKDQAETSVLFELISARYERRSILITANQP  209 (269)
T ss_pred             CCEEEEeccccccCCHHHHHHHHHHHHHHHhCCCEEEEcCCC
Confidence            349999999654333332  2333333211223588888753

>PRK13531 regulatory ATPase RavA; Provisional

Probab=97.53  E-value=0.0003  Score=69.39  Aligned_cols=152  Identities=15%  Similarity=0.241  Sum_probs=83.1

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHH-
Q 047559          185 AVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRAL-  263 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~i-  263 (444)
                      .++||++.++.+...+..+        .-|.|.|++|+|||+||+.+........ .|... -+..+   ++.+++..+ 
T Consensus        21 ~i~gre~vI~lll~aalag--------~hVLL~GpPGTGKT~LAraLa~~~~~~~-~F~~~-~~~ft---tp~DLfG~l~   87 (498)
T PRK13531         21 GLYERSHAIRLCLLAALSG--------ESVFLLGPPGIAKSLIARRLKFAFQNAR-AFEYL-MTRFS---TPEEVFGPLS   87 (498)
T ss_pred             hccCcHHHHHHHHHHHccC--------CCEEEECCCChhHHHHHHHHHHHhcccC-cceee-eeeec---CcHHhcCcHH
Confidence            4899999999999988765        3589999999999999999987532222 23211 01111   122322211 


Q ss_pred             HHHhccCCCCcccHHHHHHHHHHHhCC---ceEEEEEeCCCCCChhcHHHhhcccCCC---------CCCcEEEEecCCh
Q 047559          264 LESITFASCDLKALNEVQVQIKRAVDG---KKLLLVLDDVWNEDYCLWEDLKAPFLAA---------APNSKIIVTTRHA  331 (444)
Q Consensus       264 l~~l~~~~~~~~~~~~~~~~l~~~l~~---kr~LlVlDdv~~~~~~~~~~l~~~l~~~---------~~gs~iivTTr~~  331 (444)
                      +......           ..+.....|   .--++++|+++.........|...+...         .-..++|+++.++
T Consensus        88 i~~~~~~-----------g~f~r~~~G~L~~A~lLfLDEI~rasp~~QsaLLeam~Er~~t~g~~~~~lp~rfiv~ATN~  156 (498)
T PRK13531         88 IQALKDE-----------GRYQRLTSGYLPEAEIVFLDEIWKAGPAILNTLLTAINERRFRNGAHEEKIPMRLLVTASNE  156 (498)
T ss_pred             Hhhhhhc-----------CchhhhcCCccccccEEeecccccCCHHHHHHHHHHHHhCeEecCCeEEeCCCcEEEEECCC
Confidence            1111000           001111111   1128999999988776666666555221         1123566665553


Q ss_pred             HHH------hhcCC-CCcccCCCCCh-HhHHHHHHHh
Q 047559          332 HVA------ATMEP-IQQYNLQCLSD-EDCWSLFMMH  360 (444)
Q Consensus       332 ~va------~~~~~-~~~~~l~~L~~-~~~~~lf~~~  360 (444)
                      -..      ..... .-.+.++++++ ++-.+++...
T Consensus       157 LPE~g~~leAL~DRFliri~vp~l~~~~~e~~lL~~~  193 (498)
T PRK13531        157 LPEADSSLEALYDRMLIRLWLDKVQDKANFRSMLTSQ  193 (498)
T ss_pred             CcccCCchHHhHhhEEEEEECCCCCchHHHHHHHHcc
Confidence            221      11111 13478899975 4447777653

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

Probab=97.53  E-value=0.00029  Score=73.14  Aligned_cols=156  Identities=19%  Similarity=0.170  Sum_probs=86.6

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCc----ceeEEEEeCCCCCHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKF----DVKAWVCVSDDFDVLNI  259 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f----~~~~wv~vs~~~~~~~~  259 (444)
                      +.++||+.|+.++++.|.....++      -.++|.+|+|||+++.-++.+.-..+ -.    +..++.     .     
T Consensus       170 DPvIGRd~EI~r~iqIL~RR~KNN------PvLiGEpGVGKTAIvEGLA~rIv~g~-VP~~L~~~~i~s-----L-----  232 (786)
T COG0542         170 DPVIGRDEEIRRTIQILSRRTKNN------PVLVGEPGVGKTAIVEGLAQRIVNGD-VPESLKDKRIYS-----L-----  232 (786)
T ss_pred             CCCcChHHHHHHHHHHHhccCCCC------CeEecCCCCCHHHHHHHHHHHHhcCC-CCHHHcCCEEEE-----e-----
Confidence            358999999999999998766543      24689999999999877766531111 00    111111     0     


Q ss_pred             HHHHHHHhccCCCCcccHHHHHHHHHHHh-CCceEEEEEeCCCCC-----C----hhcHHHhhcccCCCCCCcEEEEecC
Q 047559          260 SRALLESITFASCDLKALNEVQVQIKRAV-DGKKLLLVLDDVWNE-----D----YCLWEDLKAPFLAAAPNSKIIVTTR  329 (444)
Q Consensus       260 ~~~il~~l~~~~~~~~~~~~~~~~l~~~l-~~kr~LlVlDdv~~~-----~----~~~~~~l~~~l~~~~~gs~iivTTr  329 (444)
                        ++..-+.+. .-.-+.++....+.+.+ +.++.+|++|.++..     .    .+.-+.|+.+| ..+.--+|-.||-
T Consensus       233 --D~g~LvAGa-kyRGeFEeRlk~vl~ev~~~~~vILFIDEiHtiVGAG~~~G~a~DAaNiLKPaL-ARGeL~~IGATT~  308 (786)
T COG0542         233 --DLGSLVAGA-KYRGEFEERLKAVLKEVEKSKNVILFIDEIHTIVGAGATEGGAMDAANLLKPAL-ARGELRCIGATTL  308 (786)
T ss_pred             --cHHHHhccc-cccCcHHHHHHHHHHHHhcCCCeEEEEechhhhcCCCcccccccchhhhhHHHH-hcCCeEEEEeccH
Confidence              111111111 11223344444444444 345899999999763     0    11112232222 2222334556665


Q ss_pred             ChHHHh------hcCCCCcccCCCCChHhHHHHHHHh
Q 047559          330 HAHVAA------TMEPIQQYNLQCLSDEDCWSLFMMH  360 (444)
Q Consensus       330 ~~~va~------~~~~~~~~~l~~L~~~~~~~lf~~~  360 (444)
                      ++.--.      .....+.+.+...+.+++..++...
T Consensus       309 ~EYRk~iEKD~AL~RRFQ~V~V~EPs~e~ti~ILrGl  345 (786)
T COG0542         309 DEYRKYIEKDAALERRFQKVLVDEPSVEDTIAILRGL  345 (786)
T ss_pred             HHHHHHhhhchHHHhcCceeeCCCCCHHHHHHHHHHH
Confidence            543211      1134477889999999998887653

>PRK12377 putative replication protein; Provisional

Probab=97.52  E-value=0.00018  Score=65.55  Aligned_cols=101  Identities=23%  Similarity=0.145  Sum_probs=57.1

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGK  291 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  291 (444)
                      ..+.|+|.+|+|||+||..+.+....   ....+++++++      +++..+-......    ....    .+.+.+ .+
T Consensus       102 ~~l~l~G~~GtGKThLa~AIa~~l~~---~g~~v~~i~~~------~l~~~l~~~~~~~----~~~~----~~l~~l-~~  163 (248)
T PRK12377        102 TNFVFSGKPGTGKNHLAAAIGNRLLA---KGRSVIVVTVP------DVMSRLHESYDNG----QSGE----KFLQEL-CK  163 (248)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHH---cCCCeEEEEHH------HHHHHHHHHHhcc----chHH----HHHHHh-cC
Confidence            57899999999999999999987542   22334566543      4444443333211    1111    122223 34


Q ss_pred             eEEEEEeCCCCCChhcHHH--hhcccCCC-CCCcEEEEecCC
Q 047559          292 KLLLVLDDVWNEDYCLWED--LKAPFLAA-APNSKIIVTTRH  330 (444)
Q Consensus       292 r~LlVlDdv~~~~~~~~~~--l~~~l~~~-~~gs~iivTTr~  330 (444)
                      --||||||+.......|..  +...+... .+.-.+||||..
T Consensus       164 ~dLLiIDDlg~~~~s~~~~~~l~~ii~~R~~~~~ptiitSNl  205 (248)
T PRK12377        164 VDLLVLDEIGIQRETKNEQVVLNQIIDRRTASMRSVGMLTNL  205 (248)
T ss_pred             CCEEEEcCCCCCCCCHHHHHHHHHHHHHHHhcCCCEEEEcCC
Confidence            5699999995544344543  33333221 223457888863

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=97.51  E-value=0.0033  Score=60.14  Aligned_cols=92  Identities=14%  Similarity=0.261  Sum_probs=63.9

Q ss_pred             CceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCC-hHHH-hhcCCCCcccCCCCChHhHHHHHHHhhccCCCC
Q 047559          290 GKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRH-AHVA-ATMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDI  367 (444)
Q Consensus       290 ~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~-~~va-~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~  367 (444)
                      +++=++|+|+++..+...++.+...+.....++.+|++|.+ +.+. ...+....+.+.+++.++..+.+....     .
T Consensus       131 ~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~LLpTI~SRcq~i~~~~~~~~~~~~~L~~~~-----~  205 (342)
T PRK06964        131 GGARVVVLYPAEALNVAAANALLKTLEEPPPGTVFLLVSARIDRLLPTILSRCRQFPMTVPAPEAAAAWLAAQG-----V  205 (342)
T ss_pred             CCceEEEEechhhcCHHHHHHHHHHhcCCCcCcEEEEEECChhhCcHHHHhcCEEEEecCCCHHHHHHHHHHcC-----C
Confidence            44558889999988888899998888877777777766665 3333 223334678999999999998886541     1


Q ss_pred             CccchHHHHHHHHHHHcCCChHHHHH
Q 047559          368 TAQQISDLFREKVVGKCGGLPLAAKT  393 (444)
Q Consensus       368 ~~~~~~~~~~~~i~~~~~G~Plai~~  393 (444)
                      .  + .    ..++..++|.|+....
T Consensus       206 ~--~-~----~~~l~~~~Gsp~~Al~  224 (342)
T PRK06964        206 A--D-A----DALLAEAGGAPLAALA  224 (342)
T ss_pred             C--h-H----HHHHHHcCCCHHHHHH
Confidence            1  1 1    2356778999975543

>PF07693 KAP_NTPase: KAP family P-loop domain; InterPro: IPR011646 The KAP (after Kidins220/ARMS and PifA) family of predicted NTPases are sporadically distributed across a wide phylogenetic range in bacteria and in animals

Probab=97.50  E-value=0.0043  Score=59.48  Aligned_cols=74  Identities=18%  Similarity=0.262  Sum_probs=44.3

Q ss_pred             hhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccc-cCCc---ceeEEEEeCCCCCHHHHHHHHHHH
Q 047559          191 QDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVE-DSKF---DVKAWVCVSDDFDVLNISRALLES  266 (444)
Q Consensus       191 ~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~-~~~f---~~~~wv~vs~~~~~~~~~~~il~~  266 (444)
                      .-.+.|.+.+.....   ....+|+|.|.=|+|||++.+.+.+..... ...+   ..-+|-.-..+.-...++..|..+
T Consensus         3 ~~a~~la~~I~~~~~---~~~~~IgL~G~WGsGKSs~l~~l~~~L~~~~~~~~~~i~fn~w~~~~~~~~~~~~~~~l~~~   79 (325)
T PF07693_consen    3 PYAKALAEIIKNPDS---DDPFVIGLYGEWGSGKSSFLNMLKEELKEDNKEKYIFIYFNAWEYDGEDDLWASFLEELFDQ   79 (325)
T ss_pred             HHHHHHHHHHhccCC---CCCeEEEEECCCCCCHHHHHHHHHHHHhcccccceeeEEEccccCCCcchHHHHHHHHHHHH
Confidence            345566676665432   345899999999999999999998765433 0011   222344443333344555555554


Q ss_pred             h
Q 047559          267 I  267 (444)
Q Consensus       267 l  267 (444)
                      +
T Consensus        80 l   80 (325)
T PF07693_consen   80 L   80 (325)
T ss_pred             H
Confidence            4

Many of the prokaryotic KAP NTPases are encoded in plasmids and tend to undergo disruption to form pseudogenes. A unique feature of all eukaryotic and certain bacterial KAP NTPases is the presence of two or four transmembrane helices inserted into the P-loop NTPase domain. These transmembrane helices anchor KAP NTPases in the membrane such that the P-loop domain is located on the intracellular side [].

>PRK04132 replication factor C small subunit; Provisional

Probab=97.50  E-value=0.003  Score=67.02  Aligned_cols=158  Identities=12%  Similarity=-0.029  Sum_probs=96.6

Q ss_pred             cCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEe
Q 047559          219 MAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLD  298 (444)
Q Consensus       219 ~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlD  298 (444)
                      |.++||||+|..++++.--.+ .-...+-++.|+..... .+++++..+....+.              -..+.-++|+|
T Consensus       574 Ph~lGKTT~A~ala~~l~g~~-~~~~~lElNASd~rgid-~IR~iIk~~a~~~~~--------------~~~~~KVvIID  637 (846)
T PRK04132        574 PTVLHNTTAALALARELFGEN-WRHNFLELNASDERGIN-VIREKVKEFARTKPI--------------GGASFKIIFLD  637 (846)
T ss_pred             CCcccHHHHHHHHHHhhhccc-ccCeEEEEeCCCcccHH-HHHHHHHHHHhcCCc--------------CCCCCEEEEEE
Confidence            678999999999998731111 11235566777644443 334444333211110              01245799999


Q ss_pred             CCCCCChhcHHHhhcccCCCCCCcEEEEecCChH-HHhh-cCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHH
Q 047559          299 DVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAH-VAAT-MEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLF  376 (444)
Q Consensus       299 dv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~~-va~~-~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~  376 (444)
                      +++..+....+.|...+......+++|++|.+.. +... .+....+++.+++.++....+...+...+-..+    ++.
T Consensus       638 EaD~Lt~~AQnALLk~lEep~~~~~FILi~N~~~kIi~tIrSRC~~i~F~~ls~~~i~~~L~~I~~~Egi~i~----~e~  713 (846)
T PRK04132        638 EADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGLELT----EEG  713 (846)
T ss_pred             CcccCCHHHHHHHHHHhhCCCCCeEEEEEeCChhhCchHHhhhceEEeCCCCCHHHHHHHHHHHHHhcCCCCC----HHH
Confidence            9999887788888888776556677777666543 2222 223367899999999988877765432111111    234


Q ss_pred             HHHHHHHcCCChHHHHHHHH
Q 047559          377 REKVVGKCGGLPLAAKTLGG  396 (444)
Q Consensus       377 ~~~i~~~~~G~Plai~~~~~  396 (444)
                      ...|++.|+|.+-.+..+..
T Consensus       714 L~~Ia~~s~GDlR~AIn~Lq  733 (846)
T PRK04132        714 LQAILYIAEGDMRRAINILQ  733 (846)
T ss_pred             HHHHHHHcCCCHHHHHHHHH
Confidence            56799999998855544433

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=97.49  E-value=0.00048  Score=74.02  Aligned_cols=139  Identities=19%  Similarity=0.146  Sum_probs=76.7

Q ss_pred             CCcccccchhHHHHHHHHhcCCC---CCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHH
Q 047559          183 ERAVFGRQQDKAKMLEMVLTDTS---SDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNI  259 (444)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~  259 (444)
                      ...++|.+.-++.+.+.+.....   .......++.++|++|+|||.||+.+....--   .....+-++++.-.+    
T Consensus       565 ~~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~~---~~~~~~~~dmse~~~----  637 (852)
T TIGR03345       565 AERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELLYG---GEQNLITINMSEFQE----  637 (852)
T ss_pred             cCeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHHhC---CCcceEEEeHHHhhh----
Confidence            35689999999999888754211   11144568999999999999999988765211   111222222222111    


Q ss_pred             HHHHHHHhccCCCCcccHHHHHHHHHHHhC-CceEEEEEeCCCCCChhcHHHhhcccCCCC-----------CCcEEEEe
Q 047559          260 SRALLESITFASCDLKALNEVQVQIKRAVD-GKKLLLVLDDVWNEDYCLWEDLKAPFLAAA-----------PNSKIIVT  327 (444)
Q Consensus       260 ~~~il~~l~~~~~~~~~~~~~~~~l~~~l~-~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~iivT  327 (444)
                       ..-...+.+..+.-....+ ...|.+.++ ...-+|+||++...++..++.|...+..+.           ..+-||+|
T Consensus       638 -~~~~~~l~g~~~gyvg~~~-~g~L~~~v~~~p~svvllDEieka~~~v~~~Llq~ld~g~l~d~~Gr~vd~~n~iiI~T  715 (852)
T TIGR03345       638 -AHTVSRLKGSPPGYVGYGE-GGVLTEAVRRKPYSVVLLDEVEKAHPDVLELFYQVFDKGVMEDGEGREIDFKNTVILLT  715 (852)
T ss_pred             -hhhhccccCCCCCcccccc-cchHHHHHHhCCCcEEEEechhhcCHHHHHHHHHHhhcceeecCCCcEEeccccEEEEe
Confidence             0111122222211111000 011233332 445699999998877777777766654432           44667777


Q ss_pred             cCC
Q 047559          328 TRH  330 (444)
Q Consensus       328 Tr~  330 (444)
                      |..
T Consensus       716 SNl  718 (852)
T TIGR03345       716 SNA  718 (852)
T ss_pred             CCC
Confidence            764

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.

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=97.48  E-value=0.0008  Score=64.46  Aligned_cols=126  Identities=18%  Similarity=0.161  Sum_probs=77.4

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccC------------------CcceeE
Q 047559          185 AVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDS------------------KFDVKA  246 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~------------------~f~~~~  246 (444)
                      .++|-+.....+..+.......    ...+.++|++|+||||+|..+.+..--...                  ..+...
T Consensus         2 ~~~~~~~~~~~l~~~~~~~~~~----~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~l   77 (325)
T COG0470           2 ELVPWQEAVKRLLVQALESGRL----PHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFL   77 (325)
T ss_pred             CcccchhHHHHHHHHHHhcCCC----CceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceE
Confidence            3567777888888887754321    135999999999999999988875321100                  012233


Q ss_pred             EEEeCCCCC---HHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcE
Q 047559          247 WVCVSDDFD---VLNISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSK  323 (444)
Q Consensus       247 wv~vs~~~~---~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~  323 (444)
                      .++-+....   ..+..+.+.+.......                .++.-++++|+++..+...-+.+...+......+.
T Consensus        78 el~~s~~~~~~i~~~~vr~~~~~~~~~~~----------------~~~~kviiidead~mt~~A~nallk~lEep~~~~~  141 (325)
T COG0470          78 ELNPSDLRKIDIIVEQVRELAEFLSESPL----------------EGGYKVVIIDEADKLTEDAANALLKTLEEPPKNTR  141 (325)
T ss_pred             EecccccCCCcchHHHHHHHHHHhccCCC----------------CCCceEEEeCcHHHHhHHHHHHHHHHhccCCCCeE
Confidence            333333322   22223333322221110                25677999999988777667777777777777888


Q ss_pred             EEEecCC
Q 047559          324 IIVTTRH  330 (444)
Q Consensus       324 iivTTr~  330 (444)
                      +|++|..
T Consensus       142 ~il~~n~  148 (325)
T COG0470         142 FILITND  148 (325)
T ss_pred             EEEEcCC
Confidence            8888874

>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli []

Probab=97.43  E-value=0.00037  Score=61.29  Aligned_cols=131  Identities=19%  Similarity=0.214  Sum_probs=63.8

Q ss_pred             ccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCC----C--CCHHH---
Q 047559          188 GRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSD----D--FDVLN---  258 (444)
Q Consensus       188 Gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~----~--~~~~~---  258 (444)
                      .+..+-...++.|...        .++.+.|++|.|||.||....-+.-..+ .|+..+++.-.-    .  |-+.+   
T Consensus         4 p~~~~Q~~~~~al~~~--------~~v~~~G~AGTGKT~LA~a~Al~~v~~g-~~~kiii~Rp~v~~~~~lGflpG~~~e   74 (205)
T PF02562_consen    4 PKNEEQKFALDALLNN--------DLVIVNGPAGTGKTFLALAAALELVKEG-EYDKIIITRPPVEAGEDLGFLPGDLEE   74 (205)
T ss_dssp             --SHHHHHHHHHHHH---------SEEEEE--TTSSTTHHHHHHHHHHHHTT-S-SEEEEEE-S--TT----SS------
T ss_pred             CCCHHHHHHHHHHHhC--------CeEEEECCCCCcHHHHHHHHHHHHHHhC-CCcEEEEEecCCCCccccccCCCCHHH
Confidence            3455566677777622        5899999999999999988775543333 788877764211    1  11111   


Q ss_pred             ----HHHHHHHHhccCCCCcccHHHHHHH------HHHHhCCc---eEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEE
Q 047559          259 ----ISRALLESITFASCDLKALNEVQVQ------IKRAVDGK---KLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKII  325 (444)
Q Consensus       259 ----~~~~il~~l~~~~~~~~~~~~~~~~------l~~~l~~k---r~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ii  325 (444)
                          .+..+...+..-. .....+.+...      -..+++|+   ..+||+|++.+....++..+...   -+.||++|
T Consensus        75 K~~p~~~p~~d~l~~~~-~~~~~~~~~~~~~Ie~~~~~~iRGrt~~~~~iIvDEaQN~t~~~~k~ilTR---~g~~skii  150 (205)
T PF02562_consen   75 KMEPYLRPIYDALEELF-GKEKLEELIQNGKIEIEPLAFIRGRTFDNAFIIVDEAQNLTPEELKMILTR---IGEGSKII  150 (205)
T ss_dssp             ---TTTHHHHHHHTTTS--TTCHHHHHHTTSEEEEEGGGGTT--B-SEEEEE-SGGG--HHHHHHHHTT---B-TT-EEE
T ss_pred             HHHHHHHHHHHHHHHHh-ChHhHHHHhhcCeEEEEehhhhcCccccceEEEEecccCCCHHHHHHHHcc---cCCCcEEE
Confidence                1111111111100 11112221110      01244565   46999999988877777766544   46799999


Q ss_pred             EecCCh
Q 047559          326 VTTRHA  331 (444)
Q Consensus       326 vTTr~~  331 (444)
                      ++--..
T Consensus       151 ~~GD~~  156 (205)
T PF02562_consen  151 ITGDPS  156 (205)
T ss_dssp             EEE---
T ss_pred             EecCce
Confidence            987643

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

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

Probab=97.42  E-value=0.0045  Score=62.80  Aligned_cols=207  Identities=14%  Similarity=0.094  Sum_probs=121.0

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccc---ccc--CCcceeEEEEeCCCCCHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRA---VED--SKFDVKAWVCVSDDFDVLN  258 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~---~~~--~~f~~~~wv~vs~~~~~~~  258 (444)
                      ..+-+|+.|..+|-.++...-.. +..-+.+-|.|-+|+|||..+..|.+...   ..+  ..|+ .+.|+.-.-..+.+
T Consensus       396 ~sLpcRe~E~~~I~~f~~~~i~~-~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~-yveINgm~l~~~~~  473 (767)
T KOG1514|consen  396 ESLPCRENEFSEIEDFLRSFISD-QGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFD-YVEINGLRLASPRE  473 (767)
T ss_pred             ccccchhHHHHHHHHHHHhhcCC-CCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCcc-EEEEcceeecCHHH
Confidence            34668999999998877553222 12335999999999999999999987432   111  1233 24455444556889


Q ss_pred             HHHHHHHHhccCCCCcccHHHHHHHHHHHh-----CCceEEEEEeCCCCCChhcHHHhhcccCC-CCCCcEEEEecCCh-
Q 047559          259 ISRALLESITFASCDLKALNEVQVQIKRAV-----DGKKLLLVLDDVWNEDYCLWEDLKAPFLA-AAPNSKIIVTTRHA-  331 (444)
Q Consensus       259 ~~~~il~~l~~~~~~~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~-~~~gs~iivTTr~~-  331 (444)
                      ++..|..++.+....   -......|..+.     ..+..++++|+++..-....+.+...|.+ ..++|+++|-+=.. 
T Consensus       474 ~Y~~I~~~lsg~~~~---~~~al~~L~~~f~~~k~~~~~~VvLiDElD~Lvtr~QdVlYn~fdWpt~~~sKLvvi~IaNT  550 (767)
T KOG1514|consen  474 IYEKIWEALSGERVT---WDAALEALNFRFTVPKPKRSTTVVLIDELDILVTRSQDVLYNIFDWPTLKNSKLVVIAIANT  550 (767)
T ss_pred             HHHHHHHhcccCccc---HHHHHHHHHHhhccCCCCCCCEEEEeccHHHHhcccHHHHHHHhcCCcCCCCceEEEEeccc
Confidence            999999999765432   122223333333     23468888898844311112233344443 46778776654211 


Q ss_pred             -HH-HhhcC-------CCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHH
Q 047559          332 -HV-AATME-------PIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGG  396 (444)
Q Consensus       332 -~v-a~~~~-------~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~  396 (444)
                       +. ...+.       ....+...+-+..+-.++...+..+. +.......+-++++|+.-.|-.-.|+...-+
T Consensus       551 mdlPEr~l~nrvsSRlg~tRi~F~pYth~qLq~Ii~~RL~~~-~~f~~~aielvarkVAavSGDaRraldic~R  623 (767)
T KOG1514|consen  551 MDLPERLLMNRVSSRLGLTRICFQPYTHEQLQEIISARLKGL-DAFENKAIELVARKVAAVSGDARRALDICRR  623 (767)
T ss_pred             ccCHHHHhccchhhhccceeeecCCCCHHHHHHHHHHhhcch-hhcchhHHHHHHHHHHhccccHHHHHHHHHH
Confidence             11 11111       12346677778888877777766443 3334455666667777666665555554443

>PRK06526 transposase; Provisional

Probab=97.41  E-value=0.00037  Score=63.94  Aligned_cols=100  Identities=18%  Similarity=0.150  Sum_probs=52.3

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGK  291 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  291 (444)
                      .-+.|+|++|+|||+||..+.......+  +. +.|+      +..+++..+......     ..   ....+..+  .+
T Consensus        99 ~nlll~Gp~GtGKThLa~al~~~a~~~g--~~-v~f~------t~~~l~~~l~~~~~~-----~~---~~~~l~~l--~~  159 (254)
T PRK06526         99 ENVVFLGPPGTGKTHLAIGLGIRACQAG--HR-VLFA------TAAQWVARLAAAHHA-----GR---LQAELVKL--GR  159 (254)
T ss_pred             ceEEEEeCCCCchHHHHHHHHHHHHHCC--Cc-hhhh------hHHHHHHHHHHHHhc-----Cc---HHHHHHHh--cc
Confidence            4689999999999999999887643221  22 2232      233444444332111     11   11223222  23


Q ss_pred             eEEEEEeCCCCCChhcHH--HhhcccCC-CCCCcEEEEecCCh
Q 047559          292 KLLLVLDDVWNEDYCLWE--DLKAPFLA-AAPNSKIIVTTRHA  331 (444)
Q Consensus       292 r~LlVlDdv~~~~~~~~~--~l~~~l~~-~~~gs~iivTTr~~  331 (444)
                      .-||||||+.......|.  .+...+.. ...++ +|+||..+
T Consensus       160 ~dlLIIDD~g~~~~~~~~~~~L~~li~~r~~~~s-~IitSn~~  201 (254)
T PRK06526        160 YPLLIVDEVGYIPFEPEAANLFFQLVSSRYERAS-LIVTSNKP  201 (254)
T ss_pred             CCEEEEcccccCCCCHHHHHHHHHHHHHHHhcCC-EEEEcCCC
Confidence            458999999654322222  23232222 12344 88888743

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=97.38  E-value=0.00069  Score=69.15  Aligned_cols=44  Identities=25%  Similarity=0.366  Sum_probs=35.7

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhc
Q 047559          185 AVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .++|.+..+..+...+....      ...+.|+|++|+|||++|+.+++.
T Consensus        66 ~iiGqs~~i~~l~~al~~~~------~~~vLi~Ge~GtGKt~lAr~i~~~  109 (531)
T TIGR02902        66 EIIGQEEGIKALKAALCGPN------PQHVIIYGPPGVGKTAAARLVLEE  109 (531)
T ss_pred             HeeCcHHHHHHHHHHHhCCC------CceEEEECCCCCCHHHHHHHHHHH
Confidence            58999999999888765432      246789999999999999999864

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.

>CHL00095 clpC Clp protease ATP binding subunit

Probab=97.37  E-value=0.00091  Score=72.12  Aligned_cols=138  Identities=17%  Similarity=0.183  Sum_probs=77.0

Q ss_pred             CcccccchhHHHHHHHHhcCCC---CCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTS---SDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNIS  260 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~  260 (444)
                      ..++|.+.-++.+...+.....   ....+...+.++|+.|+|||+||+.+.+..--   .-...+-++.+.-.+...+ 
T Consensus       509 ~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l~~---~~~~~~~~d~s~~~~~~~~-  584 (821)
T CHL00095        509 KRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYFFG---SEDAMIRLDMSEYMEKHTV-  584 (821)
T ss_pred             CcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHhcC---CccceEEEEchhccccccH-
Confidence            5689999999999887753211   11133456789999999999999998865210   1122333344332111111 


Q ss_pred             HHHHHHhccCCCCcccHHHHHHHHHHHhCCce-EEEEEeCCCCCChhcHHHhhcccCCC-----------CCCcEEEEec
Q 047559          261 RALLESITFASCDLKALNEVQVQIKRAVDGKK-LLLVLDDVWNEDYCLWEDLKAPFLAA-----------APNSKIIVTT  328 (444)
Q Consensus       261 ~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr-~LlVlDdv~~~~~~~~~~l~~~l~~~-----------~~gs~iivTT  328 (444)
                          ..+.+..+.....++ ...+.+.+..++ -+|+||++...++..++.|...+..+           ...+-||+||
T Consensus       585 ----~~l~g~~~gyvg~~~-~~~l~~~~~~~p~~VvllDeieka~~~v~~~Llq~le~g~~~d~~g~~v~~~~~i~I~Ts  659 (821)
T CHL00095        585 ----SKLIGSPPGYVGYNE-GGQLTEAVRKKPYTVVLFDEIEKAHPDIFNLLLQILDDGRLTDSKGRTIDFKNTLIIMTS  659 (821)
T ss_pred             ----HHhcCCCCcccCcCc-cchHHHHHHhCCCeEEEECChhhCCHHHHHHHHHHhccCceecCCCcEEecCceEEEEeC
Confidence                111111111111100 112344454454 58999999888877788777766542           1345567776


Q ss_pred             CC
Q 047559          329 RH  330 (444)
Q Consensus       329 r~  330 (444)
                      ..
T Consensus       660 n~  661 (821)
T CHL00095        660 NL  661 (821)
T ss_pred             Cc
Confidence            64

>PRK06921 hypothetical protein; Provisional

Probab=97.36  E-value=0.00087  Score=62.06  Aligned_cols=99  Identities=16%  Similarity=0.235  Sum_probs=54.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGK  291 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  291 (444)
                      ..+.++|..|+|||+||..+++....+  ....+++++.      .+++..+...+          +.....+. .+ .+
T Consensus       118 ~~l~l~G~~G~GKThLa~aia~~l~~~--~g~~v~y~~~------~~l~~~l~~~~----------~~~~~~~~-~~-~~  177 (266)
T PRK06921        118 NSIALLGQPGSGKTHLLTAAANELMRK--KGVPVLYFPF------VEGFGDLKDDF----------DLLEAKLN-RM-KK  177 (266)
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhhh--cCceEEEEEH------HHHHHHHHHHH----------HHHHHHHH-Hh-cC
Confidence            578999999999999999999874322  1234556653      23333332221          11111222 22 23


Q ss_pred             eEEEEEeCCCC-----CChhcHHH--hhcccCCC-CCCcEEEEecCC
Q 047559          292 KLLLVLDDVWN-----EDYCLWED--LKAPFLAA-APNSKIIVTTRH  330 (444)
Q Consensus       292 r~LlVlDdv~~-----~~~~~~~~--l~~~l~~~-~~gs~iivTTr~  330 (444)
                      -=||||||+..     .....|..  +...+... ..+..+||||..
T Consensus       178 ~dlLiIDDl~~~~~g~e~~t~~~~~~lf~iin~R~~~~k~tIitsn~  224 (266)
T PRK06921        178 VEVLFIDDLFKPVNGKPRATEWQIEQMYSVLNYRYLNHKPILISSEL  224 (266)
T ss_pred             CCEEEEeccccccCCCccCCHHHHHHHHHHHHHHHHCCCCEEEECCC
Confidence            45999999932     22234543  33333221 234567888873

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

Probab=97.36  E-value=0.00074  Score=68.40  Aligned_cols=166  Identities=17%  Similarity=0.198  Sum_probs=90.0

Q ss_pred             CCcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHH
Q 047559          183 ERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRA  262 (444)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~  262 (444)
                      +.+.+|.++-+++|++++.-..-.+..+-++++.+|++|+|||++|+.++.... +  .|   +-++++.-.|..++-..
T Consensus       410 deDHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~ALn-R--kF---fRfSvGG~tDvAeIkGH  483 (906)
T KOG2004|consen  410 DEDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARALN-R--KF---FRFSVGGMTDVAEIKGH  483 (906)
T ss_pred             cccccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHHhC-C--ce---EEEeccccccHHhhccc
Confidence            456789999999999988653322224458999999999999999999987642 2  22   23455555554443111


Q ss_pred             HHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCCh----------------hcHHHhhcccCC-CCCCcEEE
Q 047559          263 LLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDY----------------CLWEDLKAPFLA-AAPNSKII  325 (444)
Q Consensus       263 il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~----------------~~~~~l~~~l~~-~~~gs~ii  325 (444)
                      -      .+.-..-...+++.|+ ..+..+-|+.||.|+..-.                ++-..+...+.+ .-.=|+|+
T Consensus       484 R------RTYVGAMPGkiIq~LK-~v~t~NPliLiDEvDKlG~g~qGDPasALLElLDPEQNanFlDHYLdVp~DLSkVL  556 (906)
T KOG2004|consen  484 R------RTYVGAMPGKIIQCLK-KVKTENPLILIDEVDKLGSGHQGDPASALLELLDPEQNANFLDHYLDVPVDLSKVL  556 (906)
T ss_pred             c------eeeeccCChHHHHHHH-hhCCCCceEEeehhhhhCCCCCCChHHHHHHhcChhhccchhhhccccccchhheE
Confidence            0      0001111122222222 2345677999999965311                111111111111 11235665


Q ss_pred             EecCChHHH----hhcCCCCcccCCCCChHhHHHHHHHhh
Q 047559          326 VTTRHAHVA----ATMEPIQQYNLQCLSDEDCWSLFMMHA  361 (444)
Q Consensus       326 vTTr~~~va----~~~~~~~~~~l~~L~~~~~~~lf~~~~  361 (444)
                      +...-..+.    .......+|+|.+...+|-..+-.++.
T Consensus       557 FicTAN~idtIP~pLlDRMEvIelsGYv~eEKv~IA~~yL  596 (906)
T KOG2004|consen  557 FICTANVIDTIPPPLLDRMEVIELSGYVAEEKVKIAERYL  596 (906)
T ss_pred             EEEeccccccCChhhhhhhheeeccCccHHHHHHHHHHhh
Confidence            432221111    112233678888888887776665554

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

Probab=97.35  E-value=0.00038  Score=60.33  Aligned_cols=99  Identities=22%  Similarity=0.312  Sum_probs=51.1

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGK  291 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  291 (444)
                      .-+.|+|.+|+|||.||..+.+.....  .+ .+.|++      ..+++..+-.    ... .......   +. .+. +
T Consensus        48 ~~l~l~G~~G~GKThLa~ai~~~~~~~--g~-~v~f~~------~~~L~~~l~~----~~~-~~~~~~~---~~-~l~-~  108 (178)
T PF01695_consen   48 ENLILYGPPGTGKTHLAVAIANEAIRK--GY-SVLFIT------ASDLLDELKQ----SRS-DGSYEEL---LK-RLK-R  108 (178)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHHHHT--T---EEEEE------HHHHHHHHHC----CHC-CTTHCHH---HH-HHH-T
T ss_pred             eEEEEEhhHhHHHHHHHHHHHHHhccC--Cc-ceeEee------cCceeccccc----ccc-ccchhhh---cC-ccc-c
Confidence            569999999999999999998765332  22 345554      3344444322    111 1112222   22 222 2


Q ss_pred             eEEEEEeCCCCCChhcHHH--hhcccCCC-CCCcEEEEecCC
Q 047559          292 KLLLVLDDVWNEDYCLWED--LKAPFLAA-APNSKIIVTTRH  330 (444)
Q Consensus       292 r~LlVlDdv~~~~~~~~~~--l~~~l~~~-~~gs~iivTTr~  330 (444)
                      -=||||||+-......|..  +...+... .++ .+||||..
T Consensus       109 ~dlLilDDlG~~~~~~~~~~~l~~ii~~R~~~~-~tIiTSN~  149 (178)
T PF01695_consen  109 VDLLILDDLGYEPLSEWEAELLFEIIDERYERK-PTIITSNL  149 (178)
T ss_dssp             SSCEEEETCTSS---HHHHHCTHHHHHHHHHT--EEEEEESS
T ss_pred             ccEecccccceeeecccccccchhhhhHhhccc-CeEeeCCC
Confidence            3478899997655444443  22222111 223 58888874

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.

>PRK09183 transposase/IS protein; Provisional

Probab=97.34  E-value=0.00087  Score=61.86  Aligned_cols=100  Identities=19%  Similarity=0.191  Sum_probs=51.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGK  291 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  291 (444)
                      ..+.|+|++|+|||+||..+.......  .. .+.+++      ..++...+......     ..   +...+...+ .+
T Consensus       103 ~~v~l~Gp~GtGKThLa~al~~~a~~~--G~-~v~~~~------~~~l~~~l~~a~~~-----~~---~~~~~~~~~-~~  164 (259)
T PRK09183        103 ENIVLLGPSGVGKTHLAIALGYEAVRA--GI-KVRFTT------AADLLLQLSTAQRQ-----GR---YKTTLQRGV-MA  164 (259)
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHHHHHc--CC-eEEEEe------HHHHHHHHHHHHHC-----Cc---HHHHHHHHh-cC
Confidence            467899999999999999997653222  12 223333      23333333222111     01   112222222 34


Q ss_pred             eEEEEEeCCCCCChhcHH--HhhcccCCC-CCCcEEEEecCC
Q 047559          292 KLLLVLDDVWNEDYCLWE--DLKAPFLAA-APNSKIIVTTRH  330 (444)
Q Consensus       292 r~LlVlDdv~~~~~~~~~--~l~~~l~~~-~~gs~iivTTr~  330 (444)
                      .-++|+||+.......+.  .+...+... ..++ +|+||..
T Consensus       165 ~dlLiiDdlg~~~~~~~~~~~lf~li~~r~~~~s-~iiTsn~  205 (259)
T PRK09183        165 PRLLIIDEIGYLPFSQEEANLFFQVIAKRYEKGS-MILTSNL  205 (259)
T ss_pred             CCEEEEcccccCCCChHHHHHHHHHHHHHHhcCc-EEEecCC
Confidence            459999999754333332  233333221 2344 8888874

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

Probab=97.34  E-value=0.00091  Score=70.66  Aligned_cols=121  Identities=16%  Similarity=0.162  Sum_probs=68.8

Q ss_pred             CcccccchhHHHHHHHHhcCCC---CCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTS---SDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNIS  260 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~  260 (444)
                      ..++|.+..++.+...+.....   ........+.++|++|+|||+||+.+.....  .    ..+.++++.-.....  
T Consensus       458 ~~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l~--~----~~i~id~se~~~~~~--  529 (758)
T PRK11034        458 MLVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG--I----ELLRFDMSEYMERHT--  529 (758)
T ss_pred             ceEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHhC--C----CcEEeechhhccccc--
Confidence            3589999999988887763211   1113456789999999999999999987641  1    223444443221111  


Q ss_pred             HHHHHHhccCCCCcccHHHHHHHHHHHhCC-ceEEEEEeCCCCCChhcHHHhhcccC
Q 047559          261 RALLESITFASCDLKALNEVQVQIKRAVDG-KKLLLVLDDVWNEDYCLWEDLKAPFL  316 (444)
Q Consensus       261 ~~il~~l~~~~~~~~~~~~~~~~l~~~l~~-kr~LlVlDdv~~~~~~~~~~l~~~l~  316 (444)
                         ...+.+..+.....+ ....+.+.+.. ...+|+||++...+...++.+...+.
T Consensus       530 ---~~~LiG~~~gyvg~~-~~g~L~~~v~~~p~sVlllDEieka~~~v~~~LLq~ld  582 (758)
T PRK11034        530 ---VSRLIGAPPGYVGFD-QGGLLTDAVIKHPHAVLLLDEIEKAHPDVFNLLLQVMD  582 (758)
T ss_pred             ---HHHHcCCCCCccccc-ccchHHHHHHhCCCcEEEeccHhhhhHHHHHHHHHHHh
Confidence               122222211111000 01123333333 34699999998887777777766554

>smart00763 AAA_PrkA PrkA AAA domain

Probab=97.33  E-value=0.00022  Score=67.75  Aligned_cols=53  Identities=13%  Similarity=0.285  Sum_probs=43.1

Q ss_pred             CCcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          183 ERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ...++|.++.++++++++.....+....-+++.|+|++|+||||||+.+.+..
T Consensus        50 ~~~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l  102 (361)
T smart00763       50 DHDFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGL  102 (361)
T ss_pred             chhccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            44799999999999999876433222445899999999999999999998764

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

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

Probab=97.32  E-value=0.0016  Score=60.06  Aligned_cols=140  Identities=13%  Similarity=0.170  Sum_probs=75.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccC-CcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCC
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDS-KFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDG  290 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~-~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~  290 (444)
                      ++|.++|++|.|||+|.+.+++...++-. .+....-+-++.    ..++..-.+.      ..+....+.++|++.+.+
T Consensus       178 RliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEins----hsLFSKWFsE------SgKlV~kmF~kI~ELv~d  247 (423)
T KOG0744|consen  178 RLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEINS----HSLFSKWFSE------SGKLVAKMFQKIQELVED  247 (423)
T ss_pred             eEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEEeh----hHHHHHHHhh------hhhHHHHHHHHHHHHHhC
Confidence            79999999999999999999998755430 233333333332    2222222211      123455667778888876


Q ss_pred             ce--EEEEEeCCCCCCh------------hc---HHHhhcccCC-CCCCcEEEEecCCh----HHHhhcCCCCcccCCCC
Q 047559          291 KK--LLLVLDDVWNEDY------------CL---WEDLKAPFLA-AAPNSKIIVTTRHA----HVAATMEPIQQYNLQCL  348 (444)
Q Consensus       291 kr--~LlVlDdv~~~~~------------~~---~~~l~~~l~~-~~~gs~iivTTr~~----~va~~~~~~~~~~l~~L  348 (444)
                      +.  +++.+|+|.+...            +.   .+.+...+.. ......+|+||.+-    ++|-.-.+.-+..+++.
T Consensus       248 ~~~lVfvLIDEVESLa~aR~s~~S~~EpsDaIRvVNalLTQlDrlK~~~NvliL~TSNl~~siD~AfVDRADi~~yVG~P  327 (423)
T KOG0744|consen  248 RGNLVFVLIDEVESLAAARTSASSRNEPSDAIRVVNALLTQLDRLKRYPNVLILATSNLTDSIDVAFVDRADIVFYVGPP  327 (423)
T ss_pred             CCcEEEEEeHHHHHHHHHHHhhhcCCCCchHHHHHHHHHHHHHHhccCCCEEEEeccchHHHHHHHhhhHhhheeecCCc
Confidence            65  4556899855210            00   1111111211 11223455566542    23333233344567777


Q ss_pred             ChHhHHHHHHHhh
Q 047559          349 SDEDCWSLFMMHA  361 (444)
Q Consensus       349 ~~~~~~~lf~~~~  361 (444)
                      +...-.++++.+.
T Consensus       328 t~~ai~~Ilksci  340 (423)
T KOG0744|consen  328 TAEAIYEILKSCI  340 (423)
T ss_pred             cHHHHHHHHHHHH
Confidence            7776666666543

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=97.31  E-value=0.0014  Score=58.50  Aligned_cols=88  Identities=15%  Similarity=0.158  Sum_probs=53.6

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHh-c---cC-----CCCcccHHH
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESI-T---FA-----SCDLKALNE  279 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l-~---~~-----~~~~~~~~~  279 (444)
                      +.-.++.|+|++|+|||+++.++.....  . ....++|++... ++...+.+ +.... .   ..     ..+..+...
T Consensus        10 ~~g~i~~i~G~~GsGKT~l~~~~~~~~~--~-~g~~v~yi~~e~-~~~~rl~~-~~~~~~~~~~~~i~~~~~~~~~~~~~   84 (209)
T TIGR02237        10 ERGTITQIYGPPGSGKTNICMILAVNAA--R-QGKKVVYIDTEG-LSPERFKQ-IAEDRPERALSNFIVFEVFDFDEQGV   84 (209)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHH--h-CCCeEEEEECCC-CCHHHHHH-HHHhChHHHhcCEEEEECCCHHHHHH
Confidence            3448999999999999999999876532  2 346788998875 55554443 32221 0   00     011122223


Q ss_pred             HHHHHHHHhCC-ceEEEEEeCCC
Q 047559          280 VQVQIKRAVDG-KKLLLVLDDVW  301 (444)
Q Consensus       280 ~~~~l~~~l~~-kr~LlVlDdv~  301 (444)
                      ....+.+.+.. +.-+||+|.+.
T Consensus        85 ~~~~l~~~~~~~~~~lvVIDSis  107 (209)
T TIGR02237        85 AIQKTSKFIDRDSASLVVVDSFT  107 (209)
T ss_pred             HHHHHHHHHhhcCccEEEEeCcH
Confidence            34555555533 45689999984

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

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=97.31  E-value=0.0045  Score=59.00  Aligned_cols=71  Identities=13%  Similarity=0.157  Sum_probs=46.4

Q ss_pred             CceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCChH-HHhhc-CCCCcccCCCCChHhHHHHHHHh
Q 047559          290 GKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAH-VAATM-EPIQQYNLQCLSDEDCWSLFMMH  360 (444)
Q Consensus       290 ~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~~-va~~~-~~~~~~~l~~L~~~~~~~lf~~~  360 (444)
                      +++=++|+|++...+...-+.+...+.....++.+|++|.+.. +...+ +....+.+.+++.+++.+.+...
T Consensus       112 ~~~kV~iiEp~~~Ld~~a~naLLk~LEep~~~~~~Ilvth~~~~ll~ti~SRc~~~~~~~~~~~~~~~~L~~~  184 (325)
T PRK08699        112 GGLRVILIHPAESMNLQAANSLLKVLEEPPPQVVFLLVSHAADKVLPTIKSRCRKMVLPAPSHEEALAYLRER  184 (325)
T ss_pred             CCceEEEEechhhCCHHHHHHHHHHHHhCcCCCEEEEEeCChHhChHHHHHHhhhhcCCCCCHHHHHHHHHhc
Confidence            3344556688887776666667666655445666777777644 33222 22367889999999998887653

>PRK07952 DNA replication protein DnaC; Validated

Probab=97.31  E-value=0.0016  Score=59.25  Aligned_cols=102  Identities=18%  Similarity=0.198  Sum_probs=57.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGK  291 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  291 (444)
                      ..+.++|.+|+|||+||..+.+.....   -..+++++      ..+++..+-......   .....    .+.+.+. +
T Consensus       100 ~~~~l~G~~GtGKThLa~aia~~l~~~---g~~v~~it------~~~l~~~l~~~~~~~---~~~~~----~~l~~l~-~  162 (244)
T PRK07952        100 ASFIFSGKPGTGKNHLAAAICNELLLR---GKSVLIIT------VADIMSAMKDTFSNS---ETSEE----QLLNDLS-N  162 (244)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHhc---CCeEEEEE------HHHHHHHHHHHHhhc---cccHH----HHHHHhc-c
Confidence            578999999999999999999875322   22344553      344544444333210   11111    2223343 3


Q ss_pred             eEEEEEeCCCCCChhcHHH--hhcccCC-CCCCcEEEEecCC
Q 047559          292 KLLLVLDDVWNEDYCLWED--LKAPFLA-AAPNSKIIVTTRH  330 (444)
Q Consensus       292 r~LlVlDdv~~~~~~~~~~--l~~~l~~-~~~gs~iivTTr~  330 (444)
                      .=||||||+.......|..  +...+.. ....-.+||||..
T Consensus       163 ~dlLvIDDig~~~~s~~~~~~l~~Ii~~Ry~~~~~tiitSNl  204 (244)
T PRK07952        163 VDLLVIDEIGVQTESRYEKVIINQIVDRRSSSKRPTGMLTNS  204 (244)
T ss_pred             CCEEEEeCCCCCCCCHHHHHHHHHHHHHHHhCCCCEEEeCCC
Confidence            4488899997765556664  2222221 1223457777763

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.30  E-value=0.0034  Score=55.53  Aligned_cols=107  Identities=21%  Similarity=0.242  Sum_probs=64.4

Q ss_pred             CCcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHH
Q 047559          183 ERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRA  262 (444)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~  262 (444)
                      -..++|-+...+.+++....--.+  ....-|.+||-.|+|||+|++.+.+...-+.   -.  -|-|.+          
T Consensus        59 L~~l~Gvd~qk~~L~~NT~~F~~G--~pANnVLLwGaRGtGKSSLVKA~~~e~~~~g---lr--LVEV~k----------  121 (287)
T COG2607          59 LADLVGVDRQKEALVRNTEQFAEG--LPANNVLLWGARGTGKSSLVKALLNEYADEG---LR--LVEVDK----------  121 (287)
T ss_pred             HHHHhCchHHHHHHHHHHHHHHcC--CcccceEEecCCCCChHHHHHHHHHHHHhcC---Ce--EEEEcH----------
Confidence            346899888888887643321111  2224689999999999999999998753322   11  222222          


Q ss_pred             HHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCC-CChhcHHHhhcccCC
Q 047559          263 LLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWN-EDYCLWEDLKAPFLA  317 (444)
Q Consensus       263 il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~-~~~~~~~~l~~~l~~  317 (444)
                               .+..++..+...|+.  ...||+|..||+.- .....+..++..+..
T Consensus       122 ---------~dl~~Lp~l~~~Lr~--~~~kFIlFcDDLSFe~gd~~yK~LKs~LeG  166 (287)
T COG2607         122 ---------EDLATLPDLVELLRA--RPEKFILFCDDLSFEEGDDAYKALKSALEG  166 (287)
T ss_pred             ---------HHHhhHHHHHHHHhc--CCceEEEEecCCCCCCCchHHHHHHHHhcC
Confidence                     111222222222222  46799999999943 334567888887754

>PRK04296 thymidine kinase; Provisional

Probab=97.29  E-value=0.00064  Score=59.71  Aligned_cols=113  Identities=12%  Similarity=-0.041  Sum_probs=61.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCC--cccHHHHHHHHHHHhC
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCD--LKALNEVQVQIKRAVD  289 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~--~~~~~~~~~~l~~~l~  289 (444)
                      .++.|+|+.|.||||++..+..+....   ...++.+.  ..++.......+.+.++.....  .....++...+.+ ..
T Consensus         3 ~i~litG~~GsGKTT~~l~~~~~~~~~---g~~v~i~k--~~~d~~~~~~~i~~~lg~~~~~~~~~~~~~~~~~~~~-~~   76 (190)
T PRK04296          3 KLEFIYGAMNSGKSTELLQRAYNYEER---GMKVLVFK--PAIDDRYGEGKVVSRIGLSREAIPVSSDTDIFELIEE-EG   76 (190)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHHHc---CCeEEEEe--ccccccccCCcEecCCCCcccceEeCChHHHHHHHHh-hC
Confidence            578999999999999998888764322   22222231  1112222233344444322111  1233444444444 33


Q ss_pred             CceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCChH
Q 047559          290 GKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAH  332 (444)
Q Consensus       290 ~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~~  332 (444)
                      ++.-+||+|.+...+..+..++...+  ...|..||+|.++.+
T Consensus        77 ~~~dvviIDEaq~l~~~~v~~l~~~l--~~~g~~vi~tgl~~~  117 (190)
T PRK04296         77 EKIDCVLIDEAQFLDKEQVVQLAEVL--DDLGIPVICYGLDTD  117 (190)
T ss_pred             CCCCEEEEEccccCCHHHHHHHHHHH--HHcCCeEEEEecCcc
Confidence            34458999999654333233333332  245788999998744

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=97.29  E-value=0.0021  Score=58.54  Aligned_cols=92  Identities=13%  Similarity=0.178  Sum_probs=55.7

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhcccccc---CCcceeEEEEeCCCCCHHHHHHHHHHHhccCC------------CCc
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDRAVED---SKFDVKAWVCVSDDFDVLNISRALLESITFAS------------CDL  274 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~---~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~------------~~~  274 (444)
                      .-.++.|+|.+|+|||+|+.+++-......   +....++|++....++...+. ++++......            ...
T Consensus        18 ~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl~-~~~~~~~~~~~~~~~~i~~~~~~~~   96 (235)
T cd01123          18 TGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERLV-QIAERFGLDPEEVLDNIYVARAYNS   96 (235)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHHH-HHHHHhccChHhHhcCEEEEecCCH
Confidence            347999999999999999999874422211   013678999988877655443 3333322211            011


Q ss_pred             ccHHHHHHHHHHHh-CC-ceEEEEEeCCCC
Q 047559          275 KALNEVQVQIKRAV-DG-KKLLLVLDDVWN  302 (444)
Q Consensus       275 ~~~~~~~~~l~~~l-~~-kr~LlVlDdv~~  302 (444)
                      .+.......+.+.+ +. +.-|||+|.+..
T Consensus        97 ~~l~~~l~~l~~~l~~~~~~~liVIDSis~  126 (235)
T cd01123          97 DHQLQLLEELEAILIESSRIKLVIVDSVTA  126 (235)
T ss_pred             HHHHHHHHHHHHHHhhcCCeeEEEEeCcHH
Confidence            22233344455555 33 567999999943

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 .

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=97.29  E-value=0.0034  Score=53.59  Aligned_cols=123  Identities=23%  Similarity=0.320  Sum_probs=72.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEE---------------------eCCCC----------------
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVC---------------------VSDDF----------------  254 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~---------------------vs~~~----------------  254 (444)
                      ..+.|+|++|.|||||.+.+|...+...    +.+|+.                     |-+++                
T Consensus        29 ef~fl~GpSGAGKSTllkLi~~~e~pt~----G~i~~~~~dl~~l~~~~iP~LRR~IGvVFQD~rLL~~~tvyeNVA~pL  104 (223)
T COG2884          29 EFVFLTGPSGAGKSTLLKLIYGEERPTR----GKILVNGHDLSRLKGREIPFLRRQIGVVFQDFRLLPDRTVYENVALPL  104 (223)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhhcCCC----ceEEECCeecccccccccchhhheeeeEeeeccccccchHhhhhhhhh
Confidence            5899999999999999999998765332    455553                     11111                


Q ss_pred             -----CHHHHHHH---HHHHhccCC------CCcccHHHHHHHHHHHhCCceEEEEEeCCC-CCCh-hcHHHhhcccCCC
Q 047559          255 -----DVLNISRA---LLESITFAS------CDLKALNEVQVQIKRAVDGKKLLLVLDDVW-NEDY-CLWEDLKAPFLAA  318 (444)
Q Consensus       255 -----~~~~~~~~---il~~l~~~~------~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~-~~~~-~~~~~l~~~l~~~  318 (444)
                           ...++-+.   .+..++...      .+.+.-++..-.|.+.+-+++-+|+-|+-- +.|+ ..|+.+.-.-.-+
T Consensus       105 ~v~G~~~~~i~~rV~~~L~~VgL~~k~~~lP~~LSGGEQQRvaIARAiV~~P~vLlADEPTGNLDp~~s~~im~lfeein  184 (223)
T COG2884         105 RVIGKPPREIRRRVSEVLDLVGLKHKARALPSQLSGGEQQRVAIARAIVNQPAVLLADEPTGNLDPDLSWEIMRLFEEIN  184 (223)
T ss_pred             hccCCCHHHHHHHHHHHHHHhccchhhhcCccccCchHHHHHHHHHHHccCCCeEeecCCCCCCChHHHHHHHHHHHHHh
Confidence                 01111111   122221110      112223444455777777888889988762 2222 3466544333336


Q ss_pred             CCCcEEEEecCChHHHhhcC
Q 047559          319 APNSKIIVTTRHAHVAATME  338 (444)
Q Consensus       319 ~~gs~iivTTr~~~va~~~~  338 (444)
                      ..|..||++|.+..+.+.+.
T Consensus       185 r~GtTVl~ATHd~~lv~~~~  204 (223)
T COG2884         185 RLGTTVLMATHDLELVNRMR  204 (223)
T ss_pred             hcCcEEEEEeccHHHHHhcc
Confidence            78999999999988876653

>PRK08939 primosomal protein DnaI; Reviewed

Probab=97.29  E-value=0.0012  Score=62.28  Aligned_cols=121  Identities=19%  Similarity=0.231  Sum_probs=69.7

Q ss_pred             ccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHh
Q 047559          188 GRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESI  267 (444)
Q Consensus       188 Gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l  267 (444)
                      ++..-.....+++..-...  ...+-+.|+|..|+|||.||..+++.....  .+ .+.++++      .+++..+...+
T Consensus       135 ~~~~~~~~~~~fi~~~~~~--~~~~gl~L~G~~G~GKThLa~Aia~~l~~~--g~-~v~~~~~------~~l~~~lk~~~  203 (306)
T PRK08939        135 DRLDALMAALDFLEAYPPG--EKVKGLYLYGDFGVGKSYLLAAIANELAKK--GV-SSTLLHF------PEFIRELKNSI  203 (306)
T ss_pred             HHHHHHHHHHHHHHHhhcc--CCCCeEEEECCCCCCHHHHHHHHHHHHHHc--CC-CEEEEEH------HHHHHHHHHHH
Confidence            3444444455555432111  233679999999999999999999886422  22 3445544      34555555444


Q ss_pred             ccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHH--hhccc-CCC-CCCcEEEEecC
Q 047559          268 TFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWED--LKAPF-LAA-APNSKIIVTTR  329 (444)
Q Consensus       268 ~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~--l~~~l-~~~-~~gs~iivTTr  329 (444)
                      ...     +..   ..+.. + .+-=||||||+.......|..  +...+ ... ..+-.+|+||.
T Consensus       204 ~~~-----~~~---~~l~~-l-~~~dlLiIDDiG~e~~s~~~~~~ll~~Il~~R~~~~~~ti~TSN  259 (306)
T PRK08939        204 SDG-----SVK---EKIDA-V-KEAPVLMLDDIGAEQMSSWVRDEVLGVILQYRMQEELPTFFTSN  259 (306)
T ss_pred             hcC-----cHH---HHHHH-h-cCCCEEEEecCCCccccHHHHHHHHHHHHHHHHHCCCeEEEECC
Confidence            321     111   22222 2 245589999997766667753  44443 222 24566888887

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=97.28  E-value=0.002  Score=58.34  Aligned_cols=87  Identities=15%  Similarity=0.175  Sum_probs=52.1

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHH--------hccCC-CCcccHHHH
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLES--------ITFAS-CDLKALNEV  280 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~--------l~~~~-~~~~~~~~~  280 (444)
                      .-.++.|+|.+|+|||++|.+++....  . ....++|++.. .++...+. ++...        +.... .......+.
T Consensus        22 ~g~i~~i~G~~GsGKT~l~~~la~~~~--~-~~~~v~yi~~e-~~~~~r~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (225)
T PRK09361         22 RGTITQIYGPPGSGKTNICLQLAVEAA--K-NGKKVIYIDTE-GLSPERFK-QIAGEDFEELLSNIIIFEPSSFEEQSEA   96 (225)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH--H-CCCeEEEEECC-CCCHHHHH-HHHhhChHhHhhCeEEEeCCCHHHHHHH
Confidence            347999999999999999999886542  2 34567899877 55554432 23222        11000 011122223


Q ss_pred             HHHHHHHhCCceEEEEEeCCC
Q 047559          281 QVQIKRAVDGKKLLLVLDDVW  301 (444)
Q Consensus       281 ~~~l~~~l~~kr~LlVlDdv~  301 (444)
                      ...+...+..+.-++|+|.+.
T Consensus        97 i~~~~~~~~~~~~lvVIDsi~  117 (225)
T PRK09361         97 IRKAEKLAKENVGLIVLDSAT  117 (225)
T ss_pred             HHHHHHHHHhcccEEEEeCcH
Confidence            344444444566799999983

>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=97.26  E-value=0.017  Score=55.95  Aligned_cols=208  Identities=13%  Similarity=0.186  Sum_probs=117.0

Q ss_pred             cchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHH-HHHhhccccccCCcceeEEEEeCCC---CCHHHHHHHHH
Q 047559          189 RQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLA-REVYNDRAVEDSKFDVKAWVCVSDD---FDVLNISRALL  264 (444)
Q Consensus       189 r~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa-~~v~~~~~~~~~~f~~~~wv~vs~~---~~~~~~~~~il  264 (444)
                      |.+..++|..||.....      ..|.|.||-|+||+.|+ .++..+.+       .+..++|.+-   -+-..++..+.
T Consensus         1 R~e~~~~L~~wL~e~~~------TFIvV~GPrGSGK~elV~d~~L~~r~-------~vL~IDC~~i~~ar~D~~~I~~lA   67 (431)
T PF10443_consen    1 RKEAIEQLKSWLNENPN------TFIVVQGPRGSGKRELVMDHVLKDRK-------NVLVIDCDQIVKARGDAAFIKNLA   67 (431)
T ss_pred             CchHHHHHHHHHhcCCC------eEEEEECCCCCCccHHHHHHHHhCCC-------CEEEEEChHhhhccChHHHHHHHH
Confidence            56778899999976533      69999999999999999 77766522       1334443321   12233334443


Q ss_pred             HHhcc-----------------------CCCC-cccHHH-HHHH-------HHH-------------------Hh---CC
Q 047559          265 ESITF-----------------------ASCD-LKALNE-VQVQ-------IKR-------------------AV---DG  290 (444)
Q Consensus       265 ~~l~~-----------------------~~~~-~~~~~~-~~~~-------l~~-------------------~l---~~  290 (444)
                      .+++-                       ...+ ..+.+. +...       |+.                   +|   ..
T Consensus        68 ~qvGY~PvFsw~nSiss~IDLa~qGltGqKaGfSes~e~Ql~~IL~~t~~ALr~ial~~~~~~~~~~~l~e~~yl~~hPe  147 (431)
T PF10443_consen   68 SQVGYFPVFSWMNSISSFIDLAVQGLTGQKAGFSESLETQLKKILQTTATALRDIALSNRKKDDKDANLKEEDYLEAHPE  147 (431)
T ss_pred             HhcCCCcchHHHHHHHHHHHHHHhhccccccCCCCChHHHHHHHHHHHHHHHHHHHHHhhhccccccccCchhhhhhCCc
Confidence            33321                       1111 111111 1111       111                   11   12


Q ss_pred             ceEEEEEeCCCCCCh---hcHHHhh---cccCCCCCCcEEEEecCChHHHhhc------CCCCcccCCCCChHhHHHHHH
Q 047559          291 KKLLLVLDDVWNEDY---CLWEDLK---APFLAAAPNSKIIVTTRHAHVAATM------EPIQQYNLQCLSDEDCWSLFM  358 (444)
Q Consensus       291 kr~LlVlDdv~~~~~---~~~~~l~---~~l~~~~~gs~iivTTr~~~va~~~------~~~~~~~l~~L~~~~~~~lf~  358 (444)
                      ++-+||+|+.-....   ..|+.|.   ..+.. .+-..||++|-+......+      ...+.+.|...+++.|..+..
T Consensus       148 ~~PVVVIdnF~~k~~~~~~iy~~laeWAa~Lv~-~nIAHVIFlT~dv~~~k~LskaLPn~vf~tI~L~Das~~~Ak~yV~  226 (431)
T PF10443_consen  148 RRPVVVIDNFLHKAEENDFIYDKLAEWAASLVQ-NNIAHVIFLTDDVSYSKPLSKALPNRVFKTISLSDASPESAKQYVL  226 (431)
T ss_pred             cCCEEEEcchhccCcccchHHHHHHHHHHHHHh-cCccEEEEECCCCchhhhHHHhCCCCceeEEeecCCCHHHHHHHHH
Confidence            367999999854321   1122211   22222 2344678777766554432      234668899999999999999


Q ss_pred             HhhccCCCC------------Cc-----cchHHHHHHHHHHHcCCChHHHHHHHHHhcCC-CH-HHHHHHHh
Q 047559          359 MHAFVGQDI------------TA-----QQISDLFREKVVGKCGGLPLAAKTLGGLLRSK-RH-DEWDEILN  411 (444)
Q Consensus       359 ~~~~~~~~~------------~~-----~~~~~~~~~~i~~~~~G~Plai~~~~~~L~~~-~~-~~w~~~l~  411 (444)
                      .+.-.....            ..     .....+ ....++.+||==.-+..+++.++.. ++ +...++.+
T Consensus       227 ~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e-ld~~i~~LGGRltDLe~lvrRiksGe~p~~Av~~iI~  297 (431)
T PF10443_consen  227 SQLDEDTEDSSDSKESNEQNKNDKSAENEKDLAE-LDECIEPLGGRLTDLEFLVRRIKSGESPEEAVEEIIS  297 (431)
T ss_pred             HHhcccccccccccccccccccccccccccchHH-HHHHHHHcCCcHHHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            887432110            00     112333 3558889999999999999999887 43 33444433

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 [].

>CHL00195 ycf46 Ycf46; Provisional

Probab=97.22  E-value=0.0046  Score=62.09  Aligned_cols=180  Identities=13%  Similarity=0.073  Sum_probs=88.8

Q ss_pred             CcccccchhHHHHHHHHhc---C-CCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLT---D-TSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNI  259 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~---~-~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~  259 (444)
                      .++.|.+..++.+......   . ...+....+-|.++|++|+|||.+|+.+.+....   .|   +-++++.      +
T Consensus       228 ~dvgGl~~lK~~l~~~~~~~~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~~~---~~---~~l~~~~------l  295 (489)
T CHL00195        228 SDIGGLDNLKDWLKKRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDWQL---PL---LRLDVGK------L  295 (489)
T ss_pred             HHhcCHHHHHHHHHHHHHHhhHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCC---CE---EEEEhHH------h
Confidence            3577776666555442111   0 0001133467999999999999999999886432   11   1122111      1


Q ss_pred             HHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCCh-------h-c----HHHhhcccCCCCCCcEEEEe
Q 047559          260 SRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDY-------C-L----WEDLKAPFLAAAPNSKIIVT  327 (444)
Q Consensus       260 ~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~-------~-~----~~~l~~~l~~~~~gs~iivT  327 (444)
                      +    ....     ..+...+...+...-...+++|++|+++..-.       . .    ...+...+.....+.-||.|
T Consensus       296 ~----~~~v-----Gese~~l~~~f~~A~~~~P~IL~IDEID~~~~~~~~~~d~~~~~rvl~~lL~~l~~~~~~V~vIaT  366 (489)
T CHL00195        296 F----GGIV-----GESESRMRQMIRIAEALSPCILWIDEIDKAFSNSESKGDSGTTNRVLATFITWLSEKKSPVFVVAT  366 (489)
T ss_pred             c----cccc-----ChHHHHHHHHHHHHHhcCCcEEEehhhhhhhccccCCCCchHHHHHHHHHHHHHhcCCCceEEEEe
Confidence            1    0000     01111111222222234689999999964210       0 0    11122222223344456667


Q ss_pred             cCChHHH-hh-cC---CCCcccCCCCChHhHHHHHHHhhccCCCC-CccchHHHHHHHHHHHcCCCh
Q 047559          328 TRHAHVA-AT-ME---PIQQYNLQCLSDEDCWSLFMMHAFVGQDI-TAQQISDLFREKVVGKCGGLP  388 (444)
Q Consensus       328 Tr~~~va-~~-~~---~~~~~~l~~L~~~~~~~lf~~~~~~~~~~-~~~~~~~~~~~~i~~~~~G~P  388 (444)
                      |.+..-. .. ..   -...+.+...+.++-.++|..+....... ....++    ..+++.+.|.-
T Consensus       367 TN~~~~Ld~allR~GRFD~~i~v~lP~~~eR~~Il~~~l~~~~~~~~~~~dl----~~La~~T~GfS  429 (489)
T CHL00195        367 ANNIDLLPLEILRKGRFDEIFFLDLPSLEEREKIFKIHLQKFRPKSWKKYDI----KKLSKLSNKFS  429 (489)
T ss_pred             cCChhhCCHHHhCCCcCCeEEEeCCcCHHHHHHHHHHHHhhcCCCcccccCH----HHHHhhcCCCC
Confidence            7654321 11 11   12457888888899899988776332111 112223    44666776653

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=97.22  E-value=0.0035  Score=55.80  Aligned_cols=60  Identities=17%  Similarity=0.164  Sum_probs=38.6

Q ss_pred             HHHHHHHHHHhCCceEEEEEeCCCC-CChhcHHHhhcccCC--CCCCcEEEEecCChHHHhhc
Q 047559          278 NEVQVQIKRAVDGKKLLLVLDDVWN-EDYCLWEDLKAPFLA--AAPNSKIIVTTRHAHVAATM  337 (444)
Q Consensus       278 ~~~~~~l~~~l~~kr~LlVlDdv~~-~~~~~~~~l~~~l~~--~~~gs~iivTTr~~~va~~~  337 (444)
                      ++..-.+.+.|-..+-+|+.|+--. .|...=+.+...+..  ...|..||+.|.++.+|..+
T Consensus       147 qqQRVAIARAL~~~P~iilADEPTgnLD~~t~~~V~~ll~~~~~~~g~tii~VTHd~~lA~~~  209 (226)
T COG1136         147 QQQRVAIARALINNPKIILADEPTGNLDSKTAKEVLELLRELNKERGKTIIMVTHDPELAKYA  209 (226)
T ss_pred             HHHHHHHHHHHhcCCCeEEeeCccccCChHHHHHHHHHHHHHHHhcCCEEEEEcCCHHHHHhC
Confidence            3444567778888888999998622 222222333333332  24588899999999999865

>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=97.21  E-value=0.00027  Score=57.05  Aligned_cols=23  Identities=48%  Similarity=0.615  Sum_probs=21.1

Q ss_pred             EEEEEecCCChHHHHHHHHhhcc
Q 047559          213 VIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      +|.|.|++|+||||+|+.+.+..
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            68999999999999999998864

...

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.20  E-value=0.0062  Score=65.11  Aligned_cols=179  Identities=15%  Similarity=0.161  Sum_probs=91.5

Q ss_pred             CcccccchhHHHHHHHHhcCCCC-------CCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSS-------DHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDV  256 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~-------~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~  256 (444)
                      .++.|.+..++.|.+.+.-.-..       +....+-+.++|++|+|||+||+.+.+....   .|     +.++.    
T Consensus       453 ~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~~~---~f-----i~v~~----  520 (733)
T TIGR01243       453 SDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGA---NF-----IAVRG----  520 (733)
T ss_pred             hhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCC---CE-----EEEeh----
Confidence            34678777777776654321000       0123356889999999999999999987421   22     22221    


Q ss_pred             HHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCCh-------h-----cHHHhhcccCC--CCCCc
Q 047559          257 LNISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDY-------C-----LWEDLKAPFLA--AAPNS  322 (444)
Q Consensus       257 ~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~-------~-----~~~~l~~~l~~--~~~gs  322 (444)
                      .++    +....+     .....+...+...-...+.+|+||+++....       .     ....+...+..  ...+.
T Consensus       521 ~~l----~~~~vG-----ese~~i~~~f~~A~~~~p~iifiDEid~l~~~r~~~~~~~~~~~~~~~lL~~ldg~~~~~~v  591 (733)
T TIGR01243       521 PEI----LSKWVG-----ESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGIQELSNV  591 (733)
T ss_pred             HHH----hhcccC-----cHHHHHHHHHHHHHhcCCEEEEEEChhhhhccCCCCCCccHHHHHHHHHHHHhhcccCCCCE
Confidence            111    111110     1111112222222245678999999854210       0     11223333321  22345


Q ss_pred             EEEEecCChHHHh--hcC---CCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCCh
Q 047559          323 KIIVTTRHAHVAA--TME---PIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLP  388 (444)
Q Consensus       323 ~iivTTr~~~va~--~~~---~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  388 (444)
                      -||.||.......  ...   -...+.+...+.++-.++|..+.-. .......++    ..+++.+.|.-
T Consensus       592 ~vI~aTn~~~~ld~allRpgRfd~~i~v~~Pd~~~R~~i~~~~~~~-~~~~~~~~l----~~la~~t~g~s  657 (733)
T TIGR01243       592 VVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRS-MPLAEDVDL----EELAEMTEGYT  657 (733)
T ss_pred             EEEEeCCChhhCCHhhcCCCccceEEEeCCcCHHHHHHHHHHHhcC-CCCCccCCH----HHHHHHcCCCC
Confidence            5666776554332  122   1245788888888888888765422 111222233    34667777754

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.

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

Probab=97.19  E-value=0.0013  Score=66.89  Aligned_cols=83  Identities=18%  Similarity=0.239  Sum_probs=58.1

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHh
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAV  288 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l  288 (444)
                      +.-+++.+.|++|+||||||+.++.+..      --++=|+.|+.-+...+-..|...+....               .+
T Consensus       324 P~kKilLL~GppGlGKTTLAHViAkqaG------YsVvEINASDeRt~~~v~~kI~~avq~~s---------------~l  382 (877)
T KOG1969|consen  324 PPKKILLLCGPPGLGKTTLAHVIAKQAG------YSVVEINASDERTAPMVKEKIENAVQNHS---------------VL  382 (877)
T ss_pred             CccceEEeecCCCCChhHHHHHHHHhcC------ceEEEecccccccHHHHHHHHHHHHhhcc---------------cc
Confidence            6678999999999999999999998732      23466788887777766666655554322               12


Q ss_pred             --CCceEEEEEeCCCCCChhcHHHhh
Q 047559          289 --DGKKLLLVLDDVWNEDYCLWEDLK  312 (444)
Q Consensus       289 --~~kr~LlVlDdv~~~~~~~~~~l~  312 (444)
                        .+++..||+|+++-......+.|.
T Consensus       383 ~adsrP~CLViDEIDGa~~~~Vdvil  408 (877)
T KOG1969|consen  383 DADSRPVCLVIDEIDGAPRAAVDVIL  408 (877)
T ss_pred             ccCCCcceEEEecccCCcHHHHHHHH
Confidence              267888999999776533334333

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=97.18  E-value=0.0078  Score=57.63  Aligned_cols=131  Identities=14%  Similarity=0.055  Sum_probs=67.4

Q ss_pred             ccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHH
Q 047559          186 VFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLE  265 (444)
Q Consensus       186 ~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~  265 (444)
                      ++|....+.++.+.+..-...    -..|.|+|..|+||+++|+.++.......   ...+-|+++.-.  .+.+...  
T Consensus         1 liG~S~~m~~~~~~~~~~a~~----~~pVLI~GE~GtGK~~lAr~iH~~s~r~~---~pfv~vnc~~~~--~~~l~~~--   69 (329)
T TIGR02974         1 LIGESNAFLEVLEQVSRLAPL----DRPVLIIGERGTGKELIAARLHYLSKRWQ---GPLVKLNCAALS--ENLLDSE--   69 (329)
T ss_pred             CCcCCHHHHHHHHHHHHHhCC----CCCEEEECCCCChHHHHHHHHHHhcCccC---CCeEEEeCCCCC--hHHHHHH--
Confidence            356666667776666543321    25689999999999999999986532111   122344444321  2222221  


Q ss_pred             HhccCCCCc-ccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCC-----------CCcEEEEecCC
Q 047559          266 SITFASCDL-KALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAA-----------PNSKIIVTTRH  330 (444)
Q Consensus       266 ~l~~~~~~~-~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~iivTTr~  330 (444)
                       +.+..... .....  ......-....-.|+||++..........|...+....           ...+||.||..
T Consensus        70 -lfG~~~g~~~ga~~--~~~G~~~~a~gGtL~Ldei~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~at~~  143 (329)
T TIGR02974        70 -LFGHEAGAFTGAQK--RHQGRFERADGGTLFLDELATASLLVQEKLLRVIEYGEFERVGGSQTLQVDVRLVCATNA  143 (329)
T ss_pred             -HhccccccccCccc--ccCCchhhCCCCEEEeCChHhCCHHHHHHHHHHHHcCcEEecCCCceeccceEEEEechh
Confidence             11111000 00000  00000111234568999998776665666666553321           23588887754

Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=97.17  E-value=0.00034  Score=58.00  Aligned_cols=108  Identities=16%  Similarity=0.161  Sum_probs=61.1

Q ss_pred             cccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHH
Q 047559          187 FGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLES  266 (444)
Q Consensus       187 vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~  266 (444)
                      ||.-..+.++.+.+..-..    ....|.|.|..|+||+++|+.++.........|...   .+.. .+           
T Consensus         1 vG~S~~~~~l~~~l~~~a~----~~~pvli~GE~GtGK~~~A~~lh~~~~~~~~~~~~~---~~~~-~~-----------   61 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLERLAK----SSSPVLITGEPGTGKSLLARALHRYSGRANGPFIVI---DCAS-LP-----------   61 (138)
T ss_dssp             --SCHHHHHHHHHHHHHHC----SSS-EEEECCTTSSHHHHHHCCHHTTTTCCS-CCCC---CHHC-TC-----------
T ss_pred             CCCCHHHHHHHHHHHHHhC----CCCcEEEEcCCCCCHHHHHHHHHhhcCccCCCeEEe---chhh-Cc-----------
Confidence            3555556666655544221    125789999999999999999887643221122110   1111 00           


Q ss_pred             hccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCC-CCCCcEEEEecCC
Q 047559          267 ITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLA-AAPNSKIIVTTRH  330 (444)
Q Consensus       267 l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~-~~~gs~iivTTr~  330 (444)
                                    .+.+..   -+.--|+|+|+...+......+...+.. .....|+|.||..
T Consensus        62 --------------~~~l~~---a~~gtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~RlI~ss~~  109 (138)
T PF14532_consen   62 --------------AELLEQ---AKGGTLYLKNIDRLSPEAQRRLLDLLKRQERSNVRLIASSSQ  109 (138)
T ss_dssp             --------------HHHHHH---CTTSEEEEECGCCS-HHHHHHHHHHHHHCTTTTSEEEEEECC
T ss_pred             --------------HHHHHH---cCCCEEEECChHHCCHHHHHHHHHHHHhcCCCCeEEEEEeCC
Confidence                          111111   1445678999988776666667666653 2567899999884

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

Probab=97.17  E-value=0.0037  Score=56.54  Aligned_cols=92  Identities=15%  Similarity=0.132  Sum_probs=54.6

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhcccccc---CCcceeEEEEeCCCCCHHHHHHHHHHHhccCC---------CCcccH
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDRAVED---SKFDVKAWVCVSDDFDVLNISRALLESITFAS---------CDLKAL  277 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~---~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~---------~~~~~~  277 (444)
                      .-.++.|+|.+|+|||+|+.++........   +.-..++|++....++...+. .+........         ....+.
T Consensus        18 ~g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~~~~~~rl~-~~~~~~~~~~~~~~~~i~~~~~~~~   96 (226)
T cd01393          18 TGRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEGAFRPERLV-QLAVRFGLDPEEVLDNIYVARPYNG   96 (226)
T ss_pred             CCcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCCCCCHHHHH-HHHHHhccchhhhhccEEEEeCCCH
Confidence            347999999999999999999875531110   011567899887777765443 3333322110         012334


Q ss_pred             HHHHHHHHHHhC----CceEEEEEeCCCC
Q 047559          278 NEVQVQIKRAVD----GKKLLLVLDDVWN  302 (444)
Q Consensus       278 ~~~~~~l~~~l~----~kr~LlVlDdv~~  302 (444)
                      +++...+.....    .+.-|||+|.+..
T Consensus        97 ~~~~~~l~~~~~~~~~~~~~lvVIDsis~  125 (226)
T cd01393          97 EQQLEIVEELERIMSSGRVDLVVVDSVAA  125 (226)
T ss_pred             HHHHHHHHHHHHHhhcCCeeEEEEcCcch
Confidence            455555544432    3445999999843

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.

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

Probab=97.15  E-value=0.0017  Score=64.66  Aligned_cols=99  Identities=14%  Similarity=0.237  Sum_probs=62.4

Q ss_pred             CcccccchhHHHHHHHHhcCCC------CCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTS------SDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVL  257 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~------~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~  257 (444)
                      .++-|.+..+.++.+++..-..      -+-...+-|.++|++|.|||.||+.+.+...+.        +++++.+    
T Consensus       190 ~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~vP--------f~~isAp----  257 (802)
T KOG0733|consen  190 SDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELGVP--------FLSISAP----  257 (802)
T ss_pred             hhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhcCCc--------eEeecch----
Confidence            4578889888888887755211      111345789999999999999999999986543        3344332    


Q ss_pred             HHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCC
Q 047559          258 NISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNE  303 (444)
Q Consensus       258 ~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~  303 (444)
                          +|++.+.+.     +.+.+.+...+....-++++++|+++-.
T Consensus       258 ----eivSGvSGE-----SEkkiRelF~~A~~~aPcivFiDeIDAI  294 (802)
T KOG0733|consen  258 ----EIVSGVSGE-----SEKKIRELFDQAKSNAPCIVFIDEIDAI  294 (802)
T ss_pred             ----hhhcccCcc-----cHHHHHHHHHHHhccCCeEEEeeccccc
Confidence                233333321     1222222333334567899999999653

>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor

Probab=97.14  E-value=0.0019  Score=55.38  Aligned_cols=128  Identities=17%  Similarity=0.144  Sum_probs=64.8

Q ss_pred             ccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHH
Q 047559          186 VFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLE  265 (444)
Q Consensus       186 ~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~  265 (444)
                      ++|....+.++++.+..-...   + ..|.|+|..|+||+.+|+.+++.....   -...+-|+++. .+.+.+-    .
T Consensus         1 liG~s~~m~~~~~~~~~~a~~---~-~pVlI~GE~GtGK~~lA~~IH~~s~r~---~~pfi~vnc~~-~~~~~~e----~   68 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAASS---D-LPVLITGETGTGKELLARAIHNNSPRK---NGPFISVNCAA-LPEELLE----S   68 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHTTS---T-S-EEEECSTTSSHHHHHHHHHHCSTTT---TS-EEEEETTT-S-HHHHH----H
T ss_pred             CEeCCHHHHHHHHHHHHHhCC---C-CCEEEEcCCCCcHHHHHHHHHHhhhcc---cCCeEEEehhh-hhcchhh----h
Confidence            467777788887776553321   1 567799999999999999999863211   12223344443 2222222    2


Q ss_pred             HhccCCCC----c-ccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCC-----------CCCcEEEEecC
Q 047559          266 SITFASCD----L-KALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAA-----------APNSKIIVTTR  329 (444)
Q Consensus       266 ~l~~~~~~----~-~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~-----------~~gs~iivTTr  329 (444)
                      .+.+....    . .....   .+..   -..=-|+||++..........|...+..+           ....|||.||.
T Consensus        69 ~LFG~~~~~~~~~~~~~~G---~l~~---A~~GtL~Ld~I~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~st~  142 (168)
T PF00158_consen   69 ELFGHEKGAFTGARSDKKG---LLEQ---ANGGTLFLDEIEDLPPELQAKLLRVLEEGKFTRLGSDKPVPVDVRIIASTS  142 (168)
T ss_dssp             HHHEBCSSSSTTTSSEBEH---HHHH---TTTSEEEEETGGGS-HHHHHHHHHHHHHSEEECCTSSSEEE--EEEEEEES
T ss_pred             hhhccccccccccccccCC---ceee---ccceEEeecchhhhHHHHHHHHHHHHhhchhccccccccccccceEEeecC
Confidence            22222111    0 00001   1111   23346788999877655555555444321           12568888887


Q ss_pred             Ch
Q 047559          330 HA  331 (444)
Q Consensus       330 ~~  331 (444)
                      .+
T Consensus       143 ~~  144 (168)
T PF00158_consen  143 KD  144 (168)
T ss_dssp             S-
T ss_pred             cC
Confidence            53

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 ....

>cd01394 radB RadB

Probab=97.13  E-value=0.0035  Score=56.38  Aligned_cols=88  Identities=19%  Similarity=0.157  Sum_probs=50.0

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHh----ccC--CCCcccHHH---
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESI----TFA--SCDLKALNE---  279 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l----~~~--~~~~~~~~~---  279 (444)
                      +.-.++.|.|.+|+|||||+.+++....  . .-..++|++....+.  +-++++....    ...  ..+..+..+   
T Consensus        17 ~~g~i~~i~G~~GsGKT~l~~~~a~~~~--~-~g~~v~yi~~e~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (218)
T cd01394          17 ERGTVTQVYGPPGTGKTNIAIQLAVETA--G-QGKKVAYIDTEGLSS--ERFRQIAGDRPERAASSIIVFEPMDFNEQGR   91 (218)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHHH--h-cCCeEEEEECCCCCH--HHHHHHHhHChHhhhcCEEEEeCCCHHHHHH
Confidence            3348999999999999999999886642  1 234567887655543  3333333221    000  001122222   


Q ss_pred             HHHHHHHHhCCceEEEEEeCCC
Q 047559          280 VQVQIKRAVDGKKLLLVLDDVW  301 (444)
Q Consensus       280 ~~~~l~~~l~~kr~LlVlDdv~  301 (444)
                      ....+...+..+.-+||+|.+-
T Consensus        92 ~~~~~~~~~~~~~~lvvIDsi~  113 (218)
T cd01394          92 AIQETETFADEKVDLVVVDSAT  113 (218)
T ss_pred             HHHHHHHHHhcCCcEEEEechH
Confidence            2334444454445689999984

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

>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea

Probab=97.12  E-value=0.0048  Score=53.63  Aligned_cols=119  Identities=18%  Similarity=0.212  Sum_probs=64.7

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCC--CCCHHHHH------HHHHHHhccCC-----C-CcccH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSD--DFDVLNIS------RALLESITFAS-----C-DLKAL  277 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~--~~~~~~~~------~~il~~l~~~~-----~-~~~~~  277 (444)
                      .+++|+|..|.|||||.+.+.....    ...+.+++.-.+  ..+.....      .++++.++...     . ..+.-
T Consensus        26 ~~~~l~G~nGsGKStLl~~i~G~~~----~~~G~v~~~g~~~~~~~~~~~~~~i~~~~q~l~~~gl~~~~~~~~~~LS~G  101 (180)
T cd03214          26 EIVGILGPNGAGKSTLLKTLAGLLK----PSSGEILLDGKDLASLSPKELARKIAYVPQALELLGLAHLADRPFNELSGG  101 (180)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCC----CCCcEEEECCEECCcCCHHHHHHHHhHHHHHHHHcCCHhHhcCCcccCCHH
Confidence            5899999999999999999987532    233444442111  11221211      11344433221     1 11122


Q ss_pred             HHHHHHHHHHhCCceEEEEEeCCCC-CChhcHHHhhcccCCC-CC-CcEEEEecCChHHH
Q 047559          278 NEVQVQIKRAVDGKKLLLVLDDVWN-EDYCLWEDLKAPFLAA-AP-NSKIIVTTRHAHVA  334 (444)
Q Consensus       278 ~~~~~~l~~~l~~kr~LlVlDdv~~-~~~~~~~~l~~~l~~~-~~-gs~iivTTr~~~va  334 (444)
                      +...-.+...+-..+-++++|+.-. .+......+...+... .. +..||++|.+....
T Consensus       102 ~~qrl~laral~~~p~llllDEP~~~LD~~~~~~~~~~l~~~~~~~~~tiii~sh~~~~~  161 (180)
T cd03214         102 ERQRVLLARALAQEPPILLLDEPTSHLDIAHQIELLELLRRLARERGKTVVMVLHDLNLA  161 (180)
T ss_pred             HHHHHHHHHHHhcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHHHH
Confidence            2233345566667778999999843 2333344444444321 22 66788888876654

Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC transporter mediating vitamin B12 uptake. The two ATP-binding cassettes (BtuD) are in close contact with each other, as are the two membrane-spanning subunits (BtuC); this arrangement is distinct from that observed for the E. coli lipid flippase MsbA. The BtuC subunits provide 20 transmembrane helices grouped around a translocation pathway that is closed to the cytoplasm by a gate region, whereas the dimer arrangement of the BtuD subunits resembles the ATP-bound form of the Rad50 DNA repair enzyme. A prominent cytoplasmic loop of BtuC forms the contact region with the ATP-binding cassette and represent a conserved motif among the ABC transporters.

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.12  E-value=0.0066  Score=58.50  Aligned_cols=26  Identities=31%  Similarity=0.436  Sum_probs=22.6

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhcc
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..++|+|+|++|+||||++..++...
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~~L  265 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAWQF  265 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHHHH
Confidence            34799999999999999999998654

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.10  E-value=0.0038  Score=63.37  Aligned_cols=153  Identities=17%  Similarity=0.055  Sum_probs=81.7

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCC--CHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhC
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDF--DVLNISRALLESITFASCDLKALNEVQVQIKRAVD  289 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~--~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~  289 (444)
                      .-|.|.|+.|+|||+||+.+++... ++ +.-++..|+++.-.  ..+.+.+                 .+...+.+.+.
T Consensus       432 ~~Ill~G~~GsGKT~L~kal~~~~~-k~-~~~hv~~v~Cs~l~~~~~e~iQk-----------------~l~~vfse~~~  492 (952)
T KOG0735|consen  432 GNILLNGPKGSGKTNLVKALFDYYS-KD-LIAHVEIVSCSTLDGSSLEKIQK-----------------FLNNVFSEALW  492 (952)
T ss_pred             ccEEEeCCCCCCHhHHHHHHHHHhc-cc-cceEEEEEechhccchhHHHHHH-----------------HHHHHHHHHHh
Confidence            5789999999999999999998865 43 55566677776521  1111111                 11223344556


Q ss_pred             CceEEEEEeCCCCCCh------hcHHH----hhccc-----CCCCCCcE--EEEecCChHHH-hhcCCC----CcccCCC
Q 047559          290 GKKLLLVLDDVWNEDY------CLWED----LKAPF-----LAAAPNSK--IIVTTRHAHVA-ATMEPI----QQYNLQC  347 (444)
Q Consensus       290 ~kr~LlVlDdv~~~~~------~~~~~----l~~~l-----~~~~~gs~--iivTTr~~~va-~~~~~~----~~~~l~~  347 (444)
                      ..+-+|||||++..-.      .+|..    +...+     .....+.+  +|.|.....-. ..+...    .+..|..
T Consensus       493 ~~PSiIvLDdld~l~~~s~~e~~q~~~~~~rla~flnqvi~~y~~~~~~ia~Iat~qe~qtl~~~L~s~~~Fq~~~~L~a  572 (952)
T KOG0735|consen  493 YAPSIIVLDDLDCLASASSNENGQDGVVSERLAAFLNQVIKIYLKRNRKIAVIATGQELQTLNPLLVSPLLFQIVIALPA  572 (952)
T ss_pred             hCCcEEEEcchhhhhccCcccCCcchHHHHHHHHHHHHHHHHHHccCcEEEEEEechhhhhcChhhcCccceEEEEecCC
Confidence            7788999999964211      12221    11111     01233444  44444432211 111111    3467888


Q ss_pred             CChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCC
Q 047559          348 LSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGL  387 (444)
Q Consensus       348 L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~  387 (444)
                      +...+-.+++++..-.........+++    -+..+|+|.
T Consensus       573 p~~~~R~~IL~~~~s~~~~~~~~~dLd----~ls~~TEGy  608 (952)
T KOG0735|consen  573 PAVTRRKEILTTIFSKNLSDITMDDLD----FLSVKTEGY  608 (952)
T ss_pred             cchhHHHHHHHHHHHhhhhhhhhHHHH----HHHHhcCCc
Confidence            888777777765432211112222232    277788874

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=97.10  E-value=0.0045  Score=51.62  Aligned_cols=104  Identities=18%  Similarity=0.177  Sum_probs=57.7

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGK  291 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  291 (444)
                      .+++|+|..|.|||||++.+.....    ...+.+|+....             .+..- .+.+.-+...-.+...+..+
T Consensus        27 e~~~i~G~nGsGKStLl~~l~G~~~----~~~G~i~~~~~~-------------~i~~~-~~lS~G~~~rv~laral~~~   88 (144)
T cd03221          27 DRIGLVGRNGAGKSTLLKLIAGELE----PDEGIVTWGSTV-------------KIGYF-EQLSGGEKMRLALAKLLLEN   88 (144)
T ss_pred             CEEEEECCCCCCHHHHHHHHcCCCC----CCceEEEECCeE-------------EEEEE-ccCCHHHHHHHHHHHHHhcC
Confidence            5899999999999999999987642    223444442100             00000 00111222233455566667


Q ss_pred             eEEEEEeCCCC-CChhcHHHhhcccCCCCCCcEEEEecCChHHHh
Q 047559          292 KLLLVLDDVWN-EDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAA  335 (444)
Q Consensus       292 r~LlVlDdv~~-~~~~~~~~l~~~l~~~~~gs~iivTTr~~~va~  335 (444)
                      +-++++|+.-. .+......+...+...  +..||++|.+.....
T Consensus        89 p~illlDEP~~~LD~~~~~~l~~~l~~~--~~til~~th~~~~~~  131 (144)
T cd03221          89 PNLLLLDEPTNHLDLESIEALEEALKEY--PGTVILVSHDRYFLD  131 (144)
T ss_pred             CCEEEEeCCccCCCHHHHHHHHHHHHHc--CCEEEEEECCHHHHH
Confidence            77899999843 3333344444444332  246888887765543

EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.09  E-value=0.0046  Score=66.05  Aligned_cols=178  Identities=15%  Similarity=0.142  Sum_probs=89.5

Q ss_pred             cccccchhHHHHHHHHhcCCC-------CCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHH
Q 047559          185 AVFGRQQDKAKMLEMVLTDTS-------SDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVL  257 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~-------~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~  257 (444)
                      ++.|.+..++.+.+++...-.       -+-...+.+.++|++|+|||+||+.+++...  . .|   +.++.+      
T Consensus       179 di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~~--~-~~---i~i~~~------  246 (733)
T TIGR01243       179 DIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAG--A-YF---ISINGP------  246 (733)
T ss_pred             HhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHhC--C-eE---EEEecH------
Confidence            478999998888777642100       0002235788999999999999999988632  1 21   222211      


Q ss_pred             HHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCCh-----------hcHHHhhcccCC-CCCCcEEE
Q 047559          258 NISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDY-----------CLWEDLKAPFLA-AAPNSKII  325 (444)
Q Consensus       258 ~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~-----------~~~~~l~~~l~~-~~~gs~ii  325 (444)
                      ++.    ...     .......+...+.......+.+|+||+++....           .....+...+.. ...+..++
T Consensus       247 ~i~----~~~-----~g~~~~~l~~lf~~a~~~~p~il~iDEid~l~~~r~~~~~~~~~~~~~~Ll~~ld~l~~~~~viv  317 (733)
T TIGR01243       247 EIM----SKY-----YGESEERLREIFKEAEENAPSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKGRGRVIV  317 (733)
T ss_pred             HHh----ccc-----ccHHHHHHHHHHHHHHhcCCcEEEeehhhhhcccccCCcchHHHHHHHHHHHHhhccccCCCEEE
Confidence            111    000     001111222233333345678999999854211           012223333322 12233344


Q ss_pred             E-ecCChH-HHhhcC---C-CCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCCh
Q 047559          326 V-TTRHAH-VAATME---P-IQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLP  388 (444)
Q Consensus       326 v-TTr~~~-va~~~~---~-~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  388 (444)
                      | ||.... +...+.   . ...+.+...+.++-.+++....-. .....+..    ...+++.+.|..
T Consensus       318 I~atn~~~~ld~al~r~gRfd~~i~i~~P~~~~R~~Il~~~~~~-~~l~~d~~----l~~la~~t~G~~  381 (733)
T TIGR01243       318 IGATNRPDALDPALRRPGRFDREIVIRVPDKRARKEILKVHTRN-MPLAEDVD----LDKLAEVTHGFV  381 (733)
T ss_pred             EeecCChhhcCHHHhCchhccEEEEeCCcCHHHHHHHHHHHhcC-CCCccccC----HHHHHHhCCCCC
Confidence            4 454332 111111   1 235677777888888888754321 11111122    244777777764

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.

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=97.08  E-value=0.0046  Score=53.63  Aligned_cols=117  Identities=17%  Similarity=0.156  Sum_probs=59.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhcc--CC------------C-Cccc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITF--AS------------C-DLKA  276 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~--~~------------~-~~~~  276 (444)
                      .+++|+|+.|.|||||++.+......    -.+.+++...   +.......+-+.++.  ..            . ..+.
T Consensus        29 e~~~i~G~nGsGKStLl~~l~G~~~~----~~G~i~~~g~---~~~~~~~~~~~~i~~~~q~~~~~~~tv~~~i~~~LS~  101 (178)
T cd03247          29 EKIALLGRSGSGKSTLLQLLTGDLKP----QQGEITLDGV---PVSDLEKALSSLISVLNQRPYLFDTTLRNNLGRRFSG  101 (178)
T ss_pred             CEEEEECCCCCCHHHHHHHHhccCCC----CCCEEEECCE---EHHHHHHHHHhhEEEEccCCeeecccHHHhhcccCCH
Confidence            58999999999999999999875322    1233333211   111110111111110  00            0 0111


Q ss_pred             HHHHHHHHHHHhCCceEEEEEeCCCCC-ChhcHHHhhcccCCCCCCcEEEEecCChHHHh
Q 047559          277 LNEVQVQIKRAVDGKKLLLVLDDVWNE-DYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAA  335 (444)
Q Consensus       277 ~~~~~~~l~~~l~~kr~LlVlDdv~~~-~~~~~~~l~~~l~~~~~gs~iivTTr~~~va~  335 (444)
                      -+...-.+...+-.++=++++|+.... +......+...+.....+..||++|.+.....
T Consensus       102 G~~qrv~laral~~~p~~lllDEP~~~LD~~~~~~l~~~l~~~~~~~tii~~sh~~~~~~  161 (178)
T cd03247         102 GERQRLALARILLQDAPIVLLDEPTVGLDPITERQLLSLIFEVLKDKTLIWITHHLTGIE  161 (178)
T ss_pred             HHHHHHHHHHHHhcCCCEEEEECCcccCCHHHHHHHHHHHHHHcCCCEEEEEecCHHHHH
Confidence            122223455566667788999998542 33333333333322223677888888776654

The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=97.08  E-value=0.015  Score=61.79  Aligned_cols=132  Identities=17%  Similarity=0.110  Sum_probs=73.5

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHH
Q 047559          185 AVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALL  264 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il  264 (444)
                      .++|+...+..+.+.+..-...    -..|.|+|..|+|||++|+.++......   -...+.+++..-.  ...+... 
T Consensus       377 ~liG~S~~~~~~~~~~~~~a~~----~~pVLI~GE~GTGK~~lA~~ih~~s~r~---~~~~v~i~c~~~~--~~~~~~~-  446 (686)
T PRK15429        377 EIIGRSEAMYSVLKQVEMVAQS----DSTVLILGETGTGKELIARAIHNLSGRN---NRRMVKMNCAAMP--AGLLESD-  446 (686)
T ss_pred             ceeecCHHHHHHHHHHHHHhCC----CCCEEEECCCCcCHHHHHHHHHHhcCCC---CCCeEEEecccCC--hhHhhhh-
Confidence            5899998888887666543221    1579999999999999999998764211   1233445554422  1222221 


Q ss_pred             HHhccCCCCc--ccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCC-----------CCcEEEEecCCh
Q 047559          265 ESITFASCDL--KALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAA-----------PNSKIIVTTRHA  331 (444)
Q Consensus       265 ~~l~~~~~~~--~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~iivTTr~~  331 (444)
                        +.+.....  .........+   -...+=.|+||++..........|...+....           .+.+||.||..+
T Consensus       447 --lfg~~~~~~~g~~~~~~g~l---e~a~~GtL~Ldei~~L~~~~Q~~L~~~l~~~~~~~~g~~~~~~~~~RiI~~t~~~  521 (686)
T PRK15429        447 --LFGHERGAFTGASAQRIGRF---ELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKIIQTDVRLIAATNRD  521 (686)
T ss_pred             --hcCcccccccccccchhhHH---HhcCCCeEEEechhhCCHHHHHHHHHHHHhCCEEeCCCCCcccceEEEEEeCCCC
Confidence              11111100  0000011111   11234569999998876666666666553321           345888888654

>PRK05541 adenylylsulfate kinase; Provisional

Probab=97.07  E-value=0.0013  Score=56.95  Aligned_cols=36  Identities=39%  Similarity=0.531  Sum_probs=27.2

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEE
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWV  248 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv  248 (444)
                      ...+|.|.|++|+||||+|+.+++...  . .+...+++
T Consensus         6 ~~~~I~i~G~~GsGKst~a~~l~~~l~--~-~~~~~~~~   41 (176)
T PRK05541          6 NGYVIWITGLAGSGKTTIAKALYERLK--L-KYSNVIYL   41 (176)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHH--H-cCCcEEEE
Confidence            346999999999999999999988743  2 34444554

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=97.06  E-value=0.0042  Score=53.68  Aligned_cols=102  Identities=19%  Similarity=0.092  Sum_probs=57.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEE------eCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVC------VSDDFDVLNISRALLESITFASCDLKALNEVQVQIK  285 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~------vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~  285 (444)
                      .+++|+|+.|.|||||.+.+..-...    ....+++.      +.+...                  .+.-+...-.+.
T Consensus        26 e~~~l~G~nGsGKSTLl~~l~Gl~~p----~~G~i~~~g~~i~~~~q~~~------------------LSgGq~qrv~la   83 (177)
T cd03222          26 EVIGIVGPNGTGKTTAVKILAGQLIP----NGDNDEWDGITPVYKPQYID------------------LSGGELQRVAIA   83 (177)
T ss_pred             CEEEEECCCCChHHHHHHHHHcCCCC----CCcEEEECCEEEEEEcccCC------------------CCHHHHHHHHHH
Confidence            59999999999999999999865322    22333321      111111                  111222233455


Q ss_pred             HHhCCceEEEEEeCCCCC-ChhcHHHhhcccCCC-CC-CcEEEEecCChHHHh
Q 047559          286 RAVDGKKLLLVLDDVWNE-DYCLWEDLKAPFLAA-AP-NSKIIVTTRHAHVAA  335 (444)
Q Consensus       286 ~~l~~kr~LlVlDdv~~~-~~~~~~~l~~~l~~~-~~-gs~iivTTr~~~va~  335 (444)
                      ..+..++-++++|+.-.. +......+...+... .. +..||++|.+.....
T Consensus        84 ral~~~p~lllLDEPts~LD~~~~~~l~~~l~~~~~~~~~tiiivsH~~~~~~  136 (177)
T cd03222          84 AALLRNATFYLFDEPSAYLDIEQRLNAARAIRRLSEEGKKTALVVEHDLAVLD  136 (177)
T ss_pred             HHHhcCCCEEEEECCcccCCHHHHHHHHHHHHHHHHcCCCEEEEEECCHHHHH
Confidence            666667789999998432 333333333333221 22 356777777765544

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.

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=97.05  E-value=0.004  Score=58.98  Aligned_cols=92  Identities=13%  Similarity=0.151  Sum_probs=56.0

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhccccc---cCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCC---------Cccc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDRAVE---DSKFDVKAWVCVSDDFDVLNISRALLESITFASC---------DLKA  276 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~---~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~---------~~~~  276 (444)
                      +.-+++-|+|++|+|||+|+.+++-.....   ...-..++|++....|+++++.. +++.++....         ...+
T Consensus        94 ~~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~~-~a~~~g~d~~~~l~~i~~~~~~~  172 (313)
T TIGR02238        94 ESMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIRA-IAERFGVDPDAVLDNILYARAYT  172 (313)
T ss_pred             cCCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHHH-HHHHcCCChHHhcCcEEEecCCC
Confidence            334799999999999999998876432211   10224788999988888877653 4555543211         1112


Q ss_pred             HHHH---HHHHHHHh-CCceEEEEEeCCC
Q 047559          277 LNEV---QVQIKRAV-DGKKLLLVLDDVW  301 (444)
Q Consensus       277 ~~~~---~~~l~~~l-~~kr~LlVlDdv~  301 (444)
                      .+..   ...+...+ .++--|||+|.+-
T Consensus       173 ~e~~~~~l~~l~~~i~~~~~~LvVIDSis  201 (313)
T TIGR02238       173 SEHQMELLDYLAAKFSEEPFRLLIVDSIM  201 (313)
T ss_pred             HHHHHHHHHHHHHHhhccCCCEEEEEcch
Confidence            2322   23333344 3344589999984

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.

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=97.05  E-value=0.0062  Score=56.61  Aligned_cols=172  Identities=18%  Similarity=0.207  Sum_probs=94.2

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHH-HHHHHH
Q 047559          185 AVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVL-NISRAL  263 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~-~~~~~i  263 (444)
                      .++|-.++..++-.++...--.  ++...+.|+|+.|.|||+|......+  .+. .-....-|......... -.++.|
T Consensus        25 ~l~g~~~~~~~l~~~lkqt~~~--gEsnsviiigprgsgkT~li~~~Ls~--~q~-~~E~~l~v~Lng~~~~dk~al~~I   99 (408)
T KOG2228|consen   25 NLFGVQDEQKHLSELLKQTILH--GESNSVIIIGPRGSGKTILIDTRLSD--IQE-NGENFLLVRLNGELQTDKIALKGI   99 (408)
T ss_pred             ceeehHHHHHHHHHHHHHHHHh--cCCCceEEEccCCCCceEeeHHHHhh--HHh-cCCeEEEEEECccchhhHHHHHHH
Confidence            4788888888887777542110  22246899999999999999888776  221 22233344444443332 245666


Q ss_pred             HHHhccCCC----CcccHHHHHHHHHHHhC------CceEEEEEeCCCCCChhcHHHhhcccC-----CCCCCcEEEEec
Q 047559          264 LESITFASC----DLKALNEVQVQIKRAVD------GKKLLLVLDDVWNEDYCLWEDLKAPFL-----AAAPNSKIIVTT  328 (444)
Q Consensus       264 l~~l~~~~~----~~~~~~~~~~~l~~~l~------~kr~LlVlDdv~~~~~~~~~~l~~~l~-----~~~~gs~iivTT  328 (444)
                      .+++.....    ...+..+....+...|+      +-++++|+|+++-.....-..+.-.+.     ...+-+-|-+||
T Consensus       100 ~rql~~e~~~~~k~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisqs~r~Piciig~Tt  179 (408)
T KOG2228|consen  100 TRQLALELNRIVKSFGSFTENLSKLLEALKKGDETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQSARAPICIIGVTT  179 (408)
T ss_pred             HHHHHHHHhhhheeecccchhHHHHHHHHhcCCCCCCceEEEEeehhhccccchhhHHHHHHHHHHhhcCCCeEEEEeec
Confidence            666543211    11222333344444442      225888898885542222122222121     123445666888


Q ss_pred             CChHHH-------hhcCCCCcccCCCCChHhHHHHHHHhh
Q 047559          329 RHAHVA-------ATMEPIQQYNLQCLSDEDCWSLFMMHA  361 (444)
Q Consensus       329 r~~~va-------~~~~~~~~~~l~~L~~~~~~~lf~~~~  361 (444)
                      |-....       ..++-..++-++.++-++...+++...
T Consensus       180 rld~lE~LEKRVKSRFshr~I~m~~~~~l~~yv~l~r~ll  219 (408)
T KOG2228|consen  180 RLDILELLEKRVKSRFSHRVIFMLPSLPLGDYVDLYRKLL  219 (408)
T ss_pred             cccHHHHHHHHHHhhcccceeeccCCCChHHHHHHHHHHh
Confidence            864332       222222345667788888888887765

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=97.05  E-value=0.0029  Score=53.60  Aligned_cols=40  Identities=30%  Similarity=0.402  Sum_probs=29.5

Q ss_pred             EEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCC
Q 047559          213 VIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFD  255 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~  255 (444)
                      ++.|+|.+|+||||++..+......   .-..++|++......
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~~~---~~~~v~~~~~e~~~~   40 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNIAT---KGGKVVYVDIEEEIE   40 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHHHh---cCCEEEEEECCcchH
Confidence            3689999999999999999876422   234667777765543

This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.

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

Probab=97.04  E-value=0.0013  Score=60.50  Aligned_cols=80  Identities=23%  Similarity=0.272  Sum_probs=49.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGK  291 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  291 (444)
                      .-+.++|.+|+|||.||..+.+... +  .--.+.+++      ..+++..+.......        .....|.+.+ .+
T Consensus       106 ~nl~l~G~~G~GKThLa~Ai~~~l~-~--~g~sv~f~~------~~el~~~Lk~~~~~~--------~~~~~l~~~l-~~  167 (254)
T COG1484         106 ENLVLLGPPGVGKTHLAIAIGNELL-K--AGISVLFIT------APDLLSKLKAAFDEG--------RLEEKLLREL-KK  167 (254)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHHH-H--cCCeEEEEE------HHHHHHHHHHHHhcC--------chHHHHHHHh-hc
Confidence            5689999999999999999998865 3  222344444      445555555544421        1122333323 12


Q ss_pred             eEEEEEeCCCCCChhcHH
Q 047559          292 KLLLVLDDVWNEDYCLWE  309 (444)
Q Consensus       292 r~LlVlDdv~~~~~~~~~  309 (444)
                      -=||||||+-......|.
T Consensus       168 ~dlLIiDDlG~~~~~~~~  185 (254)
T COG1484         168 VDLLIIDDIGYEPFSQEE  185 (254)
T ss_pred             CCEEEEecccCccCCHHH
Confidence            348999999776555555

>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.04  E-value=0.01  Score=53.15  Aligned_cols=156  Identities=13%  Similarity=0.158  Sum_probs=86.2

Q ss_pred             CcccccchhH---HHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHH
Q 047559          184 RAVFGRQQDK---AKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNIS  260 (444)
Q Consensus       184 ~~~vGr~~~~---~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~  260 (444)
                      ++++|.+..+   .-|++.|.++..=+....+-|..+|++|.|||.+|+.+.+...+.-        +.+-.    .+++
T Consensus       121 ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~kvp~--------l~vka----t~li  188 (368)
T COG1223         121 DDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEAKVPL--------LLVKA----TELI  188 (368)
T ss_pred             hhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhcccCCce--------EEech----HHHH
Confidence            4688987654   4456777654432225568899999999999999999999854421        11111    1111


Q ss_pred             HHHHHHhccCCCCcccHHHHHHHHHHHh-CCceEEEEEeCCCCCCh------------hcHHHhhcccC--CCCCCcEEE
Q 047559          261 RALLESITFASCDLKALNEVQVQIKRAV-DGKKLLLVLDDVWNEDY------------CLWEDLKAPFL--AAAPNSKII  325 (444)
Q Consensus       261 ~~il~~l~~~~~~~~~~~~~~~~l~~~l-~~kr~LlVlDdv~~~~~------------~~~~~l~~~l~--~~~~gs~ii  325 (444)
                      .   +-++       +-......+-+.. +.-++++.+|.++-...            +..+.|...+.  ....|...|
T Consensus       189 G---ehVG-------dgar~Ihely~rA~~~aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~eneGVvtI  258 (368)
T COG1223         189 G---EHVG-------DGARRIHELYERARKAAPCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKENEGVVTI  258 (368)
T ss_pred             H---HHhh-------hHHHHHHHHHHHHHhcCCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCcccCCceEEE
Confidence            0   1111       0011112222222 34589999999854211            01222222222  234576777


Q ss_pred             EecCChHHHhh-cCC--CCcccCCCCChHhHHHHHHHhh
Q 047559          326 VTTRHAHVAAT-MEP--IQQYNLQCLSDEDCWSLFMMHA  361 (444)
Q Consensus       326 vTTr~~~va~~-~~~--~~~~~l~~L~~~~~~~lf~~~~  361 (444)
                      -.|........ ..+  ...++...-+++|-.+++..++
T Consensus       259 aaTN~p~~LD~aiRsRFEeEIEF~LP~~eEr~~ile~y~  297 (368)
T COG1223         259 AATNRPELLDPAIRSRFEEEIEFKLPNDEERLEILEYYA  297 (368)
T ss_pred             eecCChhhcCHHHHhhhhheeeeeCCChHHHHHHHHHHH
Confidence            77766654422 111  1346666678888888888776

>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]

Probab=97.03  E-value=0.0025  Score=59.80  Aligned_cols=131  Identities=18%  Similarity=0.252  Sum_probs=69.5

Q ss_pred             cccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcc-ccccCCcceeE----EEEeCCCC-----C-
Q 047559          187 FGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDR-AVEDSKFDVKA----WVCVSDDF-----D-  255 (444)
Q Consensus       187 vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~-~~~~~~f~~~~----wv~vs~~~-----~-  255 (444)
                      -+|..+-.--+++|++      +.+..|.+.|.+|.|||-||-...=.. ..+. .|...+    -+.++++.     + 
T Consensus       227 ~prn~eQ~~ALdlLld------~dI~lV~L~G~AGtGKTlLALaAgleqv~e~~-~y~KiiVtRp~vpvG~dIGfLPG~e  299 (436)
T COG1875         227 RPRNAEQRVALDLLLD------DDIDLVSLGGKAGTGKTLLALAAGLEQVLERK-RYRKIIVTRPTVPVGEDIGFLPGTE  299 (436)
T ss_pred             CcccHHHHHHHHHhcC------CCCCeEEeeccCCccHhHHHHHHHHHHHHHHh-hhceEEEecCCcCcccccCcCCCch
Confidence            3466667777788876      445899999999999999885542111 1111 233222    12233321     0 


Q ss_pred             ---HHHHHHHHHH---HhccCCCCcccHHHHHHHH---------HHHhCCc---eEEEEEeCCCCCChhcHHHhhcccCC
Q 047559          256 ---VLNISRALLE---SITFASCDLKALNEVQVQI---------KRAVDGK---KLLLVLDDVWNEDYCLWEDLKAPFLA  317 (444)
Q Consensus       256 ---~~~~~~~il~---~l~~~~~~~~~~~~~~~~l---------~~~l~~k---r~LlVlDdv~~~~~~~~~~l~~~l~~  317 (444)
                         +.-....|..   .+......  ....+...+         ..+++|+   +-+||+|+..+..+.+...+   +..
T Consensus       300 EeKm~PWmq~i~DnLE~L~~~~~~--~~~~l~~~l~~~~iev~alt~IRGRSl~~~FiIIDEaQNLTpheikTi---ltR  374 (436)
T COG1875         300 EEKMGPWMQAIFDNLEVLFSPNEP--GDRALEEILSRGRIEVEALTYIRGRSLPDSFIIIDEAQNLTPHELKTI---LTR  374 (436)
T ss_pred             hhhccchHHHHHhHHHHHhccccc--chHHHHHHHhccceeeeeeeeecccccccceEEEehhhccCHHHHHHH---HHh
Confidence               1111222222   22211111  111111111         1244555   45999999988776554444   445


Q ss_pred             CCCCcEEEEecC
Q 047559          318 AAPNSKIIVTTR  329 (444)
Q Consensus       318 ~~~gs~iivTTr  329 (444)
                      .+.||||+.|.-
T Consensus       375 ~G~GsKIVl~gd  386 (436)
T COG1875         375 AGEGSKIVLTGD  386 (436)
T ss_pred             ccCCCEEEEcCC
Confidence            688999998875

>PRK13695 putative NTPase; Provisional

Probab=97.02  E-value=0.00089  Score=57.91  Aligned_cols=23  Identities=43%  Similarity=0.475  Sum_probs=20.4

Q ss_pred             EEEEEecCCChHHHHHHHHhhcc
Q 047559          213 VIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+.|+|.+|+|||||++.+++..
T Consensus         2 ~i~ltG~~G~GKTTll~~i~~~l   24 (174)
T PRK13695          2 KIGITGPPGVGKTTLVLKIAELL   24 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            47899999999999999988764

>PRK06835 DNA replication protein DnaC; Validated

Probab=97.02  E-value=0.0018  Score=61.63  Aligned_cols=102  Identities=20%  Similarity=0.163  Sum_probs=55.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGK  291 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  291 (444)
                      ..+.++|.+|+|||.||..+.+....+  . ..+++++++      +++..+.......   ..+...   .+ +.+. .
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~~l~~~--g-~~V~y~t~~------~l~~~l~~~~~~~---~~~~~~---~~-~~l~-~  246 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAKELLDR--G-KSVIYRTAD------ELIEILREIRFNN---DKELEE---VY-DLLI-N  246 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHHHHC--C-CeEEEEEHH------HHHHHHHHHHhcc---chhHHH---HH-HHhc-c
Confidence            569999999999999999999875322  2 245565543      3333332211110   011111   12 2222 2


Q ss_pred             eEEEEEeCCCCCChhcHH--HhhcccCCC-CCCcEEEEecCC
Q 047559          292 KLLLVLDDVWNEDYCLWE--DLKAPFLAA-APNSKIIVTTRH  330 (444)
Q Consensus       292 r~LlVlDdv~~~~~~~~~--~l~~~l~~~-~~gs~iivTTr~  330 (444)
                      -=||||||+.......|.  .+...+... ..+-.+||||..
T Consensus       247 ~DLLIIDDlG~e~~t~~~~~~Lf~iin~R~~~~k~tIiTSNl  288 (329)
T PRK06835        247 CDLLIIDDLGTEKITEFSKSELFNLINKRLLRQKKMIISTNL  288 (329)
T ss_pred             CCEEEEeccCCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCC
Confidence            248999999665434443  233333221 234568888874

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

Probab=97.01  E-value=0.0034  Score=57.75  Aligned_cols=87  Identities=22%  Similarity=0.283  Sum_probs=55.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCC-CHHHHHHHHHHHhcc-------CCCCcccHH-----
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDF-DVLNISRALLESITF-------ASCDLKALN-----  278 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~-~~~~~~~~il~~l~~-------~~~~~~~~~-----  278 (444)
                      .-++|+|.+|+|||||++.+++.....  +-+.++++-++... .+.++...+...-..       ...+.....     
T Consensus        70 Qr~~If~~~G~GKTtLa~~i~~~i~~~--~~~~~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~~~  147 (274)
T cd01133          70 GKIGLFGGAGVGKTVLIMELINNIAKA--HGGYSVFAGVGERTREGNDLYHEMKESGVLSKTALVYGQMNEPPGARARVA  147 (274)
T ss_pred             CEEEEecCCCCChhHHHHHHHHHHHhc--CCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHHH
Confidence            578999999999999999999874321  33556777777654 445566655542111       111111111     


Q ss_pred             HHHHHHHHHh--C-CceEEEEEeCC
Q 047559          279 EVQVQIKRAV--D-GKKLLLVLDDV  300 (444)
Q Consensus       279 ~~~~~l~~~l--~-~kr~LlVlDdv  300 (444)
                      ...-.+.+++  + ++.+||++||+
T Consensus       148 ~~a~~~AEyfr~~~g~~Vl~~~Dsl  172 (274)
T cd01133         148 LTGLTMAEYFRDEEGQDVLLFIDNI  172 (274)
T ss_pred             HHHHHHHHHHHHhcCCeEEEEEeCh
Confidence            1223455666  3 89999999999

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.

>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51

Probab=97.00  E-value=0.0037  Score=57.58  Aligned_cols=89  Identities=21%  Similarity=0.308  Sum_probs=54.4

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccc---cCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCC------------Cccc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVE---DSKFDVKAWVCVSDDFDVLNISRALLESITFASC------------DLKA  276 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~---~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~------------~~~~  276 (444)
                      .+.=|+|.+|+|||.|+.+++-.....   .+.-..++|++-...|....+. +|++.......            ....
T Consensus        39 ~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~~Rl~-~i~~~~~~~~~~~l~~I~v~~~~~~~~  117 (256)
T PF08423_consen   39 SITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSPERLQ-QIAERFGLDPEEILDNIFVIRVFDLEE  117 (256)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-HHHHH-HHHHHTTS-HHHHHHTEEEEE-SSHHH
T ss_pred             cEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCHHHHH-HHhhccccccchhhhceeeeecCCHHH
Confidence            689999999999999998876432221   1123468999998889887764 45554332110            1122


Q ss_pred             HHHHHHHHHHHh-CCceEEEEEeCCC
Q 047559          277 LNEVQVQIKRAV-DGKKLLLVLDDVW  301 (444)
Q Consensus       277 ~~~~~~~l~~~l-~~kr~LlVlDdv~  301 (444)
                      ...+...+...+ .++--|||+|.+-
T Consensus       118 l~~~L~~l~~~l~~~~ikLIVIDSIa  143 (256)
T PF08423_consen  118 LLELLEQLPKLLSESKIKLIVIDSIA  143 (256)
T ss_dssp             HHHHHHHHHHHHHHSCEEEEEEETSS
T ss_pred             HHHHHHHHHhhccccceEEEEecchH
Confidence            233333444444 3445599999983

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 ....

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=96.99  E-value=0.0033  Score=53.68  Aligned_cols=115  Identities=20%  Similarity=0.146  Sum_probs=62.3

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCC--CCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhC
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDD--FDVLNISRALLESITFASCDLKALNEVQVQIKRAVD  289 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~--~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~  289 (444)
                      .+++|+|..|.|||||.+.+.....    .....+++.....  .+..+..+   +.++. ..+.+.-+...-.+...+-
T Consensus        27 e~~~l~G~nGsGKSTLl~~i~G~~~----~~~G~v~~~g~~~~~~~~~~~~~---~~i~~-~~qLS~G~~qrl~laral~   98 (163)
T cd03216          27 EVHALLGENGAGKSTLMKILSGLYK----PDSGEILVDGKEVSFASPRDARR---AGIAM-VYQLSVGERQMVEIARALA   98 (163)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCC----CCCeEEEECCEECCcCCHHHHHh---cCeEE-EEecCHHHHHHHHHHHHHh
Confidence            5899999999999999999987532    3345555432111  11111111   11111 0111222223334556666


Q ss_pred             CceEEEEEeCCCC-CChhcHHHhhcccCC-CCCCcEEEEecCChHHH
Q 047559          290 GKKLLLVLDDVWN-EDYCLWEDLKAPFLA-AAPNSKIIVTTRHAHVA  334 (444)
Q Consensus       290 ~kr~LlVlDdv~~-~~~~~~~~l~~~l~~-~~~gs~iivTTr~~~va  334 (444)
                      .++-++++|+.-+ .|......+...+.. ...|..||++|.+....
T Consensus        99 ~~p~illlDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~~~  145 (163)
T cd03216          99 RNARLLILDEPTAALTPAEVERLFKVIRRLRAQGVAVIFISHRLDEV  145 (163)
T ss_pred             cCCCEEEEECCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHH
Confidence            6778889999843 233333444444432 13466788888876643

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. Pentoses include xylose, arabinose, and ribose. Important hexoses include glucose, galactose, and fructose. In members of the Carb_monos family, the single hydrophobic gene product forms a homodimer while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=96.98  E-value=0.0077  Score=51.59  Aligned_cols=117  Identities=14%  Similarity=0.091  Sum_probs=60.1

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCC--cce---eEEEEeCCCCCH--HHHHHHHHHHhccCCCCcccHHHHHHHH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSK--FDV---KAWVCVSDDFDV--LNISRALLESITFASCDLKALNEVQVQI  284 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~--f~~---~~wv~vs~~~~~--~~~~~~il~~l~~~~~~~~~~~~~~~~l  284 (444)
                      .+++|+|+.|.|||||++.+........+.  ++.   ..+  +.+....  ..+...+.-.   .....+.-+...-.+
T Consensus        28 e~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~~~~~~i~~--~~q~~~~~~~tv~~nl~~~---~~~~LS~G~~~rv~l  102 (166)
T cd03223          28 DRLLITGPSGTGKSSLFRALAGLWPWGSGRIGMPEGEDLLF--LPQRPYLPLGTLREQLIYP---WDDVLSGGEQQRLAF  102 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCceEEECCCceEEE--ECCCCccccccHHHHhhcc---CCCCCCHHHHHHHHH
Confidence            589999999999999999998764321111  111   112  2222211  1222222110   111222223333345


Q ss_pred             HHHhCCceEEEEEeCCCC-CChhcHHHhhcccCCCCCCcEEEEecCChHHHh
Q 047559          285 KRAVDGKKLLLVLDDVWN-EDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAA  335 (444)
Q Consensus       285 ~~~l~~kr~LlVlDdv~~-~~~~~~~~l~~~l~~~~~gs~iivTTr~~~va~  335 (444)
                      ...+-.++=++++|+.-. .|......+...+...  +..||++|.+.....
T Consensus       103 aral~~~p~~lllDEPt~~LD~~~~~~l~~~l~~~--~~tiiivsh~~~~~~  152 (166)
T cd03223         103 ARLLLHKPKFVFLDEATSALDEESEDRLYQLLKEL--GITVISVGHRPSLWK  152 (166)
T ss_pred             HHHHHcCCCEEEEECCccccCHHHHHHHHHHHHHh--CCEEEEEeCChhHHh
Confidence            556666777888998743 2333333333333322  456888887766543

The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation. To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes. X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family. The disease is characterized by a striking and unpredictable variation in phenotypic expression. Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asympt

>PRK06696 uridine kinase; Validated

Probab=96.97  E-value=0.001  Score=60.00  Aligned_cols=45  Identities=29%  Similarity=0.336  Sum_probs=35.4

Q ss_pred             ccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          188 GRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       188 Gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .|.+-+++|.+.+.....   ....+|+|.|.+|+||||||+.+....
T Consensus         2 ~~~~~~~~la~~~~~~~~---~~~~iI~I~G~sgsGKSTlA~~L~~~l   46 (223)
T PRK06696          2 SRKQLIKELAEHILTLNL---TRPLRVAIDGITASGKTTFADELAEEI   46 (223)
T ss_pred             cHHHHHHHHHHHHHHhCC---CCceEEEEECCCCCCHHHHHHHHHHHH
Confidence            356667778877765332   456899999999999999999998764

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=96.97  E-value=0.029  Score=52.99  Aligned_cols=158  Identities=11%  Similarity=0.074  Sum_probs=78.9

Q ss_pred             ccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHH
Q 047559          186 VFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLE  265 (444)
Q Consensus       186 ~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~  265 (444)
                      ++=.......++..+...        +.|.|.|++|+||||+|+.+......     . .+.|+++...+..+++..-.-
T Consensus        47 y~f~~~~~~~vl~~l~~~--------~~ilL~G~pGtGKTtla~~lA~~l~~-----~-~~rV~~~~~l~~~DliG~~~~  112 (327)
T TIGR01650        47 YLFDKATTKAICAGFAYD--------RRVMVQGYHGTGKSTHIEQIAARLNW-----P-CVRVNLDSHVSRIDLVGKDAI  112 (327)
T ss_pred             ccCCHHHHHHHHHHHhcC--------CcEEEEeCCCChHHHHHHHHHHHHCC-----C-eEEEEecCCCChhhcCCCcee
Confidence            333334455566666432        46999999999999999999886421     1 235565655555444322110


Q ss_pred             HhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccC--------C------CCCCcEEEEecCCh
Q 047559          266 SITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFL--------A------AAPNSKIIVTTRHA  331 (444)
Q Consensus       266 ~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~--------~------~~~gs~iivTTr~~  331 (444)
                      .+........-.+.   .+-... .+.+.+++|++....+.....|...|.        .      ..+.-++|.|+...
T Consensus       113 ~l~~g~~~~~f~~G---pL~~A~-~~g~illlDEin~a~p~~~~~L~~lLE~~~~l~i~~~~~~i~~hp~FrviAT~Np~  188 (327)
T TIGR01650       113 VLKDGKQITEFRDG---ILPWAL-QHNVALCFDEYDAGRPDVMFVIQRVLEAGGKLTLLDQNRVIRAHPAFRLFATANTI  188 (327)
T ss_pred             eccCCcceeEEecC---cchhHH-hCCeEEEechhhccCHHHHHHHHHHhccCCeEEECCCceEecCCCCeEEEEeeCCC
Confidence            01000000000000   011111 245678888886554443333222211        1      12345677776643


Q ss_pred             HHH--------------hhcCCCC-cccCCCCChHhHHHHHHHhh
Q 047559          332 HVA--------------ATMEPIQ-QYNLQCLSDEDCWSLFMMHA  361 (444)
Q Consensus       332 ~va--------------~~~~~~~-~~~l~~L~~~~~~~lf~~~~  361 (444)
                      .-.              ..+.... ++.++.++.++=.+++....
T Consensus       189 g~Gd~~G~y~Gt~~l~~A~lDRF~i~~~~~Yp~~e~E~~Il~~~~  233 (327)
T TIGR01650       189 GLGDTTGLYHGTQQINQAQMDRWSIVTTLNYLEHDNEAAIVLAKA  233 (327)
T ss_pred             CcCCCCcceeeeecCCHHHHhheeeEeeCCCCCHHHHHHHHHhhc
Confidence            211              1111222 35688888888888876654

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.

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=96.96  E-value=0.0011  Score=58.40  Aligned_cols=107  Identities=17%  Similarity=0.143  Sum_probs=53.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHh---
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAV---  288 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l---  288 (444)
                      +++.|.|++|.||||++..+.......    ...+.+..........+...    .+.   ...++..........-   
T Consensus        19 ~~~~l~G~aGtGKT~~l~~~~~~~~~~----g~~v~~~apT~~Aa~~L~~~----~~~---~a~Ti~~~l~~~~~~~~~~   87 (196)
T PF13604_consen   19 RVSVLQGPAGTGKTTLLKALAEALEAA----GKRVIGLAPTNKAAKELREK----TGI---EAQTIHSFLYRIPNGDDEG   87 (196)
T ss_dssp             SEEEEEESTTSTHHHHHHHHHHHHHHT----T--EEEEESSHHHHHHHHHH----HTS----EEEHHHHTTEECCEECCS
T ss_pred             eEEEEEECCCCCHHHHHHHHHHHHHhC----CCeEEEECCcHHHHHHHHHh----hCc---chhhHHHHHhcCCcccccc
Confidence            689999999999999999887654332    13333333332222222222    211   1111111100000000   


Q ss_pred             ---CCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCCh
Q 047559          289 ---DGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHA  331 (444)
Q Consensus       289 ---~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~  331 (444)
                         ..+.-+||+|+....+...+..+......  .|+++|+.--..
T Consensus        88 ~~~~~~~~vliVDEasmv~~~~~~~ll~~~~~--~~~klilvGD~~  131 (196)
T PF13604_consen   88 RPELPKKDVLIVDEASMVDSRQLARLLRLAKK--SGAKLILVGDPN  131 (196)
T ss_dssp             SCC-TSTSEEEESSGGG-BHHHHHHHHHHS-T---T-EEEEEE-TT
T ss_pred             cccCCcccEEEEecccccCHHHHHHHHHHHHh--cCCEEEEECCcc
Confidence               12345999999977666666666665543  577888765433

>PTZ00494 tuzin-like protein; Provisional

Probab=96.95  E-value=0.032  Score=54.19  Aligned_cols=170  Identities=12%  Similarity=0.161  Sum_probs=101.1

Q ss_pred             CCCcCCcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHH
Q 047559          179 SVSTERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLN  258 (444)
Q Consensus       179 ~~~~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~  258 (444)
                      .+..+..++.|+.|-..+.+.|...+.   ...+++.+.|.-|.||++|.+........      ..++|.+...   ++
T Consensus       366 a~a~~~~~V~R~~eE~~vRqvL~qld~---aHPRIvV~TG~~GcGKSslcRsAvrkE~~------paV~VDVRg~---ED  433 (664)
T PTZ00494        366 AAAAEAFEVRREDEEALVRSVLTQMAP---SHPRIVALAGGSGGGRCVPCRRAVRVEGV------ALVHVDVGGT---ED  433 (664)
T ss_pred             cccccccccchhhHHHHHHHHHhhccC---CCCcEEEEecCCCCCchHHHHHHHHHcCC------CeEEEEecCC---cc
Confidence            334566799999999988888876554   55699999999999999999988776433      3467777664   45


Q ss_pred             HHHHHHHHhccCCCCc--ccHHHH---HHHHHHHhCCceEEEEEeCCCCCC-hhcHHHhhcccCCCCCCcEEEEecCChH
Q 047559          259 ISRALLESITFASCDL--KALNEV---QVQIKRAVDGKKLLLVLDDVWNED-YCLWEDLKAPFLAAAPNSKIIVTTRHAH  332 (444)
Q Consensus       259 ~~~~il~~l~~~~~~~--~~~~~~---~~~l~~~l~~kr~LlVlDdv~~~~-~~~~~~l~~~l~~~~~gs~iivTTr~~~  332 (444)
                      -++.+++.++.+..+.  +-++-.   ...-.....++.-+||+-==.-.+ ..-+++.. .|.....-|.|++---.+.
T Consensus       434 tLrsVVKALgV~nve~CGDlLdFI~ea~~~A~~~~~g~~P~lVlkLREGssL~RVYnE~v-aLacDrRlCHvv~EVplES  512 (664)
T PTZ00494        434 TLRSVVRALGVSNVEVCGDLLGFVEEAMRGATVKASDGVPFLVMRLREGSDLGRVYGEVV-SLVSDCQACHIVLAVPMKA  512 (664)
T ss_pred             hHHHHHHHhCCCChhhhccHHHHHHHHHHHHHHhcCCCCCEEEEEeccCCcHHHHHHHHH-HHHccchhheeeeechHhh
Confidence            6788888888765432  112222   222222345666666653211110 01122221 2223344556665433222


Q ss_pred             HHhh---cCCCCcccCCCCChHhHHHHHHHhh
Q 047559          333 VAAT---MEPIQQYNLQCLSDEDCWSLFMMHA  361 (444)
Q Consensus       333 va~~---~~~~~~~~l~~L~~~~~~~lf~~~~  361 (444)
                      +-..   +.....|.+..++..++.++..+..
T Consensus       513 LT~~n~~LPRLDFy~VPnFSr~QAf~YtqH~l  544 (664)
T PTZ00494        513 LTPLNVSSRRLDFYCIPPFSRRQAFAYAEHTL  544 (664)
T ss_pred             hchhhccCccceeEecCCcCHHHHHHHHhccc
Confidence            2111   1223568899999999988876653

>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=96.95  E-value=0.002  Score=53.61  Aligned_cols=22  Identities=36%  Similarity=0.599  Sum_probs=19.9

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      +|.+.|++|+||||+|+.+...
T Consensus         1 lii~~G~pgsGKSt~a~~l~~~   22 (143)
T PF13671_consen    1 LIILCGPPGSGKSTLAKRLAKR   22 (143)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5889999999999999999864

...

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=96.94  E-value=0.0046  Score=53.41  Aligned_cols=114  Identities=15%  Similarity=0.191  Sum_probs=60.3

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc---cccc--CCcc--eeEEEEeCCCCCHHHHHHHHHHHhccCCC------Cccc-H
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR---AVED--SKFD--VKAWVCVSDDFDVLNISRALLESITFASC------DLKA-L  277 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~---~~~~--~~f~--~~~wv~vs~~~~~~~~~~~il~~l~~~~~------~~~~-~  277 (444)
                      .+++|+|+.|+|||||.+.+..+.   .+..  ..|.  ...|+  .+        .+.+..+.....      ...+ -
T Consensus        22 ~~~~l~G~nG~GKSTLl~~il~~~G~v~~~~~~~~~~~~~~~~~--~q--------~~~l~~~~L~~~~~~~~~~~LSgG   91 (176)
T cd03238          22 VLVVVTGVSGSGKSTLVNEGLYASGKARLISFLPKFSRNKLIFI--DQ--------LQFLIDVGLGYLTLGQKLSTLSGG   91 (176)
T ss_pred             CEEEEECCCCCCHHHHHHHHhhcCCcEEECCcccccccccEEEE--hH--------HHHHHHcCCCccccCCCcCcCCHH
Confidence            689999999999999999886321   1110  0010  12222  21        344555543211      1111 1


Q ss_pred             HHHHHHHHHHhCCc--eEEEEEeCCCC-CChhcHHHhhcccCC-CCCCcEEEEecCChHHHh
Q 047559          278 NEVQVQIKRAVDGK--KLLLVLDDVWN-EDYCLWEDLKAPFLA-AAPNSKIIVTTRHAHVAA  335 (444)
Q Consensus       278 ~~~~~~l~~~l~~k--r~LlVlDdv~~-~~~~~~~~l~~~l~~-~~~gs~iivTTr~~~va~  335 (444)
                      +...-.+...+-.+  +=++++|+.-. .+......+...+.. ...|..||++|.+.....
T Consensus        92 q~qrl~laral~~~~~p~llLlDEPt~~LD~~~~~~l~~~l~~~~~~g~tvIivSH~~~~~~  153 (176)
T cd03238          92 ELQRVKLASELFSEPPGTLFILDEPSTGLHQQDINQLLEVIKGLIDLGNTVILIEHNLDVLS  153 (176)
T ss_pred             HHHHHHHHHHHhhCCCCCEEEEeCCcccCCHHHHHHHHHHHHHHHhCCCEEEEEeCCHHHHH
Confidence            22223344555555  67888899743 233333444444332 124677888888876654

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.

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=96.91  E-value=0.0062  Score=58.27  Aligned_cols=92  Identities=15%  Similarity=0.152  Sum_probs=56.2

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhccccc---cCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCC---------Cccc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDRAVE---DSKFDVKAWVCVSDDFDVLNISRALLESITFASC---------DLKA  276 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~---~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~---------~~~~  276 (444)
                      +.-.++-|+|.+|+|||+|+.+++-.....   .+.-..++|++....|.+.++.. +.+.++....         ...+
T Consensus       124 ~~G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~~-ia~~~g~d~~~~l~~I~~~~~~~  202 (344)
T PLN03187        124 ETRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVP-IAERFGMDADAVLDNIIYARAYT  202 (344)
T ss_pred             CCCeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHHH-HHHHcCCChhhhcCeEEEecCCC
Confidence            334789999999999999999886432211   11234779999999888887654 4555543221         1223


Q ss_pred             HHHHH---HHHHHHh-CCceEEEEEeCCC
Q 047559          277 LNEVQ---VQIKRAV-DGKKLLLVLDDVW  301 (444)
Q Consensus       277 ~~~~~---~~l~~~l-~~kr~LlVlDdv~  301 (444)
                      .+++.   ..+...+ ..+--|||+|.+-
T Consensus       203 ~e~~~~~l~~l~~~i~~~~~~LvVIDSit  231 (344)
T PLN03187        203 YEHQYNLLLGLAAKMAEEPFRLLIVDSVI  231 (344)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCEEEEeCcH
Confidence            33322   3333333 2334589999984

>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A

Probab=96.90  E-value=0.001  Score=61.82  Aligned_cols=96  Identities=21%  Similarity=0.296  Sum_probs=50.5

Q ss_pred             HHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCC
Q 047559          193 KAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASC  272 (444)
Q Consensus       193 ~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~  272 (444)
                      ...+++.+....       +-+.++|+.|+|||++++.........  .| ...-++.|...+...+ ..+++.-.....
T Consensus        22 ~~~ll~~l~~~~-------~pvLl~G~~GtGKT~li~~~l~~l~~~--~~-~~~~~~~s~~Tts~~~-q~~ie~~l~k~~   90 (272)
T PF12775_consen   22 YSYLLDLLLSNG-------RPVLLVGPSGTGKTSLIQNFLSSLDSD--KY-LVITINFSAQTTSNQL-QKIIESKLEKRR   90 (272)
T ss_dssp             HHHHHHHHHHCT-------EEEEEESSTTSSHHHHHHHHHHCSTTC--CE-EEEEEES-TTHHHHHH-HHCCCTTECECT
T ss_pred             HHHHHHHHHHcC-------CcEEEECCCCCchhHHHHhhhccCCcc--cc-ceeEeeccCCCCHHHH-HHHHhhcEEcCC
Confidence            345566666532       678999999999999999988653211  11 2334455554333332 333222111100


Q ss_pred             C-cccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHH
Q 047559          273 D-LKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWE  309 (444)
Q Consensus       273 ~-~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~  309 (444)
                      . .-..          -.+|+.++++||+.-...+.|.
T Consensus        91 ~~~~gP----------~~~k~lv~fiDDlN~p~~d~yg  118 (272)
T PF12775_consen   91 GRVYGP----------PGGKKLVLFIDDLNMPQPDKYG  118 (272)
T ss_dssp             TEEEEE----------ESSSEEEEEEETTT-S---TTS
T ss_pred             CCCCCC----------CCCcEEEEEecccCCCCCCCCC
Confidence            0 0000          1478999999999766555443

>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity

Probab=96.89  E-value=0.0078  Score=51.93  Aligned_cols=117  Identities=16%  Similarity=0.120  Sum_probs=61.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhcc--CCC---C---------cccH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITF--ASC---D---------LKAL  277 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~--~~~---~---------~~~~  277 (444)
                      .+++|+|..|.|||||++.+.....    ...+.+++.-....+..   ..+-..+..  +..   .         .+.-
T Consensus        27 e~~~i~G~nGsGKStLl~~l~G~~~----~~~G~i~~~g~~~~~~~---~~~~~~i~~~~q~~~~~~~~tv~~~~~LS~G   99 (173)
T cd03230          27 EIYGLLGPNGAGKTTLIKIILGLLK----PDSGEIKVLGKDIKKEP---EEVKRRIGYLPEEPSLYENLTVRENLKLSGG   99 (173)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCC----CCCeEEEECCEEcccch---HhhhccEEEEecCCccccCCcHHHHhhcCHH
Confidence            5899999999999999999987532    22344443211100000   011111100  000   0         0111


Q ss_pred             HHHHHHHHHHhCCceEEEEEeCCCCC-ChhcHHHhhcccCC-CCCCcEEEEecCChHHHh
Q 047559          278 NEVQVQIKRAVDGKKLLLVLDDVWNE-DYCLWEDLKAPFLA-AAPNSKIIVTTRHAHVAA  335 (444)
Q Consensus       278 ~~~~~~l~~~l~~kr~LlVlDdv~~~-~~~~~~~l~~~l~~-~~~gs~iivTTr~~~va~  335 (444)
                      +...-.+...+..++=++++|+.-.. |......+...+.. ...|..||++|.+.....
T Consensus       100 ~~qrv~laral~~~p~illlDEPt~~LD~~~~~~l~~~l~~~~~~g~tiii~th~~~~~~  159 (173)
T cd03230         100 MKQRLALAQALLHDPELLILDEPTSGLDPESRREFWELLRELKKEGKTILLSSHILEEAE  159 (173)
T ss_pred             HHHHHHHHHHHHcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHCCCEEEEECCCHHHHH
Confidence            12223456666777889999998442 33333334444332 123677888888776554

In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins. Eukaryote systems of the ABCA subfamily display ABC domains that are quite similar to this family. The ATP-binding domain shows the highest similarity between all members of the ABC transporter family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.87  E-value=0.0066  Score=59.15  Aligned_cols=25  Identities=32%  Similarity=0.340  Sum_probs=21.9

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..++.++|++|+||||++.++....
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA~~~  247 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLAAKY  247 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999998653

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=96.87  E-value=0.007  Score=52.13  Aligned_cols=117  Identities=20%  Similarity=0.193  Sum_probs=59.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCC--CCHHHHHHHHHHHhcc--CCC---C-------cccH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDD--FDVLNISRALLESITF--ASC---D-------LKAL  277 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~--~~~~~~~~~il~~l~~--~~~---~-------~~~~  277 (444)
                      .+++|+|+.|.|||||.+.+..-..    ...+.+++.-...  ......    .+.++.  ...   .       .+.-
T Consensus        29 ~~~~l~G~nGsGKstLl~~i~G~~~----~~~G~i~~~g~~~~~~~~~~~----~~~i~~~~~~~~~~~~t~~e~lLS~G  100 (171)
T cd03228          29 EKVAIVGPSGSGKSTLLKLLLRLYD----PTSGEILIDGVDLRDLDLESL----RKNIAYVPQDPFLFSGTIRENILSGG  100 (171)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCC----CCCCEEEECCEEhhhcCHHHH----HhhEEEEcCCchhccchHHHHhhCHH
Confidence            5899999999999999999987532    2233333321110  001110    011110  000   0       0111


Q ss_pred             HHHHHHHHHHhCCceEEEEEeCCCC-CChhcHHHhhcccCCCCCCcEEEEecCChHHHhh
Q 047559          278 NEVQVQIKRAVDGKKLLLVLDDVWN-EDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAAT  336 (444)
Q Consensus       278 ~~~~~~l~~~l~~kr~LlVlDdv~~-~~~~~~~~l~~~l~~~~~gs~iivTTr~~~va~~  336 (444)
                      +...-.+...+-.++-+++||+... .|......+...+.....+..||++|.+......
T Consensus       101 ~~~rl~la~al~~~p~llllDEP~~gLD~~~~~~l~~~l~~~~~~~tii~~sh~~~~~~~  160 (171)
T cd03228         101 QRQRIAIARALLRDPPILILDEATSALDPETEALILEALRALAKGKTVIVIAHRLSTIRD  160 (171)
T ss_pred             HHHHHHHHHHHhcCCCEEEEECCCcCCCHHHHHHHHHHHHHhcCCCEEEEEecCHHHHHh
Confidence            1122235555666777999999844 2333333343333322235678888887766543

They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities. The MRP-like family, simlar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=96.86  E-value=0.015  Score=60.50  Aligned_cols=180  Identities=13%  Similarity=0.143  Sum_probs=99.1

Q ss_pred             cccccc---hhHHHHHHHHhcCCC---CCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHH
Q 047559          185 AVFGRQ---QDKAKMLEMVLTDTS---SDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLN  258 (444)
Q Consensus       185 ~~vGr~---~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~  258 (444)
                      ++.|-+   .|+.+++.+|.++..   -+-.-++-+.++|++|.|||-||+.++....+.        |+++|..    +
T Consensus       312 DVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEAgVP--------F~svSGS----E  379 (774)
T KOG0731|consen  312 DVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEAGVP--------FFSVSGS----E  379 (774)
T ss_pred             cccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhcccCCc--------eeeechH----H
Confidence            567765   466677777766431   011335779999999999999999999876543        3444441    1


Q ss_pred             HHHHHHHHhccCCCCcccHHHHHHHHHHHh-CCceEEEEEeCCCCCCh---------------hcHHHhhcccCCC--CC
Q 047559          259 ISRALLESITFASCDLKALNEVQVQIKRAV-DGKKLLLVLDDVWNEDY---------------CLWEDLKAPFLAA--AP  320 (444)
Q Consensus       259 ~~~~il~~l~~~~~~~~~~~~~~~~l~~~l-~~kr~LlVlDdv~~~~~---------------~~~~~l~~~l~~~--~~  320 (444)
                          .++.+...  .    ....+.|.... ...+++|.+|+++....               ..++++...+...  ..
T Consensus       380 ----FvE~~~g~--~----asrvr~lf~~ar~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~~~  449 (774)
T KOG0731|consen  380 ----FVEMFVGV--G----ASRVRDLFPLARKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFETSK  449 (774)
T ss_pred             ----HHHHhccc--c----hHHHHHHHHHhhccCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCcCCC
Confidence                11111110  0    11222222222 34578888888854211               1133333332221  22


Q ss_pred             CcEEEEecCChHHHh--hcCCC---CcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHH
Q 047559          321 NSKIIVTTRHAHVAA--TMEPI---QQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLA  390 (444)
Q Consensus       321 gs~iivTTr~~~va~--~~~~~---~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pla  390 (444)
                      +.-+|-+|+..++..  .+.+.   ..+.+..-+.....++|..++-...   .+.+...+++ |+...-|.+=|
T Consensus       450 ~vi~~a~tnr~d~ld~allrpGRfdr~i~i~~p~~~~r~~i~~~h~~~~~---~~~e~~dl~~-~a~~t~gf~ga  520 (774)
T KOG0731|consen  450 GVIVLAATNRPDILDPALLRPGRFDRQIQIDLPDVKGRASILKVHLRKKK---LDDEDVDLSK-LASLTPGFSGA  520 (774)
T ss_pred             cEEEEeccCCccccCHHhcCCCccccceeccCCchhhhHHHHHHHhhccC---CCcchhhHHH-HHhcCCCCcHH
Confidence            334444666555542  22332   5677888888888899988763322   2233444455 77777777654

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

Probab=96.86  E-value=0.011  Score=59.11  Aligned_cols=155  Identities=15%  Similarity=0.186  Sum_probs=88.6

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCC
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDG  290 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~  290 (444)
                      ..-|.++|++|.|||-||+.|+|....   +     |++|-.+    +++...   ++      .+........++.=..
T Consensus       545 PsGvLL~GPPGCGKTLlAKAVANEag~---N-----FisVKGP----ELlNkY---VG------ESErAVR~vFqRAR~s  603 (802)
T KOG0733|consen  545 PSGVLLCGPPGCGKTLLAKAVANEAGA---N-----FISVKGP----ELLNKY---VG------ESERAVRQVFQRARAS  603 (802)
T ss_pred             CCceEEeCCCCccHHHHHHHHhhhccC---c-----eEeecCH----HHHHHH---hh------hHHHHHHHHHHHhhcC
Confidence            357899999999999999999998543   3     3444332    222111   11      1122222333333356


Q ss_pred             ceEEEEEeCCCCCCh-----hc------HHHhhcccCC--CCCCcEEEEecCChHHHh--hcCCC---CcccCCCCChHh
Q 047559          291 KKLLLVLDDVWNEDY-----CL------WEDLKAPFLA--AAPNSKIIVTTRHAHVAA--TMEPI---QQYNLQCLSDED  352 (444)
Q Consensus       291 kr~LlVlDdv~~~~~-----~~------~~~l~~~l~~--~~~gs~iivTTr~~~va~--~~~~~---~~~~l~~L~~~~  352 (444)
                      -+++|+||.++..-+     ..      .++|..-+..  ...|.-||-.|..+++..  .+.+.   ....++.-+.+|
T Consensus       604 aPCVIFFDEiDaL~p~R~~~~s~~s~RvvNqLLtElDGl~~R~gV~viaATNRPDiIDpAiLRPGRlDk~LyV~lPn~~e  683 (802)
T KOG0733|consen  604 APCVIFFDEIDALVPRRSDEGSSVSSRVVNQLLTELDGLEERRGVYVIAATNRPDIIDPAILRPGRLDKLLYVGLPNAEE  683 (802)
T ss_pred             CCeEEEecchhhcCcccCCCCchhHHHHHHHHHHHhcccccccceEEEeecCCCcccchhhcCCCccCceeeecCCCHHH
Confidence            789999999966311     11      2334433322  235667777676665542  23333   456777788899


Q ss_pred             HHHHHHHhhccCCCC-CccchHHHHHHHHHHHcCCCh
Q 047559          353 CWSLFMMHAFVGQDI-TAQQISDLFREKVVGKCGGLP  388 (444)
Q Consensus       353 ~~~lf~~~~~~~~~~-~~~~~~~~~~~~i~~~~~G~P  388 (444)
                      -.++++...-....+ ..+-.+++|++.  .+|.|.-
T Consensus       684 R~~ILK~~tkn~k~pl~~dVdl~eia~~--~~c~gft  718 (802)
T KOG0733|consen  684 RVAILKTITKNTKPPLSSDVDLDEIARN--TKCEGFT  718 (802)
T ss_pred             HHHHHHHHhccCCCCCCcccCHHHHhhc--ccccCCc
Confidence            999998877432222 223356665542  3566653

>TIGR02012 tigrfam_recA protein RecA

Probab=96.84  E-value=0.0054  Score=57.99  Aligned_cols=86  Identities=19%  Similarity=0.174  Sum_probs=54.0

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCC-----CCcccHHHHHHH
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFAS-----CDLKALNEVQVQ  283 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~-----~~~~~~~~~~~~  283 (444)
                      +.-+++-|+|++|+||||||.++......   .-..++|++....++..     .++.++...     ....+.++....
T Consensus        53 p~G~iteI~G~~GsGKTtLaL~~~~~~~~---~g~~v~yId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~~  124 (321)
T TIGR02012        53 PRGRIIEIYGPESSGKTTLALHAIAEAQK---AGGTAAFIDAEHALDPV-----YARKLGVDIDNLLVSQPDTGEQALEI  124 (321)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHHHH---cCCcEEEEcccchhHHH-----HHHHcCCCHHHeEEecCCCHHHHHHH
Confidence            44479999999999999999988765322   33456788776655543     233333211     122344555555


Q ss_pred             HHHHhC-CceEEEEEeCCCC
Q 047559          284 IKRAVD-GKKLLLVLDDVWN  302 (444)
Q Consensus       284 l~~~l~-~kr~LlVlDdv~~  302 (444)
                      +...++ +..-+||+|.+-.
T Consensus       125 ~~~li~~~~~~lIVIDSv~a  144 (321)
T TIGR02012       125 AETLVRSGAVDIIVVDSVAA  144 (321)
T ss_pred             HHHHhhccCCcEEEEcchhh
Confidence            555553 4566999999853

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.

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=96.83  E-value=0.0046  Score=59.41  Aligned_cols=107  Identities=20%  Similarity=0.179  Sum_probs=67.1

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHH
Q 047559          185 AVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALL  264 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il  264 (444)
                      .++|++..+..+...+...        +-+.+.|++|+|||+||+.+.....      -..+++.+.......+++....
T Consensus        25 ~~~g~~~~~~~~l~a~~~~--------~~vll~G~PG~gKT~la~~lA~~l~------~~~~~i~~t~~l~p~d~~G~~~   90 (329)
T COG0714          25 VVVGDEEVIELALLALLAG--------GHVLLEGPPGVGKTLLARALARALG------LPFVRIQCTPDLLPSDLLGTYA   90 (329)
T ss_pred             eeeccHHHHHHHHHHHHcC--------CCEEEECCCCccHHHHHHHHHHHhC------CCeEEEecCCCCCHHHhcCchh
Confidence            3788888888887777654        4689999999999999999988632      2346777777777776654333


Q ss_pred             HHhccCCCCcccHHHHHHHHHHHhCC-----ceEEEEEeCCCCCChhcHHHhhccc
Q 047559          265 ESITFASCDLKALNEVQVQIKRAVDG-----KKLLLVLDDVWNEDYCLWEDLKAPF  315 (444)
Q Consensus       265 ~~l~~~~~~~~~~~~~~~~l~~~l~~-----kr~LlVlDdv~~~~~~~~~~l~~~l  315 (444)
                      -.......          .-.++..+     -+.++++|.++...+.....|...+
T Consensus        91 ~~~~~~~~----------~~~~~~~gpl~~~~~~ill~DEInra~p~~q~aLl~~l  136 (329)
T COG0714          91 YAALLLEP----------GEFRFVPGPLFAAVRVILLLDEINRAPPEVQNALLEAL  136 (329)
T ss_pred             HhhhhccC----------CeEEEecCCcccccceEEEEeccccCCHHHHHHHHHHH
Confidence            22211000          00000111     1158999999887665444444443

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

Probab=96.83  E-value=0.0062  Score=55.25  Aligned_cols=124  Identities=16%  Similarity=0.144  Sum_probs=72.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCC-----CCCHHHHHHHHHHHhccCCC------CcccHHHH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSD-----DFDVLNISRALLESITFASC------DLKALNEV  280 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~-----~~~~~~~~~~il~~l~~~~~------~~~~~~~~  280 (444)
                      .+++|||..|.|||||++.+..-...    -.+.+++...+     .....+-..+++..++....      ..-+-.+.
T Consensus        40 e~~glVGESG~GKSTlgr~i~~L~~p----t~G~i~f~g~~i~~~~~~~~~~~v~elL~~Vgl~~~~~~ryPhelSGGQr  115 (268)
T COG4608          40 ETLGLVGESGCGKSTLGRLILGLEEP----TSGEILFEGKDITKLSKEERRERVLELLEKVGLPEEFLYRYPHELSGGQR  115 (268)
T ss_pred             CEEEEEecCCCCHHHHHHHHHcCcCC----CCceEEEcCcchhhcchhHHHHHHHHHHHHhCCCHHHhhcCCcccCchhh
Confidence            68999999999999999999875432    22344443221     11233445566666653321      11122222


Q ss_pred             -HHHHHHHhCCceEEEEEeCCCCC-ChhcHHHhhcccCC--CCCCcEEEEecCChHHHhhcCC
Q 047559          281 -QVQIKRAVDGKKLLLVLDDVWNE-DYCLWEDLKAPFLA--AAPNSKIIVTTRHAHVAATMEP  339 (444)
Q Consensus       281 -~~~l~~~l~~kr~LlVlDdv~~~-~~~~~~~l~~~l~~--~~~gs~iivTTr~~~va~~~~~  339 (444)
                       .-.+.+.|.-++-|||.|+.-+. +...-.++...+.+  ...|-..++.|.+-.++..+..
T Consensus       116 QRi~IARALal~P~liV~DEpvSaLDvSiqaqIlnLL~dlq~~~~lt~lFIsHDL~vv~~isd  178 (268)
T COG4608         116 QRIGIARALALNPKLIVADEPVSALDVSVQAQILNLLKDLQEELGLTYLFISHDLSVVRYISD  178 (268)
T ss_pred             hhHHHHHHHhhCCcEEEecCchhhcchhHHHHHHHHHHHHHHHhCCeEEEEEEEHHhhhhhcc
Confidence             33577788889999999998553 21112223333322  2446678888888887766543

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=96.83  E-value=0.0077  Score=57.65  Aligned_cols=92  Identities=11%  Similarity=0.148  Sum_probs=55.9

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhccccc---cCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCC---------Cccc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDRAVE---DSKFDVKAWVCVSDDFDVLNISRALLESITFASC---------DLKA  276 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~---~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~---------~~~~  276 (444)
                      +.-.++-|.|.+|+|||+|+..++-.....   .+.-..++|++....|.++++. ++++.++....         ...+
T Consensus       121 ~~g~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~eRl~-qia~~~~~~~~~~l~~i~~~~~~~  199 (342)
T PLN03186        121 ETGSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRLI-QIAERFGLNGADVLENVAYARAYN  199 (342)
T ss_pred             cCceEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHHHHH-HHHHHcCCChhhhccceEEEecCC
Confidence            334789999999999999998877432211   1012368999999988887754 45555443221         1122


Q ss_pred             HHHHH---HHHHHHh-CCceEEEEEeCCC
Q 047559          277 LNEVQ---VQIKRAV-DGKKLLLVLDDVW  301 (444)
Q Consensus       277 ~~~~~---~~l~~~l-~~kr~LlVlDdv~  301 (444)
                      .+.+.   ..+...+ ..+--|||+|.+-
T Consensus       200 ~e~~~~ll~~~~~~~~~~~~~LIVIDSI~  228 (342)
T PLN03186        200 TDHQSELLLEAASMMAETRFALMIVDSAT  228 (342)
T ss_pred             HHHHHHHHHHHHHHhhccCCCEEEEeCcH
Confidence            33332   2232333 3445689999984

>TIGR01817 nifA Nif-specific regulatory protein

Probab=96.82  E-value=0.0056  Score=62.98  Aligned_cols=136  Identities=11%  Similarity=0.076  Sum_probs=74.5

Q ss_pred             CCcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHH
Q 047559          183 ERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRA  262 (444)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~  262 (444)
                      ...++|....+.++.+.+..-...    -..|.|+|..|+|||++|+.+++......   ...+.|+++.-.  .+.+..
T Consensus       195 ~~~liG~s~~~~~~~~~~~~~a~~----~~pvli~Ge~GtGK~~lA~~ih~~s~r~~---~pfv~i~c~~~~--~~~~~~  265 (534)
T TIGR01817       195 EDGIIGKSPAMRQVVDQARVVARS----NSTVLLRGESGTGKELIAKAIHYLSPRAK---RPFVKVNCAALS--ETLLES  265 (534)
T ss_pred             cCceEECCHHHHHHHHHHHHHhCc----CCCEEEECCCCccHHHHHHHHHHhCCCCC---CCeEEeecCCCC--HHHHHH
Confidence            457899999999888877553321    24688999999999999999997632111   123444544321  222222


Q ss_pred             HHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCC-----------CCcEEEEecCCh
Q 047559          263 LLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAA-----------PNSKIIVTTRHA  331 (444)
Q Consensus       263 il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~iivTTr~~  331 (444)
                         .+.+....... ...............-.|+||++.......+..|...+....           ...+||.||...
T Consensus       266 ---~lfg~~~~~~~-~~~~~~~g~~~~a~~GtL~ldei~~L~~~~Q~~Ll~~l~~~~~~~~~~~~~~~~~~riI~~s~~~  341 (534)
T TIGR01817       266 ---ELFGHEKGAFT-GAIAQRKGRFELADGGTLFLDEIGEISPAFQAKLLRVLQEGEFERVGGNRTLKVDVRLVAATNRD  341 (534)
T ss_pred             ---HHcCCCCCccC-CCCcCCCCcccccCCCeEEEechhhCCHHHHHHHHHHHhcCcEEECCCCceEeecEEEEEeCCCC
Confidence               12111110000 000000000011234568899998877666666766654321           135888877643

This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=96.80  E-value=0.0061  Score=61.69  Aligned_cols=59  Identities=19%  Similarity=0.320  Sum_probs=43.2

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEE
Q 047559          185 AVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVC  249 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~  249 (444)
                      +++--.+-++++..||...-... ...+++.+.|++|+||||.++.+++..     .|+..-|.+
T Consensus        20 eLavhkkKv~eV~~wl~~~~~~~-~~~~iLlLtGP~G~GKtttv~~La~el-----g~~v~Ew~n   78 (519)
T PF03215_consen   20 ELAVHKKKVEEVRSWLEEMFSGS-SPKRILLLTGPSGCGKTTTVKVLAKEL-----GFEVQEWIN   78 (519)
T ss_pred             HhhccHHHHHHHHHHHHHHhccC-CCcceEEEECCCCCCHHHHHHHHHHHh-----CCeeEEecC
Confidence            34455667788888887533222 345799999999999999999999874     466677864

>PTZ00088 adenylate kinase 1; Provisional

Probab=96.79  E-value=0.0015  Score=58.93  Aligned_cols=23  Identities=35%  Similarity=0.501  Sum_probs=20.7

Q ss_pred             EEEEEecCCChHHHHHHHHhhcc
Q 047559          213 VIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      -|.|+|++|+||||+|+.+.+..
T Consensus         8 rIvl~G~PGsGK~T~a~~La~~~   30 (229)
T PTZ00088          8 KIVLFGAPGVGKGTFAEILSKKE   30 (229)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999998764

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=96.78  E-value=0.0069  Score=56.68  Aligned_cols=27  Identities=37%  Similarity=0.425  Sum_probs=22.9

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhccc
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDRA  236 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  236 (444)
                      ..+++.|+|++|+||||++..+.....
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~~~~  219 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAARFV  219 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            347999999999999999999876643

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=96.77  E-value=0.006  Score=51.39  Aligned_cols=117  Identities=19%  Similarity=0.114  Sum_probs=61.7

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCC---CCCHHHHHHHHHHHh-----ccC----CCC-ccc--
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSD---DFDVLNISRALLESI-----TFA----SCD-LKA--  276 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~---~~~~~~~~~~il~~l-----~~~----~~~-~~~--  276 (444)
                      ..|-|++..|.||||+|....-+.--   +--.+.++..-.   ......+++.+ ..+     +..    ..+ ..+  
T Consensus         3 G~i~vy~g~G~Gkt~~a~g~~~ra~~---~g~~v~~vQFlKg~~~~gE~~~l~~l-~~v~~~~~g~~~~~~~~~~~~~~~   78 (159)
T cd00561           3 GLIQVYTGNGKGKTTAALGLALRALG---HGYRVGVVQFLKGGWKYGELKALERL-PNIEIHRMGRGFFWTTENDEEDIA   78 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHH---CCCeEEEEEEeCCCCccCHHHHHHhC-CCcEEEECCCCCccCCCChHHHHH
Confidence            46778888899999999776654321   212233333222   22333333332 011     000    000 011  


Q ss_pred             -HHHHHHHHHHHhCCce-EEEEEeCCCCC---ChhcHHHhhcccCCCCCCcEEEEecCChH
Q 047559          277 -LNEVQVQIKRAVDGKK-LLLVLDDVWNE---DYCLWEDLKAPFLAAAPNSKIIVTTRHAH  332 (444)
Q Consensus       277 -~~~~~~~l~~~l~~kr-~LlVlDdv~~~---~~~~~~~l~~~l~~~~~gs~iivTTr~~~  332 (444)
                       ........++.+.... =|||||++-..   .....+.+...+.....+.-||+|.|+..
T Consensus        79 ~a~~~~~~a~~~~~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~~p  139 (159)
T cd00561          79 AAAEGWAFAKEAIASGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRNAP  139 (159)
T ss_pred             HHHHHHHHHHHHHhcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCCCC
Confidence             1112233444554444 49999998432   22345666666666677889999999754

This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=96.77  E-value=0.001  Score=66.79  Aligned_cols=50  Identities=14%  Similarity=0.282  Sum_probs=39.3

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhc
Q 047559          185 AVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      +++|.++.+++|++.|..........-+++.++|++|+||||||+.+.+-
T Consensus        77 d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~  126 (644)
T PRK15455         77 EFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSL  126 (644)
T ss_pred             cccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHH
Confidence            58999999999999983321111134479999999999999999999864

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=96.77  E-value=0.0088  Score=56.84  Aligned_cols=92  Identities=14%  Similarity=0.115  Sum_probs=53.8

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhccccc---cCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCC---------Cccc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDRAVE---DSKFDVKAWVCVSDDFDVLNISRALLESITFASC---------DLKA  276 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~---~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~---------~~~~  276 (444)
                      +.-.++.|.|.+|+|||+|+..++......   .+....++|++....+....+ .++.+.++....         ...+
T Consensus        94 ~~g~i~~i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~~f~~~Rl-~~ia~~~~~~~~~~l~~i~~~~~~~  172 (316)
T TIGR02239        94 ETGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPERL-LAIAERYGLNPEDVLDNVAYARAYN  172 (316)
T ss_pred             CCCeEEEEECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCCCCCHHHH-HHHHHHcCCChHHhhccEEEEecCC
Confidence            344899999999999999999887532211   101235689998887777653 334444332211         1122


Q ss_pred             HHHH---HHHHHHHhC-CceEEEEEeCCC
Q 047559          277 LNEV---QVQIKRAVD-GKKLLLVLDDVW  301 (444)
Q Consensus       277 ~~~~---~~~l~~~l~-~kr~LlVlDdv~  301 (444)
                      .+++   ...+...+. .+--|||+|.+-
T Consensus       173 ~~~~~~~l~~~~~~~~~~~~~LvVIDSI~  201 (316)
T TIGR02239       173 TDHQLQLLQQAAAMMSESRFALLIVDSAT  201 (316)
T ss_pred             hHHHHHHHHHHHHhhccCCccEEEEECcH
Confidence            2332   333333343 345589999984

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).

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=96.75  E-value=0.0076  Score=54.84  Aligned_cols=87  Identities=14%  Similarity=0.178  Sum_probs=53.7

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCC-----------------
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFAS-----------------  271 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~-----------------  271 (444)
                      +.-.++.|+|.+|+|||+|+.++..... +  .-..++|++....  ..++.+.+ .+++...                 
T Consensus        23 ~~g~~~~i~G~~GsGKt~l~~~~~~~~~-~--~g~~~~y~~~e~~--~~~~~~~~-~~~g~~~~~~~~~g~l~i~~~~~~   96 (234)
T PRK06067         23 PFPSLILIEGDHGTGKSVLSQQFVYGAL-K--QGKKVYVITTENT--SKSYLKQM-ESVKIDISDFFLWGYLRIFPLNTE   96 (234)
T ss_pred             cCCcEEEEECCCCCChHHHHHHHHHHHH-h--CCCEEEEEEcCCC--HHHHHHHH-HHCCCChhHHHhCCCceEEecccc
Confidence            4447999999999999999999864421 1  2346788887654  34444443 2222110                 


Q ss_pred             ---CCcccHHHHHHHHHHHhCC-ceEEEEEeCCC
Q 047559          272 ---CDLKALNEVQVQIKRAVDG-KKLLLVLDDVW  301 (444)
Q Consensus       272 ---~~~~~~~~~~~~l~~~l~~-kr~LlVlDdv~  301 (444)
                         ....+.+.+...+.+.+.. +.-++|+|.+-
T Consensus        97 ~~~~~~~~~~~ll~~l~~~i~~~~~~~iviDs~t  130 (234)
T PRK06067         97 GFEWNSTLANKLLELIIEFIKSKREDVIIIDSLT  130 (234)
T ss_pred             ccccCcchHHHHHHHHHHHHHhcCCCEEEEecHH
Confidence               0112335566666666643 55589999985

>PRK09354 recA recombinase A; Provisional

Probab=96.74  E-value=0.0075  Score=57.53  Aligned_cols=86  Identities=19%  Similarity=0.184  Sum_probs=55.4

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCC-----CCcccHHHHHHH
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFAS-----CDLKALNEVQVQ  283 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~-----~~~~~~~~~~~~  283 (444)
                      +.-+++-|+|++|+||||||.++.....  . .-..++|++.-..++..     .++.++...     ....+.++....
T Consensus        58 p~G~IteI~G~~GsGKTtLal~~~~~~~--~-~G~~~~yId~E~s~~~~-----~a~~lGvdld~lli~qp~~~Eq~l~i  129 (349)
T PRK09354         58 PRGRIVEIYGPESSGKTTLALHAIAEAQ--K-AGGTAAFIDAEHALDPV-----YAKKLGVDIDNLLVSQPDTGEQALEI  129 (349)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHHH--H-cCCcEEEECCccchHHH-----HHHHcCCCHHHeEEecCCCHHHHHHH
Confidence            3447999999999999999999876532  2 34567899887766652     233333211     122345555555


Q ss_pred             HHHHhC-CceEEEEEeCCCC
Q 047559          284 IKRAVD-GKKLLLVLDDVWN  302 (444)
Q Consensus       284 l~~~l~-~kr~LlVlDdv~~  302 (444)
                      +...++ +..-+||+|.+-.
T Consensus       130 ~~~li~s~~~~lIVIDSvaa  149 (349)
T PRK09354        130 ADTLVRSGAVDLIVVDSVAA  149 (349)
T ss_pred             HHHHhhcCCCCEEEEeChhh
Confidence            555553 4566999999853

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

Probab=96.74  E-value=0.0028  Score=54.79  Aligned_cols=25  Identities=36%  Similarity=0.558  Sum_probs=21.8

Q ss_pred             EEEEEecCCChHHHHHHHHhhcccc
Q 047559          213 VIPIVGMAGVGKTTLAREVYNDRAV  237 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~~~  237 (444)
                      .|.|.|++|+||||+|+.+.+...+
T Consensus         2 riiilG~pGaGK~T~A~~La~~~~i   26 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKLGL   26 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCC
Confidence            4789999999999999999988543

>PRK03839 putative kinase; Provisional

Probab=96.74  E-value=0.0024  Score=55.52  Aligned_cols=23  Identities=39%  Similarity=0.640  Sum_probs=21.0

Q ss_pred             EEEEEecCCChHHHHHHHHhhcc
Q 047559          213 VIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .|.|+|++|+||||+++.+++..
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~   24 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKL   24 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48899999999999999999874

>COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.73  E-value=0.012  Score=51.90  Aligned_cols=132  Identities=17%  Similarity=0.169  Sum_probs=72.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccc--cccC--Ccc--------------eeEEEEeCCCC-----CHHHHHHHHHHHhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRA--VEDS--KFD--------------VKAWVCVSDDF-----DVLNISRALLESIT  268 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~--~~~~--~f~--------------~~~wv~vs~~~-----~~~~~~~~il~~l~  268 (444)
                      -+-+|.|+.|+||||||..+.-++.  +..+  .|+              .-+++....+.     +..++++...+...
T Consensus        31 EvhaiMGPNGsGKSTLa~~i~G~p~Y~Vt~G~I~~~GedI~~l~~~ERAr~GifLafQ~P~ei~GV~~~~fLr~a~n~~~  110 (251)
T COG0396          31 EVHAIMGPNGSGKSTLAYTIMGHPKYEVTEGEILFDGEDILELSPDERARAGIFLAFQYPVEIPGVTNSDFLRAAMNARR  110 (251)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCCceEecceEEECCcccccCCHhHHHhcCCEEeecCCccCCCeeHHHHHHHHHHhhh
Confidence            5889999999999999999976642  2110  121              11233322222     23444444443322


Q ss_pred             cCCC-----------------------------CcccHHHHHHHHHHHhCCceEEEEEeCCCCC-ChhcHHHhhcccCC-
Q 047559          269 FASC-----------------------------DLKALNEVQVQIKRAVDGKKLLLVLDDVWNE-DYCLWEDLKAPFLA-  317 (444)
Q Consensus       269 ~~~~-----------------------------~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~-~~~~~~~l~~~l~~-  317 (444)
                      ....                             .-+.-+.....+.+.+-=++-|.|||..++- |.+....+...+.. 
T Consensus       111 ~~~~~~~~~~~~~~e~~~~l~~~~~~l~R~vN~GFSGGEkKR~EilQ~~~lePkl~ILDE~DSGLDIdalk~V~~~i~~l  190 (251)
T COG0396         111 GARGILPEFIKELKEKAELLGLDEEFLERYVNEGFSGGEKKRNEILQLLLLEPKLAILDEPDSGLDIDALKIVAEGINAL  190 (251)
T ss_pred             ccccccHHHHHHHHHHHHHcCCCHHHhhcccCCCcCcchHHHHHHHHHHhcCCCEEEecCCCcCccHHHHHHHHHHHHHH
Confidence            2110                             0011122233444455456779999999774 33333333333322 


Q ss_pred             CCCCcEEEEecCChHHHhhcCCCCcc
Q 047559          318 AAPNSKIIVTTRHAHVAATMEPIQQY  343 (444)
Q Consensus       318 ~~~gs~iivTTr~~~va~~~~~~~~~  343 (444)
                      ...|+-+|+.|..+.+.....+..+|
T Consensus       191 r~~~~~~liITHy~rll~~i~pD~vh  216 (251)
T COG0396         191 REEGRGVLIITHYQRLLDYIKPDKVH  216 (251)
T ss_pred             hcCCCeEEEEecHHHHHhhcCCCEEE
Confidence            23477788888888888877665443

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

Probab=96.73  E-value=0.0067  Score=57.39  Aligned_cols=85  Identities=20%  Similarity=0.171  Sum_probs=53.9

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCC-----CCcccHHHHHHH
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFAS-----CDLKALNEVQVQ  283 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~-----~~~~~~~~~~~~  283 (444)
                      +.-+++-|+|++|+||||||.+++.....   .-..++|++....+++.     .++.++...     ....+.++....
T Consensus        53 p~G~iteI~Gp~GsGKTtLal~~~~~~~~---~g~~~vyId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~i  124 (325)
T cd00983          53 PKGRIIEIYGPESSGKTTLALHAIAEAQK---LGGTVAFIDAEHALDPV-----YAKKLGVDLDNLLISQPDTGEQALEI  124 (325)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHHHH---cCCCEEEECccccHHHH-----HHHHcCCCHHHheecCCCCHHHHHHH
Confidence            34479999999999999999998765321   33567788877666643     223332211     122344555555


Q ss_pred             HHHHhC-CceEEEEEeCCC
Q 047559          284 IKRAVD-GKKLLLVLDDVW  301 (444)
Q Consensus       284 l~~~l~-~kr~LlVlDdv~  301 (444)
                      +...++ +.--+||+|.+-
T Consensus       125 ~~~li~s~~~~lIVIDSva  143 (325)
T cd00983         125 ADSLVRSGAVDLIVVDSVA  143 (325)
T ss_pred             HHHHHhccCCCEEEEcchH
Confidence            555553 445699999984

RecA couples ATP hydrolysis to DNA strand exchange.

>PTZ00035 Rad51 protein; Provisional

Probab=96.72  E-value=0.015  Score=55.71  Aligned_cols=93  Identities=12%  Similarity=0.096  Sum_probs=54.0

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhccccc---cCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCC---------Cccc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDRAVE---DSKFDVKAWVCVSDDFDVLNISRALLESITFASC---------DLKA  276 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~---~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~---------~~~~  276 (444)
                      +.-.++.|+|.+|+|||+|+..++-.....   .+.-..++|++....|++..+ .++.+.++....         ...+
T Consensus       116 ~~G~iteI~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE~~f~~eri-~~ia~~~g~~~~~~l~nI~~~~~~~  194 (337)
T PTZ00035        116 ETGSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEGTFRPERI-VQIAERFGLDPEDVLDNIAYARAYN  194 (337)
T ss_pred             CCCeEEEEECCCCCchhHHHHHHHHHhccccccCCCCceEEEEEccCCCCHHHH-HHHHHHhCCChHhHhhceEEEccCC
Confidence            334799999999999999999887443211   102235679988777777663 334444332211         1122


Q ss_pred             HHHHHHH---HHHHh-CCceEEEEEeCCCC
Q 047559          277 LNEVQVQ---IKRAV-DGKKLLLVLDDVWN  302 (444)
Q Consensus       277 ~~~~~~~---l~~~l-~~kr~LlVlDdv~~  302 (444)
                      .+++...   +...+ .++--|||+|.+..
T Consensus       195 ~e~~~~~l~~~~~~l~~~~~~lvVIDSita  224 (337)
T PTZ00035        195 HEHQMQLLSQAAAKMAEERFALLIVDSATA  224 (337)
T ss_pred             HHHHHHHHHHHHHHhhccCccEEEEECcHH
Confidence            2333332   33333 34456999999843

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=96.72  E-value=0.009  Score=54.11  Aligned_cols=122  Identities=19%  Similarity=0.253  Sum_probs=66.4

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccc-----cc--cC---Cc---ceeEEEEe----CCC--CCHH---------------
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRA-----VE--DS---KF---DVKAWVCV----SDD--FDVL---------------  257 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~-----~~--~~---~f---~~~~wv~v----s~~--~~~~---------------  257 (444)
                      .+++|+|+.|.|||||.+.+..-..     +.  ..   .+   ..+.||.=    ...  .++.               
T Consensus        31 ~~~~iiGPNGaGKSTLlK~iLGll~p~~G~i~~~g~~~~~~~~~~~IgYVPQ~~~~d~~fP~tV~d~V~~g~~~~~g~~~  110 (254)
T COG1121          31 EITALIGPNGAGKSTLLKAILGLLKPSSGEIKIFGKPVRKRRKRLRIGYVPQKSSVDRSFPITVKDVVLLGRYGKKGWFR  110 (254)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCcCCcceEEEccccccccccCCeEEEcCcccccCCCCCcCHHHHHHccCcccccccc
Confidence            6999999999999999999986221     11  00   01   23445531    111  1121               


Q ss_pred             -------HHHHHHHHHhccCCC------CcccHHHHHHHHHHHhCCceEEEEEeCCCCC-Chh---cHHHhhcccCCCCC
Q 047559          258 -------NISRALLESITFASC------DLKALNEVQVQIKRAVDGKKLLLVLDDVWNE-DYC---LWEDLKAPFLAAAP  320 (444)
Q Consensus       258 -------~~~~~il~~l~~~~~------~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~-~~~---~~~~l~~~l~~~~~  320 (444)
                             +.....++.++....      ..+.-+.....|.+.|..++=||+||+--.. |..   ..-.+...+..  .
T Consensus       111 ~~~~~d~~~v~~aL~~Vgm~~~~~r~i~~LSGGQ~QRV~lARAL~~~p~lllLDEP~~gvD~~~~~~i~~lL~~l~~--e  188 (254)
T COG1121         111 RLNKKDKEKVDEALERVGMEDLRDRQIGELSGGQKQRVLLARALAQNPDLLLLDEPFTGVDVAGQKEIYDLLKELRQ--E  188 (254)
T ss_pred             cccHHHHHHHHHHHHHcCchhhhCCcccccCcHHHHHHHHHHHhccCCCEEEecCCcccCCHHHHHHHHHHHHHHHH--C
Confidence                   233333343332211      1122233344577888899999999996432 222   22233333333  2


Q ss_pred             CcEEEEecCChHHHh
Q 047559          321 NSKIIVTTRHAHVAA  335 (444)
Q Consensus       321 gs~iivTTr~~~va~  335 (444)
                      |..||++|-+-....
T Consensus       189 g~tIl~vtHDL~~v~  203 (254)
T COG1121         189 GKTVLMVTHDLGLVM  203 (254)
T ss_pred             CCEEEEEeCCcHHhH
Confidence            888999998765443

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=96.71  E-value=0.0066  Score=52.85  Aligned_cols=23  Identities=26%  Similarity=0.424  Sum_probs=20.5

Q ss_pred             EEEEEecCCChHHHHHHHHhhcc
Q 047559          213 VIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      +|.|+|++|+||||+|+.+....
T Consensus         1 ~i~i~G~pGsGKst~a~~la~~~   23 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVENF   23 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            58899999999999999998753

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.

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=96.71  E-value=0.018  Score=50.34  Aligned_cols=58  Identities=19%  Similarity=0.204  Sum_probs=35.9

Q ss_pred             HHHHHHHHhCCceEEEEEeCCCCC-ChhcHHHhhcccCC-CCCCcEEEEecCChHHHhhc
Q 047559          280 VQVQIKRAVDGKKLLLVLDDVWNE-DYCLWEDLKAPFLA-AAPNSKIIVTTRHAHVAATM  337 (444)
Q Consensus       280 ~~~~l~~~l~~kr~LlVlDdv~~~-~~~~~~~l~~~l~~-~~~gs~iivTTr~~~va~~~  337 (444)
                      ..-.|.+.|.=++=++.||+.-+. |++.-.++...+.. ...|-..|+.|..-..|..+
T Consensus       143 QRVAIARALaM~P~vmLFDEPTSALDPElv~EVL~vm~~LA~eGmTMivVTHEM~FAr~V  202 (240)
T COG1126         143 QRVAIARALAMDPKVMLFDEPTSALDPELVGEVLDVMKDLAEEGMTMIIVTHEMGFAREV  202 (240)
T ss_pred             HHHHHHHHHcCCCCEEeecCCcccCCHHHHHHHHHHHHHHHHcCCeEEEEechhHHHHHh
Confidence            334577778777889999998553 44444444444333 34566677777766666543

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=96.71  E-value=0.012  Score=56.09  Aligned_cols=91  Identities=11%  Similarity=0.180  Sum_probs=55.7

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhcccccc---CCcceeEEEEeCCCCCHHHHHHHHHHHhccCCC------------Cc
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDRAVED---SKFDVKAWVCVSDDFDVLNISRALLESITFASC------------DL  274 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~---~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~------------~~  274 (444)
                      .-.++-|+|++|+|||+|+.+++-......   +.-..++|++....|++..+.+ +++.++....            ..
T Consensus       101 ~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~-~~~~~g~~~~~~l~~i~~~~~~~~  179 (317)
T PRK04301        101 TQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQ-MAEALGLDPDEVLDNIHVARAYNS  179 (317)
T ss_pred             CCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHH-HHHHcCCChHhhhccEEEEeCCCH
Confidence            347999999999999999999875532211   0124789999988888776653 3343332110            11


Q ss_pred             ccHHHHHHHHHHHhCC--ceEEEEEeCCC
Q 047559          275 KALNEVQVQIKRAVDG--KKLLLVLDDVW  301 (444)
Q Consensus       275 ~~~~~~~~~l~~~l~~--kr~LlVlDdv~  301 (444)
                      .....+...+...+..  +--|||+|.+-
T Consensus       180 ~~~~~~~~~l~~~i~~~~~~~lvVIDSis  208 (317)
T PRK04301        180 DHQMLLAEKAEELIKEGENIKLVIVDSLT  208 (317)
T ss_pred             HHHHHHHHHHHHHHhccCceeEEEEECch
Confidence            1112334455555543  33489999983

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=96.70  E-value=0.005  Score=58.93  Aligned_cols=132  Identities=14%  Similarity=0.058  Sum_probs=71.7

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHH
Q 047559          185 AVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALL  264 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il  264 (444)
                      .++|+...+.++.+.+..-...    -.-|.|+|..|+||+++|+.++......   -...+.|+++.- +. +.+... 
T Consensus         7 ~liG~S~~~~~~~~~i~~~a~~----~~pVlI~GE~GtGK~~lA~~iH~~s~r~---~~pfv~v~c~~~-~~-~~~~~~-   76 (326)
T PRK11608          7 NLLGEANSFLEVLEQVSRLAPL----DKPVLIIGERGTGKELIASRLHYLSSRW---QGPFISLNCAAL-NE-NLLDSE-   76 (326)
T ss_pred             ccEECCHHHHHHHHHHHHHhCC----CCCEEEECCCCCcHHHHHHHHHHhCCcc---CCCeEEEeCCCC-CH-HHHHHH-
Confidence            4889988888888877654322    1568999999999999999998642111   123344555542 22 222221 


Q ss_pred             HHhccCCCCc--ccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCC-----------CCcEEEEecCCh
Q 047559          265 ESITFASCDL--KALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAA-----------PNSKIIVTTRHA  331 (444)
Q Consensus       265 ~~l~~~~~~~--~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~iivTTr~~  331 (444)
                        +.+.....  .........+   .....=.|+||++.......+..|...+..+.           ...+||.||...
T Consensus        77 --lfg~~~~~~~g~~~~~~g~l---~~a~gGtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~g~~~~~~~~~RiI~~s~~~  151 (326)
T PRK11608         77 --LFGHEAGAFTGAQKRHPGRF---ERADGGTLFLDELATAPMLVQEKLLRVIEYGELERVGGSQPLQVNVRLVCATNAD  151 (326)
T ss_pred             --HccccccccCCcccccCCch---hccCCCeEEeCChhhCCHHHHHHHHHHHhcCcEEeCCCCceeeccEEEEEeCchh
Confidence              11111000  0000000011   11223357899998876666666666553321           135888877643

>PRK00625 shikimate kinase; Provisional

Probab=96.70  E-value=0.02  Score=49.33  Aligned_cols=23  Identities=26%  Similarity=0.381  Sum_probs=20.6

Q ss_pred             EEEEEecCCChHHHHHHHHhhcc
Q 047559          213 VIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .|.|+||+|+||||+++.+.+..
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l   24 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFL   24 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48899999999999999998764

>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain

Probab=96.69  E-value=0.012  Score=50.77  Aligned_cols=116  Identities=22%  Similarity=0.255  Sum_probs=59.3

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCC--CCCHHHHHHHHHHHhccC--CCC----------cccH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSD--DFDVLNISRALLESITFA--SCD----------LKAL  277 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~--~~~~~~~~~~il~~l~~~--~~~----------~~~~  277 (444)
                      .+++|+|+.|.|||||.+.+.....    ...+.+++.-..  .......    ...+...  ...          .+.-
T Consensus        29 e~~~i~G~nGsGKStLl~~l~G~~~----~~~G~i~~~g~~~~~~~~~~~----~~~i~~~~q~~~~~~~tv~~~lLS~G  100 (173)
T cd03246          29 ESLAIIGPSGSGKSTLARLILGLLR----PTSGRVRLDGADISQWDPNEL----GDHVGYLPQDDELFSGSIAENILSGG  100 (173)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhccC----CCCCeEEECCEEcccCCHHHH----HhheEEECCCCccccCcHHHHCcCHH
Confidence            5899999999999999999986532    222333332111  0111111    1111100  000          1111


Q ss_pred             HHHHHHHHHHhCCceEEEEEeCCCC-CChhcHHHhhcccCC-CCCCcEEEEecCChHHHh
Q 047559          278 NEVQVQIKRAVDGKKLLLVLDDVWN-EDYCLWEDLKAPFLA-AAPNSKIIVTTRHAHVAA  335 (444)
Q Consensus       278 ~~~~~~l~~~l~~kr~LlVlDdv~~-~~~~~~~~l~~~l~~-~~~gs~iivTTr~~~va~  335 (444)
                      +...-.+...+-.++=+++||+... .|......+...+.. ...|..||++|.+.....
T Consensus       101 ~~qrv~la~al~~~p~~lllDEPt~~LD~~~~~~l~~~l~~~~~~~~tii~~sh~~~~~~  160 (173)
T cd03246         101 QRQRLGLARALYGNPRILVLDEPNSHLDVEGERALNQAIAALKAAGATRIVIAHRPETLA  160 (173)
T ss_pred             HHHHHHHHHHHhcCCCEEEEECCccccCHHHHHHHHHHHHHHHhCCCEEEEEeCCHHHHH
Confidence            2222345555556667889999844 233333333333322 124667888888776554

They export degradative enzymes by using a type I protein secretion system and lack an N-terminal signal peptide, but contain a C-terminal secretion signal. The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP). For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli. The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior. HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels. The spectrum of transport substra

>cd01131 PilT Pilus retraction ATPase PilT

Probab=96.68  E-value=0.0032  Score=55.68  Aligned_cols=111  Identities=12%  Similarity=0.100  Sum_probs=58.3

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHH-HHHHHHHHHhccCCCCcccHHHHHHHHHHHhCC
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVL-NISRALLESITFASCDLKALNEVQVQIKRAVDG  290 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~-~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~  290 (444)
                      .++.|+|+.|+||||++..+.....  . .....+++- .++.... .-...++.+.    ....+.......++..+..
T Consensus         2 GlilI~GptGSGKTTll~~ll~~~~--~-~~~~~i~t~-e~~~E~~~~~~~~~i~q~----~vg~~~~~~~~~i~~aLr~   73 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDYIN--K-NKTHHILTI-EDPIEFVHESKRSLINQR----EVGLDTLSFENALKAALRQ   73 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhh--h-cCCcEEEEE-cCCccccccCccceeeec----ccCCCccCHHHHHHHHhcC
Confidence            4799999999999999998776532  1 223344432 2221100 0000111110    0011122344556677766


Q ss_pred             ceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCChHHHh
Q 047559          291 KKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAA  335 (444)
Q Consensus       291 kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~~va~  335 (444)
                      .+=+|++|++.+.  .........   ...|..++.|+...++..
T Consensus        74 ~pd~ii~gEird~--e~~~~~l~~---a~~G~~v~~t~Ha~~~~~  113 (198)
T cd01131          74 DPDVILVGEMRDL--ETIRLALTA---AETGHLVMSTLHTNSAAK  113 (198)
T ss_pred             CcCEEEEcCCCCH--HHHHHHHHH---HHcCCEEEEEecCCcHHH
Confidence            6779999999543  333332222   234566777777666554

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.

>PHA02244 ATPase-like protein

Probab=96.68  E-value=0.011  Score=56.53  Aligned_cols=22  Identities=27%  Similarity=0.433  Sum_probs=20.1

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -|.|+|++|+|||+||+.++..
T Consensus       121 PVLL~GppGtGKTtLA~aLA~~  142 (383)
T PHA02244        121 PVFLKGGAGSGKNHIAEQIAEA  142 (383)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5788999999999999999876

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=96.67  E-value=0.0045  Score=55.36  Aligned_cols=22  Identities=23%  Similarity=0.378  Sum_probs=20.1

Q ss_pred             eEEEEEecCCChHHHHHHHHhh
Q 047559          212 AVIPIVGMAGVGKTTLAREVYN  233 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~  233 (444)
                      +++.|+|+.|.|||||.+.+..
T Consensus        30 ~~~~itGpNg~GKStlLk~i~~   51 (213)
T cd03281          30 SIMVITGPNSSGKSVYLKQVAL   51 (213)
T ss_pred             eEEEEECCCCCChHHHHHHHHH
Confidence            7899999999999999998873

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

>PF00006 ATP-synt_ab: ATP synthase alpha/beta family, nucleotide-binding domain This Pfam entry corresponds to chains a,b,c,d,e and f; InterPro: IPR000194 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane

Probab=96.67  E-value=0.0093  Score=53.14  Aligned_cols=84  Identities=29%  Similarity=0.418  Sum_probs=52.3

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCC-CCHHHHHHHHHHHhcc-------CCCCcccHHH----
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDD-FDVLNISRALLESITF-------ASCDLKALNE----  279 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~-~~~~~~~~~il~~l~~-------~~~~~~~~~~----  279 (444)
                      .-+.|+|.+|+|||+|+..+.+..     .-+..+++.++.. -...++.+.+...-..       ...+......    
T Consensus        16 qr~~I~g~~g~GKt~Ll~~i~~~~-----~~d~~V~~~iGer~~Ev~~~~~~~~~~~~~~~t~vv~~t~~~~~~~r~~~~   90 (215)
T PF00006_consen   16 QRIGIFGGAGVGKTVLLQEIANNQ-----DADVVVYALIGERGREVTEFIEELKGEGALERTVVVAATSDEPPAARYRAP   90 (215)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHC-----TTTEEEEEEESECHHHHHHHHHHHHHTTGGGGEEEEEEETTS-HHHHHHHH
T ss_pred             CEEEEEcCcccccchhhHHHHhcc-----cccceeeeeccccchhHHHHHHHHhhcccccccccccccchhhHHHHhhhh
Confidence            578999999999999999998874     2345588888765 3455566555433111       1111111111    


Q ss_pred             -HHHHHHHHh--CCceEEEEEeCC
Q 047559          280 -VQVQIKRAV--DGKKLLLVLDDV  300 (444)
Q Consensus       280 -~~~~l~~~l--~~kr~LlVlDdv  300 (444)
                       ..-.+.+++  +++.+|+++||+
T Consensus        91 ~~a~t~AEyfrd~G~dVlli~Dsl  114 (215)
T PF00006_consen   91 YTALTIAEYFRDQGKDVLLIIDSL  114 (215)
T ss_dssp             HHHHHHHHHHHHTTSEEEEEEETH
T ss_pred             ccchhhhHHHhhcCCceeehhhhh
Confidence             112233444  689999999999

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 ....

>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway

Probab=96.66  E-value=0.008  Score=54.04  Aligned_cols=23  Identities=39%  Similarity=0.437  Sum_probs=20.6

Q ss_pred             EEEEEecCCChHHHHHHHHhhcc
Q 047559          213 VIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      +|+|.|.+|+||||||+.+....
T Consensus         1 IigI~G~sGSGKTTla~~L~~~l   23 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQALL   23 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHHH
Confidence            58999999999999999998764

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>COG4618 ArpD ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]

Probab=96.65  E-value=0.019  Score=56.37  Aligned_cols=54  Identities=28%  Similarity=0.335  Sum_probs=32.0

Q ss_pred             HHHHHhCCceEEEEEeCCCCC-ChhcHHHhhcccCC-CCCCcEEEEecCChHHHhh
Q 047559          283 QIKRAVDGKKLLLVLDDVWNE-DYCLWEDLKAPFLA-AAPNSKIIVTTRHAHVAAT  336 (444)
Q Consensus       283 ~l~~~l~~kr~LlVlDdv~~~-~~~~~~~l~~~l~~-~~~gs~iivTTr~~~va~~  336 (444)
                      -|.+.+-+.++|+|||+-.+. |..--..+...+.. ...|..+|+.|..+.+...
T Consensus       482 aLARAlYG~P~lvVLDEPNsNLD~~GE~AL~~Ai~~~k~rG~~vvviaHRPs~L~~  537 (580)
T COG4618         482 ALARALYGDPFLVVLDEPNSNLDSEGEAALAAAILAAKARGGTVVVIAHRPSALAS  537 (580)
T ss_pred             HHHHHHcCCCcEEEecCCCCCcchhHHHHHHHHHHHHHHcCCEEEEEecCHHHHhh
Confidence            477888899999999997442 21212224444433 3456666666665655543

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=96.64  E-value=0.0036  Score=51.94  Aligned_cols=44  Identities=32%  Similarity=0.421  Sum_probs=33.2

Q ss_pred             EEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccC
Q 047559          213 VIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFA  270 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~  270 (444)
                      +|.|.|++|+||||+|+.+.++...+.              .+...++++|++..+.+
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~gl~~--------------vsaG~iFR~~A~e~gms   45 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHLGLKL--------------VSAGTIFREMARERGMS   45 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHhCCce--------------eeccHHHHHHHHHcCCC
Confidence            689999999999999999998764432              12346777777776543

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=96.63  E-value=0.021  Score=54.99  Aligned_cols=104  Identities=20%  Similarity=0.173  Sum_probs=53.0

Q ss_pred             ceEEEEEecCCChHHH-HHHHHhhccccccCCcceeEEEEeCC-CCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHh
Q 047559          211 LAVIPIVGMAGVGKTT-LAREVYNDRAVEDSKFDVKAWVCVSD-DFDVLNISRALLESITFASCDLKALNEVQVQIKRAV  288 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTt-La~~v~~~~~~~~~~f~~~~wv~vs~-~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l  288 (444)
                      -++|.+||+.|+|||| ||+..+.-. ... .-..+..++... .....+-++...+-++..-....+..++...+.. +
T Consensus       203 ~~vi~LVGPTGVGKTTTlAKLAar~~-~~~-~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~vv~~~~el~~ai~~-l  279 (407)
T COG1419         203 KRVIALVGPTGVGKTTTLAKLAARYV-MLK-KKKKVAIITTDTYRIGAVEQLKTYADIMGVPLEVVYSPKELAEAIEA-L  279 (407)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHHHH-hhc-cCcceEEEEeccchhhHHHHHHHHHHHhCCceEEecCHHHHHHHHHH-h
Confidence            4899999999999985 555554332 111 223455555433 1223344455555555443334444444444433 2


Q ss_pred             CCceEEEEEeCCCCC--ChhcHHHhhcccCCC
Q 047559          289 DGKKLLLVLDDVWNE--DYCLWEDLKAPFLAA  318 (444)
Q Consensus       289 ~~kr~LlVlDdv~~~--~~~~~~~l~~~l~~~  318 (444)
                      ++. =+|.+|-+-..  +.....++...+...
T Consensus       280 ~~~-d~ILVDTaGrs~~D~~~i~el~~~~~~~  310 (407)
T COG1419         280 RDC-DVILVDTAGRSQYDKEKIEELKELIDVS  310 (407)
T ss_pred             hcC-CEEEEeCCCCCccCHHHHHHHHHHHhcc
Confidence            233 35666776432  223344555554443

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=96.62  E-value=0.011  Score=53.41  Aligned_cols=62  Identities=18%  Similarity=0.284  Sum_probs=38.7

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEE-------EeCCCCCHHHH--HHHHHHHhccCC
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWV-------CVSDDFDVLNI--SRALLESITFAS  271 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv-------~vs~~~~~~~~--~~~il~~l~~~~  271 (444)
                      ....+|.++||+|+||||+.+.++.....+. ....++=+       ...-+.++.+.  ++..+.+.....
T Consensus        17 ~~p~~ilVvGMAGSGKTTF~QrL~~hl~~~~-~ppYviNLDPAv~~vpy~aniDIRDtVkYkEvMkqY~LGP   87 (366)
T KOG1532|consen   17 QRPVIILVVGMAGSGKTTFMQRLNSHLHAKK-TPPYVINLDPAVRNVPYPANIDIRDTVKYKEVMKQYQLGP   87 (366)
T ss_pred             cCCcEEEEEecCCCCchhHHHHHHHHHhhcc-CCCeEEeCCHHHhcCCCccCCchhhhhhHHHHHHHhCCCC
Confidence            4457889999999999999999998765544 33322221       12223455544  456666665433

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=96.61  E-value=0.02  Score=54.49  Aligned_cols=57  Identities=16%  Similarity=0.236  Sum_probs=40.0

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhcccccc---CCcceeEEEEeCCCCCHHHHHHHHHHHh
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDRAVED---SKFDVKAWVCVSDDFDVLNISRALLESI  267 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~---~~f~~~~wv~vs~~~~~~~~~~~il~~l  267 (444)
                      .-.++-|+|.+|+|||+|+.+++.......   ..-..++||+....|+...+. ++++.+
T Consensus        94 ~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~-~~~~~~  153 (310)
T TIGR02236        94 TQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIM-QMAEAR  153 (310)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHH-HHHHHc
Confidence            347999999999999999999876532211   012378999998888877654 334443

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.

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]

Probab=96.60  E-value=0.018  Score=61.03  Aligned_cols=120  Identities=15%  Similarity=0.135  Sum_probs=72.8

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCC--CCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDH--SNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISR  261 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~  261 (444)
                      ..++|.++.+..|.+.+.....+..  .+...+.+.|+.|+|||-||+.+..-.  -+ ..+..+-++.|.      ...
T Consensus       562 ~~V~gQ~eAv~aIa~AI~~sr~gl~~~~~~awflflGpdgvGKt~lAkaLA~~~--Fg-se~~~IriDmse------~~e  632 (898)
T KOG1051|consen  562 ERVIGQDEAVAAIAAAIRRSRAGLKDPNPDAWFLFLGPDGVGKTELAKALAEYV--FG-SEENFIRLDMSE------FQE  632 (898)
T ss_pred             hhccchHHHHHHHHHHHHhhhcccCCCCCCeEEEEECCCchhHHHHHHHHHHHH--cC-CccceEEechhh------hhh
Confidence            3578888888888887766442221  256788899999999999999987652  11 233344444333      222


Q ss_pred             HHHHHhccCCCCcccHHHHHHHHHHHhCCceE-EEEEeCCCCCChhcHHHhhccc
Q 047559          262 ALLESITFASCDLKALNEVQVQIKRAVDGKKL-LLVLDDVWNEDYCLWEDLKAPF  315 (444)
Q Consensus       262 ~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~-LlVlDdv~~~~~~~~~~l~~~l  315 (444)
                        ...+....+.- --.+....|.+.++.++| +|+||||...+......+...+
T Consensus       633 --vskligsp~gy-vG~e~gg~LteavrrrP~sVVLfdeIEkAh~~v~n~llq~l  684 (898)
T KOG1051|consen  633 --VSKLIGSPPGY-VGKEEGGQLTEAVKRRPYSVVLFEEIEKAHPDVLNILLQLL  684 (898)
T ss_pred             --hhhccCCCccc-ccchhHHHHHHHHhcCCceEEEEechhhcCHHHHHHHHHHH
Confidence              23332222211 111223467777877776 7779999888776666555554

>TIGR01069 mutS2 MutS2 family protein

Probab=96.60  E-value=0.0024  Score=67.88  Aligned_cols=112  Identities=14%  Similarity=0.136  Sum_probs=55.6

Q ss_pred             CceEEEEEeCCCCC-ChhcHHHh----hcccCCCCCCcEEEEecCChHHHhhcCCCCcccCCCCCh-HhHHHHHHHhhcc
Q 047559          290 GKKLLLVLDDVWNE-DYCLWEDL----KAPFLAAAPNSKIIVTTRHAHVAATMEPIQQYNLQCLSD-EDCWSLFMMHAFV  363 (444)
Q Consensus       290 ~kr~LlVlDdv~~~-~~~~~~~l----~~~l~~~~~gs~iivTTr~~~va~~~~~~~~~~l~~L~~-~~~~~lf~~~~~~  363 (444)
                      +.+-|++||++-.. ++..-..+    ...+.  ..|+.+|+||....+.........+....+.. .+... |..+...
T Consensus       401 ~~~sLvLlDE~g~GtD~~eg~ala~aiLe~l~--~~g~~viitTH~~eL~~~~~~~~~v~~~~~~~d~~~l~-p~Ykl~~  477 (771)
T TIGR01069       401 TENSLVLFDELGAGTDPDEGSALAISILEYLL--KQNAQVLITTHYKELKALMYNNEGVENASVLFDEETLS-PTYKLLK  477 (771)
T ss_pred             CCCcEEEecCCCCCCCHHHHHHHHHHHHHHHH--hcCCEEEEECChHHHHHHhcCCCCeEEeEEEEcCCCCc-eEEEECC
Confidence            47899999998553 33333223    22222  35789999999887754332111110000000 11111 1112111


Q ss_pred             CCCCCccchHHHHHHHHHHHcCCChHHHHHHHHHhcCCCHHHHHHHHh
Q 047559          364 GQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLLRSKRHDEWDEILN  411 (444)
Q Consensus       364 ~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~~L~~~~~~~w~~~l~  411 (444)
                      + .+.     ...|-.|++++ |+|-.+..-|..+......++.++++
T Consensus       478 G-~~g-----~S~a~~iA~~~-Glp~~ii~~A~~~~~~~~~~~~~li~  518 (771)
T TIGR01069       478 G-IPG-----ESYAFEIAQRY-GIPHFIIEQAKTFYGEFKEEINVLIE  518 (771)
T ss_pred             C-CCC-----CcHHHHHHHHh-CcCHHHHHHHHHHHHhhHHHHHHHHH
Confidence            1 111     12345566665 78888888887776554444444444

Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.

>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=96.59  E-value=0.012  Score=53.25  Aligned_cols=204  Identities=13%  Similarity=0.180  Sum_probs=113.7

Q ss_pred             ccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcc---ccccCCcceeEEEEeCCC---------
Q 047559          186 VFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDR---AVEDSKFDVKAWVCVSDD---------  253 (444)
Q Consensus       186 ~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~---~~~~~~f~~~~wv~vs~~---------  253 (444)
                      +.++++....+......      ++..-+.++|+.|.||-|.+-.+.+..   .+..-.-+.+.|.+-|..         
T Consensus        15 l~~~~e~~~~Lksl~~~------~d~PHll~yGPSGaGKKTrimclL~elYG~gveklki~~~t~~tpS~kklEistvsS   88 (351)
T KOG2035|consen   15 LIYHEELANLLKSLSST------GDFPHLLVYGPSGAGKKTRIMCLLRELYGVGVEKLKIETRTFTTPSKKKLEISTVSS   88 (351)
T ss_pred             cccHHHHHHHHHHhccc------CCCCeEEEECCCCCCchhhHHHHHHHHhCCCchheeeeeEEEecCCCceEEEEEecc
Confidence            55666666666654431      445789999999999988765554431   111112345556654432         


Q ss_pred             -C-----------CHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCC-ceE-EEEEeCCCCCChhcHHHhhcccCCCC
Q 047559          254 -F-----------DVLNISRALLESITFASCDLKALNEVQVQIKRAVDG-KKL-LLVLDDVWNEDYCLWEDLKAPFLAAA  319 (444)
Q Consensus       254 -~-----------~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~-kr~-LlVlDdv~~~~~~~~~~l~~~l~~~~  319 (444)
                       +           ...-+..+++.++..+.+           +  ...+ +.| ++|+-.+++...+....+++....-.
T Consensus        89 ~yHlEitPSDaG~~DRvViQellKevAQt~q-----------i--e~~~qr~fKvvvi~ead~LT~dAQ~aLRRTMEkYs  155 (351)
T KOG2035|consen   89 NYHLEITPSDAGNYDRVVIQELLKEVAQTQQ-----------I--ETQGQRPFKVVVINEADELTRDAQHALRRTMEKYS  155 (351)
T ss_pred             cceEEeChhhcCcccHHHHHHHHHHHHhhcc-----------h--hhccccceEEEEEechHhhhHHHHHHHHHHHHHHh
Confidence             1           111223333333322111           0  0122 334 66777777666666677777766666


Q ss_pred             CCcEEEEecCCh-HHHhhc-CCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHHH
Q 047559          320 PNSKIIVTTRHA-HVAATM-EPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGL  397 (444)
Q Consensus       320 ~gs~iivTTr~~-~va~~~-~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~~  397 (444)
                      ..+|+|+...+- .+.... +..-.+++...+++|....+...+-..+    -....+++.+|+++++|+---...+...
T Consensus       156 ~~~RlIl~cns~SriIepIrSRCl~iRvpaps~eeI~~vl~~v~~kE~----l~lp~~~l~rIa~kS~~nLRrAllmlE~  231 (351)
T KOG2035|consen  156 SNCRLILVCNSTSRIIEPIRSRCLFIRVPAPSDEEITSVLSKVLKKEG----LQLPKELLKRIAEKSNRNLRRALLMLEA  231 (351)
T ss_pred             cCceEEEEecCcccchhHHhhheeEEeCCCCCHHHHHHHHHHHHHHhc----ccCcHHHHHHHHHHhcccHHHHHHHHHH
Confidence            777887744321 111111 1123478899999999998887653221    1222667889999999975544444443


Q ss_pred             hcCC-----------CHHHHHHHHhc
Q 047559          398 LRSK-----------RHDEWDEILNS  412 (444)
Q Consensus       398 L~~~-----------~~~~w~~~l~~  412 (444)
                      ++.+           +.-+|+-++.+
T Consensus       232 ~~~~n~~~~a~~~~i~~~dWe~~i~e  257 (351)
T KOG2035|consen  232 VRVNNEPFTANSQVIPKPDWEIYIQE  257 (351)
T ss_pred             HHhccccccccCCCCCCccHHHHHHH
Confidence            3322           24578877665

>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=96.58  E-value=0.016  Score=51.01  Aligned_cols=55  Identities=22%  Similarity=0.266  Sum_probs=34.1

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCC-CCCHHHHHHHHHHHhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSD-DFDVLNISRALLESITF  269 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~-~~~~~~~~~~il~~l~~  269 (444)
                      +++.++|+.|+||||.+-+++.....+   -..+..++... .....+-++...+.++.
T Consensus         2 ~vi~lvGptGvGKTTt~aKLAa~~~~~---~~~v~lis~D~~R~ga~eQL~~~a~~l~v   57 (196)
T PF00448_consen    2 KVIALVGPTGVGKTTTIAKLAARLKLK---GKKVALISADTYRIGAVEQLKTYAEILGV   57 (196)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHHHT---T--EEEEEESTSSTHHHHHHHHHHHHHTE
T ss_pred             EEEEEECCCCCchHhHHHHHHHHHhhc---cccceeecCCCCCccHHHHHHHHHHHhcc
Confidence            799999999999999888877664332   22345555432 12334555555555553

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 ....

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=96.57  E-value=0.012  Score=53.42  Aligned_cols=28  Identities=29%  Similarity=0.333  Sum_probs=24.3

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhccc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDRA  236 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  236 (444)
                      ....+++|.|+.|+|||||++.+.....
T Consensus        31 ~~~~iigi~G~~GsGKTTl~~~L~~~l~   58 (229)
T PRK09270         31 QRRTIVGIAGPPGAGKSTLAEFLEALLQ   58 (229)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHhh
Confidence            4568999999999999999999987643

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.57  E-value=0.026  Score=55.94  Aligned_cols=85  Identities=15%  Similarity=0.210  Sum_probs=44.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCC--HHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhC
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFD--VLNISRALLESITFASCDLKALNEVQVQIKRAVD  289 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~--~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~  289 (444)
                      +++.++|++|+||||++..+........ .-..+..|+... +.  ..+.+....+.++.......+..++...+.. +.
T Consensus       222 ~~i~~vGptGvGKTTt~~kLA~~~~~~~-~g~~V~li~~D~-~r~~a~eqL~~~a~~~~vp~~~~~~~~~l~~~l~~-~~  298 (424)
T PRK05703        222 GVVALVGPTGVGKTTTLAKLAARYALLY-GKKKVALITLDT-YRIGAVEQLKTYAKIMGIPVEVVYDPKELAKALEQ-LR  298 (424)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHhc-CCCeEEEEECCc-cHHHHHHHHHHHHHHhCCceEccCCHHhHHHHHHH-hC
Confidence            6999999999999999888776543111 223445555432 21  1122333233333222222333444444443 22


Q ss_pred             CceEEEEEeCC
Q 047559          290 GKKLLLVLDDV  300 (444)
Q Consensus       290 ~kr~LlVlDdv  300 (444)
                       ..=+|++|..
T Consensus       299 -~~DlVlIDt~  308 (424)
T PRK05703        299 -DCDVILIDTA  308 (424)
T ss_pred             -CCCEEEEeCC
Confidence             2457888966

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

Probab=96.56  E-value=0.018  Score=50.70  Aligned_cols=80  Identities=20%  Similarity=0.271  Sum_probs=44.3

Q ss_pred             EEEEEecCCChHHHHHHHHhhccccccCCcc---eeEEEEeCCCCCHHHHHHHHHHHh----ccCCCCcccHHHHHHHHH
Q 047559          213 VIPIVGMAGVGKTTLAREVYNDRAVEDSKFD---VKAWVCVSDDFDVLNISRALLESI----TFASCDLKALNEVQVQIK  285 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~---~~~wv~vs~~~~~~~~~~~il~~l----~~~~~~~~~~~~~~~~l~  285 (444)
                      ||+|.|.+|+||||+|+.+........  ..   ....++...-......... -...    ....+...+.+.+...|.
T Consensus         1 IIgI~G~sgSGKTTla~~L~~~L~~~~--~~~~~~~~~~~~d~~~~~~~~~~~-~~~~~~~~~~~~p~a~d~~~l~~~l~   77 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQILNKRG--IPAMEMDIILSLDDFYDDYHLRDR-KGRGENRYNFDHPDAFDFDLLKEDLK   77 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHTTCT--TTCCCSEEEEEGGGGBHHHHHHHH-HHHCTTTSSTTSGGGBSHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhCccC--cCccceeEEEeecccccccchhhH-hhccccccCCCCccccCHHHHHHHHH
Confidence            699999999999999999987654322  22   1223322222222222111 1111    111234566777777787


Q ss_pred             HHhCCceEEE
Q 047559          286 RAVDGKKLLL  295 (444)
Q Consensus       286 ~~l~~kr~Ll  295 (444)
                      .+..++..-+
T Consensus        78 ~L~~g~~i~~   87 (194)
T PF00485_consen   78 ALKNGGSIEI   87 (194)
T ss_dssp             HHHTTSCEEE
T ss_pred             HHhCCCcccc
Confidence            7767665443

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 ....

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=96.56  E-value=0.0024  Score=52.95  Aligned_cols=27  Identities=37%  Similarity=0.417  Sum_probs=23.4

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVE  238 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~  238 (444)
                      .-|.|.|++|+||||+++.+.+..+..
T Consensus         6 mki~ITG~PGvGKtTl~~ki~e~L~~~   32 (179)
T COG1618           6 MKIFITGRPGVGKTTLVLKIAEKLREK   32 (179)
T ss_pred             eEEEEeCCCCccHHHHHHHHHHHHHhc
Confidence            568999999999999999999876544

>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=96.54  E-value=0.021  Score=49.65  Aligned_cols=24  Identities=33%  Similarity=0.666  Sum_probs=21.7

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+++|+|..|.|||||.+.+....
T Consensus        27 ~~~~i~G~nGsGKSTLl~~l~G~~   50 (182)
T cd03215          27 EIVGIAGLVGNGQTELAEALFGLR   50 (182)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCC
Confidence            589999999999999999998653

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. In members of Carb_Monos family the single hydrophobic gene product forms a homodimer, while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>PRK08972 fliI flagellum-specific ATP synthase; Validated

Probab=96.53  E-value=0.012  Score=57.74  Aligned_cols=86  Identities=22%  Similarity=0.236  Sum_probs=53.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCC-CHHHHHHHHHHHhccC-------CCCcccHH-----
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDF-DVLNISRALLESITFA-------SCDLKALN-----  278 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~-~~~~~~~~il~~l~~~-------~~~~~~~~-----  278 (444)
                      ..++|+|..|+|||||++.+....     ..+..+.+-++... .+.++...++..-...       ..+.+...     
T Consensus       163 qrigI~G~sG~GKSTLL~~I~~~~-----~~dv~Vi~lIGER~rEv~efi~~~l~~~~l~rtvvv~atsd~p~~~R~~a~  237 (444)
T PRK08972        163 QRMGLFAGSGVGKSVLLGMMTRGT-----TADVIVVGLVGERGREVKEFIEEILGEEGRARSVVVAAPADTSPLMRLKGC  237 (444)
T ss_pred             CEEEEECCCCCChhHHHHHhccCC-----CCCEEEEEEEcCChHHHHHHHHHhhccCCcccEEEEEECCCCCHHHHHHHH
Confidence            579999999999999999998642     34566667676654 3455666654431111       11111111     


Q ss_pred             HHHHHHHHHh--CCceEEEEEeCCCC
Q 047559          279 EVQVQIKRAV--DGKKLLLVLDDVWN  302 (444)
Q Consensus       279 ~~~~~l~~~l--~~kr~LlVlDdv~~  302 (444)
                      .....+.+++  +++++||++||+-.
T Consensus       238 ~~A~tiAEyfrd~G~~VLl~~DslTR  263 (444)
T PRK08972        238 ETATTIAEYFRDQGLNVLLLMDSLTR  263 (444)
T ss_pred             HHHHHHHHHHHHcCCCEEEEEcChHH
Confidence            1122355565  68899999999943

>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1)

Probab=96.52  E-value=0.036  Score=49.34  Aligned_cols=23  Identities=39%  Similarity=0.548  Sum_probs=20.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|.|..|.|||||++.+..-
T Consensus        35 ~~~~i~G~nGsGKSTLl~~l~Gl   57 (207)
T cd03369          35 EKIGIVGRTGAGKSTLILALFRF   57 (207)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcc
Confidence            58999999999999999999754

NFT1 belongs to the MRP (mulrtidrug resisitance-associated protein) family of ABC transporters. Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions such as glutathione, glucuronate, and sulfate.

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=96.52  E-value=0.19  Score=47.22  Aligned_cols=132  Identities=11%  Similarity=0.120  Sum_probs=79.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc--------ccccCCcceeEEEEe-CCCCCHHHHHHHHHHHhccCCCCcccHHHHHH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR--------AVEDSKFDVKAWVCV-SDDFDVLNISRALLESITFASCDLKALNEVQV  282 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~--------~~~~~~f~~~~wv~v-s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~  282 (444)
                      .+..++|..|.||+++|..+.+..        .... |.+...++.. +......++ +++.+.+....           
T Consensus        19 haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~-~p~n~~~~d~~g~~i~vd~I-r~l~~~~~~~~-----------   85 (299)
T PRK07132         19 HSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQE-LPANIILFDIFDKDLSKSEF-LSAINKLYFSS-----------   85 (299)
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCC-CCcceEEeccCCCcCCHHHH-HHHHHHhccCC-----------
Confidence            577899999999999998887653        1111 2223333321 111222221 12222222111           


Q ss_pred             HHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCC-hHHHh-hcCCCCcccCCCCChHhHHHHHHHh
Q 047559          283 QIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRH-AHVAA-TMEPIQQYNLQCLSDEDCWSLFMMH  360 (444)
Q Consensus       283 ~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~-~~va~-~~~~~~~~~l~~L~~~~~~~lf~~~  360 (444)
                          +-.+.+=++|+|++...+....+.+...+...+.++.+|++|.+ ..+.. ..+....+++.++++++....+...
T Consensus        86 ----~~~~~~KvvII~~~e~m~~~a~NaLLK~LEEPp~~t~~il~~~~~~kll~TI~SRc~~~~f~~l~~~~l~~~l~~~  161 (299)
T PRK07132         86 ----FVQSQKKILIIKNIEKTSNSLLNALLKTIEEPPKDTYFLLTTKNINKVLPTIVSRCQVFNVKEPDQQKILAKLLSK  161 (299)
T ss_pred             ----cccCCceEEEEecccccCHHHHHHHHHHhhCCCCCeEEEEEeCChHhChHHHHhCeEEEECCCCCHHHHHHHHHHc
Confidence                00146778889999777666778888888877778877776654 33332 2334477999999999988777643

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

Probab=96.52  E-value=0.034  Score=56.34  Aligned_cols=52  Identities=23%  Similarity=0.206  Sum_probs=34.1

Q ss_pred             CcccccchhHHHHHHHHhcCCC-------CCCCCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTS-------SDHSNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~-------~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      +++-|.++-+.+|.+...-+-.       -+-...+-|..+|++|.|||++|+.+.+..
T Consensus       434 ~dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne~  492 (693)
T KOG0730|consen  434 DDIGGLEELKRELQQAVEWPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLAKALANEA  492 (693)
T ss_pred             hhccCHHHHHHHHHHHHhhhhhchHHHHHhcCCCCceEEEECCCCcchHHHHHHHhhhh
Confidence            3455666655555543322110       011445789999999999999999999874

>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment

Probab=96.51  E-value=0.0096  Score=51.64  Aligned_cols=120  Identities=20%  Similarity=0.197  Sum_probs=59.3

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhcc--CCC---C-----------cc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITF--ASC---D-----------LK  275 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~--~~~---~-----------~~  275 (444)
                      .+++|+|+.|.|||||++.+.....    ...+.+.+.-........-.....+.+..  ..+   .           .+
T Consensus        27 ~~~~i~G~nGsGKSTLl~~l~G~~~----~~~G~i~~~g~~~~~~~~~~~~~~~~i~~~~q~~~~~~~~t~~~~l~~~lS  102 (178)
T cd03229          27 EIVALLGPSGSGKSTLLRCIAGLEE----PDSGSILIDGEDLTDLEDELPPLRRRIGMVFQDFALFPHLTVLENIALGLS  102 (178)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCC----CCceEEEECCEEccccchhHHHHhhcEEEEecCCccCCCCCHHHheeecCC
Confidence            5899999999999999999986532    22333333211100000000011111110  000   0           01


Q ss_pred             cHHHHHHHHHHHhCCceEEEEEeCCCC-CChhcHHHhhcccCCC-CC-CcEEEEecCChHHHh
Q 047559          276 ALNEVQVQIKRAVDGKKLLLVLDDVWN-EDYCLWEDLKAPFLAA-AP-NSKIIVTTRHAHVAA  335 (444)
Q Consensus       276 ~~~~~~~~l~~~l~~kr~LlVlDdv~~-~~~~~~~~l~~~l~~~-~~-gs~iivTTr~~~va~  335 (444)
                      .-+...-.+...+..++=++++|+.-. .|......+...+... .. |..||++|.+.....
T Consensus       103 ~G~~qr~~la~al~~~p~llilDEP~~~LD~~~~~~l~~~l~~~~~~~~~tiii~sH~~~~~~  165 (178)
T cd03229         103 GGQQQRVALARALAMDPDVLLLDEPTSALDPITRREVRALLKSLQAQLGITVVLVTHDLDEAA  165 (178)
T ss_pred             HHHHHHHHHHHHHHCCCCEEEEeCCcccCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHHHHH
Confidence            112222345556666778899999843 2333334444433321 22 567888887765544

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.

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=96.51  E-value=0.0084  Score=61.18  Aligned_cols=134  Identities=14%  Similarity=0.128  Sum_probs=76.1

Q ss_pred             CCcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHH
Q 047559          183 ERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRA  262 (444)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~  262 (444)
                      ...++|+...+.++.+.+..-...    -..|.|+|..|+|||++|+.++......   -...+.|+++.-.+  +.+..
T Consensus       186 ~~~iig~s~~~~~~~~~i~~~a~~----~~pVlI~Ge~GtGK~~~A~~ih~~s~r~---~~p~v~v~c~~~~~--~~~e~  256 (509)
T PRK05022        186 EGEMIGQSPAMQQLKKEIEVVAAS----DLNVLILGETGVGKELVARAIHAASPRA---DKPLVYLNCAALPE--SLAES  256 (509)
T ss_pred             CCceeecCHHHHHHHHHHHHHhCC----CCcEEEECCCCccHHHHHHHHHHhCCcC---CCCeEEEEcccCCh--HHHHH
Confidence            356899999998888877664332    2578999999999999999998763221   12335556554321  22221


Q ss_pred             HHHHhccCCCCcc--cHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCC-----------CCcEEEEecC
Q 047559          263 LLESITFASCDLK--ALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAA-----------PNSKIIVTTR  329 (444)
Q Consensus       263 il~~l~~~~~~~~--~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~iivTTr  329 (444)
                         .+.+.....-  ........+.   ....-.|+||++..........|...+....           ...+||.||.
T Consensus       257 ---~lfG~~~g~~~ga~~~~~g~~~---~a~gGtL~ldeI~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~~t~  330 (509)
T PRK05022        257 ---ELFGHVKGAFTGAISNRSGKFE---LADGGTLFLDEIGELPLALQAKLLRVLQYGEIQRVGSDRSLRVDVRVIAATN  330 (509)
T ss_pred             ---HhcCccccccCCCcccCCcchh---hcCCCEEEecChhhCCHHHHHHHHHHHhcCCEeeCCCCcceecceEEEEecC
Confidence               2221111000  0000000011   1223347899998877666667766654321           2458888886


Q ss_pred             Ch
Q 047559          330 HA  331 (444)
Q Consensus       330 ~~  331 (444)
                      ..
T Consensus       331 ~~  332 (509)
T PRK05022        331 RD  332 (509)
T ss_pred             CC
Confidence            54

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=96.50  E-value=0.022  Score=50.88  Aligned_cols=23  Identities=30%  Similarity=0.476  Sum_probs=21.3

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|+|||||++.+...
T Consensus        27 ~~~~i~G~nGsGKSTLl~~l~G~   49 (210)
T cd03269          27 EIFGLLGPNGAGKTTTIRMILGI   49 (210)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999999865

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.

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

Probab=96.50  E-value=0.0071  Score=57.58  Aligned_cols=28  Identities=21%  Similarity=0.265  Sum_probs=24.7

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhccc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDRA  236 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  236 (444)
                      .....+.|+|++|.|||.+|+.+++...
T Consensus       146 k~PlgllL~GPPGcGKTllAraiA~elg  173 (413)
T PLN00020        146 KVPLILGIWGGKGQGKSFQCELVFKKMG  173 (413)
T ss_pred             CCCeEEEeeCCCCCCHHHHHHHHHHHcC
Confidence            4558999999999999999999998753

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

Probab=96.48  E-value=0.0051  Score=60.49  Aligned_cols=54  Identities=30%  Similarity=0.342  Sum_probs=39.4

Q ss_pred             cccccc---hhHHHHHHHHhcCCCC---CCCCceEEEEEecCCChHHHHHHHHhhccccc
Q 047559          185 AVFGRQ---QDKAKMLEMVLTDTSS---DHSNLAVIPIVGMAGVGKTTLAREVYNDRAVE  238 (444)
Q Consensus       185 ~~vGr~---~~~~~l~~~L~~~~~~---~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~  238 (444)
                      ++-|-+   .|+++|+++|.++..-   ++.=.+-|.++|++|.|||-||+.++....+.
T Consensus       305 dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA~VP  364 (752)
T KOG0734|consen  305 DVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEAGVP  364 (752)
T ss_pred             cccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcccCCC
Confidence            345554   6888999999765321   11224678999999999999999999876553

>PRK06217 hypothetical protein; Validated

Probab=96.47  E-value=0.011  Score=51.50  Aligned_cols=36  Identities=28%  Similarity=0.403  Sum_probs=25.9

Q ss_pred             EEEEEecCCChHHHHHHHHhhccccccCCcceeEEE
Q 047559          213 VIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWV  248 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv  248 (444)
                      .|.|.|.+|+||||||+.+........-+.|..+|.
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l~~~~~~~D~~~~~   38 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERLDIPHLDTDDYFWL   38 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCcEEEcCceeec
Confidence            589999999999999999998754321112445553

>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=96.47  E-value=0.0021  Score=52.18  Aligned_cols=21  Identities=48%  Similarity=0.745  Sum_probs=19.5

Q ss_pred             EEEEecCCChHHHHHHHHhhc
Q 047559          214 IPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (444)
                      |.|.|.+|+||||+|+.+...
T Consensus         1 I~i~G~~GsGKtTia~~L~~~   21 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAER   21 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHH
Confidence            689999999999999999876

...

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=96.47  E-value=0.022  Score=51.19  Aligned_cols=23  Identities=26%  Similarity=0.505  Sum_probs=21.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|.|||||++.+..-
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~Gl   51 (220)
T cd03263          29 EIFGLLGHNGAGKTTTLKMLTGE   51 (220)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999999864

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.

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.47  E-value=0.016  Score=58.11  Aligned_cols=25  Identities=36%  Similarity=0.422  Sum_probs=21.8

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      -.+++|+|++|+||||++..+....
T Consensus       350 G~vIaLVGPtGvGKTTtaakLAa~l  374 (559)
T PRK12727        350 GGVIALVGPTGAGKTTTIAKLAQRF  374 (559)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHH
Confidence            4799999999999999998887653

>cd03245 ABCC_bacteriocin_exporters ABC-type bacteriocin exporters

Probab=96.47  E-value=0.033  Score=50.07  Aligned_cols=23  Identities=30%  Similarity=0.463  Sum_probs=21.1

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|.|||||++.+..-
T Consensus        31 ~~~~i~G~nGsGKSTLl~~i~G~   53 (220)
T cd03245          31 EKVAIIGRVGSGKSTLLKLLAGL   53 (220)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            69999999999999999999864

Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two glycine residues in positions -1 and -2. A dedicated ATP-binding cassette (ABC) transporter is responsible for the proteolytic cleavage of the leader peptides and subsequent translocation of the bacteriocins across the cytoplasmic membrane.

>PRK13539 cytochrome c biogenesis protein CcmA; Provisional

Probab=96.45  E-value=0.014  Score=51.95  Aligned_cols=61  Identities=15%  Similarity=0.091  Sum_probs=35.6

Q ss_pred             HHHHhCCceEEEEEeCCCC-CChhcHHHhhcccCC-CCCCcEEEEecCChHHHhhcCCCCcccCCC
Q 047559          284 IKRAVDGKKLLLVLDDVWN-EDYCLWEDLKAPFLA-AAPNSKIIVTTRHAHVAATMEPIQQYNLQC  347 (444)
Q Consensus       284 l~~~l~~kr~LlVlDdv~~-~~~~~~~~l~~~l~~-~~~gs~iivTTr~~~va~~~~~~~~~~l~~  347 (444)
                      +...+..++-++++|+.-. .+......+...+.. ...|..||++|.+......   ..++.++.
T Consensus       138 la~al~~~p~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~tiii~sH~~~~~~~---~~~~~~~~  200 (207)
T PRK13539        138 LARLLVSNRPIWILDEPTAALDAAAVALFAELIRAHLAQGGIVIAATHIPLGLPG---ARELDLGP  200 (207)
T ss_pred             HHHHHhcCCCEEEEeCCcccCCHHHHHHHHHHHHHHHHCCCEEEEEeCCchhhcc---CcEEeecC
Confidence            4455556678999999844 233334444444432 2346778888887665442   44555544

>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR

Probab=96.44  E-value=0.045  Score=55.75  Aligned_cols=133  Identities=14%  Similarity=0.071  Sum_probs=71.1

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHH
Q 047559          185 AVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALL  264 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il  264 (444)
                      .++|....+..+.+.+..-...    -..|.|.|..|+||+.+|+.+++.....+   ...+-|++..-.  ...+..  
T Consensus       213 ~iiG~S~~m~~~~~~i~~~A~~----~~pVLI~GE~GTGKe~lA~~IH~~S~r~~---~pfv~inC~~l~--e~lles--  281 (526)
T TIGR02329       213 DLLGASAPMEQVRALVRLYARS----DATVLILGESGTGKELVAQAIHQLSGRRD---FPFVAINCGAIA--ESLLEA--  281 (526)
T ss_pred             heeeCCHHHHHHHHHHHHHhCC----CCcEEEECCCCcCHHHHHHHHHHhcCcCC---CCEEEeccccCC--hhHHHH--
Confidence            4899988888888776543221    25799999999999999999997532211   122334444322  222222  


Q ss_pred             HHhccCCCCcccHHH--HHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCC-----------CCcEEEEecCCh
Q 047559          265 ESITFASCDLKALNE--VQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAA-----------PNSKIIVTTRHA  331 (444)
Q Consensus       265 ~~l~~~~~~~~~~~~--~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~iivTTr~~  331 (444)
                       .+.+...+.-....  ...-+.+  ....=-|+||++.+........|...+....           ...+||.||...
T Consensus       282 -eLFG~~~gaftga~~~~~~Gl~e--~A~gGTLfLdeI~~Lp~~~Q~~Ll~~L~~~~~~r~g~~~~~~~dvRiIaat~~~  358 (526)
T TIGR02329       282 -ELFGYEEGAFTGARRGGRTGLIE--AAHRGTLFLDEIGEMPLPLQTRLLRVLEEREVVRVGGTEPVPVDVRVVAATHCA  358 (526)
T ss_pred             -HhcCCcccccccccccccccchh--hcCCceEEecChHhCCHHHHHHHHHHHhcCcEEecCCCceeeecceEEeccCCC
Confidence             22221111000000  0000000  1123358999998776666666666654321           123788877543

At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR.

>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=96.44  E-value=0.004  Score=53.52  Aligned_cols=40  Identities=25%  Similarity=0.223  Sum_probs=28.6

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCC
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSD  252 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~  252 (444)
                      ..++.+.|+.|+|||.||+.+.+.... + .....+-++++.
T Consensus         3 ~~~~ll~GpsGvGKT~la~~la~~l~~-~-~~~~~~~~d~s~   42 (171)
T PF07724_consen    3 KSNFLLAGPSGVGKTELAKALAELLFV-G-SERPLIRIDMSE   42 (171)
T ss_dssp             SEEEEEESSTTSSHHHHHHHHHHHHT--S-SCCEEEEEEGGG
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHHhcc-C-CccchHHHhhhc
Confidence            468999999999999999999876432 1 233555555554

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of ATPase AAA-2 domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E ....

>PRK13540 cytochrome c biogenesis protein CcmA; Provisional

Probab=96.42  E-value=0.023  Score=50.26  Aligned_cols=24  Identities=29%  Similarity=0.408  Sum_probs=21.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+++|+|+.|.|||||++.+....
T Consensus        28 e~~~l~G~nGsGKSTLl~~i~G~~   51 (200)
T PRK13540         28 GLLHLKGSNGAGKTTLLKLIAGLL   51 (200)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            589999999999999999987653

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=96.42  E-value=0.041  Score=56.08  Aligned_cols=133  Identities=16%  Similarity=0.148  Sum_probs=74.0

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHh
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAV  288 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l  288 (444)
                      ...+.+.++|++|.|||.||+.+.+..+.   +|-     .+...        .++....     ..........+...-
T Consensus       274 ~~~~giLl~GpPGtGKT~lAkava~~~~~---~fi-----~v~~~--------~l~sk~v-----Gesek~ir~~F~~A~  332 (494)
T COG0464         274 RPPKGVLLYGPPGTGKTLLAKAVALESRS---RFI-----SVKGS--------ELLSKWV-----GESEKNIRELFEKAR  332 (494)
T ss_pred             CCCCeeEEECCCCCCHHHHHHHHHhhCCC---eEE-----EeeCH--------HHhcccc-----chHHHHHHHHHHHHH
Confidence            44568999999999999999999985322   232     22211        1111100     111112222233333


Q ss_pred             CCceEEEEEeCCCCCCh-----------hcHHHhhcccC--CCCCCcEEEEecCChHHHhh--cC--C-CCcccCCCCCh
Q 047559          289 DGKKLLLVLDDVWNEDY-----------CLWEDLKAPFL--AAAPNSKIIVTTRHAHVAAT--ME--P-IQQYNLQCLSD  350 (444)
Q Consensus       289 ~~kr~LlVlDdv~~~~~-----------~~~~~l~~~l~--~~~~gs~iivTTr~~~va~~--~~--~-~~~~~l~~L~~  350 (444)
                      +..+..|++|+++..-.           ....++...+.  ....+..||-||........  ..  . ...+.+.+-+.
T Consensus       333 ~~~p~iiFiDEiDs~~~~r~~~~~~~~~r~~~~lL~~~d~~e~~~~v~vi~aTN~p~~ld~a~lR~gRfd~~i~v~~pd~  412 (494)
T COG0464         333 KLAPSIIFIDEIDSLASGRGPSEDGSGRRVVGQLLTELDGIEKAEGVLVIAATNRPDDLDPALLRPGRFDRLIYVPLPDL  412 (494)
T ss_pred             cCCCcEEEEEchhhhhccCCCCCchHHHHHHHHHHHHhcCCCccCceEEEecCCCccccCHhhcccCccceEeecCCCCH
Confidence            57789999999965210           12233333332  22334445556655443321  12  1 24688888899


Q ss_pred             HhHHHHHHHhhc
Q 047559          351 EDCWSLFMMHAF  362 (444)
Q Consensus       351 ~~~~~lf~~~~~  362 (444)
                      ++..+.|+.+.-
T Consensus       413 ~~r~~i~~~~~~  424 (494)
T COG0464         413 EERLEIFKIHLR  424 (494)
T ss_pred             HHHHHHHHHHhc
Confidence            999999988874

>KOG2170 consensus ATPase of the AAA+ superfamily [General function prediction only]

Probab=96.42  E-value=0.039  Score=50.70  Aligned_cols=161  Identities=17%  Similarity=0.204  Sum_probs=86.8

Q ss_pred             CcccccchhHHHHHHHHhcCC-CCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDT-SSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRA  262 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~-~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~  262 (444)
                      ..++|..--.+.++..+.+-- ...+.+.-+++.+|.+|+||.-.++.+.++....+.+-               .....
T Consensus        82 ~~lfGQHla~~~Vv~alk~~~~n~~p~KPLvLSfHG~tGTGKN~Va~iiA~n~~~~Gl~S---------------~~V~~  146 (344)
T KOG2170|consen   82 RALFGQHLAKQLVVNALKSHWANPNPRKPLVLSFHGWTGTGKNYVAEIIAENLYRGGLRS---------------PFVHH  146 (344)
T ss_pred             HHhhchHHHHHHHHHHHHHHhcCCCCCCCeEEEecCCCCCchhHHHHHHHHHHHhccccc---------------hhHHH
Confidence            457787766677766665411 11126677999999999999999999987643222010               11111


Q ss_pred             HHHHhccCCCCcccHHHHHHHHH----HHh-CCceEEEEEeCCCCCChhcHHHhhcccCCC--C-----CCcEEEEec--
Q 047559          263 LLESITFASCDLKALNEVQVQIK----RAV-DGKKLLLVLDDVWNEDYCLWEDLKAPFLAA--A-----PNSKIIVTT--  328 (444)
Q Consensus       263 il~~l~~~~~~~~~~~~~~~~l~----~~l-~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~--~-----~gs~iivTT--  328 (444)
                      ....+.  -+....++.-..+|+    ..+ .-+|-|+|||+++.....-.+.|...+...  .     ...-.|+-|  
T Consensus       147 fvat~h--FP~~~~ie~Yk~eL~~~v~~~v~~C~rslFIFDE~DKmp~gLld~lkpfLdyyp~v~gv~frkaIFIfLSN~  224 (344)
T KOG2170|consen  147 FVATLH--FPHASKIEDYKEELKNRVRGTVQACQRSLFIFDEVDKLPPGLLDVLKPFLDYYPQVSGVDFRKAIFIFLSNA  224 (344)
T ss_pred             hhhhcc--CCChHHHHHHHHHHHHHHHHHHHhcCCceEEechhhhcCHhHHHHHhhhhccccccccccccceEEEEEcCC
Confidence            111111  122233333333333    333 457999999999887666666666555411  1     122333333  


Q ss_pred             CChHHHhh----c---CCCCcccCCCCChHhHHHHHHHhh
Q 047559          329 RHAHVAAT----M---EPIQQYNLQCLSDEDCWSLFMMHA  361 (444)
Q Consensus       329 r~~~va~~----~---~~~~~~~l~~L~~~~~~~lf~~~~  361 (444)
                      ....++..    .   .....++++.+++.-+..-|...+
T Consensus       225 gg~eI~~~aL~~~~~g~~re~~~l~~~E~~L~~~~~n~~~  264 (344)
T KOG2170|consen  225 GGSEIARIALENARNGKPREQLRLKSFEPALMQSAFNEKA  264 (344)
T ss_pred             cchHHHHHHHHHHHcCCCcccchhhhhhHHHHHhhhcccc
Confidence            33333322    1   222456666666665555555543

>PRK07667 uridine kinase; Provisional

Probab=96.40  E-value=0.0051  Score=54.14  Aligned_cols=39  Identities=18%  Similarity=0.359  Sum_probs=29.7

Q ss_pred             HHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          193 KAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       193 ~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+.|.+.+....    +...+|+|.|.+|+||||+|+.+....
T Consensus         3 ~~~~~~~~~~~~----~~~~iIgI~G~~gsGKStla~~L~~~l   41 (193)
T PRK07667          3 TNELINIMKKHK----ENRFILGIDGLSRSGKTTFVANLKENM   41 (193)
T ss_pred             HHHHHHHHHhcC----CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            456666664433    334899999999999999999998764

>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=96.39  E-value=0.024  Score=48.88  Aligned_cols=23  Identities=48%  Similarity=0.560  Sum_probs=20.3

Q ss_pred             EEEEEecCCChHHHHHHHHhhcc
Q 047559          213 VIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ++.++|++|+||||++..+....
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~~   24 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALYL   24 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68899999999999999988654

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.

>TIGR03522 GldA_ABC_ATP gliding motility-associated ABC transporter ATP-binding subunit GldA

Probab=96.38  E-value=0.034  Score=52.70  Aligned_cols=23  Identities=22%  Similarity=0.407  Sum_probs=21.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|.|||||.+.+...
T Consensus        29 ei~~l~G~NGaGKTTLl~~l~Gl   51 (301)
T TIGR03522        29 RIVGFLGPNGAGKSTTMKIITGY   51 (301)
T ss_pred             eEEEEECCCCCCHHHHHHHHhCC
Confidence            68999999999999999999865

Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldA is an ABC transporter ATP-binding protein (pfam00005) linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Knockouts of GldA abolish the gliding phenotype. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Bacteroidetes with members of this protein family appear to have all of the genes associated with gliding motility.

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=96.38  E-value=0.025  Score=50.30  Aligned_cols=23  Identities=39%  Similarity=0.566  Sum_probs=21.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|.|||||.+.++.-
T Consensus        27 e~~~i~G~nGsGKSTLl~~l~Gl   49 (205)
T cd03226          27 EIIALTGKNGAGKTTLAKILAGL   49 (205)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            58999999999999999999864

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.

>PRK06002 fliI flagellum-specific ATP synthase; Validated

Probab=96.38  E-value=0.013  Score=57.74  Aligned_cols=87  Identities=22%  Similarity=0.174  Sum_probs=51.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccC------CCCcccH-----HHH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFA------SCDLKAL-----NEV  280 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~------~~~~~~~-----~~~  280 (444)
                      ..++|+|..|+|||||++.+.....    ...++++...-+.-++.++....+......      ..+.+..     ...
T Consensus       166 qri~I~G~SGsGKTTLL~~Ia~l~~----pd~gvv~liGergrev~e~~~~~l~~~r~rtI~vV~qsd~~~~~r~~~~~~  241 (450)
T PRK06002        166 QRIGIFAGSGVGKSTLLAMLARADA----FDTVVIALVGERGREVREFLEDTLADNLKKAVAVVATSDESPMMRRLAPLT  241 (450)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCC----CCeeeeeecccCCccHHHHhHHHHHHhhCCeEEEEEcCCCCHHHHHHHHHH
Confidence            5899999999999999998876532    223445554334445555555444433111      1111111     112


Q ss_pred             HHHHHHHh--CCceEEEEEeCCCC
Q 047559          281 QVQIKRAV--DGKKLLLVLDDVWN  302 (444)
Q Consensus       281 ~~~l~~~l--~~kr~LlVlDdv~~  302 (444)
                      .-.+.+++  +++.+||++||+-.
T Consensus       242 a~~iAEyfrd~G~~Vll~~DslTr  265 (450)
T PRK06002        242 ATAIAEYFRDRGENVLLIVDSVTR  265 (450)
T ss_pred             HHHHHHHHHHcCCCEEEeccchHH
Confidence            22345555  68899999999833

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.38  E-value=0.015  Score=56.20  Aligned_cols=88  Identities=16%  Similarity=0.191  Sum_probs=48.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCC-CCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCC
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSD-DFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDG  290 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~-~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~  290 (444)
                      .++.++|+.|+||||++.++......+. ....+..++... .....+-++...+.++.......+..++...+. .+.+
T Consensus       138 ~ii~lvGptGvGKTTtiakLA~~~~~~~-G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~~~~~~~l~~~l~-~l~~  215 (374)
T PRK14722        138 GVFALMGPTGVGKTTTTAKLAARCVMRF-GASKVALLTTDSYRIGGHEQLRIFGKILGVPVHAVKDGGDLQLALA-ELRN  215 (374)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHhc-CCCeEEEEecccccccHHHHHHHHHHHcCCceEecCCcccHHHHHH-HhcC
Confidence            6899999999999999999987643221 112344554322 123344555555555443322222223333333 3344


Q ss_pred             ceEEEEEeCCCC
Q 047559          291 KKLLLVLDDVWN  302 (444)
Q Consensus       291 kr~LlVlDdv~~  302 (444)
                      + =+|++|..-.
T Consensus       216 ~-DlVLIDTaG~  226 (374)
T PRK14722        216 K-HMVLIDTIGM  226 (374)
T ss_pred             C-CEEEEcCCCC
Confidence            4 4566888843

>cd00267 ABC_ATPase ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=96.36  E-value=0.014  Score=49.40  Aligned_cols=118  Identities=22%  Similarity=0.221  Sum_probs=62.4

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGK  291 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  291 (444)
                      .+++|+|..|.|||||.+.+.....    .....+++.........  .......+.... +.+.-+...-.+...+...
T Consensus        26 ~~~~i~G~nGsGKStll~~l~g~~~----~~~G~i~~~~~~~~~~~--~~~~~~~i~~~~-qlS~G~~~r~~l~~~l~~~   98 (157)
T cd00267          26 EIVALVGPNGSGKSTLLRAIAGLLK----PTSGEILIDGKDIAKLP--LEELRRRIGYVP-QLSGGQRQRVALARALLLN   98 (157)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCC----CCccEEEECCEEcccCC--HHHHHhceEEEe-eCCHHHHHHHHHHHHHhcC
Confidence            5899999999999999999987642    23455554332111100  001111111100 0111222233455556566


Q ss_pred             eEEEEEeCCCCC-ChhcHHHhhcccCC-CCCCcEEEEecCChHHHhh
Q 047559          292 KLLLVLDDVWNE-DYCLWEDLKAPFLA-AAPNSKIIVTTRHAHVAAT  336 (444)
Q Consensus       292 r~LlVlDdv~~~-~~~~~~~l~~~l~~-~~~gs~iivTTr~~~va~~  336 (444)
                      +-++++|+.-.. |......+...+.. ...+..+|++|.+......
T Consensus        99 ~~i~ilDEp~~~lD~~~~~~l~~~l~~~~~~~~tii~~sh~~~~~~~  145 (157)
T cd00267          99 PDLLLLDEPTSGLDPASRERLLELLRELAEEGRTVIIVTHDPELAEL  145 (157)
T ss_pred             CCEEEEeCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHHHH
Confidence            789999998542 33333334333332 1225678888887666543

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.

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

Probab=96.35  E-value=0.15  Score=52.82  Aligned_cols=99  Identities=20%  Similarity=0.250  Sum_probs=60.3

Q ss_pred             CcccccchhHHHHHHHHhcCC------CCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDT------SSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVL  257 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~------~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~  257 (444)
                      .++-|-++-+.+|.+-+.-+-      +.+-.+.+-|.++|++|.|||-||+.|+.....        .|++|-.+    
T Consensus       672 dDVGGLeevK~eIldTIqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATEcsL--------~FlSVKGP----  739 (953)
T KOG0736|consen  672 DDVGGLEEVKTEILDTIQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATECSL--------NFLSVKGP----  739 (953)
T ss_pred             hcccCHHHHHHHHHHHhcCcccChhhhhccccccceeEEECCCCCchHHHHHHHHhhcee--------eEEeecCH----
Confidence            457788888888887654311      011133467899999999999999999976422        24555442    


Q ss_pred             HHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCC
Q 047559          258 NISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNE  303 (444)
Q Consensus       258 ~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~  303 (444)
                      +++    ...-+     .+.+.+.+...+.=..++++|+||++++.
T Consensus       740 ELL----NMYVG-----qSE~NVR~VFerAR~A~PCVIFFDELDSl  776 (953)
T KOG0736|consen  740 ELL----NMYVG-----QSEENVREVFERARSAAPCVIFFDELDSL  776 (953)
T ss_pred             HHH----HHHhc-----chHHHHHHHHHHhhccCCeEEEecccccc
Confidence            222    11111     11222233333333568999999999874

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=96.35  E-value=0.0064  Score=53.61  Aligned_cols=27  Identities=37%  Similarity=0.571  Sum_probs=23.7

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..+.+|+|.|.+|+||||+|+.+++..
T Consensus         6 ~~~iiIgIaG~SgSGKTTva~~l~~~~   32 (218)
T COG0572           6 EKVIIIGIAGGSGSGKTTVAKELSEQL   32 (218)
T ss_pred             CceEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            345799999999999999999999863

>cd03220 ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export

Probab=96.34  E-value=0.034  Score=50.17  Aligned_cols=24  Identities=33%  Similarity=0.425  Sum_probs=21.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+++|.|..|+|||||++.+....
T Consensus        49 e~~~i~G~nGsGKSTLl~~l~G~~   72 (224)
T cd03220          49 ERIGLIGRNGAGKSTLLRLLAGIY   72 (224)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            589999999999999999998653

Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and teichoic acids have been shown to be exported by ABC transporters. A typical system is made of a conserved integral membrane and an ABC. In addition to these proteins, capsular polysaccharide exporter systems require two 'accessory' proteins to perform their function: a periplasmic (E.coli) or a lipid-anchored outer membrane protein called OMA (Neisseria meningitidis and Haemophilus influenzae) and a cytoplasmic membrane protein MPA2.

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=96.33  E-value=0.025  Score=52.37  Aligned_cols=129  Identities=16%  Similarity=0.083  Sum_probs=67.0

Q ss_pred             hHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEE---eCCCCCHHHHHHHHHHHhc
Q 047559          192 DKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVC---VSDDFDVLNISRALLESIT  268 (444)
Q Consensus       192 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~---vs~~~~~~~~~~~il~~l~  268 (444)
                      ..+.++..|...     ....-+.|+|+.|.|||||.+.+.....    .....+++.   +.......++... ...+.
T Consensus        97 ~~~~~l~~l~~~-----~~~~~~~i~g~~g~GKttl~~~l~~~~~----~~~G~i~~~g~~v~~~d~~~ei~~~-~~~~~  166 (270)
T TIGR02858        97 AADKLLPYLVRN-----NRVLNTLIISPPQCGKTTLLRDLARILS----TGISQLGLRGKKVGIVDERSEIAGC-VNGVP  166 (270)
T ss_pred             cHHHHHHHHHhC-----CCeeEEEEEcCCCCCHHHHHHHHhCccC----CCCceEEECCEEeecchhHHHHHHH-hcccc
Confidence            345555555532     2346899999999999999999987642    223344442   1110111222211 11110


Q ss_pred             cCC-----CCcccHHHHHHHHHHHh-CCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCChHHHhh
Q 047559          269 FAS-----CDLKALNEVQVQIKRAV-DGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAAT  336 (444)
Q Consensus       269 ~~~-----~~~~~~~~~~~~l~~~l-~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~~va~~  336 (444)
                      ...     ....+... ..-+...+ ...+-+|++|++-.  ...+..+...+.   .|..||+||....+...
T Consensus       167 q~~~~~r~~v~~~~~k-~~~~~~~i~~~~P~villDE~~~--~e~~~~l~~~~~---~G~~vI~ttH~~~~~~~  234 (270)
T TIGR02858       167 QHDVGIRTDVLDGCPK-AEGMMMLIRSMSPDVIVVDEIGR--EEDVEALLEALH---AGVSIIATAHGRDVEDL  234 (270)
T ss_pred             cccccccccccccchH-HHHHHHHHHhCCCCEEEEeCCCc--HHHHHHHHHHHh---CCCEEEEEechhHHHHH
Confidence            000     00011111 11223333 24678999999843  344555554442   47789999987666443

Members of this protein are the stage III sporulation protein AA, encoded by one of several genes in the spoIIIA locus. It seems that this protein is found in a species if and only if that species is capable of endospore formation.

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=96.33  E-value=0.03  Score=50.02  Aligned_cols=22  Identities=36%  Similarity=0.466  Sum_probs=20.4

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      +++|+|+.|.|||||++.+..-
T Consensus        27 ~~~i~G~nGsGKSTLl~~l~Gl   48 (211)
T cd03264          27 MYGLLGPNGAGKTTLMRILATL   48 (211)
T ss_pred             cEEEECCCCCCHHHHHHHHhCC
Confidence            8999999999999999999854

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.

>cd03282 ABC_MSH4_euk MutS4 homolog in eukaryotes

Probab=96.32  E-value=0.0052  Score=54.52  Aligned_cols=119  Identities=14%  Similarity=0.164  Sum_probs=58.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCC---cccHHHHHHHHHHHh
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCD---LKALNEVQVQIKRAV  288 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~---~~~~~~~~~~l~~~l  288 (444)
                      .++.|.|+.|.||||+.+.+....-..  +  ...++...  .....++..|+..+......   ......-...+...+
T Consensus        30 ~~~~l~G~n~~GKstll~~i~~~~~la--~--~G~~vpa~--~~~l~~~d~I~~~~~~~d~~~~~~S~fs~e~~~~~~il  103 (204)
T cd03282          30 RFHIITGPNMSGKSTYLKQIALLAIMA--Q--IGCFVPAE--YATLPIFNRLLSRLSNDDSMERNLSTFASEMSETAYIL  103 (204)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHH--H--cCCCcchh--hcCccChhheeEecCCccccchhhhHHHHHHHHHHHHH
Confidence            689999999999999998886432110  0  11111111  00112222333222221110   111111111122222


Q ss_pred             --CCceEEEEEeCCCCC-Chhc----HHHhhcccCCCCCCcEEEEecCChHHHhhcC
Q 047559          289 --DGKKLLLVLDDVWNE-DYCL----WEDLKAPFLAAAPNSKIIVTTRHAHVAATME  338 (444)
Q Consensus       289 --~~kr~LlVlDdv~~~-~~~~----~~~l~~~l~~~~~gs~iivTTr~~~va~~~~  338 (444)
                        ..++-|+++|+.-.. +..+    ...+...+..  .|+.+|++|....++..+.
T Consensus       104 ~~~~~~~lvllDE~~~gt~~~~~~~l~~~il~~l~~--~~~~~i~~TH~~~l~~~~~  158 (204)
T cd03282         104 DYADGDSLVLIDELGRGTSSADGFAISLAILECLIK--KESTVFFATHFRDIAAILG  158 (204)
T ss_pred             HhcCCCcEEEeccccCCCCHHHHHHHHHHHHHHHHh--cCCEEEEECChHHHHHHhh
Confidence              356789999998442 1222    1122233332  3789999999988887654

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

>PRK13543 cytochrome c biogenesis protein CcmA; Provisional

Probab=96.32  E-value=0.038  Score=49.45  Aligned_cols=24  Identities=33%  Similarity=0.368  Sum_probs=21.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+++|+|..|.|||||++.+....
T Consensus        38 e~~~i~G~nGsGKSTLl~~i~G~~   61 (214)
T PRK13543         38 EALLVQGDNGAGKTTLLRVLAGLL   61 (214)
T ss_pred             CEEEEEcCCCCCHHHHHHHHhCCC
Confidence            589999999999999999998653

>PRK05439 pantothenate kinase; Provisional

Probab=96.31  E-value=0.026  Score=53.11  Aligned_cols=82  Identities=15%  Similarity=0.017  Sum_probs=43.9

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHh-ccCCCCcccHHHHHHHHHHH
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESI-TFASCDLKALNEVQVQIKRA  287 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l-~~~~~~~~~~~~~~~~l~~~  287 (444)
                      ...-+|+|.|.+|+||||+|+.+........ ....+.-++...=+.....+..- ..+ ....++.-+.+.+...|...
T Consensus        84 ~~~~iIgIaG~~gsGKSTla~~L~~~l~~~~-~~~~v~vi~~DdFy~~~~~l~~~-~l~~~kg~Pes~D~~~l~~~L~~L  161 (311)
T PRK05439         84 KVPFIIGIAGSVAVGKSTTARLLQALLSRWP-EHPKVELVTTDGFLYPNAVLEER-GLMKRKGFPESYDMRALLRFLSDV  161 (311)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHhhC-CCCceEEEeccccccCHHHHhhh-hccccCCCcccccHHHHHHHHHHH
Confidence            4568999999999999999998876432110 11122333333322222222110 001 11123455666677777766


Q ss_pred             hCCce
Q 047559          288 VDGKK  292 (444)
Q Consensus       288 l~~kr  292 (444)
                      ..++.
T Consensus       162 k~G~~  166 (311)
T PRK05439        162 KSGKP  166 (311)
T ss_pred             HcCCC
Confidence            66664

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.31  E-value=0.035  Score=53.43  Aligned_cols=90  Identities=13%  Similarity=0.117  Sum_probs=51.3

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCC-CCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHh
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDD-FDVLNISRALLESITFASCDLKALNEVQVQIKRAV  288 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~-~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l  288 (444)
                      +.+++.|+|+.|+||||++..+.......   -..+.+++.... ....+-++...+.++.......+..++...+...-
T Consensus       205 ~~~ii~lvGptGvGKTTt~akLA~~l~~~---g~~V~lItaDtyR~gAveQLk~yae~lgvpv~~~~dp~dL~~al~~l~  281 (407)
T PRK12726        205 NHRIISLIGQTGVGKTTTLVKLGWQLLKQ---NRTVGFITTDTFRSGAVEQFQGYADKLDVELIVATSPAELEEAVQYMT  281 (407)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc---CCeEEEEeCCccCccHHHHHHHHhhcCCCCEEecCCHHHHHHHHHHHH
Confidence            35899999999999999999988654222   123455655332 12244455555544432222334445544444332


Q ss_pred             C-CceEEEEEeCCCC
Q 047559          289 D-GKKLLLVLDDVWN  302 (444)
Q Consensus       289 ~-~kr~LlVlDdv~~  302 (444)
                      . +..=+|++|-.-.
T Consensus       282 ~~~~~D~VLIDTAGr  296 (407)
T PRK12726        282 YVNCVDHILIDTVGR  296 (407)
T ss_pred             hcCCCCEEEEECCCC
Confidence            1 3345788888744

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=96.31  E-value=0.049  Score=50.68  Aligned_cols=52  Identities=27%  Similarity=0.286  Sum_probs=36.1

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHh
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESI  267 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l  267 (444)
                      .++.|.|.+|+||||++.++.......  +-..++|++...  +..++...+...+
T Consensus        31 ~~~~i~g~~G~GKT~l~~~~~~~~~~~--~g~~vl~iS~E~--~~~~~~~r~~~~~   82 (271)
T cd01122          31 ELIILTAGTGVGKTTFLREYALDLITQ--HGVRVGTISLEE--PVVRTARRLLGQY   82 (271)
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHHHHHh--cCceEEEEEccc--CHHHHHHHHHHHH
Confidence            588999999999999999887654221  234677887655  3455666655543

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>PRK08233 hypothetical protein; Provisional

Probab=96.30  E-value=0.0034  Score=54.54  Aligned_cols=24  Identities=33%  Similarity=0.515  Sum_probs=21.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+|+|.|.+|+||||||+.+....
T Consensus         4 ~iI~I~G~~GsGKtTla~~L~~~l   27 (182)
T PRK08233          4 KIITIAAVSGGGKTTLTERLTHKL   27 (182)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhC
Confidence            799999999999999999998754

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=96.30  E-value=0.039  Score=57.89  Aligned_cols=129  Identities=18%  Similarity=0.182  Sum_probs=68.1

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGK  291 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  291 (444)
                      +-+.|+|++|+|||++|+.+.....+   .|   +.++.+.      +.    .....     .....+...+.......
T Consensus       186 ~gill~G~~G~GKt~~~~~~a~~~~~---~f---~~is~~~------~~----~~~~g-----~~~~~~~~~f~~a~~~~  244 (644)
T PRK10733        186 KGVLMVGPPGTGKTLLAKAIAGEAKV---PF---FTISGSD------FV----EMFVG-----VGASRVRDMFEQAKKAA  244 (644)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHcCC---CE---EEEehHH------hH----Hhhhc-----ccHHHHHHHHHHHHhcC
Confidence            45999999999999999999876422   22   2222221      11    00100     01111222233333456


Q ss_pred             eEEEEEeCCCCCCh----------hcHHH----hhcccCC--CCCCcEEEEecCChHHHh--hcCC---CCcccCCCCCh
Q 047559          292 KLLLVLDDVWNEDY----------CLWED----LKAPFLA--AAPNSKIIVTTRHAHVAA--TMEP---IQQYNLQCLSD  350 (444)
Q Consensus       292 r~LlVlDdv~~~~~----------~~~~~----l~~~l~~--~~~gs~iivTTr~~~va~--~~~~---~~~~~l~~L~~  350 (444)
                      +++|++|+++....          ..+..    +...+..  ...+.-+|.||...+...  ...+   ...+.+...+.
T Consensus       245 P~IifIDEiD~l~~~r~~~~~g~~~~~~~~ln~lL~~mdg~~~~~~vivIaaTN~p~~lD~Al~RpgRfdr~i~v~~Pd~  324 (644)
T PRK10733        245 PCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDV  324 (644)
T ss_pred             CcEEEehhHhhhhhccCCCCCCCchHHHHHHHHHHHhhhcccCCCCeeEEEecCChhhcCHHHhCCcccceEEEcCCCCH
Confidence            78999999965310          11222    2111211  233455666777655332  1122   24577888888


Q ss_pred             HhHHHHHHHhh
Q 047559          351 EDCWSLFMMHA  361 (444)
Q Consensus       351 ~~~~~lf~~~~  361 (444)
                      ++-.+++..+.
T Consensus       325 ~~R~~Il~~~~  335 (644)
T PRK10733        325 RGREQILKVHM  335 (644)
T ss_pred             HHHHHHHHHHh
Confidence            88888887665

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.29  E-value=0.031  Score=54.51  Aligned_cols=90  Identities=14%  Similarity=0.216  Sum_probs=50.0

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhccccccC-CcceeEEEEeCCCCCH--HHHHHHHHHHhccCCCCcccHHHHHHHHHHH
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDRAVEDS-KFDVKAWVCVSDDFDV--LNISRALLESITFASCDLKALNEVQVQIKRA  287 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~-~f~~~~wv~vs~~~~~--~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~  287 (444)
                      ..++.++|+.|+||||.+..+......... .-..+..+++. ++..  .+-++...+.++...........+...+.+.
T Consensus       174 ~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~D-t~R~aa~eQL~~~a~~lgvpv~~~~~~~~l~~~L~~~  252 (388)
T PRK12723        174 KRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITID-NYRIGAKKQIQTYGDIMGIPVKAIESFKDLKEEITQS  252 (388)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEecc-CccHHHHHHHHHHhhcCCcceEeeCcHHHHHHHHHHh
Confidence            379999999999999999888765432210 11233444443 3322  2335555554544322233444444444443


Q ss_pred             hCCceEEEEEeCCCCC
Q 047559          288 VDGKKLLLVLDDVWNE  303 (444)
Q Consensus       288 l~~kr~LlVlDdv~~~  303 (444)
                        ...-+|++|.....
T Consensus       253 --~~~DlVLIDTaGr~  266 (388)
T PRK12723        253 --KDFDLVLVDTIGKS  266 (388)
T ss_pred             --CCCCEEEEcCCCCC
Confidence              33458888888443

>PRK08927 fliI flagellum-specific ATP synthase; Validated

Probab=96.28  E-value=0.026  Score=55.60  Aligned_cols=85  Identities=24%  Similarity=0.259  Sum_probs=52.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCC-CHHHHHHHHHHHhccC-------CCCcccHH-----
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDF-DVLNISRALLESITFA-------SCDLKALN-----  278 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~-~~~~~~~~il~~l~~~-------~~~~~~~~-----  278 (444)
                      ..++|+|..|+|||||++.+.+..     ..+..+.+-++... .+.++....+..-+..       ..+.+...     
T Consensus       159 qri~I~G~sG~GKTtLL~~I~~~~-----~~d~~v~~~iGER~rEv~ef~~~~l~~~~l~rsvvv~atsd~~~~~r~~a~  233 (442)
T PRK08927        159 QRMGIFAGSGVGKSVLLSMLARNA-----DADVSVIGLIGERGREVQEFLQDDLGPEGLARSVVVVATSDEPALMRRQAA  233 (442)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcc-----CCCEEEEEEEecCcHHHHHHHHHHhhccCceeEEEEEECCCCCHHHHHHHH
Confidence            689999999999999999998763     33455666666544 3445555454432111       11111111     


Q ss_pred             HHHHHHHHHh--CCceEEEEEeCCC
Q 047559          279 EVQVQIKRAV--DGKKLLLVLDDVW  301 (444)
Q Consensus       279 ~~~~~l~~~l--~~kr~LlVlDdv~  301 (444)
                      .....+.+++  +++++|+++||+-
T Consensus       234 ~~a~tiAEyfrd~G~~Vll~~DslT  258 (442)
T PRK08927        234 YLTLAIAEYFRDQGKDVLCLMDSVT  258 (442)
T ss_pred             HHHHHHHHHHHHCCCcEEEEEeCcH
Confidence            1223355665  6889999999993

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=96.27  E-value=0.03  Score=47.81  Aligned_cols=117  Identities=16%  Similarity=0.113  Sum_probs=62.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCccee--EEEEeCCCCCHHHHHHHHHHHhccC---------CCCc-c---c
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVK--AWVCVSDDFDVLNISRALLESITFA---------SCDL-K---A  276 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~--~wv~vs~~~~~~~~~~~il~~l~~~---------~~~~-~---~  276 (444)
                      ..|-|++..|.||||.|..+.-+..-.  -+.+.  -|+-..........+..+  .+...         ..+. .   .
T Consensus         6 Gli~v~~g~GkGKtt~a~g~a~ra~~~--g~~v~ivQFlKg~~~~GE~~~l~~~--~~~~~~~g~g~~~~~~~~~~~~~~   81 (173)
T TIGR00708         6 GIIIVHTGNGKGKTTAAFGMALRALGH--GKKVGVIQFIKGAWPNGERAAFEPH--GVEFQVMGTGFTWETQNREADTAI   81 (173)
T ss_pred             cEEEEECCCCCChHHHHHHHHHHHHHC--CCeEEEEEEecCCcccChHHHHHhc--CcEEEECCCCCeecCCCcHHHHHH
Confidence            577888889999999997776553221  12221  133322223333344332  11100         0010 1   1


Q ss_pred             HHHHHHHHHHHhCCceE-EEEEeCCCC---CChhcHHHhhcccCCCCCCcEEEEecCChH
Q 047559          277 LNEVQVQIKRAVDGKKL-LLVLDDVWN---EDYCLWEDLKAPFLAAAPNSKIIVTTRHAH  332 (444)
Q Consensus       277 ~~~~~~~l~~~l~~kr~-LlVlDdv~~---~~~~~~~~l~~~l~~~~~gs~iivTTr~~~  332 (444)
                      ........++.+...+| |+|||++-.   ......+.+...+.....+.-||+|-|+..
T Consensus        82 ~~~~~~~a~~~l~~~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~rp~~~evVlTGR~~p  141 (173)
T TIGR00708        82 AKAAWQHAKEMLADPELDLVLLDELTYALKYGYLDVEEVVEALQERPGHQHVIITGRGCP  141 (173)
T ss_pred             HHHHHHHHHHHHhcCCCCEEEehhhHHHHHCCCcCHHHHHHHHHhCCCCCEEEEECCCCC
Confidence            12223344555544444 999999832   122345566666666677889999999753

Alternate name: corrinoid adenosyltransferase.

>PRK13538 cytochrome c biogenesis protein CcmA; Provisional

Probab=96.27  E-value=0.022  Score=50.62  Aligned_cols=23  Identities=35%  Similarity=0.465  Sum_probs=21.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|..|.|||||.+.+...
T Consensus        28 e~~~l~G~nGsGKSTLl~~l~G~   50 (204)
T PRK13538         28 ELVQIEGPNGAGKTSLLRILAGL   50 (204)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999999865

>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=96.27  E-value=0.034  Score=50.00  Aligned_cols=23  Identities=26%  Similarity=0.400  Sum_probs=21.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|..|.|||||.+.+...
T Consensus        27 e~~~i~G~nGsGKSTLl~~i~G~   49 (220)
T cd03265          27 EIFGLLGPNGAGKTTTIKMLTTL   49 (220)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            68999999999999999999864

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.

>PRK12678 transcription termination factor Rho; Provisional

Probab=96.27  E-value=0.0076  Score=60.50  Aligned_cols=88  Identities=19%  Similarity=0.288  Sum_probs=49.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEE-EEeCCCC-CHHHHHHHHHHHhccCCCCccc-----HHHHHHHH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAW-VCVSDDF-DVLNISRALLESITFASCDLKA-----LNEVQVQI  284 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~w-v~vs~~~-~~~~~~~~il~~l~~~~~~~~~-----~~~~~~~l  284 (444)
                      .-..|+|++|+|||||++.+.+.... . +.++.++ +-|.... .+.++.+.+-..+-.+..+...     ...+.-.+
T Consensus       417 QR~LIvgpp~aGKTtLL~~IAn~i~~-n-~~~~~~ivvLIgERpeEVtdm~rsVkgeVVasT~D~p~~~~~~~a~~ai~~  494 (672)
T PRK12678        417 QRGLIVSPPKAGKTTILQNIANAITT-N-NPECHLMVVLVDERPEEVTDMQRSVKGEVIASTFDRPPSDHTTVAELAIER  494 (672)
T ss_pred             CEeEEeCCCCCCHHHHHHHHHHHHhh-c-CCCeEEEEEEEeCchhhHHHHHHhccceEEEECCCCCHHHHHHHHHHHHHH
Confidence            57899999999999999999986422 2 4444443 3444433 2323322221111112222111     12233345


Q ss_pred             HHHh--CCceEEEEEeCCC
Q 047559          285 KRAV--DGKKLLLVLDDVW  301 (444)
Q Consensus       285 ~~~l--~~kr~LlVlDdv~  301 (444)
                      .+++  .++.+||++|++-
T Consensus       495 Ae~fre~G~dVlillDSlT  513 (672)
T PRK12678        495 AKRLVELGKDVVVLLDSIT  513 (672)
T ss_pred             HHHHHHcCCCEEEEEeCch
Confidence            5565  7899999999993

>cd01135 V_A-ATPase_B V/A-type ATP synthase (non-catalytic) subunit B

Probab=96.26  E-value=0.019  Score=52.75  Aligned_cols=91  Identities=16%  Similarity=0.260  Sum_probs=57.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcccc-ccCCcceeEEEEeCCCC-CHHHHHHHHHHHhccC-------CCCcccHH----
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAV-EDSKFDVKAWVCVSDDF-DVLNISRALLESITFA-------SCDLKALN----  278 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~-~~~~f~~~~wv~vs~~~-~~~~~~~~il~~l~~~-------~~~~~~~~----  278 (444)
                      .-++|.|-.|+|||+|+..+.++... ...+-+.++++-+++.. +..+++..+...-...       ..+.....    
T Consensus        70 QR~gIfgg~GvGKt~L~~~i~~~~~~~~~~~~~v~V~~~IGeR~rev~e~~~~~~~~~~l~~tv~v~~t~~~~~~~r~~a  149 (276)
T cd01135          70 QKIPIFSGSGLPHNELAAQIARQAGVVGEEENFAVVFAAMGITMEDARFFKDDFEETGALERVVLFLNLANDPTIERIIT  149 (276)
T ss_pred             CEEEeecCCCCChhHHHHHHHHhhhccccCCCCEEEEEEeccccHHHHHHHHHhhhcCCcceEEEEEecCCCCHHHHHHH
Confidence            56899999999999999998876431 11135788899888764 4556666665431111       11111111    


Q ss_pred             -HHHHHHHHHh--C-CceEEEEEeCCCC
Q 047559          279 -EVQVQIKRAV--D-GKKLLLVLDDVWN  302 (444)
Q Consensus       279 -~~~~~l~~~l--~-~kr~LlVlDdv~~  302 (444)
                       -....+.+++  + ++++|+++||+-.
T Consensus       150 ~~~a~aiAEyfrd~~g~~VLl~~D~ltr  177 (276)
T cd01135         150 PRMALTTAEYLAYEKGKHVLVILTDMTN  177 (276)
T ss_pred             HHHHHHHHHHHHhccCCeEEEEEcChhH
Confidence             1123356666  3 7899999999943

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.

>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed

Probab=96.26  E-value=0.0042  Score=66.25  Aligned_cols=179  Identities=18%  Similarity=0.139  Sum_probs=85.1

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhccc-------------cccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccH
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDRA-------------VEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKAL  277 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~-------------~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~  277 (444)
                      .+++.|.|+.+.||||+.+.+.-..-             ..-+.|+. ++..++...++..-+..+..          ..
T Consensus       327 ~~~~iITGpN~gGKTt~lktigl~~~maq~G~~vpa~~~~~i~~~~~-i~~~ig~~~si~~~lStfS~----------~m  395 (782)
T PRK00409        327 KTVLVITGPNTGGKTVTLKTLGLAALMAKSGLPIPANEPSEIPVFKE-IFADIGDEQSIEQSLSTFSG----------HM  395 (782)
T ss_pred             ceEEEEECCCCCCcHHHHHHHHHHHHHHHhCCCcccCCCccccccce-EEEecCCccchhhchhHHHH----------HH
Confidence            47899999999999999988853210             00001222 23333332222211111100          11


Q ss_pred             HHHHHHHHHHhCCceEEEEEeCCCCC-ChhcHHHh----hcccCCCCCCcEEEEecCChHHHhhcCCCCcc-cCCCCChH
Q 047559          278 NEVQVQIKRAVDGKKLLLVLDDVWNE-DYCLWEDL----KAPFLAAAPNSKIIVTTRHAHVAATMEPIQQY-NLQCLSDE  351 (444)
Q Consensus       278 ~~~~~~l~~~l~~kr~LlVlDdv~~~-~~~~~~~l----~~~l~~~~~gs~iivTTr~~~va~~~~~~~~~-~l~~L~~~  351 (444)
                      ..... +...+ +.+-|++||++-.. ++..-..+    ...+.  ..|+.+|+||....+.........+ .....-+.
T Consensus       396 ~~~~~-Il~~~-~~~sLvLlDE~~~GtDp~eg~ala~aile~l~--~~~~~vIitTH~~el~~~~~~~~~v~~~~~~~d~  471 (782)
T PRK00409        396 TNIVR-ILEKA-DKNSLVLFDELGAGTDPDEGAALAISILEYLR--KRGAKIIATTHYKELKALMYNREGVENASVEFDE  471 (782)
T ss_pred             HHHHH-HHHhC-CcCcEEEecCCCCCCCHHHHHHHHHHHHHHHH--HCCCEEEEECChHHHHHHHhcCCCeEEEEEEEec
Confidence            11111 22222 46789999999543 32222223    22232  3478999999998877654322111 11000011


Q ss_pred             hHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHHHhcCCCHHHHHHHHhc
Q 047559          352 DCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLLRSKRHDEWDEILNS  412 (444)
Q Consensus       352 ~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~~L~~~~~~~w~~~l~~  412 (444)
                      +... +..+...+ .+.     ...|-.|++.+ |+|-.+..-|.-+.......+..++++
T Consensus       472 ~~l~-~~Ykl~~G-~~g-----~S~a~~iA~~~-Glp~~ii~~A~~~~~~~~~~~~~li~~  524 (782)
T PRK00409        472 ETLR-PTYRLLIG-IPG-----KSNAFEIAKRL-GLPENIIEEAKKLIGEDKEKLNELIAS  524 (782)
T ss_pred             CcCc-EEEEEeeC-CCC-----CcHHHHHHHHh-CcCHHHHHHHHHHHhhhhhHHHHHHHH
Confidence            1111 11111111 111     12345566666 788888888887665544444444443

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=96.26  E-value=0.042  Score=50.05  Aligned_cols=88  Identities=15%  Similarity=0.267  Sum_probs=53.9

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCC-----------------
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFAS-----------------  271 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~-----------------  271 (444)
                      +.-.++.|.|.+|+|||+||.++....- +  .-..++|++...  ++.++.+.+. +++...                 
T Consensus        19 ~~gs~~lI~G~pGsGKT~la~~~l~~~~-~--~ge~~lyvs~ee--~~~~i~~~~~-~~g~~~~~~~~~g~l~~~d~~~~   92 (237)
T TIGR03877        19 PERNVVLLSGGPGTGKSIFSQQFLWNGL-Q--MGEPGIYVALEE--HPVQVRRNMA-QFGWDVRKYEEEGKFAIVDAFTG   92 (237)
T ss_pred             cCCeEEEEEcCCCCCHHHHHHHHHHHHH-H--cCCcEEEEEeeC--CHHHHHHHHH-HhCCCHHHHhhcCCEEEEecccc
Confidence            3448999999999999999998765421 1  345677887655  4445555432 221100                 


Q ss_pred             -------------CCcccHHHHHHHHHHHhCC-ceEEEEEeCCCC
Q 047559          272 -------------CDLKALNEVQVQIKRAVDG-KKLLLVLDDVWN  302 (444)
Q Consensus       272 -------------~~~~~~~~~~~~l~~~l~~-kr~LlVlDdv~~  302 (444)
                                   ....+..++...+.+.+.. +.-++|+|.+..
T Consensus        93 ~~~~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~vVIDSls~  137 (237)
T TIGR03877        93 GIGEAAEREKYVVKDPTDVRELIDVLRQAIRDINAKRVVIDSVTT  137 (237)
T ss_pred             ccccccccccccccCcccHHHHHHHHHHHHHHhCCCEEEEcChhH
Confidence                         0123556666666666533 344799999844

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.

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=96.25  E-value=0.13  Score=47.87  Aligned_cols=42  Identities=7%  Similarity=0.045  Sum_probs=32.9

Q ss_pred             CceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCCh
Q 047559          290 GKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHA  331 (444)
Q Consensus       290 ~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~  331 (444)
                      ++.=++|+|+++..+...++.+...+.....++.+|++|.+.
T Consensus        94 ~~~kv~ii~~ad~mt~~AaNaLLK~LEEPp~~~~fiL~~~~~  135 (290)
T PRK05917         94 SPYKIYIIHEADRMTLDAISAFLKVLEDPPQHGVIILTSAKP  135 (290)
T ss_pred             CCceEEEEechhhcCHHHHHHHHHHhhcCCCCeEEEEEeCCh
Confidence            455688999998888888999998888777777777666653

>cd03233 ABC_PDR_domain1 The pleiotropic drug resistance (PDR) family of ATP-binding cassette (ABC) transporters

Probab=96.25  E-value=0.047  Score=48.39  Aligned_cols=24  Identities=25%  Similarity=0.477  Sum_probs=21.7

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+++|+|..|.|||||++.+....
T Consensus        34 e~~~i~G~nGsGKSTLl~~l~G~~   57 (202)
T cd03233          34 EMVLVLGRPGSGCSTLLKALANRT   57 (202)
T ss_pred             cEEEEECCCCCCHHHHHHHhcccC
Confidence            699999999999999999988653

PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein

Probab=96.25  E-value=0.051  Score=49.14  Aligned_cols=24  Identities=38%  Similarity=0.465  Sum_probs=21.4

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+++|+|+.|.|||||.+.+....
T Consensus        30 ~~~~i~G~nGsGKSTLl~~l~G~~   53 (229)
T cd03254          30 ETVAIVGPTGAGKTTLINLLMRFY   53 (229)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCc
Confidence            589999999999999999997653

In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and lipid export. The MRP-like family, similar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains each composed of six transmembrane (TM) helices and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR00235 udk uridine kinase

Probab=96.25  E-value=0.0041  Score=55.45  Aligned_cols=26  Identities=42%  Similarity=0.636  Sum_probs=22.8

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      +...+|+|+|++|+|||||++.+...
T Consensus         4 ~~g~vi~I~G~sGsGKSTl~~~l~~~   29 (207)
T TIGR00235         4 PKGIIIGIGGGSGSGKTTVARKIYEQ   29 (207)
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHHHH
Confidence            34479999999999999999999865

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

>cd03244 ABCC_MRP_domain2 Domain 2 of the ABC subfamily C

Probab=96.25  E-value=0.073  Score=47.84  Aligned_cols=23  Identities=30%  Similarity=0.507  Sum_probs=21.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|.|||||++.+...
T Consensus        31 e~~~i~G~nGsGKSTLl~~l~G~   53 (221)
T cd03244          31 EKVGIVGRTGSGKSSLLLALFRL   53 (221)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcC
Confidence            58999999999999999999754

This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminus, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resistance lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.

>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=96.25  E-value=0.0033  Score=45.06  Aligned_cols=23  Identities=35%  Similarity=0.614  Sum_probs=20.3

Q ss_pred             EEEEEecCCChHHHHHHHHhhcc
Q 047559          213 VIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      +|.|.|.+|+||||+++.+.+..
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998763

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.

>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component

Probab=96.24  E-value=0.019  Score=50.81  Aligned_cols=23  Identities=35%  Similarity=0.608  Sum_probs=21.3

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|..|.|||||.+.+...
T Consensus        27 e~~~i~G~nGsGKStLl~~l~G~   49 (200)
T cd03217          27 EVHALMGPNGSGKSTLAKTIMGH   49 (200)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            69999999999999999998875

Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under stressful conditions. The SUF system is made of six proteins: SufC is an atypical cytoplasmic ABC-ATPase, which forms a complex with SufB and SufD; SufA plays the role of a scaffold protein for assembly of iron-sulfur clusters and delivery to target proteins; SufS is a cysteine desulfurase which mobilizes the sulfur atom from cysteine and provides it to the cluster; SufE has no associated function yet.

>cd03231 ABC_CcmA_heme_exporter CcmA, the ATP-binding component of the bacterial CcmAB transporter

Probab=96.24  E-value=0.045  Score=48.48  Aligned_cols=23  Identities=35%  Similarity=0.449  Sum_probs=21.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|..|.|||||.+.+...
T Consensus        27 e~~~i~G~nGsGKSTLl~~l~G~   49 (201)
T cd03231          27 EALQVTGPNGSGKTTLLRILAGL   49 (201)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            68999999999999999998754

The CCM family is involved in bacterial cytochrome c biogenesis. Cytochrome c maturation in E. coli requires the ccm operon, which encodes eight membrane proteins (CcmABCDEFGH). CcmE is a periplasmic heme chaperone that binds heme covalently and transfers it onto apocytochrome c in the presence of CcmF, CcmG, and CcmH. The CcmAB proteins represent an ABC transporter and the CcmCD proteins participate in heme transfer to CcmE.

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=96.23  E-value=0.035  Score=50.58  Aligned_cols=59  Identities=17%  Similarity=0.204  Sum_probs=35.6

Q ss_pred             HHHHHHHHhCCceEEEEEeCCCCC-ChhcHHHhhcccCC--CCCCcEEEEecCChHHHhhcC
Q 047559          280 VQVQIKRAVDGKKLLLVLDDVWNE-DYCLWEDLKAPFLA--AAPNSKIIVTTRHAHVAATME  338 (444)
Q Consensus       280 ~~~~l~~~l~~kr~LlVlDdv~~~-~~~~~~~l~~~l~~--~~~gs~iivTTr~~~va~~~~  338 (444)
                      ....+...|..+.=+|+||+--+. |...--++...+..  ...|..||+++.+-+.|...+
T Consensus       145 Qrv~iArALaQ~~~iLLLDEPTs~LDi~~Q~evl~ll~~l~~~~~~tvv~vlHDlN~A~rya  206 (258)
T COG1120         145 QRVLIARALAQETPILLLDEPTSHLDIAHQIEVLELLRDLNREKGLTVVMVLHDLNLAARYA  206 (258)
T ss_pred             HHHHHHHHHhcCCCEEEeCCCccccCHHHHHHHHHHHHHHHHhcCCEEEEEecCHHHHHHhC
Confidence            344567778888888999987432 11111122222222  245778999999988886543

>PRK08149 ATP synthase SpaL; Validated

Probab=96.23  E-value=0.02  Score=56.25  Aligned_cols=86  Identities=21%  Similarity=0.299  Sum_probs=52.4

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCC-CCHHHHHHHHHHHhccC-------CCCcccHH-----
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDD-FDVLNISRALLESITFA-------SCDLKALN-----  278 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~-~~~~~~~~~il~~l~~~-------~~~~~~~~-----  278 (444)
                      ..++|+|..|+|||||++.+....     ..+..+...+... -++.++....+......       ..+.+...     
T Consensus       152 q~i~I~G~sG~GKTTLl~~i~~~~-----~~dv~v~g~Ig~rg~ev~e~~~~~l~~~~~~~~~vV~~~sd~p~~~r~~a~  226 (428)
T PRK08149        152 QRMGIFASAGCGKTSLMNMLIEHS-----EADVFVIGLIGERGREVTEFVESLRASSRREKCVLVYATSDFSSVDRCNAA  226 (428)
T ss_pred             CEEEEECCCCCChhHHHHHHhcCC-----CCCeEEEEEEeeCCccHHHHHHHHhhcccccceEEEEECCCCCHHHHHhHH
Confidence            589999999999999999998753     2334444444433 34556666665532211       11211111     


Q ss_pred             HHHHHHHHHh--CCceEEEEEeCCCC
Q 047559          279 EVQVQIKRAV--DGKKLLLVLDDVWN  302 (444)
Q Consensus       279 ~~~~~l~~~l--~~kr~LlVlDdv~~  302 (444)
                      .....+.+++  +++++||++||+-.
T Consensus       227 ~~a~tiAE~fr~~G~~Vll~~DslTr  252 (428)
T PRK08149        227 LVATTVAEYFRDQGKRVVLFIDSMTR  252 (428)
T ss_pred             HHHHHHHHHHHHcCCCEEEEccchHH
Confidence            1223345555  68999999999943

>PTZ00301 uridine kinase; Provisional

Probab=96.22  E-value=0.0038  Score=55.54  Aligned_cols=25  Identities=32%  Similarity=0.567  Sum_probs=22.0

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..+|+|.|.+|+||||||+.+.+..
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~~l   27 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVSEL   27 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHHHH
Confidence            4799999999999999999887653

>cd03251 ABCC_MsbA MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins

Probab=96.22  E-value=0.055  Score=49.15  Aligned_cols=23  Identities=30%  Similarity=0.460  Sum_probs=20.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|.|||||++.+..-
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~Gl   51 (234)
T cd03251          29 ETVALVGPSGSGKSTLVNLIPRF   51 (234)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcc
Confidence            58999999999999999998754

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.

>PRK05480 uridine/cytidine kinase; Provisional

Probab=96.21  E-value=0.0044  Score=55.30  Aligned_cols=26  Identities=38%  Similarity=0.617  Sum_probs=23.1

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhcc
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      +..+|+|.|.+|+|||||++.+....
T Consensus         5 ~~~iI~I~G~sGsGKTTl~~~l~~~l   30 (209)
T PRK05480          5 KPIIIGIAGGSGSGKTTVASTIYEEL   30 (209)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            45799999999999999999998763

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=96.19  E-value=0.029  Score=55.61  Aligned_cols=26  Identities=35%  Similarity=0.387  Sum_probs=22.4

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhccc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDRA  236 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~  236 (444)
                      ..+|.++|.+|+||||++..++....
T Consensus        95 p~vI~lvG~~GsGKTTtaakLA~~L~  120 (437)
T PRK00771         95 PQTIMLVGLQGSGKTTTAAKLARYFK  120 (437)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHHH
Confidence            47999999999999999999886543

>PRK13949 shikimate kinase; Provisional

Probab=96.19  E-value=0.055  Score=46.44  Aligned_cols=23  Identities=39%  Similarity=0.569  Sum_probs=20.9

Q ss_pred             EEEEEecCCChHHHHHHHHhhcc
Q 047559          213 VIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      -|.|+|++|+||||+++.+....
T Consensus         3 ~I~liG~~GsGKstl~~~La~~l   25 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALAREL   25 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            58999999999999999998764

>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor

Probab=96.18  E-value=0.03  Score=51.35  Aligned_cols=24  Identities=38%  Similarity=0.512  Sum_probs=21.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+++|+|+.|+|||||++.+....
T Consensus        26 e~~~i~G~NGsGKSTLlk~L~G~~   49 (246)
T cd03237          26 EVIGILGPNGIGKTTFIKMLAGVL   49 (246)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            689999999999999999998653

The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI's are not transport proteins and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity of more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=96.18  E-value=0.026  Score=52.68  Aligned_cols=26  Identities=35%  Similarity=0.339  Sum_probs=21.7

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ....+|+|.|..|+||||+|+.+..-
T Consensus        60 ~~p~IIGIaG~~GSGKSTlar~L~~l   85 (290)
T TIGR00554        60 KIPYIISIAGSVAVGKSTTARILQAL   85 (290)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            44579999999999999999877543

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.

>TIGR00959 ffh signal recognition particle protein

Probab=96.17  E-value=0.038  Score=54.62  Aligned_cols=25  Identities=36%  Similarity=0.438  Sum_probs=21.0

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhc
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ...++.++|++|+||||++..++..
T Consensus        98 ~p~vi~~vG~~GsGKTTtaakLA~~  122 (428)
T TIGR00959        98 PPTVILMVGLQGSGKTTTCGKLAYY  122 (428)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHH
Confidence            3579999999999999998776654

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.

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=96.16  E-value=0.037  Score=50.13  Aligned_cols=48  Identities=15%  Similarity=0.216  Sum_probs=31.0

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHH
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRAL  263 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~i  263 (444)
                      -.++.|.|.+|+||||||.++..... +. . ..+++++  ...+..++++.+
T Consensus        24 g~~~~i~G~~G~GKTtl~~~~~~~~~-~~-g-~~~~yi~--~e~~~~~~~~~~   71 (230)
T PRK08533         24 GSLILIEGDESTGKSILSQRLAYGFL-QN-G-YSVSYVS--TQLTTTEFIKQM   71 (230)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHH-hC-C-CcEEEEe--CCCCHHHHHHHH
Confidence            36999999999999999866655431 12 1 2445665  333455666655

>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters

Probab=96.16  E-value=0.029  Score=49.27  Aligned_cols=23  Identities=30%  Similarity=0.494  Sum_probs=21.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|.|||||++.+...
T Consensus        34 e~~~l~G~nGsGKSTLl~~l~G~   56 (192)
T cd03232          34 TLTALMGESGAGKTTLLDVLAGR   56 (192)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            69999999999999999999863

PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=96.15  E-value=0.014  Score=56.81  Aligned_cols=54  Identities=22%  Similarity=0.335  Sum_probs=37.9

Q ss_pred             CCcccccchhHHHHHHHHhcC--------CCCCCCCceEEEEEecCCChHHHHHHHHhhccc
Q 047559          183 ERAVFGRQQDKAKMLEMVLTD--------TSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRA  236 (444)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~--------~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  236 (444)
                      +..++|.++.++.+...+...        .-......+-|.++|++|+|||++|+.+.....
T Consensus        11 d~~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l~   72 (441)
T TIGR00390        11 DKYIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLAN   72 (441)
T ss_pred             hhhccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHhC
Confidence            346888888888886655431        000112236789999999999999999987753

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.

>TIGR03498 FliI_clade3 flagellar protein export ATPase FliI

Probab=96.15  E-value=0.022  Score=55.93  Aligned_cols=87  Identities=22%  Similarity=0.200  Sum_probs=49.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccC-------CCCcccHHH-----
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFA-------SCDLKALNE-----  279 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~-------~~~~~~~~~-----  279 (444)
                      ..++|+|..|+|||||++.+.....    ....++....-+.-.+.++....+..-...       ..+......     
T Consensus       141 q~i~I~G~sG~GKTtLl~~I~~~~~----~~~gvi~~iGer~~ev~~~~~~~l~~~~~~~tvvv~atsd~~~~~r~~a~~  216 (418)
T TIGR03498       141 QRLGIFAGSGVGKSTLLSMLARNTD----ADVVVIALVGERGREVREFLEDDLGEEGLKRSVVVVATSDESPLMRRQAAY  216 (418)
T ss_pred             cEEEEECCCCCChHHHHHHHhCCCC----CCEEEEEEEeeechHHHHHHHHhhhccccceeEEEEECCCCCHHHHHHHHH
Confidence            5899999999999999998887532    122233322233344555555544332111       111111111     


Q ss_pred             HHHHHHHHh--CCceEEEEEeCCCC
Q 047559          280 VQVQIKRAV--DGKKLLLVLDDVWN  302 (444)
Q Consensus       280 ~~~~l~~~l--~~kr~LlVlDdv~~  302 (444)
                      ....+.+++  +++++||++||+-.
T Consensus       217 ~a~~iAEyfrd~G~~Vll~~DslTr  241 (418)
T TIGR03498       217 TATAIAEYFRDQGKDVLLLMDSVTR  241 (418)
T ss_pred             HHHHHHHHHHHcCCCEEEeccchhH
Confidence            222355666  68899999999933

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.

>cd01136 ATPase_flagellum-secretory_path_III Flagellum-specific ATPase/type III secretory pathway virulence-related protein

Probab=96.14  E-value=0.039  Score=52.33  Aligned_cols=85  Identities=24%  Similarity=0.274  Sum_probs=50.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCC-CCCHHHHHHHHHHHhcc-------CCCCcccHH-----
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSD-DFDVLNISRALLESITF-------ASCDLKALN-----  278 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~-~~~~~~~~~~il~~l~~-------~~~~~~~~~-----  278 (444)
                      ..++|+|..|.|||||.+.+....     ..+..+..-+.. .-++.++....+..-..       ...+.....     
T Consensus        70 qri~I~G~sG~GKTtLl~~Ia~~~-----~~~~~vi~~iGer~~ev~~~~~~~~~~~~l~rtvvv~~t~d~~~~~r~~~~  144 (326)
T cd01136          70 QRLGIFAGSGVGKSTLLGMIARGT-----TADVNVIALIGERGREVREFIEKDLGEEGLKRSVVVVATSDESPLLRVKAA  144 (326)
T ss_pred             cEEEEECCCCCChHHHHHHHhCCC-----CCCEEEEEEEecCCccHHHHHHHHHhcCccceEEEEEcCCCCCHHHHHHHH
Confidence            578999999999999999988753     233444444443 34555555555443211       111111111     


Q ss_pred             HHHHHHHHHh--CCceEEEEEeCCC
Q 047559          279 EVQVQIKRAV--DGKKLLLVLDDVW  301 (444)
Q Consensus       279 ~~~~~l~~~l--~~kr~LlVlDdv~  301 (444)
                      ...-.+.+++  +++.+||++||+-
T Consensus       145 ~~a~~~AEyfr~~g~~Vll~~Dslt  169 (326)
T cd01136         145 YTATAIAEYFRDQGKDVLLLMDSLT  169 (326)
T ss_pred             HHHHHHHHHHHHcCCCeEEEeccch
Confidence            1222344555  6889999999983

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.

>cd03266 ABC_NatA_sodium_exporter NatA is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled proton or K+ uptake

Probab=96.14  E-value=0.038  Score=49.59  Aligned_cols=23  Identities=35%  Similarity=0.398  Sum_probs=21.1

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|..|.|||||.+.+..-
T Consensus        32 e~~~i~G~nGsGKSTLl~~l~Gl   54 (218)
T cd03266          32 EVTGLLGPNGAGKTTTLRMLAGL   54 (218)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999999864

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilus, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of a single ATP-binding protein and a single intergral membrane protein.

>PF03969 AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654 ATPase family gene 1 (AFG1) ATPase is a 377 amino acid putative protein with an ATPase motif typical of the protein family including SEC18p PAS1, CDC48-VCP and TBP

Probab=96.14  E-value=0.029  Score=54.22  Aligned_cols=106  Identities=18%  Similarity=0.150  Sum_probs=59.0

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHh
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAV  288 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l  288 (444)
                      ...+-+-|+|..|.|||.|.-.+|+...++. .          ......++..++.+.+.........+.    .+.+.+
T Consensus        60 ~~~~GlYl~G~vG~GKT~Lmd~f~~~lp~~~-k----------~R~HFh~Fm~~vh~~l~~~~~~~~~l~----~va~~l  124 (362)
T PF03969_consen   60 PPPKGLYLWGPVGRGKTMLMDLFYDSLPIKR-K----------RRVHFHEFMLDVHSRLHQLRGQDDPLP----QVADEL  124 (362)
T ss_pred             CCCceEEEECCCCCchhHHHHHHHHhCCccc-c----------ccccccHHHHHHHHHHHHHhCCCccHH----HHHHHH
Confidence            4457899999999999999999998754421 0          011122444444444433222222233    344455


Q ss_pred             CCceEEEEEeCCCCCChhcHHHhhcccCC-CCCCcEEEEecC
Q 047559          289 DGKKLLLVLDDVWNEDYCLWEDLKAPFLA-AAPNSKIIVTTR  329 (444)
Q Consensus       289 ~~kr~LlVlDdv~~~~~~~~~~l~~~l~~-~~~gs~iivTTr  329 (444)
                      .++..||.||++.-.+..+=-.+...|.. ...|..+|.||.
T Consensus       125 ~~~~~lLcfDEF~V~DiaDAmil~rLf~~l~~~gvvlVaTSN  166 (362)
T PF03969_consen  125 AKESRLLCFDEFQVTDIADAMILKRLFEALFKRGVVLVATSN  166 (362)
T ss_pred             HhcCCEEEEeeeeccchhHHHHHHHHHHHHHHCCCEEEecCC
Confidence            56677999999866554431112222221 245665555554

AFG1 also has substantial homology to these proteins outside the ATPase domain []. This family of proteins contains a P-loop motif.; GO: 0005524 ATP binding

>PRK06762 hypothetical protein; Provisional

Probab=96.13  E-value=0.0045  Score=52.99  Aligned_cols=24  Identities=38%  Similarity=0.554  Sum_probs=21.7

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+|.|.|++|+||||+|+.+.+..
T Consensus         3 ~li~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          3 TLIIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            689999999999999999998763

>PRK14527 adenylate kinase; Provisional

Probab=96.13  E-value=0.0096  Score=52.31  Aligned_cols=26  Identities=27%  Similarity=0.368  Sum_probs=22.9

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhccc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDRA  236 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~  236 (444)
                      ..+|.|+|++|+||||+|+.+.+...
T Consensus         6 ~~~i~i~G~pGsGKsT~a~~La~~~~   31 (191)
T PRK14527          6 NKVVIFLGPPGAGKGTQAERLAQELG   31 (191)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            47899999999999999999987653

>cd03252 ABCC_Hemolysin The ABC-transporter hemolysin B is a central component of the secretion machinery that translocates the toxin, hemolysin A, in a Sec-independent fashion across both membranes of E

Probab=96.12  E-value=0.087  Score=47.94  Aligned_cols=23  Identities=39%  Similarity=0.572  Sum_probs=21.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|.|||||++.+..-
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~Gl   51 (237)
T cd03252          29 EVVGIVGRSGSGKSTLTKLIQRF   51 (237)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            58999999999999999999754

coli. The hemolysin A (HlyA) transport machinery is composed of the ATP-binding cassette (ABC) transporter HlyB located in the inner membrane, hemolysin D (HlyD), also anchored in the inner membrane, and TolC, which resides in the outer membrane. HlyD apparently forms a continuous channel that bridges the entire periplasm, interacting with TolC and HlyB. This arrangement prevents the appearance of periplasmic intermediates of HlyA during substrate transport. Little is known about the molecular details of HlyA transport, but it is evident that ATP-hydrolysis by the ABC-transporter HlyB is a necessary source of energy.

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=96.12  E-value=0.045  Score=49.93  Aligned_cols=22  Identities=27%  Similarity=0.321  Sum_probs=19.4

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      +..|+|++|+|||+|+..++-.
T Consensus         3 ~~ll~g~~G~GKS~lal~la~~   24 (239)
T cd01125           3 VSALVAPGGTGKSSLLLVLALA   24 (239)
T ss_pred             eeEEEcCCCCCHHHHHHHHHHH
Confidence            6789999999999999988754

RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.

>TIGR01188 drrA daunorubicin resistance ABC transporter ATP-binding subunit

Probab=96.12  E-value=0.045  Score=51.88  Aligned_cols=23  Identities=35%  Similarity=0.407  Sum_probs=21.1

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|.|||||.+.+..-
T Consensus        20 e~~~l~G~NGaGKSTLl~~l~Gl   42 (302)
T TIGR01188        20 EVFGFLGPNGAGKTTTIRMLTTL   42 (302)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999999864

This model describes daunorubicin resistance ABC transporter, ATP binding subunit in bacteria and archaea. This model is restricted in its scope to preferentially recognize the ATP binding subunit associated with effux of the drug, daunorubicin. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporter is the obligatory coupling of ATP hydrolysis to substrate translocation. The minimal configuration of bacterial ABC transport system: an ATPase or ATP binding subunit; An integral membrane protein; a hydrophilic polypetpide, which likely functions as substrate binding protein. In eukaryotes proteins of similar function include p-gyco proteins, multidrug resistance protein etc.

>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.12  E-value=0.16  Score=49.50  Aligned_cols=152  Identities=15%  Similarity=0.117  Sum_probs=77.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGK  291 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  291 (444)
                      |--.++||+|.|||++..++++..     .|+..- +..+...+-.+ ++.++..                      ...
T Consensus       236 RGYLLYGPPGTGKSS~IaAmAn~L-----~ydIyd-LeLt~v~~n~d-Lr~LL~~----------------------t~~  286 (457)
T KOG0743|consen  236 RGYLLYGPPGTGKSSFIAAMANYL-----NYDIYD-LELTEVKLDSD-LRHLLLA----------------------TPN  286 (457)
T ss_pred             ccceeeCCCCCCHHHHHHHHHhhc-----CCceEE-eeeccccCcHH-HHHHHHh----------------------CCC
Confidence            567899999999999999999864     343321 12222111111 2222221                      223


Q ss_pred             eEEEEEeCCCCCC------h------------hcHHHhhcccC---CCCCCcEEE-EecCChHHH--hhcCCC---Cccc
Q 047559          292 KLLLVLDDVWNED------Y------------CLWEDLKAPFL---AAAPNSKII-VTTRHAHVA--ATMEPI---QQYN  344 (444)
Q Consensus       292 r~LlVlDdv~~~~------~------------~~~~~l~~~l~---~~~~gs~ii-vTTr~~~va--~~~~~~---~~~~  344 (444)
                      +-+||+.|++..-      .            ..+..|..++.   ..+.+-||| +||...+-.  ..+.+.   -.+.
T Consensus       287 kSIivIEDIDcs~~l~~~~~~~~~~~~~~~~~VTlSGLLNfiDGlwSscg~ERIivFTTNh~EkLDPALlRpGRmDmhI~  366 (457)
T KOG0743|consen  287 KSILLIEDIDCSFDLRERRKKKKENFEGDLSRVTLSGLLNFLDGLWSSCGDERIIVFTTNHKEKLDPALLRPGRMDMHIY  366 (457)
T ss_pred             CcEEEEeecccccccccccccccccccCCcceeehHHhhhhhccccccCCCceEEEEecCChhhcCHhhcCCCcceeEEE
Confidence            5566777764420      0            11222333221   112123555 566654332  122332   3477


Q ss_pred             CCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHHHhc
Q 047559          345 LQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLLR  399 (444)
Q Consensus       345 l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~~L~  399 (444)
                      +.-=+.+....||.+......   ..+    +..+|.+...|.-+.-..+++.|-
T Consensus       367 mgyCtf~~fK~La~nYL~~~~---~h~----L~~eie~l~~~~~~tPA~V~e~lm  414 (457)
T KOG0743|consen  367 MGYCTFEAFKTLASNYLGIEE---DHR----LFDEIERLIEETEVTPAQVAEELM  414 (457)
T ss_pred             cCCCCHHHHHHHHHHhcCCCC---Ccc----hhHHHHHHhhcCccCHHHHHHHHh
Confidence            888888888888887763221   122    234455555565555555555443

>PRK09544 znuC high-affinity zinc transporter ATPase; Reviewed

Probab=96.11  E-value=0.042  Score=50.51  Aligned_cols=24  Identities=33%  Similarity=0.546  Sum_probs=21.7

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+++|+|+.|.|||||++.++...
T Consensus        31 e~~~I~G~NGsGKSTLl~~i~Gl~   54 (251)
T PRK09544         31 KILTLLGPNGAGKSTLVRVVLGLV   54 (251)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCC
Confidence            689999999999999999998653

>PRK00279 adk adenylate kinase; Reviewed

Probab=96.10  E-value=0.013  Score=52.63  Aligned_cols=23  Identities=26%  Similarity=0.368  Sum_probs=20.2

Q ss_pred             EEEEEecCCChHHHHHHHHhhcc
Q 047559          213 VIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .|.|.|++|+||||+|+.+....
T Consensus         2 ~I~v~G~pGsGKsT~a~~la~~~   24 (215)
T PRK00279          2 RLILLGPPGAGKGTQAKFIAEKY   24 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998753

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=96.10  E-value=0.015  Score=56.66  Aligned_cols=53  Identities=23%  Similarity=0.339  Sum_probs=38.4

Q ss_pred             CCcccccchhHHHHHHHHhcC--------CCCCCCCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          183 ERAVFGRQQDKAKMLEMVLTD--------TSSDHSNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~--------~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ...++|.+..+..+..++...        ..........+.++|++|+|||+||+.+....
T Consensus        14 d~~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l   74 (443)
T PRK05201         14 DKYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLA   74 (443)
T ss_pred             ccccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            456899999888888777441        00000123678999999999999999998764

>PRK07594 type III secretion system ATPase SsaN; Validated

Probab=96.10  E-value=0.025  Score=55.63  Aligned_cols=85  Identities=27%  Similarity=0.331  Sum_probs=51.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCC-CCHHHHHHHHHHHhcc-------CCCCcccHHH----
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDD-FDVLNISRALLESITF-------ASCDLKALNE----  279 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~-~~~~~~~~~il~~l~~-------~~~~~~~~~~----  279 (444)
                      ..++|+|..|+|||||++.+.+..     +.+..++..++.. ..+.+++.+....-..       ...+.+....    
T Consensus       156 qrigI~G~sG~GKSTLL~~I~~~~-----~~d~~vi~~iGeRgrEv~efl~~~~~~~~~~rtv~vv~tsd~p~~~r~~a~  230 (433)
T PRK07594        156 QRVGIFSAPGVGKSTLLAMLCNAP-----DADSNVLVLIGERGREVREFIDFTLSEETRKRCVIVVATSDRPALERVRAL  230 (433)
T ss_pred             CEEEEECCCCCCccHHHHHhcCCC-----CCCEEEEEEECCCchHHHHHHHHhhccCCcceEEEEEECCCCCHHHHHHHH
Confidence            589999999999999999988753     3455566655543 4444555554321100       0111111111    


Q ss_pred             -HHHHHHHHh--CCceEEEEEeCCC
Q 047559          280 -VQVQIKRAV--DGKKLLLVLDDVW  301 (444)
Q Consensus       280 -~~~~l~~~l--~~kr~LlVlDdv~  301 (444)
                       ....+.+++  +++++||++||+-
T Consensus       231 ~~a~tiAEyfrd~G~~VLl~~Dslt  255 (433)
T PRK07594        231 FVATTIAEFFRDNGKRVVLLADSLT  255 (433)
T ss_pred             HHHHHHHHHHHHCCCcEEEEEeCHH
Confidence             122355565  6889999999994

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=96.10  E-value=0.05  Score=57.30  Aligned_cols=23  Identities=35%  Similarity=0.514  Sum_probs=20.7

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ..|+|+|..|+|||||++.+..-
T Consensus       500 e~vaIvG~SGsGKSTL~KLL~gl  522 (709)
T COG2274         500 EKVAIVGRSGSGKSTLLKLLLGL  522 (709)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            68999999999999999998653

>TIGR01277 thiQ thiamine ABC transporter, ATP-binding protein

Probab=96.10  E-value=0.044  Score=49.00  Aligned_cols=24  Identities=29%  Similarity=0.454  Sum_probs=21.7

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+++|+|+.|.|||||++.++...
T Consensus        25 e~~~i~G~nGsGKSTLl~~l~G~~   48 (213)
T TIGR01277        25 EIVAIMGPSGAGKSTLLNLIAGFI   48 (213)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCC
Confidence            689999999999999999998653

This model describes the energy-transducing ATPase subunit ThiQ of the ThiBPQ thiamine (and thiamine pyrophosphate) ABC transporter in several Proteobacteria. This protein is found so far only in Proteobacteria, and is found in complete genomes only if the ThiB and ThiP subunits are also found.

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=96.09  E-value=0.053  Score=49.06  Aligned_cols=114  Identities=15%  Similarity=0.098  Sum_probs=61.4

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCC------------------
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFAS------------------  271 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~------------------  271 (444)
                      .-.++.|.|.+|+|||+|+.++..... +  .-...+|++....  ..++... .++++...                  
T Consensus        19 ~G~~~~i~G~~G~GKT~l~~~~~~~~~-~--~g~~~~~is~e~~--~~~i~~~-~~~~g~~~~~~~~~~~l~i~d~~~~~   92 (229)
T TIGR03881        19 RGFFVAVTGEPGTGKTIFCLHFAYKGL-R--DGDPVIYVTTEES--RESIIRQ-AAQFGMDFEKAIEEGKLVIIDALMKE   92 (229)
T ss_pred             CCeEEEEECCCCCChHHHHHHHHHHHH-h--cCCeEEEEEccCC--HHHHHHH-HHHhCCCHHHHhhcCCEEEEEccccc
Confidence            347999999999999999998765421 1  2346678876443  3333322 22221100                  


Q ss_pred             ----C--CcccHHHHHHHHHHHhCC---ceEEEEEeCCCCC---ChhcHHHhhcccCC--CCCCcEEEEecC
Q 047559          272 ----C--DLKALNEVQVQIKRAVDG---KKLLLVLDDVWNE---DYCLWEDLKAPFLA--AAPNSKIIVTTR  329 (444)
Q Consensus       272 ----~--~~~~~~~~~~~l~~~l~~---kr~LlVlDdv~~~---~~~~~~~l~~~l~~--~~~gs~iivTTr  329 (444)
                          .  ...+.+++...+.+.++.   +.-++|+|.+...   +...-..+...+..  ...|..+|+|+.
T Consensus        93 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~vvIDsl~~l~~~~~~~~r~~~~~l~~~l~~~~~tvil~~~  164 (229)
T TIGR03881        93 KEDEWSLRELSIEELLNKVIEAKKYLGYGHARLVIDSMSAFWLDKPAMARKYSYYLKRVLNRWNFTILLTSQ  164 (229)
T ss_pred             cccccccccCCHHHHHHHHHHHHHhhccCceEEEecCchhhhccChHHHHHHHHHHHHHHHhCCCEEEEEec
Confidence                0  012455566666655532   3458899997432   11111111111111  245888888886

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.

>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]

Probab=96.08  E-value=0.039  Score=51.05  Aligned_cols=90  Identities=21%  Similarity=0.156  Sum_probs=57.2

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHH----hccCCC-CcccHHHHHHH
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLES----ITFASC-DLKALNEVQVQ  283 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~----l~~~~~-~~~~~~~~~~~  283 (444)
                      +.-+++=|+|+.|+||||+|.+++-....   .-..++|++--+.++++.+.. +...    +....+ ......+....
T Consensus        58 ~~g~ItEiyG~~gsGKT~lal~~~~~aq~---~g~~a~fIDtE~~l~p~r~~~-l~~~~~d~l~v~~~~~~e~q~~i~~~  133 (279)
T COG0468          58 PRGRITEIYGPESSGKTTLALQLVANAQK---PGGKAAFIDTEHALDPERAKQ-LGVDLLDNLLVSQPDTGEQQLEIAEK  133 (279)
T ss_pred             ccceEEEEecCCCcchhhHHHHHHHHhhc---CCCeEEEEeCCCCCCHHHHHH-HHHhhhcceeEecCCCHHHHHHHHHH
Confidence            44589999999999999999998765332   334789999999888876533 3333    211111 12222233344


Q ss_pred             HHHHhCCceEEEEEeCCCC
Q 047559          284 IKRAVDGKKLLLVLDDVWN  302 (444)
Q Consensus       284 l~~~l~~kr~LlVlDdv~~  302 (444)
                      +......+--|||+|.+-.
T Consensus       134 ~~~~~~~~i~LvVVDSvaa  152 (279)
T COG0468         134 LARSGAEKIDLLVVDSVAA  152 (279)
T ss_pred             HHHhccCCCCEEEEecCcc
Confidence            4444444466999999844

>PRK06547 hypothetical protein; Provisional

Probab=96.08  E-value=0.0096  Score=51.24  Aligned_cols=27  Identities=33%  Similarity=0.437  Sum_probs=23.4

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ....+|.|.|++|+||||+|+.+.+..
T Consensus        13 ~~~~~i~i~G~~GsGKTt~a~~l~~~~   39 (172)
T PRK06547         13 GGMITVLIDGRSGSGKTTLAGALAART   39 (172)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            445899999999999999999998764

>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR)

Probab=96.06  E-value=0.04  Score=48.50  Aligned_cols=115  Identities=20%  Similarity=0.207  Sum_probs=58.4

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc--ccccCCcceeEEEE---------------eCCCCC---HHHHHHHHHHHhccCC
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR--AVEDSKFDVKAWVC---------------VSDDFD---VLNISRALLESITFAS  271 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~--~~~~~~f~~~~wv~---------------vs~~~~---~~~~~~~il~~l~~~~  271 (444)
                      .+++|.|+.|.|||||.+.+..-.  ..    ..+.+++.               +.+...   ...+...+.-....  
T Consensus        36 e~~~l~G~nGsGKStLl~~i~Gl~~~~~----~~G~i~~~g~~~~~~~~~~~i~~~~q~~~~~~~~t~~~~i~~~~~~--  109 (194)
T cd03213          36 ELTAIMGPSGAGKSTLLNALAGRRTGLG----VSGEVLINGRPLDKRSFRKIIGYVPQDDILHPTLTVRETLMFAAKL--  109 (194)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCCCCC----CceEEEECCEeCchHhhhheEEEccCcccCCCCCcHHHHHHHHHHh--
Confidence            689999999999999999998753  21    11222211               111110   01122221110000  


Q ss_pred             CCcccHHHHHHHHHHHhCCceEEEEEeCCCC-CChhcHHHhhcccCC-CCCCcEEEEecCChH
Q 047559          272 CDLKALNEVQVQIKRAVDGKKLLLVLDDVWN-EDYCLWEDLKAPFLA-AAPNSKIIVTTRHAH  332 (444)
Q Consensus       272 ~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~-~~~~~~~~l~~~l~~-~~~gs~iivTTr~~~  332 (444)
                      ...+.-+...-.+...+-.++-++++|+.-+ .|......+...+.. ...|..||++|.+..
T Consensus       110 ~~LS~G~~qrv~laral~~~p~illlDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~  172 (194)
T cd03213         110 RGLSGGERKRVSIALELVSNPSLLFLDEPTSGLDSSSALQVMSLLRRLADTGRTIICSIHQPS  172 (194)
T ss_pred             ccCCHHHHHHHHHHHHHHcCCCEEEEeCCCcCCCHHHHHHHHHHHHHHHhCCCEEEEEecCch
Confidence            0111122222345555656677899999844 233334444444432 123677888888753

DR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. Compared to other members of the ABC transporter subfamilies, the ABCG transporter family is composed of proteins that have an ATP-binding cassette domain at the N-terminus and a TM (transmembrane) domain at the C-terminus.

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=96.06  E-value=0.005  Score=53.80  Aligned_cols=24  Identities=33%  Similarity=0.458  Sum_probs=21.8

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ..+|.|+|++|+||||+++.+...
T Consensus         3 ~~ii~i~G~~GsGKsTl~~~l~~~   26 (188)
T TIGR01360         3 CKIIFIVGGPGSGKGTQCEKIVEK   26 (188)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            479999999999999999999865

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.

>TIGR03771 anch_rpt_ABC anchored repeat-type ABC transporter, ATP-binding subunit

Probab=96.06  E-value=0.072  Score=48.03  Aligned_cols=23  Identities=35%  Similarity=0.580  Sum_probs=21.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|..|.|||||++.+...
T Consensus         7 e~~~l~G~nGsGKSTLl~~l~G~   29 (223)
T TIGR03771         7 ELLGLLGPNGAGKTTLLRAILGL   29 (223)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            68999999999999999999864

This protein family is the ATP-binding cassette subunit of binding protein-dependent ABC transporter complex that strictly co-occurs with TIGR03769. TIGRFAMs model TIGR03769 describes a protein domain that occurs singly or as one of up to three repeats in proteins of a number of Actinobacteria, including Propionibacterium acnes KPA171202. The TIGR03769 domain occurs both in an adjacent gene for the substrate-binding protein and in additional (often nearby) proteins, often with LPXTG-like sortase recognition signals. Homologous ATP-binding subunits outside the scope of this family include manganese transporter MntA in Synechocystis sp. PCC 6803 and chelated iron transporter subunits. The function of this transporter complex is unknown.

>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes

Probab=96.05  E-value=0.0099  Score=52.55  Aligned_cols=23  Identities=30%  Similarity=0.303  Sum_probs=20.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ++++|+|+.|.|||||.+.+...
T Consensus        26 ~~~~ltGpNg~GKSTllr~i~~~   48 (199)
T cd03283          26 NGILITGSNMSGKSTFLRTIGVN   48 (199)
T ss_pred             cEEEEECCCCCChHHHHHHHHHH
Confidence            69999999999999999988643

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form slid

>PRK11247 ssuB aliphatic sulfonates transport ATP-binding subunit; Provisional

Probab=96.05  E-value=0.067  Score=49.36  Aligned_cols=23  Identities=35%  Similarity=0.536  Sum_probs=21.1

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|.|||||.+.+...
T Consensus        39 e~~~I~G~NGsGKSTLlk~l~Gl   61 (257)
T PRK11247         39 QFVAVVGRSGCGKSTLLRLLAGL   61 (257)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            58999999999999999999864

>PRK14269 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.05  E-value=0.078  Score=48.60  Aligned_cols=23  Identities=26%  Similarity=0.496  Sum_probs=21.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|..|.|||||.+.+...
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~Gl   51 (246)
T PRK14269         29 KITALIGASGCGKSTFLRCFNRM   51 (246)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcc
Confidence            58999999999999999999854

>COG5635 Predicted NTPase (NACHT family) [Signal transduction mechanisms]

Probab=96.05  E-value=0.012  Score=63.62  Aligned_cols=185  Identities=16%  Similarity=0.133  Sum_probs=94.9

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcccccc-CCcceeEEEEeCCCC----CHHH-HHHHHHHHhccCCCCcccHHHHHHHH
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDRAVED-SKFDVKAWVCVSDDF----DVLN-ISRALLESITFASCDLKALNEVQVQI  284 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~-~~f~~~~wv~vs~~~----~~~~-~~~~il~~l~~~~~~~~~~~~~~~~l  284 (444)
                      ..-+.|+|.+|.||||+.+.+.-....+. ..=+..+++.+....    ...+ .+...+..........   .......
T Consensus       222 ~~~~~Ilg~pGsGKTtfl~~lA~~~~~~~~~~~~vpi~~~l~~~~~~~~~~~q~~~~~~l~~~~~~~~~~---~~~~~~~  298 (824)
T COG5635         222 YAKLLILGAPGSGKTTFLQRLALWLAQRTLEPEDVPIFLLLNAFALARKFEKQLSLIDYLAEELFSQGIA---KQLIEAH  298 (824)
T ss_pred             hhheeeecCCCCCceehHHHHHHHhccCcCCcccCceeeechhHHHhhhhHhhccHHHHHHHHHhccCCc---chhhHHH
Confidence            35799999999999999988864332211 012334454433111    1111 1122222221111111   1111222


Q ss_pred             HHHhCCceEEEEEeCCCCCChhc----HHHhhcccCCCCCCcEEEEecCChHHHhhcCCCCcccCCCCChHhHHHHHHHh
Q 047559          285 KRAVDGKKLLLVLDDVWNEDYCL----WEDLKAPFLAAAPNSKIIVTTRHAHVAATMEPIQQYNLQCLSDEDCWSLFMMH  360 (444)
Q Consensus       285 ~~~l~~kr~LlVlDdv~~~~~~~----~~~l~~~l~~~~~gs~iivTTr~~~va~~~~~~~~~~l~~L~~~~~~~lf~~~  360 (444)
                      .++++..++|+++|.++......    ...+.. +.+.-+.+.+|+|+|....-........+++..+.++.-.......
T Consensus       299 ~e~l~~g~~llLlDGlDe~~~~~~~~~~~~i~~-f~~~~~~~~~iltcR~~~~~~~~~~f~~~ei~~~~~~~i~~~~~~~  377 (824)
T COG5635         299 QELLKTGKLLLLLDGLDELEPKNQRALIREINK-FLQEYPDAQVLLTCRPDTYKEEFKGFAVFEIYKFLDLQINQFILYQ  377 (824)
T ss_pred             HHHHhccchhhHhhccchhhhhhHHHHHHHHHH-HhhhccCCeEEEEeccchhhhhhhhhhhccchhhhHHHHHHHHHHH
Confidence            57788999999999986643221    112222 2334567899999997766655444556667666666554433322


Q ss_pred             h--------ccCCCCC---ccchHHHHHHHHHHHcCCChHHHHHHHHHhc
Q 047559          361 A--------FVGQDIT---AQQISDLFREKVVGKCGGLPLAAKTLGGLLR  399 (444)
Q Consensus       361 ~--------~~~~~~~---~~~~~~~~~~~i~~~~~G~Plai~~~~~~L~  399 (444)
                      .        ++.....   ....+..-...-++.....|+.+.+.+..-.
T Consensus       378 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ik~l~~~p~~L~l~c~~~~  427 (824)
T COG5635         378 WLDAFIEDWFGDSRLLAKKLLERLKLPENRRIKELALTPLLLALECLIWQ  427 (824)
T ss_pred             HHHHHHHhhhcccchhhHHHHHHhcchhhHHHHHhccCHHHHHHHHHhhh
Confidence            1        1111111   0011111112334445788999988885444

>KOG0728 consensus 26S proteasome regulatory complex, ATPase RPT6 [Posttranslational modification, protein turnover, chaperones]

Probab=96.04  E-value=0.065  Score=47.86  Aligned_cols=154  Identities=16%  Similarity=0.248  Sum_probs=80.3

Q ss_pred             ccc-cchhHHHHHHHHhcCCC-------CCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHH
Q 047559          186 VFG-RQQDKAKMLEMVLTDTS-------SDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVL  257 (444)
Q Consensus       186 ~vG-r~~~~~~l~~~L~~~~~-------~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~  257 (444)
                      ++| -+..+.+|.+.+.-+-.       -+-.+.+-+.++|++|.|||-||+.|+..        .++.|+.||..    
T Consensus       148 MiGgLd~QIkeIkEVIeLPvKHPELF~aLGIaQPKGvlLygppgtGktLlaraVahh--------t~c~firvsgs----  215 (404)
T KOG0728|consen  148 MIGGLDKQIKEIKEVIELPVKHPELFEALGIAQPKGVLLYGPPGTGKTLLARAVAHH--------TDCTFIRVSGS----  215 (404)
T ss_pred             HhccHHHHHHHHHHHHhccccCHHHHHhcCCCCCcceEEecCCCCchhHHHHHHHhh--------cceEEEEechH----
Confidence            444 45666666555432211       01144578899999999999999999853        34567777763    


Q ss_pred             HHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCCh-----------hcHH---HhhcccCC--CCCC
Q 047559          258 NISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDY-----------CLWE---DLKAPFLA--AAPN  321 (444)
Q Consensus       258 ~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~-----------~~~~---~l~~~l~~--~~~g  321 (444)
                      ++.+..+..      ...-..++.-.-+   ..-+-+|+.|++++...           +...   ++...+..  ..+.
T Consensus       216 elvqk~ige------gsrmvrelfvmar---ehapsiifmdeidsigs~r~e~~~ggdsevqrtmlellnqldgfeatkn  286 (404)
T KOG0728|consen  216 ELVQKYIGE------GSRMVRELFVMAR---EHAPSIIFMDEIDSIGSSRVESGSGGDSEVQRTMLELLNQLDGFEATKN  286 (404)
T ss_pred             HHHHHHhhh------hHHHHHHHHHHHH---hcCCceEeeecccccccccccCCCCccHHHHHHHHHHHHhccccccccc
Confidence            222221110      0001111111111   23467888888866311           1111   12222221  2456


Q ss_pred             cEEEEecCChHHHh--hcCCC---CcccCCCCChHhHHHHHHHh
Q 047559          322 SKIIVTTRHAHVAA--TMEPI---QQYNLQCLSDEDCWSLFMMH  360 (444)
Q Consensus       322 s~iivTTr~~~va~--~~~~~---~~~~l~~L~~~~~~~lf~~~  360 (444)
                      -+||+.|..-++..  .+.+.   ..++..+-+++.-.++++-+
T Consensus       287 ikvimatnridild~allrpgridrkiefp~p~e~ar~~ilkih  330 (404)
T KOG0728|consen  287 IKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILKIH  330 (404)
T ss_pred             eEEEEeccccccccHhhcCCCcccccccCCCCCHHHHHHHHHHh
Confidence            68888776554432  22332   45777777777666666544

>cd03267 ABC_NatA_like Similar in sequence to NatA, this is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled to proton or K+ uptake

Probab=96.04  E-value=0.044  Score=49.89  Aligned_cols=23  Identities=26%  Similarity=0.405  Sum_probs=21.1

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|..|.|||||++.+...
T Consensus        48 e~~~i~G~NGsGKSTLl~~i~Gl   70 (236)
T cd03267          48 EIVGFIGPNGAGKTTTLKILSGL   70 (236)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            68999999999999999999864

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilis, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of the single ATP-binding protein and the single intergral membrane protein.

>PRK13650 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=96.03  E-value=0.036  Score=51.87  Aligned_cols=53  Identities=19%  Similarity=0.112  Sum_probs=32.3

Q ss_pred             HHHHHhCCceEEEEEeCCCCC-ChhcHHHhhcccCCC--CCCcEEEEecCChHHHh
Q 047559          283 QIKRAVDGKKLLLVLDDVWNE-DYCLWEDLKAPFLAA--APNSKIIVTTRHAHVAA  335 (444)
Q Consensus       283 ~l~~~l~~kr~LlVlDdv~~~-~~~~~~~l~~~l~~~--~~gs~iivTTr~~~va~  335 (444)
                      .|...+-.++-+|+||+.... +...-..+...+..-  ..|..||++|.+.....
T Consensus       150 ~lAral~~~p~lLlLDEPt~~LD~~~~~~l~~~l~~l~~~~g~tilivtH~~~~~~  205 (279)
T PRK13650        150 AIAGAVAMRPKIIILDEATSMLDPEGRLELIKTIKGIRDDYQMTVISITHDLDEVA  205 (279)
T ss_pred             HHHHHHHcCCCEEEEECCcccCCHHHHHHHHHHHHHHHHhcCCEEEEEecCHHHHH
Confidence            355566677789999998542 333334444444331  23778888888766554

>TIGR03740 galliderm_ABC gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit

Probab=96.03  E-value=0.047  Score=49.18  Aligned_cols=23  Identities=30%  Similarity=0.472  Sum_probs=21.1

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|..|.|||||.+.+...
T Consensus        27 e~~~i~G~nGsGKSTLl~~l~G~   49 (223)
T TIGR03740        27 SVYGLLGPNGAGKSTLLKMITGI   49 (223)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999999864

Model TIGR03731 represents the family of all lantibiotics related to gallidermin, including epidermin, mutatin, and nisin. This protein family describes the ATP-binding subunit of a gallidermin/epidermin class lantibiotic protection transporter. It is largely restricted to gallidermin-family lantibiotic biosynthesis and export cassettes, but also occurs in orphan transporter cassettes in species that lack candidate lantibiotic precursor and synthetase genes.

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=96.02  E-value=0.019  Score=58.73  Aligned_cols=133  Identities=12%  Similarity=0.013  Sum_probs=70.5

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHH
Q 047559          185 AVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALL  264 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il  264 (444)
                      .++|....+.++++.+..-...+    ..|.|+|..|+||+.+|+.++.....   .-...+.++++.-.  .+.+..  
T Consensus       205 ~~ig~s~~~~~~~~~~~~~A~~~----~pvlI~GE~GtGK~~lA~aiH~~s~r---~~~pfv~inca~~~--~~~~e~--  273 (520)
T PRK10820        205 QIVAVSPKMRQVVEQARKLAMLD----APLLITGDTGTGKDLLAYACHLRSPR---GKKPFLALNCASIP--DDVVES--  273 (520)
T ss_pred             ceeECCHHHHHHHHHHHHHhCCC----CCEEEECCCCccHHHHHHHHHHhCCC---CCCCeEEeccccCC--HHHHHH--
Confidence            58898888887777664322211    45889999999999999998764321   11233455555432  222222  


Q ss_pred             HHhccCCCCcc-cHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCC-----------CCcEEEEecCCh
Q 047559          265 ESITFASCDLK-ALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAA-----------PNSKIIVTTRHA  331 (444)
Q Consensus       265 ~~l~~~~~~~~-~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~iivTTr~~  331 (444)
                       .+.+...... .......-+.+  ....-.|+||+++.........|...+..+.           ...+||.||...
T Consensus       274 -elFG~~~~~~~~~~~~~~g~~e--~a~~GtL~LdeI~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~vRiI~st~~~  349 (520)
T PRK10820        274 -ELFGHAPGAYPNALEGKKGFFE--QANGGSVLLDEIGEMSPRMQAKLLRFLNDGTFRRVGEDHEVHVDVRVICATQKN  349 (520)
T ss_pred             -HhcCCCCCCcCCcccCCCChhh--hcCCCEEEEeChhhCCHHHHHHHHHHHhcCCcccCCCCcceeeeeEEEEecCCC
Confidence             1221111000 00000000000  1223457899998876666666666554321           134788877654

>PF08298 AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 This is entry is found at the N terminus of PrkA proteins - bacterial and archaeal serine kinases approximately 630 residues in length

Probab=96.02  E-value=0.0098  Score=56.26  Aligned_cols=53  Identities=15%  Similarity=0.302  Sum_probs=44.5

Q ss_pred             cCCcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhc
Q 047559          182 TERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ....|+|.++.++++++.+.....+....-+|+.++|+.|.|||||+..+-+-
T Consensus        59 f~~~~~G~~~~i~~lV~~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~Lk~~  111 (358)
T PF08298_consen   59 FEDEFYGMEETIERLVNYFKSAAQGLEERKRILLLLGPVGGGKSSLAELLKRG  111 (358)
T ss_pred             ccccccCcHHHHHHHHHHHHHHHhccCccceEEEEECCCCCCHHHHHHHHHHH
Confidence            34579999999999999987755444466799999999999999999988765

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

>PRK10867 signal recognition particle protein; Provisional

Probab=96.02  E-value=0.035  Score=54.88  Aligned_cols=24  Identities=42%  Similarity=0.540  Sum_probs=20.0

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ..+|.++|++|+||||++..++..
T Consensus       100 p~vI~~vG~~GsGKTTtaakLA~~  123 (433)
T PRK10867        100 PTVIMMVGLQGAGKTTTAGKLAKY  123 (433)
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHH
Confidence            479999999999999977666543

>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.00  E-value=0.3  Score=45.00  Aligned_cols=96  Identities=19%  Similarity=0.251  Sum_probs=57.3

Q ss_pred             cccccchhHHHHHHHHhcCC------CCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHH
Q 047559          185 AVFGRQQDKAKMLEMVLTDT------SSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLN  258 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~------~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~  258 (444)
                      ++.|-+..++.|.+...-+-      .+....-+-|.++|++|.||+.||+.|.....        ..|++||...    
T Consensus       134 DVAGLE~AKeALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLAKAVATEAn--------STFFSvSSSD----  201 (439)
T KOG0739|consen  134 DVAGLEGAKEALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLAKAVATEAN--------STFFSVSSSD----  201 (439)
T ss_pred             hhccchhHHHHHHhheeecccchhhhcCCCCcceeEEEeCCCCCcHHHHHHHHHhhcC--------CceEEeehHH----
Confidence            46666666666665432211      01114468899999999999999999997642        2345555421    


Q ss_pred             HHHHHHHHhccCCCCcccHHHHHHHHHHHh-CCceEEEEEeCCCC
Q 047559          259 ISRALLESITFASCDLKALNEVQVQIKRAV-DGKKLLLVLDDVWN  302 (444)
Q Consensus       259 ~~~~il~~l~~~~~~~~~~~~~~~~l~~~l-~~kr~LlVlDdv~~  302 (444)
                          +.+...+      ..+.+...|.+.. ..|+-+|++|.++.
T Consensus       202 ----LvSKWmG------ESEkLVknLFemARe~kPSIIFiDEiDs  236 (439)
T KOG0739|consen  202 ----LVSKWMG------ESEKLVKNLFEMARENKPSIIFIDEIDS  236 (439)
T ss_pred             ----HHHHHhc------cHHHHHHHHHHHHHhcCCcEEEeehhhh
Confidence                1111111      1123444444444 56889999999965

>PRK06936 type III secretion system ATPase; Provisional

Probab=96.00  E-value=0.028  Score=55.37  Aligned_cols=85  Identities=24%  Similarity=0.329  Sum_probs=53.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCC-CHHHHHHHHHHHhccC-------CCCcccHHH----
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDF-DVLNISRALLESITFA-------SCDLKALNE----  279 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~-~~~~~~~~il~~l~~~-------~~~~~~~~~----  279 (444)
                      ..++|+|..|+|||||.+.+++..     ..+.++++-++... .+.++....+..-...       ..+.+....    
T Consensus       163 q~~~I~G~sG~GKStLl~~Ia~~~-----~~dv~V~~liGERgrEv~ef~~~~l~~~~l~rtvvv~atsd~p~~~R~~a~  237 (439)
T PRK06936        163 QRMGIFAAAGGGKSTLLASLIRSA-----EVDVTVLALIGERGREVREFIESDLGEEGLRKAVLVVATSDRPSMERAKAG  237 (439)
T ss_pred             CEEEEECCCCCChHHHHHHHhcCC-----CCCEEEEEEEccCcHHHHHHHHHHhcccccceeEEEEECCCCCHHHHHHHH
Confidence            689999999999999999998863     44677788777654 4445554433321110       111111111    


Q ss_pred             -HHHHHHHHh--CCceEEEEEeCCC
Q 047559          280 -VQVQIKRAV--DGKKLLLVLDDVW  301 (444)
Q Consensus       280 -~~~~l~~~l--~~kr~LlVlDdv~  301 (444)
                       ....+.+++  +++++|+++||+-
T Consensus       238 ~~a~tiAEyfrd~G~~Vll~~DslT  262 (439)
T PRK06936        238 FVATSIAEYFRDQGKRVLLLMDSVT  262 (439)
T ss_pred             HHHHHHHHHHHHcCCCEEEeccchh
Confidence             122355555  6899999999994

>PRK09099 type III secretion system ATPase; Provisional

Probab=96.00  E-value=0.031  Score=55.25  Aligned_cols=86  Identities=21%  Similarity=0.188  Sum_probs=50.7

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccC-------CCCcccHH-----H
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFA-------SCDLKALN-----E  279 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~-------~~~~~~~~-----~  279 (444)
                      ..++|.|..|+|||||++.+......    -..+++...-+...+.++.+.+...-...       ..+.+...     .
T Consensus       164 q~~~I~G~sG~GKTtLl~~ia~~~~~----d~~vi~~iGer~~ev~ef~~~~~~~~~l~rtvvv~~tsd~p~~~r~~a~~  239 (441)
T PRK09099        164 QRMGIFAPAGVGKSTLMGMFARGTQC----DVNVIALIGERGREVREFIELILGEDGMARSVVVCATSDRSSIERAKAAY  239 (441)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCC----CeEEEEEEccChHHHHHHHHHHhhcCCcceEEEEEECCCCCHHHHHHHHH
Confidence            68999999999999999999865321    12344433334445555555554432111       11111111     1


Q ss_pred             HHHHHHHHh--CCceEEEEEeCCC
Q 047559          280 VQVQIKRAV--DGKKLLLVLDDVW  301 (444)
Q Consensus       280 ~~~~l~~~l--~~kr~LlVlDdv~  301 (444)
                      ....+.+++  +++++|+++||+-
T Consensus       240 ~a~tiAEyfrd~G~~VLl~~DslT  263 (441)
T PRK09099        240 VATAIAEYFRDRGLRVLLMMDSLT  263 (441)
T ss_pred             HHHHHHHHHHHcCCCEEEeccchh
Confidence            222355555  6889999999993

>cd03250 ABCC_MRP_domain1 Domain 1 of the ABC subfamily C

Probab=95.99  E-value=0.093  Score=46.53  Aligned_cols=24  Identities=29%  Similarity=0.564  Sum_probs=21.7

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+++|.|+.|.|||||++.+..-.
T Consensus        32 ~~~~i~G~nG~GKSTLl~~i~G~~   55 (204)
T cd03250          32 ELVAIVGPVGSGKSSLLSALLGEL   55 (204)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCcC
Confidence            689999999999999999998754

This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.

>PRK13948 shikimate kinase; Provisional

Probab=95.99  E-value=0.093  Score=45.55  Aligned_cols=25  Identities=20%  Similarity=0.458  Sum_probs=22.2

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ...|.++|+.|+||||+++.+.+..
T Consensus        10 ~~~I~LiG~~GsGKSTvg~~La~~l   34 (182)
T PRK13948         10 VTWVALAGFMGTGKSRIGWELSRAL   34 (182)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHc
Confidence            3689999999999999999998764

>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=95.96  E-value=0.017  Score=48.63  Aligned_cols=20  Identities=35%  Similarity=0.489  Sum_probs=18.3

Q ss_pred             EEecCCChHHHHHHHHhhcc
Q 047559          216 IVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       216 I~G~~GiGKTtLa~~v~~~~  235 (444)
                      |+|++|+||||+|+.+....
T Consensus         1 i~G~PgsGK~t~~~~la~~~   20 (151)
T PF00406_consen    1 ILGPPGSGKGTQAKRLAKRY   20 (151)
T ss_dssp             EEESTTSSHHHHHHHHHHHH
T ss_pred             CcCCCCCChHHHHHHHHHhc
Confidence            78999999999999999864

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 ....

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

Probab=95.95  E-value=0.021  Score=47.94  Aligned_cols=23  Identities=39%  Similarity=0.628  Sum_probs=20.5

Q ss_pred             EEEEEecCCChHHHHHHHHhhcc
Q 047559          213 VIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ++.|+|.+|+||||||+.+....
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~~l   23 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEKL   23 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHH
Confidence            57899999999999999998764

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

>PRK13647 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=95.95  E-value=0.062  Score=50.14  Aligned_cols=23  Identities=26%  Similarity=0.380  Sum_probs=21.1

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|..|.|||||++.+..-
T Consensus        32 e~~~i~G~nGsGKSTLl~~l~Gl   54 (274)
T PRK13647         32 SKTALLGPNGAGKSTLLLHLNGI   54 (274)
T ss_pred             CEEEEECCCCCcHHHHHHHHhcC
Confidence            69999999999999999999854

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=95.94  E-value=0.011  Score=48.31  Aligned_cols=69  Identities=20%  Similarity=0.301  Sum_probs=40.1

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGK  291 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  291 (444)
                      .-|.|.|.+|+|||||+.++......        -|+++|+-.....+....=+..   ....-+.+.+...|..++.+.
T Consensus         8 PNILvtGTPG~GKstl~~~lae~~~~--------~~i~isd~vkEn~l~~gyDE~y---~c~i~DEdkv~D~Le~~m~~G   76 (176)
T KOG3347|consen    8 PNILVTGTPGTGKSTLAERLAEKTGL--------EYIEISDLVKENNLYEGYDEEY---KCHILDEDKVLDELEPLMIEG   76 (176)
T ss_pred             CCEEEeCCCCCCchhHHHHHHHHhCC--------ceEehhhHHhhhcchhcccccc---cCccccHHHHHHHHHHHHhcC
Confidence            45889999999999999999865322        3677665332222221111111   112345566666777666443

>PRK13537 nodulation ABC transporter NodI; Provisional

Probab=95.92  E-value=0.072  Score=50.57  Aligned_cols=23  Identities=30%  Similarity=0.404  Sum_probs=21.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|.|+.|.|||||.+.+..-
T Consensus        34 ei~gllGpNGaGKSTLl~~l~Gl   56 (306)
T PRK13537         34 ECFGLLGPNGAGKTTTLRMLLGL   56 (306)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcC
Confidence            58999999999999999999864

>COG4133 CcmA ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]

Probab=95.92  E-value=0.085  Score=45.21  Aligned_cols=52  Identities=23%  Similarity=0.193  Sum_probs=31.3

Q ss_pred             HHHHHHHhCCceEEEEEeCCCCC-ChhcHHHhhcccC-CCCCCcEEEEecCChH
Q 047559          281 QVQIKRAVDGKKLLLVLDDVWNE-DYCLWEDLKAPFL-AAAPNSKIIVTTRHAH  332 (444)
Q Consensus       281 ~~~l~~~l~~kr~LlVlDdv~~~-~~~~~~~l~~~l~-~~~~gs~iivTTr~~~  332 (444)
                      .-.+.+..-.++-|.+||+.... +...-..+...+. +...|..||.||-.+.
T Consensus       138 RvAlArL~ls~~pLWiLDEP~taLDk~g~a~l~~l~~~H~~~GGiVllttHq~l  191 (209)
T COG4133         138 RVALARLWLSPAPLWILDEPFTALDKEGVALLTALMAAHAAQGGIVLLTTHQPL  191 (209)
T ss_pred             HHHHHHHHcCCCCceeecCcccccCHHHHHHHHHHHHHHhcCCCEEEEecCCcc
Confidence            33456666788999999998543 2222222222222 3456778999987553

>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=95.89  E-value=0.024  Score=53.46  Aligned_cols=85  Identities=20%  Similarity=0.176  Sum_probs=51.0

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCC-----CcccHHHHHHHH
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASC-----DLKALNEVQVQI  284 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~-----~~~~~~~~~~~l  284 (444)
                      .-+++-|+|+.|+||||||..+.....  . .-..++|+.....++...     ++.++....     .+...++....+
T Consensus        52 ~G~ivEi~G~~ssGKttLaL~~ia~~q--~-~g~~~a~ID~e~~ld~~~-----a~~lGvdl~rllv~~P~~~E~al~~~  123 (322)
T PF00154_consen   52 RGRIVEIYGPESSGKTTLALHAIAEAQ--K-QGGICAFIDAEHALDPEY-----AESLGVDLDRLLVVQPDTGEQALWIA  123 (322)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHH--H-TT-EEEEEESSS---HHH-----HHHTT--GGGEEEEE-SSHHHHHHHH
T ss_pred             cCceEEEeCCCCCchhhhHHHHHHhhh--c-ccceeEEecCcccchhhH-----HHhcCccccceEEecCCcHHHHHHHH
Confidence            347999999999999999998886532  2 345788999888776543     333333211     122334445555


Q ss_pred             HHHhC-CceEEEEEeCCCC
Q 047559          285 KRAVD-GKKLLLVLDDVWN  302 (444)
Q Consensus       285 ~~~l~-~kr~LlVlDdv~~  302 (444)
                      ..+++ +.--++|+|.|-.
T Consensus       124 e~lirsg~~~lVVvDSv~a  142 (322)
T PF00154_consen  124 EQLIRSGAVDLVVVDSVAA  142 (322)
T ss_dssp             HHHHHTTSESEEEEE-CTT
T ss_pred             HHHhhcccccEEEEecCcc
Confidence            55554 3445899999855

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 ....

>TIGR03496 FliI_clade1 flagellar protein export ATPase FliI

Probab=95.89  E-value=0.043  Score=53.94  Aligned_cols=85  Identities=24%  Similarity=0.255  Sum_probs=49.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCC-CCHHHHHHHHHHHhcc-------CCCCcccHH-----
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDD-FDVLNISRALLESITF-------ASCDLKALN-----  278 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~-~~~~~~~~~il~~l~~-------~~~~~~~~~-----  278 (444)
                      ..++|+|..|.|||||++.+....     ..+..+...+... -...++...+...-..       ...+.+...     
T Consensus       138 q~~~I~G~sG~GKTtLl~~I~~~~-----~~~~~vi~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~tsd~~~~~r~~a~  212 (411)
T TIGR03496       138 QRMGIFAGSGVGKSTLLGMMARYT-----EADVVVVGLIGERGREVKEFIEDILGEEGLARSVVVAATADESPLMRLRAA  212 (411)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCC-----CCCEEEEEEEecChHHHHHHHHHHhhCCCcceEEEEEECCCCCHHHHHHHH
Confidence            579999999999999999888653     2334444555543 3344444444432110       111111111     


Q ss_pred             HHHHHHHHHh--CCceEEEEEeCCC
Q 047559          279 EVQVQIKRAV--DGKKLLLVLDDVW  301 (444)
Q Consensus       279 ~~~~~l~~~l--~~kr~LlVlDdv~  301 (444)
                      .....+.+++  +++++||++||+-
T Consensus       213 ~~a~tiAEyfr~~G~~Vll~~Dslt  237 (411)
T TIGR03496       213 FYATAIAEYFRDQGKDVLLLMDSLT  237 (411)
T ss_pred             HHHHHHHHHHHHCCCCEEEEEeChH
Confidence            1222345555  6889999999993

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.

>cd03253 ABCC_ATM1_transporter ATM1 is an ABC transporter that is expressed in the mitochondria

Probab=95.89  E-value=0.071  Score=48.46  Aligned_cols=54  Identities=19%  Similarity=0.211  Sum_probs=32.3

Q ss_pred             HHHHHhCCceEEEEEeCCCC-CChhcHHHhhcccCCCCCCcEEEEecCChHHHhh
Q 047559          283 QIKRAVDGKKLLLVLDDVWN-EDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAAT  336 (444)
Q Consensus       283 ~l~~~l~~kr~LlVlDdv~~-~~~~~~~~l~~~l~~~~~gs~iivTTr~~~va~~  336 (444)
                      .+...+-.++-+|+||+..+ .+......+...+.....|..||++|.+......
T Consensus       147 ~la~aL~~~p~llllDEP~~~LD~~~~~~l~~~l~~~~~~~tiii~sh~~~~~~~  201 (236)
T cd03253         147 AIARAILKNPPILLLDEATSALDTHTEREIQAALRDVSKGRTTIVIAHRLSTIVN  201 (236)
T ss_pred             HHHHHHhcCCCEEEEeCCcccCCHHHHHHHHHHHHHhcCCCEEEEEcCCHHHHHh
Confidence            35556667778999999854 2333334444444332226678888887766543

Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to mitochondrial DNA, and decreased levels of cytosolic heme proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK05922 type III secretion system ATPase; Validated

Probab=95.87  E-value=0.039  Score=54.33  Aligned_cols=86  Identities=15%  Similarity=0.247  Sum_probs=50.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCC-CCCHHHHHHHHHHHhccCC-------CCcccHH-----
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSD-DFDVLNISRALLESITFAS-------CDLKALN-----  278 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~-~~~~~~~~~~il~~l~~~~-------~~~~~~~-----  278 (444)
                      ..++|+|..|+|||||.+.+....     ..+....+.++. .....+++.+.........       .+.+...     
T Consensus       158 qrigI~G~nG~GKSTLL~~Ia~~~-----~~d~gvi~liGerg~ev~eyl~q~~~~~~~~rTVlv~atsd~~~~~r~~a~  232 (434)
T PRK05922        158 QRIGVFSEPGSGKSSLLSTIAKGS-----KSTINVIALIGERGREVREYIEQHKEGLAAQRTIIIASPAHETAPTKVIAG  232 (434)
T ss_pred             cEEEEECCCCCChHHHHHHHhccC-----CCCceEEEEeCCCCchHHHHHHHHHhhccccceEEEEECCCCCHHHHHHHH
Confidence            579999999999999999998763     233444444443 2334455555443322211       1111111     


Q ss_pred             HHHHHHHHHh--CCceEEEEEeCCCC
Q 047559          279 EVQVQIKRAV--DGKKLLLVLDDVWN  302 (444)
Q Consensus       279 ~~~~~l~~~l--~~kr~LlVlDdv~~  302 (444)
                      .....+.+++  +++++|+++||+-.
T Consensus       233 ~~a~tiAEyfrd~G~~VLl~~DslTR  258 (434)
T PRK05922        233 RAAMTIAEYFRDQGHRVLFIMDSLSR  258 (434)
T ss_pred             HHHHHHHHHHHHcCCCEEEeccchhH
Confidence            1223455666  68899999999933

>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=95.87  E-value=0.033  Score=48.88  Aligned_cols=22  Identities=32%  Similarity=0.430  Sum_probs=19.9

Q ss_pred             EEEEecCCChHHHHHHHHhhcc
Q 047559          214 IPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      |.|.|++|+||||+|+.+....
T Consensus         2 I~i~G~pGsGKst~a~~La~~~   23 (194)
T cd01428           2 ILLLGPPGSGKGTQAERLAKKY   23 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            7899999999999999998763

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>PRK14974 cell division protein FtsY; Provisional

Probab=95.85  E-value=0.069  Score=51.06  Aligned_cols=26  Identities=35%  Similarity=0.381  Sum_probs=22.0

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhcc
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ...++.++|++|+||||++..++...
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~~l  164 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAYYL  164 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHH
Confidence            35799999999999999888887654

>cd03300 ABC_PotA_N PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D

Probab=95.85  E-value=0.06  Score=48.85  Aligned_cols=24  Identities=33%  Similarity=0.479  Sum_probs=21.7

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+++|+|..|.|||||.+.+....
T Consensus        27 e~~~i~G~nGsGKSTLl~~l~g~~   50 (232)
T cd03300          27 EFFTLLGPSGCGKTTLLRLIAGFE   50 (232)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            699999999999999999998653

PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required for homodimerization with PotA and heterdimerization with PotB. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=95.85  E-value=0.0053  Score=48.33  Aligned_cols=22  Identities=50%  Similarity=0.690  Sum_probs=19.2

Q ss_pred             EEEEecCCChHHHHHHHHhhcc
Q 047559          214 IPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      |.|+|.+|+|||+||+.+..+.
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            4689999999999999987663

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

>TIGR01351 adk adenylate kinases

Probab=95.85  E-value=0.024  Score=50.62  Aligned_cols=22  Identities=27%  Similarity=0.475  Sum_probs=19.7

Q ss_pred             EEEEecCCChHHHHHHHHhhcc
Q 047559          214 IPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      |.|.|++|+||||+|+.+....
T Consensus         2 I~i~G~pGsGKsT~a~~La~~~   23 (210)
T TIGR01351         2 LVLLGPPGSGKGTQAKRIAEKY   23 (210)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            6889999999999999998754

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.

>PRK12597 F0F1 ATP synthase subunit beta; Provisional

Probab=95.85  E-value=0.026  Score=56.05  Aligned_cols=87  Identities=18%  Similarity=0.234  Sum_probs=56.4

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCC-CHHHHHHHHHHHhccC-------CCCcccHH-----
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDF-DVLNISRALLESITFA-------SCDLKALN-----  278 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~-~~~~~~~~il~~l~~~-------~~~~~~~~-----  278 (444)
                      .-++|+|.+|+|||||+..+..... +. +-+.++++-++... .+.+++..+...-...       ..+.+...     
T Consensus       144 QR~gIfa~~G~GKt~Ll~~~~~~~~-~~-~~dv~V~~liGER~rEv~ef~~~~~~~~~l~rsvvv~atsd~~~~~R~~a~  221 (461)
T PRK12597        144 GKTGLFGGAGVGKTVLMMELIFNIS-KQ-HSGSSVFAGVGERSREGHELYHEMKESGVLDKTVMVYGQMNEPPGARMRVV  221 (461)
T ss_pred             CEEEeecCCCCChhHHHHHHHHHHH-hh-CCCEEEEEcCCcchHHHHHHHHHHHhcCCcceeEEEecCCCCCHHHHHHHH
Confidence            5799999999999999988887643 22 56788888777643 4556666665432111       11111111     


Q ss_pred             HHHHHHHHHh--C-CceEEEEEeCC
Q 047559          279 EVQVQIKRAV--D-GKKLLLVLDDV  300 (444)
Q Consensus       279 ~~~~~l~~~l--~-~kr~LlVlDdv  300 (444)
                      .....+.+++  + ++++|+++|++
T Consensus       222 ~~a~tiAEyfrd~~G~~VLl~~Dsl  246 (461)
T PRK12597        222 LTGLTIAEYLRDEEKEDVLLFIDNI  246 (461)
T ss_pred             HHHHHHHHHHHHhcCCceEEEeccc
Confidence            1233456666  3 89999999999

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=95.82  E-value=0.027  Score=48.28  Aligned_cols=79  Identities=14%  Similarity=0.137  Sum_probs=43.0

Q ss_pred             EEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCC--c
Q 047559          214 IPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDG--K  291 (444)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~--k  291 (444)
                      +.|.|.+|+|||++|.++...      .....+++.-...++.+ +...|.+ .....+......+....+.+.+..  +
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~------~~~~~~y~at~~~~d~e-m~~rI~~-H~~~R~~~w~t~E~~~~l~~~l~~~~~   73 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAE------LGGPVTYIATAEAFDDE-MAERIAR-HRKRRPAHWRTIETPRDLVSALKELDP   73 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHh------cCCCeEEEEccCcCCHH-HHHHHHH-HHHhCCCCceEeecHHHHHHHHHhcCC
Confidence            679999999999999998754      22355666666666542 3333322 111112212222222233443321  2


Q ss_pred             eEEEEEeCC
Q 047559          292 KLLLVLDDV  300 (444)
Q Consensus       292 r~LlVlDdv  300 (444)
                      .-.+++|.+
T Consensus        74 ~~~VLIDcl   82 (169)
T cd00544          74 GDVVLIDCL   82 (169)
T ss_pred             CCEEEEEcH
Confidence            337999997

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.

>PRK11160 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=95.82  E-value=0.083  Score=54.95  Aligned_cols=23  Identities=26%  Similarity=0.488  Sum_probs=21.1

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ..++|+|+.|.|||||++.+...
T Consensus       367 ~~~aivG~sGsGKSTL~~ll~g~  389 (574)
T PRK11160        367 EKVALLGRTGCGKSTLLQLLTRA  389 (574)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            68999999999999999999764

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=95.81  E-value=0.021  Score=51.62  Aligned_cols=66  Identities=23%  Similarity=0.203  Sum_probs=39.8

Q ss_pred             hHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHH
Q 047559          192 DKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRA  262 (444)
Q Consensus       192 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~  262 (444)
                      +..++++.+....    .+..+|+|.|+||.|||||...+....+.++ +--.++=|.-|.+++--.++-+
T Consensus        14 ~~~~ll~~l~~~~----g~a~~iGiTG~PGaGKSTli~~l~~~~~~~g-~~VaVlAVDPSSp~tGGAlLGD   79 (266)
T PF03308_consen   14 EARELLKRLYPHT----GRAHVIGITGPPGAGKSTLIDALIRELRERG-KRVAVLAVDPSSPFTGGALLGD   79 (266)
T ss_dssp             HHHHHHHHHGGGT----T-SEEEEEEE-TTSSHHHHHHHHHHHHHHTT---EEEEEE-GGGGCC---SS--
T ss_pred             HHHHHHHHHHhhc----CCceEEEeeCCCCCcHHHHHHHHHHHHhhcC-CceEEEEECCCCCCCCCccccc
Confidence            4556666665433    3458999999999999999999887765444 4445555666666665555443

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.

>TIGR01818 ntrC nitrogen regulation protein NR(I)

Probab=95.81  E-value=0.14  Score=51.78  Aligned_cols=134  Identities=13%  Similarity=0.097  Sum_probs=69.5

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHH
Q 047559          185 AVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALL  264 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il  264 (444)
                      .++|......++...+..-..    ....+.|.|..|+||+++|+.+......   .....+-++++.-  ..+.+...+
T Consensus       135 ~lig~s~~~~~v~~~i~~~a~----~~~~vli~Ge~GtGK~~~A~~ih~~~~~---~~~~~~~~~c~~~--~~~~~~~~l  205 (463)
T TIGR01818       135 ELIGEAPAMQEVFRAIGRLSR----SDITVLINGESGTGKELVARALHRHSPR---ANGPFIALNMAAI--PKDLIESEL  205 (463)
T ss_pred             ceeecCHHHHHHHHHHHHHhC----cCCeEEEECCCCCCHHHHHHHHHHhCCC---CCCCeEEEeCCCC--CHHHHHHHh
Confidence            477777666777666544221    1246789999999999999999875321   1122233343332  233333332


Q ss_pred             HHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCC-----------CCcEEEEecCCh
Q 047559          265 ESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAA-----------PNSKIIVTTRHA  331 (444)
Q Consensus       265 ~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~iivTTr~~  331 (444)
                        ++..........  .......-....-.|+||++.......+..+...+..+.           .+.+||+||...
T Consensus       206 --fg~~~~~~~~~~--~~~~g~~~~a~~gtl~l~ei~~l~~~~q~~ll~~l~~~~~~~~~~~~~~~~~~rii~~~~~~  279 (463)
T TIGR01818       206 --FGHEKGAFTGAN--TRRQGRFEQADGGTLFLDEIGDMPLDAQTRLLRVLADGEFYRVGGRTPIKVDVRIVAATHQN  279 (463)
T ss_pred             --cCCCCCCCCCcc--cCCCCcEEECCCCeEEEEchhhCCHHHHHHHHHHHhcCcEEECCCCceeeeeeEEEEeCCCC
Confidence              111100000000  000000111223458899998876666666665554321           245888888654

This model represents NtrC, a DNA-binding response regulator that is phosphorylated by NtrB and interacts with sigma-54. NtrC usually controls the expression of glutamine synthase, GlnA, and may be called GlnL, GlnG, etc.

>TIGR03411 urea_trans_UrtD urea ABC transporter, ATP-binding protein UrtD

Probab=95.80  E-value=0.094  Score=47.89  Aligned_cols=23  Identities=30%  Similarity=0.466  Sum_probs=21.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|..|.|||||.+.+...
T Consensus        29 e~~~l~G~nGsGKSTLl~~l~G~   51 (242)
T TIGR03411        29 ELRVIIGPNGAGKTTMMDVITGK   51 (242)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999999854

Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.

>cd01132 F1_ATPase_alpha F1 ATP synthase alpha, central domain

Probab=95.80  E-value=0.057  Score=49.69  Aligned_cols=95  Identities=19%  Similarity=0.279  Sum_probs=53.6

Q ss_pred             eEEEEEecCCChHHHHH-HHHhhccccccCCccee-EEEEeCCCC-CHHHHHHHHHHHhccC-------CCCcccHHH--
Q 047559          212 AVIPIVGMAGVGKTTLA-REVYNDRAVEDSKFDVK-AWVCVSDDF-DVLNISRALLESITFA-------SCDLKALNE--  279 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa-~~v~~~~~~~~~~f~~~-~wv~vs~~~-~~~~~~~~il~~l~~~-------~~~~~~~~~--  279 (444)
                      .-+.|+|.+|+|||+|| ..+.+..     +-+.. +++-++... ...++.+.+...-...       ..+......  
T Consensus        70 Qr~~Ifg~~g~GKt~L~l~~i~~~~-----~~~v~~V~~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~  144 (274)
T cd01132          70 QRELIIGDRQTGKTAIAIDTIINQK-----GKKVYCIYVAIGQKASTVAQVVKTLEEHGAMEYTIVVAATASDPAPLQYL  144 (274)
T ss_pred             CEEEeeCCCCCCccHHHHHHHHHhc-----CCCeEEEEEecccchHHHHHHHHHHHhcCccceeEEEEeCCCCchhHHHH
Confidence            57899999999999995 5565542     23444 667776654 4555666555321110       111111111  


Q ss_pred             ---HHHHHHHHh--CCceEEEEEeCCCCCChhcHHHhh
Q 047559          280 ---VQVQIKRAV--DGKKLLLVLDDVWNEDYCLWEDLK  312 (444)
Q Consensus       280 ---~~~~l~~~l--~~kr~LlVlDdv~~~~~~~~~~l~  312 (444)
                         ..-.+.+++  +++.+||++||+-.. ...|.++.
T Consensus       145 a~~~a~aiAE~fr~~G~~Vlvl~DslTr~-A~A~rEis  181 (274)
T cd01132         145 APYTGCAMGEYFMDNGKHALIIYDDLSKQ-AVAYRQMS  181 (274)
T ss_pred             HHHHHHHHHHHHHHCCCCEEEEEcChHHH-HHHHHHHH
Confidence               122344444  688999999999332 12344443

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.

>PTZ00185 ATPase alpha subunit; Provisional

Probab=95.79  E-value=0.061  Score=53.61  Aligned_cols=90  Identities=21%  Similarity=0.212  Sum_probs=54.1

Q ss_pred             eEEEEEecCCChHHHHH-HHHhhccccc-----cCCcceeEEEEeCCCCCHHHHHHHHHHHhccCC--------CCcccH
Q 047559          212 AVIPIVGMAGVGKTTLA-REVYNDRAVE-----DSKFDVKAWVCVSDDFDVLNISRALLESITFAS--------CDLKAL  277 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa-~~v~~~~~~~-----~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~--------~~~~~~  277 (444)
                      .-+.|.|-.|+|||+|| ..+.+...+.     + +-+.++++-+++......-+...++.-+.-.        .+.+..
T Consensus       190 QR~lIfGd~GtGKTtLAld~IinQ~~~~~~~~~~-~~~v~VyvaIGeR~rEV~ei~~~L~e~GaL~~TvVV~AtAdep~~  268 (574)
T PTZ00185        190 QRELIVGDRQTGKTSIAVSTIINQVRINQQILSK-NAVISIYVSIGQRCSNVARIHRLLRSYGALRYTTVMAATAAEPAG  268 (574)
T ss_pred             CEEEeecCCCCChHHHHHHHHHhhhhhccccccC-CCCEEEEEEeccchHHHHHHHHHHHhcCCccceEEEEECCCCCHH
Confidence            57899999999999997 6666664221     2 4467888888887644333444444433110        111111


Q ss_pred             HH-----HHHHHHHHh--CCceEEEEEeCCCC
Q 047559          278 NE-----VQVQIKRAV--DGKKLLLVLDDVWN  302 (444)
Q Consensus       278 ~~-----~~~~l~~~l--~~kr~LlVlDdv~~  302 (444)
                      ..     ..-.+.+++  +++.+|||+||+-.
T Consensus       269 ~r~~Apy~a~tiAEYFrd~GkdVLiv~DDLTr  300 (574)
T PTZ00185        269 LQYLAPYSGVTMGEYFMNRGRHCLCVYDDLSK  300 (574)
T ss_pred             HHHHHHHHHHHHHHHHHHcCCCEEEEEcCchH
Confidence            11     122344555  68899999999944

>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=95.79  E-value=0.0087  Score=50.23  Aligned_cols=25  Identities=44%  Similarity=0.527  Sum_probs=22.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRA  236 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~  236 (444)
                      .+|.|.|.+|+||||||+.+.....
T Consensus         3 ~vIwltGlsGsGKtTlA~~L~~~L~   27 (156)
T PF01583_consen    3 FVIWLTGLSGSGKTTLARALERRLF   27 (156)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHH
Confidence            6899999999999999999998754

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 ....

>cd03240 ABC_Rad50 The catalytic domains of Rad50 are similar to the ATP-binding cassette of ABC transporters, but are not associated with membrane-spanning domains

Probab=95.79  E-value=0.077  Score=47.08  Aligned_cols=52  Identities=19%  Similarity=0.178  Sum_probs=31.3

Q ss_pred             HHHHhCCceEEEEEeCCCCC-ChhcHH-HhhcccCCC-CC-CcEEEEecCChHHHh
Q 047559          284 IKRAVDGKKLLLVLDDVWNE-DYCLWE-DLKAPFLAA-AP-NSKIIVTTRHAHVAA  335 (444)
Q Consensus       284 l~~~l~~kr~LlVlDdv~~~-~~~~~~-~l~~~l~~~-~~-gs~iivTTr~~~va~  335 (444)
                      +...+..++-++++|+.-.. +..... .+...+... .. |..||++|.+.....
T Consensus       132 la~al~~~p~illlDEP~~~LD~~~~~~~l~~~l~~~~~~~~~~iiiitH~~~~~~  187 (204)
T cd03240         132 LAETFGSNCGILALDEPTTNLDEENIEESLAEIIEERKSQKNFQLIVITHDEELVD  187 (204)
T ss_pred             HHHHhccCCCEEEEcCCccccCHHHHHHHHHHHHHHHHhccCCEEEEEEecHHHHh
Confidence            45566677889999998442 333334 344444332 22 567888888776654

The conserved ATP-binding motifs common to Rad50 and the ABC transporter family include the Walker A and Walker B motifs, the Q loop, a histidine residue in the switch region, a D-loop, and a conserved LSGG sequence. This conserved sequence, LSGG, is the most specific and characteristic motif of this family and is thus known as the ABC signature sequence.

>PRK00131 aroK shikimate kinase; Reviewed

Probab=95.79  E-value=0.0076  Score=51.87  Aligned_cols=25  Identities=28%  Similarity=0.440  Sum_probs=22.4

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ...|.|+|++|+||||+|+.+....
T Consensus         4 ~~~i~l~G~~GsGKstla~~La~~l   28 (175)
T PRK00131          4 GPNIVLIGFMGAGKSTIGRLLAKRL   28 (175)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHh
Confidence            3689999999999999999998864

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=95.78  E-value=0.074  Score=54.75  Aligned_cols=24  Identities=29%  Similarity=0.339  Sum_probs=21.4

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..++|+|+.|.|||||++.+..-.
T Consensus       362 ~~vaIvG~SGsGKSTLl~lL~g~~  385 (529)
T TIGR02868       362 ERVAILGPSGSGKSTLLMLLTGLL  385 (529)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            689999999999999999997543

The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex.

>PRK09280 F0F1 ATP synthase subunit beta; Validated

Probab=95.78  E-value=0.048  Score=54.05  Aligned_cols=88  Identities=23%  Similarity=0.316  Sum_probs=55.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCC-CHHHHHHHHHHHhccC-------CCCcccHH-----
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDF-DVLNISRALLESITFA-------SCDLKALN-----  278 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~-~~~~~~~~il~~l~~~-------~~~~~~~~-----  278 (444)
                      .-++|+|.+|+|||||+..+.......  +-+.++++-++... .+.+++..+...-...       ..+.+...     
T Consensus       145 QR~gIfa~~GvGKt~Ll~~i~~~~~~~--~~~v~V~~liGER~rEv~efi~~~~~~~~l~rsvvV~atsd~p~~~r~~a~  222 (463)
T PRK09280        145 GKIGLFGGAGVGKTVLIQELINNIAKE--HGGYSVFAGVGERTREGNDLYHEMKESGVLDKTALVFGQMNEPPGARLRVA  222 (463)
T ss_pred             CEEEeecCCCCChhHHHHHHHHHHHhc--CCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHHH
Confidence            578999999999999999887653222  23467777776654 4566666666432111       11221211     


Q ss_pred             HHHHHHHHHh---CCceEEEEEeCCC
Q 047559          279 EVQVQIKRAV---DGKKLLLVLDDVW  301 (444)
Q Consensus       279 ~~~~~l~~~l---~~kr~LlVlDdv~  301 (444)
                      .....+.+++   +++++||++|++-
T Consensus       223 ~~a~tiAEyfrd~~G~~VLll~DslT  248 (463)
T PRK09280        223 LTGLTMAEYFRDVEGQDVLLFIDNIF  248 (463)
T ss_pred             HHHHHHHHHHHHhcCCceEEEecchH
Confidence            1223456666   6789999999993

>PRK04040 adenylate kinase; Provisional

Probab=95.78  E-value=0.008  Score=52.57  Aligned_cols=24  Identities=33%  Similarity=0.585  Sum_probs=21.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+|.|+|++|+||||+++.+.+..
T Consensus         3 ~~i~v~G~pG~GKtt~~~~l~~~l   26 (188)
T PRK04040          3 KVVVVTGVPGVGKTTVLNKALEKL   26 (188)
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHh
Confidence            689999999999999999998764

>TIGR03497 FliI_clade2 flagellar protein export ATPase FliI

Probab=95.78  E-value=0.043  Score=53.95  Aligned_cols=85  Identities=24%  Similarity=0.285  Sum_probs=49.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCC-CCHHHHHHHHHHHhccC-------CCCcccHH-----
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDD-FDVLNISRALLESITFA-------SCDLKALN-----  278 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~-~~~~~~~~~il~~l~~~-------~~~~~~~~-----  278 (444)
                      ..++|+|..|.|||||++.+.....     .+..+..-++.. -...++....+.+-+..       ..+.+...     
T Consensus       138 qri~I~G~sG~GKTtLl~~i~~~~~-----~~~gvi~~~Ger~~ev~e~~~~~l~~~~~~~~v~v~~tsd~~~~~r~~~~  212 (413)
T TIGR03497       138 QRVGIFAGSGVGKSTLLGMIARNAK-----ADINVIALIGERGREVRDFIEKDLGEEGLKRSVVVVATSDQPALMRLKAA  212 (413)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCC-----CCeEEEEEEccchHHHHHHHHHHhcccccceEEEEEECCCCCHHHHHHHH
Confidence            6899999999999999998887532     222333334433 24445555444321111       11111111     


Q ss_pred             HHHHHHHHHh--CCceEEEEEeCCC
Q 047559          279 EVQVQIKRAV--DGKKLLLVLDDVW  301 (444)
Q Consensus       279 ~~~~~l~~~l--~~kr~LlVlDdv~  301 (444)
                      .....+.+++  +++++||++||+-
T Consensus       213 ~~a~tiAEyfr~~G~~Vll~~Dslt  237 (413)
T TIGR03497       213 FTATAIAEYFRDQGKDVLLMMDSVT  237 (413)
T ss_pred             HHHHHHHHHHHHCCCCEEEEEcCcH
Confidence            1223455555  6889999999983

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.

>TIGR00968 3a0106s01 sulfate ABC transporter, ATP-binding protein

Probab=95.76  E-value=0.063  Score=48.89  Aligned_cols=23  Identities=30%  Similarity=0.547  Sum_probs=21.1

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|..|.|||||.+.+...
T Consensus        27 e~~~l~G~nGsGKSTLl~~i~G~   49 (237)
T TIGR00968        27 SLVALLGPSGSGKSTLLRIIAGL   49 (237)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            59999999999999999999864

>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated

Probab=95.75  E-value=0.037  Score=48.01  Aligned_cols=118  Identities=19%  Similarity=0.056  Sum_probs=62.7

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCC---CCCHHHHHHHHH--HHh--ccC-----CCCcc---c
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSD---DFDVLNISRALL--ESI--TFA-----SCDLK---A  276 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~---~~~~~~~~~~il--~~l--~~~-----~~~~~---~  276 (444)
                      ..|.|+|..|-||||.|.-+.-+.--.  -+ .+..+..-.   .......+..+-  .-.  +..     .....   .
T Consensus        23 g~v~v~~g~GkGKtt~a~g~a~ra~g~--G~-~V~ivQFlKg~~~~GE~~~l~~l~~v~~~~~g~~~~~~~~~~~e~~~~   99 (191)
T PRK05986         23 GLLIVHTGNGKGKSTAAFGMALRAVGH--GK-KVGVVQFIKGAWSTGERNLLEFGGGVEFHVMGTGFTWETQDRERDIAA   99 (191)
T ss_pred             CeEEEECCCCCChHHHHHHHHHHHHHC--CC-eEEEEEEecCCCccCHHHHHhcCCCcEEEECCCCCcccCCCcHHHHHH
Confidence            589999999999999997766543211  11 222222221   223333333210  000  000     00011   1


Q ss_pred             HHHHHHHHHHHhCCce-EEEEEeCCCCC---ChhcHHHhhcccCCCCCCcEEEEecCChH
Q 047559          277 LNEVQVQIKRAVDGKK-LLLVLDDVWNE---DYCLWEDLKAPFLAAAPNSKIIVTTRHAH  332 (444)
Q Consensus       277 ~~~~~~~l~~~l~~kr-~LlVlDdv~~~---~~~~~~~l~~~l~~~~~gs~iivTTr~~~  332 (444)
                      ........++.+.... =|+|||++-..   .....+++...+.....+.-||+|-|+..
T Consensus       100 ~~~~~~~a~~~l~~~~ydlvVLDEi~~Al~~gli~~eevi~~L~~rp~~~evVlTGR~~p  159 (191)
T PRK05986        100 AREGWEEAKRMLADESYDLVVLDELTYALKYGYLDVEEVLEALNARPGMQHVVITGRGAP  159 (191)
T ss_pred             HHHHHHHHHHHHhCCCCCEEEEehhhHHHHCCCccHHHHHHHHHcCCCCCEEEEECCCCC
Confidence            1222334455554444 49999998331   22345667777766677889999999753

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=95.75  E-value=0.066  Score=46.91  Aligned_cols=42  Identities=26%  Similarity=0.324  Sum_probs=27.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCc-------ceeEEEEeCCC
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKF-------DVKAWVCVSDD  253 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f-------~~~~wv~vs~~  253 (444)
                      .++.|.|++|+|||+++..+..........|       ..++|++...+
T Consensus        33 ~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~   81 (193)
T PF13481_consen   33 ELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDS   81 (193)
T ss_dssp             SEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS-
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCC
Confidence            5899999999999999988876653322111       35677776654

>TIGR02314 ABC_MetN D-methionine ABC transporter, ATP-binding protein

Probab=95.74  E-value=0.061  Score=51.78  Aligned_cols=23  Identities=35%  Similarity=0.496  Sum_probs=21.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|.|||||.+.+..-
T Consensus        32 ei~gIiG~sGaGKSTLlr~I~gl   54 (343)
T TIGR02314        32 QIYGVIGASGAGKSTLIRCVNLL   54 (343)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            58999999999999999999754

Members of this family are the ATP-binding protein of the D-methionine ABC transporter complex. Known members belong to the Proteobacteria.

>PF12061 DUF3542: Protein of unknown function (DUF3542); InterPro: IPR021929 R1 is a gene for resistance to late blight, the most destructive disease in potato cultivation worldwide

Probab=95.74  E-value=0.039  Score=50.70  Aligned_cols=54  Identities=17%  Similarity=0.244  Sum_probs=45.9

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHH-hhcccCcHHHHHHHHHHHHHhhhhhhhHHHHH
Q 047559           37 VASELKKWEDCLMMIQAVLRDA-EEKQLTDEAVKLWLDDLRDLAYDAEDILDEFA   90 (444)
Q Consensus        37 v~~~~~~L~~~l~~i~~~l~~a-~~~~~~~~~~~~Wl~~lr~~ayd~eD~lD~~~   90 (444)
                      ++..++-++.+|+.+|.||++. ++.+..-.....++.++-..||++|.++|-+.
T Consensus       319 lKnQiqvIQ~elesLqpFLk~V~ee~~nkh~~~ed~a~~ii~kAyevEYVVDaCi  373 (402)
T PF12061_consen  319 LKNQIQVIQTELESLQPFLKHVVEEPHNKHDTNEDCATQIIRKAYEVEYVVDACI  373 (402)
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHhccchhhhhhhhHHHHHHHHHhheeeeeehhh
Confidence            5788999999999999999997 44344434489999999999999999999875

The R1 gene belongs to the class of plant genes for pathogen resistance that have a leucine zipper motif, a putative nucleotide binding domain and a leucine-rich repeat domain []. Most proteins matching this entry are found associated with PF00931 from PFAM.

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.74  E-value=0.063  Score=52.79  Aligned_cols=24  Identities=33%  Similarity=0.466  Sum_probs=21.2

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -.+++++|+.|+||||++..+...
T Consensus       191 g~vi~lvGpnG~GKTTtlakLA~~  214 (420)
T PRK14721        191 GGVYALIGPTGVGKTTTTAKLAAR  214 (420)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            379999999999999999988764

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=95.74  E-value=0.0084  Score=51.86  Aligned_cols=25  Identities=36%  Similarity=0.593  Sum_probs=21.4

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRA  236 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~  236 (444)
                      +.|.+.|.+|+||||+|+++....+
T Consensus         2 pLiIlTGyPgsGKTtfakeLak~L~   26 (261)
T COG4088           2 PLIILTGYPGSGKTTFAKELAKELR   26 (261)
T ss_pred             ceEEEecCCCCCchHHHHHHHHHHH
Confidence            4678899999999999999987643

>PRK05688 fliI flagellum-specific ATP synthase; Validated

Probab=95.73  E-value=0.066  Score=52.96  Aligned_cols=86  Identities=19%  Similarity=0.204  Sum_probs=50.7

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCC-CHHHHHHHHHHHhccC-------CCCcccHH-----
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDF-DVLNISRALLESITFA-------SCDLKALN-----  278 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~-~~~~~~~~il~~l~~~-------~~~~~~~~-----  278 (444)
                      ..++|+|..|+|||||++.+....     ..+..+...+.... +..++...+...-...       ..+.....     
T Consensus       169 qrigI~G~sG~GKSTLl~~I~g~~-----~~dv~V~g~Ig~rg~ev~~~~~~~~~~~~l~rsvvv~atsd~~p~~r~~a~  243 (451)
T PRK05688        169 QRLGLFAGTGVGKSVLLGMMTRFT-----EADIIVVGLIGERGREVKEFIEHILGEEGLKRSVVVASPADDAPLMRLRAA  243 (451)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCC-----CCCEEEEEEeCcCcHhHHHHHHHHhhcCCccEEEEEEECCCCCHHHHHHHH
Confidence            579999999999999999987642     33444444444432 4445554444332111       11111111     


Q ss_pred             HHHHHHHHHh--CCceEEEEEeCCCC
Q 047559          279 EVQVQIKRAV--DGKKLLLVLDDVWN  302 (444)
Q Consensus       279 ~~~~~l~~~l--~~kr~LlVlDdv~~  302 (444)
                      .....+.+++  +++++||++||+-.
T Consensus       244 ~~a~aiAEyfrd~G~~VLl~~DslTR  269 (451)
T PRK05688        244 MYCTRIAEYFRDKGKNVLLLMDSLTR  269 (451)
T ss_pred             HHHHHHHHHHHHCCCCEEEEecchhH
Confidence            1223355665  68899999999943

>PRK07721 fliI flagellum-specific ATP synthase; Validated

Probab=95.72  E-value=0.045  Score=54.26  Aligned_cols=87  Identities=21%  Similarity=0.171  Sum_probs=49.1

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHh------c-cCCCCcccH-----HH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESI------T-FASCDLKAL-----NE  279 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l------~-~~~~~~~~~-----~~  279 (444)
                      ..++|+|..|+|||||++.+......    -...+++..-+.-+..++....+..-      . ....+.+..     ..
T Consensus       159 q~i~I~G~sG~GKStLl~~I~~~~~~----~~gvI~~~Gerg~ev~e~~~~~l~~~~l~r~v~vv~~~~~~~~~r~~~~~  234 (438)
T PRK07721        159 QRVGIFAGSGVGKSTLMGMIARNTSA----DLNVIALIGERGREVREFIERDLGPEGLKRSIVVVATSDQPALMRIKGAY  234 (438)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcccCC----CeEEEEEEecCCccHHHHHHhhcChhhhcCeEEEEECCCCCHHHHHHHHH
Confidence            68999999999999999988875321    12344443333334555444322211      0 011111111     11


Q ss_pred             HHHHHHHHh--CCceEEEEEeCCCC
Q 047559          280 VQVQIKRAV--DGKKLLLVLDDVWN  302 (444)
Q Consensus       280 ~~~~l~~~l--~~kr~LlVlDdv~~  302 (444)
                      ....+.+++  +++++||++||+-.
T Consensus       235 ~a~~iAEyfr~~g~~Vll~~Dsltr  259 (438)
T PRK07721        235 TATAIAEYFRDQGLNVMLMMDSVTR  259 (438)
T ss_pred             HHHHHHHHHHHCCCcEEEEEeChHH
Confidence            223355565  68899999999843

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=95.72  E-value=0.088  Score=51.20  Aligned_cols=83  Identities=22%  Similarity=0.236  Sum_probs=48.6

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCC-----CcccHHHHHHHHH
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASC-----DLKALNEVQVQIK  285 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~-----~~~~~~~~~~~l~  285 (444)
                      -.++.|.|.+|+|||||+.++......   ....++|++....  ..++. .-.+.++....     ...+.+.+...+.
T Consensus        82 GslvLI~G~pG~GKStLllq~a~~~a~---~g~~VlYvs~EEs--~~qi~-~Ra~rlg~~~~~l~l~~e~~le~I~~~i~  155 (372)
T cd01121          82 GSVILIGGDPGIGKSTLLLQVAARLAK---RGGKVLYVSGEES--PEQIK-LRADRLGISTENLYLLAETNLEDILASIE  155 (372)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHh---cCCeEEEEECCcC--HHHHH-HHHHHcCCCcccEEEEccCcHHHHHHHHH
Confidence            379999999999999999998865422   2245677765432  33332 22333432211     1223344333332


Q ss_pred             HHhCCceEEEEEeCCCC
Q 047559          286 RAVDGKKLLLVLDDVWN  302 (444)
Q Consensus       286 ~~l~~kr~LlVlDdv~~  302 (444)
                         ..+.-+||+|.+..
T Consensus       156 ---~~~~~lVVIDSIq~  169 (372)
T cd01121         156 ---ELKPDLVIIDSIQT  169 (372)
T ss_pred             ---hcCCcEEEEcchHH
Confidence               34567899999843

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.

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=95.72  E-value=0.013  Score=50.11  Aligned_cols=24  Identities=38%  Similarity=0.661  Sum_probs=22.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .++.|.|++|+|||||++.++.+.
T Consensus         5 ~l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           5 LLIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhc
Confidence            689999999999999999999863

>COG1131 CcmA ABC-type multidrug transport system, ATPase component [Defense mechanisms]

Probab=95.71  E-value=0.11  Score=48.86  Aligned_cols=24  Identities=29%  Similarity=0.405  Sum_probs=21.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .++++.|+.|.|||||.+.+....
T Consensus        32 ei~gllG~NGAGKTTllk~l~gl~   55 (293)
T COG1131          32 EIFGLLGPNGAGKTTLLKILAGLL   55 (293)
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCc
Confidence            699999999999999999998653

>PRK13545 tagH teichoic acids export protein ATP-binding subunit; Provisional

Probab=95.71  E-value=0.11  Score=52.43  Aligned_cols=24  Identities=29%  Similarity=0.570  Sum_probs=21.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+++|+|+.|.|||||++.+....
T Consensus        51 EivgIiGpNGSGKSTLLkiLaGLl   74 (549)
T PRK13545         51 EIVGIIGLNGSGKSTLSNLIAGVT   74 (549)
T ss_pred             CEEEEEcCCCCCHHHHHHHHhCCC
Confidence            589999999999999999998753

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=95.71  E-value=0.0085  Score=51.99  Aligned_cols=24  Identities=33%  Similarity=0.393  Sum_probs=21.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+++|+|++|+|||||++.+....
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~~   25 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARARL   25 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            478999999999999999987753

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.

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=95.68  E-value=0.068  Score=49.43  Aligned_cols=89  Identities=12%  Similarity=0.182  Sum_probs=45.4

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCC-CHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhC-
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDF-DVLNISRALLESITFASCDLKALNEVQVQIKRAVD-  289 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~-~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~-  289 (444)
                      .+++++|.+|+||||++..+.......   -..+.+++..... ...+-+......++.......+...+...+...-. 
T Consensus        76 ~~i~~~G~~g~GKTtl~~~l~~~l~~~---~~~v~~i~~D~~ri~~~~ql~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~  152 (270)
T PRK06731         76 QTIALIGPTGVGKTTTLAKMAWQFHGK---KKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEE  152 (270)
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHHHHc---CCeEEEEecCCCCHHHHHHHHHHhhhcCceEEecCCHHHHHHHHHHHHhc
Confidence            689999999999999999887653211   1234455443221 11222222222222221112333444443433222 


Q ss_pred             CceEEEEEeCCCCC
Q 047559          290 GKKLLLVLDDVWNE  303 (444)
Q Consensus       290 ~kr~LlVlDdv~~~  303 (444)
                      .+.=++++|..-..
T Consensus       153 ~~~D~ViIDt~Gr~  166 (270)
T PRK06731        153 ARVDYILIDTAGKN  166 (270)
T ss_pred             CCCCEEEEECCCCC
Confidence            23457888988443

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=95.68  E-value=0.019  Score=46.00  Aligned_cols=50  Identities=16%  Similarity=0.322  Sum_probs=33.0

Q ss_pred             cccccchhHHHHHHHHhcCC-CCCCCCceEEEEEecCCChHHHHHHHHhhc
Q 047559          185 AVFGRQQDKAKMLEMVLTDT-SSDHSNLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~-~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .++|..-..+.+++.+..-- ...+.+.-|++.+|.+|+|||.+++.+++.
T Consensus        26 ~l~GQhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~~   76 (127)
T PF06309_consen   26 NLFGQHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAEH   76 (127)
T ss_pred             HccCcHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHHH
Confidence            46666655555544443310 112266789999999999999988888765

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

>TIGR02857 CydD thiol reductant ABC exporter, CydD subunit

Probab=95.65  E-value=0.14  Score=52.80  Aligned_cols=23  Identities=30%  Similarity=0.456  Sum_probs=20.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ..++|+|+.|.|||||++.+..-
T Consensus       349 ~~~~ivG~sGsGKSTL~~ll~g~  371 (529)
T TIGR02857       349 ERVALVGPSGAGKSTLLNLLLGF  371 (529)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            68999999999999999998754

Unfortunately, the gene symbol nomenclature adopted based on this operon in B. subtilis assigns cydC to the third gene in the operon where this gene is actually homologous to the E. coli cydD gene. We have chosen to name all homologs in this family in accordance with the precedence of publication of the E. coli name, CydD

>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family

Probab=95.64  E-value=0.0039  Score=54.47  Aligned_cols=21  Identities=38%  Similarity=0.325  Sum_probs=18.5

Q ss_pred             EEEEEecCCChHHHHHHHHhh
Q 047559          213 VIPIVGMAGVGKTTLAREVYN  233 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~  233 (444)
                      ++.|.|+.|.||||+.+.+.-
T Consensus         1 ~~~ltG~N~~GKst~l~~i~~   21 (185)
T smart00534        1 VVIITGPNMGGKSTYLRQVGL   21 (185)
T ss_pred             CEEEECCCCCcHHHHHHHHHH
Confidence            467999999999999999873

>PRK06793 fliI flagellum-specific ATP synthase; Validated

Probab=95.64  E-value=0.052  Score=53.47  Aligned_cols=119  Identities=16%  Similarity=0.147  Sum_probs=64.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccC-------CCCccc-----HHH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFA-------SCDLKA-----LNE  279 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~-------~~~~~~-----~~~  279 (444)
                      ..++|+|..|.|||||++.+......    ...++...-.+.....+++...+..-+..       ..+.+.     ...
T Consensus       157 qri~I~G~sG~GKTtLl~~Ia~~~~~----~~gvI~~iGerg~ev~e~~~~~l~~~gl~~tvvv~~tsd~s~~~r~ra~~  232 (432)
T PRK06793        157 QKIGIFAGSGVGKSTLLGMIAKNAKA----DINVISLVGERGREVKDFIRKELGEEGMRKSVVVVATSDESHLMQLRAAK  232 (432)
T ss_pred             cEEEEECCCCCChHHHHHHHhccCCC----CeEEEEeCCCCcccHHHHHHHHhhhcccceeEEEEECCCCCHHHHHHHHH
Confidence            58899999999999999999876421    12333332233456667766655542211       111111     112


Q ss_pred             HHHHHHHHh--CCceEEEEEeCCCCCChhcHHHhhccc--CCCCCCcEEEEecCChHHHhh
Q 047559          280 VQVQIKRAV--DGKKLLLVLDDVWNEDYCLWEDLKAPF--LAAAPNSKIIVTTRHAHVAAT  336 (444)
Q Consensus       280 ~~~~l~~~l--~~kr~LlVlDdv~~~~~~~~~~l~~~l--~~~~~gs~iivTTr~~~va~~  336 (444)
                      ....+.+++  +++++||++||+-..- ....++...+  ++. .|-...+.|....+...
T Consensus       233 ~a~~iAEyfr~~G~~VLlilDslTr~a-~A~reisl~~~e~p~-~G~~~~~~s~l~~L~ER  291 (432)
T PRK06793        233 LATSIAEYFRDQGNNVLLMMDSVTRFA-DARRSVDIAVKELPI-GGKTLLMESYMKKLLER  291 (432)
T ss_pred             HHHHHHHHHHHcCCcEEEEecchHHHH-HHHHHHHHHhcCCCC-CCeeeeeeccchhHHHH
Confidence            223455555  5789999999994421 1223332222  121 25555555555555443

>PHA00729 NTP-binding motif containing protein

Probab=95.64  E-value=0.016  Score=51.66  Aligned_cols=25  Identities=40%  Similarity=0.449  Sum_probs=21.8

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ...|.|.|.+|+||||||..+.+..
T Consensus        17 f~nIlItG~pGvGKT~LA~aLa~~l   41 (226)
T PHA00729         17 FVSAVIFGKQGSGKTTYALKVARDV   41 (226)
T ss_pred             eEEEEEECCCCCCHHHHHHHHHHHH
Confidence            3578999999999999999998763

>cd01134 V_A-ATPase_A V/A-type ATP synthase catalytic subunit A

Probab=95.64  E-value=0.078  Score=50.39  Aligned_cols=84  Identities=15%  Similarity=0.207  Sum_probs=53.3

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCC-CHHHHHHHHHHHh----ccC----------CCCccc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDF-DVLNISRALLESI----TFA----------SCDLKA  276 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~-~~~~~~~~il~~l----~~~----------~~~~~~  276 (444)
                      ..++|.|..|+|||+|++++.+..     +-+.++++-++... .+.+++.++-+..    +..          ..+...
T Consensus       158 qr~~I~G~~G~GKT~L~~~Iak~~-----~~dvvVyv~iGERg~Ev~e~l~ef~~l~~~~~~~~~m~rtvlV~nts~~p~  232 (369)
T cd01134         158 GTAAIPGPFGCGKTVIQQSLSKYS-----NSDIVIYVGCGERGNEMTEVLEEFPELTDPVTGEPLMKRTVLIANTSNMPV  232 (369)
T ss_pred             CEEEEECCCCCChHHHHHHHHhCC-----CCCEEEEEEeCCChHHHHHHHHHHHhhccccccCCccceEEEEEECCCCCH
Confidence            589999999999999999998863     44678888887654 4555665543211    100          011111


Q ss_pred             -HH----HHHHHHHHHh--CCceEEEEEeCC
Q 047559          277 -LN----EVQVQIKRAV--DGKKLLLVLDDV  300 (444)
Q Consensus       277 -~~----~~~~~l~~~l--~~kr~LlVlDdv  300 (444)
                       ..    -..-.+.+++  .++.+|+++|++
T Consensus       233 ~~R~~s~yta~tiAEYfrd~G~dVll~~Ds~  263 (369)
T cd01134         233 AAREASIYTGITIAEYFRDMGYNVALMADST  263 (369)
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCCEEEEEcCh
Confidence             11    1122345555  578999999998

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.

>PRK13657 cyclic beta-1,2-glucan ABC transporter; Provisional

Probab=95.64  E-value=0.12  Score=54.01  Aligned_cols=23  Identities=35%  Similarity=0.495  Sum_probs=20.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ..++|+|..|.|||||++.+..-
T Consensus       362 ~~v~IvG~sGsGKSTLl~lL~gl  384 (588)
T PRK13657        362 QTVAIVGPTGAGKSTLINLLQRV  384 (588)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            58999999999999999998754

>PRK14249 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.64  E-value=0.14  Score=46.99  Aligned_cols=23  Identities=35%  Similarity=0.589  Sum_probs=21.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|..|.|||||++.+...
T Consensus        31 ~~~~i~G~nGsGKSTLl~~l~Gl   53 (251)
T PRK14249         31 QITAIIGPSGCGKSTLLRALNRM   53 (251)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcc
Confidence            58999999999999999999764

>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=95.63  E-value=0.04  Score=51.01  Aligned_cols=25  Identities=32%  Similarity=0.399  Sum_probs=19.3

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRA  236 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~  236 (444)
                      ..|.|.|.+|+||||+|+.+.....
T Consensus         2 pLiil~G~P~SGKTt~a~~L~~~~~   26 (270)
T PF08433_consen    2 PLIILCGLPCSGKTTRAKELKKYLE   26 (270)
T ss_dssp             -EEEEE--TTSSHHHHHHHHHHHHH
T ss_pred             EEEEEEcCCCCcHHHHHHHHHHHHH
Confidence            3689999999999999999987643

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

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=95.63  E-value=0.0089  Score=51.69  Aligned_cols=23  Identities=26%  Similarity=0.436  Sum_probs=21.3

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ++|.+.|++|+||||+|+.+...
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~   25 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSV   25 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHh
Confidence            58999999999999999999875

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=95.63  E-value=0.0087  Score=52.15  Aligned_cols=26  Identities=42%  Similarity=0.558  Sum_probs=23.4

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhccc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDRA  236 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~  236 (444)
                      ..+|+|-||-|+||||||+.+.++..
T Consensus         4 ~~~IvI~G~IG~GKSTLa~~La~~l~   29 (216)
T COG1428           4 AMVIVIEGMIGAGKSTLAQALAEHLG   29 (216)
T ss_pred             ccEEEEecccccCHHHHHHHHHHHhC
Confidence            36999999999999999999998754

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=95.63  E-value=0.018  Score=52.02  Aligned_cols=87  Identities=22%  Similarity=0.244  Sum_probs=51.8

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccC---------------CCC-
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFA---------------SCD-  273 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~---------------~~~-  273 (444)
                      .-.++.|.|.+|+|||+|+.++.......  .-..++|++...+  ..++.+.+- .++..               ... 
T Consensus        18 ~gs~~li~G~~GsGKT~l~~q~l~~~~~~--~ge~vlyvs~ee~--~~~l~~~~~-s~g~d~~~~~~~g~l~~~d~~~~~   92 (226)
T PF06745_consen   18 KGSVVLISGPPGSGKTTLALQFLYNGLKN--FGEKVLYVSFEEP--PEELIENMK-SFGWDLEEYEDSGKLKIIDAFPER   92 (226)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHH--HT--EEEEESSS---HHHHHHHHH-TTTS-HHHHHHTTSEEEEESSGGG
T ss_pred             CCcEEEEEeCCCCCcHHHHHHHHHHhhhh--cCCcEEEEEecCC--HHHHHHHHH-HcCCcHHHHhhcCCEEEEeccccc
Confidence            34799999999999999999876543222  0246678876554  344444332 22210               001 


Q ss_pred             ----cccHHHHHHHHHHHhCC-ceEEEEEeCCC
Q 047559          274 ----LKALNEVQVQIKRAVDG-KKLLLVLDDVW  301 (444)
Q Consensus       274 ----~~~~~~~~~~l~~~l~~-kr~LlVlDdv~  301 (444)
                          ..+...+...+.+.++. +...+|+|.+.
T Consensus        93 ~~~~~~~~~~l~~~i~~~i~~~~~~~vVIDsls  125 (226)
T PF06745_consen   93 IGWSPNDLEELLSKIREAIEELKPDRVVIDSLS  125 (226)
T ss_dssp             ST-TSCCHHHHHHHHHHHHHHHTSSEEEEETHH
T ss_pred             ccccccCHHHHHHHHHHHHHhcCCCEEEEECHH
Confidence                24566677777776643 34789999873

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 ....

>cd03243 ABC_MutS_homologs The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch

Probab=95.63  E-value=0.015  Score=51.64  Aligned_cols=22  Identities=27%  Similarity=0.250  Sum_probs=20.4

Q ss_pred             eEEEEEecCCChHHHHHHHHhh
Q 047559          212 AVIPIVGMAGVGKTTLAREVYN  233 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~  233 (444)
                      .+++|+|+.|.|||||.+.+..
T Consensus        30 ~~~~l~G~Ng~GKStll~~i~~   51 (202)
T cd03243          30 RLLLITGPNMGGKSTYLRSIGL   51 (202)
T ss_pred             eEEEEECCCCCccHHHHHHHHH
Confidence            6899999999999999999973

Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, and recognition of specific DNA stru

>PRK13546 teichoic acids export protein ATP-binding subunit; Provisional

Probab=95.62  E-value=0.099  Score=48.44  Aligned_cols=24  Identities=38%  Similarity=0.562  Sum_probs=21.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+++|+|+.|.|||||++.+....
T Consensus        51 e~~~liG~NGsGKSTLlk~L~Gl~   74 (264)
T PRK13546         51 DVIGLVGINGSGKSTLSNIIGGSL   74 (264)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCc
Confidence            589999999999999999998763

>PRK04328 hypothetical protein; Provisional

Probab=95.62  E-value=0.07  Score=49.00  Aligned_cols=41  Identities=15%  Similarity=0.319  Sum_probs=30.2

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCC
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDD  253 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~  253 (444)
                      .-.++.|.|.+|+|||+|+.++.... .+  .-...+|++....
T Consensus        22 ~gs~ili~G~pGsGKT~l~~~fl~~~-~~--~ge~~lyis~ee~   62 (249)
T PRK04328         22 ERNVVLLSGGPGTGKSIFSQQFLWNG-LQ--MGEPGVYVALEEH   62 (249)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH-Hh--cCCcEEEEEeeCC
Confidence            34799999999999999999876552 11  3346678876553

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=95.62  E-value=0.02  Score=46.70  Aligned_cols=25  Identities=32%  Similarity=0.474  Sum_probs=22.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRA  236 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~  236 (444)
                      .+|.+.|.-|.|||||++.+.....
T Consensus        23 ~~i~l~G~lGaGKTtl~~~l~~~lg   47 (133)
T TIGR00150        23 TVVLLKGDLGAGKTTLVQGLLQGLG   47 (133)
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            5899999999999999999998653

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.

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=95.62  E-value=0.008  Score=50.43  Aligned_cols=22  Identities=27%  Similarity=0.665  Sum_probs=19.8

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ++.|.|++|+||||+|+.+...
T Consensus         1 li~l~G~~GsGKST~a~~l~~~   22 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAER   22 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhh
Confidence            4789999999999999999875

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=95.62  E-value=0.0078  Score=53.20  Aligned_cols=22  Identities=45%  Similarity=0.706  Sum_probs=19.9

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      +|+|.|++|+|||||++.+...
T Consensus         1 iigi~G~~GsGKSTl~~~l~~~   22 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIEQ   22 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999998765

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.

>TIGR03375 type_I_sec_LssB type I secretion system ATPase, LssB family

Probab=95.60  E-value=0.12  Score=55.19  Aligned_cols=24  Identities=29%  Similarity=0.437  Sum_probs=21.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..++|+|..|.|||||++.+..-.
T Consensus       492 ~~iaIvG~sGsGKSTLlklL~gl~  515 (694)
T TIGR03375       492 EKVAIIGRIGSGKSTLLKLLLGLY  515 (694)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            589999999999999999987543

Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N-terminus, but rather carry signals located toward the extreme C-terminus to direct type I secretion. This model is related to models TIGR01842 and TIGR01846, and to bacteriocin ABC transporters that cleave their substrates during export.

>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=95.58  E-value=0.021  Score=48.17  Aligned_cols=36  Identities=19%  Similarity=0.401  Sum_probs=30.1

Q ss_pred             hhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          191 QDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       191 ~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..+++|.+.|..         ++++++|..|+|||||.+.+....
T Consensus        24 ~g~~~l~~~l~~---------k~~vl~G~SGvGKSSLiN~L~~~~   59 (161)
T PF03193_consen   24 EGIEELKELLKG---------KTSVLLGQSGVGKSSLINALLPEA   59 (161)
T ss_dssp             TTHHHHHHHHTT---------SEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             cCHHHHHHHhcC---------CEEEEECCCCCCHHHHHHHHHhhc
Confidence            457788888732         699999999999999999998764

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.

>cd03285 ABC_MSH2_euk MutS2 homolog in eukaryotes

Probab=95.58  E-value=0.0096  Score=53.59  Aligned_cols=22  Identities=27%  Similarity=0.262  Sum_probs=19.7

Q ss_pred             ceEEEEEecCCChHHHHHHHHh
Q 047559          211 LAVIPIVGMAGVGKTTLAREVY  232 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~  232 (444)
                      .+++.|.|+.|.||||+.+.+.
T Consensus        30 ~~~~~l~G~n~~GKstll~~i~   51 (222)
T cd03285          30 SRFLIITGPNMGGKSTYIRQIG   51 (222)
T ss_pred             CeEEEEECCCCCChHHHHHHHH
Confidence            3799999999999999998865

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

>PRK02496 adk adenylate kinase; Provisional

Probab=95.57  E-value=0.044  Score=47.73  Aligned_cols=23  Identities=26%  Similarity=0.277  Sum_probs=20.2

Q ss_pred             EEEEEecCCChHHHHHHHHhhcc
Q 047559          213 VIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+.|+|++|+||||+|+.+....
T Consensus         3 ~i~i~G~pGsGKst~a~~la~~~   25 (184)
T PRK02496          3 RLIFLGPPGAGKGTQAVVLAEHL   25 (184)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998654

>TIGR03305 alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit beta

Probab=95.57  E-value=0.034  Score=54.92  Aligned_cols=89  Identities=17%  Similarity=0.291  Sum_probs=56.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCC-CHHHHHHHHHHHhccC-------CCCcccHH-----
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDF-DVLNISRALLESITFA-------SCDLKALN-----  278 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~-~~~~~~~~il~~l~~~-------~~~~~~~~-----  278 (444)
                      .-++|.|.+|+|||+|+..+..... +. +-+.++++-++... ...+++..+...-...       ..+.+...     
T Consensus       139 Qr~~Ifg~~G~GKt~l~~~~~~~~~-~~-~~~v~V~~~iGeR~rEv~e~~~~~~~~~~l~rtvvv~~ts~~~~~~r~~~~  216 (449)
T TIGR03305       139 GKAGLFGGAGVGKTVLLTEMIHNMV-GQ-HQGVSIFCGIGERCREGEELYREMKEAGVLDNTVMVFGQMNEPPGARFRVG  216 (449)
T ss_pred             CEEEeecCCCCChhHHHHHHHHHHH-hc-CCCEEEEEEeccCcHHHHHHHHHHhhccccceEEEEEeCCCCCHHHHHHHH
Confidence            5789999999999999999876632 22 45788888887654 4556666655431111       11111111     


Q ss_pred             HHHHHHHHHh---CCceEEEEEeCCCC
Q 047559          279 EVQVQIKRAV---DGKKLLLVLDDVWN  302 (444)
Q Consensus       279 ~~~~~l~~~l---~~kr~LlVlDdv~~  302 (444)
                      ...-.+.+++   +++++||++||+-.
T Consensus       217 ~~a~tiAEyfrd~~G~~VLl~~DslTR  243 (449)
T TIGR03305       217 HTALTMAEYFRDDEKQDVLLLIDNIFR  243 (449)
T ss_pred             HHHHHHHHHHHHhcCCceEEEecChHH
Confidence            1223456666   46899999999943

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.

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=95.57  E-value=0.02  Score=47.44  Aligned_cols=39  Identities=28%  Similarity=0.399  Sum_probs=28.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCC
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSD  252 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~  252 (444)
                      ++|.|+|..|+|||||++.+.+....+  .+...+..+...
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~l~~~--g~~v~~ik~~~~   39 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINELKRR--GYRVAVIKHTDH   39 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHHHHT--T--EEEEEE-ST
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHhHc--CCceEEEEEccC
Confidence            479999999999999999999886433  455555666555

>TIGR03263 guanyl_kin guanylate kinase

Probab=95.56  E-value=0.0099  Score=51.57  Aligned_cols=23  Identities=39%  Similarity=0.683  Sum_probs=21.3

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ++++|+|+.|+|||||++.+...
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~~   24 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLEE   24 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHcc
Confidence            58999999999999999999875

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.

>PRK06820 type III secretion system ATPase; Validated

Probab=95.55  E-value=0.055  Score=53.44  Aligned_cols=86  Identities=29%  Similarity=0.331  Sum_probs=48.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCC-CHHHHHHHHHHHhcc-------CCCCcccHHH----
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDF-DVLNISRALLESITF-------ASCDLKALNE----  279 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~-~~~~~~~~il~~l~~-------~~~~~~~~~~----  279 (444)
                      ..++|+|.+|+|||||++.+....     +.+..+..-++... ...++....+..-..       ...+.+....    
T Consensus       164 qri~I~G~sG~GKStLl~~I~~~~-----~~dv~V~~~iGergrEv~ef~e~~l~~~~~~rtvvv~atsd~p~~~r~~a~  238 (440)
T PRK06820        164 QRIGIFAAAGVGKSTLLGMLCADS-----AADVMVLALIGERGREVREFLEQVLTPEARARTVVVVATSDRPALERLKGL  238 (440)
T ss_pred             CEEEEECCCCCChHHHHHHHhccC-----CCCEEEEEEEccChHHHHHHHHHhhccCCceeEEEEEeCCCCCHHHHHHHH
Confidence            578999999999999999888653     34455555555542 222332222211000       0111111111    


Q ss_pred             -HHHHHHHHh--CCceEEEEEeCCCC
Q 047559          280 -VQVQIKRAV--DGKKLLLVLDDVWN  302 (444)
Q Consensus       280 -~~~~l~~~l--~~kr~LlVlDdv~~  302 (444)
                       ....+.+++  +++++||++||+-.
T Consensus       239 ~~a~tiAEyfrd~G~~VLl~~Dsltr  264 (440)
T PRK06820        239 STATTIAEYFRDRGKKVLLMADSLTR  264 (440)
T ss_pred             HHHHHHHHHHHHcCCCEEEEccchhH
Confidence             222355555  68899999999943

>PRK11153 metN DL-methionine transporter ATP-binding subunit; Provisional

Probab=95.54  E-value=0.087  Score=50.88  Aligned_cols=23  Identities=30%  Similarity=0.520  Sum_probs=21.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|+|||||++.+..-
T Consensus        32 ei~~iiG~nGsGKSTLlk~L~Gl   54 (343)
T PRK11153         32 EIFGVIGASGAGKSTLIRCINLL   54 (343)
T ss_pred             CEEEEECCCCCcHHHHHHHHhCC
Confidence            58999999999999999999754

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.54  E-value=0.12  Score=54.48  Aligned_cols=25  Identities=36%  Similarity=0.469  Sum_probs=21.9

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      -.++.++|+.|+||||++.++....
T Consensus       185 g~Vi~lVGpnGvGKTTTiaKLA~~~  209 (767)
T PRK14723        185 GGVLALVGPTGVGKTTTTAKLAARC  209 (767)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHhhH
Confidence            3799999999999999998888654

>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.54  E-value=0.058  Score=51.31  Aligned_cols=26  Identities=35%  Similarity=0.465  Sum_probs=23.1

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhccc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDRA  236 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~  236 (444)
                      =+-|.++|++|.|||-||+.|+....
T Consensus       245 WkgvLm~GPPGTGKTlLAKAvATEc~  270 (491)
T KOG0738|consen  245 WKGVLMVGPPGTGKTLLAKAVATECG  270 (491)
T ss_pred             cceeeeeCCCCCcHHHHHHHHHHhhc
Confidence            36789999999999999999998754

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=95.53  E-value=0.045  Score=57.68  Aligned_cols=131  Identities=16%  Similarity=0.064  Sum_probs=70.4

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHH
Q 047559          185 AVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALL  264 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il  264 (444)
                      .++|....+.++.+.+..-...    -..|.|+|..|+||+++|+.+++......   ...+.|+++.-. ...+...++
T Consensus       326 ~l~g~s~~~~~~~~~~~~~a~~----~~pvli~Ge~GtGK~~~A~~ih~~s~r~~---~pfv~vnc~~~~-~~~~~~elf  397 (638)
T PRK11388        326 HMPQDSPQMRRLIHFGRQAAKS----SFPVLLCGEEGVGKALLAQAIHNESERAA---GPYIAVNCQLYP-DEALAEEFL  397 (638)
T ss_pred             ceEECCHHHHHHHHHHHHHhCc----CCCEEEECCCCcCHHHHHHHHHHhCCccC---CCeEEEECCCCC-hHHHHHHhc
Confidence            4788888888877766543321    13588999999999999999987632111   122344444422 122222222


Q ss_pred             HHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCC-----------CCcEEEEecCCh
Q 047559          265 ESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAA-----------PNSKIIVTTRHA  331 (444)
Q Consensus       265 ~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~iivTTr~~  331 (444)
                      ..........        ....+-....=.|+||++..........|...+....           ...+||.||...
T Consensus       398 g~~~~~~~~~--------~~g~~~~a~~GtL~ldei~~l~~~~Q~~Ll~~l~~~~~~~~~~~~~~~~~~riI~~t~~~  467 (638)
T PRK11388        398 GSDRTDSENG--------RLSKFELAHGGTLFLEKVEYLSPELQSALLQVLKTGVITRLDSRRLIPVDVRVIATTTAD  467 (638)
T ss_pred             CCCCcCccCC--------CCCceeECCCCEEEEcChhhCCHHHHHHHHHHHhcCcEEeCCCCceEEeeEEEEEeccCC
Confidence            1110000000        0000001223468999998876666666766654321           134677776643

>TIGR00041 DTMP_kinase thymidylate kinase

Probab=95.52  E-value=0.078  Score=46.58  Aligned_cols=26  Identities=35%  Similarity=0.316  Sum_probs=22.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcccc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAV  237 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~  237 (444)
                      ..|+|.|..|+||||+++.+.+....
T Consensus         4 ~~IvieG~~GsGKsT~~~~L~~~l~~   29 (195)
T TIGR00041         4 MFIVIEGIDGAGKTTQANLLKKLLQE   29 (195)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            68999999999999999999876543

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.

>PRK00889 adenylylsulfate kinase; Provisional

Probab=95.52  E-value=0.013  Score=50.63  Aligned_cols=25  Identities=32%  Similarity=0.474  Sum_probs=22.5

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..+|.|+|++|+||||+|+.+....
T Consensus         4 g~~i~~~G~~GsGKST~a~~la~~l   28 (175)
T PRK00889          4 GVTVWFTGLSGAGKTTIARALAEKL   28 (175)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            3699999999999999999998765

>PRK13536 nodulation factor exporter subunit NodI; Provisional

Probab=95.51  E-value=0.13  Score=49.49  Aligned_cols=23  Identities=30%  Similarity=0.534  Sum_probs=21.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|.|||||.+.+..-
T Consensus        68 ei~gLlGpNGaGKSTLl~~L~Gl   90 (340)
T PRK13536         68 ECFGLLGPNGAGKSTIARMILGM   90 (340)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcC
Confidence            69999999999999999999764

>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=95.51  E-value=0.014  Score=46.83  Aligned_cols=21  Identities=43%  Similarity=0.706  Sum_probs=16.5

Q ss_pred             EEEEecCCChHHHHHHHHhhc
Q 047559          214 IPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (444)
                      |.|+|.+|+|||++|+.+...
T Consensus         2 vLleg~PG~GKT~la~~lA~~   22 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKALARS   22 (131)
T ss_dssp             EEEES---HHHHHHHHHHHHH
T ss_pred             EeeECCCccHHHHHHHHHHHH
Confidence            679999999999999999876

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.

>TIGR01288 nodI ATP-binding ABC transporter family nodulation protein NodI

Probab=95.51  E-value=0.11  Score=49.16  Aligned_cols=23  Identities=30%  Similarity=0.515  Sum_probs=21.1

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|.|||||.+.+..-
T Consensus        31 e~~~l~G~NGaGKSTLl~~l~Gl   53 (303)
T TIGR01288        31 ECFGLLGPNGAGKSTIARMLLGM   53 (303)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999999764

This model does not recognize the highly divergent NodI from Azorhizobium caulinodans.

>PHA02774 E1; Provisional

Probab=95.50  E-value=0.053  Score=54.84  Aligned_cols=48  Identities=13%  Similarity=0.097  Sum_probs=32.1

Q ss_pred             HHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEe
Q 047559          193 KAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCV  250 (444)
Q Consensus       193 ~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~v  250 (444)
                      +..+..+|...     ++-..+.|+|++|.|||.+|-.+.+-..     -....|++.
T Consensus       421 l~~lk~~l~~~-----PKknciv~~GPP~TGKS~fa~sL~~~L~-----G~vi~fvN~  468 (613)
T PHA02774        421 LTALKDFLKGI-----PKKNCLVIYGPPDTGKSMFCMSLIKFLK-----GKVISFVNS  468 (613)
T ss_pred             HHHHHHHHhcC-----CcccEEEEECCCCCCHHHHHHHHHHHhC-----CCEEEEEEC
Confidence            44455555322     4446899999999999999999887531     224456654

>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor

Probab=95.50  E-value=0.0089  Score=49.81  Aligned_cols=23  Identities=39%  Similarity=0.541  Sum_probs=20.7

Q ss_pred             EEEEEecCCChHHHHHHHHhhcc
Q 047559          213 VIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      +|.|+|++|+||||+|+.+....
T Consensus         1 ~I~i~G~~GsGKst~a~~la~~~   23 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAKKL   23 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999998764

>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=95.49  E-value=0.35  Score=45.87  Aligned_cols=49  Identities=24%  Similarity=0.182  Sum_probs=32.3

Q ss_pred             cccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHH
Q 047559          342 QYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAA  391 (444)
Q Consensus       342 ~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai  391 (444)
                      ++++.+++.+|+..++....-.+-- ......+...+++.-..+|+|--+
T Consensus       258 ~i~v~~~s~~E~~~ll~yy~~~~~l-~~~~~~~~~~e~~~~~s~GNp~el  306 (309)
T PF10236_consen  258 PIEVPRLSKEEARSLLEYYADSGWL-RSRVDEELVLEKLFLSSNGNPREL  306 (309)
T ss_pred             eEEeCCCCHHHHHHHHHHHHHCCcc-ccCCCCHHHHHHHHHhcCCCHHHh
Confidence            7899999999999999877633211 111223334466777779998654

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of conserved proteins which were originally described as death-associated-protein-3 (DAP-3). The proteins carry a P-loop DNA-binding motif, and induce apoptosis []. DAP3 has been shown to be a pro-apoptotic factor in the mitochondrial matrix [] and to be crucial for mitochondrial biogenesis and so has also been designated as MRP-S29 (mitochondrial ribosomal protein subunit 29).

>cd03289 ABCC_CFTR2 The CFTR subfamily domain 2

Probab=95.49  E-value=0.13  Score=47.91  Aligned_cols=24  Identities=25%  Similarity=0.357  Sum_probs=21.4

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+++|+|..|.|||||.+.+..-.
T Consensus        31 e~~~IvG~nGsGKSTLl~~L~gl~   54 (275)
T cd03289          31 QRVGLLGRTGSGKSTLLSAFLRLL   54 (275)
T ss_pred             CEEEEECCCCCCHHHHHHHHhhhc
Confidence            589999999999999999998653

The cystic fibrosis transmembrane regulator (CFTR), the product of the gene mutated in patients with cystic fibrosis, has adapted the ABC transporter structural motif to form a tightly regulated anion channel at the apical surface of many epithelia. Use of the term assembly of a functional ion channel implies the coming together of subunits or at least smaller not-yet functional components of the active whole. In fact, on the basis of current knowledge only the CFTR polypeptide itself is required to form an ATP- and protein kinase A-dependent low-conductance chloride channel of the type present in the apical membrane of many epithelial cells. CFTR displays the typical organization (IM-ABC)2 and carries a characteristic hydrophilic R-domain that separates IM1-ABC1 from IM2-ABC2.

>PRK11432 fbpC ferric transporter ATP-binding subunit; Provisional

Probab=95.48  E-value=0.086  Score=50.97  Aligned_cols=23  Identities=35%  Similarity=0.534  Sum_probs=21.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|.|||||.+.+..-
T Consensus        33 e~~~llGpsGsGKSTLLr~IaGl   55 (351)
T PRK11432         33 TMVTLLGPSGCGKTTVLRLVAGL   55 (351)
T ss_pred             CEEEEECCCCCcHHHHHHHHHCC
Confidence            58999999999999999999754

>PRK11650 ugpC glycerol-3-phosphate transporter ATP-binding subunit; Provisional

Probab=95.46  E-value=0.091  Score=50.96  Aligned_cols=23  Identities=43%  Similarity=0.541  Sum_probs=21.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|.|||||.+.+..-
T Consensus        31 e~~~llG~sGsGKSTLLr~iaGl   53 (356)
T PRK11650         31 EFIVLVGPSGCGKSTLLRMVAGL   53 (356)
T ss_pred             CEEEEECCCCCcHHHHHHHHHCC
Confidence            58999999999999999999864

>cd03287 ABC_MSH3_euk MutS3 homolog in eukaryotes

Probab=95.45  E-value=0.21  Score=44.87  Aligned_cols=111  Identities=11%  Similarity=0.049  Sum_probs=57.4

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc-ccccCCcc----------eeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR-AVEDSKFD----------VKAWVCVSDDFDVLNISRALLESITFASCDLKALNEV  280 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~-~~~~~~f~----------~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~  280 (444)
                      .++.|.|+.|.||||+.+.+.... ....+.|-          ..++..+....++.+              +.+....-
T Consensus        32 ~~~~itG~N~~GKStll~~i~~~~~la~~G~~v~a~~~~~~~~~~i~~~~~~~d~~~~--------------~~StF~~e   97 (222)
T cd03287          32 YCQIITGPNMGGKSSYIRQVALITIMAQIGSFVPASSATLSIFDSVLTRMGASDSIQH--------------GMSTFMVE   97 (222)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHHhCCCEEEcCceEEeccceEEEEecCcccccc--------------ccchHHHH
Confidence            688999999999999999887521 11000110          112222222111110              11111111


Q ss_pred             HHHHHHHh--CCceEEEEEeCCCCCCh----hc-HHHhhcccCCCCCCcEEEEecCChHHHhhc
Q 047559          281 QVQIKRAV--DGKKLLLVLDDVWNEDY----CL-WEDLKAPFLAAAPNSKIIVTTRHAHVAATM  337 (444)
Q Consensus       281 ~~~l~~~l--~~kr~LlVlDdv~~~~~----~~-~~~l~~~l~~~~~gs~iivTTr~~~va~~~  337 (444)
                      ...+...+  .+++-|++||++-....    .. -..+...+... .++.+|++|....++...
T Consensus        98 ~~~~~~il~~~~~~sLvllDE~~~gT~~~d~~~i~~~il~~l~~~-~~~~~i~~TH~~~l~~~~  160 (222)
T cd03287          98 LSETSHILSNCTSRSLVILDELGRGTSTHDGIAIAYATLHYLLEE-KKCLVLFVTHYPSLGEIL  160 (222)
T ss_pred             HHHHHHHHHhCCCCeEEEEccCCCCCChhhHHHHHHHHHHHHHhc-cCCeEEEEcccHHHHHHH
Confidence            22233333  35789999999743211    11 11223333332 578899999998887644

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=95.44  E-value=0.11  Score=52.10  Aligned_cols=25  Identities=32%  Similarity=0.481  Sum_probs=22.4

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRA  236 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~  236 (444)
                      .|++++|+.|+||||++.+++....
T Consensus       257 ~Vi~LvGpnGvGKTTTiaKLA~~~~  281 (484)
T PRK06995        257 GVFALMGPTGVGKTTTTAKLAARCV  281 (484)
T ss_pred             cEEEEECCCCccHHHHHHHHHHHHH
Confidence            7999999999999999999987643

>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+)

Probab=95.44  E-value=0.0099  Score=51.75  Aligned_cols=23  Identities=35%  Similarity=0.455  Sum_probs=20.6

Q ss_pred             EEEEEecCCChHHHHHHHHhhcc
Q 047559          213 VIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      +|+|.|.+|+||||||+.+....
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~~   23 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRIL   23 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            58899999999999999998763

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.

>PRK08472 fliI flagellum-specific ATP synthase; Validated

Probab=95.44  E-value=0.074  Score=52.46  Aligned_cols=86  Identities=17%  Similarity=0.205  Sum_probs=48.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCC-HHHHHHHHHHH-hcc------CCCCcccHH----H
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFD-VLNISRALLES-ITF------ASCDLKALN----E  279 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~-~~~~~~~il~~-l~~------~~~~~~~~~----~  279 (444)
                      ..++|+|..|+|||||++.+....     ..+..+..-++.... ..++....+.. +..      ...+..-..    .
T Consensus       158 q~~~i~G~sG~GKStLl~~i~~~~-----~~~v~vi~~iGergrev~e~~~~~l~~~l~~tvvV~atsddsp~~R~~~~~  232 (434)
T PRK08472        158 QKLGIFAGSGVGKSTLMGMIVKGC-----LAPIKVVALIGERGREIPEFIEKNLGGDLENTVIVVATSDDSPLMRKYGAF  232 (434)
T ss_pred             CEEEEECCCCCCHHHHHHHHhhcc-----CCCEEEEEeeCccchhHHHHHHHHhcCcccceEEEEECCCCCHHHhhHHHH
Confidence            589999999999999999998653     233444444544432 23333332221 000      001111111    1


Q ss_pred             HHHHHHHHh--CCceEEEEEeCCCC
Q 047559          280 VQVQIKRAV--DGKKLLLVLDDVWN  302 (444)
Q Consensus       280 ~~~~l~~~l--~~kr~LlVlDdv~~  302 (444)
                      ....+.+++  +++++||++||+-.
T Consensus       233 ~a~~iAEyFrd~G~~Vll~~DslTr  257 (434)
T PRK08472        233 CAMSVAEYFKNQGLDVLFIMDSVTR  257 (434)
T ss_pred             HHHHHHHHHHHcCCCEEEecccchH
Confidence            123355555  68899999999943

>PRK11000 maltose/maltodextrin transporter ATP-binding protein; Provisional

Probab=95.43  E-value=0.081  Score=51.60  Aligned_cols=23  Identities=35%  Similarity=0.498  Sum_probs=21.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|.|||||.+.+..-
T Consensus        30 e~~~l~G~nGsGKSTLL~~iaGl   52 (369)
T PRK11000         30 EFVVFVGPSGCGKSTLLRMIAGL   52 (369)
T ss_pred             CEEEEECCCCCcHHHHHHHHhCC
Confidence            58999999999999999999754

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.43  E-value=0.36  Score=49.68  Aligned_cols=180  Identities=15%  Similarity=0.121  Sum_probs=93.4

Q ss_pred             cccccchhHHHHHHHHhcCCCC-------CCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHH
Q 047559          185 AVFGRQQDKAKMLEMVLTDTSS-------DHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVL  257 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~-------~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~  257 (444)
                      ++-|..+.++-+.+.+.-+..-       .-....-|.++|++|.|||-||..+......        -+++|-.+    
T Consensus       668 digg~~~~k~~l~~~i~~P~kyp~if~~~plr~~~giLLyGppGcGKT~la~a~a~~~~~--------~fisvKGP----  735 (952)
T KOG0735|consen  668 DIGGLFEAKKVLEEVIEWPSKYPQIFANCPLRLRTGILLYGPPGCGKTLLASAIASNSNL--------RFISVKGP----  735 (952)
T ss_pred             ecccHHHHHHHHHHHHhccccchHHHhhCCcccccceEEECCCCCcHHHHHHHHHhhCCe--------eEEEecCH----
Confidence            4556666666666655433211       0122356899999999999999999876422        14555443    


Q ss_pred             HHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChh-----------cHHHhhcccCC--CCCCcEE
Q 047559          258 NISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYC-----------LWEDLKAPFLA--AAPNSKI  324 (444)
Q Consensus       258 ~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~-----------~~~~l~~~l~~--~~~gs~i  324 (444)
                      +++...+   +.      +.+.......+.-.-++++++||++++..+.           -.+++...+..  +-.|.-|
T Consensus       736 ElL~KyI---Ga------SEq~vR~lF~rA~~a~PCiLFFDEfdSiAPkRGhDsTGVTDRVVNQlLTelDG~Egl~GV~i  806 (952)
T KOG0735|consen  736 ELLSKYI---GA------SEQNVRDLFERAQSAKPCILFFDEFDSIAPKRGHDSTGVTDRVVNQLLTELDGAEGLDGVYI  806 (952)
T ss_pred             HHHHHHh---cc------cHHHHHHHHHHhhccCCeEEEeccccccCcccCCCCCCchHHHHHHHHHhhccccccceEEE
Confidence            2222221   21      1222223333344678999999999774221           23444444432  3456666


Q ss_pred             EE-ecCChHHHh-hcCCC---CcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHH
Q 047559          325 IV-TTRHAHVAA-TMEPI---QQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLA  390 (444)
Q Consensus       325 iv-TTr~~~va~-~~~~~---~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pla  390 (444)
                      +- |||.+-+-. .+.+.   +.+.-..-++.+-.++|....- ......+-++    +.++.+.+|..-|
T Consensus       807 ~aaTsRpdliDpALLRpGRlD~~v~C~~P~~~eRl~il~~ls~-s~~~~~~vdl----~~~a~~T~g~tgA  872 (952)
T KOG0735|consen  807 LAATSRPDLIDPALLRPGRLDKLVYCPLPDEPERLEILQVLSN-SLLKDTDVDL----ECLAQKTDGFTGA  872 (952)
T ss_pred             EEecCCccccCHhhcCCCccceeeeCCCCCcHHHHHHHHHHhh-ccCCccccch----HHHhhhcCCCchh
Confidence            65 455433221 22322   2233344456666777765431 1122223333    4477777776544

>PRK13409 putative ATPase RIL; Provisional

Probab=95.43  E-value=0.087  Score=54.71  Aligned_cols=124  Identities=17%  Similarity=0.152  Sum_probs=62.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCC--cceeEEEEeCCC------CCHHHHHH-------------HHHHHhccC
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSK--FDVKAWVCVSDD------FDVLNISR-------------ALLESITFA  270 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~--f~~~~wv~vs~~------~~~~~~~~-------------~il~~l~~~  270 (444)
                      .+++|+|+.|+|||||++.+........+.  ++..+. .+.+.      .++.+.+.             .++..++..
T Consensus       366 eiv~l~G~NGsGKSTLlk~L~Gl~~p~~G~I~~~~~i~-y~~Q~~~~~~~~tv~e~l~~~~~~~~~~~~~~~~L~~l~l~  444 (590)
T PRK13409        366 EVIGIVGPNGIGKTTFAKLLAGVLKPDEGEVDPELKIS-YKPQYIKPDYDGTVEDLLRSITDDLGSSYYKSEIIKPLQLE  444 (590)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCCceEEEEeeeEE-EecccccCCCCCcHHHHHHHHhhhcChHHHHHHHHHHCCCH
Confidence            589999999999999999998653211111  111110 11221      12222222             222222211


Q ss_pred             C-----CCccc-HHHHHHHHHHHhCCceEEEEEeCCCC-CChhcHHHhhcccCC--CCCCcEEEEecCChHHHhh
Q 047559          271 S-----CDLKA-LNEVQVQIKRAVDGKKLLLVLDDVWN-EDYCLWEDLKAPFLA--AAPNSKIIVTTRHAHVAAT  336 (444)
Q Consensus       271 ~-----~~~~~-~~~~~~~l~~~l~~kr~LlVlDdv~~-~~~~~~~~l~~~l~~--~~~gs~iivTTr~~~va~~  336 (444)
                      .     ...-+ -+...-.|...|..++=+++||+--. .|...-..+...+..  ...|..||++|.+...+..
T Consensus       445 ~~~~~~~~~LSGGe~QRvaiAraL~~~p~llLLDEPt~~LD~~~~~~l~~~l~~l~~~~g~tviivsHD~~~~~~  519 (590)
T PRK13409        445 RLLDKNVKDLSGGELQRVAIAACLSRDADLYLLDEPSAHLDVEQRLAVAKAIRRIAEEREATALVVDHDIYMIDY  519 (590)
T ss_pred             HHHhCCcccCCHHHHHHHHHHHHHhcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHhCCCEEEEEeCCHHHHHH
Confidence            0     01111 12222345666667788999999743 233333333333332  1235678888888766554

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=95.43  E-value=0.18  Score=49.66  Aligned_cols=24  Identities=38%  Similarity=0.455  Sum_probs=21.1

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ..+|.++|+.|+||||++..++..
T Consensus       100 ~~vi~lvG~~GvGKTTtaaKLA~~  123 (429)
T TIGR01425       100 QNVIMFVGLQGSGKTTTCTKLAYY  123 (429)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            479999999999999999888754

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.

>PRK11174 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=95.42  E-value=0.15  Score=53.29  Aligned_cols=24  Identities=33%  Similarity=0.455  Sum_probs=21.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..++|+|..|.|||||++.+..-.
T Consensus       377 ~~vaIvG~SGsGKSTL~~lL~g~~  400 (588)
T PRK11174        377 QRIALVGPSGAGKTSLLNALLGFL  400 (588)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            689999999999999999987653

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=95.41  E-value=0.12  Score=47.73  Aligned_cols=41  Identities=22%  Similarity=0.329  Sum_probs=29.7

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCC
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSD  252 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~  252 (444)
                      +.-+++.|.|.+|+|||+|+.++......   .-..+++++...
T Consensus        34 p~gs~~lI~G~pGtGKT~l~~qf~~~~a~---~Ge~vlyis~Ee   74 (259)
T TIGR03878        34 PAYSVINITGVSDTGKSLMVEQFAVTQAS---RGNPVLFVTVES   74 (259)
T ss_pred             ECCcEEEEEcCCCCCHHHHHHHHHHHHHh---CCCcEEEEEecC
Confidence            34479999999999999999997654321   223567777754

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=95.41  E-value=0.011  Score=49.70  Aligned_cols=20  Identities=45%  Similarity=0.723  Sum_probs=18.7

Q ss_pred             EEEEEecCCChHHHHHHHHh
Q 047559          213 VIPIVGMAGVGKTTLAREVY  232 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~  232 (444)
                      .|+|.|.||+||||+++.+.
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            58999999999999999887

>TIGR03258 PhnT 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT

Probab=95.40  E-value=0.11  Score=50.48  Aligned_cols=23  Identities=35%  Similarity=0.621  Sum_probs=21.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|.|||||.+.+..-
T Consensus        32 e~~~llGpsGsGKSTLLr~iaGl   54 (362)
T TIGR03258        32 ELLALIGKSGCGKTTLLRAIAGF   54 (362)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999999864

This ATP-binding component of an ABC transport system is found in Salmonella and Burkholderia lineages in the vicinity of enzymes for the breakdown of 2-aminoethylphosphonate.

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=95.40  E-value=0.12  Score=48.02  Aligned_cols=26  Identities=42%  Similarity=0.521  Sum_probs=22.2

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhcc
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      +.+++.++|++|+||||++..+....
T Consensus        71 ~~~vi~l~G~~G~GKTTt~akLA~~l   96 (272)
T TIGR00064        71 KPNVILFVGVNGVGKTTTIAKLANKL   96 (272)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            34799999999999999998887654

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.

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=95.37  E-value=0.086  Score=55.68  Aligned_cols=85  Identities=19%  Similarity=0.156  Sum_probs=55.1

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCC-----CcccHHHHHHH
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASC-----DLKALNEVQVQ  283 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~-----~~~~~~~~~~~  283 (444)
                      +.-+++-|.|++|+|||||+.+++.....   .-..++|++....++..     .++.++....     ...+.+.....
T Consensus        58 p~GsiteI~G~~GsGKTtLal~~~~~a~~---~G~~v~yId~E~t~~~~-----~A~~lGvDl~~llv~~~~~~E~~l~~  129 (790)
T PRK09519         58 PRGRVIEIYGPESSGKTTVALHAVANAQA---AGGVAAFIDAEHALDPD-----YAKKLGVDTDSLLVSQPDTGEQALEI  129 (790)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHHHH---cCCcEEEECCccchhHH-----HHHHcCCChhHeEEecCCCHHHHHHH
Confidence            34489999999999999999886654321   23467899877776642     4455544321     22334445555


Q ss_pred             HHHHhC-CceEEEEEeCCC
Q 047559          284 IKRAVD-GKKLLLVLDDVW  301 (444)
Q Consensus       284 l~~~l~-~kr~LlVlDdv~  301 (444)
                      +...+. ++--|||+|.+-
T Consensus       130 i~~lv~~~~~~LVVIDSI~  148 (790)
T PRK09519        130 ADMLIRSGALDIVVIDSVA  148 (790)
T ss_pred             HHHHhhcCCCeEEEEcchh
Confidence            666554 456689999985

>PRK11176 lipid transporter ATP-binding/permease protein; Provisional

Probab=95.37  E-value=0.089  Score=54.86  Aligned_cols=23  Identities=30%  Similarity=0.479  Sum_probs=20.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ..++|+|..|.|||||++.+..-
T Consensus       370 ~~~aIvG~sGsGKSTLl~ll~gl  392 (582)
T PRK11176        370 KTVALVGRSGSGKSTIANLLTRF  392 (582)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhc
Confidence            57999999999999999999754

>PRK09452 potA putrescine/spermidine ABC transporter ATPase protein; Reviewed

Probab=95.36  E-value=0.1  Score=50.96  Aligned_cols=23  Identities=30%  Similarity=0.488  Sum_probs=21.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|.|||||.+.++.-
T Consensus        41 e~~~LlGpsGsGKSTLLr~IaGl   63 (375)
T PRK09452         41 EFLTLLGPSGCGKTTVLRLIAGF   63 (375)
T ss_pred             CEEEEECCCCCcHHHHHHHHhCC
Confidence            58999999999999999999854

>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional

Probab=95.36  E-value=0.047  Score=55.61  Aligned_cols=46  Identities=22%  Similarity=0.358  Sum_probs=36.6

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhc
Q 047559          185 AVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .++|....+.++.+.+..-...    -..|.|.|..|+||+++|+.+++.
T Consensus       220 ~iiG~S~~m~~~~~~i~~~A~s----~~pVLI~GE~GTGKe~~A~~IH~~  265 (538)
T PRK15424        220 DLLGQSPQMEQVRQTILLYARS----SAAVLIQGETGTGKELAAQAIHRE  265 (538)
T ss_pred             heeeCCHHHHHHHHHHHHHhCC----CCcEEEECCCCCCHHHHHHHHHHh
Confidence            4899988888888776542221    157999999999999999999876

>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=95.36  E-value=0.014  Score=46.60  Aligned_cols=23  Identities=39%  Similarity=0.635  Sum_probs=20.1

Q ss_pred             EEEEecCCChHHHHHHHHhhccc
Q 047559          214 IPIVGMAGVGKTTLAREVYNDRA  236 (444)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~~~  236 (444)
                      |.|+|..|+|||||.+.+.+...
T Consensus         2 I~V~G~~g~GKTsLi~~l~~~~~   24 (119)
T PF08477_consen    2 IVVLGDSGVGKTSLIRRLCGGEF   24 (119)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS-
T ss_pred             EEEECcCCCCHHHHHHHHhcCCC
Confidence            78999999999999999987643

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.

>PRK13635 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=95.36  E-value=0.098  Score=48.96  Aligned_cols=23  Identities=39%  Similarity=0.518  Sum_probs=21.1

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|..|.|||||.+.+...
T Consensus        34 e~~~i~G~nGaGKSTLl~~i~G~   56 (279)
T PRK13635         34 EWVAIVGHNGSGKSTLAKLLNGL   56 (279)
T ss_pred             CEEEEECCCCCcHHHHHHHHhcC
Confidence            58999999999999999999855

>PF13479 AAA_24: AAA domain

Probab=95.35  E-value=0.052  Score=48.58  Aligned_cols=20  Identities=50%  Similarity=0.581  Sum_probs=18.0

Q ss_pred             eEEEEEecCCChHHHHHHHH
Q 047559          212 AVIPIVGMAGVGKTTLAREV  231 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v  231 (444)
                      -.+.|+|.+|+||||+|..+
T Consensus         4 ~~~lIyG~~G~GKTt~a~~~   23 (213)
T PF13479_consen    4 IKILIYGPPGSGKTTLAASL   23 (213)
T ss_pred             eEEEEECCCCCCHHHHHHhC
Confidence            46899999999999999876

>PRK14528 adenylate kinase; Provisional

Probab=95.35  E-value=0.03  Score=48.96  Aligned_cols=24  Identities=29%  Similarity=0.339  Sum_probs=20.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      +.|.|.|++|+||||+|+.+....
T Consensus         2 ~~i~i~G~pGsGKtt~a~~la~~~   25 (186)
T PRK14528          2 KNIIFMGPPGAGKGTQAKILCERL   25 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            458899999999999999997654

>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=95.34  E-value=0.012  Score=51.16  Aligned_cols=23  Identities=43%  Similarity=0.658  Sum_probs=20.7

Q ss_pred             EEEEEecCCChHHHHHHHHhhcc
Q 047559          213 VIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      +|+|.|.+|+||||||+.+....
T Consensus         1 ii~i~G~sgsGKttla~~l~~~l   23 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQL   23 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            58999999999999999998764

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>TIGR01193 bacteriocin_ABC ABC-type bacteriocin transporter

Probab=95.34  E-value=0.14  Score=54.68  Aligned_cols=23  Identities=43%  Similarity=0.589  Sum_probs=20.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ..++|+|..|+|||||++.+..-
T Consensus       501 ~~vaIvG~SGsGKSTLlklL~gl  523 (708)
T TIGR01193       501 SKTTIVGMSGSGKSTLAKLLVGF  523 (708)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcc
Confidence            58999999999999999998654

This model describes ABC-type bacteriocin transporter. The amino terminal domain (pfam03412) processes the N-terminal leader peptide from the bacteriocin while C-terminal domains resemble ABC transporter membrane protein and ATP-binding cassette domain. In general, bacteriocins are agents which are responsible for killing or inhibiting the closely related species or even different strains of the same species. Bacteriocins are usually encoded by bacterial plasmids. Bacteriocins are named after the species and hence in literature one encounters various names e.g., leucocin from Leuconostic geldium; pedicocin from Pedicoccus acidilactici; sakacin from Lactobacillus sake etc.

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=95.32  E-value=0.07  Score=45.80  Aligned_cols=23  Identities=26%  Similarity=0.377  Sum_probs=20.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .++.|.|.+|+||||+|..+...
T Consensus         2 ~~ili~G~~~sGKS~~a~~l~~~   24 (170)
T PRK05800          2 MLILVTGGARSGKSRFAERLAAQ   24 (170)
T ss_pred             CEEEEECCCCccHHHHHHHHHHH
Confidence            36899999999999999998765

>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic

Probab=95.32  E-value=0.057  Score=51.58  Aligned_cols=23  Identities=30%  Similarity=0.466  Sum_probs=19.9

Q ss_pred             EEEEecCCChHHHHHHHHhhccc
Q 047559          214 IPIVGMAGVGKTTLAREVYNDRA  236 (444)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~~~  236 (444)
                      +.+.|++|.||||+++.+.+...
T Consensus         2 ~~l~Gl~GaGKST~~~~l~~~l~   24 (340)
T TIGR03575         2 CVLCGLPAAGKSTLARSLSATLR   24 (340)
T ss_pred             eEEECCCCCCHHHHHHHHHHHHH
Confidence            57899999999999999987653

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.

>PRK03846 adenylylsulfate kinase; Provisional

Probab=95.32  E-value=0.017  Score=51.03  Aligned_cols=27  Identities=26%  Similarity=0.361  Sum_probs=23.2

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ++..+|.|+|++|+||||||+.+....
T Consensus        22 ~~~~~i~i~G~~GsGKSTla~~l~~~l   48 (198)
T PRK03846         22 HKGVVLWFTGLSGSGKSTVAGALEEAL   48 (198)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            344799999999999999999998753

>cd03284 ABC_MutS1 MutS1 homolog in eukaryotes

Probab=95.31  E-value=0.018  Score=51.57  Aligned_cols=21  Identities=33%  Similarity=0.447  Sum_probs=19.6

Q ss_pred             eEEEEEecCCChHHHHHHHHh
Q 047559          212 AVIPIVGMAGVGKTTLAREVY  232 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~  232 (444)
                      .++.|.|+.|.||||+.+.+.
T Consensus        31 ~~~~l~Gpn~sGKstllr~i~   51 (216)
T cd03284          31 QILLITGPNMAGKSTYLRQVA   51 (216)
T ss_pred             eEEEEECCCCCChHHHHHHHH
Confidence            789999999999999999985

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clam

>PRK13947 shikimate kinase; Provisional

Probab=95.31  E-value=0.013  Score=50.40  Aligned_cols=23  Identities=35%  Similarity=0.576  Sum_probs=20.8

Q ss_pred             EEEEEecCCChHHHHHHHHhhcc
Q 047559          213 VIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      -|.|+|++|+||||+|+.+.+..
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~l   25 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTL   25 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHh
Confidence            48999999999999999998864

>PRK00300 gmk guanylate kinase; Provisional

Probab=95.31  E-value=0.015  Score=51.70  Aligned_cols=24  Identities=29%  Similarity=0.546  Sum_probs=21.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+|+|+|++|+|||||++.+....
T Consensus         6 ~~i~i~G~sGsGKstl~~~l~~~~   29 (205)
T PRK00300          6 LLIVLSGPSGAGKSTLVKALLERD   29 (205)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhC
Confidence            689999999999999999998753

>PRK14738 gmk guanylate kinase; Provisional

Probab=95.31  E-value=0.017  Score=51.39  Aligned_cols=26  Identities=23%  Similarity=0.399  Sum_probs=22.4

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ...+.+.|+|++|+|||||++.+...
T Consensus        11 ~~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738         11 AKPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             CCCeEEEEECcCCCCHHHHHHHHHhc
Confidence            34588999999999999999998754

>PRK07196 fliI flagellum-specific ATP synthase; Validated

Probab=95.30  E-value=0.069  Score=52.65  Aligned_cols=86  Identities=20%  Similarity=0.240  Sum_probs=47.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCC-CCCHHHHHHHHHHHhccC-------CCCcc-----cHH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSD-DFDVLNISRALLESITFA-------SCDLK-----ALN  278 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~-~~~~~~~~~~il~~l~~~-------~~~~~-----~~~  278 (444)
                      ..++|+|..|+|||||++.+....     ..+..+...+.. ..+..++....+..-...       ..+..     ...
T Consensus       156 Q~igI~G~sGaGKSTLl~~I~g~~-----~~dv~vig~IGerg~ev~ef~~~~l~~~gl~rsvvv~~~~d~s~~~rl~a~  230 (434)
T PRK07196        156 QRVGLMAGSGVGKSVLLGMITRYT-----QADVVVVGLIGERGREVKEFIEHSLQAAGMAKSVVVAAPADESPLMRIKAT  230 (434)
T ss_pred             eEEEEECCCCCCccHHHHHHhccc-----CCCeEEEEEEeeecHHHHHHHHHHhhhcccceEEEEEecCCCChhhhHHHH
Confidence            689999999999999999887653     223332232322 223333333333322111       11111     112


Q ss_pred             HHHHHHHHHh--CCceEEEEEeCCCC
Q 047559          279 EVQVQIKRAV--DGKKLLLVLDDVWN  302 (444)
Q Consensus       279 ~~~~~l~~~l--~~kr~LlVlDdv~~  302 (444)
                      .....+.++.  +++++||++||+-.
T Consensus       231 e~a~~iAEyfr~~g~~Vll~~Dsltr  256 (434)
T PRK07196        231 ELCHAIATYYRDKGHDVLLLVDSLTR  256 (434)
T ss_pred             HHHHHHHHHhhhccCCEEEeecchhH
Confidence            2333445554  67899999999943

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=95.29  E-value=0.11  Score=45.48  Aligned_cols=24  Identities=33%  Similarity=0.519  Sum_probs=20.8

Q ss_pred             CceEEEEEecCCChHHHHHHHHhh
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYN  233 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~  233 (444)
                      +-.|.++.|++|.||||+.+.+-.
T Consensus        32 ~~~VTAlIGPSGcGKST~LR~lNR   55 (253)
T COG1117          32 KNKVTALIGPSGCGKSTLLRCLNR   55 (253)
T ss_pred             CCceEEEECCCCcCHHHHHHHHHh
Confidence            347999999999999999987754

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

Probab=95.29  E-value=0.04  Score=46.64  Aligned_cols=28  Identities=32%  Similarity=0.402  Sum_probs=24.0

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhcccc
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDRAV  237 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~  237 (444)
                      +..+|-+.|.+|.||||+|..++.....
T Consensus        22 ~~~viW~TGLSGsGKSTiA~ale~~L~~   49 (197)
T COG0529          22 KGAVIWFTGLSGSGKSTIANALEEKLFA   49 (197)
T ss_pred             CCeEEEeecCCCCCHHHHHHHHHHHHHH
Confidence            3479999999999999999999887543

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=95.29  E-value=0.017  Score=49.44  Aligned_cols=27  Identities=26%  Similarity=0.455  Sum_probs=23.3

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhccc
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDRA  236 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  236 (444)
                      ...+++|+|..|+|||||++.+.....
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~~l~   31 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIPALC   31 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHHHHh
Confidence            346999999999999999999987653

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=95.29  E-value=0.041  Score=50.89  Aligned_cols=87  Identities=18%  Similarity=0.218  Sum_probs=55.3

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccC------------------
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFA------------------  270 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~------------------  270 (444)
                      +.-+++.|+|.+|+|||+++.++....  .. ....++||+....  ..++.+.+.+ ++-.                  
T Consensus        21 p~g~~~lI~G~pGsGKT~f~~qfl~~~--~~-~ge~vlyvs~~e~--~~~l~~~~~~-~g~d~~~~~~~g~l~i~d~~~~   94 (260)
T COG0467          21 PRGSVVLITGPPGTGKTIFALQFLYEG--AR-EGEPVLYVSTEES--PEELLENARS-FGWDLEVYIEKGKLAILDAFLS   94 (260)
T ss_pred             cCCcEEEEEcCCCCcHHHHHHHHHHHH--Hh-cCCcEEEEEecCC--HHHHHHHHHH-cCCCHHHHhhcCCEEEEEcccc
Confidence            344899999999999999999988763  23 5678899988764  3344333322 2110                  


Q ss_pred             -CC-------CcccHHHHHHHHHHHhCC-ceEEEEEeCCC
Q 047559          271 -SC-------DLKALNEVQVQIKRAVDG-KKLLLVLDDVW  301 (444)
Q Consensus       271 -~~-------~~~~~~~~~~~l~~~l~~-kr~LlVlDdv~  301 (444)
                       ..       ...+...+...+.+.... +...+|+|.+-
T Consensus        95 ~~~~~~~~~~~~~~~~~l~~~I~~~~~~~~~~~~ViDsi~  134 (260)
T COG0467          95 EKGLVSIVVGDPLDLEELLDRIREIVEKEGADRVVIDSIT  134 (260)
T ss_pred             ccccccccccCCccHHHHHHHHHHHHHHhCCCEEEEeCCc
Confidence             00       012445566666665532 36778899985

>TIGR02203 MsbA_lipidA lipid A export permease/ATP-binding protein MsbA

Probab=95.28  E-value=0.14  Score=53.23  Aligned_cols=23  Identities=30%  Similarity=0.470  Sum_probs=20.7

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ..++|+|..|.|||||++.+...
T Consensus       359 ~~v~IvG~sGsGKSTLl~lL~gl  381 (571)
T TIGR02203       359 ETVALVGRSGSGKSTLVNLIPRF  381 (571)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhc
Confidence            68999999999999999998654

This family consists of a single polypeptide chain transporter in the ATP-binding cassette (ABC) transporter family, MsbA, which exports lipid A. It may also act in multidrug resistance. Lipid A, a part of lipopolysaccharide, is found in the outer leaflet of the outer membrane of most Gram-negative bacteria. Members of this family are restricted to the Proteobacteria (although lipid A is more broadly distributed) and often are clustered with lipid A biosynthesis genes.

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=95.27  E-value=0.013  Score=48.40  Aligned_cols=22  Identities=36%  Similarity=0.700  Sum_probs=19.8

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .++|+|+.|+|||||++.+...
T Consensus         1 ~i~i~GpsGsGKstl~~~L~~~   22 (137)
T cd00071           1 LIVLSGPSGVGKSTLLKRLLEE   22 (137)
T ss_pred             CEEEECCCCCCHHHHHHHHHhc
Confidence            3789999999999999999875

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.

>COG2842 Uncharacterized ATPase, putative transposase [General function prediction only]

Probab=95.26  E-value=0.46  Score=43.86  Aligned_cols=97  Identities=15%  Similarity=0.203  Sum_probs=65.7

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGK  291 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  291 (444)
                      +.+.++|+.|+|||+-++.+++..       +..+-+..++.++...+...+.........  .........+...+.+.
T Consensus        95 ~l~~vyg~~g~gKt~a~~~y~~s~-------p~~~l~~~~p~~~a~~~i~~i~~~~~~~~~--~~~~d~~~~~~~~l~~~  165 (297)
T COG2842          95 SLVVVYGYAGLGKTQAAKNYAPSN-------PNALLIEADPSYTALVLILIICAAAFGATD--GTINDLTERLMIRLRDT  165 (297)
T ss_pred             ceEEEeccccchhHHHHHhhcccC-------ccceeecCChhhHHHHHHHHHHHHHhcccc--hhHHHHHHHHHHHHccC
Confidence            488999999999999999998752       222334556666666666666665554332  22333444555566888


Q ss_pred             eEEEEEeCCCCCChhcHHHhhcccCC
Q 047559          292 KLLLVLDDVWNEDYCLWEDLKAPFLA  317 (444)
Q Consensus       292 r~LlVlDdv~~~~~~~~~~l~~~l~~  317 (444)
                      .-+|++|+........++.+......
T Consensus       166 ~~~iivDEA~~L~~~ale~lr~i~d~  191 (297)
T COG2842         166 VRLIIVDEADRLPYRALEELRRIHDK  191 (297)
T ss_pred             cceeeeehhhccChHHHHHHHHHHHh
Confidence            88999999987766677777665433

>TIGR01192 chvA glucan exporter ATP-binding protein

Probab=95.26  E-value=0.2  Score=52.28  Aligned_cols=23  Identities=39%  Similarity=0.509  Sum_probs=20.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ..++|+|+.|.|||||++.+...
T Consensus       362 ~~~~ivG~sGsGKSTL~~ll~g~  384 (585)
T TIGR01192       362 QTVAIVGPTGAGKTTLINLLQRV  384 (585)
T ss_pred             CEEEEECCCCCCHHHHHHHHccC
Confidence            68999999999999999998654

This model describes glucan exporter ATP binding protein in bacteria. It belongs to the larger ABC transporter superfamily with the characteristic ATP binding motif. The In general, this protein is in some ways implicated in osmoregulation and suggested to participate in the export of glucan from the cytoplasm to periplasm. The cyclic beta-1,2-glucan in the bactrerial periplasmic space is suggested to confer the property of high osmolority. It has also been demonstrated that mutants in this loci have lost functions of virulence and motility. It is unclear as to how virulence and osmoadaptaion are related.

>PRK15439 autoinducer 2 ABC transporter ATP-binding protein LsrA; Provisional

Probab=95.25  E-value=0.16  Score=52.01  Aligned_cols=23  Identities=30%  Similarity=0.439  Sum_probs=21.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        38 e~~~liG~NGsGKSTLl~~l~Gl   60 (510)
T PRK15439         38 EVHALLGGNGAGKSTLMKIIAGI   60 (510)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999999754

---

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	444
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	6e-95
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	1e-87
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-39
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	4e-13
3qfl_A	115	MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-	1e-11

>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 =  296 bits (760), Expect = 6e-95
 Identities = 60/407 (14%), Positives = 129/407 (31%), Gaps = 45/407 (11%)

Query: 60  EKQLTDEAVKLWLDDLRDLAYDAEDILDEFATKALDRKFIAD--RDHGASSSKVQMLVPA 117
           + +  +  ++      +D+      I+D   +         +  R+      +  ML+  
Sbjct: 2   DAKARNCLLQHREALEKDI--KTSYIMDHMISDGFLTISEEEKVRNEPTQQQRAAMLIKM 59

Query: 118 PCFGCFKIQNTVNFNGKMRSSIKDITGRFDQLCNQRIHLGLQLTPGGTSSTTTAQRRTPT 177
                        +N  +    KD+                + +  G +S    +     
Sbjct: 60  -ILKKDNDSYVSFYNALLHEGYKDLAALLHDGIPVVSSSSGKDSVSGITSYV--RTVLCE 116

Query: 178 SSVSTERAVF-GRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRA 236
             V     VF  R++    + + +             + I GMAG GK+ LA E   D +
Sbjct: 117 GGVPQRPVVFVTRKKLVNAIQQKLS----KLKGEPGWVTIHGMAGCGKSVLAAEAVRDHS 172

Query: 237 VEDSKF-DVKAWVCVSDDFDV------LNISRALLESITFASCDLKALNEVQVQIKR--A 287
           + +  F     WV V             N+   L +  +F+      + E + +++    
Sbjct: 173 LLEGCFPGGVHWVSVGKQDKSGLLMKLQNLCTRLDQDESFSQRLPLNIEEAKDRLRILML 232

Query: 288 VDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAATM--EPIQQYNL 345
               + LL+LDDVW+      +             +I++TTR   V  ++          
Sbjct: 233 RKHPRSLLILDDVWDSWV--LKAF-------DSQCQILLTTRDKSVTDSVMGPKYVVPVE 283

Query: 346 QCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLLRSKRH-- 403
             L  E    +  +     +     + +      ++ +C G PL    +G LLR   +  
Sbjct: 284 SSLGKEKGLEILSLFVN-MKKADLPEQA----HSIIKECKGSPLVVSLIGALLRDFPNRW 338

Query: 404 DEWDEILNSNILDLPQQ------NGILSVLRLSYHYLPSQLKRCFAY 444
           + + + L +      ++        +   + +S   L   +K  +  
Sbjct: 339 EYYLKQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTD 385

>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 =  276 bits (707), Expect = 1e-87
 Identities = 55/413 (13%), Positives = 125/413 (30%), Gaps = 48/413 (11%)

Query: 54  VLRDAEEKQLTDEAVKLWLDDLRDLAYDAEDILDEFATKALDRKFIADRDHGASSSKVQM 113
            L  A  + + D   +  L  L       ED  +  +  +   +            ++  
Sbjct: 9   ALSTAHTRLIHDFEPRDALTYLEGKNIFTEDHSELISKMSTRLE------------RIAN 56

Query: 114 LVPAPCFGCFKIQNTVN-FNGKMRSSIKDITGRFDQLCNQRIHLGLQLTPGGTSSTTTAQ 172
            +        ++   ++ FN   +S + D    +         L   +      S     
Sbjct: 57  FLRIYRRQASELGPLIDFFNYNNQSHLADFLEDYIDFAINEPDLLRPVVIAPQFSRQMLD 116

Query: 173 RRTPTSSVSTERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVY 232
           R+    +V  +   + R+    ++++ +      D      + + G AG GK+ +A +  
Sbjct: 117 RKLLLGNVPKQMTCYIREYHVDRVIKKLDEMCDLDSF---FLFLHGRAGSGKSVIASQAL 173

Query: 233 ND-RAVEDSKFDVKAWVCVS-----DDFDVLNISRALLESITFASCDLKALNEVQVQIKR 286
           +    +    +D   W+  S       FD+      +L+S           +   V +KR
Sbjct: 174 SKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKR 233

Query: 287 -----AVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAATMEP-I 340
                 +D    L V DDV  E+   W              + +VTTR   ++       
Sbjct: 234 MICNALIDRPNTLFVFDDVVQEETIRWAQEL--------RLRCLVTTRDVEISNAASQTC 285

Query: 341 QQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLLRS 400
           +   +  L  ++C+     +         ++  D+  +  +    G P            
Sbjct: 286 EFIEVTSLEIDECYDFLEAYGM--PMPVGEKEEDVLNK-TIELSSGNPATLMMFFKSCEP 342

Query: 401 KRHDEWDEILN-------SNILDLPQQ--NGILSVLRLSYHYLPSQLKRCFAY 444
           K  ++  ++ N         +  +       +   L+     L  + +   A+
Sbjct: 343 KTFEKMAQLNNKLESRGLVGVECITPYSYKSLAMALQRCVEVLSDEDRSALAF 395

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score =  150 bits (378), Expect = 3e-39
 Identities = 77/413 (18%), Positives = 140/413 (33%), Gaps = 86/413 (20%)

Query: 72  LD-DLRDLAYDAEDILDEFA---TKALDRKFIADRDHGA-SSSKVQMLVPAP-------- 118
           +D +  +  Y  +DIL  F        D K + D      S  ++  ++ +         
Sbjct: 7   MDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLR 66

Query: 119 CFGCFKIQ--NTVN--FNGKMRSSIKDITGRFDQLCNQRIHLGLQLTPGGTSSTTTAQRR 174
            F     +    V       +R + K +         Q         P   +     QR 
Sbjct: 67  LFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQ---------PSMMTRMYIEQRD 117

Query: 175 TPTSSVS--TERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVY 232
              +      +  V  R Q   K+ + +L        N+ +    G+ G GKT +A +V 
Sbjct: 118 RLYNDNQVFAKYNV-SRLQPYLKLRQALLEL--RPAKNVLI---DGVLGSGKTWVALDVC 171

Query: 233 NDRAVEDSKFDVKA-WV----CVSDDFDVLNISRALLESITFASCDLK--------ALNE 279
               V+  K D K  W+    C S +  VL + + LL  I                 ++ 
Sbjct: 172 LSYKVQC-KMDFKIFWLNLKNCNSPE-TVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHS 229

Query: 280 VQVQIKRAVDGKKL---LLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVA-- 334
           +Q +++R +  K     LLVL +V N      +   A F     + KI++TTR   V   
Sbjct: 230 IQAELRRLLKSKPYENCLLVLLNVQN-----AKAWNA-F---NLSCKILLTTRFKQVTDF 280

Query: 335 ----ATMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLA 390
                T      ++   L+ ++  SL +   ++          DL RE         P  
Sbjct: 281 LSAATTTHISLDHHSMTLTPDEVKSLLL--KYLDCR-----PQDLPRE----VLTTNPRR 329

Query: 391 AKTLGGLLRSKRHDEWDEILNSNILDLPQQNGILSVLRLSYHYL-PSQLKRCF 442
              +   +R      WD   + N       + + +++  S + L P++ ++ F
Sbjct: 330 LSIIAESIR-DGLATWDNWKHVNC------DKLTTIIESSLNVLEPAEYRKMF 375

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A* Length = 1249

 Score = 71.0 bits (174), Expect = 4e-13
 Identities = 52/278 (18%), Positives = 95/278 (34%), Gaps = 43/278 (15%)

Query: 187 FGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKF-DVK 245
             R++    + + +     +       I   GMAG GK+ LA E   D ++ +  F    
Sbjct: 127 VTRKKLVHAIQQKLWK--LNGEPGWVTI--YGMAGCGKSVLAAEAVRDHSLLEGCFSGGV 182

Query: 246 AWVCVSDDFD------VLNISRALLESITFASCDLKALNEVQVQIKRAVDGK--KLLLVL 297
            WV +           + N+   L +  +F+      + E + +++  +  K  + LL+L
Sbjct: 183 HWVSIGKQDKSGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLIL 242

Query: 298 DDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAATME--PIQQYNLQCLSDEDCWS 355
           DDVW+              A     +I++TTR   V  ++            L  E    
Sbjct: 243 DDVWDPWV---------LKAFDNQCQILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLE 293

Query: 356 LFMMHAFVGQDITAQQISDLFRE--KVVGKCGGLPLAAKTLGGLLRSKRHDEWDEIL--- 410
           +              +  DL  E   ++ +C G PL    +G LLR    + W   L   
Sbjct: 294 IL-------SLFVNMKKEDLPAEAHSIIKECKGSPLVVSLIGALLRDFP-NRWAYYLRQL 345

Query: 411 -NSNILDL-----PQQNGILSVLRLSYHYLPSQLKRCF 442
            N     +          +   + +S   L   +K  +
Sbjct: 346 QNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYY 383

>3qfl_A MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-binding domain, L rich repeat containing receptors, protein binding; 2.00A {Hordeum vulgare} Length = 115

 Score = 60.6 bits (147), Expect = 1e-11
 Identities = 22/72 (30%), Positives = 35/72 (48%), Gaps = 2/72 (2%)

Query: 24 GDLLNFVSQLGGGVASELKKWEDCLMMIQAVLRDAEEKQL--TDEAVKLWLDDLRDLAYD 81
          G+LL    +L  GV   ++     L  + A L    E      D   KLW D++R+L+Y 
Sbjct: 11 GELLTEEFKLHKGVKKNIEDLGKELESMNAALIKIGEVPREQLDSQDKLWADEVRELSYV 70

Query: 82 AEDILDEFATKA 93
           ED++D+F  + 
Sbjct: 71 IEDVVDKFLVQV 82

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	444
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	100.0
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	100.0
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	99.98
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.96
3qfl_A	115	MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-	99.67
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	99.64
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.62
2fna_A	357	Conserved hypothetical protein; structural genomic	99.59
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.48
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.47
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.46
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.42
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.4
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.37
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	99.23
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	99.07
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	98.99
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	98.98
2chq_A	319	Replication factor C small subunit; DNA-binding pr	98.93
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	98.83
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	98.74
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	98.72
3bos_A	242	Putative DNA replication factor; P-loop containing	98.69
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	98.67
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	98.66
3pvs_A	447	Replication-associated recombination protein A; ma	98.65
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	98.64
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	98.62
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	98.61
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	98.57
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	98.55
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	98.54
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	98.54
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	98.52
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	98.51
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	98.39
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	98.38
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	98.38
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	98.38
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	98.37
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	98.36
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	98.35
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	98.34
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	98.34
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	98.29
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	98.26
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	98.2
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	98.19
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	98.15
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	98.14
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	98.11
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	98.07
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	98.06
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	98.05
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	98.05
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	98.04
3co5_A	143	Putative two-component system transcriptional RES	98.04
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	98.03
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	97.97
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.96
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	97.95
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.92
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	97.91
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	97.91
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	97.86
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	97.83
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	97.82
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.78
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	97.76
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	97.71
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	97.7
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	97.69
2r44_A	331	Uncharacterized protein; putative ATPase, structur	97.68
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	97.67
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.59
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	97.59
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	97.49
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	97.48
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	97.44
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	97.33
2cvh_A	220	DNA repair and recombination protein RADB; filamen	97.27
2qgz_A	308	Helicase loader, putative primosome component; str	97.26
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	97.23
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	97.22
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	97.19
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	97.18
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	97.04
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	97.01
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	96.98
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	96.97
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	96.92
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	96.86
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	96.86
3io5_A	333	Recombination and repair protein; storage dimer, i	96.79
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	96.75
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	96.72
1xp8_A	366	RECA protein, recombinase A; recombination, radior	96.69
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	96.66
2z43_A	324	DNA repair and recombination protein RADA; archaea	96.65
3ice_A	422	Transcription termination factor RHO; transcriptio	96.65
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.63
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	96.6
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	96.58
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	96.56
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	96.54
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	96.44
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	96.41
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	96.39
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	96.3
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	96.29
1u94_A	356	RECA protein, recombinase A; homologous recombinat	96.27
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	96.24
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	96.21
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.2
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	96.16
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.15
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.13
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.06
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.05
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	96.05
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	96.03
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	96.01
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	96.0
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	96.0
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	95.99
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	95.97
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	95.95
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	95.93
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	95.9
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	95.88
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	95.85
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	95.85
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	95.84
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	95.83
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	95.81
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	95.81
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	95.78
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	95.77
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	95.76
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	95.75
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	95.74
3l0o_A	427	Transcription termination factor RHO; helicase, RH	95.69
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	95.69
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	95.67
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	95.66
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	95.65
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	95.63
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	95.63
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	95.61
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	95.6
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	95.59
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	95.59
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	95.58
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	95.57
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	95.53
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	95.53
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	95.52
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	95.52
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	95.5
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	95.47
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	95.44
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	95.44
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	95.42
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	95.42
1via_A	175	Shikimate kinase; structural genomics, transferase	95.41
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	95.41
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	95.39
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	95.37
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	95.36
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	95.36
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	95.36
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	95.35
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	95.34
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	95.33
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	95.3
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	95.29
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	95.28
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	95.28
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	95.27
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	95.24
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	95.21
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	95.21
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	95.21
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	95.2
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	95.2
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	95.19
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	95.19
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	95.18
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	95.17
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	95.15
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	95.14
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	95.13
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	95.13
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	95.12
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	95.08
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	95.05
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	95.03
2vli_A	183	Antibiotic resistance protein; transferase, tunica	95.03
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	95.0
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	94.97
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	94.96
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	94.94
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	94.93
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	94.91
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	94.91
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	94.9
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	94.89
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	94.88
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	94.86
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	94.86
3vr4_D	465	V-type sodium ATPase subunit D; V-ATPase, rotary m	94.86
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	94.85
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	94.83
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	94.81
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	94.81
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	94.8
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	94.79
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	94.79
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	94.77
2r6a_A	454	DNAB helicase, replicative helicase; replication,	94.75
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	94.75
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	94.74
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	94.73
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	94.73
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	94.71
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	94.7
1tue_A	212	Replication protein E1; helicase, replication, E1E	94.69
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	94.69
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	94.66
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	94.66
4a74_A	231	DNA repair and recombination protein RADA; hydrola	94.66
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	94.64
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	94.63
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	94.63
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	94.63
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	94.62
2hf9_A	226	Probable hydrogenase nickel incorporation protein	94.61
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	94.61
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	94.59
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	94.56
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	94.55
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	94.55
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	94.55
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	94.52
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	94.52
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	94.52
2ged_A	193	SR-beta, signal recognition particle receptor beta	94.51
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	94.49
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	94.47
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	94.47
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	94.47
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	94.47
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	94.45
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	94.44
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	94.44
3mfy_A	588	V-type ATP synthase alpha chain; A-type ATP syntha	94.44
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	94.44
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	94.42
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	94.38
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	94.35
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	94.31
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	94.3
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	94.3
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	94.28
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	94.27
2xxa_A	433	Signal recognition particle protein; protein trans	94.27
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	94.26
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	94.25
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	94.24
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	94.24
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	94.22
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	94.22
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	94.22
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	94.21
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	94.16
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	94.16
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	94.15
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	94.14
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	94.13
1b0u_A	262	Histidine permease; ABC transporter, transport pro	94.13
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	94.11
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	94.1
1ji0_A	240	ABC transporter; ATP binding protein, structural g	94.07
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	94.05
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	94.05
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	94.05
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	94.05
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	94.03
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	94.02
1g6h_A	257	High-affinity branched-chain amino acid transport	94.01
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	94.0
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	93.99
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	93.99
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	93.98
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	93.96
1sgw_A	214	Putative ABC transporter; structural genomics, P p	93.96
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	93.95
3vr4_A	600	V-type sodium ATPase catalytic subunit A; V-ATPase	93.9
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	93.86
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	93.85
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	93.8
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	93.8
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	93.79
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	93.78
2wji_A	165	Ferrous iron transport protein B homolog; membrane	93.78
2ghi_A	260	Transport protein; multidrug resistance protein, M	93.78
2og2_A	359	Putative signal recognition particle receptor; nuc	93.76
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	93.76
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	93.75
2j9r_A	214	Thymidine kinase; TK1, DNK, lasso, transferase, AT	93.73
2eyu_A	261	Twitching motility protein PILT; pilus retraction	93.7
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	93.68
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	93.67
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	93.67
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	93.65
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	93.64
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	93.63
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	93.62
3fwy_A	314	Light-independent protochlorophyllide reductase I	93.62
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	93.61
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	93.6
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	93.58
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	93.57
1fx0_A	507	ATP synthase alpha chain; latent ATPase, thermal s	93.57
2xau_A	773	PRE-mRNA-splicing factor ATP-dependent RNA helica;	93.57
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	93.56
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	93.55
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	93.53
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	93.49
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	93.47
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	93.45
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	93.43
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	93.42
1xx6_A	191	Thymidine kinase; NESG, northeast structural genom	93.41
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	93.36
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	93.34
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	93.33
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	93.31
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	93.3
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	93.29
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	93.25
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	93.23
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	93.19
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	93.18
3thx_A	934	DNA mismatch repair protein MSH2; ABC family ATPas	93.11
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	93.1
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	93.04
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	93.04
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	93.03
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	93.03
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	93.02
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	92.99
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	92.98
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	92.98
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	92.95
3kta_A	182	Chromosome segregation protein SMC; structural mai	92.93
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	92.92
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	92.89
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	92.89
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	92.87
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	92.86
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	92.85
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	92.84
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	92.84
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	92.84
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	92.83
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	92.82
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	92.81
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	92.77
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	92.76
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	92.74
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	92.71
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	92.68
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	92.65
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	92.63
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	92.63
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	92.62
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	92.61
1nrj_B	218	SR-beta, signal recognition particle receptor beta	92.59
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	92.58
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	92.55
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	92.54
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	92.52
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	92.51
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	92.45
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	92.45
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	92.44
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	92.44
3gqb_A	578	V-type ATP synthase alpha chain; A3B3, V-ATPase, A	92.43
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	92.42
1p9r_A	418	General secretion pathway protein E; bacterial typ	92.4
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	92.39
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	92.37
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	92.36
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	92.35
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	92.35
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	92.34
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	92.33
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	92.33
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	92.29
3vkw_A	446	Replicase large subunit; alpha/beta domain, helica	92.25
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	92.24
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	92.22
1w36_D	608	RECD, exodeoxyribonuclease V alpha chain; recombin	92.2
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	92.2
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	92.19
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	92.17
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	92.16
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	92.16
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	92.16
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	92.13
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	92.12
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	92.11
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	92.11
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	92.08
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	92.06
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	92.05
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	92.05
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	92.04
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	92.03
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	92.03
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	92.0
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	91.99
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	91.98
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	91.97
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	91.95
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	91.95
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	91.92
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	91.92
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	91.91
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	91.9
3llu_A	196	RAS-related GTP-binding protein C; structural geno	91.9
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	91.87
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	91.87
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	91.86
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	91.82
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	91.8
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	91.79
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	91.79
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	91.79
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	91.77
2ewv_A	372	Twitching motility protein PILT; pilus retraction	91.77
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	91.74
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	91.73
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	91.73
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	91.72
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	91.71
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	91.7
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	91.7
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	91.69
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	91.66
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	91.65
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	91.64
2fh5_B	214	SR-beta, signal recognition particle receptor beta	91.62
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	91.6
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	91.58
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	91.58
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	91.57
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	91.57
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	91.56
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	91.55
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	91.52
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	91.48
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	91.47
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	91.46
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	91.44
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	91.42
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	91.41
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	91.41
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	91.4
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	91.4
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	91.35
3ch4_B	202	Pmkase, phosphomevalonate kinase; parallel beta-sh	91.35
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	91.31
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	91.3
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	91.3
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	91.3
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	91.29
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	91.29
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	91.29
3end_A	307	Light-independent protochlorophyllide reductase ir	91.24
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	91.22
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	91.2
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	91.2
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	91.2
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	91.11
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	91.07
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	91.06
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	91.05
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	91.0
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	90.99
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	90.94
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	90.89
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	90.89
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	90.86
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	90.85
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	90.82
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	90.81
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	90.76
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	90.72

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*

Probab=100.00  E-value=3.7e-40  Score=336.63  Aligned_cols=240  Identities=17%  Similarity=0.236  Sum_probs=195.6

Q ss_pred             cccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhh--ccccccCCcceeEEEEeCCCC--CHHHHHHH
Q 047559          187 FGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYN--DRAVEDSKFDVKAWVCVSDDF--DVLNISRA  262 (444)
Q Consensus       187 vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~--~~~~~~~~f~~~~wv~vs~~~--~~~~~~~~  262 (444)
                      |||+.++++|.++|.....   ...++|+|+||||+||||||+++|+  +.+++. +|++++||++++.+  +...++..
T Consensus       131 ~GR~~~~~~l~~~L~~~~~---~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~-~F~~~~wv~vs~~~~~~~~~~~~~  206 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEMCD---LDSFFLFLHGRAGSGKSVIASQALSKSDQLIGI-NYDSIVWLKDSGTAPKSTFDLFTD  206 (549)
T ss_dssp             CCCHHHHHHHHHHHHHHTT---SSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTT-TBSEEEEEECCCCSTTHHHHHHHH
T ss_pred             CCchHHHHHHHHHHhcccC---CCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhc-cCCcEEEEEECCCCCCCHHHHHHH
Confidence            5999999999999976432   4579999999999999999999998  567887 99999999999985  89999999


Q ss_pred             HHHHhccCCC-------CcccHHHHHHHHHHHhCCc-eEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCChHHH
Q 047559          263 LLESITFASC-------DLKALNEVQVQIKRAVDGK-KLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVA  334 (444)
Q Consensus       263 il~~l~~~~~-------~~~~~~~~~~~l~~~l~~k-r~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~~va  334 (444)
                      |+.+++....       +..+...+...+.+.|.++ ||||||||||+.+...|..        .+||+||||||+..++
T Consensus       207 il~~l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~~~~~~~~--------~~gs~ilvTTR~~~v~  278 (549)
T 2a5y_B          207 ILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWAQ--------ELRLRCLVTTRDVEIS  278 (549)
T ss_dssp             HHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHHHHHH--------HTTCEEEEEESBGGGG
T ss_pred             HHHHHhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCCchhhcccc--------cCCCEEEEEcCCHHHH
Confidence            9999976521       1234566788999999996 9999999999864333432        2799999999999999


Q ss_pred             hhcCCC-CcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHHHhcCCCHHHHHHHHhcc
Q 047559          335 ATMEPI-QQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLLRSKRHDEWDEILNSN  413 (444)
Q Consensus       335 ~~~~~~-~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~~L~~~~~~~w~~~l~~~  413 (444)
                      ..++.. .+|+|++|+.++||+||.+++|...   ..+.+++++++|+++|+|+||||+++|+.|+.++ .+|...+.+.
T Consensus       279 ~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~---~~~~~~~~~~~I~~~c~GlPLAl~~~g~~l~~~~-w~~~~~l~~~  354 (549)
T 2a5y_B          279 NAASQTCEFIEVTSLEIDECYDFLEAYGMPMP---VGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKT-FEKMAQLNNK  354 (549)
T ss_dssp             GGCCSCEEEEECCCCCHHHHHHHHHHTSCCCC-----CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSS-HHHHHHHHHH
T ss_pred             HHcCCCCeEEECCCCCHHHHHHHHHHHhcCCC---CchhHHHHHHHHHHHhCCChHHHHHHHHHhccch-HHHHHHhHHH
Confidence            877633 5799999999999999999987642   2467888999999999999999999999998774 3343444443


Q ss_pred             cCCCCCccChHHHHHHhhcCCchhhhcccC
Q 047559          414 ILDLPQQNGILSVLRLSYHYLPSQLKRCFA  443 (444)
Q Consensus       414 ~~~~~~~~~i~~~l~~sy~~Lp~~lk~cfl  443 (444)
                      .+..+ ...+..+|.+||++||+++|.||+
T Consensus       355 l~~~~-~~~i~~~l~~Sy~~L~~~lk~~f~  383 (549)
T 2a5y_B          355 LESRG-LVGVECITPYSYKSLAMALQRCVE  383 (549)
T ss_dssp             HHHHC-SSTTCCCSSSSSSSHHHHHHHHHH
T ss_pred             hhccc-HHHHHHHHhcccccccHHHHHHHh
Confidence            32222 356888999999999999999997

>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=4e-33  Score=290.41  Aligned_cols=225  Identities=20%  Similarity=0.252  Sum_probs=177.0

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcce-eEEEEeCCCCCHHHHHHHH
Q 047559          185 AVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDV-KAWVCVSDDFDVLNISRAL  263 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~-~~wv~vs~~~~~~~~~~~i  263 (444)
                      ..+||+.++++|.++|...     ...++|+|+||||+||||||+++|++.++.. +|+. ++|+++++.++...++..+
T Consensus       129 ~~VGRe~eLeeL~elL~~~-----d~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~-~Fd~gV~WVsVs~~~d~~~IL~~L  202 (1221)
T 1vt4_I          129 YNVSRLQPYLKLRQALLEL-----RPAKNVLIDGVLGSGKTWVALDVCLSYKVQC-KMDFKIFWLNLKNCNSPETVLEML  202 (1221)
T ss_dssp             SCCCCHHHHHHHHHHHHHC-----CSSCEEEECCSTTSSHHHHHHHHHHHCHHHH-HHSSCEEEEECCCSSSHHHHHHHH
T ss_pred             CCCCcHHHHHHHHHHHhcc-----CCCeEEEEEcCCCccHHHHHHHHHHhhHHHH-hCCCcEEEEEeCCCCCHHHHHHHH
Confidence            4599999999999999763     2358999999999999999999999877877 8986 8999999999988888888


Q ss_pred             HHHhccCC------CC-----cccHHHHHHHHHHHh---CCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecC
Q 047559          264 LESITFAS------CD-----LKALNEVQVQIKRAV---DGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTR  329 (444)
Q Consensus       264 l~~l~~~~------~~-----~~~~~~~~~~l~~~l---~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr  329 (444)
                      +..+....      .+     ..+.+.+...+.+.|   .++|+||||||+|+.  ..|+.+    +   +||+||||||
T Consensus       203 l~lL~~i~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd~--eqLe~f----~---pGSRILVTTR  273 (1221)
T 1vt4_I          203 QKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNA--KAWNAF----N---LSCKILLTTR  273 (1221)
T ss_dssp             HHHHHHHCSSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCCH--HHHHHH----H---SSCCEEEECS
T ss_pred             HHHHhhcCcccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcChH--HHHHhh----C---CCeEEEEecc
Confidence            77543211      01     123455666777766   789999999999984  556654    2   6899999999


Q ss_pred             ChHHHhhcCCCCcccCC------CCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHHHhcCC--
Q 047559          330 HAHVAATMEPIQQYNLQ------CLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLLRSK--  401 (444)
Q Consensus       330 ~~~va~~~~~~~~~~l~------~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~~L~~~--  401 (444)
                      +..++..+.....+.++      +|+.+|||+||.+.. +..    ..   .+..+   .|+|+||||+++|+.|+.+  
T Consensus       274 d~~Va~~l~g~~vy~LeL~d~dL~LS~eEA~eLF~~~~-g~~----~e---eL~~e---ICgGLPLALkLaGs~Lr~k~~  342 (1221)
T 1vt4_I          274 FKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYL-DCR----PQ---DLPRE---VLTTNPRRLSIIAESIRDGLA  342 (1221)
T ss_dssp             CSHHHHHHHHHSSCEEEECSSSSCCCHHHHHHHHHHHH-CCC----TT---THHHH---HCCCCHHHHHHHHHHHHHSCS
T ss_pred             ChHHHHhcCCCeEEEecCccccCCcCHHHHHHHHHHHc-CCC----HH---HHHHH---HhCCCHHHHHHHHHHHhCCCC
Confidence            99988654433456677      999999999999883 321    11   12223   3999999999999999987  


Q ss_pred             CHHHHHHHHhcccCCCCCccChHHHHHHhhcCCchhh-hcccCC
Q 047559          402 RHDEWDEILNSNILDLPQQNGILSVLRLSYHYLPSQL-KRCFAY  444 (444)
Q Consensus       402 ~~~~w~~~l~~~~~~~~~~~~i~~~l~~sy~~Lp~~l-k~cflY  444 (444)
                      +.++|...         ....+..+|.+||+.||+++ |.||+|
T Consensus       343 s~eeW~~~---------~~~~I~aaLelSYd~Lp~eelK~cFL~  377 (1221)
T 1vt4_I          343 TWDNWKHV---------NCDKLTTIIESSLNVLEPAEYRKMFDR  377 (1221)
T ss_dssp             SHHHHHHC---------SCHHHHHHHHHHHHHSCTTHHHHHHHH
T ss_pred             CHHHHhcC---------ChhHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            77889763         23579999999999999999 999986

>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=99.98  E-value=1.6e-32  Score=306.90  Aligned_cols=247  Identities=19%  Similarity=0.302  Sum_probs=188.2

Q ss_pred             CCCcCCcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcccc-ccCCcceeEEEEeCCCCC--
Q 047559          179 SVSTERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAV-EDSKFDVKAWVCVSDDFD--  255 (444)
Q Consensus       179 ~~~~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~-~~~~f~~~~wv~vs~~~~--  255 (444)
                      .+..++.|+||+.++++|.++|....    ...++|+|+||||+||||||+++|++.+. ...+|+.++|++++...+  
T Consensus       119 ~p~~~~~~vgR~~~~~~l~~~l~~~~----~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~  194 (1249)
T 3sfz_A          119 VPQRPVIFVTRKKLVHAIQQKLWKLN----GEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSG  194 (1249)
T ss_dssp             CCCCCSSCCCCHHHHHHHHHHHHTTT----TSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHHH
T ss_pred             CCCCCceeccHHHHHHHHHHHHhhcc----CCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCchH
Confidence            33455679999999999999997543    45689999999999999999999998654 331346777999998543  


Q ss_pred             HHHHHHHHHHHhccCCC----CcccHHHHHHHHHHHhCCc--eEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecC
Q 047559          256 VLNISRALLESITFASC----DLKALNEVQVQIKRAVDGK--KLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTR  329 (444)
Q Consensus       256 ~~~~~~~il~~l~~~~~----~~~~~~~~~~~l~~~l~~k--r~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr  329 (444)
                      ....+..++..+.....    ...+.+.+...++..+.++  ||||||||+|+.  ..|..       ..+||+||||||
T Consensus       195 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~~--~~~~~-------~~~~~~ilvTtR  265 (1249)
T 3sfz_A          195 LLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDP--WVLKA-------FDNQCQILLTTR  265 (1249)
T ss_dssp             HHHHHHHHHHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCCH--HHHTT-------TCSSCEEEEEES
T ss_pred             HHHHHHHHHHHhhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCCH--HHHHh-------hcCCCEEEEEcC
Confidence            44556677777755332    2456778888999999877  999999999875  33333       257899999999


Q ss_pred             ChHHHhh-cCCCCcccCCC-CChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHHHhcCCCHHHHH
Q 047559          330 HAHVAAT-MEPIQQYNLQC-LSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLLRSKRHDEWD  407 (444)
Q Consensus       330 ~~~va~~-~~~~~~~~l~~-L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~~L~~~~~~~w~  407 (444)
                      ++.++.. +.....+.+.+ |+++++++||...++..     .+.+.+++++|+++|+|+||||.++|++|+.++ ..|.
T Consensus       266 ~~~~~~~~~~~~~~~~~~~~l~~~~a~~l~~~~~~~~-----~~~~~~~~~~i~~~~~glPLal~~~~~~l~~~~-~~~~  339 (1249)
T 3sfz_A          266 DKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMK-----KEDLPAEAHSIIKECKGSPLVVSLIGALLRDFP-NRWA  339 (1249)
T ss_dssp             STTTTTTCCSCBCCEECCSSCCHHHHHHHHHHHHTSC-----STTCCTHHHHHHHHTTTCHHHHHHHHHHHHHSS-SCHH
T ss_pred             CHHHHHhhcCCceEEEecCCCCHHHHHHHHHHhhCCC-----hhhCcHHHHHHHHHhCCCHHHHHHHHHHhhcCh-hHHH
Confidence            9998854 34557789986 99999999999887432     123344678899999999999999999998873 3465


Q ss_pred             HHHhcc---cCC-CCC-----ccChHHHHHHhhcCCchhhhcccCC
Q 047559          408 EILNSN---ILD-LPQ-----QNGILSVLRLSYHYLPSQLKRCFAY  444 (444)
Q Consensus       408 ~~l~~~---~~~-~~~-----~~~i~~~l~~sy~~Lp~~lk~cflY  444 (444)
                      ..++..   .+. +..     ...+..+|.+||+.||+++|.||+|
T Consensus       340 ~~l~~l~~~~~~~~~~~~~~~~~~~~~~l~~s~~~L~~~~~~~~~~  385 (1249)
T 3sfz_A          340 YYLRQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTD  385 (1249)
T ss_dssp             HHHHHHHSCCCCCSSCTTCTTHHHHHHHHHHHHHTSCTTTHHHHHH
T ss_pred             HHHHHHhhhhhhhcccccccchHHHHHHHHHHHHhCCHHHHHHHHH
Confidence            554432   211 111     1458999999999999999999986

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=99.96  E-value=4.1e-29  Score=258.14  Aligned_cols=240  Identities=20%  Similarity=0.325  Sum_probs=175.9

Q ss_pred             CCcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcccc-ccCCc-ceeEEEEeCCCCCHHHHH
Q 047559          183 ERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAV-EDSKF-DVKAWVCVSDDFDVLNIS  260 (444)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~-~~~~f-~~~~wv~vs~~~~~~~~~  260 (444)
                      ++.||||+.+++.|.++|....    +..++|+|+||||+||||||.+++++..+ .. +| +.++|++++.. +...++
T Consensus       123 ~~~~vGR~~~l~~L~~~L~~~~----~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~-~f~~~v~wv~~~~~-~~~~~~  196 (591)
T 1z6t_A          123 PVVFVTRKKLVNAIQQKLSKLK----GEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEG-CFPGGVHWVSVGKQ-DKSGLL  196 (591)
T ss_dssp             CSSCCCCHHHHHHHHHHHTTST----TSCEEEEEECCTTSSHHHHHHHHHCCHHHHHH-HCTTCEEEEEEESC-CHHHHH
T ss_pred             CCeecccHHHHHHHHHHHhccc----CCCceEEEEcCCCCCHHHHHHHHHhchhHHHh-hCCCceEEEECCCC-chHHHH
Confidence            4569999999999999997532    34589999999999999999999998655 55 78 58999999875 333344


Q ss_pred             HHH---HHHhccC----CCCcccHHHHHHHHHHHhCC--ceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCCh
Q 047559          261 RAL---LESITFA----SCDLKALNEVQVQIKRAVDG--KKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHA  331 (444)
Q Consensus       261 ~~i---l~~l~~~----~~~~~~~~~~~~~l~~~l~~--kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~  331 (444)
                      ..+   ...+...    .....+...+...+...+.+  +++||||||+|+.  ..+.    .+   .+|++||||||+.
T Consensus       197 ~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~--~~l~----~l---~~~~~ilvTsR~~  267 (591)
T 1z6t_A          197 MKLQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDS--WVLK----AF---DSQCQILLTTRDK  267 (591)
T ss_dssp             HHHHHHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCH--HHHH----TT---CSSCEEEEEESCG
T ss_pred             HHHHHHHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCH--HHHH----Hh---cCCCeEEEECCCc
Confidence            433   3444421    12344567777788888865  7899999999874  2222    22   5689999999999


Q ss_pred             HHHhhcCCCCccc---CCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHHHhcCCCHHHHHH
Q 047559          332 HVAATMEPIQQYN---LQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLLRSKRHDEWDE  408 (444)
Q Consensus       332 ~va~~~~~~~~~~---l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~~L~~~~~~~w~~  408 (444)
                      .++..+.. ..++   +++|+.+++++||...++..     .......+.+|+++|+|+|||+..+|+.|+.+. ..|..
T Consensus       268 ~~~~~~~~-~~~~v~~l~~L~~~ea~~L~~~~~~~~-----~~~~~~~~~~i~~~~~G~PLal~~~a~~l~~~~-~~w~~  340 (591)
T 1z6t_A          268 SVTDSVMG-PKYVVPVESSLGKEKGLEILSLFVNMK-----KADLPEQAHSIIKECKGSPLVVSLIGALLRDFP-NRWEY  340 (591)
T ss_dssp             GGGTTCCS-CEEEEECCSSCCHHHHHHHHHHHHTSC-----GGGSCTHHHHHHHHHTTCHHHHHHHHHHHHHST-TCHHH
T ss_pred             HHHHhcCC-CceEeecCCCCCHHHHHHHHHHHhCCC-----cccccHHHHHHHHHhCCCcHHHHHHHHHHhcCc-hhHHH
Confidence            88765432 3333   36899999999999987531     112234568899999999999999999998763 35766


Q ss_pred             HHhcccCC----CC-----CccChHHHHHHhhcCCchhhhcccCC
Q 047559          409 ILNSNILD----LP-----QQNGILSVLRLSYHYLPSQLKRCFAY  444 (444)
Q Consensus       409 ~l~~~~~~----~~-----~~~~i~~~l~~sy~~Lp~~lk~cflY  444 (444)
                      +++.....    +.     ....+..++..||+.||++.|.||+|
T Consensus       341 ~l~~l~~~~~~~~~~~~~~~~~~l~~~l~~s~~~L~~~~~~~l~~  385 (591)
T 1z6t_A          341 YLKQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTD  385 (591)
T ss_dssp             HHHHHHSCCCCCSSCCCSSCCHHHHHHHHHHHHTSCTTTHHHHHH
T ss_pred             HHHHHHHhHHHHhhhccccchHHHHHHHHHHHHhCCHHHHHHHHH
Confidence            65532111    11     12468899999999999999999875

>3qfl_A MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-binding domain, L rich repeat containing receptors, protein binding; 2.00A {Hordeum vulgare}

Probab=99.67  E-value=4.9e-17  Score=128.75  Aligned_cols=78  Identities=28%  Similarity=0.440  Sum_probs=64.4

Q ss_pred             HHHHHHHHHHHhcCCchhHHHHHHHhcCChHHHHHHHHHHHHHHHHHHHHHhhc--ccCcHHHHHHHHHHHHHhhhhhhh
Q 047559            8 LSAVFQVLFDRLAPHGGDLLNFVSQLGGGVASELKKWEDCLMMIQAVLRDAEEK--QLTDEAVKLWLDDLRDLAYDAEDI   85 (444)
Q Consensus         8 ~s~~~~~l~~~l~~~~~~~~~~~~~~~~gv~~~~~~L~~~l~~i~~~l~~a~~~--~~~~~~~~~Wl~~lr~~ayd~eD~   85 (444)
                      +++++++|.+.+.      .++....  ||++++++|+++|++|++||.+|+.+  +..|++++.|++|||++|||+|||
T Consensus         3 v~~ll~KL~~ll~------~E~~l~~--gv~~~i~~Lk~eL~~m~a~L~da~~~~~~~~d~~vk~W~~~vrdlaYD~ED~   74 (115)
T 3qfl_A            3 ISNLIPKLGELLT------EEFKLHK--GVKKNIEDLGKELESMNAALIKIGEVPREQLDSQDKLWADEVRELSYVIEDV   74 (115)
T ss_dssp             TCSHHHHHHHHHH------HHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHTTSCGGGCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH------HHHHHHh--chHHHHHHHHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHHHHHHHH
Confidence            3455555555433      3355553  59999999999999999999999987  568999999999999999999999


Q ss_pred             HHHHHHHH
Q 047559           86 LDEFATKA   93 (444)
Q Consensus        86 lD~~~~~~   93 (444)
                      ||+|.++.
T Consensus        75 iD~f~~~~   82 (115)
T 3qfl_A           75 VDKFLVQV   82 (115)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            99999875

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=99.64  E-value=3e-15  Score=143.69  Aligned_cols=196  Identities=15%  Similarity=0.177  Sum_probs=130.3

Q ss_pred             cCCcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCC------C
Q 047559          182 TERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDF------D  255 (444)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~------~  255 (444)
                      .+..|+||+.+++.|.+++...        +++.|+|++|+|||||++++.+..       . .+|+++....      +
T Consensus        10 ~~~~~~gR~~el~~L~~~l~~~--------~~v~i~G~~G~GKT~Ll~~~~~~~-------~-~~~~~~~~~~~~~~~~~   73 (350)
T 2qen_A           10 RREDIFDREEESRKLEESLENY--------PLTLLLGIRRVGKSSLLRAFLNER-------P-GILIDCRELYAERGHIT   73 (350)
T ss_dssp             SGGGSCSCHHHHHHHHHHHHHC--------SEEEEECCTTSSHHHHHHHHHHHS-------S-EEEEEHHHHHHTTTCBC
T ss_pred             ChHhcCChHHHHHHHHHHHhcC--------CeEEEECCCcCCHHHHHHHHHHHc-------C-cEEEEeecccccccCCC
Confidence            4567999999999999988642        589999999999999999998752       1 6677765432      5


Q ss_pred             HHHHHHHHHHHhcc---------------C-CC--CcccHHHHHHHHHHHhCC-ceEEEEEeCCCCCCh-------hcHH
Q 047559          256 VLNISRALLESITF---------------A-SC--DLKALNEVQVQIKRAVDG-KKLLLVLDDVWNEDY-------CLWE  309 (444)
Q Consensus       256 ~~~~~~~il~~l~~---------------~-~~--~~~~~~~~~~~l~~~l~~-kr~LlVlDdv~~~~~-------~~~~  309 (444)
                      ...++..+...+..               . ..  ...+...+...+.+.+.. ++++|||||++..+.       ..+.
T Consensus        74 ~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~~~~~~~~~~~~  153 (350)
T 2qen_A           74 REELIKELQSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGSRGGKELLA  153 (350)
T ss_dssp             HHHHHHHHHHHSCSHHHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGGBTTTTTHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhHhhhceeEEEecceeeccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhccCccchhhHHH
Confidence            55666666655432               0 00  123455566666665543 389999999977432       2233


Q ss_pred             HhhcccCCCCCCcEEEEecCChHH-Hhh---------c-CC-CCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHH
Q 047559          310 DLKAPFLAAAPNSKIIVTTRHAHV-AAT---------M-EP-IQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFR  377 (444)
Q Consensus       310 ~l~~~l~~~~~gs~iivTTr~~~v-a~~---------~-~~-~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~  377 (444)
                      .+...+ +...+.++|+|++.... ...         . +. ...+.+.+|+.+++.+++....-.......    ....
T Consensus       154 ~L~~~~-~~~~~~~~il~g~~~~~l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e~~~~l~~~~~~~~~~~~----~~~~  228 (350)
T 2qen_A          154 LFAYAY-DSLPNLKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDTSVEFLKRGFREVNLDVP----ENEI  228 (350)
T ss_dssp             HHHHHH-HHCTTEEEEEEESSHHHHHHHHCTTCTTSTTTTCCCEEEECCCCCHHHHHHHHHHHHHTTTCCCC----HHHH
T ss_pred             HHHHHH-HhcCCeEEEEECCcHHHHHHHHhhcCCCCccccCccceeeCCCCCHHHHHHHHHHHHHHcCCCCC----HHHH
Confidence            333322 22357889999887653 221         0 11 236899999999999999765321111111    2345


Q ss_pred             HHHHHHcCCChHHHHHHHHHh
Q 047559          378 EKVVGKCGGLPLAAKTLGGLL  398 (444)
Q Consensus       378 ~~i~~~~~G~Plai~~~~~~L  398 (444)
                      ..|++.|+|+|+++..++..+
T Consensus       229 ~~i~~~tgG~P~~l~~~~~~~  249 (350)
T 2qen_A          229 EEAVELLDGIPGWLVVFGVEY  249 (350)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHhCCCHHHHHHHHHHH
Confidence            779999999999999988754

>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=99.62  E-value=3.9e-15  Score=146.41  Aligned_cols=212  Identities=13%  Similarity=0.066  Sum_probs=133.8

Q ss_pred             CCcccccchhHHHHHHHH-hcCCCCCCCCceEEEE--EecCCChHHHHHHHHhhcccccc--CCcc-eeEEEEeCCCCCH
Q 047559          183 ERAVFGRQQDKAKMLEMV-LTDTSSDHSNLAVIPI--VGMAGVGKTTLAREVYNDRAVED--SKFD-VKAWVCVSDDFDV  256 (444)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L-~~~~~~~~~~~~vi~I--~G~~GiGKTtLa~~v~~~~~~~~--~~f~-~~~wv~vs~~~~~  256 (444)
                      +..++||+.+++.+...| .....+.......+.|  +|++|+|||||++.+++......  ..|+ ..+|+++....+.
T Consensus        21 p~~l~gR~~el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  100 (412)
T 1w5s_A           21 PPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNL  100 (412)
T ss_dssp             CSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSH
T ss_pred             CCCCCChHHHHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCCCCCH
Confidence            367999999999999988 4211100011256666  99999999999999998643210  0122 3578887777788


Q ss_pred             HHHHHHHHHHhccCCCC-cccHHHHHHHHHHHhC--CceEEEEEeCCCCCC------hhcHHHhhcccCCC---C--CCc
Q 047559          257 LNISRALLESITFASCD-LKALNEVQVQIKRAVD--GKKLLLVLDDVWNED------YCLWEDLKAPFLAA---A--PNS  322 (444)
Q Consensus       257 ~~~~~~il~~l~~~~~~-~~~~~~~~~~l~~~l~--~kr~LlVlDdv~~~~------~~~~~~l~~~l~~~---~--~gs  322 (444)
                      ..++..++.+++...+. ..+...+...+.+.+.  +++++|||||+|...      ...+..+...+...   .  ...
T Consensus       101 ~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~~~~~~~~~v  180 (412)
T 1w5s_A          101 YTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRI  180 (412)
T ss_dssp             HHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCCBE
T ss_pred             HHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhccCcchHHHHHHHHHHHhcccCCCCceE
Confidence            89999999998654321 2234455666666664  779999999997742      23333333333221   2  345


Q ss_pred             EEEEecCChHHHhhc--------CC-CCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcC------CC
Q 047559          323 KIIVTTRHAHVAATM--------EP-IQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCG------GL  387 (444)
Q Consensus       323 ~iivTTr~~~va~~~--------~~-~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~------G~  387 (444)
                      .+|+||+...+...+        .. ...+.+.+|+.++.+++|...+.......  ....+....|++.|+      |+
T Consensus       181 ~lI~~~~~~~~~~~l~~~~~~~~~~~~~~i~l~~l~~~e~~~ll~~~~~~~~~~~--~~~~~~~~~i~~~~~~~~~~~G~  258 (412)
T 1w5s_A          181 GFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDT--VWEPRHLELISDVYGEDKGGDGS  258 (412)
T ss_dssp             EEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBCTT--SCCHHHHHHHHHHHCGGGTSCCC
T ss_pred             EEEEEeccccHHHHHhhhcchhhhhcCCeeeeCCCCHHHHHHHHHHHHHhcCCCC--CCChHHHHHHHHHHHHhccCCCc
Confidence            588788765532111        11 12389999999999999976542111100  111334567889999      99


Q ss_pred             hHHHHHHHH
Q 047559          388 PLAAKTLGG  396 (444)
Q Consensus       388 Plai~~~~~  396 (444)
                      |..+..+..
T Consensus       259 p~~~~~l~~  267 (412)
T 1w5s_A          259 ARRAIVALK  267 (412)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            976655543

>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=99.59  E-value=1.6e-14  Score=138.98  Aligned_cols=194  Identities=14%  Similarity=0.138  Sum_probs=124.5

Q ss_pred             cCCcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCC-----CCH
Q 047559          182 TERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDD-----FDV  256 (444)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~-----~~~  256 (444)
                      .+..|+||+.+++.|.+ +..         +++.|+|++|+|||+|++.+.+...  .    ..+|+++...     .+.
T Consensus        11 ~~~~~~gR~~el~~L~~-l~~---------~~v~i~G~~G~GKT~L~~~~~~~~~--~----~~~~~~~~~~~~~~~~~~   74 (357)
T 2fna_A           11 NRKDFFDREKEIEKLKG-LRA---------PITLVLGLRRTGKSSIIKIGINELN--L----PYIYLDLRKFEERNYISY   74 (357)
T ss_dssp             SGGGSCCCHHHHHHHHH-TCS---------SEEEEEESTTSSHHHHHHHHHHHHT--C----CEEEEEGGGGTTCSCCCH
T ss_pred             CHHHhcChHHHHHHHHH-hcC---------CcEEEECCCCCCHHHHHHHHHHhcC--C----CEEEEEchhhccccCCCH
Confidence            45679999999999999 632         5899999999999999999987632  1    2478887642     344


Q ss_pred             HHHHHHHHHHhcc-------------CC-----C-----------CcccHHHHHHHHHHHhCCceEEEEEeCCCCCCh--
Q 047559          257 LNISRALLESITF-------------AS-----C-----------DLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDY--  305 (444)
Q Consensus       257 ~~~~~~il~~l~~-------------~~-----~-----------~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~--  305 (444)
                      ..++..+...+..             ..     +           .......+...+.+... ++++|||||++..+.  
T Consensus        75 ~~~~~~l~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~-~~~vlvlDe~~~~~~~~  153 (357)
T 2fna_A           75 KDFLLELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASK-DNVIIVLDEAQELVKLR  153 (357)
T ss_dssp             HHHHHHHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCS-SCEEEEEETGGGGGGCT
T ss_pred             HHHHHHHHHHHHHHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHhcCC-CCeEEEEECHHHhhccC
Confidence            4555554443311             00     0           01234444445544333 499999999977432  


Q ss_pred             -hcHHHhhcccCCCCCCcEEEEecCChHH-Hhh---------c-CC-CCcccCCCCChHhHHHHHHHhhcc-CCCCCccc
Q 047559          306 -CLWEDLKAPFLAAAPNSKIIVTTRHAHV-AAT---------M-EP-IQQYNLQCLSDEDCWSLFMMHAFV-GQDITAQQ  371 (444)
Q Consensus       306 -~~~~~l~~~l~~~~~gs~iivTTr~~~v-a~~---------~-~~-~~~~~l~~L~~~~~~~lf~~~~~~-~~~~~~~~  371 (444)
                       ..|..+...+.+...+.++|+|++.... ...         + +. ...+.+.+|+.+++.+++...... +...   +
T Consensus       154 ~~~~~~~l~~~~~~~~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~l~~~~~~~~~~~---~  230 (357)
T 2fna_A          154 GVNLLPALAYAYDNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDF---K  230 (357)
T ss_dssp             TCCCHHHHHHHHHHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCC---C
T ss_pred             chhHHHHHHHHHHcCCCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHHHHHHHHHHcCCCC---C
Confidence             2232222333222346789999997653 221         1 11 246889999999999999875421 1111   1


Q ss_pred             hHHHHHHHHHHHcCCChHHHHHHHHHhc
Q 047559          372 ISDLFREKVVGKCGGLPLAAKTLGGLLR  399 (444)
Q Consensus       372 ~~~~~~~~i~~~~~G~Plai~~~~~~L~  399 (444)
                      ..    ..|++.|+|+|+++..++..+.
T Consensus       231 ~~----~~i~~~t~G~P~~l~~~~~~~~  254 (357)
T 2fna_A          231 DY----EVVYEKIGGIPGWLTYFGFIYL  254 (357)
T ss_dssp             CH----HHHHHHHCSCHHHHHHHHHHHH
T ss_pred             cH----HHHHHHhCCCHHHHHHHHHHHc
Confidence            11    6799999999999999987654

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=99.48  E-value=9.3e-13  Score=119.23  Aligned_cols=197  Identities=14%  Similarity=0.113  Sum_probs=120.4

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRAL  263 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~i  263 (444)
                      ..++||+..++.+..++.....     ...+.|+|++|+||||||+.+++...... .+..   ..+..   ... ...+
T Consensus        23 ~~~~g~~~~~~~l~~~l~~~~~-----~~~~ll~G~~G~GKT~l~~~~~~~~~~~~-~~~~---~~~~~---~~~-~~~~   89 (250)
T 1njg_A           23 ADVVGQEHVLTALANGLSLGRI-----HHAYLFSGTRGVGKTSIARLLAKGLNCET-GITA---TPCGV---CDN-CREI   89 (250)
T ss_dssp             GGCCSCHHHHHHHHHHHHHTCC-----CSEEEEECSTTSCHHHHHHHHHHHHHCTT-CSCS---SCCSC---SHH-HHHH
T ss_pred             HHHhCcHHHHHHHHHHHHcCCC-----CeEEEEECCCCCCHHHHHHHHHHHhcCCC-CCCC---CCCcc---cHH-HHHH
Confidence            4599999999999999876432     24889999999999999999987643211 1100   00000   000 0000


Q ss_pred             HHHh-----ccCCCCcccHHHHHHHHHHHh-----CCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCChHH
Q 047559          264 LESI-----TFASCDLKALNEVQVQIKRAV-----DGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAHV  333 (444)
Q Consensus       264 l~~l-----~~~~~~~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~~v  333 (444)
                      ....     ............. ..+.+.+     .+++.+|||||++..+...++.+...+.....+..+|+||+....
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~vlviDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~t~~~~~  168 (250)
T 1njg_A           90 EQGRFVDLIEIDAASRTKVEDT-RDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQK  168 (250)
T ss_dssp             HTTCCSSEEEEETTCGGGHHHH-HHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGG
T ss_pred             hccCCcceEEecCcccccHHHH-HHHHHHhhhchhcCCceEEEEECcccccHHHHHHHHHHHhcCCCceEEEEEeCChHh
Confidence            0000     0000001111111 1222221     356799999999887666777777777665667888888876431


Q ss_pred             H--hhcCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHHHh
Q 047559          334 A--ATMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLL  398 (444)
Q Consensus       334 a--~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~~L  398 (444)
                      .  ........+.+.+++.++..+++.+.+........    .+....|++.|+|+|..+..+...+
T Consensus       169 ~~~~l~~r~~~i~l~~l~~~e~~~~l~~~~~~~~~~~~----~~~~~~l~~~~~G~~~~~~~~~~~~  231 (250)
T 1njg_A          169 LPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAHE----PRALQLLARAAEGSLRDALSLTDQA  231 (250)
T ss_dssp             SCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHTTCCBC----HHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CCHHHHHHhhhccCCCCCHHHHHHHHHHHHHhcCCCCC----HHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            1  11223357899999999999999887643221111    2345679999999999988876543

>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=99.47  E-value=1.5e-12  Score=126.58  Aligned_cols=222  Identities=15%  Similarity=0.066  Sum_probs=139.7

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccc----cCC-cceeEEEEeCCCC-CHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVE----DSK-FDVKAWVCVSDDF-DVL  257 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~----~~~-f~~~~wv~vs~~~-~~~  257 (444)
                      ..++||+.+++.+..++.....+  ...+.+.|+|++|+|||+||+.+++.....    ... ....+|++++... +..
T Consensus        20 ~~l~gr~~~~~~l~~~l~~~~~~--~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~   97 (384)
T 2qby_B           20 KEIPFREDILRDAAIAIRYFVKN--EVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTPQ   97 (384)
T ss_dssp             SSCTTCHHHHHHHHHHHHHHHTT--CCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHHHHCSCHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcC--CCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECccCCCCHH
Confidence            67999999999999877542111  233689999999999999999999864221    001 3456788887766 888


Q ss_pred             HHHHHHHHHhccCCC--CcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHh-hcccCCCCCCcEEEEecCChHH-
Q 047559          258 NISRALLESITFASC--DLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDL-KAPFLAAAPNSKIIVTTRHAHV-  333 (444)
Q Consensus       258 ~~~~~il~~l~~~~~--~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l-~~~l~~~~~gs~iivTTr~~~v-  333 (444)
                      .++..++..+.....  ...+...+...+.+.+..++.+|||||++......+..+ ...+.....+..||+||+.... 
T Consensus        98 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~iI~~t~~~~~~  177 (384)
T 2qby_B           98 AVLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVKRRGGDIVLYQLLRSDANISVIMISNDINVR  177 (384)
T ss_dssp             HHHHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSSSCEEEEEETTHHHHHSTTSHHHHHHHHTSSSCEEEEEECSSTTTT
T ss_pred             HHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhccCCCEEEEECHHHhccCCCCceeHHHHhcCCcceEEEEEECCCchH
Confidence            888998888843222  122345566777778877666999999976432211122 2222221267888999886532 


Q ss_pred             -------HhhcCCCCcccCCCCChHhHHHHHHHhhccC-CCCCccchHHHHHHHHHHHcC---CChHHH-HHHHHH--hc
Q 047559          334 -------AATMEPIQQYNLQCLSDEDCWSLFMMHAFVG-QDITAQQISDLFREKVVGKCG---GLPLAA-KTLGGL--LR  399 (444)
Q Consensus       334 -------a~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~-~~~~~~~~~~~~~~~i~~~~~---G~Plai-~~~~~~--L~  399 (444)
                             ...+  ...+.+.+++.++..++|...+... .....++   +..+.|++.|+   |.|..+ ..+-..  +.
T Consensus       178 ~~l~~~l~sr~--~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~---~~~~~i~~~~~~~~G~~r~a~~~l~~a~~~a  252 (384)
T 2qby_B          178 DYMEPRVLSSL--GPSVIFKPYDAEQLKFILSKYAEYGLIKGTYDD---EILSYIAAISAKEHGDARKAVNLLFRAAQLA  252 (384)
T ss_dssp             TTSCHHHHHTC--CCEEEECCCCHHHHHHHHHHHHHHTSCTTSCCS---HHHHHHHHHHHTTCCCHHHHHHHHHHHHHHT
T ss_pred             hhhCHHHHhcC--CCeEEECCCCHHHHHHHHHHHHHhhcccCCcCH---HHHHHHHHHHHhccCCHHHHHHHHHHHHHHh
Confidence                   1111  1379999999999999999875311 1111111   23355777777   988743 333222  22


Q ss_pred             ---CC-CHHHHHHHHhc
Q 047559          400 ---SK-RHDEWDEILNS  412 (444)
Q Consensus       400 ---~~-~~~~w~~~l~~  412 (444)
                         .. +.+.+..+++.
T Consensus       253 ~~~~~i~~~~v~~~~~~  269 (384)
T 2qby_B          253 SGGGIIRKEHVDKAIVD  269 (384)
T ss_dssp             TSSSCCCHHHHHHHHHH
T ss_pred             cCCCccCHHHHHHHHHH
Confidence               12 67777766654

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.46  E-value=2.4e-12  Score=125.16  Aligned_cols=202  Identities=11%  Similarity=0.044  Sum_probs=128.7

Q ss_pred             CCcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcccccc---CCcceeEEEEeCCCCCHHHH
Q 047559          183 ERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVED---SKFDVKAWVCVSDDFDVLNI  259 (444)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~---~~f~~~~wv~vs~~~~~~~~  259 (444)
                      +..++||+.+++.+..++...-..  .....+.|+|++|+||||||+.+++......   +.-...+|+++....+...+
T Consensus        18 p~~~~gr~~~~~~l~~~l~~~~~~--~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~   95 (387)
T 2v1u_A           18 PDVLPHREAELRRLAEVLAPALRG--EKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYRV   95 (387)
T ss_dssp             CSCCTTCHHHHHHHHHTTGGGTSS--CCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTSCSHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHcC--CCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcCCCHHHH
Confidence            367999999999999988542111  2336899999999999999999997642210   01234578888888888899


Q ss_pred             HHHHHHHhccCCCC-cccHHHHHHHHHHHh--CCceEEEEEeCCCCCChh--cHHHhhccc---CCC--CCCcEEEEecC
Q 047559          260 SRALLESITFASCD-LKALNEVQVQIKRAV--DGKKLLLVLDDVWNEDYC--LWEDLKAPF---LAA--APNSKIIVTTR  329 (444)
Q Consensus       260 ~~~il~~l~~~~~~-~~~~~~~~~~l~~~l--~~kr~LlVlDdv~~~~~~--~~~~l~~~l---~~~--~~gs~iivTTr  329 (444)
                      +..++.+++...+. ..+...+...+.+.+  .+++.+|||||++.....  ..+.+...+   ...  ..+..+|.||+
T Consensus        96 ~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~~~~~~~I~~t~  175 (387)
T 2v1u_A           96 ASAIAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVSLVGITN  175 (387)
T ss_dssp             HHHHHHHHSCCCCSSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC-----CEEEEECS
T ss_pred             HHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhcCCCceEEEEEEEC
Confidence            99999998654332 223555566666666  456899999999764322  222222222   111  44567788877


Q ss_pred             ChHHH-----hhcCCC--CcccCCCCChHhHHHHHHHhhcc--CCCCCccchHHHHHHHHHHHcC---CChHH
Q 047559          330 HAHVA-----ATMEPI--QQYNLQCLSDEDCWSLFMMHAFV--GQDITAQQISDLFREKVVGKCG---GLPLA  390 (444)
Q Consensus       330 ~~~va-----~~~~~~--~~~~l~~L~~~~~~~lf~~~~~~--~~~~~~~~~~~~~~~~i~~~~~---G~Pla  390 (444)
                      .....     ......  ..+.+.+++.++..+++...+..  ......+.    ..+.+++.++   |.|-.
T Consensus       176 ~~~~~~~l~~~l~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~----~~~~l~~~~~~~~G~~r~  244 (387)
T 2v1u_A          176 SLGFVENLEPRVKSSLGEVELVFPPYTAPQLRDILETRAEEAFNPGVLDPD----VVPLCAALAAREHGDARR  244 (387)
T ss_dssp             CSTTSSSSCHHHHTTTTSEECCBCCCCHHHHHHHHHHHHHHHBCTTTBCSS----HHHHHHHHHHSSSCCHHH
T ss_pred             CCchHhhhCHHHHhcCCCeEEeeCCCCHHHHHHHHHHHHHhhccCCCCCHH----HHHHHHHHHHHhccCHHH
Confidence            65221     111112  46899999999999999887532  11112222    2355777777   99943

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=99.42  E-value=5.1e-12  Score=123.02  Aligned_cols=208  Identities=12%  Similarity=0.064  Sum_probs=138.4

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRAL  263 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~i  263 (444)
                      +.++||+.+++.+..++.....+..+..+.+.|+|++|+|||||++.+++.....  .-...+|++++...+...++..+
T Consensus        17 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~~~~~--~~~~~~~i~~~~~~~~~~~~~~l   94 (389)
T 1fnn_A           17 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDK--TTARFVYINGFIYRNFTAIIGEI   94 (389)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTS--CCCEEEEEETTTCCSHHHHHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHHHhhh--cCeeEEEEeCccCCCHHHHHHHH
Confidence            6799999999999998865211111223489999999999999999999764221  01356788888888888999999


Q ss_pred             HHHhccCCCC-cccHHHHHHHHHHHh--CCceEEEEEeCCCCCChhcHHHhhcccCCC-C---CCcEEEEecCChHHHhh
Q 047559          264 LESITFASCD-LKALNEVQVQIKRAV--DGKKLLLVLDDVWNEDYCLWEDLKAPFLAA-A---PNSKIIVTTRHAHVAAT  336 (444)
Q Consensus       264 l~~l~~~~~~-~~~~~~~~~~l~~~l--~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~-~---~gs~iivTTr~~~va~~  336 (444)
                      +..++...+. ..+...+...+...+  .+++.+|||||++..+......+...+... .   .+..||++|+.......
T Consensus        95 ~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~L~~~~~~~~~~~~~~~~iI~~~~~~~~~~~  174 (389)
T 1fnn_A           95 ARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNN  174 (389)
T ss_dssp             HHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHHHT
T ss_pred             HHHhCccCCCCCCCHHHHHHHHHHHHhhcCCeEEEEEECccccchHHHHHHHHHHHhCCCCCcCCEEEEEEECCchHHHH
Confidence            9888654321 223455555666555  366899999999887655566665555331 1   46778888877654332


Q ss_pred             cC-------CCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHc---------CCChHHHHHHH
Q 047559          337 ME-------PIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKC---------GGLPLAAKTLG  395 (444)
Q Consensus       337 ~~-------~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~---------~G~Plai~~~~  395 (444)
                      +.       ....+.+.+++.++..+++...+.......  ....+....|++.+         +|.|..+..+.
T Consensus       175 l~~~~~~r~~~~~i~~~pl~~~~~~~~l~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~~~G~~r~~~~~l  247 (389)
T 1fnn_A          175 LDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEG--SYSEDILQMIADITGAQTPLDTNRGDARLAIDIL  247 (389)
T ss_dssp             SCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHBCTT--SSCHHHHHHHHHHHSBSSTTCTTSCCHHHHHHHH
T ss_pred             hCHHhhhcCCCceEEeCCCCHHHHHHHHHHHHHhhcCCC--CCCHHHHHHHHHHHhhcccCCCCCCcHHHHHHHH
Confidence            21       113689999999999999988753211000  11233456788888         78876555443

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=99.40  E-value=9.3e-12  Score=110.98  Aligned_cols=187  Identities=12%  Similarity=0.024  Sum_probs=117.7

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRAL  263 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~i  263 (444)
                      ..++|++..++.+.+++....      ...+.|+|++|+|||+||+.+++...... .-...+.++.+.......+.. .
T Consensus        17 ~~~~g~~~~~~~l~~~l~~~~------~~~~ll~G~~G~GKT~l~~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~-~   88 (226)
T 2chg_A           17 DEVVGQDEVIQRLKGYVERKN------IPHLLFSGPPGTGKTATAIALARDLFGEN-WRDNFIEMNASDERGIDVVRH-K   88 (226)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTC------CCCEEEECSTTSSHHHHHHHHHHHHHGGG-GGGGEEEEETTCTTCHHHHHH-H
T ss_pred             HHHcCcHHHHHHHHHHHhCCC------CCeEEEECCCCCCHHHHHHHHHHHHhccc-cccceEEeccccccChHHHHH-H
Confidence            458999999999999986532      13489999999999999999987642211 111233344443333222211 1


Q ss_pred             HHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCChHH--HhhcCCCC
Q 047559          264 LESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAHV--AATMEPIQ  341 (444)
Q Consensus       264 l~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~~v--a~~~~~~~  341 (444)
                      +..+.....              ...+++.+|||||++......++.+...+.....+.++|+||+....  ........
T Consensus        89 ~~~~~~~~~--------------~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~l~~r~~  154 (226)
T 2chg_A           89 IKEFARTAP--------------IGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCA  154 (226)
T ss_dssp             HHHHHTSCC--------------STTCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSE
T ss_pred             HHHHhcccC--------------CCccCceEEEEeChhhcCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcCHHHHHhCc
Confidence            111110000              01257889999999887666666676666555667888888876531  11122334


Q ss_pred             cccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHH
Q 047559          342 QYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGG  396 (444)
Q Consensus       342 ~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~  396 (444)
                      .+.+.+++.++..+++.+.+........    ......|++.++|.|..+..+..
T Consensus       155 ~i~~~~~~~~~~~~~l~~~~~~~~~~~~----~~~~~~l~~~~~g~~r~l~~~l~  205 (226)
T 2chg_A          155 VFRFKPVPKEAMKKRLLEICEKEGVKIT----EDGLEALIYISGGDFRKAINALQ  205 (226)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHHHTCCBC----HHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             eeecCCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHHHHHHH
Confidence            7899999999999999887643221111    23446688999999997655443

>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=99.37  E-value=4.5e-12  Score=123.09  Aligned_cols=208  Identities=14%  Similarity=0.099  Sum_probs=128.9

Q ss_pred             CCcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHH
Q 047559          183 ERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRA  262 (444)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~  262 (444)
                      +..++||+.+++.+.+++...-..  .....+.|+|++|+|||||++.+++........-...+|+++....+...++..
T Consensus        19 p~~~~gr~~e~~~l~~~l~~~~~~--~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~   96 (386)
T 2qby_A           19 PDELPHREDQIRKIASILAPLYRE--EKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPYRVLAD   96 (386)
T ss_dssp             CSCCTTCHHHHHHHHHSSGGGGGT--CCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHHHCSHHHHHHH
T ss_pred             CCCCCChHHHHHHHHHHHHHHHcC--CCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCCCCCHHHHHHH
Confidence            467999999999999988642101  223689999999999999999999864321100235678887776777788888


Q ss_pred             HHHHhccCCC-CcccHHHHHHHHHHHhC--CceEEEEEeCCCCCC----hhcHHHhhcccCC-CCCCcEEEEecCChHHH
Q 047559          263 LLESITFASC-DLKALNEVQVQIKRAVD--GKKLLLVLDDVWNED----YCLWEDLKAPFLA-AAPNSKIIVTTRHAHVA  334 (444)
Q Consensus       263 il~~l~~~~~-~~~~~~~~~~~l~~~l~--~kr~LlVlDdv~~~~----~~~~~~l~~~l~~-~~~gs~iivTTr~~~va  334 (444)
                      ++..++.... ...+.......+.+.+.  +++.+||||+++...    ...+..+...+.. ...+..+|+||+.....
T Consensus        97 i~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~~~~~~~I~~~~~~~~~  176 (386)
T 2qby_A           97 LLESLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITNDVKFV  176 (386)
T ss_dssp             HTTTTSCCCCSSSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSCCC--EEEEEEESCGGGG
T ss_pred             HHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhccCcCHHHHHHhhchhhcCCCeEEEEEEECCCChH
Confidence            8777754322 12234455556666653  458999999996632    2233334333321 23456778888765432


Q ss_pred             hhcC-----CC--CcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcC---CChHHHHHH
Q 047559          335 ATME-----PI--QQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCG---GLPLAAKTL  394 (444)
Q Consensus       335 ~~~~-----~~--~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~---G~Plai~~~  394 (444)
                      ..+.     ..  ..+.+.+++.++..+++...+......  ......+...+++.++   |.|..+..+
T Consensus       177 ~~~~~~~~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~G~~r~~~~l  244 (386)
T 2qby_A          177 DLLDPRVKSSLSEEEIIFPPYNAEELEDILTKRAQMAFKP--GVLPDNVIKLCAALAAREHGDARRALDL  244 (386)
T ss_dssp             GGCTTHHHHTTTTEEEEECCCCHHHHHHHHHHHHHHHBCS--SCSCHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             hhhCHHHhccCCCeeEEeCCCCHHHHHHHHHHHHHhhccC--CCCCHHHHHHHHHHHHHhcCCHHHHHHH
Confidence            2111     11  478999999999999998764211100  0112233455777776   999854443

>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=99.23  E-value=9.1e-11  Score=111.05  Aligned_cols=186  Identities=15%  Similarity=0.137  Sum_probs=116.3

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRAL  263 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~i  263 (444)
                      ..++|++..++.+..++....      ...+.|+|++|+|||++|+.+++...-.. .....++++.+...... .++.+
T Consensus        21 ~~~~g~~~~~~~l~~~l~~~~------~~~~ll~G~~G~GKt~la~~l~~~l~~~~-~~~~~~~~~~~~~~~~~-~i~~~   92 (323)
T 1sxj_B           21 SDIVGNKETIDRLQQIAKDGN------MPHMIISGMPGIGKTTSVHCLAHELLGRS-YADGVLELNASDDRGID-VVRNQ   92 (323)
T ss_dssp             GGCCSCTHHHHHHHHHHHSCC------CCCEEEECSTTSSHHHHHHHHHHHHHGGG-HHHHEEEECTTSCCSHH-HHHTH
T ss_pred             HHHHCCHHHHHHHHHHHHcCC------CCeEEEECcCCCCHHHHHHHHHHHhcCCc-ccCCEEEecCccccChH-HHHHH
Confidence            458999999999999986532      12389999999999999999987642111 11123444444332222 22222


Q ss_pred             HHHhccCCCCcccHHHHHHHHHHHh-CCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCChHH--HhhcCCC
Q 047559          264 LESITFASCDLKALNEVQVQIKRAV-DGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAHV--AATMEPI  340 (444)
Q Consensus       264 l~~l~~~~~~~~~~~~~~~~l~~~l-~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~~v--a~~~~~~  340 (444)
                      +..+....              ..+ .+++.+||+||++......++.+...+.....++.+|+||....-  .......
T Consensus        93 ~~~~~~~~--------------~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~~~~~~l~~~l~sr~  158 (323)
T 1sxj_B           93 IKHFAQKK--------------LHLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQC  158 (323)
T ss_dssp             HHHHHHBC--------------CCCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTS
T ss_pred             HHHHHhcc--------------ccCCCCCceEEEEECcccCCHHHHHHHHHHHhccCCCceEEEEeCChhhchhHHHhhc
Confidence            22221000              001 356889999999887666666676666655667888888876431  1112233


Q ss_pred             CcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHH-HHHHH
Q 047559          341 QQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLA-AKTLG  395 (444)
Q Consensus       341 ~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pla-i~~~~  395 (444)
                      ..+.+.+++.++..+++...+....-...    .+....|++.|+|.|.. +..+.
T Consensus       159 ~~i~~~~~~~~~~~~~l~~~~~~~~~~~~----~~~~~~l~~~~~G~~r~a~~~l~  210 (323)
T 1sxj_B          159 AILRYSKLSDEDVLKRLLQIIKLEDVKYT----NDGLEAIIFTAEGDMRQAINNLQ  210 (323)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHHHHTCCBC----HHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             eEEeecCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHHHHHHH
Confidence            57899999999999999876532211111    23456799999999954 44443

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20

Probab=99.07  E-value=9.7e-10  Score=104.09  Aligned_cols=189  Identities=15%  Similarity=0.093  Sum_probs=115.5

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRAL  263 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~i  263 (444)
                      ..++|++..++.+..++....      ...+.|+|++|+||||+|+.+++...-.. .-...+.++.+..... +.+...
T Consensus        25 ~~~~g~~~~~~~l~~~l~~~~------~~~~ll~G~~G~GKT~la~~l~~~l~~~~-~~~~~~~~~~~~~~~~-~~~~~~   96 (327)
T 1iqp_A           25 DDIVGQEHIVKRLKHYVKTGS------MPHLLFAGPPGVGKTTAALALARELFGEN-WRHNFLELNASDERGI-NVIREK   96 (327)
T ss_dssp             TTCCSCHHHHHHHHHHHHHTC------CCEEEEESCTTSSHHHHHHHHHHHHHGGG-HHHHEEEEETTCHHHH-HTTHHH
T ss_pred             HHhhCCHHHHHHHHHHHHcCC------CCeEEEECcCCCCHHHHHHHHHHHhcCCc-ccCceEEeeccccCch-HHHHHH
Confidence            358999999999999887542      23489999999999999999987632111 1112233333321111 111111


Q ss_pred             HHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCChHHH--hhcCCCC
Q 047559          264 LESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVA--ATMEPIQ  341 (444)
Q Consensus       264 l~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~~va--~~~~~~~  341 (444)
                      +..+....              ....+++.+||+||++......++.+...+.....++++|+||....-.  .......
T Consensus        97 ~~~~~~~~--------------~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~  162 (327)
T 1iqp_A           97 VKEFARTK--------------PIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCA  162 (327)
T ss_dssp             HHHHHHSC--------------CGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEE
T ss_pred             HHHHHhhC--------------CcCCCCCeEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCCccccCHHHHhhCc
Confidence            11110000              0112568899999998876666777777766556678888888764310  1111124


Q ss_pred             cccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHHHh
Q 047559          342 QYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLL  398 (444)
Q Consensus       342 ~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~~L  398 (444)
                      .+.+.+++.++...++...+.... ..   ...+....|++.++|.|..+..+...+
T Consensus       163 ~~~~~~l~~~~~~~~l~~~~~~~~-~~---~~~~~~~~l~~~~~g~~r~~~~~l~~~  215 (327)
T 1iqp_A          163 IFRFRPLRDEDIAKRLRYIAENEG-LE---LTEEGLQAILYIAEGDMRRAINILQAA  215 (327)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHTTT-CE---ECHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             EEEecCCCHHHHHHHHHHHHHhcC-CC---CCHHHHHHHHHHCCCCHHHHHHHHHHH
Confidence            688999999999999887653321 11   112345678899999999766554433

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=98.99  E-value=4.6e-09  Score=98.09  Aligned_cols=207  Identities=12%  Similarity=0.066  Sum_probs=123.6

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcccccc--CCc--ceeEEEEeCCCCCHHHHH
Q 047559          185 AVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVED--SKF--DVKAWVCVSDDFDVLNIS  260 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~--~~f--~~~~wv~vs~~~~~~~~~  260 (444)
                      .+.||++|...|...|...-.+  .....+.|+|++|+|||++++.+++......  ...  -..+.+++....+...++
T Consensus        21 ~L~~Re~E~~~i~~~L~~~i~~--~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t~~~~~   98 (318)
T 3te6_A           21 LLKSQVEDFTRIFLPIYDSLMS--SQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDALY   98 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHT--TCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC--HHHH
T ss_pred             ccCCHHHHHHHHHHHHHHHhcC--CCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccCCHHHHH
Confidence            4789999999998877652111  3346889999999999999999998753211  011  135677777778888999


Q ss_pred             HHHHHHhccCCCC-cccHHHHHHHHHHH--hCCceEEEEEeCCCCCChhcHHHhhcccC--CCC-CCcEEEEecCCh---
Q 047559          261 RALLESITFASCD-LKALNEVQVQIKRA--VDGKKLLLVLDDVWNEDYCLWEDLKAPFL--AAA-PNSKIIVTTRHA---  331 (444)
Q Consensus       261 ~~il~~l~~~~~~-~~~~~~~~~~l~~~--l~~kr~LlVlDdv~~~~~~~~~~l~~~l~--~~~-~gs~iivTTr~~---  331 (444)
                      ..|++++.+.... ......+...+...  -.+++++|+||+++...  .-+.+...+.  ... ....||.++...   
T Consensus        99 ~~I~~~L~g~~~~~~~~~~~L~~~f~~~~~~~~~~~ii~lDE~d~l~--~q~~L~~l~~~~~~~~s~~~vI~i~n~~d~~  176 (318)
T 3te6_A           99 EKIWFAISKENLCGDISLEALNFYITNVPKAKKRKTLILIQNPENLL--SEKILQYFEKWISSKNSKLSIICVGGHNVTI  176 (318)
T ss_dssp             HHHHHHHSCCC--CCCCHHHHHHHHHHSCGGGSCEEEEEEECCSSSC--CTHHHHHHHHHHHCSSCCEEEEEECCSSCCC
T ss_pred             HHHHHHhcCCCCCchHHHHHHHHHHHHhhhccCCceEEEEecHHHhh--cchHHHHHHhcccccCCcEEEEEEecCcccc
Confidence            9999999654221 12233333333332  24678999999997753  2222332221  111 122333334321   


Q ss_pred             H--H----HhhcCCCCcccCCCCChHhHHHHHHHhhccCCC-----------------------------------CCcc
Q 047559          332 H--V----AATMEPIQQYNLQCLSDEDCWSLFMMHAFVGQD-----------------------------------ITAQ  370 (444)
Q Consensus       332 ~--v----a~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~-----------------------------------~~~~  370 (444)
                      .  +    ...+. ...+.+.+++.+|-.+++.+++-....                                   ...+
T Consensus       177 ~~~L~~~v~SR~~-~~~i~F~pYt~~el~~Il~~Rl~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~  255 (318)
T 3te6_A          177 REQINIMPSLKAH-FTEIKLNKVDKNELQQMIITRLKSLLKPFHVKVNDKKEMTIYNNIREGQNQKIPDNVIVINHKINN  255 (318)
T ss_dssp             HHHHHTCHHHHTT-EEEEECCCCCHHHHHHHHHHHHHHHCCCEEEEECTTCCEEECCCC--------CTTEEEECEECCH
T ss_pred             hhhcchhhhccCC-ceEEEeCCCCHHHHHHHHHHHHHhhhccccccccccccccccccccccccccccccccccccccCH
Confidence            1  1    11221 146889999999999999888633111                                   0134


Q ss_pred             chHHHHHHHHHHHcCCChHHHHHHHH
Q 047559          371 QISDLFREKVVGKCGGLPLAAKTLGG  396 (444)
Q Consensus       371 ~~~~~~~~~i~~~~~G~Plai~~~~~  396 (444)
                      ..++-++++++...|-.=.|+.++-.
T Consensus       256 ~ai~~~A~~vA~~~GD~R~Al~ilr~  281 (318)
T 3te6_A          256 KITQLIAKNVANVSGSTEKAFKICEA  281 (318)
T ss_dssp             HHHHHHHHHHHHHHCSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhCChHHHHHHHHHH
Confidence            45666667666666766666665543

>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=98.98  E-value=6.9e-09  Score=100.16  Aligned_cols=195  Identities=14%  Similarity=0.115  Sum_probs=114.4

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHH
Q 047559          185 AVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALL  264 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il  264 (444)
                      .++|++..++.+...+.....     ...+.|+|++|+||||+|+.+.+...... .+.   ...+...    .....+.
T Consensus        17 ~~vg~~~~~~~L~~~l~~~~~-----~~~~ll~G~~G~GKT~la~~la~~l~~~~-~~~---~~~~~~~----~~~~~~~   83 (373)
T 1jr3_A           17 DVVGQEHVLTALANGLSLGRI-----HHAYLFSGTRGVGKTSIARLLAKGLNCET-GIT---ATPCGVC----DNCREIE   83 (373)
T ss_dssp             TSCSCHHHHHHHHHHHHHTCC-----CSEEEEESCTTSSHHHHHHHHHHHHSCTT-CSC---SSCCSSS----HHHHHHH
T ss_pred             hccCcHHHHHHHHHHHHhCCC-----CeEEEEECCCCCCHHHHHHHHHHHhCCCC-CCC---CCCCccc----HHHHHHh
Confidence            589999999999998865432     24789999999999999999987542211 110   0000000    0001111


Q ss_pred             HHh-------ccC-CCCcccHHHHHHHHHHH-hCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCChH-H-
Q 047559          265 ESI-------TFA-SCDLKALNEVQVQIKRA-VDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAH-V-  333 (444)
Q Consensus       265 ~~l-------~~~-~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~~-v-  333 (444)
                      ...       ... .........+...+... ..+++.+||+||++..+...++.+...+.....+..+|++|.... + 
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~  163 (373)
T 1jr3_A           84 QGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLP  163 (373)
T ss_dssp             TSCCSSCEEEETTCSCCSSCHHHHHHHTTSCCSSSSSEEEEEECGGGSCHHHHHHHHHHHHSCCSSEEEEEEESCGGGSC
T ss_pred             ccCCCceEEecccccCCHHHHHHHHHHHhhccccCCeEEEEEECcchhcHHHHHHHHHHHhcCCCceEEEEEeCChHhCc
Confidence            000       000 00111222222221111 135678999999988766667777777665556677777776432 1 


Q ss_pred             HhhcCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHH
Q 047559          334 AATMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGG  396 (444)
Q Consensus       334 a~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~  396 (444)
                      .........+.+.+++.++...++.+.+...+-...    .+....|++.++|.|..+..+..
T Consensus       164 ~~l~sr~~~i~~~~l~~~~~~~~l~~~~~~~~~~~~----~~a~~~l~~~~~G~~r~~~~~l~  222 (373)
T 1jr3_A          164 VTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAHE----PRALQLLARAAEGSLRDALSLTD  222 (373)
T ss_dssp             HHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCCBC----HHHHHHHHHHSSSCHHHHHHHHH
T ss_pred             HHHHhheeEeeCCCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHCCCCHHHHHHHHH
Confidence            112223367899999999999999876532111111    23346689999999998876653

>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=98.93  E-value=9.4e-09  Score=96.88  Aligned_cols=183  Identities=13%  Similarity=0.070  Sum_probs=113.2

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcc-eeEEEEeCCCCCHHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFD-VKAWVCVSDDFDVLNISRA  262 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~-~~~wv~vs~~~~~~~~~~~  262 (444)
                      ..++|++..++.+..++....      ...+.|+|++|+|||++|+.+++...-.  .+. ..+.++.+.....      
T Consensus        17 ~~~~g~~~~~~~l~~~l~~~~------~~~~ll~G~~G~GKt~la~~l~~~l~~~--~~~~~~~~~~~~~~~~~------   82 (319)
T 2chq_A           17 DEVVGQDEVIQRLKGYVERKN------IPHLLFSGPPGTGKTATAIALARDLFGE--NWRDNFIEMNASDERGI------   82 (319)
T ss_dssp             GGSCSCHHHHHHHHTTTTTTC------CCCEEEESSSSSSHHHHHHHHHHHHHTT--CHHHHCEEEETTSTTCT------
T ss_pred             HHHhCCHHHHHHHHHHHhCCC------CCeEEEECcCCcCHHHHHHHHHHHhcCC--cccCCeEEEeCccccCh------
Confidence            358999999999888875421      2338999999999999999998763111  111 1233343332111      


Q ss_pred             HHHHhccCCCCcccHHHHHHHHHHH--h-CCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCChH-H-Hhhc
Q 047559          263 LLESITFASCDLKALNEVQVQIKRA--V-DGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAH-V-AATM  337 (444)
Q Consensus       263 il~~l~~~~~~~~~~~~~~~~l~~~--l-~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~~-v-a~~~  337 (444)
                                  .........+...  + .+++.+||+|+++.......+.+...+.....++.+|+||.... + ....
T Consensus        83 ------------~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~  150 (319)
T 2chq_A           83 ------------DVVRHKIKEFARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQ  150 (319)
T ss_dssp             ------------TTSSHHHHHHHHSCCSSSCCCEEEEEETGGGSCHHHHHTTGGGTSSSSSSEEEEEEESCGGGSCHHHH
T ss_pred             ------------HHHHHHHHHHHhcCCCCCCCceEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcchHHH
Confidence                        0111111111111  1 25678999999987766666777777766566778888876543 1 1112


Q ss_pred             CCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHH
Q 047559          338 EPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGG  396 (444)
Q Consensus       338 ~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~  396 (444)
                      .....+.+.+++.++...++...+....-...    .+....+++.++|.|..+.....
T Consensus       151 sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~----~~~l~~l~~~~~G~~r~~~~~l~  205 (319)
T 2chq_A          151 SRCAVFRFKPVPKEAMKKRLLEICEKEGVKIT----EDGLEALIYISGGDFRKAINALQ  205 (319)
T ss_dssp             TTCEEEECCCCCHHHHHHHHHHHHHTTCCCBC----HHHHHHHHHTTTTCHHHHHHHHH
T ss_pred             hhCeEEEecCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHHHHHHH
Confidence            23357899999999999998876633221112    23346688899999986655443

>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=8.7e-09  Score=97.49  Aligned_cols=182  Identities=15%  Similarity=0.095  Sum_probs=107.9

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRAL  263 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~i  263 (444)
                      ..++|++..+..+...+....... .....+.|+|++|+|||+||+.+++...  .    ..++++++......++..  
T Consensus        12 ~~~ig~~~~~~~l~~~l~~~~~~~-~~~~~vll~G~~GtGKT~la~~i~~~~~--~----~~~~~~~~~~~~~~~l~~--   82 (324)
T 1hqc_A           12 DEYIGQERLKQKLRVYLEAAKARK-EPLEHLLLFGPPGLGKTTLAHVIAHELG--V----NLRVTSGPAIEKPGDLAA--   82 (324)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHC-SCCCCCEEECCTTCCCHHHHHHHHHHHT--C----CEEEECTTTCCSHHHHHH--
T ss_pred             HHhhCHHHHHHHHHHHHHHHHccC-CCCCcEEEECCCCCCHHHHHHHHHHHhC--C----CEEEEeccccCChHHHHH--
Confidence            469999999888887775311000 1225688999999999999999987632  1    123444433222222111  


Q ss_pred             HHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCC------------------CCCcEEE
Q 047559          264 LESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAA------------------APNSKII  325 (444)
Q Consensus       264 l~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~------------------~~gs~ii  325 (444)
                                         .+...+ .++.+|+|||++.........+...+...                  ..+..+|
T Consensus        83 -------------------~l~~~~-~~~~~l~lDEi~~l~~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~i  142 (324)
T 1hqc_A           83 -------------------ILANSL-EEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLI  142 (324)
T ss_dssp             -------------------HHTTTC-CTTCEEEETTTTSCCHHHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCCCEEE
T ss_pred             -------------------HHHHhc-cCCCEEEEECCcccccchHHHHHHHHHhhhhHHhccccccccccccCCCCEEEE
Confidence                               111101 34668999999776544444444333221                  1235667


Q ss_pred             EecCChH-HHh-hcCCC-CcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHHHh
Q 047559          326 VTTRHAH-VAA-TMEPI-QQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLL  398 (444)
Q Consensus       326 vTTr~~~-va~-~~~~~-~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~~L  398 (444)
                      .||.... +.. ..... ..+.+.+++.++...++...+.......    ..+....+++.++|.|-.+..+...+
T Consensus       143 ~~t~~~~~~~~~l~~R~~~~i~l~~~~~~e~~~~l~~~~~~~~~~~----~~~~~~~l~~~~~G~~r~l~~~l~~~  214 (324)
T 1hqc_A          143 GATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGVRI----TEEAALEIGRRSRGTMRVAKRLFRRV  214 (324)
T ss_dssp             EEESCCSSCSCSTTTTCSCEEECCCCCHHHHHHHHHHHHHTTTCCC----CHHHHHHHHHHSCSCHHHHHHHHHHH
T ss_pred             EeCCCcccCCHHHHhcccEEEecCCCCHHHHHHHHHHHHHhcCCCC----CHHHHHHHHHHccCCHHHHHHHHHHH
Confidence            6666432 111 11122 4688999999999999887764322111    12345678899999999887776554

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=98.74  E-value=3.3e-08  Score=85.44  Aligned_cols=152  Identities=14%  Similarity=0.110  Sum_probs=82.4

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccC----CcceeEEEEeCCCCCHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDS----KFDVKAWVCVSDDFDVLNI  259 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~----~f~~~~wv~vs~~~~~~~~  259 (444)
                      ..++||+.+++.+.+.+....      ...+.|+|++|+|||+||+.+++.......    .....++++++.      +
T Consensus        22 ~~~~g~~~~~~~l~~~l~~~~------~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~   89 (195)
T 1jbk_A           22 DPVIGRDEEIRRTIQVLQRRT------KNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGA------L   89 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSS------SCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHH------H
T ss_pred             cccccchHHHHHHHHHHhcCC------CCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCcEEEeeHHH------H
Confidence            358999999999999986532      256889999999999999999876421100    012233443321      1


Q ss_pred             HHHHHHHhccCCCCcccHHHHHHHHHHHh--CCceEEEEEeCCCCCC--------hhcHHHhhcccCCCCCCcEEEEecC
Q 047559          260 SRALLESITFASCDLKALNEVQVQIKRAV--DGKKLLLVLDDVWNED--------YCLWEDLKAPFLAAAPNSKIIVTTR  329 (444)
Q Consensus       260 ~~~il~~l~~~~~~~~~~~~~~~~l~~~l--~~kr~LlVlDdv~~~~--------~~~~~~l~~~l~~~~~gs~iivTTr  329 (444)
                      .       .. .............+...+  .+++.+|||||++...        ......+...+ . ..+..+|+||.
T Consensus        90 ~-------~~-~~~~~~~~~~~~~~~~~~~~~~~~~vl~iDe~~~l~~~~~~~~~~~~~~~l~~~~-~-~~~~~~i~~~~  159 (195)
T 1jbk_A           90 V-------AG-AKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPAL-A-RGELHCVGATT  159 (195)
T ss_dssp             H-------TT-TCSHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHH-H-TTSCCEEEEEC
T ss_pred             h-------cc-CCccccHHHHHHHHHHHHhhcCCCeEEEEeCHHHHhccCcccchHHHHHHHHHhh-c-cCCeEEEEeCC
Confidence            0       00 000011111111222212  4567899999997642        11123333222 2 23456777776


Q ss_pred             ChHHHhh-------cCCCCcccCCCCChHhHHHHH
Q 047559          330 HAHVAAT-------MEPIQQYNLQCLSDEDCWSLF  357 (444)
Q Consensus       330 ~~~va~~-------~~~~~~~~l~~L~~~~~~~lf  357 (444)
                      .......       ......+.+.+++.++..+++
T Consensus       160 ~~~~~~~~~~~~~l~~r~~~i~~~~p~~~~~~~il  194 (195)
T 1jbk_A          160 LDEYRQYIEKDAALERRFQKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             HHHHHHHTTTCHHHHTTEEEEECCCCCHHHHHTTC
T ss_pred             HHHHHHHHhcCHHHHHHhceeecCCCCHHHHHHHh
Confidence            5543221       122235778888877766543

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.72  E-value=1.1e-07  Score=90.79  Aligned_cols=195  Identities=10%  Similarity=0.058  Sum_probs=113.0

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcc-eeEEEEeCCCCCHHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFD-VKAWVCVSDDFDVLNISRA  262 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~-~~~wv~vs~~~~~~~~~~~  262 (444)
                      ..++|++..++.+..++.....      ..+.|+|++|+||||+|+.+.+...... .+. ....++.+...... .+.+
T Consensus        37 ~~i~g~~~~~~~l~~~l~~~~~------~~~ll~G~~G~GKT~la~~la~~l~~~~-~~~~~~~~~~~~~~~~~~-~~~~  108 (353)
T 1sxj_D           37 DEVTAQDHAVTVLKKTLKSANL------PHMLFYGPPGTGKTSTILALTKELYGPD-LMKSRILELNASDERGIS-IVRE  108 (353)
T ss_dssp             TTCCSCCTTHHHHHHHTTCTTC------CCEEEECSTTSSHHHHHHHHHHHHHHHH-HHTTSEEEECSSSCCCHH-HHTT
T ss_pred             HHhhCCHHHHHHHHHHHhcCCC------CEEEEECCCCCCHHHHHHHHHHHhCCCc-ccccceEEEccccccchH-HHHH
Confidence            4589999999999998865321      2389999999999999999987642111 111 12233433322222 2222


Q ss_pred             HHHHhccCCC-CcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCChH-HH-hhcCC
Q 047559          263 LLESITFASC-DLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAH-VA-ATMEP  339 (444)
Q Consensus       263 il~~l~~~~~-~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~~-va-~~~~~  339 (444)
                      .+..+..... .....     .....-.++.-+|++|+++.........+...+.......++|++|.... +. .....
T Consensus       109 ~~~~~~~~~~~~~~~~-----~~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~l~sR  183 (353)
T 1sxj_D          109 KVKNFARLTVSKPSKH-----DLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQ  183 (353)
T ss_dssp             HHHHHHHSCCCCCCTT-----HHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHH
T ss_pred             HHHHHhhhcccccchh-----hcccCCCCCceEEEEECCCccCHHHHHHHHHHHHhcCCCceEEEEeCchhhCcchhhcc
Confidence            2222211100 00000     00111123556999999987765556666666655555677777775432 11 11111


Q ss_pred             CCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHH
Q 047559          340 IQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLG  395 (444)
Q Consensus       340 ~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~  395 (444)
                      ...+.+.+++.++....+...+....-...    ++....|++.++|.|-.+..+.
T Consensus       184 ~~~i~~~~~~~~~~~~~l~~~~~~~~~~i~----~~~l~~l~~~~~G~~r~~~~~l  235 (353)
T 1sxj_D          184 CSKFRFKALDASNAIDRLRFISEQENVKCD----DGVLERILDISAGDLRRGITLL  235 (353)
T ss_dssp             SEEEECCCCCHHHHHHHHHHHHHTTTCCCC----HHHHHHHHHHTSSCHHHHHHHH
T ss_pred             CceEEeCCCCHHHHHHHHHHHHHHhCCCCC----HHHHHHHHHHcCCCHHHHHHHH
Confidence            246889999999999998876532211111    2345679999999998755443

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=98.69  E-value=3e-08  Score=89.25  Aligned_cols=174  Identities=11%  Similarity=0.040  Sum_probs=98.3

Q ss_pred             cccccc---hhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHH
Q 047559          185 AVFGRQ---QDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISR  261 (444)
Q Consensus       185 ~~vGr~---~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~  261 (444)
                      .++|..   ..+..+..++...      ....+.|+|++|+||||||+.+++.....   .....|++++.-...     
T Consensus        29 ~~~~~~~~~~~~~~l~~~~~~~------~~~~~ll~G~~G~GKT~la~~l~~~~~~~---~~~~~~~~~~~~~~~-----   94 (242)
T 3bos_A           29 SYYPAAGNDELIGALKSAASGD------GVQAIYLWGPVKSGRTHLIHAACARANEL---ERRSFYIPLGIHASI-----   94 (242)
T ss_dssp             TSCC--CCHHHHHHHHHHHHTC------SCSEEEEECSTTSSHHHHHHHHHHHHHHT---TCCEEEEEGGGGGGS-----
T ss_pred             hccCCCCCHHHHHHHHHHHhCC------CCCeEEEECCCCCCHHHHHHHHHHHHHHc---CCeEEEEEHHHHHHH-----
Confidence            466532   4455555554432      22689999999999999999998764322   234456665432110     


Q ss_pred             HHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhc--HHHhhcccCCC-CCC-cEEEEecCChH-----
Q 047559          262 ALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCL--WEDLKAPFLAA-APN-SKIIVTTRHAH-----  332 (444)
Q Consensus       262 ~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~--~~~l~~~l~~~-~~g-s~iivTTr~~~-----  332 (444)
                           +.      ..       + +.+ .++.+|||||++......  .+.+...+... ..+ .++|+||+...     
T Consensus        95 -----~~------~~-------~-~~~-~~~~vliiDe~~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~~~~~~~~~~~~  154 (242)
T 3bos_A           95 -----ST------AL-------L-EGL-EQFDLICIDDVDAVAGHPLWEEAIFDLYNRVAEQKRGSLIVSASASPMEAGF  154 (242)
T ss_dssp             -----CG------GG-------G-TTG-GGSSEEEEETGGGGTTCHHHHHHHHHHHHHHHHHCSCEEEEEESSCTTTTTC
T ss_pred             -----HH------HH-------H-Hhc-cCCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCCeEEEEcCCCHHHHHH
Confidence                 00      00       0 011 346799999997654332  23333332211 122 24777776321     


Q ss_pred             ----HHhhcCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHH
Q 047559          333 ----VAATMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGG  396 (444)
Q Consensus       333 ----va~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~  396 (444)
                          +...+.....+.+.+++.++..+++...+.......    ..+....|++.++|.+-.+..+..
T Consensus       155 ~~~~l~~r~~~~~~i~l~~~~~~~~~~~l~~~~~~~~~~~----~~~~~~~l~~~~~g~~r~l~~~l~  218 (242)
T 3bos_A          155 VLPDLVSRMHWGLTYQLQPMMDDEKLAALQRRAAMRGLQL----PEDVGRFLLNRMARDLRTLFDVLD  218 (242)
T ss_dssp             CCHHHHHHHHHSEEEECCCCCGGGHHHHHHHHHHHTTCCC----CHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             hhhhhhhHhhcCceEEeCCCCHHHHHHHHHHHHHHcCCCC----CHHHHHHHHHHccCCHHHHHHHHH
Confidence                222222225789999999999999988763221111    233456788899999877665543

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=98.67  E-value=2e-07  Score=89.67  Aligned_cols=196  Identities=16%  Similarity=0.107  Sum_probs=107.9

Q ss_pred             CcccccchhHHH---HHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEe----CCCCCH
Q 047559          184 RAVFGRQQDKAK---MLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCV----SDDFDV  256 (444)
Q Consensus       184 ~~~vGr~~~~~~---l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~v----s~~~~~  256 (444)
                      ..++|++..+..   +.+.+....    ...+.+.|+|++|+|||+||+.+.+...... .|   +.++.    +.....
T Consensus        44 ~~ivG~~~~~~~l~~l~~~~~~~~----~~~~~vLl~GppGtGKT~la~~la~~l~~~~-~~---~~~~~~~~~~~~~~~  115 (368)
T 3uk6_A           44 QGMVGQLAARRAAGVVLEMIREGK----IAGRAVLIAGQPGTGKTAIAMGMAQALGPDT-PF---TAIAGSEIFSLEMSK  115 (368)
T ss_dssp             TTEESCHHHHHHHHHHHHHHHTTC----CTTCEEEEEESTTSSHHHHHHHHHHHHCSSC-CE---EEEEGGGGSCSSSCH
T ss_pred             hhccChHHHHHHHHHHHHHHHcCC----CCCCEEEEECCCCCCHHHHHHHHHHHhcccC-Cc---ccccchhhhhcccch
Confidence            469999988666   455554332    2236899999999999999999998743211 11   12221    122333


Q ss_pred             HHHHHHHHHHhccCC----------------------------CC--cccHHHHHHHHHHHh-----CCc----eEEEEE
Q 047559          257 LNISRALLESITFAS----------------------------CD--LKALNEVQVQIKRAV-----DGK----KLLLVL  297 (444)
Q Consensus       257 ~~~~~~il~~l~~~~----------------------------~~--~~~~~~~~~~l~~~l-----~~k----r~LlVl  297 (444)
                      .+.+...+.......                            ..  ......+...+....     .++    +.+|+|
T Consensus       116 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ld~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~g~~~~~~~vl~I  195 (368)
T 3uk6_A          116 TEALTQAFRRSIGVRIKAGAVHTVSLHEIDVINSRTQGFLALFSGDTGEIKSEVREQINAKVAEWREEGKAEIIPGVLFI  195 (368)
T ss_dssp             HHHHHHHHHHSBEECC------CEEHHHHHHHTC----CCSCC-------CHHHHHHHHHHHHHHHHHTC---CBCEEEE
T ss_pred             hHHHHHHHHHHHHHHhhhhccccccHhhhhhhhcccccchhhccCcccccHHHHHHHHHHHHHHhhhhccccccCceEEE
Confidence            444444433311100                            00  000112222222211     233    359999


Q ss_pred             eCCCCCChhcHHHhhcccCCCCCCcEEEEecCC-----------------hHHHhhcCCCCcccCCCCChHhHHHHHHHh
Q 047559          298 DDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRH-----------------AHVAATMEPIQQYNLQCLSDEDCWSLFMMH  360 (444)
Q Consensus       298 Ddv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~-----------------~~va~~~~~~~~~~l~~L~~~~~~~lf~~~  360 (444)
                      |+++.......+.+...+...... .++++|..                 +.+..   ....+.+.+++.++..+++...
T Consensus       196 DEi~~l~~~~~~~L~~~le~~~~~-~~ii~t~~~~~~i~~t~~~~~~~l~~~l~s---R~~~i~~~~~~~~e~~~il~~~  271 (368)
T 3uk6_A          196 DEVHMLDIESFSFLNRALESDMAP-VLIMATNRGITRIRGTSYQSPHGIPIDLLD---RLLIVSTTPYSEKDTKQILRIR  271 (368)
T ss_dssp             ESGGGSBHHHHHHHHHHTTCTTCC-EEEEEESCSEEECBTSSCEEETTCCHHHHT---TEEEEEECCCCHHHHHHHHHHH
T ss_pred             hhccccChHHHHHHHHHhhCcCCC-eeeeecccceeeeeccCCCCcccCCHHHHh---hccEEEecCCCHHHHHHHHHHH
Confidence            999887666666676666544333 34444431                 12222   2245799999999999999877


Q ss_pred             hccCCCCCccchHHHHHHHHHHHcC-CChHHHHHHH
Q 047559          361 AFVGQDITAQQISDLFREKVVGKCG-GLPLAAKTLG  395 (444)
Q Consensus       361 ~~~~~~~~~~~~~~~~~~~i~~~~~-G~Plai~~~~  395 (444)
                      +........    .+....|++.+. |.|-.+..+.
T Consensus       272 ~~~~~~~~~----~~~l~~l~~~~~~G~~r~~~~ll  303 (368)
T 3uk6_A          272 CEEEDVEMS----EDAYTVLTRIGLETSLRYAIQLI  303 (368)
T ss_dssp             HHHTTCCBC----HHHHHHHHHHHHHSCHHHHHHHH
T ss_pred             HHHcCCCCC----HHHHHHHHHHhcCCCHHHHHHHH
Confidence            643222112    234466888887 8777655443

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=98.66  E-value=3.5e-07  Score=90.06  Aligned_cols=184  Identities=14%  Similarity=0.050  Sum_probs=107.6

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCC
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDG  290 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~  290 (444)
                      ...+.|+|++|+||||||+.+++...... .-...++++.+      .+...+...+....         ...+...+..
T Consensus       130 ~~~lll~Gp~G~GKTtLa~aia~~l~~~~-~~~~v~~v~~~------~~~~~~~~~~~~~~---------~~~~~~~~~~  193 (440)
T 2z4s_A          130 YNPLFIYGGVGLGKTHLLQSIGNYVVQNE-PDLRVMYITSE------KFLNDLVDSMKEGK---------LNEFREKYRK  193 (440)
T ss_dssp             SCCEEEECSSSSSHHHHHHHHHHHHHHHC-CSSCEEEEEHH------HHHHHHHHHHHTTC---------HHHHHHHHTT
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHhC-CCCeEEEeeHH------HHHHHHHHHHHccc---------HHHHHHHhcC
Confidence            46799999999999999999998642211 01123444432      33444444443211         1123333443


Q ss_pred             ceEEEEEeCCCCCCh--hcHHHhhcccCC-CCCCcEEEEecCCh---------HHHhhcCCCCcccCCCCChHhHHHHHH
Q 047559          291 KKLLLVLDDVWNEDY--CLWEDLKAPFLA-AAPNSKIIVTTRHA---------HVAATMEPIQQYNLQCLSDEDCWSLFM  358 (444)
Q Consensus       291 kr~LlVlDdv~~~~~--~~~~~l~~~l~~-~~~gs~iivTTr~~---------~va~~~~~~~~~~l~~L~~~~~~~lf~  358 (444)
                      +.-+|+|||++....  ...+.+...+.. ...|..||+||...         .+...+.....+.+.+++.++..+++.
T Consensus       194 ~~~vL~IDEi~~l~~~~~~q~~l~~~l~~l~~~~~~iIitt~~~~~~l~~l~~~L~sR~~~g~~i~l~~p~~e~r~~iL~  273 (440)
T 2z4s_A          194 KVDILLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEETRKSIAR  273 (440)
T ss_dssp             TCSEEEEECGGGGSSCHHHHHHHHHHHHHHHTTTCEEEEEESSCGGGCSSCCHHHHHHHHSSBCCBCCCCCHHHHHHHHH
T ss_pred             CCCEEEEeCcccccCChHHHHHHHHHHHHHHHCCCeEEEEECCCHHHHHHHHHHHHhhccCCeEEEeCCCCHHHHHHHHH
Confidence            677999999976532  222334333322 24567888888752         233333334578999999999999998


Q ss_pred             HhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHHH------hcCC--CHHHHHHHHhccc
Q 047559          359 MHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGL------LRSK--RHDEWDEILNSNI  414 (444)
Q Consensus       359 ~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~~------L~~~--~~~~w~~~l~~~~  414 (444)
                      +.+....-...+.    +...|++.+.|.+-.+..+...      +...  +.+.+..++....
T Consensus       274 ~~~~~~~~~i~~e----~l~~la~~~~gn~R~l~~~L~~~~~~a~~~~~~It~~~~~~~l~~~~  333 (440)
T 2z4s_A          274 KMLEIEHGELPEE----VLNFVAENVDDNLRRLRGAIIKLLVYKETTGKEVDLKEAILLLKDFI  333 (440)
T ss_dssp             HHHHHHTCCCCTT----HHHHHHHHCCSCHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHTSTTT
T ss_pred             HHHHHcCCCCCHH----HHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHh
Confidence            8763211111122    2456888999988655433221      2222  7788888877643

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=98.65  E-value=2.2e-07  Score=91.44  Aligned_cols=198  Identities=17%  Similarity=0.141  Sum_probs=111.2

Q ss_pred             CcccccchhH---HHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHH
Q 047559          184 RAVFGRQQDK---AKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNIS  260 (444)
Q Consensus       184 ~~~vGr~~~~---~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~  260 (444)
                      ..++|.+..+   ..+...+...      ....+.|+|++|+||||||+.+.+....   .     ++.++.......-+
T Consensus        26 ~~ivGq~~~~~~~~~L~~~i~~~------~~~~vLL~GppGtGKTtlAr~ia~~~~~---~-----f~~l~a~~~~~~~i   91 (447)
T 3pvs_A           26 AQYIGQQHLLAAGKPLPRAIEAG------HLHSMILWGPPGTGKTTLAEVIARYANA---D-----VERISAVTSGVKEI   91 (447)
T ss_dssp             TTCCSCHHHHSTTSHHHHHHHHT------CCCEEEEECSTTSSHHHHHHHHHHHTTC---E-----EEEEETTTCCHHHH
T ss_pred             HHhCCcHHHHhchHHHHHHHHcC------CCcEEEEECCCCCcHHHHHHHHHHHhCC---C-----eEEEEeccCCHHHH
Confidence            4588988777   6677777553      2367999999999999999999986321   1     22222211111111


Q ss_pred             HHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEE-ecCChHH---Hhh
Q 047559          261 RALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIV-TTRHAHV---AAT  336 (444)
Q Consensus       261 ~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiv-TTr~~~v---a~~  336 (444)
                      +.++...                ......+++.+|+||+++.......+.|...+.. + ...+|. ||.+...   ...
T Consensus        92 r~~~~~a----------------~~~~~~~~~~iLfIDEI~~l~~~~q~~LL~~le~-~-~v~lI~att~n~~~~l~~aL  153 (447)
T 3pvs_A           92 REAIERA----------------RQNRNAGRRTILFVDEVHRFNKSQQDAFLPHIED-G-TITFIGATTENPSFELNSAL  153 (447)
T ss_dssp             HHHHHHH----------------HHHHHTTCCEEEEEETTTCC------CCHHHHHT-T-SCEEEEEESSCGGGSSCHHH
T ss_pred             HHHHHHH----------------HHhhhcCCCcEEEEeChhhhCHHHHHHHHHHHhc-C-ceEEEecCCCCcccccCHHH
Confidence            1111111                0111246788999999987755555555555543 2 233333 5544321   122


Q ss_pred             cCCCCcccCCCCChHhHHHHHHHhhccCC-C--CCccchHHHHHHHHHHHcCCChHHHHHHHHHh---cC-------C-C
Q 047559          337 MEPIQQYNLQCLSDEDCWSLFMMHAFVGQ-D--ITAQQISDLFREKVVGKCGGLPLAAKTLGGLL---RS-------K-R  402 (444)
Q Consensus       337 ~~~~~~~~l~~L~~~~~~~lf~~~~~~~~-~--~~~~~~~~~~~~~i~~~~~G~Plai~~~~~~L---~~-------~-~  402 (444)
                      .....++.+.+++.++...++.+.+.... .  .......++....|++.++|.+-.+..+...+   ..       . +
T Consensus       154 ~sR~~v~~l~~l~~edi~~il~~~l~~~~~~~~~~~~~i~~~al~~L~~~~~Gd~R~lln~Le~a~~~a~~~~~~~~~It  233 (447)
T 3pvs_A          154 LSRARVYLLKSLSTEDIEQVLTQAMEDKTRGYGGQDIVLPDETRRAIAELVNGDARRALNTLEMMADMAEVDDSGKRVLK  233 (447)
T ss_dssp             HTTEEEEECCCCCHHHHHHHHHHHHHCTTTSSTTSSEECCHHHHHHHHHHHCSCHHHHHHHHHHHHHHSCBCTTSCEECC
T ss_pred             hCceeEEeeCCcCHHHHHHHHHHHHHHHhhhhccccCcCCHHHHHHHHHHCCCCHHHHHHHHHHHHHhcccccCCCCccC
Confidence            23345788999999999999887763311 0  01112233445678888999887665544332   11       1 6


Q ss_pred             HHHHHHHHhcc
Q 047559          403 HDEWDEILNSN  413 (444)
Q Consensus       403 ~~~w~~~l~~~  413 (444)
                      .+....++...
T Consensus       234 ~e~v~~~l~~~  244 (447)
T 3pvs_A          234 PELLTEIAGER  244 (447)
T ss_dssp             HHHHHHHHTCC
T ss_pred             HHHHHHHHhhh
Confidence            67777776653

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=98.64  E-value=9.2e-07  Score=81.83  Aligned_cols=185  Identities=16%  Similarity=0.110  Sum_probs=99.3

Q ss_pred             CCcccccchhHHHHHHHHhcCCCC-------CCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCC
Q 047559          183 ERAVFGRQQDKAKMLEMVLTDTSS-------DHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFD  255 (444)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~~~~-------~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~  255 (444)
                      -..++|.+..++.|.+.+...-..       +......+.|+|++|+|||+||+.+++....      ..+.++.+.-..
T Consensus        16 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~~~------~~~~v~~~~~~~   89 (285)
T 3h4m_A           16 YEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNA------TFIRVVGSELVK   89 (285)
T ss_dssp             GGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHTTC------EEEEEEGGGGCC
T ss_pred             HHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHhCC------CEEEEehHHHHH
Confidence            346899999999998876431000       0012356999999999999999999876321      122233222110


Q ss_pred             HHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCC-----------ChhcHHHhhcc---cC--CCC
Q 047559          256 VLNISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNE-----------DYCLWEDLKAP---FL--AAA  319 (444)
Q Consensus       256 ~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~-----------~~~~~~~l~~~---l~--~~~  319 (444)
                                    . ............+.......+.+|+|||++..           +......+...   +.  ...
T Consensus        90 --------------~-~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~  154 (285)
T 3h4m_A           90 --------------K-FIGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDAR  154 (285)
T ss_dssp             --------------C-STTHHHHHHHHHHHHHHHTCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTTCSS
T ss_pred             --------------h-ccchHHHHHHHHHHHHHHcCCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhCCCCC
Confidence                          0 00011111122222233456689999999652           11111222222   21  223


Q ss_pred             CCcEEEEecCChHHHh--hcC--C-CCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCC-ChHHHHH
Q 047559          320 PNSKIIVTTRHAHVAA--TME--P-IQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGG-LPLAAKT  393 (444)
Q Consensus       320 ~gs~iivTTr~~~va~--~~~--~-~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G-~Plai~~  393 (444)
                      .+..||.||.......  ...  . ...+.+..++.++..++|...+.... ......+    ..++..+.| .|-.+..
T Consensus       155 ~~~~vI~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~-~~~~~~~----~~l~~~~~g~~~~~i~~  229 (285)
T 3h4m_A          155 GDVKIIGATNRPDILDPAILRPGRFDRIIEVPAPDEKGRLEILKIHTRKMN-LAEDVNL----EEIAKMTEGCVGAELKA  229 (285)
T ss_dssp             SSEEEEEECSCGGGBCHHHHSTTSEEEEEECCCCCHHHHHHHHHHHHTTSC-BCTTCCH----HHHHHHCTTCCHHHHHH
T ss_pred             CCEEEEEeCCCchhcCHHHcCCCcCCeEEEECCCCHHHHHHHHHHHHhcCC-CCCcCCH----HHHHHHcCCCCHHHHHH
Confidence            4567777887542211  111  1 13688999999999999988763321 1112223    447777777 4534443

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=98.62  E-value=3e-07  Score=87.39  Aligned_cols=179  Identities=16%  Similarity=0.133  Sum_probs=104.8

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRAL  263 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~i  263 (444)
                      ..++|++..+..+..++....... .....+.|+|++|+|||+||+.+.+...  . .   .+.++++......      
T Consensus        29 ~~iiG~~~~~~~l~~~l~~~~~~~-~~~~~vll~G~~GtGKT~la~~ia~~~~--~-~---~~~~~~~~~~~~~------   95 (338)
T 3pfi_A           29 DGYIGQESIKKNLNVFIAAAKKRN-ECLDHILFSGPAGLGKTTLANIISYEMS--A-N---IKTTAAPMIEKSG------   95 (338)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHTT-SCCCCEEEECSTTSSHHHHHHHHHHHTT--C-C---EEEEEGGGCCSHH------
T ss_pred             HHhCChHHHHHHHHHHHHHHHhcC-CCCCeEEEECcCCCCHHHHHHHHHHHhC--C-C---eEEecchhccchh------
Confidence            469999999999888876521100 2335689999999999999999977631  1 1   2233332211111      


Q ss_pred             HHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCC------------------CCcEEE
Q 047559          264 LESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAA------------------PNSKII  325 (444)
Q Consensus       264 l~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~------------------~gs~ii  325 (444)
                                     .....+..  ..+..+|+||+++.........+...+....                  ++..+|
T Consensus        96 ---------------~~~~~~~~--~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~i  158 (338)
T 3pfi_A           96 ---------------DLAAILTN--LSEGDILFIDEIHRLSPAIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLPKFTLI  158 (338)
T ss_dssp             ---------------HHHHHHHT--CCTTCEEEEETGGGCCHHHHHHHHHHHHTSCC---------CCCCCCCCCCCEEE
T ss_pred             ---------------HHHHHHHh--ccCCCEEEEechhhcCHHHHHHHHHHHHhccchhhcccCccccceecCCCCeEEE
Confidence                           11111111  2456789999998765554555544443211                  124566


Q ss_pred             EecCChHH-H-hhcCCC-CcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHH
Q 047559          326 VTTRHAHV-A-ATMEPI-QQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGG  396 (444)
Q Consensus       326 vTTr~~~v-a-~~~~~~-~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~  396 (444)
                      .+|..... . ...... ..+.+.+++.++...++.+.+-... .   ....+....|++.+.|.|-.+..+..
T Consensus       159 ~atn~~~~l~~~L~~R~~~~i~l~~~~~~e~~~il~~~~~~~~-~---~~~~~~~~~l~~~~~G~~r~l~~~l~  228 (338)
T 3pfi_A          159 GATTRAGMLSNPLRDRFGMQFRLEFYKDSELALILQKAALKLN-K---TCEEKAALEIAKRSRSTPRIALRLLK  228 (338)
T ss_dssp             EEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTT-C---EECHHHHHHHHHTTTTCHHHHHHHHH
T ss_pred             EeCCCccccCHHHHhhcCEEeeCCCcCHHHHHHHHHHHHHhcC-C---CCCHHHHHHHHHHHCcCHHHHHHHHH
Confidence            66654321 1 111222 5689999999999999887663221 1   11233456688899999965554443

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=98.61  E-value=2.7e-07  Score=87.18  Aligned_cols=179  Identities=18%  Similarity=0.106  Sum_probs=105.3

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRAL  263 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~i  263 (444)
                      ..++|++..+..+..++....     ...++.+.|++|+|||++|+.+.+...      ...+.++.+.. . .+.++..
T Consensus        26 ~~ivg~~~~~~~l~~~l~~~~-----~~~~~L~~G~~G~GKT~la~~la~~l~------~~~~~i~~~~~-~-~~~i~~~   92 (324)
T 3u61_B           26 DECILPAFDKETFKSITSKGK-----IPHIILHSPSPGTGKTTVAKALCHDVN------ADMMFVNGSDC-K-IDFVRGP   92 (324)
T ss_dssp             TTSCCCHHHHHHHHHHHHTTC-----CCSEEEECSSTTSSHHHHHHHHHHHTT------EEEEEEETTTC-C-HHHHHTH
T ss_pred             HHHhCcHHHHHHHHHHHHcCC-----CCeEEEeeCcCCCCHHHHHHHHHHHhC------CCEEEEccccc-C-HHHHHHH
Confidence            468999999999999987542     225788889999999999999987631      22344554331 2 2222222


Q ss_pred             HHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCC-hhcHHHhhcccCCCCCCcEEEEecCChH-----HHhhc
Q 047559          264 LESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNED-YCLWEDLKAPFLAAAPNSKIIVTTRHAH-----VAATM  337 (444)
Q Consensus       264 l~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~-~~~~~~l~~~l~~~~~gs~iivTTr~~~-----va~~~  337 (444)
                      +.......               ...+++-+|+|||++... ....+.+...+.....+.++|+||....     +... 
T Consensus        93 ~~~~~~~~---------------~~~~~~~vliiDEi~~l~~~~~~~~L~~~le~~~~~~~iI~~~n~~~~l~~~l~sR-  156 (324)
T 3u61_B           93 LTNFASAA---------------SFDGRQKVIVIDEFDRSGLAESQRHLRSFMEAYSSNCSIIITANNIDGIIKPLQSR-  156 (324)
T ss_dssp             HHHHHHBC---------------CCSSCEEEEEEESCCCGGGHHHHHHHHHHHHHHGGGCEEEEEESSGGGSCTTHHHH-
T ss_pred             HHHHHhhc---------------ccCCCCeEEEEECCcccCcHHHHHHHHHHHHhCCCCcEEEEEeCCccccCHHHHhh-
Confidence            22111100               012467899999998765 4455556655544445678888887643     2222 


Q ss_pred             CCCCcccCCCCChHhHHHHH-------HHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHH
Q 047559          338 EPIQQYNLQCLSDEDCWSLF-------MMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGG  396 (444)
Q Consensus       338 ~~~~~~~l~~L~~~~~~~lf-------~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~  396 (444)
                        ...+.+.+++.++-.+++       ...+....-...+   .+....|++.++|.+-.+.....
T Consensus       157 --~~~i~~~~~~~~e~~~il~~~~~~l~~~~~~~~~~~~~---~~~~~~l~~~~~gd~R~a~~~L~  217 (324)
T 3u61_B          157 --CRVITFGQPTDEDKIEMMKQMIRRLTEICKHEGIAIAD---MKVVAALVKKNFPDFRKTIGELD  217 (324)
T ss_dssp             --SEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHTCCBSC---HHHHHHHHHHTCSCTTHHHHHHH
T ss_pred             --CcEEEeCCCCHHHHHHHHHHHHHHHHHHHHHcCCCCCc---HHHHHHHHHhCCCCHHHHHHHHH
Confidence              246889999988743332       2222111111111   13446688889888765444433

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.57  E-value=4.7e-07  Score=86.58  Aligned_cols=199  Identities=10%  Similarity=0.023  Sum_probs=106.2

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccc-cccC--Ccce----------------
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRA-VEDS--KFDV----------------  244 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~-~~~~--~f~~----------------  244 (444)
                      ..++|++..++.+..++....     ....+.|+|++|+||||+++.+..... ...+  .++.                
T Consensus        14 ~~~vg~~~~~~~l~~~~~~~~-----~~~~~ll~Gp~G~GKTtl~~~la~~l~~~~~g~i~~~~~~~~~~~~~~~~~~~~   88 (354)
T 1sxj_E           14 NALSHNEELTNFLKSLSDQPR-----DLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVV   88 (354)
T ss_dssp             GGCCSCHHHHHHHHTTTTCTT-----CCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCE
T ss_pred             HHhcCCHHHHHHHHHHHhhCC-----CCCeEEEECCCCCCHHHHHHHHHHHHcCCCCCeEEecceeecccccccceeeee
Confidence            458899988888877762221     112289999999999999998877421 0000  0110                


Q ss_pred             ----eEEEEeCCCC-CHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCC
Q 047559          245 ----KAWVCVSDDF-DVLNISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAA  319 (444)
Q Consensus       245 ----~~wv~vs~~~-~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~  319 (444)
                          .+.+..+... ......+.++..+.....    ..... .+.. +.+++-+|+||++...+....+.+...+....
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~----~~~~~-~ls~-l~~~~~vlilDE~~~L~~~~~~~L~~~le~~~  162 (354)
T 1sxj_E           89 SSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQ----VDFQD-SKDG-LAHRYKCVIINEANSLTKDAQAALRRTMEKYS  162 (354)
T ss_dssp             ECSSEEEECCC----CCHHHHHHHHHHHTTTTC------------------CCEEEEEECTTSSCHHHHHHHHHHHHHST
T ss_pred             cccceEEecHhhcCCcchHHHHHHHHHHHHhcc----ccccc-cccc-cCCCCeEEEEeCccccCHHHHHHHHHHHHhhc
Confidence                0111111100 000012222222211100    00000 0000 23356799999998877666666766665545


Q ss_pred             CCcEEEEecCChH-HH-hhcCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHH
Q 047559          320 PNSKIIVTTRHAH-VA-ATMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGG  396 (444)
Q Consensus       320 ~gs~iivTTr~~~-va-~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~  396 (444)
                      .+..+|++|.... +. ........+++.+++.++....+...+...+-....   ++....|++.++|.+-.+..+..
T Consensus       163 ~~~~~Il~t~~~~~l~~~l~sR~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~---~~~l~~i~~~~~G~~r~a~~~l~  238 (354)
T 1sxj_E          163 KNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQLET---KDILKRIAQASNGNLRVSLLMLE  238 (354)
T ss_dssp             TTEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCEECC---SHHHHHHHHHHTTCHHHHHHHHT
T ss_pred             CCCEEEEEeCCHHHHHHHHHhhceEEecCCcCHHHHHHHHHHHHHHcCCCCCc---HHHHHHHHHHcCCCHHHHHHHHH
Confidence            5677888776532 11 112233678999999999999988765322111110   12346688899999876655543

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.55  E-value=5.7e-07  Score=90.55  Aligned_cols=194  Identities=13%  Similarity=0.062  Sum_probs=106.5

Q ss_pred             CcccccchhHHHHHHHHhcCC-----------CCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCC
Q 047559          184 RAVFGRQQDKAKMLEMVLTDT-----------SSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSD  252 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~-----------~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~  252 (444)
                      ..++|++..++.+.+++....           ....+..+.+.|+|++|+||||+|+.+++..     .+ ..+.++++.
T Consensus        39 ~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l-----~~-~~i~in~s~  112 (516)
T 1sxj_A           39 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQEL-----GY-DILEQNASD  112 (516)
T ss_dssp             GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHT-----TC-EEEEECTTS
T ss_pred             HHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHc-----CC-CEEEEeCCC
Confidence            469999999999999986510           0000234689999999999999999998864     11 234455554


Q ss_pred             CCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHH--HhCCceEEEEEeCCCCCChh---cHHHhhcccCCCCCCcEEEEe
Q 047559          253 DFDVLNISRALLESITFASCDLKALNEVQVQIKR--AVDGKKLLLVLDDVWNEDYC---LWEDLKAPFLAAAPNSKIIVT  327 (444)
Q Consensus       253 ~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~--~l~~kr~LlVlDdv~~~~~~---~~~~l~~~l~~~~~gs~iivT  327 (444)
                      .... .++...+........    ..........  ...+++.+|+||+++.....   .+..+...+..  .+..||++
T Consensus       113 ~~~~-~~~~~~i~~~~~~~~----~~~~~~~~~~~~~~~~~~~vliIDEid~l~~~~~~~l~~L~~~l~~--~~~~iIli  185 (516)
T 1sxj_A          113 VRSK-TLLNAGVKNALDNMS----VVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRK--TSTPLILI  185 (516)
T ss_dssp             CCCH-HHHHHTGGGGTTBCC----STTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHH--CSSCEEEE
T ss_pred             cchH-HHHHHHHHHHhcccc----HHHHHhhhhhhhhccCCCeEEEEECCCccchhhHHHHHHHHHHHHh--cCCCEEEE
Confidence            3332 223322222211110    0000000000  12356889999999765322   22444443332  23345555


Q ss_pred             cCChH---HHhhcCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChH-HHHHH
Q 047559          328 TRHAH---VAATMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPL-AAKTL  394 (444)
Q Consensus       328 Tr~~~---va~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl-ai~~~  394 (444)
                      +....   +.........+.+.+++.++..+++...+....-...+.    ....|++.++|.+- ++..+
T Consensus       186 ~~~~~~~~l~~l~~r~~~i~f~~~~~~~~~~~L~~i~~~~~~~i~~~----~l~~la~~s~GdiR~~i~~L  252 (516)
T 1sxj_A          186 CNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLDPN----VIDRLIQTTRGDIRQVINLL  252 (516)
T ss_dssp             ESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCCTT----HHHHHHHHTTTCHHHHHHHH
T ss_pred             EcCCCCccchhhHhceEEEEeCCCCHHHHHHHHHHHHHHcCCCCCHH----HHHHHHHHcCCcHHHHHHHH
Confidence            54322   222222234688999999999998877654322222222    23568888999554 44443

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=98.54  E-value=1.9e-06  Score=79.21  Aligned_cols=195  Identities=14%  Similarity=0.158  Sum_probs=99.7

Q ss_pred             cccccchhHHHHHH-------HHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHH
Q 047559          185 AVFGRQQDKAKMLE-------MVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVL  257 (444)
Q Consensus       185 ~~vGr~~~~~~l~~-------~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~  257 (444)
                      .++|....+++++.       .+.....   .....+.|+|++|+|||+||+.+++..     .... +.++.+...   
T Consensus        34 ~~i~~~~~~~~i~~~~~~l~~~l~~~~~---~~~~~vLl~G~~GtGKT~la~~ia~~~-----~~~~-~~i~~~~~~---  101 (272)
T 1d2n_A           34 GIIKWGDPVTRVLDDGELLVQQTKNSDR---TPLVSVLLEGPPHSGKTALAAKIAEES-----NFPF-IKICSPDKM---  101 (272)
T ss_dssp             CCCCCSHHHHHHHHHHHHHHHHHHHCSS---CSEEEEEEECSTTSSHHHHHHHHHHHH-----TCSE-EEEECGGGC---
T ss_pred             CCCCccHHHHHHHHHHHHHHHHHhccCC---CCCeEEEEECCCCCcHHHHHHHHHHHh-----CCCE-EEEeCHHHh---
Confidence            46777776666655       3322111   445789999999999999999998863     1111 222222210   


Q ss_pred             HHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCC----------ChhcHHHhhcccCC---CCCCcEE
Q 047559          258 NISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNE----------DYCLWEDLKAPFLA---AAPNSKI  324 (444)
Q Consensus       258 ~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~----------~~~~~~~l~~~l~~---~~~gs~i  324 (444)
                                .. .........+...+......+..+|+|||++..          .....+.+...+..   ......|
T Consensus       102 ----------~g-~~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~i  170 (272)
T 1d2n_A          102 ----------IG-FSETAKCQAMKKIFDDAYKSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLLI  170 (272)
T ss_dssp             ----------TT-CCHHHHHHHHHHHHHHHHTSSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEEEE
T ss_pred             ----------cC-CchHHHHHHHHHHHHHHHhcCCcEEEEEChhhhhccCCCChhHHHHHHHHHHHHhcCccCCCCCEEE
Confidence                      00 000001112222333334567889999998542          11112233332221   2234456


Q ss_pred             EEecCChHHHhh---cCC-CCcccCCCCCh-HhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCC------ChHHHHH
Q 047559          325 IVTTRHAHVAAT---MEP-IQQYNLQCLSD-EDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGG------LPLAAKT  393 (444)
Q Consensus       325 ivTTr~~~va~~---~~~-~~~~~l~~L~~-~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G------~Plai~~  393 (444)
                      |.||........   .+. ...+.+.+++. ++...++.+..    . ..    ......|++.+.|      ++-++..
T Consensus       171 i~ttn~~~~l~~~~l~~rf~~~i~~p~l~~r~~i~~i~~~~~----~-~~----~~~~~~l~~~~~g~~~~g~ir~l~~~  241 (272)
T 1d2n_A          171 IGTTSRKDVLQEMEMLNAFSTTIHVPNIATGEQLLEALELLG----N-FK----DKERTTIAQQVKGKKVWIGIKKLLML  241 (272)
T ss_dssp             EEEESCHHHHHHTTCTTTSSEEEECCCEEEHHHHHHHHHHHT----C-SC----HHHHHHHHHHHTTSEEEECHHHHHHH
T ss_pred             EEecCChhhcchhhhhcccceEEcCCCccHHHHHHHHHHhcC----C-CC----HHHHHHHHHHhcCCCccccHHHHHHH
Confidence            777777654332   122 24578888887 66666665431    1 11    2234567888877      3343333


Q ss_pred             HHHHhcCCCHHHHHHHHh
Q 047559          394 LGGLLRSKRHDEWDEILN  411 (444)
Q Consensus       394 ~~~~L~~~~~~~w~~~l~  411 (444)
                      +-..........+..++.
T Consensus       242 l~~a~~~~~~~~~~~~~~  259 (272)
T 1d2n_A          242 IEMSLQMDPEYRVRKFLA  259 (272)
T ss_dssp             HHHHTTSCGGGHHHHHHH
T ss_pred             HHHHhhhchHHHHHHHHH
Confidence            333222224455555544

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=98.54  E-value=1.7e-06  Score=78.82  Aligned_cols=189  Identities=15%  Similarity=0.143  Sum_probs=97.4

Q ss_pred             CcccccchhHHHHHHHH---hcCCC---CCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHH
Q 047559          184 RAVFGRQQDKAKMLEMV---LTDTS---SDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVL  257 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L---~~~~~---~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~  257 (444)
                      ..++|.+..++.+.+++   .....   .+....+.+.|+|++|+|||++|+.+++....   .   .+.++++.-.+  
T Consensus         6 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~~~---~---~~~~~~~~~~~--   77 (262)
T 2qz4_A            6 KDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQV---P---FLAMAGAEFVE--   77 (262)
T ss_dssp             TSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHHTC---C---EEEEETTTTSS--
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHhCC---C---EEEechHHHHh--
Confidence            35889888777775543   22111   00022356889999999999999999886321   1   23344333111  


Q ss_pred             HHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCC------------hhc---HHHhhcccCC--CCC
Q 047559          258 NISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNED------------YCL---WEDLKAPFLA--AAP  320 (444)
Q Consensus       258 ~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~------------~~~---~~~l~~~l~~--~~~  320 (444)
                                   .........+...+.......+.+|+|||++...            ...   ...+...+..  ...
T Consensus        78 -------------~~~~~~~~~~~~~~~~a~~~~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~  144 (262)
T 2qz4_A           78 -------------VIGGLGAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGTTD  144 (262)
T ss_dssp             -------------SSTTHHHHHHHHHHHHHHHTCSEEEEEECC-------------------CHHHHHHHHHHHTCCTTC
T ss_pred             -------------hccChhHHHHHHHHHHHHhcCCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCcCCCC
Confidence                         0000111112222333334557899999997641            111   1222222221  233


Q ss_pred             CcEEEEecCChHHH--hhcC--CC-CcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChH-HHHHH
Q 047559          321 NSKIIVTTRHAHVA--ATME--PI-QQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPL-AAKTL  394 (444)
Q Consensus       321 gs~iivTTr~~~va--~~~~--~~-~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl-ai~~~  394 (444)
                      +..||.||......  ....  .. ..+.+...+.++-.+++.+.+.... ...  ........+++.+.|.+- .+..+
T Consensus       145 ~~~vi~~tn~~~~ld~~l~~~~R~~~~i~i~~p~~~~r~~il~~~~~~~~-~~~--~~~~~~~~l~~~~~g~~~~~l~~l  221 (262)
T 2qz4_A          145 HVIVLASTNRADILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLKSLK-LTQ--SSTFYSQRLAELTPGFSGADIANI  221 (262)
T ss_dssp             CEEEEEEESCGGGGGSGGGSTTSCCEEEECCSCCHHHHHHHHHHHHHHTT-CCB--THHHHHHHHHHTCTTCCHHHHHHH
T ss_pred             CEEEEecCCChhhcCHHHhcCCcCCeEEEeCCcCHHHHHHHHHHHHHhCC-CCc--chhhHHHHHHHHCCCCCHHHHHHH
Confidence            55677777654321  1112  12 4577889999999999887663321 111  112223668888888754 45444


Q ss_pred             HH
Q 047559          395 GG  396 (444)
Q Consensus       395 ~~  396 (444)
                      ..
T Consensus       222 ~~  223 (262)
T 2qz4_A          222 CN  223 (262)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=98.52  E-value=2.3e-06  Score=81.13  Aligned_cols=173  Identities=12%  Similarity=0.059  Sum_probs=102.9

Q ss_pred             chhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcccccc-------------------CCcceeEEEEe
Q 047559          190 QQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVED-------------------SKFDVKAWVCV  250 (444)
Q Consensus       190 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~-------------------~~f~~~~wv~v  250 (444)
                      +...+.+...+..+.     -...+.++|++|+|||++|+.+.+...-..                   .|++. .++..
T Consensus         8 ~~~~~~l~~~i~~~~-----~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d~-~~~~~   81 (334)
T 1a5t_A            8 RPDFEKLVASYQAGR-----GHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDY-YTLAP   81 (334)
T ss_dssp             HHHHHHHHHHHHTTC-----CCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTE-EEECC
T ss_pred             HHHHHHHHHHHHcCC-----cceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCCE-EEEec
Confidence            344566666665432     225799999999999999999876532110                   01221 22222


Q ss_pred             C---CCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEe
Q 047559          251 S---DDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVT  327 (444)
Q Consensus       251 s---~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivT  327 (444)
                      .   ....+. ..+.+.+.+....                ..+++-++|+|+++..+....+.+...+.....++.+|++
T Consensus        82 ~~~~~~~~i~-~ir~l~~~~~~~~----------------~~~~~kvviIdead~l~~~a~naLLk~lEep~~~~~~Il~  144 (334)
T 1a5t_A           82 EKGKNTLGVD-AVREVTEKLNEHA----------------RLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLA  144 (334)
T ss_dssp             CTTCSSBCHH-HHHHHHHHTTSCC----------------TTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEE
T ss_pred             cccCCCCCHH-HHHHHHHHHhhcc----------------ccCCcEEEEECchhhcCHHHHHHHHHHhcCCCCCeEEEEE
Confidence            1   111111 1122222221110                1256779999999887766677777777665667777777


Q ss_pred             cCChH-HH-hhcCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHH
Q 047559          328 TRHAH-VA-ATMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTL  394 (444)
Q Consensus       328 Tr~~~-va-~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~  394 (444)
                      |.+.. +. ...+....+.+.+++.++..+.+.+..     ...    .+....+++.++|.|..+..+
T Consensus       145 t~~~~~l~~ti~SRc~~~~~~~~~~~~~~~~L~~~~-----~~~----~~~~~~l~~~s~G~~r~a~~~  204 (334)
T 1a5t_A          145 TREPERLLATLRSRCRLHYLAPPPEQYAVTWLSREV-----TMS----QDALLAALRLSAGSPGAALAL  204 (334)
T ss_dssp             ESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHC-----CCC----HHHHHHHHHHTTTCHHHHHHT
T ss_pred             eCChHhCcHHHhhcceeeeCCCCCHHHHHHHHHHhc-----CCC----HHHHHHHHHHcCCCHHHHHHH
Confidence            76543 21 222333578999999999999887764     111    123356888999999766543

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=98.51  E-value=6.6e-07  Score=83.82  Aligned_cols=161  Identities=16%  Similarity=0.094  Sum_probs=90.1

Q ss_pred             cccccchhHHHHHHHHhcCC---------CCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCC
Q 047559          185 AVFGRQQDKAKMLEMVLTDT---------SSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFD  255 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~---------~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~  255 (444)
                      .++|.+..++.+.+.+....         -........+.|+|++|+|||+||+.+++...... .....-++.++..  
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~-~~~~~~~~~~~~~--  108 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLG-YVRKGHLVSVTRD--  108 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHHTT-SSSSCCEEEECGG--
T ss_pred             HccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHhcC-CcCCCcEEEEcHH--
Confidence            47888888877776543210         00013345799999999999999998877643222 2211223333311  


Q ss_pred             HHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCC---------ChhcHHHhhcccCCCCCCcEEEE
Q 047559          256 VLNISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNE---------DYCLWEDLKAPFLAAAPNSKIIV  326 (444)
Q Consensus       256 ~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~---------~~~~~~~l~~~l~~~~~gs~iiv  326 (444)
                                .+... ............+...   +..+|+||+++..         .......+...+.....+..||+
T Consensus       109 ----------~l~~~-~~g~~~~~~~~~~~~~---~~~vl~iDEid~l~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~~i~  174 (309)
T 3syl_A          109 ----------DLVGQ-YIGHTAPKTKEVLKRA---MGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENNRDDLVVIL  174 (309)
T ss_dssp             ----------GTCCS-STTCHHHHHHHHHHHH---TTSEEEEETGGGSCCCC---CCTHHHHHHHHHHHHHCTTTCEEEE
T ss_pred             ----------Hhhhh-cccccHHHHHHHHHhc---CCCEEEEEChhhhccCCCcccccHHHHHHHHHHHhcCCCCEEEEE
Confidence                      01000 0001111112222222   3459999999743         33444556666655556778888


Q ss_pred             ecCChHHHhh--cCC------CCcccCCCCChHhHHHHHHHhhc
Q 047559          327 TTRHAHVAAT--MEP------IQQYNLQCLSDEDCWSLFMMHAF  362 (444)
Q Consensus       327 TTr~~~va~~--~~~------~~~~~l~~L~~~~~~~lf~~~~~  362 (444)
                      ||........  ..+      ...+.+.+++.++...++...+.
T Consensus       175 ~~~~~~~~~~~~~~~~l~~R~~~~i~~~~~~~~~~~~il~~~l~  218 (309)
T 3syl_A          175 AGYADRMENFFQSNPGFRSRIAHHIEFPDYSDEELFEIAGHMLD  218 (309)
T ss_dssp             EECHHHHHHHHHHSTTHHHHEEEEEEECCCCHHHHHHHHHHHHH
T ss_pred             eCChHHHHHHHhhCHHHHHhCCeEEEcCCcCHHHHHHHHHHHHH
Confidence            8865432111  111      15688999999999999987764

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=98.39  E-value=1e-06  Score=75.55  Aligned_cols=46  Identities=22%  Similarity=0.337  Sum_probs=38.4

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..++||+.++..+.+.+....      ...+.|+|++|+|||+||+.+++..
T Consensus        22 ~~~~g~~~~~~~l~~~l~~~~------~~~vll~G~~G~GKT~la~~~~~~~   67 (187)
T 2p65_A           22 DPVIGRDTEIRRAIQILSRRT------KNNPILLGDPGVGKTAIVEGLAIKI   67 (187)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSS------SCEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             chhhcchHHHHHHHHHHhCCC------CCceEEECCCCCCHHHHHHHHHHHH
Confidence            358999999999999986532      2567899999999999999998764

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C

Probab=98.38  E-value=1.1e-05  Score=76.01  Aligned_cols=184  Identities=13%  Similarity=0.084  Sum_probs=100.5

Q ss_pred             CcccccchhHHHHHHHHhcC---C---CCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTD---T---SSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVL  257 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~---~---~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~  257 (444)
                      ..++|.+..++.|.+.+...   .   .......+.+.|+|++|+|||+||+.+++...  . .   .+.++.+      
T Consensus        18 ~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~--~-~---~~~v~~~------   85 (322)
T 3eie_A           18 EDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEAN--S-T---FFSVSSS------   85 (322)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHHHT--C-E---EEEEEHH------
T ss_pred             HHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHHC--C-C---EEEEchH------
Confidence            46899999999988876210   0   00112346799999999999999999988632  1 1   1223321      


Q ss_pred             HHHHHHHHHhccCCCCcccHHHHHHHHH-HHhCCceEEEEEeCCCCCChh-----------cHHHhhcccC---CCCCCc
Q 047559          258 NISRALLESITFASCDLKALNEVQVQIK-RAVDGKKLLLVLDDVWNEDYC-----------LWEDLKAPFL---AAAPNS  322 (444)
Q Consensus       258 ~~~~~il~~l~~~~~~~~~~~~~~~~l~-~~l~~kr~LlVlDdv~~~~~~-----------~~~~l~~~l~---~~~~gs  322 (444)
                      ++    .....      .........+. ..-..++.+|+||+++.....           ....+...+.   ....+.
T Consensus        86 ~l----~~~~~------g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~v  155 (322)
T 3eie_A           86 DL----VSKWM------GESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQGV  155 (322)
T ss_dssp             HH----HTTTG------GGHHHHHHHHHHHHHHTSSEEEEEECGGGGSCC------CCTHHHHHHHHHHHGGGGTSCCCE
T ss_pred             HH----hhccc------chHHHHHHHHHHHHHhcCCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhccccccCCce
Confidence            11    11000      11112222222 222456789999999753210           1222322222   234456


Q ss_pred             EEEEecCChH-----HHhhcCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCC-hHHHHHHH
Q 047559          323 KIIVTTRHAH-----VAATMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGL-PLAAKTLG  395 (444)
Q Consensus       323 ~iivTTr~~~-----va~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~-Plai~~~~  395 (444)
                      .||.||....     +...  -...+.+...+.++-.++|...+........+.    ....|++.+.|. +-.|..+.
T Consensus       156 ~vi~atn~~~~ld~al~~R--f~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~----~l~~la~~t~g~sg~di~~l~  228 (322)
T 3eie_A          156 LVLGATNIPWQLDSAIRRR--FERRIYIPLPDLAARTTMFEINVGDTPCVLTKE----DYRTLGAMTEGYSGSDIAVVV  228 (322)
T ss_dssp             EEEEEESCGGGSCHHHHHH--CCEEEECCCCCHHHHHHHHHHHHTTCCCCCCHH----HHHHHHHTTTTCCHHHHHHHH
T ss_pred             EEEEecCChhhCCHHHHcc--cCeEEEeCCCCHHHHHHHHHHHhccCCCCCCHH----HHHHHHHHcCCCCHHHHHHHH
Confidence            6666776532     2221  124577888899999999988763321111222    235688888874 54555444

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=98.38  E-value=7.8e-06  Score=78.09  Aligned_cols=185  Identities=13%  Similarity=0.066  Sum_probs=98.2

Q ss_pred             CcccccchhHHHHHHHHhcC---C---CCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTD---T---SSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVL  257 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~---~---~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~  257 (444)
                      ..++|.+..++.|.+.+...   .   .......+-|.|+|++|+|||+||+.+++....   .   .+.++.+      
T Consensus        51 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~---~---~~~v~~~------  118 (355)
T 2qp9_X           51 EDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANS---T---FFSVSSS------  118 (355)
T ss_dssp             GGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHHTC---E---EEEEEHH------
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCC---C---EEEeeHH------
Confidence            45899999998888876311   0   000022356889999999999999999986421   1   1223221      


Q ss_pred             HHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChh-----------cHHHhhcccC---CCCCCcE
Q 047559          258 NISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYC-----------LWEDLKAPFL---AAAPNSK  323 (444)
Q Consensus       258 ~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~-----------~~~~l~~~l~---~~~~gs~  323 (444)
                      ++.    ....     ......+...+...-..++.+|+||+++.....           ....+...+.   ....+..
T Consensus       119 ~l~----~~~~-----g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~  189 (355)
T 2qp9_X          119 DLV----SKWM-----GESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQGVL  189 (355)
T ss_dssp             HHH----SCC--------CHHHHHHHHHHHHHTSSEEEEEECGGGGTC------CTHHHHHHHHHHHHHHHCC---CCEE
T ss_pred             HHh----hhhc-----chHHHHHHHHHHHHHHcCCeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhhcccccCCCeE
Confidence            111    1000     011111111222222457889999999764211           0222222221   1234556


Q ss_pred             EEEecCChH-----HHhhcCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCC-hHHHHHHH
Q 047559          324 IIVTTRHAH-----VAATMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGL-PLAAKTLG  395 (444)
Q Consensus       324 iivTTr~~~-----va~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~-Plai~~~~  395 (444)
                      ||.||....     +..  .-...+.+...+.++-.++|...+........    ......|++.+.|. |-.|..+.
T Consensus       190 vI~atn~~~~ld~al~r--Rf~~~i~i~~P~~~~r~~il~~~l~~~~~~~~----~~~l~~la~~t~G~sg~dl~~l~  261 (355)
T 2qp9_X          190 VLGATNIPWQLDSAIRR--RFERRIYIPLPDLAARTTMFEINVGDTPSVLT----KEDYRTLGAMTEGYSGSDIAVVV  261 (355)
T ss_dssp             EEEEESCGGGSCHHHHH--TCCEEEECCCCCHHHHHHHHHHHHTTSCBCCC----HHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             EEeecCCcccCCHHHHc--ccCEEEEeCCcCHHHHHHHHHHHHhhCCCCCC----HHHHHHHHHHcCCCCHHHHHHHH
Confidence            666776542     222  22245778888999999998877633211111    22235688889884 44454443

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.38  E-value=3.9e-06  Score=79.72  Aligned_cols=183  Identities=15%  Similarity=0.147  Sum_probs=104.4

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcc-eeEEEEeCCCCCHHHHHHHH
Q 047559          185 AVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFD-VKAWVCVSDDFDVLNISRAL  263 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~-~~~wv~vs~~~~~~~~~~~i  263 (444)
                      .++|.+..++.+...+..+.      +..+.++|++|+||||+|+.+.....-.  .+. ...-++.+.......+ +..
T Consensus        26 ~~~g~~~~~~~L~~~i~~g~------~~~~ll~Gp~G~GKTtla~~la~~l~~~--~~~~~~~~~~~~~~~~~~~i-r~~   96 (340)
T 1sxj_C           26 EVYGQNEVITTVRKFVDEGK------LPHLLFYGPPGTGKTSTIVALAREIYGK--NYSNMVLELNASDDRGIDVV-RNQ   96 (340)
T ss_dssp             GCCSCHHHHHHHHHHHHTTC------CCCEEEECSSSSSHHHHHHHHHHHHHTT--SHHHHEEEECTTSCCSHHHH-HTH
T ss_pred             HhcCcHHHHHHHHHHHhcCC------CceEEEECCCCCCHHHHHHHHHHHHcCC--CccceEEEEcCcccccHHHH-HHH
Confidence            47898888888888776432      2238999999999999999998763211  111 1122222222121111 111


Q ss_pred             HHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCChH-HH-hhcCCCC
Q 047559          264 LESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAH-VA-ATMEPIQ  341 (444)
Q Consensus       264 l~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~~-va-~~~~~~~  341 (444)
                      +..+....              ..+.+.+-++|+|+++.......+.+...+......+.+|++|.... +. ...+...
T Consensus        97 i~~~~~~~--------------~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~n~~~~i~~~i~sR~~  162 (340)
T 1sxj_C           97 IKDFASTR--------------QIFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCT  162 (340)
T ss_dssp             HHHHHHBC--------------CSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSE
T ss_pred             HHHHHhhc--------------ccCCCCceEEEEeCCCCCCHHHHHHHHHHHhcCCCCeEEEEEecCccccchhHHhhce
Confidence            11111000              00123467899999977665666667666655555677777775432 11 1112234


Q ss_pred             cccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHH
Q 047559          342 QYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTL  394 (444)
Q Consensus       342 ~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~  394 (444)
                      .+.+.+++.++..+.+.+.+-... ..-   .+...+.|++.++|.+--+..+
T Consensus       163 ~~~~~~l~~~~~~~~l~~~~~~~~-~~i---~~~~~~~i~~~s~G~~r~~~~~  211 (340)
T 1sxj_C          163 RFRFQPLPQEAIERRIANVLVHEK-LKL---SPNAEKALIELSNGDMRRVLNV  211 (340)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHTTT-CCB---CHHHHHHHHHHHTTCHHHHHHH
T ss_pred             eEeccCCCHHHHHHHHHHHHHHcC-CCC---CHHHHHHHHHHcCCCHHHHHHH
Confidence            678999999998888876552211 111   1233466888889988754433

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=98.37  E-value=8.5e-06  Score=76.81  Aligned_cols=155  Identities=15%  Similarity=0.092  Sum_probs=86.4

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCC
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDG  290 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~  290 (444)
                      ...+.|+|++|+||||||+.+++.....+   ...+++++      .++...+...+...     ....    +...+. 
T Consensus        37 ~~~lll~G~~GtGKT~la~~i~~~~~~~~---~~~~~i~~------~~~~~~~~~~~~~~-----~~~~----~~~~~~-   97 (324)
T 1l8q_A           37 YNPIFIYGSVGTGKTHLLQAAGNEAKKRG---YRVIYSSA------DDFAQAMVEHLKKG-----TINE----FRNMYK-   97 (324)
T ss_dssp             CSSEEEECSSSSSHHHHHHHHHHHHHHTT---CCEEEEEH------HHHHHHHHHHHHHT-----CHHH----HHHHHH-
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHHHCC---CEEEEEEH------HHHHHHHHHHHHcC-----cHHH----HHHHhc-
Confidence            35789999999999999999998642211   12344443      23333443333211     1111    122222 


Q ss_pred             ceEEEEEeCCCCCCh--hcHHHhhcccCC-CCCCcEEEEecCCh---------HHHhhcCCCCcccCCCCChHhHHHHHH
Q 047559          291 KKLLLVLDDVWNEDY--CLWEDLKAPFLA-AAPNSKIIVTTRHA---------HVAATMEPIQQYNLQCLSDEDCWSLFM  358 (444)
Q Consensus       291 kr~LlVlDdv~~~~~--~~~~~l~~~l~~-~~~gs~iivTTr~~---------~va~~~~~~~~~~l~~L~~~~~~~lf~  358 (444)
                      +.-+|+|||++....  ...+.+...+.. ...|..||+||...         .+...+....++.+.+ +.++..+++.
T Consensus        98 ~~~vL~iDEi~~l~~~~~~~~~l~~~l~~~~~~~~~iii~~~~~~~~l~~l~~~L~sR~~~~~~i~l~~-~~~e~~~il~  176 (324)
T 1l8q_A           98 SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEGGILVEIEL-DNKTRFKIIK  176 (324)
T ss_dssp             TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHTSEEEECCC-CHHHHHHHHH
T ss_pred             CCCEEEEcCcccccCChHHHHHHHHHHHHHHHCCCeEEEEecCChHHHHHhhhHhhhcccCceEEEeCC-CHHHHHHHHH
Confidence            366999999976532  122333333321 13456788877632         2222332335688999 9999999998


Q ss_pred             HhhccCCCCCccchHHHHHHHHHHHcCCChHH
Q 047559          359 MHAFVGQDITAQQISDLFREKVVGKCGGLPLA  390 (444)
Q Consensus       359 ~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pla  390 (444)
                      ..+....-...    ++....|++.+ |.+-.
T Consensus       177 ~~~~~~~~~l~----~~~l~~l~~~~-g~~r~  203 (324)
T 1l8q_A          177 EKLKEFNLELR----KEVIDYLLENT-KNVRE  203 (324)
T ss_dssp             HHHHHTTCCCC----HHHHHHHHHHC-SSHHH
T ss_pred             HHHHhcCCCCC----HHHHHHHHHhC-CCHHH
Confidence            87643221111    23345677777 76543

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=98.36  E-value=3.4e-05  Score=71.66  Aligned_cols=184  Identities=13%  Similarity=0.061  Sum_probs=97.5

Q ss_pred             CcccccchhHHHHHHHHhcCCC------CCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTS------SDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVL  257 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~------~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~  257 (444)
                      ..++|.+..++.+.+.+.....      .-....+.+.|+|++|+|||+||+.+++...      ...+.++++.-..  
T Consensus        21 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~~------~~~~~i~~~~l~~--   92 (297)
T 3b9p_A           21 TDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATECS------ATFLNISAASLTS--   92 (297)
T ss_dssp             GGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHTT------CEEEEEESTTTSS--
T ss_pred             HHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHhC------CCeEEeeHHHHhh--
Confidence            4689999999998887633100      0001236789999999999999999987632      1223344333111  


Q ss_pred             HHHHHHHHHhccCCCCcccHHHHHHH-HHHHhCCceEEEEEeCCCCCChh-----------cHHHhhccc---CCC--CC
Q 047559          258 NISRALLESITFASCDLKALNEVQVQ-IKRAVDGKKLLLVLDDVWNEDYC-----------LWEDLKAPF---LAA--AP  320 (444)
Q Consensus       258 ~~~~~il~~l~~~~~~~~~~~~~~~~-l~~~l~~kr~LlVlDdv~~~~~~-----------~~~~l~~~l---~~~--~~  320 (444)
                                  . .. ......... +......++.+|+||+++.....           ....+...+   +..  ..
T Consensus        93 ------------~-~~-~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~  158 (297)
T 3b9p_A           93 ------------K-YV-GDGEKLVRALFAVARHMQPSIIFIDEVDSLLSERSSSEHEASRRLKTEFLVEFDGLPGNPDGD  158 (297)
T ss_dssp             ------------S-SC-SCHHHHHHHHHHHHHHTCSEEEEEETGGGTSBCC-----CCSHHHHHHHHHHHHHCC------
T ss_pred             ------------c-cc-chHHHHHHHHHHHHHHcCCcEEEeccHHHhccccccCcchHHHHHHHHHHHHHhcccccCCCC
Confidence                        0 00 011111222 22222456789999999653110           011122211   111  23


Q ss_pred             CcEEEEecCChH-----HHhhcCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChH-HHHHH
Q 047559          321 NSKIIVTTRHAH-----VAATMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPL-AAKTL  394 (444)
Q Consensus       321 gs~iivTTr~~~-----va~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl-ai~~~  394 (444)
                      +..||.||....     +...+  ...+.+...+.++...++...+........    ......|++.+.|.+- .+..+
T Consensus       159 ~v~vi~~tn~~~~l~~~l~~R~--~~~i~~~~p~~~~r~~il~~~~~~~~~~~~----~~~~~~la~~~~g~~~~~l~~l  232 (297)
T 3b9p_A          159 RIVVLAATNRPQELDEAALRRF--TKRVYVSLPDEQTRELLLNRLLQKQGSPLD----TEALRRLAKITDGYSGSDLTAL  232 (297)
T ss_dssp             CEEEEEEESCGGGBCHHHHHHC--CEEEECCCCCHHHHHHHHHHHHGGGSCCSC----HHHHHHHHHHTTTCCHHHHHHH
T ss_pred             cEEEEeecCChhhCCHHHHhhC--CeEEEeCCcCHHHHHHHHHHHHHhcCCCCC----HHHHHHHHHHcCCCCHHHHHHH
Confidence            456666776532     22222  245667777888888887766532211111    2234568888999875 55444


Q ss_pred             H
Q 047559          395 G  395 (444)
Q Consensus       395 ~  395 (444)
                      .
T Consensus       233 ~  233 (297)
T 3b9p_A          233 A  233 (297)
T ss_dssp             H
T ss_pred             H
Confidence            3

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens}

Probab=98.35  E-value=1.9e-05  Score=75.43  Aligned_cols=187  Identities=11%  Similarity=0.042  Sum_probs=100.3

Q ss_pred             CcccccchhHHHHHHHHhcC---CC---CCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTD---TS---SDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVL  257 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~---~~---~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~  257 (444)
                      ..++|.+..++.|.+.+...   ..   ......+.+.|+|++|+|||+||+.+++...      ...+.++++.-... 
T Consensus        84 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~------~~~~~i~~~~l~~~-  156 (357)
T 3d8b_A           84 EDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQSG------ATFFSISASSLTSK-  156 (357)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHHHTT------CEEEEEEGGGGCCS-
T ss_pred             HHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHHHcC------CeEEEEehHHhhcc-
Confidence            45899999999888876420   00   0002336799999999999999999987631      12234444321110 


Q ss_pred             HHHHHHHHHhccCCCCcccHHHHHHHH-HHHhCCceEEEEEeCCCCCCh-----------hcHHHhhcccCC----CCCC
Q 047559          258 NISRALLESITFASCDLKALNEVQVQI-KRAVDGKKLLLVLDDVWNEDY-----------CLWEDLKAPFLA----AAPN  321 (444)
Q Consensus       258 ~~~~~il~~l~~~~~~~~~~~~~~~~l-~~~l~~kr~LlVlDdv~~~~~-----------~~~~~l~~~l~~----~~~g  321 (444)
                                    .. .........+ ...-..++.+|+||+++....           .....+...+..    ...+
T Consensus       157 --------------~~-g~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~~~  221 (357)
T 3d8b_A          157 --------------WV-GEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQRGDGEHESSRRIKTEFLVQLDGATTSSEDR  221 (357)
T ss_dssp             --------------ST-THHHHHHHHHHHHHHHTCSEEEEEETHHHHTBC------CHHHHHHHHHHHHHHC----CCCC
T ss_pred             --------------cc-chHHHHHHHHHHHHHhcCCeEEEEeCchhhhccCCCCcchHHHHHHHHHHHHHhcccccCCCC
Confidence                          00 0011111122 222235678999999954210           112233333221    1234


Q ss_pred             cEEEEecCChH-HH-hhcCCC-CcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCC-ChHHHHHHHH
Q 047559          322 SKIIVTTRHAH-VA-ATMEPI-QQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGG-LPLAAKTLGG  396 (444)
Q Consensus       322 s~iivTTr~~~-va-~~~~~~-~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G-~Plai~~~~~  396 (444)
                      ..||.||.... +. ...... ..+.+...+.++..+++...+........    ......|++.+.| .|-.+..+..
T Consensus       222 v~vI~atn~~~~l~~~l~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~l~----~~~l~~la~~t~G~s~~dl~~l~~  296 (357)
T 3d8b_A          222 ILVVGATNRPQEIDEAARRRLVKRLYIPLPEASARKQIVINLMSKEQCCLS----EEEIEQIVQQSDAFSGADMTQLCR  296 (357)
T ss_dssp             EEEEEEESCGGGBCHHHHTTCCEEEECCCCCHHHHHHHHHHHHHTSCBCCC----HHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             EEEEEecCChhhCCHHHHhhCceEEEeCCcCHHHHHHHHHHHHhhcCCCcc----HHHHHHHHHHcCCCCHHHHHHHHH
Confidence            55666665432 11 111122 35778888999988888776532211111    2334668888888 5556665544

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=98.34  E-value=5.6e-07  Score=74.31  Aligned_cols=115  Identities=14%  Similarity=-0.047  Sum_probs=70.4

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHH
Q 047559          185 AVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALL  264 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il  264 (444)
                      .++|+...+.++.+.+..-...    -.-|.|+|++|+|||++|+.+++.....+  . ..+ ++++...+.        
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~~----~~~vll~G~~GtGKt~lA~~i~~~~~~~~--~-~~v-~~~~~~~~~--------   65 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSET----DIAVWLYGAPGTGRMTGARYLHQFGRNAQ--G-EFV-YRELTPDNA--------   65 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTTC----CSCEEEESSTTSSHHHHHHHHHHSSTTTT--S-CCE-EEECCTTTS--------
T ss_pred             CceeCCHHHHHHHHHHHHHhCC----CCCEEEECCCCCCHHHHHHHHHHhCCccC--C-CEE-EECCCCCcc--------
Confidence            4789999999998877542211    13578999999999999999987642222  1 123 555543221        


Q ss_pred             HHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCCh
Q 047559          265 ESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHA  331 (444)
Q Consensus       265 ~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~  331 (444)
                                ....   ..+..   ...-.|+||+++.........+...+.......++|.||...
T Consensus        66 ----------~~~~---~~~~~---a~~g~l~ldei~~l~~~~q~~Ll~~l~~~~~~~~~I~~t~~~  116 (145)
T 3n70_A           66 ----------PQLN---DFIAL---AQGGTLVLSHPEHLTREQQYHLVQLQSQEHRPFRLIGIGDTS  116 (145)
T ss_dssp             ----------SCHH---HHHHH---HTTSCEEEECGGGSCHHHHHHHHHHHHSSSCSSCEEEEESSC
T ss_pred             ----------hhhh---cHHHH---cCCcEEEEcChHHCCHHHHHHHHHHHhhcCCCEEEEEECCcC
Confidence                      0111   11111   123478999998877666666666665445566788887743

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=98.34  E-value=4e-05  Score=72.08  Aligned_cols=187  Identities=13%  Similarity=0.079  Sum_probs=99.2

Q ss_pred             CcccccchhHHHHHHHHhcC---C---CCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTD---T---SSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVL  257 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~---~---~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~  257 (444)
                      .+++|.+..++.|.+.+...   .   .......+.+.|+|++|+|||+||+.+++...  .   ...+.++.+.-..  
T Consensus        12 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~--~---~~~~~i~~~~l~~--   84 (322)
T 1xwi_A           12 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEAN--N---STFFSISSSDLVS--   84 (322)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHTT--S---CEEEEEECCSSCC--
T ss_pred             HHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHcC--C---CcEEEEEhHHHHh--
Confidence            46889988888887765310   0   00112346899999999999999999998631  1   1122333332110  


Q ss_pred             HHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCCh-------hc----HHHhhcccC---CCCCCcE
Q 047559          258 NISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDY-------CL----WEDLKAPFL---AAAPNSK  323 (444)
Q Consensus       258 ~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~-------~~----~~~l~~~l~---~~~~gs~  323 (444)
                                   .........+...+...-..++.+|+||+++....       ..    ...+...+.   ....+..
T Consensus        85 -------------~~~g~~~~~~~~lf~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~~v~  151 (322)
T 1xwi_A           85 -------------KWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDGIL  151 (322)
T ss_dssp             -------------SSCCSCHHHHHHHHHHHHHTSSEEEEEETTTGGGCCSSSCCTTHHHHHHHHHHHHHHCSSSCCTTEE
T ss_pred             -------------hhhhHHHHHHHHHHHHHHhcCCcEEEeecHHHhccccccccchHHHHHHHHHHHHHhcccccCCCEE
Confidence                         00001111111122222245678999999965310       00    112222221   1234555


Q ss_pred             EEEecCChH-----HHhhcCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCC-hHHHHHHHH
Q 047559          324 IIVTTRHAH-----VAATMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGL-PLAAKTLGG  396 (444)
Q Consensus       324 iivTTr~~~-----va~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~-Plai~~~~~  396 (444)
                      ||.||....     +..  .-...+.+...+.++-.++|...+........    ......|++.+.|. +-.|..+..
T Consensus       152 vI~atn~~~~ld~al~r--Rf~~~i~i~~P~~~~r~~il~~~l~~~~~~l~----~~~l~~la~~t~G~sgadl~~l~~  224 (322)
T 1xwi_A          152 VLGATNIPWVLDSAIRR--RFEKRIYIPLPEPHARAAMFKLHLGTTQNSLT----EADFRELGRKTDGYSGADISIIVR  224 (322)
T ss_dssp             EEEEESCTTTSCHHHHH--TCCEEEECCCCCHHHHHHHHHHHHTTCCBCCC----HHHHHHHHHTCTTCCHHHHHHHHH
T ss_pred             EEEecCCcccCCHHHHh--hcCeEEEeCCcCHHHHHHHHHHHHhcCCCCCC----HHHHHHHHHHcCCCCHHHHHHHHH
Confidence            666665432     112  22245778888999988988876532211111    22346688899887 444555543

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=98.29  E-value=1.6e-06  Score=74.37  Aligned_cols=121  Identities=18%  Similarity=0.121  Sum_probs=64.3

Q ss_pred             cchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhc
Q 047559          189 RQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESIT  268 (444)
Q Consensus       189 r~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~  268 (444)
                      ....++.+.+++..-..   ..-..+.|+|++|+|||||++.+++...... .+ .+++++      ..++...+.....
T Consensus        19 ~~~~~~~~~~~~~~~~~---~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~~-g~-~~~~~~------~~~~~~~~~~~~~   87 (180)
T 3ec2_A           19 QNRALLTIRVFVHNFNP---EEGKGLTFVGSPGVGKTHLAVATLKAIYEKK-GI-RGYFFD------TKDLIFRLKHLMD   87 (180)
T ss_dssp             HHHHHHHHHHHHHSCCG---GGCCEEEECCSSSSSHHHHHHHHHHHHHHHS-CC-CCCEEE------HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccc---cCCCEEEEECCCCCCHHHHHHHHHHHHHHHc-CC-eEEEEE------HHHHHHHHHHHhc
Confidence            33444455554433221   2236899999999999999999988753222 11 223333      4445555444433


Q ss_pred             cCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHH--HhhcccCC-CCCCcEEEEecCC
Q 047559          269 FASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWE--DLKAPFLA-AAPNSKIIVTTRH  330 (444)
Q Consensus       269 ~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~--~l~~~l~~-~~~gs~iivTTr~  330 (444)
                      .....     ....    .+. +.-+|||||++......|.  .+...+.. ...|..+|+||..
T Consensus        88 ~~~~~-----~~~~----~~~-~~~llilDE~~~~~~~~~~~~~l~~ll~~~~~~~~~ii~tsn~  142 (180)
T 3ec2_A           88 EGKDT-----KFLK----TVL-NSPVLVLDDLGSERLSDWQRELISYIITYRYNNLKSTIITTNY  142 (180)
T ss_dssp             HTCCS-----HHHH----HHH-TCSEEEEETCSSSCCCHHHHHHHHHHHHHHHHTTCEEEEECCC
T ss_pred             CchHH-----HHHH----Hhc-CCCEEEEeCCCCCcCCHHHHHHHHHHHHHHHHcCCCEEEEcCC
Confidence            22111     1111    121 4568999999743323333  23332322 1256788888873

>2gno_A DNA polymerase III, gamma subunit-related protein; structural genomics, joint center for structural genomics, J protein structure initiative; HET: DNA; 2.00A {Thermotoga maritima} SCOP: a.80.1.1 c.37.1.20

Probab=98.26  E-value=5.4e-06  Score=77.26  Aligned_cols=149  Identities=9%  Similarity=0.025  Sum_probs=94.0

Q ss_pred             ccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccc-cCCcceeEEEEeCC-CCCHHHHHHHHHH
Q 047559          188 GRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVE-DSKFDVKAWVCVSD-DFDVLNISRALLE  265 (444)
Q Consensus       188 Gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~-~~~f~~~~wv~vs~-~~~~~~~~~~il~  265 (444)
                      |.++-++.+...+..+.      .....++|++|+||||+|+.+.+..... ..+.+. .+++.+. ...+. ..+.++.
T Consensus         1 g~~~~~~~L~~~i~~~~------~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~-~~l~~~~~~~~id-~ir~li~   72 (305)
T 2gno_A            1 GAKDQLETLKRIIEKSE------GISILINGEDLSYPREVSLELPEYVEKFPPKASDV-LEIDPEGENIGID-DIRTIKD   72 (305)
T ss_dssp             ---CHHHHHHHHHHTCS------SEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTE-EEECCSSSCBCHH-HHHHHHH
T ss_pred             ChHHHHHHHHHHHHCCC------CcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCE-EEEcCCcCCCCHH-HHHHHHH
Confidence            34455666777665432      4789999999999999999998642111 113333 4454432 22222 2233444


Q ss_pred             HhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCCh-HHHhhcCCCCccc
Q 047559          266 SITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHA-HVAATMEPIQQYN  344 (444)
Q Consensus       266 ~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~-~va~~~~~~~~~~  344 (444)
                      .+....                ..+++-++|+|+++..+....+.|...+......+.+|++|.+. .+...+... .++
T Consensus        73 ~~~~~p----------------~~~~~kvviIdead~lt~~a~naLLk~LEep~~~t~fIl~t~~~~kl~~tI~SR-~~~  135 (305)
T 2gno_A           73 FLNYSP----------------ELYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSR-VFR  135 (305)
T ss_dssp             HHTSCC----------------SSSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTT-SEE
T ss_pred             HHhhcc----------------ccCCceEEEeccHHHhCHHHHHHHHHHHhCCCCCeEEEEEECChHhChHHHHce-eEe
Confidence            333211                12456789999998887777888888887666778888777554 232333333 899


Q ss_pred             CCCCChHhHHHHHHHhh
Q 047559          345 LQCLSDEDCWSLFMMHA  361 (444)
Q Consensus       345 l~~L~~~~~~~lf~~~~  361 (444)
                      +.++++++....+.+..
T Consensus       136 f~~l~~~~i~~~L~~~~  152 (305)
T 2gno_A          136 VVVNVPKEFRDLVKEKI  152 (305)
T ss_dssp             EECCCCHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHh
Confidence            99999999999887764

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=98.20  E-value=3.4e-05  Score=74.64  Aligned_cols=188  Identities=13%  Similarity=0.067  Sum_probs=97.5

Q ss_pred             CcccccchhHHHHHHHHhcCCC------CCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTS------SDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVL  257 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~------~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~  257 (444)
                      ..++|.+..++.+.+.+.....      ......+.+.|+|++|+|||+||+.+++...      ...+.++++.-..  
T Consensus       115 ~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~~~------~~~~~v~~~~l~~--  186 (389)
T 3vfd_A          115 DDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAESN------ATFFNISAASLTS--  186 (389)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHHTT------CEEEEECSCCC----
T ss_pred             HHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHhhc------CcEEEeeHHHhhc--
Confidence            4689999999999887732100      0001236899999999999999999987631      1223333332111  


Q ss_pred             HHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCC-----------hhcHHHhhcccC---C-CCCCc
Q 047559          258 NISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNED-----------YCLWEDLKAPFL---A-AAPNS  322 (444)
Q Consensus       258 ~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~-----------~~~~~~l~~~l~---~-~~~gs  322 (444)
                      ...             ......+...+...-...+.+|+||+++...           ......+...+.   . .....
T Consensus       187 ~~~-------------g~~~~~~~~~~~~a~~~~~~il~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v  253 (389)
T 3vfd_A          187 KYV-------------GEGEKLVRALFAVARELQPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQSAGDDRV  253 (389)
T ss_dssp             ------------------CHHHHHHHHHHHHHSSSEEEEEETGGGGC--------CTHHHHHHHHHHHHHHHC-----CE
T ss_pred             ccc-------------chHHHHHHHHHHHHHhcCCeEEEEECchhhcccCCCccchHHHHHHHHHHHHhhcccccCCCCE
Confidence            000             0001111111222223456799999996431           001112222221   1 12344


Q ss_pred             EEEEecCChHHH--hhcCCC-CcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChH-HHHHHHH
Q 047559          323 KIIVTTRHAHVA--ATMEPI-QQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPL-AAKTLGG  396 (444)
Q Consensus       323 ~iivTTr~~~va--~~~~~~-~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl-ai~~~~~  396 (444)
                      .||.||......  ...... ..+.+...+.++..+++...+........    ......|++.+.|..- ++..+..
T Consensus       254 ~vI~atn~~~~l~~~l~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~~l~----~~~~~~la~~~~g~~~~~l~~L~~  327 (389)
T 3vfd_A          254 LVMGATNRPQELDEAVLRRFIKRVYVSLPNEETRLLLLKNLLCKQGSPLT----QKELAQLARMTDGYSGSDLTALAK  327 (389)
T ss_dssp             EEEEEESCGGGCCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCCCSC----HHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             EEEEecCCchhcCHHHHcCcceEEEcCCcCHHHHHHHHHHHHHhcCCCCC----HHHHHHHHHHcCCCCHHHHHHHHH
Confidence            566666543211  111222 35778889999999998876633221111    2234668888888544 5555543

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=98.19  E-value=2.9e-06  Score=90.70  Aligned_cols=155  Identities=16%  Similarity=0.179  Sum_probs=80.9

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccC--Cc-c-eeEEEEeCCCCCHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDS--KF-D-VKAWVCVSDDFDVLNI  259 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~--~f-~-~~~wv~vs~~~~~~~~  259 (444)
                      ..++||+.++..+++.|.....      ..+.|+|++|+|||+||+.+++.......  .. + ..++++++.-..    
T Consensus       170 d~viGr~~~i~~l~~~l~~~~~------~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~l~~----  239 (854)
T 1qvr_A          170 DPVIGRDEEIRRVIQILLRRTK------NNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLA----  239 (854)
T ss_dssp             CCCCSCHHHHHHHHHHHHCSSC------CCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC---------
T ss_pred             cccCCcHHHHHHHHHHHhcCCC------CceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeehHHhhc----
Confidence            4589999999999999865432      34689999999999999999876421110  11 1 223343322110    


Q ss_pred             HHHHHHHhccCCCCcccHHH-HHHHHHHHhC-CceEEEEEeCCCCCC--------hhcHHHhhcccCCCCCCcEEEEecC
Q 047559          260 SRALLESITFASCDLKALNE-VQVQIKRAVD-GKKLLLVLDDVWNED--------YCLWEDLKAPFLAAAPNSKIIVTTR  329 (444)
Q Consensus       260 ~~~il~~l~~~~~~~~~~~~-~~~~l~~~l~-~kr~LlVlDdv~~~~--------~~~~~~l~~~l~~~~~gs~iivTTr  329 (444)
                               .... ...... +...+...-. +++.+|++|+++...        ....+.+...+.  ..+..+|.+|.
T Consensus       240 ---------g~~~-~g~~~~~l~~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~g~~~~~~~L~~~l~--~~~i~~I~at~  307 (854)
T 1qvr_A          240 ---------GAKY-RGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALA--RGELRLIGATT  307 (854)
T ss_dssp             ----------------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHH--TTCCCEEEEEC
T ss_pred             ---------cCcc-chHHHHHHHHHHHHHHhcCCCeEEEEecHHHHhccCCccchHHHHHHHHHHHh--CCCeEEEEecC
Confidence                     0000 011111 1222222222 467899999997642        111112332222  12345666555


Q ss_pred             ChHHHh------hcCCCCcccCCCCChHhHHHHHHHh
Q 047559          330 HAHVAA------TMEPIQQYNLQCLSDEDCWSLFMMH  360 (444)
Q Consensus       330 ~~~va~------~~~~~~~~~l~~L~~~~~~~lf~~~  360 (444)
                      ......      .......+.+.+++.++..+++...
T Consensus       308 ~~~~~~~~~d~aL~rRf~~i~l~~p~~~e~~~iL~~~  344 (854)
T 1qvr_A          308 LDEYREIEKDPALERRFQPVYVDEPTVEETISILRGL  344 (854)
T ss_dssp             HHHHHHHTTCTTTCSCCCCEEECCCCHHHHHHHHHHH
T ss_pred             chHHhhhccCHHHHhCCceEEeCCCCHHHHHHHHHhh
Confidence            443311      1122345889999999999988643

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A

Probab=98.15  E-value=6.7e-05  Score=73.82  Aligned_cols=188  Identities=14%  Similarity=0.115  Sum_probs=98.6

Q ss_pred             CcccccchhHHHHHHHHhcC----CC--CCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTD----TS--SDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVL  257 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~----~~--~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~  257 (444)
                      .+++|.+..++.|.+.+...    ..  ......+.+.|+|++|+|||+||+.+++...       ...++.++...   
T Consensus       134 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~~-------~~~~~~v~~~~---  203 (444)
T 2zan_A          134 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEAN-------NSTFFSISSSD---  203 (444)
T ss_dssp             GGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHCC-------SSEEEEECCC----
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHcC-------CCCEEEEeHHH---
Confidence            46899999888888776310    00  0012346899999999999999999998631       11233333221   


Q ss_pred             HHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCCh-------h----cHHHhhcccCC---CCCCcE
Q 047559          258 NISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDY-------C----LWEDLKAPFLA---AAPNSK  323 (444)
Q Consensus       258 ~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~-------~----~~~~l~~~l~~---~~~gs~  323 (444)
                       +.    ....+..  ......+.   ...-..++.+|+||+++....       .    ....+...+..   ...+..
T Consensus       204 -l~----~~~~g~~--~~~~~~~f---~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~~v~  273 (444)
T 2zan_A          204 -LV----SKWLGES--EKLVKNLF---QLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDGIL  273 (444)
T ss_dssp             -------------C--CCTHHHHH---HHHHHSCSEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTTTTCSSCCCSSCE
T ss_pred             -HH----hhhcchH--HHHHHHHH---HHHHHcCCeEEEEechHhhccCCCCccccHHHHHHHHHHHHHhCcccCCCCEE
Confidence             11    1110100  11122221   222235678999999975411       0    11223333322   234566


Q ss_pred             EEEecCChHHH--hhcCCC-CcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCC-hHHHHHHH
Q 047559          324 IIVTTRHAHVA--ATMEPI-QQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGL-PLAAKTLG  395 (444)
Q Consensus       324 iivTTr~~~va--~~~~~~-~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~-Plai~~~~  395 (444)
                      ||.||......  ...... ..+.+...+.++...+|...+........    ......|++.+.|. +-.|..+.
T Consensus       274 vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~l~----~~~l~~la~~t~G~sgadl~~l~  345 (444)
T 2zan_A          274 VLGATNIPWVLDSAIRRRFEKRIYIPLPEAHARAAMFRLHLGSTQNSLT----EADFQELGRKTDGYSGADISIIV  345 (444)
T ss_dssp             EEEEESCGGGSCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCEECC----HHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             EEecCCCccccCHHHHhhcceEEEeCCcCHHHHHHHHHHHHhcCCCCCC----HHHHHHHHHHcCCCCHHHHHHHH
Confidence            77677654211  111222 45778888888888888776532111111    12335688889884 44454443

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=98.14  E-value=9.5e-06  Score=80.50  Aligned_cols=148  Identities=15%  Similarity=0.135  Sum_probs=79.1

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccC--Cc-ce-eEEEEeCCCCCHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDS--KF-DV-KAWVCVSDDFDVLNI  259 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~--~f-~~-~~wv~vs~~~~~~~~  259 (444)
                      +.++||+.++..++..|.....      .-+.|+|++|+|||+||+.+++.......  .. +. .+.++++.       
T Consensus       180 d~iiGr~~~i~~l~~~l~r~~~------~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~-------  246 (468)
T 3pxg_A          180 DPVIGRSKEIQRVIEVLSRRTK------NNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMGT-------  246 (468)
T ss_dssp             CCCCCCHHHHHHHHHHHHCSSS------CEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC-----------
T ss_pred             CCccCcHHHHHHHHHHHhccCC------CCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeCCc-------
Confidence            3599999999999999875322      35689999999999999999876321100  01 11 11222220       


Q ss_pred             HHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCChHHHh----
Q 047559          260 SRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAA----  335 (444)
Q Consensus       260 ~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~~va~----  335 (444)
                            ...+.  -.....   ..+...-..++.+|++|.    .....+.+...+..  ...++|.+|.......    
T Consensus       247 ------~~~g~--~e~~~~---~~~~~~~~~~~~iLfiD~----~~~a~~~L~~~L~~--g~v~vI~at~~~e~~~~~~~  309 (468)
T 3pxg_A          247 ------KYRGE--FEDRLK---KVMDEIRQAGNIILFIDA----AIDASNILKPSLAR--GELQCIGATTLDEYRKYIEK  309 (468)
T ss_dssp             --------------CTTHH---HHHHHHHTCCCCEEEECC------------CCCTTS--SSCEEEEECCTTTTHHHHTT
T ss_pred             ------cccch--HHHHHH---HHHHHHHhcCCeEEEEeC----chhHHHHHHHhhcC--CCEEEEecCCHHHHHHHhhc
Confidence                  00000  001111   222222345678999991    11223334444432  2345666655443211    


Q ss_pred             ---hcCCCCcccCCCCChHhHHHHHHHhh
Q 047559          336 ---TMEPIQQYNLQCLSDEDCWSLFMMHA  361 (444)
Q Consensus       336 ---~~~~~~~~~l~~L~~~~~~~lf~~~~  361 (444)
                         .......+.+.+++.++..+++....
T Consensus       310 ~~al~~Rf~~i~v~~p~~e~~~~iL~~~~  338 (468)
T 3pxg_A          310 DAALERRFQPIQVDQPSVDESIQILQGLR  338 (468)
T ss_dssp             CSHHHHSEEEEECCCCCHHHHHHHHHHTT
T ss_pred             CHHHHHhCccceeCCCCHHHHHHHHHHHH
Confidence               11122468999999999999998654

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=98.11  E-value=3.2e-05  Score=72.01  Aligned_cols=181  Identities=13%  Similarity=0.109  Sum_probs=96.3

Q ss_pred             CcccccchhHHHHHHHHhcC---C----CCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCH
Q 047559          184 RAVFGRQQDKAKMLEMVLTD---T----SSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDV  256 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~---~----~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~  256 (444)
                      .+++|.+..++.+.+.+...   .    ..+-...+.+.|+|++|+|||+||+.+++...  .    .  ++.++    .
T Consensus        15 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~~--~----~--~i~v~----~   82 (301)
T 3cf0_A           15 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQ--A----N--FISIK----G   82 (301)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHTT--C----E--EEEEC----H
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHhC--C----C--EEEEE----h
Confidence            35899998888887766421   0    00002236799999999999999999998642  1    1  22222    2


Q ss_pred             HHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCCh--------------hcHHHhhcccCC--CCC
Q 047559          257 LNISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDY--------------CLWEDLKAPFLA--AAP  320 (444)
Q Consensus       257 ~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~--------------~~~~~l~~~l~~--~~~  320 (444)
                      .++..    ...+..  ...   +...+.......+.+|+||+++....              .....+...+..  ...
T Consensus        83 ~~l~~----~~~g~~--~~~---~~~~f~~a~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~  153 (301)
T 3cf0_A           83 PELLT----MWFGES--EAN---VREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKK  153 (301)
T ss_dssp             HHHHH----HHHTTC--TTH---HHHHHHHHHHTCSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHSSCTTS
T ss_pred             HHHHh----hhcCch--HHH---HHHHHHHHHhcCCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhcccCCC
Confidence            22222    221111  111   12223333345678999999964210              012333333321  234


Q ss_pred             CcEEEEecCChHHH-h-hcC--CC-CcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHH
Q 047559          321 NSKIIVTTRHAHVA-A-TME--PI-QQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLA  390 (444)
Q Consensus       321 gs~iivTTr~~~va-~-~~~--~~-~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pla  390 (444)
                      +..||.||...... . ...  .. ..+.+...+.++-.+++...+-... ......+.    .++..+.|.|-+
T Consensus       154 ~v~vi~atn~~~~ld~al~r~gRf~~~i~i~~p~~~~r~~il~~~l~~~~-~~~~~~~~----~la~~~~g~sg~  223 (301)
T 3cf0_A          154 NVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSP-VAKDVDLE----FLAKMTNGFSGA  223 (301)
T ss_dssp             SEEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSC-BCSSCCHH----HHHHTCSSCCHH
T ss_pred             CEEEEEecCCccccChHHhcCCccceEEecCCcCHHHHHHHHHHHHccCC-CCccchHH----HHHHHcCCCCHH
Confidence            56777777655322 1 122  12 4578888999998888877653211 11122233    355667776543

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A*

Probab=98.07  E-value=3e-05  Score=77.03  Aligned_cols=185  Identities=14%  Similarity=0.134  Sum_probs=99.8

Q ss_pred             CcccccchhHHHHHHHHhcCCCC-------CCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSS-------DHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDV  256 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~-------~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~  256 (444)
                      ..++|.+..++.+.+++...-..       +.....-+.|+|++|+|||+||+.+.+...  .    ..+.++++.    
T Consensus       204 ~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~~--~----~fv~vn~~~----  273 (489)
T 3hu3_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG--A----FFFLINGPE----  273 (489)
T ss_dssp             GGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHCS--S----EEEEEEHHH----
T ss_pred             HHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHhC--C----CEEEEEchH----
Confidence            35899999999988876432000       002235689999999999999999987631  1    223333211    


Q ss_pred             HHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCCh-----------hcHHHhhcccCC--CCCCcE
Q 047559          257 LNISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDY-----------CLWEDLKAPFLA--AAPNSK  323 (444)
Q Consensus       257 ~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~-----------~~~~~l~~~l~~--~~~gs~  323 (444)
                        +    ...+     .......+...+.....+++.+|+||+++....           .....|...+..  ...+..
T Consensus       274 --l----~~~~-----~g~~~~~~~~~f~~A~~~~p~iLfLDEId~l~~~~~~~~~~~~~~~~~~LL~~ld~~~~~~~v~  342 (489)
T 3hu3_A          274 --I----MSKL-----AGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVI  342 (489)
T ss_dssp             --H----HTSC-----TTHHHHHHHHHHHHHHHTCSEEEEEESHHHHCBCTTSCCCHHHHHHHHHHHHHHHHSCTTSCEE
T ss_pred             --h----hhhh-----cchhHHHHHHHHHHHHhcCCcEEEecchhhhccccccccchHHHHHHHHHHHHhhccccCCceE
Confidence              1    1100     011112222333344456778999999943211           112233333332  233456


Q ss_pred             EEEecCChHH-Hhhc-C---CCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCC-hHHHHHH
Q 047559          324 IIVTTRHAHV-AATM-E---PIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGL-PLAAKTL  394 (444)
Q Consensus       324 iivTTr~~~v-a~~~-~---~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~-Plai~~~  394 (444)
                      ||.||..... ...+ .   -...+.+...+.++-.++|..++... .......+    ..+++.+.|. +-.+..+
T Consensus       343 vIaaTn~~~~Ld~al~r~gRf~~~i~i~~P~~~eR~~IL~~~~~~~-~l~~~~~l----~~la~~t~g~s~~dL~~L  414 (489)
T 3hu3_A          343 VMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNM-KLADDVDL----EQVANETHGHVGADLAAL  414 (489)
T ss_dssp             EEEEESCGGGBCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHTTTS-CBCTTCCH----HHHHHTCTTCCHHHHHHH
T ss_pred             EEEecCCccccCHHHhCCCcCceEEEeCCCCHHHHHHHHHHHHhcC-CCcchhhH----HHHHHHccCCcHHHHHHH
Confidence            6667765532 1111 1   12357889999999999998775321 11122233    3466777774 4444444

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.06  E-value=0.00013  Score=69.83  Aligned_cols=179  Identities=17%  Similarity=0.101  Sum_probs=95.8

Q ss_pred             CcccccchhHHHHHHHHhcC----C---CCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCH
Q 047559          184 RAVFGRQQDKAKMLEMVLTD----T---SSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDV  256 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~----~---~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~  256 (444)
                      .++.|-++.+++|.+.+.-+    +   .-+-...+-+.++|++|.|||.||+.+++....      ..+.++.+.-.+ 
T Consensus       148 ~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~~~------~f~~v~~s~l~s-  220 (405)
T 4b4t_J          148 DMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTDC------KFIRVSGAELVQ-  220 (405)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHHTC------EEEEEEGGGGSC-
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhhCC------CceEEEhHHhhc-
Confidence            45788888777776654321    0   001133467899999999999999999987432      123344332111 


Q ss_pred             HHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCCh--------hc------HHHhhcccC--CCCC
Q 047559          257 LNISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDY--------CL------WEDLKAPFL--AAAP  320 (444)
Q Consensus       257 ~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~--------~~------~~~l~~~l~--~~~~  320 (444)
                                    .........+...+...-...+++|++|+++..-.        ..      ...+...+.  ....
T Consensus       221 --------------k~vGese~~vr~lF~~Ar~~aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~  286 (405)
T 4b4t_J          221 --------------KYIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFETSK  286 (405)
T ss_dssp             --------------SSTTHHHHHHHHHHHHHHHTCSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTTCCC
T ss_pred             --------------cccchHHHHHHHHHHHHHHhCCceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhccCCCC
Confidence                          00011111111112222245689999999976311        00      112222222  2234


Q ss_pred             CcEEEEecCChHHH--hhcC---CCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCCh
Q 047559          321 NSKIIVTTRHAHVA--ATME---PIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLP  388 (444)
Q Consensus       321 gs~iivTTr~~~va--~~~~---~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  388 (444)
                      +..||.||...+..  ....   -...+.+...+.++-.++|..+.-. .....+-++    ..|++.+.|.-
T Consensus       287 ~V~vIaATNrpd~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~-~~l~~dvdl----~~lA~~t~G~S  354 (405)
T 4b4t_J          287 NIKIIMATNRLDILDPALLRPGRIDRKIEFPPPSVAARAEILRIHSRK-MNLTRGINL----RKVAEKMNGCS  354 (405)
T ss_dssp             CEEEEEEESCSSSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTT-SBCCSSCCH----HHHHHHCCSCC
T ss_pred             CeEEEeccCChhhCCHhHcCCCcCceEEEcCCcCHHHHHHHHHHHhcC-CCCCccCCH----HHHHHHCCCCC
Confidence            55667777654321  1112   2256888888888888888766522 111222233    44778888764

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=98.05  E-value=5.9e-06  Score=72.14  Aligned_cols=118  Identities=23%  Similarity=0.202  Sum_probs=61.3

Q ss_pred             hHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCC
Q 047559          192 DKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFAS  271 (444)
Q Consensus       192 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~  271 (444)
                      .++.+..++......  .....+.|+|++|+|||+||+.+++....   ....++|++++      ++...+...+..  
T Consensus        37 ~~~~~~~~~~~~~~~--~~~~~~~l~G~~GtGKT~la~~i~~~~~~---~~~~~~~~~~~------~~~~~~~~~~~~--  103 (202)
T 2w58_A           37 AIRFAERFVAEYEPG--KKMKGLYLHGSFGVGKTYLLAAIANELAK---RNVSSLIVYVP------ELFRELKHSLQD--  103 (202)
T ss_dssp             HHHHHHHHHHHCCSS--CCCCEEEEECSTTSSHHHHHHHHHHHHHT---TTCCEEEEEHH------HHHHHHHHC-----
T ss_pred             HHHHHHHHHHHhhhc--cCCCeEEEECCCCCCHHHHHHHHHHHHHH---cCCeEEEEEhH------HHHHHHHHHhcc--
Confidence            445555555543221  11267899999999999999999987532   22345566543      344444332221  


Q ss_pred             CCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHH--hhc-ccCCC-CCCcEEEEecCC
Q 047559          272 CDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWED--LKA-PFLAA-APNSKIIVTTRH  330 (444)
Q Consensus       272 ~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~--l~~-~l~~~-~~gs~iivTTr~  330 (444)
                         .........+.+     .-+|||||++......|..  +.. .+... ..+.++|+||..
T Consensus       104 ---~~~~~~~~~~~~-----~~~lilDei~~~~~~~~~~~~ll~~~l~~~~~~~~~~i~tsn~  158 (202)
T 2w58_A          104 ---QTMNEKLDYIKK-----VPVLMLDDLGAEAMSSWVRDDVFGPILQYRMFENLPTFFTSNF  158 (202)
T ss_dssp             ---CCCHHHHHHHHH-----SSEEEEEEECCC---CCGGGTTHHHHHHHHHHTTCCEEEEESS
T ss_pred             ---chHHHHHHHhcC-----CCEEEEcCCCCCcCCHHHHHHHHHHHHHHHHhCCCCEEEEcCC
Confidence               112222222221     2399999996643333332  222 22111 245678888874

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=98.05  E-value=5e-05  Score=70.78  Aligned_cols=52  Identities=21%  Similarity=0.301  Sum_probs=37.3

Q ss_pred             CcccccchhHHHHHHHHhcC--CCC------CCCCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          184 RAVFGRQQDKAKMLEMVLTD--TSS------DHSNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~--~~~------~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..++|++..++.+...+...  ...      .......+.|+|++|+|||++|+.+.+..
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            45899999999888777541  000      00112468899999999999999998764

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=98.04  E-value=2e-05  Score=73.68  Aligned_cols=135  Identities=15%  Similarity=0.166  Sum_probs=73.2

Q ss_pred             cccccchhHHHHHHHHhcCC---CCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHH
Q 047559          185 AVFGRQQDKAKMLEMVLTDT---SSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISR  261 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~---~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~  261 (444)
                      .++|.+..++.+...+....   .........+.|+|++|+|||++|+.+++.....   -...+.++++...... ...
T Consensus        18 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~~~~---~~~~~~~~~~~~~~~~-~~~   93 (311)
T 4fcw_A           18 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDT---EEAMIRIDMTEYMEKH-AVS   93 (311)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHHHHSC---GGGEEEEEGGGCCSTT-HHH
T ss_pred             hcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHHHcCC---CcceEEeecccccccc-cHH
Confidence            47788888888877765421   1111234689999999999999999998764221   1223455554432211 111


Q ss_pred             HHHHHhccCCC--CcccHHHHHHHHHHHh-CCceEEEEEeCCCCCChhcHHHhhcccCCCC-----------CCcEEEEe
Q 047559          262 ALLESITFASC--DLKALNEVQVQIKRAV-DGKKLLLVLDDVWNEDYCLWEDLKAPFLAAA-----------PNSKIIVT  327 (444)
Q Consensus       262 ~il~~l~~~~~--~~~~~~~~~~~l~~~l-~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~iivT  327 (444)
                      .+   ++....  .......    +...+ ....-+|+||++..........+...+....           ..+.+|.|
T Consensus        94 ~l---~g~~~~~~~~~~~~~----~~~~~~~~~~~vl~lDEi~~l~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~iiI~t  166 (311)
T 4fcw_A           94 RL---IGAPPGYVGYEEGGQ----LTEAVRRRPYSVILFDAIEKAHPDVFNILLQMLDDGRLTDSHGRTVDFRNTVIIMT  166 (311)
T ss_dssp             HH---HCCCTTSTTTTTCCH----HHHHHHHCSSEEEEEETGGGSCHHHHHHHHHHHHHSEEECTTSCEEECTTEEEEEE
T ss_pred             Hh---cCCCCccccccccch----HHHHHHhCCCeEEEEeChhhcCHHHHHHHHHHHhcCEEEcCCCCEEECCCcEEEEe
Confidence            11   111110  0000011    22222 2345699999998776666666655543211           23447777


Q ss_pred             cCC
Q 047559          328 TRH  330 (444)
Q Consensus       328 Tr~  330 (444)
                      |..
T Consensus       167 tn~  169 (311)
T 4fcw_A          167 SNL  169 (311)
T ss_dssp             EST
T ss_pred             ccc
Confidence            765

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=98.04  E-value=4.2e-06  Score=68.80  Aligned_cols=109  Identities=14%  Similarity=0.154  Sum_probs=62.9

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHH
Q 047559          185 AVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALL  264 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il  264 (444)
                      .++|+...+.++.+.+..-...    ..-|.|+|.+|+|||++|+.+++...         -++.+.........     
T Consensus         5 ~~iG~s~~~~~l~~~~~~~~~~----~~~vll~G~~GtGKt~lA~~i~~~~~---------~~~~~~~~~~~~~~-----   66 (143)
T 3co5_A            5 DKLGNSAAIQEMNREVEAAAKR----TSPVFLTGEAGSPFETVARYFHKNGT---------PWVSPARVEYLIDM-----   66 (143)
T ss_dssp             ---CCCHHHHHHHHHHHHHHTC----SSCEEEEEETTCCHHHHHGGGCCTTS---------CEECCSSTTHHHHC-----
T ss_pred             CceeCCHHHHHHHHHHHHHhCC----CCcEEEECCCCccHHHHHHHHHHhCC---------CeEEechhhCChHh-----
Confidence            5789998888888876542111    13478999999999999999887521         23322221111111     


Q ss_pred             HHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCC-CCCcEEEEecC
Q 047559          265 ESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAA-APNSKIIVTTR  329 (444)
Q Consensus       265 ~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~-~~gs~iivTTr  329 (444)
                                      ...+.+..  +.-.|+||++..........+...+... ..+.++|.||.
T Consensus        67 ----------------~~~~~~~a--~~~~l~lDei~~l~~~~q~~Ll~~l~~~~~~~~~iI~~tn  114 (143)
T 3co5_A           67 ----------------PMELLQKA--EGGVLYVGDIAQYSRNIQTGITFIIGKAERCRVRVIASCS  114 (143)
T ss_dssp             ----------------HHHHHHHT--TTSEEEEEECTTCCHHHHHHHHHHHHHHTTTTCEEEEEEE
T ss_pred             ----------------hhhHHHhC--CCCeEEEeChHHCCHHHHHHHHHHHHhCCCCCEEEEEecC
Confidence                            01111111  2347899999887665555555555432 34567888776

>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding, chromatin regulator, growth regulation, hydrolase, nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo sapiens} PDB: 2xsz_A*

Probab=98.03  E-value=2.9e-05  Score=76.82  Aligned_cols=98  Identities=9%  Similarity=-0.006  Sum_probs=60.8

Q ss_pred             EEEEEeCCCCCChhcHHHhhcccCCCCCCcEEE-Ee---------cC----ChHH-HhhcCCCCcccCCCCChHhHHHHH
Q 047559          293 LLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKII-VT---------TR----HAHV-AATMEPIQQYNLQCLSDEDCWSLF  357 (444)
Q Consensus       293 ~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ii-vT---------Tr----~~~v-a~~~~~~~~~~l~~L~~~~~~~lf  357 (444)
                      -++++|+++..+...++.|...+...... .+| .|         |.    ...+ ....+....+.+.+++.++..+++
T Consensus       297 ~VliIDEa~~l~~~a~~aLlk~lEe~~~~-~~il~tn~~~~~i~~~~~~~~~~~l~~~i~sR~~~~~~~~~~~~e~~~iL  375 (456)
T 2c9o_A          297 GVLFVDEVHMLDIECFTYLHRALESSIAP-IVIFASNRGNCVIRGTEDITSPHGIPLDLLDRVMIIRTMLYTPQEMKQII  375 (456)
T ss_dssp             CEEEEESGGGCBHHHHHHHHHHTTSTTCC-EEEEEECCSEEECBTTSSCEEETTCCHHHHTTEEEEECCCCCHHHHHHHH
T ss_pred             eEEEEechhhcCHHHHHHHHHHhhccCCC-EEEEecCCccccccccccccccccCChhHHhhcceeeCCCCCHHHHHHHH
Confidence            38999999888777788888777665444 344 44         32    1110 111122245799999999999999


Q ss_pred             HHhhccCCCCCccchHHHHHHHHHHHc-CCChHHHHHHH
Q 047559          358 MMHAFVGQDITAQQISDLFREKVVGKC-GGLPLAAKTLG  395 (444)
Q Consensus       358 ~~~~~~~~~~~~~~~~~~~~~~i~~~~-~G~Plai~~~~  395 (444)
                      .+.+-.......    ++....|++.+ +|.|.....+.
T Consensus       376 ~~~~~~~~~~~~----~~~~~~i~~~a~~g~~r~a~~ll  410 (456)
T 2c9o_A          376 KIRAQTEGINIS----EEALNHLGEIGTKTTLRYSVQLL  410 (456)
T ss_dssp             HHHHHHHTCCBC----HHHHHHHHHHHHHSCHHHHHHTH
T ss_pred             HHHHHHhCCCCC----HHHHHHHHHHccCCCHHHHHHHH
Confidence            877532111111    23345677788 78887655544

>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=97.97  E-value=1.9e-05  Score=72.09  Aligned_cols=131  Identities=14%  Similarity=0.060  Sum_probs=67.7

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHH
Q 047559          185 AVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALL  264 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il  264 (444)
                      .++|....+..+.+.+..-...    ...+.|+|.+|+|||+||+.+++......   ...+.++++.-.  .+.+..  
T Consensus         7 ~~ig~~~~~~~~~~~~~~~~~~----~~~vll~G~~GtGKt~la~~i~~~~~~~~---~~~~~v~~~~~~--~~~~~~--   75 (265)
T 2bjv_A            7 NLLGEANSFLEVLEQVSHLAPL----DKPVLIIGERGTGKELIASRLHYLSSRWQ---GPFISLNCAALN--ENLLDS--   75 (265)
T ss_dssp             ---CCCHHHHHHHHHHHHHTTS----CSCEEEECCTTSCHHHHHHHHHHTSTTTT---SCEEEEEGGGSC--HHHHHH--
T ss_pred             cceeCCHHHHHHHHHHHHHhCC----CCCEEEECCCCCcHHHHHHHHHHhcCccC---CCeEEEecCCCC--hhHHHH--
Confidence            4789998888888766542211    14678999999999999999987642111   123445555421  222222  


Q ss_pred             HHhccCCCCccc-H-HHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCC-----------CCCcEEEEecCC
Q 047559          265 ESITFASCDLKA-L-NEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAA-----------APNSKIIVTTRH  330 (444)
Q Consensus       265 ~~l~~~~~~~~~-~-~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~-----------~~gs~iivTTr~  330 (444)
                       .+.+....... . ......+.   ....-+|+||++..........|...+...           ..+.+||.||..
T Consensus        76 -~l~g~~~~~~~g~~~~~~~~l~---~a~~~~l~lDEi~~l~~~~q~~Ll~~l~~~~~~~~g~~~~~~~~~~iI~atn~  150 (265)
T 2bjv_A           76 -ELFGHEAGAFTGAQKRHPGRFE---RADGGTLFLDELATAPMMVQEKLLRVIEYGELERVGGSQPLQVNVRLVCATNA  150 (265)
T ss_dssp             -HHHCCC---------CCCCHHH---HTTTSEEEEESGGGSCHHHHHHHHHHHHHCEECCCCC--CEECCCEEEEEESS
T ss_pred             -HhcCCcccccccccccccchhh---hcCCcEEEEechHhcCHHHHHHHHHHHHhCCeecCCCcccccCCeEEEEecCc
Confidence             11111100000 0 00000011   112458999999877655555555444321           134678888875

>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=97.96  E-value=6.2e-05  Score=79.46  Aligned_cols=156  Identities=12%  Similarity=0.141  Sum_probs=87.5

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccc---cCCcceeEEE-EeCCCCCHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVE---DSKFDVKAWV-CVSDDFDVLNI  259 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~---~~~f~~~~wv-~vs~~~~~~~~  259 (444)
                      ..++||+.++..+++.|.....      .-+.|+|++|+|||++|+.+.+.....   .....+.+|. +.+.-      
T Consensus       186 d~~iGr~~~i~~l~~~l~~~~~------~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~~~~l------  253 (758)
T 1r6b_X          186 DPLIGREKELERAIQVLCRRRK------NNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSL------  253 (758)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSS------CEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC--------
T ss_pred             CCccCCHHHHHHHHHHHhccCC------CCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEcHHHH------
Confidence            3589999999999999865422      457899999999999999998753211   1012333332 11110      


Q ss_pred             HHHHHHHhccCCCCcccHHHHHHHHHHHh-CCceEEEEEeCCCCC--------Chhc-HHHhhcccCCCCCCcEEEEecC
Q 047559          260 SRALLESITFASCDLKALNEVQVQIKRAV-DGKKLLLVLDDVWNE--------DYCL-WEDLKAPFLAAAPNSKIIVTTR  329 (444)
Q Consensus       260 ~~~il~~l~~~~~~~~~~~~~~~~l~~~l-~~kr~LlVlDdv~~~--------~~~~-~~~l~~~l~~~~~gs~iivTTr  329 (444)
                             +... ............+.+.+ ..++.+|++||++..        ...+ ...+...+ . ..+..+|.+|.
T Consensus       254 -------~~~~-~~~g~~e~~l~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~~~~~~~~~~L~~~l-~-~~~~~~I~at~  323 (758)
T 1r6b_X          254 -------LAGT-KYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLL-S-SGKIRVIGSTT  323 (758)
T ss_dssp             --------CCC-CCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCS-S-SCCCEEEEEEC
T ss_pred             -------hccc-cccchHHHHHHHHHHHHHhcCCeEEEEechHHHhhcCCCCcchHHHHHHHHHHH-h-CCCeEEEEEeC
Confidence                   0000 01112222222333333 345789999999754        1112 22233332 2 23456666666


Q ss_pred             ChHHHhhc-------CCCCcccCCCCChHhHHHHHHHhh
Q 047559          330 HAHVAATM-------EPIQQYNLQCLSDEDCWSLFMMHA  361 (444)
Q Consensus       330 ~~~va~~~-------~~~~~~~l~~L~~~~~~~lf~~~~  361 (444)
                      ........       .....+.+..++.++..+++....
T Consensus       324 ~~~~~~~~~~d~aL~~Rf~~i~v~~p~~~e~~~il~~l~  362 (758)
T 1r6b_X          324 YQEFSNIFEKDRALARRFQKIDITEPSIEETVQIINGLK  362 (758)
T ss_dssp             HHHHHCCCCCTTSSGGGEEEEECCCCCHHHHHHHHHHHH
T ss_pred             chHHhhhhhcCHHHHhCceEEEcCCCCHHHHHHHHHHHH
Confidence            55443221       112357899999999888887543

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.95  E-value=0.00022  Score=69.23  Aligned_cols=179  Identities=15%  Similarity=0.117  Sum_probs=96.2

Q ss_pred             CcccccchhHHHHHHHHhcC---CC----CCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCH
Q 047559          184 RAVFGRQQDKAKMLEMVLTD---TS----SDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDV  256 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~---~~----~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~  256 (444)
                      .++.|-++.+++|.+.+.-+   +.    -+-...+-|.++|++|+|||+||+.+++....      ..+.++.+.-.+ 
T Consensus       181 ~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~~~------~~~~v~~s~l~s-  253 (437)
T 4b4t_L          181 DGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIGA------NFIFSPASGIVD-  253 (437)
T ss_dssp             GGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTC------EEEEEEGGGTCC-
T ss_pred             hHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHhCC------CEEEEehhhhcc-
Confidence            46788888777776654321   00    01134578999999999999999999987432      123344333111 


Q ss_pred             HHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCCh----------h----cHHHhhcccC--CCCC
Q 047559          257 LNISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDY----------C----LWEDLKAPFL--AAAP  320 (444)
Q Consensus       257 ~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~----------~----~~~~l~~~l~--~~~~  320 (444)
                                    .........+.......-...+++|++|+++..-.          .    ....+...+.  ....
T Consensus       254 --------------k~~Gese~~ir~~F~~A~~~~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~  319 (437)
T 4b4t_L          254 --------------KYIGESARIIREMFAYAKEHEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFDNLG  319 (437)
T ss_dssp             --------------SSSSHHHHHHHHHHHHHHHSCSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSSCTT
T ss_pred             --------------ccchHHHHHHHHHHHHHHhcCCceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhcccCCC
Confidence                          00011111111112222245689999999975210          0    1122333222  2234


Q ss_pred             CcEEEEecCChHHHh--hcCCC---CcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCCh
Q 047559          321 NSKIIVTTRHAHVAA--TMEPI---QQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLP  388 (444)
Q Consensus       321 gs~iivTTr~~~va~--~~~~~---~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  388 (444)
                      +..||.||.......  ...+.   ..+.+...+.++-.++|..+.-.- .....-++    ..|++.+.|.-
T Consensus       320 ~vivI~ATNrp~~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~-~~~~d~dl----~~lA~~t~G~s  387 (437)
T 4b4t_L          320 QTKIIMATNRPDTLDPALLRPGRLDRKVEIPLPNEAGRLEIFKIHTAKV-KKTGEFDF----EAAVKMSDGFN  387 (437)
T ss_dssp             SSEEEEEESSTTSSCTTTTSTTSEEEEECCCCCCHHHHHHHHHHHHHTS-CBCSCCCH----HHHHHTCCSCC
T ss_pred             CeEEEEecCCchhhCHHHhCCCccceeeecCCcCHHHHHHHHHHHhcCC-CCCcccCH----HHHHHhCCCCC
Confidence            567777887654321  12221   357888888888888887665321 11122233    44777888754

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.92  E-value=3.6e-05  Score=81.21  Aligned_cols=149  Identities=15%  Similarity=0.119  Sum_probs=80.1

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccC--C-cceeEEEEeCCCCCHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDS--K-FDVKAWVCVSDDFDVLNIS  260 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~--~-f~~~~wv~vs~~~~~~~~~  260 (444)
                      ..++||+.++..+...|.....      .-+.++|++|+|||++|+.+.+...-...  . .++. ++.++-        
T Consensus       180 d~iiG~~~~i~~l~~~l~~~~~------~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~-~~~~~~--------  244 (758)
T 3pxi_A          180 DPVIGRSKEIQRVIEVLSRRTK------NNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKR-VMTLDM--------  244 (758)
T ss_dssp             CCCCCCHHHHHHHHHHHHCSSS------CEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCC-EECC----------
T ss_pred             CCccCchHHHHHHHHHHhCCCC------CCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCe-EEEecc--------
Confidence            3599999999999999876432      34789999999999999999876311100  0 1111 221111        


Q ss_pred             HHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCChHHHhh----
Q 047559          261 RALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAAT----  336 (444)
Q Consensus       261 ~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~~va~~----  336 (444)
                         .....+  .-...+   ...+......++.+|++|.-    ....+.+...+.  ....++|.||........    
T Consensus       245 ---g~~~~G--~~e~~l---~~~~~~~~~~~~~iLfiD~~----~~~~~~L~~~l~--~~~v~~I~at~~~~~~~~~~~d  310 (758)
T 3pxi_A          245 ---GTKYRG--EFEDRL---KKVMDEIRQAGNIILFIDAA----IDASNILKPSLA--RGELQCIGATTLDEYRKYIEKD  310 (758)
T ss_dssp             -------------CTTH---HHHHHHHHTCCCCEEEECC------------CCCTT--SSSCEEEEECCTTTTHHHHTTC
T ss_pred             ---cccccc--hHHHHH---HHHHHHHHhcCCEEEEEcCc----hhHHHHHHHHHh--cCCEEEEeCCChHHHHHHhhcc
Confidence               000000  000111   22233333467889999921    122233333332  234566666654442111    


Q ss_pred             ---cCCCCcccCCCCChHhHHHHHHHhh
Q 047559          337 ---MEPIQQYNLQCLSDEDCWSLFMMHA  361 (444)
Q Consensus       337 ---~~~~~~~~l~~L~~~~~~~lf~~~~  361 (444)
                         ......+.+..++.++..+++....
T Consensus       311 ~al~rRf~~i~v~~p~~~~~~~il~~~~  338 (758)
T 3pxi_A          311 AALERRFQPIQVDQPSVDESIQILQGLR  338 (758)
T ss_dssp             SHHHHSEEEEECCCCCHHHHHHHHHHTT
T ss_pred             HHHHhhCcEEEeCCCCHHHHHHHHHHHH
Confidence               1122568999999999999998543

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.91  E-value=0.00012  Score=70.97  Aligned_cols=52  Identities=25%  Similarity=0.234  Sum_probs=37.6

Q ss_pred             CcccccchhHHHHHHHHhcC---C----CCCCCCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          184 RAVFGRQQDKAKMLEMVLTD---T----SSDHSNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~---~----~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .++.|-+..+++|.+.+...   .    .-+-...+-+.++|++|+|||+||+.+++..
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            46889888888887655321   0    0011344789999999999999999999874

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=97.91  E-value=1.9e-05  Score=73.71  Aligned_cols=133  Identities=14%  Similarity=0.079  Sum_probs=71.4

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRAL  263 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~i  263 (444)
                      ..++|+...+..+.+.+..-...    ...|.|+|.+|+|||++|+.+++.....+   ...+.++++.-.  ..++.. 
T Consensus         2 ~~iig~s~~~~~~~~~~~~~a~~----~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~---~~~v~v~~~~~~--~~l~~~-   71 (304)
T 1ojl_A            2 SHMIGSSPAMQHLLNEIAMVAPS----DATVLIHGDSGTGKELVARALHACSARSD---RPLVTLNCAALN--ESLLES-   71 (304)
T ss_dssp             -CCCCCSHHHHHHHHHHHHHCST----TSCEEEESCTTSCHHHHHHHHHHHSSCSS---SCCCEEECSSCC--HHHHHH-
T ss_pred             CCcEECCHHHHHHHHHHHHHhCC----CCcEEEECCCCchHHHHHHHHHHhCcccC---CCeEEEeCCCCC--hHHHHH-
Confidence            35889999999888877553221    14678999999999999999987532111   122345554422  222222 


Q ss_pred             HHHhccCCCCccc--HHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCC-----------CCCcEEEEecCC
Q 047559          264 LESITFASCDLKA--LNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAA-----------APNSKIIVTTRH  330 (444)
Q Consensus       264 l~~l~~~~~~~~~--~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~-----------~~gs~iivTTr~  330 (444)
                        .+.+.......  .......+.. .  ..-+|+||++..........+...+...           ....+||.||..
T Consensus        72 --~lfg~~~g~~tg~~~~~~g~~~~-a--~~g~L~LDEi~~l~~~~q~~Ll~~l~~~~~~~~g~~~~~~~~~riI~atn~  146 (304)
T 1ojl_A           72 --ELFGHEKGAFTGADKRREGRFVE-A--DGGTLFLDEIGDISPLMQVRLLRAIQEREVQRVGSNQTISVDVRLIAATHR  146 (304)
T ss_dssp             --HHTCCCSSCCC---CCCCCHHHH-H--TTSEEEEESCTTCCHHHHHHHHHHHHSSBCCBTTBCCCCBCCCEEEEEESS
T ss_pred             --HhcCccccccCchhhhhcCHHHh-c--CCCEEEEeccccCCHHHHHHHHHHHhcCEeeecCCcccccCCeEEEEecCc
Confidence              22221110000  0000001111 1  1246899999887655555555544332           134678887775


Q ss_pred             h
Q 047559          331 A  331 (444)
Q Consensus       331 ~  331 (444)
                      .
T Consensus       147 ~  147 (304)
T 1ojl_A          147 D  147 (304)
T ss_dssp             C
T ss_pred             c
Confidence            3

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.86  E-value=0.00044  Score=67.17  Aligned_cols=178  Identities=17%  Similarity=0.104  Sum_probs=93.9

Q ss_pred             cccccchhHHHHHHHHhc----CC---CCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHH
Q 047559          185 AVFGRQQDKAKMLEMVLT----DT---SSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVL  257 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~----~~---~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~  257 (444)
                      ++.|-++.+++|.+.+.-    ..   .-+-...+-|.++|++|+|||.||+.+++....      ..+.++.+.-.+  
T Consensus       210 DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~~~------~fi~vs~s~L~s--  281 (467)
T 4b4t_H          210 DVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDA------TFIRVIGSELVQ--  281 (467)
T ss_dssp             SCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHHTC------EEEEEEGGGGCC--
T ss_pred             HhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhccCC------CeEEEEhHHhhc--
Confidence            578888888877665321    00   000134578999999999999999999987432      123343332110  


Q ss_pred             HHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCCh------h--------cHHHhhcccC--CCCCC
Q 047559          258 NISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDY------C--------LWEDLKAPFL--AAAPN  321 (444)
Q Consensus       258 ~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~------~--------~~~~l~~~l~--~~~~g  321 (444)
                                   .........+...+...-...+++|++|+++..-.      .        ....+...+.  ....+
T Consensus       282 -------------k~vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~  348 (467)
T 4b4t_H          282 -------------KYVGEGARMVRELFEMARTKKACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGFDPRGN  348 (467)
T ss_dssp             -------------CSSSHHHHHHHHHHHHHHHTCSEEEEEECCTTTSBCCSSSSCGGGGHHHHHHHHHHHHHHSSCCTTT
T ss_pred             -------------ccCCHHHHHHHHHHHHHHhcCCceEeecccccccccccCcCCCccHHHHHHHHHHHHHhhccCCCCc
Confidence                         00011111111122222245689999999975310      0        0111222221  12334


Q ss_pred             cEEEEecCChHHH--hhcC---CCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCCh
Q 047559          322 SKIIVTTRHAHVA--ATME---PIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLP  388 (444)
Q Consensus       322 s~iivTTr~~~va--~~~~---~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  388 (444)
                      ..||.||......  ....   -...+.+...+.++-.++|..+.-. ......-++    ..|++.|.|.-
T Consensus       349 ViVIaATNrpd~LDpALlRpGRFD~~I~i~lPd~~~R~~Ilk~~l~~-~~l~~dvdl----~~LA~~T~GfS  415 (467)
T 4b4t_H          349 IKVMFATNRPNTLDPALLRPGRIDRKVEFSLPDLEGRANIFRIHSKS-MSVERGIRW----ELISRLCPNST  415 (467)
T ss_dssp             EEEEEECSCTTSBCHHHHSTTTCCEEECCCCCCHHHHHHHHHHHHTT-SCBCSSCCH----HHHHHHCCSCC
T ss_pred             EEEEeCCCCcccCChhhhccccccEEEEeCCcCHHHHHHHHHHHhcC-CCCCCCCCH----HHHHHHCCCCC
Confidence            5566677654321  1112   2256888888888888888766522 111122233    44778888864

>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=97.83  E-value=8.6e-05  Score=70.18  Aligned_cols=195  Identities=15%  Similarity=0.146  Sum_probs=100.8

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRAL  263 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~i  263 (444)
                      ..++|.+..++.+...+......+ .....+.|+|++|+||||||+.+.+....   .|.   ..+.+-.....+     
T Consensus        25 ~~~~g~~~~~~~l~~~i~~~~~~~-~~~~~~ll~Gp~G~GKTTLa~~ia~~l~~---~~~---~~sg~~~~~~~~-----   92 (334)
T 1in4_A           25 DEFIGQENVKKKLSLALEAAKMRG-EVLDHVLLAGPPGLGKTTLAHIIASELQT---NIH---VTSGPVLVKQGD-----   92 (334)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHHT-CCCCCEEEESSTTSSHHHHHHHHHHHHTC---CEE---EEETTTCCSHHH-----
T ss_pred             HHccCcHHHHHHHHHHHHHHHhcC-CCCCeEEEECCCCCcHHHHHHHHHHHhCC---CEE---EEechHhcCHHH-----
Confidence            357888777777665553310000 22357899999999999999999986421   111   111111011111     


Q ss_pred             HHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCC------------------CCcEEE
Q 047559          264 LESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAA------------------PNSKII  325 (444)
Q Consensus       264 l~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~------------------~gs~ii  325 (444)
                                      +.. +...+ .++-++++|+++.......+.+...+....                  ....++
T Consensus        93 ----------------l~~-~~~~~-~~~~v~~iDE~~~l~~~~~e~L~~~~~~~~~~i~~~~~~~~~~i~~~l~~~~li  154 (334)
T 1in4_A           93 ----------------MAA-ILTSL-ERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLV  154 (334)
T ss_dssp             ----------------HHH-HHHHC-CTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEEE
T ss_pred             ----------------HHH-HHHHc-cCCCEEEEcchhhcCHHHHHHHHHHHHhcccceeeccCcccccccccCCCeEEE
Confidence                            111 11112 234577889886654333333322211110                  011222


Q ss_pred             -EecCChHHHhhc-CCC-CcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHHHh----
Q 047559          326 -VTTRHAHVAATM-EPI-QQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLL----  398 (444)
Q Consensus       326 -vTTr~~~va~~~-~~~-~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~~L----  398 (444)
                       .|++...+...+ ... -.+.+++.+.++..+++.+.+-.... .   ...+.+..|++.++|.|-.+..+...+    
T Consensus       155 ~at~~~~~Ls~~l~sR~~l~~~Ld~~~~~~l~~iL~~~~~~~~~-~---~~~~~~~~ia~~~~G~~R~a~~ll~~~~~~a  230 (334)
T 1in4_A          155 GATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMDV-E---IEDAAAEMIAKRSRGTPRIAIRLTKRVRDML  230 (334)
T ss_dssp             EEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTC-C---BCHHHHHHHHHTSTTCHHHHHHHHHHHHHHH
T ss_pred             EecCCcccCCHHHHHhcCceeeCCCCCHHHHHHHHHHHHHHcCC-C---cCHHHHHHHHHhcCCChHHHHHHHHHHHHHH
Confidence             344433221111 111 24789999999999999877532111 1   123346779999999997655443322    


Q ss_pred             --c-C-C-CHHHHHHHHhc
Q 047559          399 --R-S-K-RHDEWDEILNS  412 (444)
Q Consensus       399 --~-~-~-~~~~w~~~l~~  412 (444)
                        . . . +.+.-..+++.
T Consensus       231 ~~~~~~~It~~~v~~al~~  249 (334)
T 1in4_A          231 TVVKADRINTDIVLKTMEV  249 (334)
T ss_dssp             HHHTCSSBCHHHHHHHHHH
T ss_pred             HHcCCCCcCHHHHHHHHHH
Confidence              1 2 2 66666666655

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=97.82  E-value=1.2e-05  Score=66.45  Aligned_cols=86  Identities=15%  Similarity=0.028  Sum_probs=50.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGK  291 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  291 (444)
                      ..+.|+|+.|+|||||++.++......  .+ ..++++...-...                             ..+ .+
T Consensus        37 ~~~~l~G~~G~GKTtL~~~i~~~~~~~--g~-~~~~~~~~~~~~~-----------------------------~~~-~~   83 (149)
T 2kjq_A           37 QFIYVWGEEGAGKSHLLQAWVAQALEA--GK-NAAYIDAASMPLT-----------------------------DAA-FE   83 (149)
T ss_dssp             SEEEEESSSTTTTCHHHHHHHHHHHTT--TC-CEEEEETTTSCCC-----------------------------GGG-GG
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHhc--CC-cEEEEcHHHhhHH-----------------------------HHH-hC
Confidence            589999999999999999998864321  11 2455554432211                             012 24


Q ss_pred             eEEEEEeCCCCCChhcHHHhhcccCC-CCCCc-EEEEecCC
Q 047559          292 KLLLVLDDVWNEDYCLWEDLKAPFLA-AAPNS-KIIVTTRH  330 (444)
Q Consensus       292 r~LlVlDdv~~~~~~~~~~l~~~l~~-~~~gs-~iivTTr~  330 (444)
                      .-+|||||+.......-+.+...+.. ...|. .||+||+.
T Consensus        84 ~~lLilDE~~~~~~~~~~~l~~li~~~~~~g~~~iiits~~  124 (149)
T 2kjq_A           84 AEYLAVDQVEKLGNEEQALLFSIFNRFRNSGKGFLLLGSEY  124 (149)
T ss_dssp             CSEEEEESTTCCCSHHHHHHHHHHHHHHHHTCCEEEEEESS
T ss_pred             CCEEEEeCccccChHHHHHHHHHHHHHHHcCCcEEEEECCC
Confidence            56889999976543332223332221 12233 48888873

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.78  E-value=4.9e-05  Score=80.15  Aligned_cols=156  Identities=13%  Similarity=0.175  Sum_probs=89.2

Q ss_pred             CcccccchhHHHHHHHHhcCCC---CCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTS---SDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNIS  260 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~  260 (444)
                      ..++|.+..+..+...+.....   ........+.++|++|+|||++|+.+++....   .-...+.++++.-.+...  
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l~~---~~~~~i~i~~s~~~~~~~--  565 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESIFG---DEESMIRIDMSEYMEKHS--  565 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHHHS---CTTCEEEEEGGGGCSSCC--
T ss_pred             CcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcC---CCcceEEEechhcccccc--
Confidence            4689999988888877764321   11133447999999999999999999876411   122334555544221100  


Q ss_pred             HHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCC-----------CCCcEEEEecC
Q 047559          261 RALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAA-----------APNSKIIVTTR  329 (444)
Q Consensus       261 ~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~-----------~~gs~iivTTr  329 (444)
                                  .  ....+...+.   ....-+|+||++..........|...+..+           .....||+||.
T Consensus       566 ------------~--~~~~l~~~~~---~~~~~vl~lDEi~~~~~~~~~~Ll~~le~g~~~~~~g~~~~~~~~~iI~ttn  628 (758)
T 3pxi_A          566 ------------T--SGGQLTEKVR---RKPYSVVLLDAIEKAHPDVFNILLQVLEDGRLTDSKGRTVDFRNTILIMTSN  628 (758)
T ss_dssp             ------------C--C---CHHHHH---HCSSSEEEEECGGGSCHHHHHHHHHHHHHSBCC-----CCBCTTCEEEEEES
T ss_pred             ------------c--ccchhhHHHH---hCCCeEEEEeCccccCHHHHHHHHHHhccCeEEcCCCCEeccCCeEEEEeCC
Confidence                        0  0011111111   123458999999887766666666555331           23568888887


Q ss_pred             C-----hH----HHhhc-----CCC-CcccCCCCChHhHHHHHHHhh
Q 047559          330 H-----AH----VAATM-----EPI-QQYNLQCLSDEDCWSLFMMHA  361 (444)
Q Consensus       330 ~-----~~----va~~~-----~~~-~~~~l~~L~~~~~~~lf~~~~  361 (444)
                      .     ..    +...+     ... .++.+.+++.++...++...+
T Consensus       629 ~~~~~~~~~~~~~~~~f~p~l~~Rl~~~i~~~~l~~~~~~~i~~~~l  675 (758)
T 3pxi_A          629 VGASEKDKVMGELKRAFRPEFINRIDEIIVFHSLEKKHLTEIVSLMS  675 (758)
T ss_dssp             SSTTCCHHHHHHHHHHSCHHHHTTSSEEEECC--CHHHHHHHHHHHH
T ss_pred             CChhhHHHHHHHHHhhCCHHHHhhCCeEEecCCCCHHHHHHHHHHHH
Confidence            3     11    11111     112 468889999988888776543

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=97.76  E-value=0.00051  Score=62.13  Aligned_cols=184  Identities=14%  Similarity=0.106  Sum_probs=90.9

Q ss_pred             CcccccchhHHHHHHHH---hcCCC---CCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHH
Q 047559          184 RAVFGRQQDKAKMLEMV---LTDTS---SDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVL  257 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L---~~~~~---~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~  257 (444)
                      .+++|.+..++.+.+.+   .....   .+....+-+.|+|++|+||||||+.+++...  . .|   +.++.+.-..  
T Consensus        12 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~--~-~~---~~i~~~~~~~--   83 (257)
T 1lv7_A           12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAK--V-PF---FTISGSDFVE--   83 (257)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHT--C-CE---EEECSCSSTT--
T ss_pred             HHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHcC--C-CE---EEEeHHHHHH--
Confidence            46889887777665543   22110   0001124588999999999999999987632  1 22   3333222110  


Q ss_pred             HHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCCh--------------hcHHHhhcccC--CCCCC
Q 047559          258 NISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDY--------------CLWEDLKAPFL--AAAPN  321 (444)
Q Consensus       258 ~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~--------------~~~~~l~~~l~--~~~~g  321 (444)
                              .     ........+...+.......+.++++|+++....              .....+...+.  ....+
T Consensus        84 --------~-----~~~~~~~~~~~~~~~a~~~~~~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~  150 (257)
T 1lv7_A           84 --------M-----FVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEG  150 (257)
T ss_dssp             --------S-----CCCCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSC
T ss_pred             --------H-----hhhhhHHHHHHHHHHHHHcCCeeehhhhhhhhccCCCCCcCCCchHHHHHHHHHHHHhhCcccCCC
Confidence                    0     0001112222233333345678999999843210              01112222221  12334


Q ss_pred             cEEEEecCChH-HHhh-cCC---CCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCC-ChHHHHH
Q 047559          322 SKIIVTTRHAH-VAAT-MEP---IQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGG-LPLAAKT  393 (444)
Q Consensus       322 s~iivTTr~~~-va~~-~~~---~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G-~Plai~~  393 (444)
                      ..||.||.... +... ...   ...+.+...+.++-.+++....-. .........    ..++..+.| .+--+..
T Consensus       151 ~~vI~~tn~~~~l~~~l~r~~rf~~~i~i~~P~~~~r~~il~~~~~~-~~l~~~~~~----~~la~~~~G~~~~dl~~  223 (257)
T 1lv7_A          151 IIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRR-VPLAPDIDA----AIIARGTPGFSGADLAN  223 (257)
T ss_dssp             EEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTT-SCBCTTCCH----HHHHHTCTTCCHHHHHH
T ss_pred             EEEEEeeCCchhCCHHHcCCCcCCeEEEeCCCCHHHHHHHHHHHHhc-CCCCccccH----HHHHHHcCCCCHHHHHH
Confidence            56777776543 2111 111   235667777888877777665422 111111112    346777788 6654443

>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=97.71  E-value=0.0003  Score=69.34  Aligned_cols=179  Identities=16%  Similarity=0.138  Sum_probs=93.7

Q ss_pred             CcccccchhHHHHHHHH---hcCC---CCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHH
Q 047559          184 RAVFGRQQDKAKMLEMV---LTDT---SSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVL  257 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L---~~~~---~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~  257 (444)
                      .+++|.+..+.++.+.+   ....   .-+....+-+.|+|++|+|||+||+.+++....   .|   +.++++.-... 
T Consensus        16 ~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~~~---~f---~~is~~~~~~~-   88 (476)
T 2ce7_A           16 KDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANV---PF---FHISGSDFVEL-   88 (476)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHHTC---CE---EEEEGGGTTTC-
T ss_pred             HHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHcCC---Ce---eeCCHHHHHHH-
Confidence            35889887766665543   2210   000011245889999999999999999986421   22   23343321110 


Q ss_pred             HHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCCh--------------hcHHHhhcccC--CCCCC
Q 047559          258 NISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDY--------------CLWEDLKAPFL--AAAPN  321 (444)
Q Consensus       258 ~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~--------------~~~~~l~~~l~--~~~~g  321 (444)
                               +     ...........+.......+.+|+||+++....              .....+...+.  ....+
T Consensus        89 ---------~-----~g~~~~~~r~lf~~A~~~~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~~~~~  154 (476)
T 2ce7_A           89 ---------F-----VGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSKEG  154 (476)
T ss_dssp             ---------C-----TTHHHHHHHHHHHHHHHTCSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSCGGGT
T ss_pred             ---------H-----hcccHHHHHHHHHHHHhcCCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccCCCCC
Confidence                     0     000111222233444456789999999965311              01223332221  12345


Q ss_pred             cEEEEecCChHHHh--hcCCC---CcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCCh
Q 047559          322 SKIIVTTRHAHVAA--TMEPI---QQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLP  388 (444)
Q Consensus       322 s~iivTTr~~~va~--~~~~~---~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  388 (444)
                      ..||.||.......  ...+.   ..+.+...+.++-.+++..++-.. .......+    ..|++.+.|..
T Consensus       155 viVIaaTn~~~~Ld~allR~gRFd~~i~i~~Pd~~~R~~Il~~~~~~~-~l~~~v~l----~~la~~t~G~s  221 (476)
T 2ce7_A          155 IIVMAATNRPDILDPALLRPGRFDKKIVVDPPDMLGRKKILEIHTRNK-PLAEDVNL----EIIAKRTPGFV  221 (476)
T ss_dssp             EEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTS-CBCTTCCH----HHHHHTCTTCC
T ss_pred             EEEEEecCChhhhchhhcccCcceeEeecCCCCHHHHHHHHHHHHHhC-CCcchhhH----HHHHHhcCCCc
Confidence            67777777654321  12221   357788888888778876655321 11111122    33777888876

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.70  E-value=0.00021  Score=69.39  Aligned_cols=178  Identities=11%  Similarity=0.060  Sum_probs=93.3

Q ss_pred             CcccccchhHHHHHHHHhc----CC---CCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCH
Q 047559          184 RAVFGRQQDKAKMLEMVLT----DT---SSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDV  256 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~----~~---~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~  256 (444)
                      .++.|-++.+++|.+.+..    +.   .-+....+-|.++|++|.|||.||+.+++....      ..+.++.+.-.+ 
T Consensus       181 ~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~~~------~f~~v~~s~l~~-  253 (434)
T 4b4t_M          181 SDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNA------TFLKLAAPQLVQ-  253 (434)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTC------EEEEEEGGGGCS-
T ss_pred             HhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHhCC------CEEEEehhhhhh-
Confidence            4688988888888765322    10   001134578999999999999999999987422      123333332110 


Q ss_pred             HHHHHHHHHHhccCCCCcccHHHHHHHHHHH-hCCceEEEEEeCCCCC-----Chh-----c----HHHhhcccCC--CC
Q 047559          257 LNISRALLESITFASCDLKALNEVQVQIKRA-VDGKKLLLVLDDVWNE-----DYC-----L----WEDLKAPFLA--AA  319 (444)
Q Consensus       257 ~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdv~~~-----~~~-----~----~~~l~~~l~~--~~  319 (444)
                                    ..... .......+... -...+++|++|+++..     +..     .    ...+...+..  ..
T Consensus       254 --------------~~vGe-se~~ir~lF~~A~~~aP~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~~~~  318 (434)
T 4b4t_M          254 --------------MYIGE-GAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFSSD  318 (434)
T ss_dssp             --------------SCSSH-HHHHHHHHHHHHHHHCSEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTSCSS
T ss_pred             --------------cccch-HHHHHHHHHHHHHhcCCeEEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhccCCC
Confidence                          00001 11112222221 1345799999998641     000     0    1122222222  23


Q ss_pred             CCcEEEEecCChHHHh-h-cCCC---CcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCCh
Q 047559          320 PNSKIIVTTRHAHVAA-T-MEPI---QQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLP  388 (444)
Q Consensus       320 ~gs~iivTTr~~~va~-~-~~~~---~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  388 (444)
                      .+..||.||....... . ..+.   ..+.+...+.++-.++|..+.-.- ....+-++    ..|++.+.|.-
T Consensus       319 ~~ViVIaaTNrp~~LD~AllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~-~~~~dvdl----~~lA~~t~G~s  387 (434)
T 4b4t_M          319 DRVKVLAATNRVDVLDPALLRSGRLDRKIEFPLPSEDSRAQILQIHSRKM-TTDDDINW----QELARSTDEFN  387 (434)
T ss_dssp             CSSEEEEECSSCCCCCTTTCSTTSEEEEEECCCCCHHHHHHHHHHHHHHS-CBCSCCCH----HHHHHHCSSCC
T ss_pred             CCEEEEEeCCCchhcCHhHhcCCceeEEEEeCCcCHHHHHHHHHHHhcCC-CCCCcCCH----HHHHHhCCCCC
Confidence            3456666777654321 1 1222   357888888888888887654221 11111223    44777887753

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.69  E-value=0.00038  Score=66.94  Aligned_cols=178  Identities=14%  Similarity=0.090  Sum_probs=93.9

Q ss_pred             CcccccchhHHHHHHHHhc---CCC----CCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCH
Q 047559          184 RAVFGRQQDKAKMLEMVLT---DTS----SDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDV  256 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~---~~~----~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~  256 (444)
                      .++.|-++.+++|.+.+.-   ...    -+....+-|.++|++|.|||.||+.+++....   .   .+.++.+.-.+ 
T Consensus       182 ~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~~~---~---fi~v~~s~l~s-  254 (437)
T 4b4t_I          182 SDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSA---T---FLRIVGSELIQ-  254 (437)
T ss_dssp             GGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHHTC---E---EEEEESGGGCC-
T ss_pred             eecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHhCC---C---EEEEEHHHhhh-
Confidence            4578888877777665422   110    01133478999999999999999999987432   1   12333322110 


Q ss_pred             HHHHHHHHHHhccCCCCcccHHHHHHHHHHH-hCCceEEEEEeCCCCCCh--------h------cHHHhhcccC--CCC
Q 047559          257 LNISRALLESITFASCDLKALNEVQVQIKRA-VDGKKLLLVLDDVWNEDY--------C------LWEDLKAPFL--AAA  319 (444)
Q Consensus       257 ~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~-l~~kr~LlVlDdv~~~~~--------~------~~~~l~~~l~--~~~  319 (444)
                                    ..... .+.....+... -...+++|++|+++..-.        .      ....+...+.  ...
T Consensus       255 --------------k~vGe-sek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~~~~  319 (437)
T 4b4t_I          255 --------------KYLGD-GPRLCRQIFKVAGENAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDDR  319 (437)
T ss_dssp             --------------SSSSH-HHHHHHHHHHHHHHTCSEEEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHCCCS
T ss_pred             --------------ccCch-HHHHHHHHHHHHHhcCCcEEEEehhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCcCCC
Confidence                          00001 11112222222 235689999999875210        0      0112222221  223


Q ss_pred             CCcEEEEecCChHHHh--hcCCC---CcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCCh
Q 047559          320 PNSKIIVTTRHAHVAA--TMEPI---QQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLP  388 (444)
Q Consensus       320 ~gs~iivTTr~~~va~--~~~~~---~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  388 (444)
                      .+..||.||.......  ...+.   ..+.+...+.++-.++|..+.-. .....+-++    ..|++.+.|.-
T Consensus       320 ~~ViVIaATNrpd~LDpALlRpGRfD~~I~v~lPd~~~R~~Il~~~l~~-~~l~~dvdl----~~LA~~T~GfS  388 (437)
T 4b4t_I          320 GDVKVIMATNKIETLDPALIRPGRIDRKILFENPDLSTKKKILGIHTSK-MNLSEDVNL----ETLVTTKDDLS  388 (437)
T ss_dssp             SSEEEEEEESCSTTCCTTSSCTTTEEEEECCCCCCHHHHHHHHHHHHTT-SCBCSCCCH----HHHHHHCCSCC
T ss_pred             CCEEEEEeCCChhhcCHHHhcCCceeEEEEcCCcCHHHHHHHHHHHhcC-CCCCCcCCH----HHHHHhCCCCC
Confidence            4556777777654321  11222   34778888888888888766522 111222234    34777887753

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=97.68  E-value=9.1e-05  Score=69.89  Aligned_cols=151  Identities=13%  Similarity=0.088  Sum_probs=85.0

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHH
Q 047559          185 AVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALL  264 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il  264 (444)
                      .++|++..+..+...+...        .-+.++|++|+|||+||+.+.+...  . .   ...++++......++.... 
T Consensus        28 ~i~g~~~~~~~l~~~l~~~--------~~vll~G~pGtGKT~la~~la~~~~--~-~---~~~i~~~~~~~~~~l~g~~-   92 (331)
T 2r44_A           28 VVVGQKYMINRLLIGICTG--------GHILLEGVPGLAKTLSVNTLAKTMD--L-D---FHRIQFTPDLLPSDLIGTM-   92 (331)
T ss_dssp             TCCSCHHHHHHHHHHHHHT--------CCEEEESCCCHHHHHHHHHHHHHTT--C-C---EEEEECCTTCCHHHHHEEE-
T ss_pred             ceeCcHHHHHHHHHHHHcC--------CeEEEECCCCCcHHHHHHHHHHHhC--C-C---eEEEecCCCCChhhcCCce-
Confidence            4889999999888887653        3588999999999999999987531  1 2   1234443333333322110 


Q ss_pred             HHhccCCCCcccHHHHHHHHHHHhCC--ceEEEEEeCCCCCChhcHHHhhcccCC-----------CCCCcEEEEecCCh
Q 047559          265 ESITFASCDLKALNEVQVQIKRAVDG--KKLLLVLDDVWNEDYCLWEDLKAPFLA-----------AAPNSKIIVTTRHA  331 (444)
Q Consensus       265 ~~l~~~~~~~~~~~~~~~~l~~~l~~--kr~LlVlDdv~~~~~~~~~~l~~~l~~-----------~~~gs~iivTTr~~  331 (444)
                        ..........          +..+  ...++++|+++.........+...+..           ......||.|+...
T Consensus        93 --~~~~~~~~~~----------~~~g~l~~~vl~iDEi~~~~~~~~~~Ll~~l~~~~~~~~g~~~~~~~~~~viat~np~  160 (331)
T 2r44_A           93 --IYNQHKGNFE----------VKKGPVFSNFILADEVNRSPAKVQSALLECMQEKQVTIGDTTYPLDNPFLVLATQNPV  160 (331)
T ss_dssp             --EEETTTTEEE----------EEECTTCSSEEEEETGGGSCHHHHHHHHHHHHHSEEEETTEEEECCSSCEEEEEECTT
T ss_pred             --eecCCCCceE----------eccCcccccEEEEEccccCCHHHHHHHHHHHhcCceeeCCEEEECCCCEEEEEecCCC
Confidence              0000000000          0001  125899999987665555444443321           12344556566522


Q ss_pred             H------H-HhhcCCCC-cccCCCCChHhHHHHHHHhhc
Q 047559          332 H------V-AATMEPIQ-QYNLQCLSDEDCWSLFMMHAF  362 (444)
Q Consensus       332 ~------v-a~~~~~~~-~~~l~~L~~~~~~~lf~~~~~  362 (444)
                      .      + ........ .+.+.+++.++-.+++.+...
T Consensus       161 ~~~~~~~l~~~l~~Rf~~~i~i~~p~~~~~~~il~~~~~  199 (331)
T 2r44_A          161 EQEGTYPLPEAQVDRFMMKIHLTYLDKESELEVMRRVSN  199 (331)
T ss_dssp             CCSCCCCCCHHHHTTSSEEEECCCCCHHHHHHHHHHHHC
T ss_pred             cccCcccCCHHHHhheeEEEEcCCCCHHHHHHHHHhccc
Confidence            1      1 11112223 478899999999999887653

>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=97.67  E-value=4.1e-05  Score=69.92  Aligned_cols=180  Identities=16%  Similarity=0.122  Sum_probs=89.1

Q ss_pred             CcccccchhHHHHHHHHhcCCCC------CCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSS------DHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVL  257 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~------~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~  257 (444)
                      ..++|.+..++.+.+.+..-...      .....+.+.|+|++|+|||+||+.+++....   .|   +.++.+.-.+  
T Consensus        11 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~---~~---~~v~~~~~~~--   82 (268)
T 2r62_A           11 KDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHV---PF---FSMGGSSFIE--   82 (268)
T ss_dssp             TTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHHTC---CC---CCCCSCTTTT--
T ss_pred             HHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHhCC---CE---EEechHHHHH--
Confidence            45889988877777655310000      0011134789999999999999999886422   11   1111111000  


Q ss_pred             HHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChh---------------cHHHhhcccCC---CC
Q 047559          258 NISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYC---------------LWEDLKAPFLA---AA  319 (444)
Q Consensus       258 ~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~---------------~~~~l~~~l~~---~~  319 (444)
                              .+....  ......+   +......++.+|+|||++.....               ....+...+..   ..
T Consensus        83 --------~~~~~~--~~~~~~~---~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~  149 (268)
T 2r62_A           83 --------MFVGLG--ASRVRDL---FETAKKQAPSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGFGSEN  149 (268)
T ss_dssp             --------SCSSSC--SSSSSTT---HHHHHHSCSCEEEESCGGGTTC----------CCCSCSSTTTTTTTTTCSSCSC
T ss_pred             --------hhcchH--HHHHHHH---HHHHHhcCCeEEEEeChhhhcccccccccCCCchhHHHHHHHHHHHhhCcccCC
Confidence                    000000  0111111   12222245689999999653211               12223333221   11


Q ss_pred             CCcEEEEecCChHHH--hhcC---CCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChH
Q 047559          320 PNSKIIVTTRHAHVA--ATME---PIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPL  389 (444)
Q Consensus       320 ~gs~iivTTr~~~va--~~~~---~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl  389 (444)
                      ....||.||......  ....   -...+.+...+.++-.+++...+-.. .......+    ..|++.+.|.|-
T Consensus       150 ~~v~vi~ttn~~~~ld~~l~r~~Rf~~~i~i~~p~~~~r~~il~~~~~~~-~~~~~~~~----~~la~~~~g~~g  219 (268)
T 2r62_A          150 APVIVLAATNRPEILDPALMRPGRFDRQVLVDKPDFNGRVEILKVHIKGV-KLANDVNL----QEVAKLTAGLAG  219 (268)
T ss_dssp             SCCEEEECBSCCTTSCGGGGSSSSSCCCCBCCCCCTTTHHHHHHHHTSSS-CCCSSCCT----TTTTSSSCSSCH
T ss_pred             CCEEEEEecCCchhcCHhHcCCCCCCeEEEecCcCHHHHHHHHHHHHhcC-CCCCccCH----HHHHHHcCCCCH
Confidence            234567777655321  1112   12457888889998888887665221 11111122    236666777654

>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=97.59  E-value=0.00018  Score=76.00  Aligned_cols=135  Identities=16%  Similarity=0.193  Sum_probs=72.6

Q ss_pred             CcccccchhHHHHHHHHhcCCC---CCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTS---SDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNIS  260 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~  260 (444)
                      ..++|.+..+..+...+.....   ........+.++|++|+|||++|+.+.+...      ...+.++++.-.....  
T Consensus       458 ~~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l~------~~~~~i~~s~~~~~~~--  529 (758)
T 1r6b_X          458 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG------IELLRFDMSEYMERHT--  529 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHT------CEEEEEEGGGCSSSSC--
T ss_pred             hhccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHhc------CCEEEEechhhcchhh--
Confidence            3588998888888776643211   1113345799999999999999999987631      1233445443221100  


Q ss_pred             HHHHHHhccCCCCcccHHHHHHHHHHHh-CCceEEEEEeCCCCCChhcHHHhhcccCCCC-----------CCcEEEEec
Q 047559          261 RALLESITFASCDLKALNEVQVQIKRAV-DGKKLLLVLDDVWNEDYCLWEDLKAPFLAAA-----------PNSKIIVTT  328 (444)
Q Consensus       261 ~~il~~l~~~~~~~~~~~~~~~~l~~~l-~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~iivTT  328 (444)
                         ...+.+..+......+ ...+...+ .....+|+||++........+.|...+..+.           ....||.||
T Consensus       530 ---~~~l~g~~~g~~g~~~-~~~l~~~~~~~~~~vl~lDEi~~~~~~~~~~Ll~~le~~~~~~~~g~~~~~~~~~iI~ts  605 (758)
T 1r6b_X          530 ---VSRLIGAPPGYVGFDQ-GGLLTDAVIKHPHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDNNGRKADFRNVVLVMTT  605 (758)
T ss_dssp             ---CSSSCCCCSCSHHHHH-TTHHHHHHHHCSSEEEEEETGGGSCHHHHHHHHHHHHHSEEEETTTEEEECTTEEEEEEE
T ss_pred             ---HhhhcCCCCCCcCccc-cchHHHHHHhCCCcEEEEeCccccCHHHHHHHHHHhcCcEEEcCCCCEEecCCeEEEEec
Confidence               0011111111100000 11122222 2346799999998876666666655553221           235577777


Q ss_pred             CC
Q 047559          329 RH  330 (444)
Q Consensus       329 r~  330 (444)
                      ..
T Consensus       606 N~  607 (758)
T 1r6b_X          606 NA  607 (758)
T ss_dssp             CS
T ss_pred             Cc
Confidence            64

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=97.59  E-value=0.0001  Score=74.40  Aligned_cols=162  Identities=15%  Similarity=0.162  Sum_probs=78.1

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRAL  263 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~i  263 (444)
                      .+++|.++-...+.+.+.-..-+......++.|+|++|+||||||+.++.....   .|   .-++++...+..++....
T Consensus        81 ~di~G~~~vk~~i~~~~~l~~~~~~~~g~~vll~Gp~GtGKTtlar~ia~~l~~---~~---~~i~~~~~~~~~~~~g~~  154 (543)
T 3m6a_A           81 EEHHGLEKVKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAKSLGR---KF---VRISLGGVRDESEIRGHR  154 (543)
T ss_dssp             HHCSSCHHHHHHHHHHHHHHHHSSSCCSCEEEEESSSSSSHHHHHHHHHHHHTC---EE---EEECCCC-----------
T ss_pred             HHhccHHHHHHHHHHHHHHHHhcccCCCCEEEEECCCCCCHHHHHHHHHHhcCC---Ce---EEEEecccchhhhhhhHH
Confidence            457888777766655432211000023368999999999999999999876421   11   223333322221111111


Q ss_pred             HHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChh----cHHHhhcccCCCC---------------CCcEE
Q 047559          264 LESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYC----LWEDLKAPFLAAA---------------PNSKI  324 (444)
Q Consensus       264 l~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~----~~~~l~~~l~~~~---------------~gs~i  324 (444)
                      ...++.      ........+. ......-+|+||+++.....    ....+...+....               ....|
T Consensus       155 ~~~ig~------~~~~~~~~~~-~a~~~~~vl~lDEid~l~~~~~~~~~~~LL~~ld~~~~~~~~~~~~~~~~~~~~v~i  227 (543)
T 3m6a_A          155 RTYVGA------MPGRIIQGMK-KAGKLNPVFLLDEIDKMSSDFRGDPSSAMLEVLDPEQNSSFSDHYIEETFDLSKVLF  227 (543)
T ss_dssp             ---------------CHHHHHH-TTCSSSEEEEEEESSSCC---------CCGGGTCTTTTTBCCCSSSCCCCBCSSCEE
T ss_pred             HHHhcc------CchHHHHHHH-HhhccCCEEEEhhhhhhhhhhccCHHHHHHHHHhhhhcceeecccCCeeecccceEE
Confidence            111110      0001111122 12223348889999765432    1233333332110               23456


Q ss_pred             EEecCChH-----HHhhcCCCCcccCCCCChHhHHHHHHHhh
Q 047559          325 IVTTRHAH-----VAATMEPIQQYNLQCLSDEDCWSLFMMHA  361 (444)
Q Consensus       325 ivTTr~~~-----va~~~~~~~~~~l~~L~~~~~~~lf~~~~  361 (444)
                      |.||....     +...+   .++.+.+++.++-..++..+.
T Consensus       228 I~ttN~~~~l~~aL~~R~---~vi~~~~~~~~e~~~Il~~~l  266 (543)
T 3m6a_A          228 IATANNLATIPGPLRDRM---EIINIAGYTEIEKLEIVKDHL  266 (543)
T ss_dssp             EEECSSTTTSCHHHHHHE---EEEECCCCCHHHHHHHHHHTH
T ss_pred             EeccCccccCCHHHHhhc---ceeeeCCCCHHHHHHHHHHHH
Confidence            66666432     22333   468899999999888887764

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=97.49  E-value=0.00086  Score=66.56  Aligned_cols=43  Identities=19%  Similarity=0.291  Sum_probs=36.6

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          185 AVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .++|++..++.+...+..+        .-|.|+|++|+|||+||+.+.+..
T Consensus        23 ~ivGq~~~i~~l~~al~~~--------~~VLL~GpPGtGKT~LAraLa~~l   65 (500)
T 3nbx_X           23 GLYERSHAIRLCLLAALSG--------ESVFLLGPPGIAKSLIARRLKFAF   65 (500)
T ss_dssp             TCSSCHHHHHHHHHHHHHT--------CEEEEECCSSSSHHHHHHHGGGGB
T ss_pred             hhHHHHHHHHHHHHHHhcC--------CeeEeecCchHHHHHHHHHHHHHH
Confidence            4789999998888877654        468999999999999999998864

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=97.48  E-value=0.0014  Score=68.40  Aligned_cols=180  Identities=13%  Similarity=0.128  Sum_probs=95.9

Q ss_pred             CcccccchhHHHHHHHHh----cCC---CCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCH
Q 047559          184 RAVFGRQQDKAKMLEMVL----TDT---SSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDV  256 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~----~~~---~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~  256 (444)
                      .++.|-++.+++|.+.+.    .+.   .-+....+-|.++|++|+|||+||+.+++....      ..+.++.+.    
T Consensus       204 ~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~elg~------~~~~v~~~~----  273 (806)
T 3cf2_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGA------FFFLINGPE----  273 (806)
T ss_dssp             GGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTTTC------EEEEEEHHH----
T ss_pred             hhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCC------eEEEEEhHH----
Confidence            357888888877776542    211   011134578999999999999999999987422      123443321    


Q ss_pred             HHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChh------c-----HHHhhcccCC--CCCCcE
Q 047559          257 LNISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYC------L-----WEDLKAPFLA--AAPNSK  323 (444)
Q Consensus       257 ~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~------~-----~~~l~~~l~~--~~~gs~  323 (444)
                            +..     .........+...+.......+.+|+||+++..-..      .     ...+...+..  ...+..
T Consensus       274 ------l~s-----k~~gese~~lr~lF~~A~~~~PsIIfIDEiDal~~~r~~~~~~~~~riv~~LL~~mdg~~~~~~V~  342 (806)
T 3cf2_A          274 ------IMS-----KLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVI  342 (806)
T ss_dssp             ------HHS-----SCTTHHHHHHHHHHHHHTTSCSEEEEEESGGGTCCTTTTCCCTTHHHHHHHHHTHHHHCCGGGCEE
T ss_pred             ------hhc-----ccchHHHHHHHHHHHHHHHcCCeEEEEehhcccccccCCCCChHHHHHHHHHHHHHhcccccCCEE
Confidence                  110     111111222223333344567899999999663110      0     1122222211  123445


Q ss_pred             EEEecCChH-HHhhcCC----CCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChH
Q 047559          324 IIVTTRHAH-VAATMEP----IQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPL  389 (444)
Q Consensus       324 iivTTr~~~-va~~~~~----~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl  389 (444)
                      ||.||...+ +-..+..    ...+++...+.++-.++|..+.-. .....+-++    ..|++++.|..-
T Consensus       343 VIaaTN~~d~LD~ALrR~GRFd~~I~i~~Pd~~~R~~IL~~~l~~-~~~~~dvdl----~~lA~~T~Gfsg  408 (806)
T 3cf2_A          343 VMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKN-MKLADDVDL----EQVANETHGHVG  408 (806)
T ss_dssp             EEEECSSTTTSCTTTTSTTSSCEEEECCCCCHHHHHHHHHHTCSS-SEECTTCCH----HHHHHHCCSCCH
T ss_pred             EEEecCChhhcCHHHhCCcccceEEecCCCCHHHHHHHHHHHhcC-CCCCcccCH----HHHHHhcCCCCH
Confidence            555665443 2222211    245788888888888888765422 111122233    447788887643

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=97.44  E-value=0.00046  Score=73.65  Aligned_cols=135  Identities=13%  Similarity=0.187  Sum_probs=72.3

Q ss_pred             cccccchhHHHHHHHHhcCC---CCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHH
Q 047559          185 AVFGRQQDKAKMLEMVLTDT---SSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISR  261 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~---~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~  261 (444)
                      .++|.+..+..+...+....   .+.......+.|+|++|+|||++|+.+.+...-.+   ...+.++++.-.....   
T Consensus       559 ~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~~~~~---~~~i~i~~~~~~~~~~---  632 (854)
T 1qvr_A          559 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTE---EAMIRIDMTEYMEKHA---  632 (854)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSSG---GGEEEECTTTCCSSGG---
T ss_pred             ccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCCC---CcEEEEechhccchhH---
Confidence            57999998888877765421   11113346899999999999999999987642111   1234444443221100   


Q ss_pred             HHHHHhccCCCC---cccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCC-----------CCcEEEEe
Q 047559          262 ALLESITFASCD---LKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAA-----------PNSKIIVT  327 (444)
Q Consensus       262 ~il~~l~~~~~~---~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~iivT  327 (444)
                        ...+.+..+.   ......+...+..   ...-+|+||++........+.|...+..+.           .+..||+|
T Consensus       633 --~s~l~g~~~~~~G~~~~g~l~~~~~~---~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~g~~vd~~~~iiI~t  707 (854)
T 1qvr_A          633 --VSRLIGAPPGYVGYEEGGQLTEAVRR---RPYSVILFDEIEKAHPDVFNILLQILDDGRLTDSHGRTVDFRNTVIILT  707 (854)
T ss_dssp             --GGGC--------------CHHHHHHH---CSSEEEEESSGGGSCHHHHHHHHHHHTTTEECCSSSCCEECTTEEEEEE
T ss_pred             --HHHHcCCCCCCcCccccchHHHHHHh---CCCeEEEEecccccCHHHHHHHHHHhccCceECCCCCEeccCCeEEEEe
Confidence              0011100000   0000111122221   234689999998877666666666654321           24457777


Q ss_pred             cCC
Q 047559          328 TRH  330 (444)
Q Consensus       328 Tr~  330 (444)
                      |..
T Consensus       708 sn~  710 (854)
T 1qvr_A          708 SNL  710 (854)
T ss_dssp             CCT
T ss_pred             cCc
Confidence            774

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=97.33  E-value=0.00034  Score=64.75  Aligned_cols=26  Identities=23%  Similarity=0.271  Sum_probs=22.8

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhcc
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..+.+.++|++|+|||+||+.+++..
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            34688899999999999999999874

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=97.27  E-value=0.0015  Score=57.31  Aligned_cols=85  Identities=24%  Similarity=0.251  Sum_probs=52.4

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhcc-----------CC-CCcccHHH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITF-----------AS-CDLKALNE  279 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~-----------~~-~~~~~~~~  279 (444)
                      .++.|+|.+|+|||||+..+.. .     .-..++|++....++...+.. +...++.           .. ........
T Consensus        21 ~~~~i~G~~GsGKTtl~~~l~~-~-----~~~~v~~i~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (220)
T 2cvh_A           21 VLTQVYGPYASGKTTLALQTGL-L-----SGKKVAYVDTEGGFSPERLVQ-MAETRGLNPEEALSRFILFTPSDFKEQRR   93 (220)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHH-H-----HCSEEEEEESSCCCCHHHHHH-HHHTTTCCHHHHHHHEEEECCTTTSHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH-H-----cCCcEEEEECCCCCCHHHHHH-HHHhcCCChHHHhhcEEEEecCCHHHHHH
Confidence            6999999999999999999987 1     224677888766555554433 3322211           11 11112233


Q ss_pred             HHHHHHHHhCCceEEEEEeCCCCC
Q 047559          280 VQVQIKRAVDGKKLLLVLDDVWNE  303 (444)
Q Consensus       280 ~~~~l~~~l~~kr~LlVlDdv~~~  303 (444)
                      ....+...+..+.-+||||.+...
T Consensus        94 ~~~~~~~l~~~~~~lliiD~~~~~  117 (220)
T 2cvh_A           94 VIGSLKKTVDSNFALVVVDSITAH  117 (220)
T ss_dssp             HHHHHHHHCCTTEEEEEEECCCCC
T ss_pred             HHHHHHHHhhcCCCEEEEcCcHHH
Confidence            444555555445779999998543

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=97.26  E-value=0.0002  Score=66.76  Aligned_cols=43  Identities=19%  Similarity=0.267  Sum_probs=29.7

Q ss_pred             hhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccc
Q 047559          191 QDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRA  236 (444)
Q Consensus       191 ~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~  236 (444)
                      ..+..+.+++.....   .....+.|+|++|+|||+||..+++...
T Consensus       135 ~~~~~~~~~i~~~~~---~~~~~lll~G~~GtGKT~La~aia~~~~  177 (308)
T 2qgz_A          135 EAFSAILDFVEQYPS---AEQKGLYLYGDMGIGKSYLLAAMAHELS  177 (308)
T ss_dssp             HHHHHHHHHHHHCSC---SSCCEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccc---cCCceEEEECCCCCCHHHHHHHHHHHHH
Confidence            344455556554321   1136789999999999999999998653

>2vhj_A Ntpase P4, P4; non- hydrolysable ATP analogue, hydrolase, virus dsRNA, molecular motor, packaging ATPase, hexameric helicase; HET: ADP; 1.80A {Pseudomonas phage PHI12} PDB: 2vhq_A* 1w44_A* 1w46_A* 1w47_A* 1w48_A* 1w49_A* 1w4a_A* 1w4b_A* 1w4c_A 2vht_A* 2vhu_A* 2vhc_A*

Probab=97.23  E-value=0.00018  Score=66.55  Aligned_cols=69  Identities=19%  Similarity=0.256  Sum_probs=44.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEe--CCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhC
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCV--SDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVD  289 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~v--s~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~  289 (444)
                      +++.|+|++|+|||+||.++...   .+   ..+.|++.  ....+.             .   ..+.+.....+.+.+.
T Consensus       124 sviLI~GpPGsGKTtLAlqlA~~---~G---~~VlyIs~~~eE~v~~-------------~---~~~le~~l~~i~~~l~  181 (331)
T 2vhj_A          124 GMVIVTGKGNSGKTPLVHALGEA---LG---GKDKYATVRFGEPLSG-------------Y---NTDFNVFVDDIARAML  181 (331)
T ss_dssp             EEEEEECSCSSSHHHHHHHHHHH---HH---TTSCCEEEEBSCSSTT-------------C---BCCHHHHHHHHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHh---CC---CCEEEEEecchhhhhh-------------h---hcCHHHHHHHHHHHHh
Confidence            67889999999999999999875   11   12356665  222110             0   0334555555566665


Q ss_pred             CceEEEEEeCCCCC
Q 047559          290 GKKLLLVLDDVWNE  303 (444)
Q Consensus       290 ~kr~LlVlDdv~~~  303 (444)
                      ..+ +||+|++...
T Consensus       182 ~~~-LLVIDsI~aL  194 (331)
T 2vhj_A          182 QHR-VIVIDSLKNV  194 (331)
T ss_dssp             HCS-EEEEECCTTT
T ss_pred             hCC-EEEEeccccc
Confidence            555 9999999653

>1jr3_D DNA polymerase III, delta subunit; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1jqj_C* 1xxh_A* 1xxi_A* 3glf_A* 3glg_A* 3glh_A* 3gli_A*

Probab=97.22  E-value=0.0055  Score=57.83  Aligned_cols=156  Identities=14%  Similarity=-0.026  Sum_probs=97.1

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHH-HhCC
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKR-AVDG  290 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~-~l~~  290 (444)
                      .+..++|+.|.||++.+..+.....- . .|+....+.+....++.++.                     ..+.. -+-+
T Consensus        19 ~~yl~~G~e~~~~~~~~~~l~~~~~~-~-~~~~~~~~~~~~~~~~~~l~---------------------~~~~~~plf~   75 (343)
T 1jr3_D           19 AAYLLLGNDPLLLQESQDAVRQVAAA-Q-GFEEHHTFSIDPNTDWNAIF---------------------SLCQAMSLFA   75 (343)
T ss_dssp             SEEEEEESCHHHHHHHHHHHHHHHHH-H-TCCEEEEEECCTTCCHHHHH---------------------HHHHHHHHCC
T ss_pred             cEEEEECCcHHHHHHHHHHHHHHHHh-C-CCCeeEEEEecCCCCHHHHH---------------------HHhcCcCCcc
Confidence            68999999999999999988775321 1 33322222233333333332                     22221 1245


Q ss_pred             ceEEEEEeCCCC-CChhcHHHhhcccCCCCCCcEEEEecCC-------hHHHhhc-CCCCcccCCCCChHhHHHHHHHhh
Q 047559          291 KKLLLVLDDVWN-EDYCLWEDLKAPFLAAAPNSKIIVTTRH-------AHVAATM-EPIQQYNLQCLSDEDCWSLFMMHA  361 (444)
Q Consensus       291 kr~LlVlDdv~~-~~~~~~~~l~~~l~~~~~gs~iivTTr~-------~~va~~~-~~~~~~~l~~L~~~~~~~lf~~~~  361 (444)
                      ++-++|+|+++. .+...++.+...+.....++.+|++|..       ..+...+ ....+++..+++.++....+.+.+
T Consensus        76 ~~kvvii~~~~~kl~~~~~~aLl~~le~p~~~~~~il~~~~~~~~~~~~k~~~~i~sr~~~~~~~~l~~~~l~~~l~~~~  155 (343)
T 1jr3_D           76 SRQTLLLLLPENGPNAAINEQLLTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQVTCQTPEQAQLPRWVAARA  155 (343)
T ss_dssp             SCEEEEEECCSSCCCTTHHHHHHHHHTTCBTTEEEEEEESCCCTTTTTSHHHHHHTTTCEEEEECCCCTTHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCChHHHHHHHHHHhcCCCCeEEEEEcCCCChhhHhhHHHHHHHhCceEEEeeCCCHHHHHHHHHHHH
Confidence            667888999977 5556778888887766667777776643       2343332 334678889999999888777765


Q ss_pred             ccCCCCCccchHHHHHHHHHHHcCCChHHHHHH
Q 047559          362 FVGQDITAQQISDLFREKVVGKCGGLPLAAKTL  394 (444)
Q Consensus       362 ~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~  394 (444)
                      -..+-.    ...+....+++.++|.+..+...
T Consensus       156 ~~~g~~----i~~~a~~~l~~~~~gdl~~~~~e  184 (343)
T 1jr3_D          156 KQLNLE----LDDAANQVLCYCYEGNLLALAQA  184 (343)
T ss_dssp             HHTTCE----ECHHHHHHHHHSSTTCHHHHHHH
T ss_pred             HHcCCC----CCHHHHHHHHHHhchHHHHHHHH
Confidence            322111    11234566888899988877654

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=97.19  E-value=0.003  Score=57.68  Aligned_cols=126  Identities=13%  Similarity=0.114  Sum_probs=65.9

Q ss_pred             EEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHh-CCce
Q 047559          214 IPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAV-DGKK  292 (444)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l-~~kr  292 (444)
                      +.|+|++|+||||||+.+.....     . ..+.++.+.-.+.               . ..........+.+.. ...+
T Consensus        47 vlL~Gp~GtGKTtLakala~~~~-----~-~~i~i~g~~l~~~---------------~-~~~~~~~i~~vf~~a~~~~p  104 (274)
T 2x8a_A           47 VLLAGPPGCGKTLLAKAVANESG-----L-NFISVKGPELLNM---------------Y-VGESERAVRQVFQRAKNSAP  104 (274)
T ss_dssp             EEEESSTTSCHHHHHHHHHHHTT-----C-EEEEEETTTTCSS---------------T-THHHHHHHHHHHHHHHHTCS
T ss_pred             EEEECCCCCcHHHHHHHHHHHcC-----C-CEEEEEcHHHHhh---------------h-hhHHHHHHHHHHHHHHhcCC
Confidence            99999999999999999987632     1 2344443321110               0 000011111122221 3457


Q ss_pred             EEEEEeCCCCCCh-----------hcHHHhhcccCCC--CCCcEEEEecCChHHHh--hcC---CCCcccCCCCChHhHH
Q 047559          293 LLLVLDDVWNEDY-----------CLWEDLKAPFLAA--APNSKIIVTTRHAHVAA--TME---PIQQYNLQCLSDEDCW  354 (444)
Q Consensus       293 ~LlVlDdv~~~~~-----------~~~~~l~~~l~~~--~~gs~iivTTr~~~va~--~~~---~~~~~~l~~L~~~~~~  354 (444)
                      .++++|++.....           .....+...+...  ....-++.+|..+.+..  ...   -...+.+...+.++-.
T Consensus       105 ~i~~~Deid~~~~~r~~~~~~~~~~~~~~~l~~Lsgg~~~~~~i~ia~tn~p~~LD~al~r~gRfd~~i~~~~P~~~~r~  184 (274)
T 2x8a_A          105 CVIFFDEVDALCPRRSDRETGASVRVVNQLLTEMDGLEARQQVFIMAATNRPDIIDPAILRPGRLDKTLFVGLPPPADRL  184 (274)
T ss_dssp             EEEEEETCTTTCC---------CTTHHHHHHHHHHTCCSTTCEEEEEEESCGGGSCHHHHSTTSSCEEEECCSCCHHHHH
T ss_pred             CeEeeehhhhhhcccCCCcchHHHHHHHHHHHhhhcccccCCEEEEeecCChhhCCHhhcCcccCCeEEEeCCcCHHHHH
Confidence            8999999965210           0111222222221  22344555666554321  111   1245778888888888


Q ss_pred             HHHHHhh
Q 047559          355 SLFMMHA  361 (444)
Q Consensus       355 ~lf~~~~  361 (444)
                      ++|....
T Consensus       185 ~il~~~~  191 (274)
T 2x8a_A          185 AILKTIT  191 (274)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHHH
Confidence            8887654

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=97.18  E-value=0.0021  Score=61.63  Aligned_cols=24  Identities=29%  Similarity=0.461  Sum_probs=21.4

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..+.++|++|+|||++|+.+.+..
T Consensus        73 ~~ill~Gp~GtGKT~la~~la~~l   96 (376)
T 1um8_A           73 SNILLIGPTGSGKTLMAQTLAKHL   96 (376)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHh
Confidence            468999999999999999998764

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=97.01  E-value=0.0094  Score=59.06  Aligned_cols=175  Identities=14%  Similarity=0.147  Sum_probs=89.1

Q ss_pred             CcccccchhHHHHHHH---HhcCCC---CCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHH
Q 047559          184 RAVFGRQQDKAKMLEM---VLTDTS---SDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVL  257 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~---L~~~~~---~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~  257 (444)
                      .+++|.+..+.++.+.   +.....   -+..-.+-+.|+|++|+|||+||+.++....  .    ..+.++.+.-... 
T Consensus        31 ~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~~--~----~~i~i~g~~~~~~-  103 (499)
T 2dhr_A           31 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEAR--V----PFITASGSDFVEM-  103 (499)
T ss_dssp             TSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHTT--C----CEEEEEGGGGTSS-
T ss_pred             HHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHhC--C----CEEEEehhHHHHh-
Confidence            4588988766666544   322110   0001123489999999999999999997642  1    2233443321100 


Q ss_pred             HHHHHHHHHhccCCCCcccHHHHHHHHHHHhC----CceEEEEEeCCCCCCh----------hc----HHHhhcccCCC-
Q 047559          258 NISRALLESITFASCDLKALNEVQVQIKRAVD----GKKLLLVLDDVWNEDY----------CL----WEDLKAPFLAA-  318 (444)
Q Consensus       258 ~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~----~kr~LlVlDdv~~~~~----------~~----~~~l~~~l~~~-  318 (444)
                                        ........+...++    ..+.++++|+++....          ..    ...+...+... 
T Consensus       104 ------------------~~g~~~~~v~~lfq~a~~~~p~il~IDEId~l~~~r~~~~~~~~~e~~~~l~~LL~~Ldg~~  165 (499)
T 2dhr_A          104 ------------------FVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFE  165 (499)
T ss_dssp             ------------------CTTHHHHHHHHHTTTSSSSSSCEEEEECGGGTCCCSSSSTTTSSHHHHHHHHHHHHHGGGCC
T ss_pred             ------------------hhhhHHHHHHHHHHHHHhcCCCEEEEehHHHHHHhhccCcCCCcHHHHHHHHHHHHHhcccc
Confidence                              00111122333332    2357999999954210          11    12233333221 


Q ss_pred             -CCCcEEEEecCChHHHh--hcCC---CCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCCh
Q 047559          319 -APNSKIIVTTRHAHVAA--TMEP---IQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLP  388 (444)
Q Consensus       319 -~~gs~iivTTr~~~va~--~~~~---~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~P  388 (444)
                       ..+..|+.||..+....  ...+   ...+.+...+.++-.+++..++-. .....+..+    ..|+..+.|+.
T Consensus       166 ~~~~viviAatn~p~~LD~aLlr~gRfdr~i~i~~Pd~~~R~~IL~~~~~~-~~l~~dv~l----~~lA~~t~G~~  236 (499)
T 2dhr_A          166 KDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARG-KPLAEDVDL----ALLAKRTPGFV  236 (499)
T ss_dssp             SSCCCEEEECCSCGGGSCTTTSSTTSSCCEEECCCCCHHHHHHHHHHTTSS-SCCCCSSTT----HHHHTTSCSCC
T ss_pred             cCccEEEEEecCChhhcCcccccccccceEEecCCCCHHHHHHHHHHHHhc-CCCChHHHH----HHHHHhcCCCC
Confidence             23445666666665421  1111   135788888888888888766422 111111222    34777777765

>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=96.98  E-value=0.0042  Score=52.00  Aligned_cols=20  Identities=45%  Similarity=0.713  Sum_probs=18.9

Q ss_pred             eEEEEEecCCChHHHHHHHH
Q 047559          212 AVIPIVGMAGVGKTTLAREV  231 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v  231 (444)
                      .+|.|.|++|+||||+|+.+
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L   21 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL   21 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            47999999999999999999

>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G

Probab=96.97  E-value=0.0021  Score=60.85  Aligned_cols=46  Identities=22%  Similarity=0.308  Sum_probs=32.8

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..++|.+..+..+...+....      ..-+.|+|++|+|||+||+.+.+..
T Consensus        24 ~~i~G~~~~~~~l~~~~~~~~------~~~vLl~G~~GtGKT~la~~la~~~   69 (350)
T 1g8p_A           24 SAIVGQEDMKLALLLTAVDPG------IGGVLVFGDRGTGKSTAVRALAALL   69 (350)
T ss_dssp             GGSCSCHHHHHHHHHHHHCGG------GCCEEEECCGGGCTTHHHHHHHHHS
T ss_pred             hhccChHHHHHHHHHHhhCCC------CceEEEECCCCccHHHHHHHHHHhC
Confidence            358998876655544443221      1248999999999999999998753

>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=96.92  E-value=0.00058  Score=60.19  Aligned_cols=110  Identities=14%  Similarity=-0.011  Sum_probs=60.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCC--CcccHHHHHHHHHHHhC
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASC--DLKALNEVQVQIKRAVD  289 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~--~~~~~~~~~~~l~~~l~  289 (444)
                      .++.|.|..|+||||++..+..+....+  . .++.++...+..   ....+.+.++....  ......++...+.+.+.
T Consensus        13 ~i~litG~mGsGKTT~ll~~~~r~~~~g--~-kVli~~~~~d~r---~~~~i~srlG~~~~~~~~~~~~~i~~~i~~~~~   86 (223)
T 2b8t_A           13 WIEFITGPMFAGKTAELIRRLHRLEYAD--V-KYLVFKPKIDTR---SIRNIQSRTGTSLPSVEVESAPEILNYIMSNSF   86 (223)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHHHHHTT--C-CEEEEEECCCGG---GCSSCCCCCCCSSCCEEESSTHHHHHHHHSTTS
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHhcC--C-EEEEEEeccCch---HHHHHHHhcCCCccccccCCHHHHHHHHHHHhh
Confidence            7999999999999999988877653322  2 223333222111   11123333332211  11223344445554444


Q ss_pred             CceE-EEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCC
Q 047559          290 GKKL-LLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRH  330 (444)
Q Consensus       290 ~kr~-LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~  330 (444)
                      +.++ +||+|.+...+....+.+. .+.+  .|..||+|.+.
T Consensus        87 ~~~~dvViIDEaQ~l~~~~ve~l~-~L~~--~gi~Vil~Gl~  125 (223)
T 2b8t_A           87 NDETKVIGIDEVQFFDDRICEVAN-ILAE--NGFVVIISGLD  125 (223)
T ss_dssp             CTTCCEEEECSGGGSCTHHHHHHH-HHHH--TTCEEEEECCS
T ss_pred             CCCCCEEEEecCccCcHHHHHHHH-HHHh--CCCeEEEEecc
Confidence            4444 9999999765444444443 3333  27889999983

>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=96.86  E-value=0.0034  Score=59.29  Aligned_cols=84  Identities=20%  Similarity=0.192  Sum_probs=54.2

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCC-----CcccHHHHHHHHH
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASC-----DLKALNEVQVQIK  285 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~-----~~~~~~~~~~~l~  285 (444)
                      -.++.|.|++|+|||||+.++.......   -..++|++....++..     .++.++....     ...+.++....+.
T Consensus        61 G~i~~I~GppGsGKSTLal~la~~~~~~---gg~VlyId~E~s~~~~-----ra~rlgv~~~~l~i~~~~~~e~~l~~~~  132 (356)
T 3hr8_A           61 GRIVEIFGQESSGKTTLALHAIAEAQKM---GGVAAFIDAEHALDPV-----YAKNLGVDLKSLLISQPDHGEQALEIVD  132 (356)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHHHHHT---TCCEEEEESSCCCCHH-----HHHHHTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHhc---CCeEEEEecccccchH-----HHHHcCCchhhhhhhhccCHHHHHHHHH
Confidence            3799999999999999999998764322   2346788877666654     3344433211     2334555555555


Q ss_pred             HHhC-CceEEEEEeCCCC
Q 047559          286 RAVD-GKKLLLVLDDVWN  302 (444)
Q Consensus       286 ~~l~-~kr~LlVlDdv~~  302 (444)
                      ..+. .+.-++|+|.+..
T Consensus       133 ~l~~~~~~dlvVIDSi~~  150 (356)
T 3hr8_A          133 ELVRSGVVDLIVVDSVAA  150 (356)
T ss_dssp             HHHHTSCCSEEEEECTTT
T ss_pred             HHhhhcCCCeEEehHhhh
Confidence            5553 4556899999854

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=96.86  E-value=0.0025  Score=56.28  Aligned_cols=114  Identities=18%  Similarity=0.115  Sum_probs=60.4

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCC-------------------
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASC-------------------  272 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~-------------------  272 (444)
                      .++.|+|++|+|||||++.+........   ..+.|++...  ...++...+. .++....                   
T Consensus        24 ~~~~i~G~~GsGKTtl~~~l~~~~~~~~---~~v~~~~~~~--~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (235)
T 2w0m_A           24 FFIALTGEPGTGKTIFSLHFIAKGLRDG---DPCIYVTTEE--SRDSIIRQAK-QFNWDFEEYIEKKLIIIDALMKEKED   97 (235)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHHHHT---CCEEEEESSS--CHHHHHHHHH-HTTCCCGGGBTTTEEEEECCC----C
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHHHHCC---CeEEEEEccc--CHHHHHHHHH-HhcchHHHHhhCCEEEEeccccccCc
Confidence            6899999999999999999986532211   2345655433  3444433332 2221100                   


Q ss_pred             ----CcccHHHHHHHHHHHhC---CceEEEEEeCCCCC---ChhcHHHhhcccCC--CCCCcEEEEecCCh
Q 047559          273 ----DLKALNEVQVQIKRAVD---GKKLLLVLDDVWNE---DYCLWEDLKAPFLA--AAPNSKIIVTTRHA  331 (444)
Q Consensus       273 ----~~~~~~~~~~~l~~~l~---~kr~LlVlDdv~~~---~~~~~~~l~~~l~~--~~~gs~iivTTr~~  331 (444)
                          ...+..++...+...+.   -+..+||+|.+...   +......+...+..  ...|..||++|...
T Consensus        98 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~llilDe~~~~~~~d~~~~~~~~~~l~~~~~~~~~~vi~~~h~~  168 (235)
T 2w0m_A           98 QWSLVNLTPEELVNKVIEAKQKLGYGKARLVIDSVSALFLDKPAMARKISYYLKRVLNKWNFTIYATSQYA  168 (235)
T ss_dssp             TTBCSSCCHHHHHHHHHHHHHHHCSSCEEEEEETGGGGSSSCGGGHHHHHHHHHHHHHHTTEEEEEEEC--
T ss_pred             eeeecCCCHHHHHHHHHHHHHhhCCCceEEEEECchHhhcCCHHHHHHHHHHHHHHHHhCCCeEEEEeccC
Confidence                01134455555554442   22349999998632   22222333332221  23477888888765

>3io5_A Recombination and repair protein; storage dimer, inactive conformation, RECA like core domain, binding, DNA damage, DNA recombination; 2.40A {Enterobacteria phage T4}

Probab=96.79  E-value=0.0057  Score=56.38  Aligned_cols=85  Identities=12%  Similarity=0.129  Sum_probs=54.3

Q ss_pred             EEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCC-----CcccHHHH-HHHHHH
Q 047559          213 VIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASC-----DLKALNEV-QVQIKR  286 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~-----~~~~~~~~-~~~l~~  286 (444)
                      ++-|.|++|+|||||+.++........ .-..++|++....++..     .++.++....     ...+.++. ...+..
T Consensus        30 iteI~G~pGsGKTtL~Lq~~~~~~~~g-~g~~vlyId~E~s~~~~-----ra~~lGvd~d~llv~~~~~~E~~~l~i~~~  103 (333)
T 3io5_A           30 LLILAGPSKSFKSNFGLTMVSSYMRQY-PDAVCLFYDSEFGITPA-----YLRSMGVDPERVIHTPVQSLEQLRIDMVNQ  103 (333)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHHHHC-TTCEEEEEESSCCCCHH-----HHHHTTCCGGGEEEEECSBHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHhcC-CCceEEEEeccchhhHH-----HHHHhCCCHHHeEEEcCCCHHHHHHHHHHH
Confidence            789999999999999988876543221 12467899888777753     2455554322     12344444 333333


Q ss_pred             H--h-CCceEEEEEeCCCCC
Q 047559          287 A--V-DGKKLLLVLDDVWNE  303 (444)
Q Consensus       287 ~--l-~~kr~LlVlDdv~~~  303 (444)
                      .  + .++.-|||+|-+...
T Consensus       104 l~~i~~~~~~lvVIDSI~aL  123 (333)
T 3io5_A          104 LDAIERGEKVVVFIDSLGNL  123 (333)
T ss_dssp             HHTCCTTCCEEEEEECSTTC
T ss_pred             HHHhhccCceEEEEeccccc
Confidence            2  3 456789999999553

>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=96.75  E-value=0.012  Score=55.57  Aligned_cols=92  Identities=13%  Similarity=0.162  Sum_probs=56.2

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhcccccc---CCcceeEEEEeCCCCCHHHHHHHHHHHhccCC------------CCc
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDRAVED---SKFDVKAWVCVSDDFDVLNISRALLESITFAS------------CDL  274 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~---~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~------------~~~  274 (444)
                      .-.++.|+|.+|+||||||..+........   +.-..++|++....++...+.. ++..++...            ...
T Consensus       121 ~G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~~~~~~~l~~-~~~~~g~~~~~~l~~l~~~~~~~~  199 (343)
T 1v5w_A          121 SMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRD-IADRFNVDHDAVLDNVLYARAYTS  199 (343)
T ss_dssp             SSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHHHHH-HHHHTTCCHHHHHHTEEEEECCST
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHH-HHHHcCCCHHHHHhceeEeecCCH
Confidence            347999999999999999999876532210   0124678999888777666543 333333211            111


Q ss_pred             ccHHHHHHHHHHHhC---CceEEEEEeCCCC
Q 047559          275 KALNEVQVQIKRAVD---GKKLLLVLDDVWN  302 (444)
Q Consensus       275 ~~~~~~~~~l~~~l~---~kr~LlVlDdv~~  302 (444)
                      ....++...+...+.   .+.-+||+|.+..
T Consensus       200 e~~~~ll~~l~~~i~~~~~~~~lvVIDsl~~  230 (343)
T 1v5w_A          200 EHQMELLDYVAAKFHEEAGIFKLLIIDSIMA  230 (343)
T ss_dssp             THHHHHHHHHHHHHHHSCSSEEEEEEETSGG
T ss_pred             HHHHHHHHHHHHHHHhcCCCccEEEEechHH
Confidence            222233444555553   4566999999843

>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=96.72  E-value=0.0077  Score=53.49  Aligned_cols=90  Identities=12%  Similarity=0.130  Sum_probs=52.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcccccc---CCcceeEEEEeCCCCCHHHHHHHHHHHhccCC---------CCcccHH-
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVED---SKFDVKAWVCVSDDFDVLNISRALLESITFAS---------CDLKALN-  278 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~---~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~---------~~~~~~~-  278 (444)
                      .++.|+|++|+|||||+..+........   +.-..++|++....+....+. .++..++...         ....+.. 
T Consensus        25 ~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~~~~~~~~~-~~~~~~g~~~~~~~~~~~~~~~~~~~~  103 (243)
T 1n0w_A           25 SITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLL-AVAERYGLSGSDVLDNVAYARAFNTDH  103 (243)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHH-HHHHHTTCCHHHHHHTEEEEECCSHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCCCcCHHHHH-HHHHHcCCCHHHHhhCeEEEecCCHHH
Confidence            6999999999999999999886421110   013467888877655554432 3333333211         0011122 


Q ss_pred             --HHHHHHHHHhC-CceEEEEEeCCCC
Q 047559          279 --EVQVQIKRAVD-GKKLLLVLDDVWN  302 (444)
Q Consensus       279 --~~~~~l~~~l~-~kr~LlVlDdv~~  302 (444)
                        .....+.+.+. .+.-+||||++..
T Consensus       104 ~~~~~~~~~~~~~~~~~~lliiD~~~~  130 (243)
T 1n0w_A          104 QTQLLYQASAMMVESRYALLIVDSATA  130 (243)
T ss_dssp             HHHHHHHHHHHHHHSCEEEEEEETSSG
T ss_pred             HHHHHHHHHHHHhcCCceEEEEeCchH
Confidence              22333445553 4677999999854

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=96.69  E-value=0.0057  Score=58.15  Aligned_cols=83  Identities=18%  Similarity=0.155  Sum_probs=54.3

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCC-----CcccHHHHHHHHHH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASC-----DLKALNEVQVQIKR  286 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~-----~~~~~~~~~~~l~~  286 (444)
                      .++.|.|.+|+||||||.++......   .-..++|++....++..     ..+.++....     ...+.+++...+..
T Consensus        75 ~li~I~G~pGsGKTtlal~la~~~~~---~g~~vlyi~~E~s~~~~-----~a~~~g~d~~~l~i~~~~~~e~~l~~l~~  146 (366)
T 1xp8_A           75 RITEIYGPESGGKTTLALAIVAQAQK---AGGTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIMEL  146 (366)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHHH---TTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             cEEEEEcCCCCChHHHHHHHHHHHHH---CCCeEEEEECCCChhHH-----HHHHcCCCHHHceeecCCcHHHHHHHHHH
Confidence            68999999999999999988765422   22367899888766643     1333332211     22345666666666


Q ss_pred             HhC-CceEEEEEeCCCC
Q 047559          287 AVD-GKKLLLVLDDVWN  302 (444)
Q Consensus       287 ~l~-~kr~LlVlDdv~~  302 (444)
                      .++ ...-+||+|.+..
T Consensus       147 l~~~~~~~lVVIDsl~~  163 (366)
T 1xp8_A          147 LVRSGAIDVVVVDSVAA  163 (366)
T ss_dssp             HHTTTCCSEEEEECTTT
T ss_pred             HHhcCCCCEEEEeChHH
Confidence            654 3455999999844

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=96.66  E-value=0.029  Score=49.58  Aligned_cols=24  Identities=25%  Similarity=0.516  Sum_probs=21.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+++|+|+.|.|||||.+.+..-.
T Consensus        35 e~~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           35 QLLAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            589999999999999999998653

>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A*

Probab=96.65  E-value=0.0067  Score=56.80  Aligned_cols=90  Identities=14%  Similarity=0.195  Sum_probs=55.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcccccc---CCcceeEEEEeCCCCCHHHHHHHHHHHhccCC---------CCcccHH-
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVED---SKFDVKAWVCVSDDFDVLNISRALLESITFAS---------CDLKALN-  278 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~---~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~---------~~~~~~~-  278 (444)
                      .++.|+|.+|+|||+||.++........   +.-..++|++....++..++.. ++..++...         ....+.+ 
T Consensus       108 ~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~~~~~~~l~~-~~~~~g~~~~~~~~~l~~~~~~~~~~  186 (324)
T 2z43_A          108 TMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGTFRWERIEN-MAKALGLDIDNVMNNIYYIRAINTDH  186 (324)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHHHHH-HHHHTTCCHHHHHHTEEEEECCSHHH
T ss_pred             cEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHH-HHHHhCCCHHHHhccEEEEeCCCHHH
Confidence            6999999999999999999876532110   0134678998888777666543 344443211         0111222 


Q ss_pred             --HHHHHHHHHhC--CceEEEEEeCCCC
Q 047559          279 --EVQVQIKRAVD--GKKLLLVLDDVWN  302 (444)
Q Consensus       279 --~~~~~l~~~l~--~kr~LlVlDdv~~  302 (444)
                        ++...+...+.  .+.-+||+|.+..
T Consensus       187 ~~~~l~~l~~~~~~~~~~~lvVIDsl~~  214 (324)
T 2z43_A          187 QIAIVDDLQELVSKDPSIKLIVVDSVTS  214 (324)
T ss_dssp             HHHHHHHHHHHHHHCTTEEEEEETTTTH
T ss_pred             HHHHHHHHHHHHHhccCCCEEEEeCcHH
Confidence              34445555553  4667999999843

>3ice_A Transcription termination factor RHO; transcription, ATPase, hexamer, helicase, RNA, RECA, OB fold ATP-binding, hydrolase; HET: MSE ADP SPD; 2.80A {Escherichia coli k-12} PDB: 1pv4_A 1pvo_A* 1xpo_A* 1xpr_A* 1xpu_A* 2ht1_A

Probab=96.65  E-value=0.0024  Score=60.40  Aligned_cols=101  Identities=15%  Similarity=0.196  Sum_probs=53.1

Q ss_pred             HHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCC-HHHHHHHHHHHhccCCCC
Q 047559          195 KMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFD-VLNISRALLESITFASCD  273 (444)
Q Consensus       195 ~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~-~~~~~~~il~~l~~~~~~  273 (444)
                      .+++.+..-..     -..++|+|.+|+|||||++.+.+........+.+ +++-++.... +.++.+.+-..+-....+
T Consensus       163 raID~~~pi~r-----GQr~~IvG~sG~GKTtLl~~Iar~i~~~~~~v~~-I~~lIGER~~Ev~~~~~~~~~~vV~atad  236 (422)
T 3ice_A          163 RVLDLASPIGR-----GQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCVL-MVLLIDERPEEVTEMQRLVKGEVVASTFD  236 (422)
T ss_dssp             HHHHHHSCCBT-----TCEEEEECCSSSSHHHHHHHHHHHHHHHCTTSEE-EEEEESSCHHHHHHHHTTCSSEEEEECTT
T ss_pred             eeeeeeeeecC-----CcEEEEecCCCCChhHHHHHHHHHHhhcCCCeeE-EEEEecCChHHHHHHHHHhCeEEEEeCCC
Confidence            44555544322     2589999999999999999887653222112333 4566775432 222222210001111111


Q ss_pred             cccHHH-----HHHHHHHHh--CCceEEEEEeCCC
Q 047559          274 LKALNE-----VQVQIKRAV--DGKKLLLVLDDVW  301 (444)
Q Consensus       274 ~~~~~~-----~~~~l~~~l--~~kr~LlVlDdv~  301 (444)
                      .+....     ..-.+.+++  +++.+||++||+-
T Consensus       237 ep~~~r~~~a~~alt~AEyfrd~G~dVLil~DslT  271 (422)
T 3ice_A          237 EPASRHVQVAEMVIEKAKRLVEHKKDVIILLDSIT  271 (422)
T ss_dssp             SCHHHHHHHHHHHHHHHHHHHHTSCEEEEEEECHH
T ss_pred             CCHHHHHHHHHHHHHHHHHHHhcCCCEEEEEeCch
Confidence            111111     111233444  6899999999983

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.63  E-value=0.0022  Score=55.55  Aligned_cols=44  Identities=23%  Similarity=0.271  Sum_probs=33.7

Q ss_pred             cchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          189 RQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       189 r~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      |++.++.+.+.+.....   ....+|+|.|..|+|||||++.+....
T Consensus         3 ~~~~~~~l~~~~~~~~~---~~~~~i~i~G~~GsGKstl~~~l~~~~   46 (201)
T 1rz3_A            3 LRDRIDFLCKTILAIKT---AGRLVLGIDGLSRSGKTTLANQLSQTL   46 (201)
T ss_dssp             HHHHHHHHHHHHHTSCC---SSSEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcc---CCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            45567778887765422   344799999999999999999987643

>1g5t_A COB(I)alamin adenosyltransferase; P-loop protein, cobalamin biosynthesis, RECA fold; HET: ATP; 1.80A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1g5r_A* 1g64_A*

Probab=96.60  E-value=0.0025  Score=54.58  Aligned_cols=116  Identities=22%  Similarity=0.203  Sum_probs=61.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCC---CCCHHHHHHHHHHHhccC------CCCc-------c
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSD---DFDVLNISRALLESITFA------SCDL-------K  275 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~---~~~~~~~~~~il~~l~~~------~~~~-------~  275 (444)
                      ..|.|++-.|.||||+|--..-+.-  . +=-.+.++....   ......++..+  .+...      ....       .
T Consensus        29 g~i~v~tG~GkGKTTaA~GlalRA~--g-~G~rV~~vQF~Kg~~~~gE~~~l~~L--~v~~~~~g~gf~~~~~~~~~~~~  103 (196)
T 1g5t_A           29 GIIIVFTGNGKGKTTAAFGTAARAV--G-HGKNVGVVQFIKGTWPNGERNLLEPH--GVEFQVMATGFTWETQNREADTA  103 (196)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHHHHH--H-TTCCEEEEESSCCSSCCHHHHHHGGG--TCEEEECCTTCCCCGGGHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHH--H-CCCeEEEEEeeCCCCCccHHHHHHhC--CcEEEEcccccccCCCCcHHHHH
Confidence            4566777777999999977665432  1 222333443332   22333333333  01000      0011       1


Q ss_pred             cHHHHHHHHHHHhCCceE-EEEEeCCCC---CChhcHHHhhcccCCCCCCcEEEEecCChH
Q 047559          276 ALNEVQVQIKRAVDGKKL-LLVLDDVWN---EDYCLWEDLKAPFLAAAPNSKIIVTTRHAH  332 (444)
Q Consensus       276 ~~~~~~~~l~~~l~~kr~-LlVlDdv~~---~~~~~~~~l~~~l~~~~~gs~iivTTr~~~  332 (444)
                      ........+.+.+.+.+| |||||++-.   ......+.+...+.......-||+|+|...
T Consensus       104 ~a~~~l~~a~~~l~~~~yDlvILDEi~~al~~g~l~~~ev~~~l~~Rp~~~~vIlTGr~ap  164 (196)
T 1g5t_A          104 ACMAVWQHGKRMLADPLLDMVVLDELTYMVAYDYLPLEEVISALNARPGHQTVIITGRGCH  164 (196)
T ss_dssp             HHHHHHHHHHHHTTCTTCSEEEEETHHHHHHTTSSCHHHHHHHHHTSCTTCEEEEECSSCC
T ss_pred             HHHHHHHHHHHHHhcCCCCEEEEeCCCccccCCCCCHHHHHHHHHhCcCCCEEEEECCCCc
Confidence            112233445566655555 999999832   122345566666666666788999999753

>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP complex, calcium stimulation, RECA, DMC1; HET: DNA ANP; 1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11 PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A* 3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ntu_A* 3ewa_A* 3ew9_A* 3etl_A* 4dc9_A* 2gdj_A*

Probab=96.58  E-value=0.0091  Score=55.81  Aligned_cols=90  Identities=14%  Similarity=0.163  Sum_probs=55.6

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhccccc----------c-C-C-cceeEEEEeCCCCCHHHHHHHHHHHhccCC------
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDRAVE----------D-S-K-FDVKAWVCVSDDFDVLNISRALLESITFAS------  271 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~----------~-~-~-f~~~~wv~vs~~~~~~~~~~~il~~l~~~~------  271 (444)
                      -.++.|.|.+|+|||+||.++.......          . + . -..++|++....++..++... +..++...      
T Consensus        98 g~i~~i~G~~gsGKT~la~~la~~~~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~~~~~~l~~~-~~~~g~~~~~~~~~  176 (322)
T 2i1q_A           98 QSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQM-AEHAGIDGQTVLDN  176 (322)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHHHHHHH-HHHHTCCHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhccccccccccccccCCCCCceEEEEECCCCCCHHHHHHH-HHHcCCCHHHHhcC
Confidence            3799999999999999999987542111          0 0 0 046789998887777665533 34443221      


Q ss_pred             ---CCcccHH---HHHHHHHHHhC--CceEEEEEeCCC
Q 047559          272 ---CDLKALN---EVQVQIKRAVD--GKKLLLVLDDVW  301 (444)
Q Consensus       272 ---~~~~~~~---~~~~~l~~~l~--~kr~LlVlDdv~  301 (444)
                         ....+.+   ++...+...+.  .+.-+||+|.+.
T Consensus       177 l~~~~~~~~~~~~~~l~~l~~~~~~~~~~~lvVIDsl~  214 (322)
T 2i1q_A          177 TFVARAYNSDMQMLFAEKIEDLIQEGNNIKLVVIDSLT  214 (322)
T ss_dssp             EEEEECSSHHHHHHHHHTHHHHHHTTCEEEEEEEECSS
T ss_pred             EEEEeCCCHHHHHHHHHHHHHHHhhccCccEEEEECcH
Confidence               0111222   34445556554  456699999984

>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=96.56  E-value=0.007  Score=57.22  Aligned_cols=84  Identities=19%  Similarity=0.169  Sum_probs=53.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCC-----CcccHHHHHHHHHH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASC-----DLKALNEVQVQIKR  286 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~-----~~~~~~~~~~~l~~  286 (444)
                      .++.|.|.+|+||||||.++......   .-..++|++....++..     ..+.++....     ...+.++....+..
T Consensus        62 ~iv~I~G~pGsGKTtLal~la~~~~~---~g~~vlyi~~E~~~~~~-----~a~~lG~~~~~l~i~~~~~~e~~l~~~~~  133 (349)
T 2zr9_A           62 RVIEIYGPESSGKTTVALHAVANAQA---AGGIAAFIDAEHALDPE-----YAKKLGVDTDSLLVSQPDTGEQALEIADM  133 (349)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHHH---TTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHh---CCCeEEEEECCCCcCHH-----HHHHcCCCHHHeEEecCCCHHHHHHHHHH
Confidence            69999999999999999998865322   22357888887766643     2333432211     12345555555555


Q ss_pred             HhC-CceEEEEEeCCCCC
Q 047559          287 AVD-GKKLLLVLDDVWNE  303 (444)
Q Consensus       287 ~l~-~kr~LlVlDdv~~~  303 (444)
                      ... .+.-+||+|.+...
T Consensus       134 l~~~~~~~lIVIDsl~~l  151 (349)
T 2zr9_A          134 LVRSGALDIIVIDSVAAL  151 (349)
T ss_dssp             HHTTTCCSEEEEECGGGC
T ss_pred             HHhcCCCCEEEEcChHhh
Confidence            553 34569999998543

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=96.54  E-value=0.019  Score=50.99  Aligned_cols=24  Identities=29%  Similarity=0.616  Sum_probs=21.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+++|+|+.|+|||||++.+..-.
T Consensus        32 e~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           32 ALVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTCS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            589999999999999999998653

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=96.44  E-value=0.03  Score=50.96  Aligned_cols=51  Identities=31%  Similarity=0.405  Sum_probs=32.6

Q ss_pred             CcccccchhHHHHHHHHhcCCC-------CCCCCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTS-------SDHSNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~-------~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+++|.+..+.++.+....-..       +-... +-+.|+|++|+|||||++.+....
T Consensus        40 ~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~-~gvll~Gp~GtGKTtl~~~i~~~~   97 (278)
T 1iy2_A           40 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIP-KGVLLVGPPGVGKTHLARAVAGEA   97 (278)
T ss_dssp             GGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCC-CEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             HHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCC-CeEEEECCCcChHHHHHHHHHHHc
Confidence            4688887666655443321000       00011 238999999999999999998764

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=96.41  E-value=0.0058  Score=53.09  Aligned_cols=23  Identities=26%  Similarity=0.566  Sum_probs=20.8

Q ss_pred             EEEEEecCCChHHHHHHHHhhcc
Q 047559          213 VIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      +|.|.|++|+||+|.|+.+....
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~   24 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEK   24 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68899999999999999998764

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=96.39  E-value=0.00055  Score=58.54  Aligned_cols=108  Identities=11%  Similarity=0.007  Sum_probs=51.4

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccC--CCCcccHHHHHHHHHHHhC
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFA--SCDLKALNEVQVQIKRAVD  289 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~--~~~~~~~~~~~~~l~~~l~  289 (444)
                      .++.|+|+.|+||||++..+..+....+  .. +..+....+.  ......+...++..  .....+..    .+.+.+.
T Consensus         4 ~i~vi~G~~gsGKTT~ll~~~~~~~~~g--~~-v~~~~~~~d~--r~~~~~i~s~~g~~~~~~~~~~~~----~~~~~~~   74 (184)
T 2orw_A            4 KLTVITGPMYSGKTTELLSFVEIYKLGK--KK-VAVFKPKIDS--RYHSTMIVSHSGNGVEAHVIERPE----EMRKYIE   74 (184)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHHHTT--CE-EEEEEEC-------CCCEECC----CEECEEESSGG----GGGGGCC
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHCC--Ce-EEEEeecccc--ccCcccEEecCCCceeeEEECCHH----HHHHHhc
Confidence            5889999999999999976665532221  22 2222221110  00000000000000  00001111    1222333


Q ss_pred             CceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCCh
Q 047559          290 GKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHA  331 (444)
Q Consensus       290 ~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~  331 (444)
                      ++.-+|++|++...+.. |......+.+.  |..||+|.+..
T Consensus        75 ~~~dvviIDE~Q~~~~~-~~~~l~~l~~~--~~~Vi~~Gl~~  113 (184)
T 2orw_A           75 EDTRGVFIDEVQFFNPS-LFEVVKDLLDR--GIDVFCAGLDL  113 (184)
T ss_dssp             TTEEEEEECCGGGSCTT-HHHHHHHHHHT--TCEEEEEEESB
T ss_pred             CCCCEEEEECcccCCHH-HHHHHHHHHHC--CCCEEEEeecc
Confidence            45669999999776444 44433333332  77899888743

>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=96.30  E-value=0.02  Score=51.88  Aligned_cols=23  Identities=35%  Similarity=0.561  Sum_probs=20.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|+|||||++.+..-
T Consensus        38 e~~~liG~nGsGKSTLl~~l~Gl   60 (266)
T 4g1u_C           38 EMVAIIGPNGAGKSTLLRLLTGY   60 (266)
T ss_dssp             CEEEEECCTTSCHHHHHHHHTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHhcC
Confidence            58999999999999999999753

>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=96.29  E-value=0.015  Score=52.07  Aligned_cols=23  Identities=43%  Similarity=0.585  Sum_probs=20.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        36 e~~~i~G~nGsGKSTLl~~l~Gl   58 (247)
T 2ff7_A           36 EVIGIVGRSGSGKSTLTKLIQRF   58 (247)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            58999999999999999999754

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A

Probab=96.27  E-value=0.011  Score=55.94  Aligned_cols=83  Identities=18%  Similarity=0.163  Sum_probs=52.3

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCC-----CcccHHHHHHHHHH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASC-----DLKALNEVQVQIKR  286 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~-----~~~~~~~~~~~l~~  286 (444)
                      .++.|.|.+|+||||||.++.......   -..++|++....++...     ...++....     ...+.+++...+..
T Consensus        64 ~ii~I~G~pGsGKTtLal~la~~~~~~---g~~vlyid~E~s~~~~~-----a~~~g~~~~~l~i~~~~~~e~~~~~~~~  135 (356)
T 1u94_A           64 RIVEIYGPESSGKTTLTLQVIAAAQRE---GKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEICDA  135 (356)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHHHHT---TCCEEEEESSCCCCHHH-----HHHTTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHC---CCeEEEEeCCCCccHHH-----HHHcCCChhheeeeCCCCHHHHHHHHHH
Confidence            699999999999999999988654322   23678898877666432     333332211     12234444444544


Q ss_pred             Hh-CCceEEEEEeCCCC
Q 047559          287 AV-DGKKLLLVLDDVWN  302 (444)
Q Consensus       287 ~l-~~kr~LlVlDdv~~  302 (444)
                      .. ..+.-+||+|.+..
T Consensus       136 l~~~~~~~lVVIDsl~~  152 (356)
T 1u94_A          136 LARSGAVDVIVVDSVAA  152 (356)
T ss_dssp             HHHHTCCSEEEEECGGG
T ss_pred             HHhccCCCEEEEcCHHH
Confidence            43 24455999999854

>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP: a.69.1.1 b.49.1.1 c.37.1.11

Probab=96.24  E-value=0.014  Score=56.94  Aligned_cols=89  Identities=20%  Similarity=0.262  Sum_probs=52.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCC-HHHHHHHHHHHhc--------cCCCCcccHHH---
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFD-VLNISRALLESIT--------FASCDLKALNE---  279 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~-~~~~~~~il~~l~--------~~~~~~~~~~~---  279 (444)
                      ..++|+|.+|+|||||++.+.......  +.+.++++.++...+ ..+++..+...-.        ....+......   
T Consensus       152 q~~~i~G~sGvGKTtL~~~l~~~~~~~--~~~i~V~~~iGerttev~el~~~l~~~~~l~~tvvv~~~~~d~pg~r~~~~  229 (473)
T 1sky_E          152 GKIGLFGGAGVGKTVLIQELIHNIAQE--HGGISVFAGVGERTREGNDLYHEMKDSGVISKTAMVFGQMNEPPGARMRVA  229 (473)
T ss_dssp             CEEEEECCSSSCHHHHHHHHHHHHHHH--TCCCEEEEEESSCHHHHHHHHHHHHHTSGGGGEEEEEECTTSCHHHHHHHH
T ss_pred             CEEEEECCCCCCccHHHHHHHhhhhhc--cCcEEEEeeeccCchHHHHHHHHhhhcCCcceeEEEEEcCCCCHHHHHHHH
Confidence            468999999999999999988764322  334557777776543 3455544543200        11112221111   


Q ss_pred             -HHHHHHHHh---CCceEEEEEeCCCC
Q 047559          280 -VQVQIKRAV---DGKKLLLVLDDVWN  302 (444)
Q Consensus       280 -~~~~l~~~l---~~kr~LlVlDdv~~  302 (444)
                       ..-.+.+++   +++++||++||+..
T Consensus       230 ~~~ltiAEyFrd~~G~~VLl~~D~itR  256 (473)
T 1sky_E          230 LTGLTMAEYFRDEQGQDGLLFIDNIFR  256 (473)
T ss_dssp             HHHHHHHHHHHHHSCCEEEEEEECTHH
T ss_pred             HHHHHHHHHHHHhcCCcEEEEeccHHH
Confidence             111344444   58899999999943

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=96.21  E-value=0.015  Score=53.56  Aligned_cols=26  Identities=27%  Similarity=0.277  Sum_probs=22.4

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhccc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDRA  236 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~  236 (444)
                      ..+++|+|++|+||||++..+.....
T Consensus       105 g~vi~lvG~~GsGKTTl~~~LA~~l~  130 (296)
T 2px0_A          105 SKYIVLFGSTGAGKTTTLAKLAAISM  130 (296)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHH
Confidence            36999999999999999999886543

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.20  E-value=0.018  Score=53.51  Aligned_cols=47  Identities=21%  Similarity=0.156  Sum_probs=32.6

Q ss_pred             ccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhc
Q 047559          186 VFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       186 ~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ++|....+..+...+.....  .....+|+|.|+.|+|||||++.+..-
T Consensus        69 ~~~~~~~l~~~~~~~l~~~~--~~~p~iigI~GpsGSGKSTl~~~L~~l  115 (321)
T 3tqc_A           69 YVTARQTLQQATYQFLGKPE--PKVPYIIGIAGSVAVGKSTTSRVLKAL  115 (321)
T ss_dssp             HHHHHHHHHHHHHHHHTCCC--CCCCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             hhcchHHHHHHHHHHhccCC--CCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            34555555555555544321  145679999999999999999998754

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=96.16  E-value=0.024  Score=53.61  Aligned_cols=91  Identities=18%  Similarity=0.216  Sum_probs=51.5

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcccccc--CC-cceeEEEEeCCCCCHHHHHHHHHHHhccCC------------CCcc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDRAVED--SK-FDVKAWVCVSDDFDVLNISRALLESITFAS------------CDLK  275 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~--~~-f~~~~wv~vs~~~~~~~~~~~il~~l~~~~------------~~~~  275 (444)
                      -.++.|+|++|+|||||+..+........  +. -..++|++....+....+ ..+........            ....
T Consensus       131 G~i~~I~G~~GsGKTTL~~~l~~~~~~~~~~Gg~~G~vi~i~~e~~~~~~~i-~~i~q~~~~~~~~v~~ni~~~~~~~~~  209 (349)
T 1pzn_A          131 QAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERI-REIAQNRGLDPDEVLKHIYVARAFNSN  209 (349)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHH-HHHHHTTTCCHHHHGGGEEEEECCSHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhccchhcCCCCCeEEEEeCCCCCCHHHH-HHHHHHcCCCHHHHhhCEEEEecCChH
Confidence            37999999999999999999886531111  00 124488887665443332 22333221110            0111


Q ss_pred             cHHHHHHHHHHHhC------CceEEEEEeCCCC
Q 047559          276 ALNEVQVQIKRAVD------GKKLLLVLDDVWN  302 (444)
Q Consensus       276 ~~~~~~~~l~~~l~------~kr~LlVlDdv~~  302 (444)
                      ...++...+...+.      .+.-+||+|.+-.
T Consensus       210 ~~~~~l~~~~~~~~~lS~G~~~~~llIlDs~ta  242 (349)
T 1pzn_A          210 HQMLLVQQAEDKIKELLNTDRPVKLLIVDSLTS  242 (349)
T ss_dssp             HHHHHHHHHHHHHHHSSSSSSCEEEEEEETSST
T ss_pred             HHHHHHHHHHHHHHHhccccCCCCEEEEeCchH
Confidence            12233444455553      4677999999854

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=96.15  E-value=0.026  Score=51.77  Aligned_cols=27  Identities=26%  Similarity=0.320  Sum_probs=23.3

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ....+|+|+|..|+||||||+.+....
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            445799999999999999999887654

>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=96.13  E-value=0.0027  Score=53.57  Aligned_cols=23  Identities=22%  Similarity=0.300  Sum_probs=21.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+|.|+|++|+||||+|+.+...
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~~   26 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQSV   26 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            58999999999999999999875

>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=96.06  E-value=0.0029  Score=52.95  Aligned_cols=24  Identities=21%  Similarity=0.205  Sum_probs=21.3

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+|.|.|++|+||||+++.+....
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            478999999999999999998753

>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=96.05  E-value=0.004  Score=53.18  Aligned_cols=23  Identities=30%  Similarity=0.509  Sum_probs=21.4

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|++|+|||||++.+...
T Consensus        10 ~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A           10 NILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHTC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhc
Confidence            78999999999999999999875

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=96.05  E-value=0.005  Score=53.59  Aligned_cols=39  Identities=21%  Similarity=0.290  Sum_probs=28.3

Q ss_pred             HHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          193 KAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       193 ~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      +++|.+.+....    ..-.+++|+|+.|+|||||++.+....
T Consensus         8 ~~~~~~~~~~~~----~~g~~v~I~G~sGsGKSTl~~~l~~~~   46 (208)
T 3c8u_A            8 CQGVLERLDPRQ----PGRQLVALSGAPGSGKSTLSNPLAAAL   46 (208)
T ss_dssp             HHHHHHHSCTTC----CSCEEEEEECCTTSCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC----CCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            445555554321    344799999999999999999987654

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=96.03  E-value=0.0061  Score=55.98  Aligned_cols=42  Identities=19%  Similarity=0.337  Sum_probs=29.2

Q ss_pred             hHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhc
Q 047559          192 DKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       192 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++++..++...... ....+|.|.|++|+||||+|+.+...
T Consensus        15 ~~~~~~~~~l~~~~~~-~~~~livl~G~sGsGKSTla~~L~~~   56 (287)
T 1gvn_B           15 RLNDNLEELIQGKKAV-ESPTAFLLGGQPGSGKTSLRSAIFEE   56 (287)
T ss_dssp             HHHHHHHHHHTTCCCC-SSCEEEEEECCTTSCTHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCC-CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3444455444432222 44578999999999999999999864

>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=96.01  E-value=0.023  Score=53.69  Aligned_cols=56  Identities=18%  Similarity=0.179  Sum_probs=34.2

Q ss_pred             HHHHHHHhCCceEEEEEeCCCCC-ChhcHHHhhcccCC--CCCCcEEEEecCChHHHhh
Q 047559          281 QVQIKRAVDGKKLLLVLDDVWNE-DYCLWEDLKAPFLA--AAPNSKIIVTTRHAHVAAT  336 (444)
Q Consensus       281 ~~~l~~~l~~kr~LlVlDdv~~~-~~~~~~~l~~~l~~--~~~gs~iivTTr~~~va~~  336 (444)
                      .-.|.+.|..++=+|++|+.-+. |...-..+...+..  ...|..||++|.+-..+..
T Consensus       171 RVaIArAL~~~P~lLLlDEPTs~LD~~~~~~i~~lL~~l~~~~g~Tii~vTHdl~~~~~  229 (366)
T 3tui_C          171 RVAIARALASNPKVLLCDQATSALDPATTRSILELLKDINRRLGLTILLITHEMDVVKR  229 (366)
T ss_dssp             HHHHHHHTTTCCSEEEEESTTTTSCHHHHHHHHHHHHHHHHHSCCEEEEEESCHHHHHH
T ss_pred             HHHHHHHHhcCCCEEEEECCCccCCHHHHHHHHHHHHHHHHhCCCEEEEEecCHHHHHH
Confidence            34566777788889999998442 33222333333322  1347788888988776644

>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=96.00  E-value=0.016  Score=53.50  Aligned_cols=23  Identities=30%  Similarity=0.596  Sum_probs=20.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|.|||||++.+..-
T Consensus        81 e~vaivG~sGsGKSTLl~ll~gl  103 (306)
T 3nh6_A           81 QTLALVGPSGAGKSTILRLLFRF  103 (306)
T ss_dssp             CEEEEESSSCHHHHHHHHHHTTS
T ss_pred             CEEEEECCCCchHHHHHHHHHcC
Confidence            68999999999999999998753

>2ck3_D ATP synthase subunit beta\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1cow_D* 1bmf_D* 1e1q_D* 1e1r_D* 1efr_D* 1e79_D* 1h8h_D* 1ohh_D* 1qo1_D 1w0j_D* 1w0k_D* 1h8e_D* 2jdi_D* 2jiz_D* 2jj1_D* 2jj2_D* 2v7q_D* 2wss_D* 2w6j_D 2w6e_D ...

Probab=96.00  E-value=0.033  Score=54.16  Aligned_cols=88  Identities=22%  Similarity=0.319  Sum_probs=55.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCC-CHHHHHHHHHHHhccC-------------CCCcccH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDF-DVLNISRALLESITFA-------------SCDLKAL  277 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~-~~~~~~~~il~~l~~~-------------~~~~~~~  277 (444)
                      .-++|+|.+|+|||+|+..+.+... +. +.+.++++-++... ...++++.+...-...             ..+.+..
T Consensus       154 Qr~~Ifgg~G~GKT~L~~~i~~~~~-~~-~~~v~V~~~iGER~rEv~e~~~~~~~~~~l~~~~~~~rtvvV~~t~d~p~~  231 (482)
T 2ck3_D          154 GKIGLFGGAGVGKTVLIMELINNVA-KA-HGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSKVALVYGQMNEPPG  231 (482)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHTT-TT-CSSEEEEEEESCCHHHHHHHHHHHHHHTSSCSSSSCCCEEEEEECTTSCHH
T ss_pred             CeeeeecCCCCChHHHHHHHHHhhH-hh-CCCEEEEEECCCcchHHHHHHHHhhhccccccccCCceEEEEEECCCCCHH
Confidence            5789999999999999999887631 22 45677888888764 4556666666542111             1111111


Q ss_pred             H-----HHHHHHHHHh---CCceEEEEEeCCC
Q 047559          278 N-----EVQVQIKRAV---DGKKLLLVLDDVW  301 (444)
Q Consensus       278 ~-----~~~~~l~~~l---~~kr~LlVlDdv~  301 (444)
                      .     ...-.+.+++   +++.+||++||+-
T Consensus       232 ~r~~~~~~a~tiAEyfrd~~G~dVLll~Dsit  263 (482)
T 2ck3_D          232 ARARVALTGLTVAEYFRDQEGQDVLLFIDNIF  263 (482)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCSCEEEEEECTH
T ss_pred             HHHHHHHHHHHHHHHHHHhcCCcEEEEeccHH
Confidence            1     1122344555   4789999999983

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=95.99  E-value=0.0039  Score=52.61  Aligned_cols=22  Identities=41%  Similarity=0.628  Sum_probs=20.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhh
Q 047559          212 AVIPIVGMAGVGKTTLAREVYN  233 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~  233 (444)
                      .+|.|.|++|+||||+|+.+..
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            5899999999999999999987

>2bbs_A Cystic fibrosis transmembrane conductance regulator; ATP binding cassette, transport protein; HET: ATP; 2.05A {Homo sapiens} PDB: 2bbt_A* 1xmi_A* 1xmj_A* 2bbo_A* 3si7_A* 1r0w_A 1q3h_A 1r0x_A* 1r0y_A* 1r0z_A* 1r10_A* 1xf9_A* 1xfa_A*

Probab=95.97  E-value=0.088  Score=48.19  Aligned_cols=24  Identities=25%  Similarity=0.516  Sum_probs=21.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+++|+|+.|+|||||.+.+..-.
T Consensus        65 e~~~i~G~NGsGKSTLlk~l~Gl~   88 (290)
T 2bbs_A           65 QLLAVAGSTGAGKTSLLMMIMGEL   88 (290)
T ss_dssp             CEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCC
Confidence            589999999999999999998653

>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=95.95  E-value=0.011  Score=58.23  Aligned_cols=25  Identities=32%  Similarity=0.401  Sum_probs=21.7

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRA  236 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~  236 (444)
                      ..+.|.|.+|+|||+++..+.....
T Consensus        46 ~~~li~G~aGTGKT~ll~~~~~~l~   70 (459)
T 3upu_A           46 HHVTINGPAGTGATTLTKFIIEALI   70 (459)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            3899999999999999998887643

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=95.93  E-value=0.036  Score=52.28  Aligned_cols=23  Identities=39%  Similarity=0.546  Sum_probs=20.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|.|||||.+.+..-
T Consensus        31 e~~~llGpsGsGKSTLLr~iaGl   53 (359)
T 3fvq_A           31 EILFIIGASGCGKTTLLRCLAGF   53 (359)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCchHHHHHHHHhcC
Confidence            58999999999999999999753

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=95.90  E-value=0.004  Score=52.83  Aligned_cols=23  Identities=17%  Similarity=0.491  Sum_probs=21.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ++++|+|+.|+|||||++.+...
T Consensus         6 ~~i~i~GpsGsGKSTL~~~L~~~   28 (180)
T 1kgd_A            6 KTLVLLGAHGVGRRHIKNTLITK   28 (180)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHhh
Confidence            68999999999999999999865

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=95.88  E-value=0.0044  Score=53.51  Aligned_cols=24  Identities=33%  Similarity=0.445  Sum_probs=21.7

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+|.|+|++|+||||+++.+....
T Consensus        26 ~~i~l~G~~GsGKsTl~~~La~~l   49 (199)
T 3vaa_A           26 VRIFLTGYMGAGKTTLGKAFARKL   49 (199)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHc
Confidence            589999999999999999998753

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=95.85  E-value=0.037  Score=53.17  Aligned_cols=90  Identities=10%  Similarity=0.137  Sum_probs=50.7

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccc---cCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCC---------CcccH--
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVE---DSKFDVKAWVCVSDDFDVLNISRALLESITFASC---------DLKAL--  277 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~---~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~---------~~~~~--  277 (444)
                      .++.|+|++|+|||||+..++-.....   .+.-..++|++....+....+ ..+.+.++....         ...+.  
T Consensus       179 ei~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~~~~~~rl-~~~a~~~gl~~~~vleni~~~~~~~~~~  257 (400)
T 3lda_A          179 SITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRL-VSIAQRFGLDPDDALNNVAYARAYNADH  257 (400)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHH-HHHHHHTTCCHHHHHHTEEEEECCSHHH
T ss_pred             cEEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCCccCHHHH-HHHHHHcCCChHhHhhcEEEeccCChHH
Confidence            699999999999999999765321111   002345788887766655443 234444432110         01111  


Q ss_pred             -HHHHHHHHHHh-CCceEEEEEeCCCC
Q 047559          278 -NEVQVQIKRAV-DGKKLLLVLDDVWN  302 (444)
Q Consensus       278 -~~~~~~l~~~l-~~kr~LlVlDdv~~  302 (444)
                       ......+...+ ..+.-+||+|.+-.
T Consensus       258 ~~~~l~~~~~~l~~~~~~llVIDs~t~  284 (400)
T 3lda_A          258 QLRLLDAAAQMMSESRFSLIVVDSVMA  284 (400)
T ss_dssp             HHHHHHHHHHHHHHSCEEEEEEETGGG
T ss_pred             HHHHHHHHHHHHHhcCCceEEecchhh
Confidence             22223333333 34567999999844

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=95.85  E-value=0.033  Score=51.79  Aligned_cols=50  Identities=16%  Similarity=0.185  Sum_probs=34.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLES  266 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~  266 (444)
                      .++.|.|.+|+||||||..+.......  . ..++|++.-  .+..++...++..
T Consensus        69 ~l~li~G~pG~GKTtl~l~ia~~~a~~--g-~~vl~~slE--~s~~~l~~R~~~~  118 (315)
T 3bh0_A           69 NFVLIAARPSMGKTAFALKQAKNMSDN--D-DVVNLHSLE--MGKKENIKRLIVT  118 (315)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHTT--T-CEEEEEESS--SCHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHHHc--C-CeEEEEECC--CCHHHHHHHHHHH
Confidence            689999999999999999988654322  2 466777654  4455555555543

>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=95.84  E-value=0.094  Score=50.85  Aligned_cols=26  Identities=27%  Similarity=0.401  Sum_probs=22.2

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhcc
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ...+|.++|.+|+||||++..+....
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            35899999999999999998887543

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=95.83  E-value=0.0083  Score=52.49  Aligned_cols=27  Identities=26%  Similarity=0.350  Sum_probs=24.0

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+.++|.|.|++|+||||.|+.+.+..
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            455899999999999999999998764

>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=95.81  E-value=0.0058  Score=52.75  Aligned_cols=25  Identities=36%  Similarity=0.452  Sum_probs=22.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRA  236 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~  236 (444)
                      .+|.|+|++|+|||||++.+.....
T Consensus        26 ~~i~l~G~sGsGKSTl~~~La~~l~   50 (200)
T 3uie_A           26 CVIWVTGLSGSGKSTLACALNQMLY   50 (200)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH
Confidence            7999999999999999999987653

>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=95.81  E-value=0.0035  Score=53.46  Aligned_cols=23  Identities=35%  Similarity=0.645  Sum_probs=20.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      +.|.|+|++|+|||||++.+...
T Consensus         2 RpIVi~GPSG~GK~Tl~~~L~~~   24 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHh
Confidence            46889999999999999998765

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=95.78  E-value=0.0039  Score=52.30  Aligned_cols=23  Identities=35%  Similarity=0.559  Sum_probs=21.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+|+|+|++|+|||||++.+...
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~   27 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQ   27 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999999875

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=95.77  E-value=0.008  Score=54.07  Aligned_cols=41  Identities=27%  Similarity=0.308  Sum_probs=29.1

Q ss_pred             HHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhc
Q 047559          193 KAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       193 ~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+.++..+...... .....+|.|+|++|+||||+|+.+...
T Consensus        15 ~~~~~~~~~~~~~~-~~~~~~i~l~G~~GsGKSTla~~L~~~   55 (253)
T 2p5t_B           15 LARNLRSLTRGKKS-SKQPIAILLGGQSGAGKTTIHRIKQKE   55 (253)
T ss_dssp             HHHHHHHHHTTCCC-CSSCEEEEEESCGGGTTHHHHHHHHHH
T ss_pred             HHHHHHHHHccCCc-ccCCeEEEEECCCCCCHHHHHHHHHHh
Confidence            34444445543332 244579999999999999999999865

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=95.76  E-value=0.005  Score=52.31  Aligned_cols=24  Identities=25%  Similarity=0.479  Sum_probs=21.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      +.|.|+|++|+||||+|+.+....
T Consensus         6 ~~i~l~G~~GsGKst~a~~La~~l   29 (185)
T 3trf_A            6 TNIYLIGLMGAGKTSVGSQLAKLT   29 (185)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHh
Confidence            578999999999999999998753

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=95.75  E-value=0.0057  Score=52.18  Aligned_cols=24  Identities=29%  Similarity=0.408  Sum_probs=21.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+|.|.|++|+||||+++.+....
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            478999999999999999998764

>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=95.74  E-value=0.0064  Score=51.90  Aligned_cols=25  Identities=32%  Similarity=0.426  Sum_probs=22.0

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..+|.|.|++|+||||+++.+....
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            3789999999999999999998753

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=95.69  E-value=0.0045  Score=58.50  Aligned_cols=102  Identities=14%  Similarity=0.164  Sum_probs=53.7

Q ss_pred             HHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCH-HHHHHHHHHHhccCCC
Q 047559          194 AKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDV-LNISRALLESITFASC  272 (444)
Q Consensus       194 ~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~-~~~~~~il~~l~~~~~  272 (444)
                      -.+++.|..-..     -.-+.|+|.+|+|||+|+..+.+........+.+ +++-++..... .++.+.+...+-....
T Consensus       163 iraID~l~Pigr-----GQR~lIfg~~g~GKT~Ll~~Ia~~i~~~~~dv~~-V~~lIGER~~EV~d~~~~~~G~VV~ata  236 (427)
T 3l0o_A          163 TRLIDLFAPIGK-----GQRGMIVAPPKAGKTTILKEIANGIAENHPDTIR-IILLIDERPEEVTDIRESTNAIVIAAPF  236 (427)
T ss_dssp             HHHHHHHSCCBT-----TCEEEEEECTTCCHHHHHHHHHHHHHHHCTTSEE-EEEECSCCHHHHSSSSSSCCSEEEECCT
T ss_pred             chhhhhcccccC-----CceEEEecCCCCChhHHHHHHHHHHhhcCCCeEE-EEEEeccCcchHHHHHHHhCCeEEEECC
Confidence            456666654322     2578999999999999999988764322112333 45666654321 1111111101111111


Q ss_pred             CcccHHH-----HHHHHHHHh--CCceEEEEEeCCC
Q 047559          273 DLKALNE-----VQVQIKRAV--DGKKLLLVLDDVW  301 (444)
Q Consensus       273 ~~~~~~~-----~~~~l~~~l--~~kr~LlVlDdv~  301 (444)
                      +.+....     ..-.+.+++  +++.+||++||+-
T Consensus       237 dep~~~r~~~a~~altiAEyfrd~G~dVLil~DslT  272 (427)
T 3l0o_A          237 DMPPDKQVKVAELTLEMAKRLVEFNYDVVILLDSLT  272 (427)
T ss_dssp             TSCHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECHH
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHcCCCEEEecccch
Confidence            1111111     112234444  6899999999993

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=95.69  E-value=0.068  Score=50.02  Aligned_cols=50  Identities=14%  Similarity=0.120  Sum_probs=35.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLES  266 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~  266 (444)
                      .++.|.|.+|+||||||..++......   -..++|++.  ..+..++...++..
T Consensus        47 ~LiiIaG~pG~GKTt~al~ia~~~a~~---g~~Vl~fSl--Ems~~ql~~Rlls~   96 (338)
T 4a1f_A           47 SLVIIGARPSMGKTSLMMNMVLSALND---DRGVAVFSL--EMSAEQLALRALSD   96 (338)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHHHT---TCEEEEEES--SSCHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHHHc---CCeEEEEeC--CCCHHHHHHHHHHH
Confidence            689999999999999999988764322   235566654  44566666666543

>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=95.67  E-value=0.0091  Score=56.85  Aligned_cols=51  Identities=25%  Similarity=0.275  Sum_probs=36.0

Q ss_pred             cccccchhHHHHHHHHhc-------CC--CCCCCCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          185 AVFGRQQDKAKMLEMVLT-------DT--SSDHSNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~-------~~--~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .++|.+..++.+...+..       ..  .........+.++|++|+|||++|+.+++..
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            478988888888777621       00  0000133578999999999999999998764

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=95.66  E-value=0.022  Score=54.14  Aligned_cols=23  Identities=35%  Similarity=0.498  Sum_probs=20.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|.|||||.+.+..-
T Consensus        30 e~~~llGpsGsGKSTLLr~iaGl   52 (381)
T 3rlf_A           30 EFVVFVGPSGCGKSTLLRMIAGL   52 (381)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CEEEEEcCCCchHHHHHHHHHcC
Confidence            58999999999999999999753

>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=95.65  E-value=0.04  Score=51.86  Aligned_cols=23  Identities=26%  Similarity=0.314  Sum_probs=20.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        27 e~~~llGpnGsGKSTLLr~iaGl   49 (348)
T 3d31_A           27 EYFVILGPTGAGKTLFLELIAGF   49 (348)
T ss_dssp             CEEEEECCCTHHHHHHHHHHHTS
T ss_pred             CEEEEECCCCccHHHHHHHHHcC
Confidence            58999999999999999999754

>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=95.63  E-value=0.044  Score=53.59  Aligned_cols=88  Identities=22%  Similarity=0.282  Sum_probs=56.7

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCC-CHHHHHHHHHHHhccC--------------CCCccc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDF-DVLNISRALLESITFA--------------SCDLKA  276 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~-~~~~~~~~il~~l~~~--------------~~~~~~  276 (444)
                      .-++|+|.+|+|||+|+..+.++.. +. +.+.++++-++... ...+++.++...=...              ..+.+.
T Consensus       166 qr~gIfgg~GvGKT~L~~~l~~~~a-~~-~~~v~V~~~iGER~rEv~e~~~~~~~~~~l~~~~l~~~rtvvV~~t~d~p~  243 (498)
T 1fx0_B          166 GKIGLFGGAGVGKTVLIMELINNIA-KA-HGGVSVFGGVGERTREGNDLYMEMKESGVINEQNIAESKVALVYGQMNEPP  243 (498)
T ss_dssp             CCEEEEECSSSSHHHHHHHHHHHTT-TT-CSSCEEEEEESCCSHHHHHHHHHHHHTTSSCSSTTCCCCEEEEEECTTSCH
T ss_pred             CeEEeecCCCCCchHHHHHHHHHHH-hh-CCCEEEEEEcccCcHHHHHHHHhhhcccccccccccccceEEEEeCCCCCH
Confidence            5689999999999999999887631 22 55788888888765 4556666665531111              011111


Q ss_pred             -----HHHHHHHHHHHhC---CceEEEEEeCCC
Q 047559          277 -----LNEVQVQIKRAVD---GKKLLLVLDDVW  301 (444)
Q Consensus       277 -----~~~~~~~l~~~l~---~kr~LlVlDdv~  301 (444)
                           .....-.+.+++.   ++.+||++||+-
T Consensus       244 ~~R~~~~~~altiAEyfrd~~G~dVLl~~Dsit  276 (498)
T 1fx0_B          244 GARMRVGLTALTMAEYFRDVNEQDVLLFIDNIF  276 (498)
T ss_dssp             HHHTTHHHHHHHTHHHHTTTSCCEEEEEEECSH
T ss_pred             HHHHHHHHHHHHHHHHHHHhcCCcEEEEeccHH
Confidence                 1122334556664   579999999983

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=95.63  E-value=0.034  Score=52.41  Aligned_cols=23  Identities=30%  Similarity=0.496  Sum_probs=20.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        42 e~~~llGpnGsGKSTLLr~iaGl   64 (355)
T 1z47_A           42 EMVGLLGPSGSGKTTILRLIAGL   64 (355)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCC
Confidence            58999999999999999999753

>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=95.61  E-value=0.0069  Score=50.93  Aligned_cols=24  Identities=29%  Similarity=0.556  Sum_probs=21.5

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -.++.|+|++|+||||+++.+...
T Consensus         8 g~~i~l~G~~GsGKSTl~~~l~~~   31 (175)
T 1knq_A            8 HHIYVLMGVSGSGKSAVASEVAHQ   31 (175)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHh
Confidence            368999999999999999998764

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=95.60  E-value=0.0064  Score=51.10  Aligned_cols=22  Identities=27%  Similarity=0.727  Sum_probs=19.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhh
Q 047559          212 AVIPIVGMAGVGKTTLAREVYN  233 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~  233 (444)
                      .+++|+|+.|+|||||++.++.
T Consensus        10 ei~~l~G~nGsGKSTl~~~~~~   31 (171)
T 4gp7_A           10 SLVVLIGSSGSGKSTFAKKHFK   31 (171)
T ss_dssp             EEEEEECCTTSCHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHcc
Confidence            6999999999999999997553

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=95.59  E-value=0.0066  Score=52.41  Aligned_cols=23  Identities=35%  Similarity=0.641  Sum_probs=21.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|+|||||++.+...
T Consensus        30 ~~i~l~G~~GsGKSTl~~~L~~~   52 (200)
T 4eun_A           30 RHVVVMGVSGSGKTTIAHGVADE   52 (200)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHh
Confidence            68999999999999999999865

>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=95.59  E-value=0.0071  Score=52.61  Aligned_cols=24  Identities=38%  Similarity=0.636  Sum_probs=21.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+++|+|+.|+|||||++.+....
T Consensus         9 ~~i~l~GpsGsGKsTl~~~L~~~~   32 (208)
T 3tau_A            9 LLIVLSGPSGVGKGTVREAVFKDP   32 (208)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHST
T ss_pred             cEEEEECcCCCCHHHHHHHHHhhC
Confidence            689999999999999999998763

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=95.58  E-value=0.0049  Score=53.28  Aligned_cols=24  Identities=21%  Similarity=0.502  Sum_probs=21.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+|.|.|++|+||||+|+.+....
T Consensus        19 ~~I~l~G~~GsGKSTla~~L~~~l   42 (202)
T 3t61_A           19 GSIVVMGVSGSGKSSVGEAIAEAC   42 (202)
T ss_dssp             SCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            589999999999999999998753

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=95.57  E-value=0.0064  Score=51.80  Aligned_cols=24  Identities=29%  Similarity=0.520  Sum_probs=21.7

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+|.|.|++|+||||+++.+....
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            589999999999999999998754

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=95.53  E-value=0.039  Score=52.17  Aligned_cols=23  Identities=26%  Similarity=0.444  Sum_probs=20.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        30 e~~~llGpnGsGKSTLLr~iaGl   52 (362)
T 2it1_A           30 EFMALLGPSGSGKSTLLYTIAGI   52 (362)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCchHHHHHHHHhcC
Confidence            58999999999999999999753

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=95.53  E-value=0.0068  Score=54.57  Aligned_cols=23  Identities=26%  Similarity=0.319  Sum_probs=20.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .++.|.|++|+||||||+.+...
T Consensus         2 ~li~I~G~~GSGKSTla~~La~~   24 (253)
T 2ze6_A            2 LLHLIYGPTCSGKTDMAIQIAQE   24 (253)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHhc
Confidence            47899999999999999999865

>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=95.52  E-value=0.0076  Score=51.40  Aligned_cols=22  Identities=36%  Similarity=0.517  Sum_probs=20.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhh
Q 047559          212 AVIPIVGMAGVGKTTLAREVYN  233 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~  233 (444)
                      .+++|+|+.|+|||||++.+..
T Consensus         3 ~ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            3 KLYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHhc
Confidence            5789999999999999999975

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=95.52  E-value=0.0076  Score=52.01  Aligned_cols=23  Identities=30%  Similarity=0.473  Sum_probs=21.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|+|||||++.+...
T Consensus         8 ~ii~l~Gp~GsGKSTl~~~L~~~   30 (205)
T 3tr0_A            8 NLFIISAPSGAGKTSLVRALVKA   30 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cEEEEECcCCCCHHHHHHHHHhh
Confidence            58999999999999999998764

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=95.50  E-value=0.0071  Score=50.47  Aligned_cols=27  Identities=26%  Similarity=0.473  Sum_probs=21.9

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ....+|.|.|+.|+||||+++.+....
T Consensus         5 ~~~~~i~l~G~~GsGKSTva~~La~~l   31 (168)
T 1zuh_A            5 HHMQHLVLIGFMGSGKSSLAQELGLAL   31 (168)
T ss_dssp             ---CEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             cccceEEEECCCCCCHHHHHHHHHHHh
Confidence            345799999999999999999998753

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=95.47  E-value=0.0088  Score=51.97  Aligned_cols=24  Identities=42%  Similarity=0.433  Sum_probs=21.7

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ..+++|+|+.|+|||||++.+...
T Consensus         6 ~~~i~i~G~~GsGKSTl~~~l~~~   29 (211)
T 3asz_A            6 PFVIGIAGGTASGKTTLAQALART   29 (211)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHH
Confidence            369999999999999999998765

>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=95.44  E-value=0.0063  Score=51.46  Aligned_cols=24  Identities=42%  Similarity=0.630  Sum_probs=21.3

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+|.|.|++|+||||+++.+....
T Consensus        12 ~~i~i~G~~GsGKst~~~~l~~~~   35 (180)
T 3iij_A           12 PNILLTGTPGVGKTTLGKELASKS   35 (180)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHHh
Confidence            578899999999999999998653

>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=95.44  E-value=0.0078  Score=50.96  Aligned_cols=23  Identities=43%  Similarity=0.606  Sum_probs=20.4

Q ss_pred             EEEEEecCCChHHHHHHHHhhcc
Q 047559          213 VIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .++|+|+.|+|||||++.+....
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            58999999999999999988654

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=95.42  E-value=0.0087  Score=51.72  Aligned_cols=24  Identities=33%  Similarity=0.671  Sum_probs=21.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+++|+|+.|+||||+++.+....
T Consensus         7 ~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            7 LLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhh
Confidence            589999999999999999997653

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=95.41  E-value=0.0064  Score=51.16  Aligned_cols=23  Identities=43%  Similarity=0.653  Sum_probs=20.7

Q ss_pred             EEEEEecCCChHHHHHHHHhhcc
Q 047559          213 VIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .|.|.|++|+||||+|+.+....
T Consensus         6 ~i~i~G~~GsGKsTla~~La~~l   28 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAKDL   28 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHc
Confidence            68999999999999999998753

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=95.41  E-value=0.0068  Score=52.52  Aligned_cols=25  Identities=32%  Similarity=0.571  Sum_probs=22.1

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..+|.|+|++|+|||||++.+....
T Consensus        12 ~~~i~l~G~sGsGKsTl~~~L~~~~   36 (204)
T 2qor_A           12 IPPLVVCGPSGVGKGTLIKKVLSEF   36 (204)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhC
Confidence            3689999999999999999998753

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=95.39  E-value=0.0082  Score=51.72  Aligned_cols=23  Identities=35%  Similarity=0.587  Sum_probs=20.7

Q ss_pred             EEEEEecCCChHHHHHHHHhhcc
Q 047559          213 VIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .|+|.|+.|+||||+++.+....
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            68999999999999999998753

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=95.37  E-value=0.011  Score=51.10  Aligned_cols=25  Identities=32%  Similarity=0.535  Sum_probs=22.2

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhc
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ...+|.|.|++|+||||+++.+.+.
T Consensus        14 ~~~~I~l~G~~GsGKsT~~~~L~~~   38 (203)
T 1ukz_A           14 QVSVIFVLGGPGAGKGTQCEKLVKD   38 (203)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHH
Confidence            3478999999999999999999865

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=95.36  E-value=0.0095  Score=50.95  Aligned_cols=23  Identities=30%  Similarity=0.485  Sum_probs=21.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+|.|.|++|+||||+|+.+...
T Consensus        10 ~~I~l~G~~GsGKsT~~~~La~~   32 (196)
T 2c95_A           10 NIIFVVGGPGSGKGTQCEKIVQK   32 (196)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            68999999999999999999865

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=95.36  E-value=0.011  Score=51.25  Aligned_cols=24  Identities=38%  Similarity=0.545  Sum_probs=21.7

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ..+|+|+|++|+||||+++.+...
T Consensus        21 ~~~i~i~G~~GsGKSTl~~~L~~~   44 (207)
T 2qt1_A           21 TFIIGISGVTNSGKTTLAKNLQKH   44 (207)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHh
Confidence            479999999999999999999764

>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=95.36  E-value=0.011  Score=50.95  Aligned_cols=26  Identities=31%  Similarity=0.350  Sum_probs=22.7

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ....+|+|+|+.|+||||+++.+...
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            34579999999999999999999864

>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=95.35  E-value=0.0095  Score=50.63  Aligned_cols=24  Identities=33%  Similarity=0.444  Sum_probs=21.6

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ...|.|+|++|+||||+++.+...
T Consensus        10 ~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A           10 GINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh
Confidence            368999999999999999999875

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=95.34  E-value=0.0096  Score=50.82  Aligned_cols=23  Identities=26%  Similarity=0.433  Sum_probs=21.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+|.|.|++|+||||+|+.+...
T Consensus         4 ~~I~l~G~~GsGKsT~a~~L~~~   26 (196)
T 1tev_A            4 LVVFVLGGPGAGKGTQCARIVEK   26 (196)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            68999999999999999998765

>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=95.33  E-value=0.0099  Score=53.40  Aligned_cols=27  Identities=15%  Similarity=0.229  Sum_probs=22.6

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ....+|+|.|+.|+||||+|+.+....
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            344799999999999999999997753

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=95.30  E-value=0.0073  Score=52.10  Aligned_cols=23  Identities=26%  Similarity=0.631  Sum_probs=20.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ++++|+|+.|+|||||++.+...
T Consensus         5 ~~i~lvGpsGaGKSTLl~~L~~~   27 (198)
T 1lvg_A            5 RPVVLSGPSGAGKSTLLKKLFQE   27 (198)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHhh
Confidence            57999999999999999998764

>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=95.29  E-value=0.081  Score=48.82  Aligned_cols=26  Identities=35%  Similarity=0.361  Sum_probs=22.7

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhcc
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ...++.|+|++|+||||++..+....
T Consensus       103 ~~~vi~ivG~~GsGKTTl~~~LA~~l  128 (306)
T 1vma_A          103 PPFVIMVVGVNGTGKTTSCGKLAKMF  128 (306)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHHHH
Confidence            34799999999999999999988664

>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=95.28  E-value=0.0097  Score=51.40  Aligned_cols=22  Identities=32%  Similarity=0.451  Sum_probs=20.1

Q ss_pred             eEEEEEecCCChHHHHHHHHhh
Q 047559          212 AVIPIVGMAGVGKTTLAREVYN  233 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~  233 (444)
                      .+|+|+|+.|+||||+++.+..
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            3799999999999999999876

>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=95.28  E-value=0.0092  Score=52.45  Aligned_cols=23  Identities=39%  Similarity=0.570  Sum_probs=20.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+|+|+|+.|+||||+++.+...
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~~   28 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAEA   28 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            58999999999999999998764

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=95.27  E-value=0.01  Score=50.31  Aligned_cols=23  Identities=26%  Similarity=0.430  Sum_probs=21.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ..|.|.|++|+||||+++.+.+.
T Consensus         5 ~~I~l~G~~GsGKST~~~~La~~   27 (186)
T 3cm0_A            5 QAVIFLGPPGAGKGTQASRLAQE   27 (186)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            58999999999999999999865

>3llm_A ATP-dependent RNA helicase A; alpha-beta-alpha, structural genomics, structural genomics consortium, SGC, activator, ATP-binding, DNA-binding; HET: ADP; 2.80A {Homo sapiens}

Probab=95.24  E-value=0.09  Score=46.40  Aligned_cols=91  Identities=13%  Similarity=0.229  Sum_probs=47.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCc-ceeEEEEeCCCCCHHHHHHHHHHHhccCCC---------------C--
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKF-DVKAWVCVSDDFDVLNISRALLESITFASC---------------D--  273 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f-~~~~wv~vs~~~~~~~~~~~il~~l~~~~~---------------~--  273 (444)
                      +.+.|.|+.|+||||+...+.-+........ ...+.+.........++...+...++....               .  
T Consensus        77 ~~~~i~g~TGsGKTt~~~~~~~~~~~~~~~~~~~~~l~~~p~~~la~q~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~  156 (235)
T 3llm_A           77 SVVIIRGATGCGKTTQVPQFILDDFIQNDRAAECNIVVTQPRRISAVSVAERVAFERGEEPGKSCGYSVRFESILPRPHA  156 (235)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHHHHHHTTCGGGCEEEEEESSHHHHHHHHHHHHHTTTCCTTSSEEEEETTEEECCCSSS
T ss_pred             CEEEEEeCCCCCcHHhHHHHHhcchhhcCCCCceEEEEeccchHHHHHHHHHHHHHhccccCceEEEeechhhccCCCCC
Confidence            5899999999999987665543221111021 234444444433344444555443332110               0  


Q ss_pred             ---cccHHHHHHHHHHHhCCceEEEEEeCCCCC
Q 047559          274 ---LKALNEVQVQIKRAVDGKKLLLVLDDVWNE  303 (444)
Q Consensus       274 ---~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~  303 (444)
                         ..+.+.+...+...+.+- -+||+|+++..
T Consensus       157 ~Ivv~Tpg~l~~~l~~~l~~~-~~lVlDEah~~  188 (235)
T 3llm_A          157 SIMFCTVGVLLRKLEAGIRGI-SHVIVDEIHER  188 (235)
T ss_dssp             EEEEEEHHHHHHHHHHCCTTC-CEEEECCTTSC
T ss_pred             eEEEECHHHHHHHHHhhhcCC-cEEEEECCccC
Confidence               013345555555544333 37899999763

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=95.21  E-value=0.011  Score=51.29  Aligned_cols=24  Identities=25%  Similarity=0.343  Sum_probs=21.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+|.|.|++|+||||+|+.+....
T Consensus         5 ~~I~i~G~~GsGKsT~~~~L~~~l   28 (213)
T 2plr_A            5 VLIAFEGIDGSGKSSQATLLKDWI   28 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHH
Confidence            689999999999999999998764

>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=95.21  E-value=0.01  Score=51.02  Aligned_cols=23  Identities=17%  Similarity=0.585  Sum_probs=21.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ++++|+|+.|+|||||++.+...
T Consensus        20 ~~ivl~GPSGaGKsTL~~~L~~~   42 (197)
T 3ney_A           20 KTLVLIGASGVGRSHIKNALLSQ   42 (197)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECcCCCCHHHHHHHHHhh
Confidence            68999999999999999999865

>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=95.21  E-value=0.012  Score=50.67  Aligned_cols=24  Identities=25%  Similarity=0.333  Sum_probs=21.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+|.|.|++|+||||+|+.+....
T Consensus        21 ~~I~l~G~~GsGKST~a~~La~~l   44 (201)
T 2cdn_A           21 MRVLLLGPPGAGKGTQAVKLAEKL   44 (201)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            589999999999999999998753

>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein, ATP-binding, nucleotide-binding, HYD; 2.20A {Deinococcus radiodurans} PDB: 3gp8_A 3gpl_A*

Probab=95.20  E-value=0.039  Score=55.78  Aligned_cols=103  Identities=16%  Similarity=0.171  Sum_probs=54.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHH-HHhC-
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIK-RAVD-  289 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~-~~l~-  289 (444)
                      +++.|.|.+|+||||++..+.......    ...+.+..........+.    +.++.   ...++..+..... .+.. 
T Consensus       205 ~~~~I~G~pGTGKTt~i~~l~~~l~~~----g~~Vl~~ApT~~Aa~~L~----e~~~~---~a~Tih~ll~~~~~~~~~~  273 (574)
T 3e1s_A          205 RLVVLTGGPGTGKSTTTKAVADLAESL----GLEVGLCAPTGKAARRLG----EVTGR---TASTVHRLLGYGPQGFRHN  273 (574)
T ss_dssp             SEEEEECCTTSCHHHHHHHHHHHHHHT----TCCEEEEESSHHHHHHHH----HHHTS---CEEEHHHHTTEETTEESCS
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHHHhc----CCeEEEecCcHHHHHHhH----hhhcc---cHHHHHHHHcCCcchhhhh
Confidence            589999999999999999988654322    133445444332222222    11111   1112211110000 0000 


Q ss_pred             ----CceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEec
Q 047559          290 ----GKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTT  328 (444)
Q Consensus       290 ----~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTT  328 (444)
                          .+--+||+|++...+...+..+...++   .+.++|+.-
T Consensus       274 ~~~~~~~dvlIIDEasml~~~~~~~Ll~~~~---~~~~lilvG  313 (574)
T 3e1s_A          274 HLEPAPYDLLIVDEVSMMGDALMLSLLAAVP---PGARVLLVG  313 (574)
T ss_dssp             SSSCCSCSEEEECCGGGCCHHHHHHHHTTSC---TTCEEEEEE
T ss_pred             hcccccCCEEEEcCccCCCHHHHHHHHHhCc---CCCEEEEEe
Confidence                012389999997766666666666554   456666644

>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=95.20  E-value=0.0076  Score=51.13  Aligned_cols=24  Identities=29%  Similarity=0.523  Sum_probs=21.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+|.|.|++|+||||+|+.+....
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            368999999999999999998753

>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=95.19  E-value=0.011  Score=51.09  Aligned_cols=22  Identities=32%  Similarity=0.471  Sum_probs=20.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhh
Q 047559          212 AVIPIVGMAGVGKTTLAREVYN  233 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~  233 (444)
                      .+|+|+|+.|+||||+++.+..
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            4799999999999999999975

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=95.19  E-value=0.011  Score=50.81  Aligned_cols=24  Identities=29%  Similarity=0.432  Sum_probs=21.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+|.|.|++|+||||+|+.+....
T Consensus        13 ~~I~l~G~~GsGKsT~a~~L~~~l   36 (199)
T 2bwj_A           13 KIIFIIGGPGSGKGTQCEKLVEKY   36 (199)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHh
Confidence            589999999999999999998753

>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=95.18  E-value=0.012  Score=53.23  Aligned_cols=23  Identities=30%  Similarity=0.611  Sum_probs=21.3

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+|.|.|++|+||||+|+.+...
T Consensus         5 ~lIvl~G~pGSGKSTla~~La~~   27 (260)
T 3a4m_A            5 MLIILTGLPGVGKSTFSKNLAKI   27 (260)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHH
Confidence            68999999999999999999875

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=95.17  E-value=0.013  Score=49.81  Aligned_cols=26  Identities=31%  Similarity=0.386  Sum_probs=22.9

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhccc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDRA  236 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~  236 (444)
                      ..+|.|.|++|+||||+++.+.....
T Consensus        13 ~~~i~l~G~~GsGKsT~~~~L~~~l~   38 (186)
T 2yvu_A           13 GIVVWLTGLPGSGKTTIATRLADLLQ   38 (186)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            47899999999999999999987653

>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=95.15  E-value=0.012  Score=50.03  Aligned_cols=23  Identities=30%  Similarity=0.489  Sum_probs=21.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+|.|.|++|+||||+|+.+...
T Consensus         7 ~~I~l~G~~GsGKsT~~~~L~~~   29 (194)
T 1qf9_A            7 NVVFVLGGPGSGKGTQCANIVRD   29 (194)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            68999999999999999999875

>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=95.14  E-value=0.0087  Score=50.06  Aligned_cols=24  Identities=38%  Similarity=0.479  Sum_probs=21.1

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+|.|.|++|+||||+|+.+....
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            468999999999999999998753

>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; 5.50A {Vibrio cholerae}

Probab=95.13  E-value=0.1  Score=53.00  Aligned_cols=23  Identities=30%  Similarity=0.455  Sum_probs=20.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|.|||||++.+..-
T Consensus       370 ~~~~ivG~sGsGKSTll~~l~g~  392 (582)
T 3b5x_A          370 KTVALVGRSGSGKSTIANLFTRF  392 (582)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            58999999999999999998754

>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=95.13  E-value=0.012  Score=55.80  Aligned_cols=112  Identities=8%  Similarity=0.060  Sum_probs=60.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGK  291 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  291 (444)
                      .+++|+|+.|+|||||.+.+.......   ....+ +++.++....  .......+. ..............|...|...
T Consensus       124 g~i~I~GptGSGKTTlL~~l~g~~~~~---~~~~i-~t~ed~~e~~--~~~~~~~v~-q~~~~~~~~~~~~~La~aL~~~  196 (356)
T 3jvv_A          124 GLVLVTGPTGSGKSTTLAAMLDYLNNT---KYHHI-LTIEDPIEFV--HESKKCLVN-QREVHRDTLGFSEALRSALRED  196 (356)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHHHHHH---CCCEE-EEEESSCCSC--CCCSSSEEE-EEEBTTTBSCHHHHHHHHTTSC
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcccCC---CCcEE-EEccCcHHhh--hhcccccee-eeeeccccCCHHHHHHHHhhhC
Confidence            599999999999999999887643211   11122 2222221100  000000000 0000001122344677888888


Q ss_pred             eEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCChHHHh
Q 047559          292 KLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAA  335 (444)
Q Consensus       292 r~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~~va~  335 (444)
                      +=+|++|++.+  ...+..+....   ..|..||+||...+.+.
T Consensus       197 PdvillDEp~d--~e~~~~~~~~~---~~G~~vl~t~H~~~~~~  235 (356)
T 3jvv_A          197 PDIILVGEMRD--LETIRLALTAA---ETGHLVFGTLHTTSAAK  235 (356)
T ss_dssp             CSEEEESCCCS--HHHHHHHHHHH---HTTCEEEEEESCSSHHH
T ss_pred             cCEEecCCCCC--HHHHHHHHHHH---hcCCEEEEEEccChHHH
Confidence            88999999964  34455443332   23667888888766554

>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=95.12  E-value=0.011  Score=52.78  Aligned_cols=23  Identities=26%  Similarity=0.426  Sum_probs=21.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|++|+|||||++.+...
T Consensus        28 ~~i~l~G~~GsGKSTl~k~La~~   50 (246)
T 2bbw_A           28 LRAVILGPPGSGKGTVCQRIAQN   50 (246)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            68999999999999999999854

>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=95.08  E-value=0.011  Score=51.24  Aligned_cols=23  Identities=30%  Similarity=0.481  Sum_probs=21.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|+|||||++.+..-
T Consensus        21 ei~~l~GpnGsGKSTLl~~l~gl   43 (207)
T 1znw_A           21 RVVVLSGPSAVGKSTVVRCLRER   43 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHhh
Confidence            69999999999999999998764

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=95.05  E-value=0.079  Score=52.00  Aligned_cols=42  Identities=29%  Similarity=0.370  Sum_probs=29.1

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCC
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFD  255 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~  255 (444)
                      ...+++|+|..|+|||||++.+.......    ...+++...+.+.
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~~LAgll~~~----~G~V~l~g~D~~r  333 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIGKLARQFEQQ----GKSVMLAAGDTFR  333 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHHHHHHHT----TCCEEEECCCTTC
T ss_pred             CCeEEEEECCCcccHHHHHHHHHHHhhhc----CCeEEEecCcccc
Confidence            34799999999999999999988654321    2445554344443

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=95.03  E-value=0.025  Score=53.01  Aligned_cols=46  Identities=20%  Similarity=0.296  Sum_probs=30.5

Q ss_pred             ccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          188 GRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       188 Gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      +-+.-.+.+++.+...-..  +....|.|+|++|+||||+++.+....
T Consensus         3 ~~~~L~~~il~~l~~~i~~--g~~~~i~l~G~~G~GKTTl~~~la~~l   48 (359)
T 2ga8_A            3 DTHKLADDVLQLLDNRIED--NYRVCVILVGSPGSGKSTIAEELCQII   48 (359)
T ss_dssp             CHHHHHHHHHHHHHHTTTT--CSCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHhcc--CCeeEEEEECCCCCcHHHHHHHHHHHh
Confidence            3344455566655322111  344679999999999999999887653

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=95.03  E-value=0.0077  Score=50.93  Aligned_cols=24  Identities=38%  Similarity=0.386  Sum_probs=17.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+|.|.|++|+||||+|+.+....
T Consensus         6 ~~I~l~G~~GsGKST~a~~La~~l   29 (183)
T 2vli_A            6 PIIWINGPFGVGKTHTAHTLHERL   29 (183)
T ss_dssp             CEEEEECCC----CHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhc
Confidence            689999999999999999997653

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=95.00  E-value=0.013  Score=48.77  Aligned_cols=23  Identities=22%  Similarity=0.304  Sum_probs=20.6

Q ss_pred             EEEEEecCCChHHHHHHHHhhcc
Q 047559          213 VIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .|.|.|++|+||||+|+.+....
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            58999999999999999998753

>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=94.97  E-value=0.015  Score=54.04  Aligned_cols=26  Identities=31%  Similarity=0.289  Sum_probs=22.6

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhcc
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ...+++|+|+.|+|||||++.+..-.
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            34799999999999999999988653

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=94.96  E-value=0.11  Score=50.82  Aligned_cols=51  Identities=14%  Similarity=0.139  Sum_probs=35.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLES  266 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~  266 (444)
                      .++.|.|.+|+||||||..++......  .-..++|++..  .+..++...++..
T Consensus       201 ~l~ii~G~pg~GKT~lal~ia~~~a~~--~g~~vl~~slE--~~~~~l~~R~~~~  251 (444)
T 2q6t_A          201 SLNIIAARPAMGKTAFALTIAQNAALK--EGVGVGIYSLE--MPAAQLTLRMMCS  251 (444)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHHHT--TCCCEEEEESS--SCHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHHHh--CCCeEEEEECC--CCHHHHHHHHHHH
Confidence            689999999999999999988764322  12346676654  4455666665543

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=94.94  E-value=0.014  Score=49.83  Aligned_cols=23  Identities=39%  Similarity=0.647  Sum_probs=20.9

Q ss_pred             EEEEEecCCChHHHHHHHHhhcc
Q 047559          213 VIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      +|+|.|+.|+||||+++.+.+..
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            68999999999999999998754

>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=94.93  E-value=0.015  Score=50.45  Aligned_cols=25  Identities=28%  Similarity=0.442  Sum_probs=22.4

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRA  236 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~  236 (444)
                      .+|.|.|+.|+||||+++.+.+...
T Consensus        10 ~~I~l~G~~GsGKsT~~~~L~~~l~   34 (215)
T 1nn5_A           10 ALIVLEGVDRAGKSTQSRKLVEALC   34 (215)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHH
Confidence            6899999999999999999987643

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=94.91  E-value=0.18  Score=51.23  Aligned_cols=23  Identities=30%  Similarity=0.550  Sum_probs=21.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|+|||||.+.+..-
T Consensus       104 ei~~LvGpNGaGKSTLLkiL~Gl  126 (608)
T 3j16_B          104 QVLGLVGTNGIGKSTALKILAGK  126 (608)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCChHHHHHHHHhcC
Confidence            69999999999999999998754

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=94.91  E-value=0.016  Score=51.69  Aligned_cols=23  Identities=22%  Similarity=0.359  Sum_probs=21.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+|+|.|+.|+|||||++.+...
T Consensus        26 ~iigI~G~~GsGKSTl~k~L~~~   48 (245)
T 2jeo_A           26 FLIGVSGGTASGKSTVCEKIMEL   48 (245)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Confidence            69999999999999999998764

>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=94.90  E-value=0.016  Score=47.92  Aligned_cols=24  Identities=33%  Similarity=0.470  Sum_probs=21.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+++|+|+.|.|||||++.+..-.
T Consensus        34 e~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           34 IMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhC
Confidence            699999999999999999998653

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=94.89  E-value=0.011  Score=51.80  Aligned_cols=23  Identities=39%  Similarity=0.622  Sum_probs=21.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|+|||||++.+...
T Consensus        24 ~~~~lvGpsGsGKSTLl~~L~g~   46 (218)
T 1z6g_A           24 YPLVICGPSGVGKGTLIKKLLNE   46 (218)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHhh
Confidence            58999999999999999998764

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=94.88  E-value=0.0082  Score=52.23  Aligned_cols=23  Identities=35%  Similarity=0.543  Sum_probs=20.8

Q ss_pred             EEEEEecCCChHHHHHHHHhhcc
Q 047559          213 VIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      +|+|.|+.|+||||+++.+....
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~l   24 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGAF   24 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHH
Confidence            68999999999999999997654

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=94.86  E-value=0.015  Score=50.49  Aligned_cols=26  Identities=19%  Similarity=0.170  Sum_probs=22.8

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhccc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDRA  236 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~  236 (444)
                      ..+|.|.|+.|+||||+++.+.....
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~~l~   35 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVEYLK   35 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            36899999999999999999987643

>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=94.86  E-value=0.015  Score=48.53  Aligned_cols=26  Identities=31%  Similarity=0.372  Sum_probs=22.8

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhccc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDRA  236 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~  236 (444)
                      ..++.|+|..|+|||||+..+.....
T Consensus         4 ~~~i~i~G~sGsGKTTl~~~L~~~l~   29 (169)
T 1xjc_A            4 MNVWQVVGYKHSGKTTLMEKWVAAAV   29 (169)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhhH
Confidence            47899999999999999999987643

>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=94.86  E-value=0.047  Score=52.82  Aligned_cols=90  Identities=14%  Similarity=0.233  Sum_probs=53.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccC-CcceeEEEEeCCCC-CHHHHHHHHHHH--hcc-----CCCCcccHH----
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDS-KFDVKAWVCVSDDF-DVLNISRALLES--ITF-----ASCDLKALN----  278 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~-~f~~~~wv~vs~~~-~~~~~~~~il~~--l~~-----~~~~~~~~~----  278 (444)
                      .-++|+|.+|+|||+|+..+.+....... .--.++++-++... .+.++++.+...  +..     ...+.+...    
T Consensus       152 Qr~~Ifgg~G~GKt~L~~~Ia~~~~~~~d~~~~~~V~~~iGeR~~Ev~e~~~~~~~~g~~~rtvvV~atsd~p~~~r~~a  231 (465)
T 3vr4_D          152 QKLPVFSGSGLPHKELAAQIARQATVLDSSDDFAVVFAAIGITFEEAEFFMEDFRQTGAIDRSVMFMNLANDPAIERIAT  231 (465)
T ss_dssp             CBCCEEECTTSCHHHHHHHHHHHCBCSSCSSCEEEEEEEEEECHHHHHHHHHHHHHHTGGGGEEEEEEETTSCHHHHHHH
T ss_pred             CEEEEeCCCCcChHHHHHHHHHHHHhccCCCceEEEEEEecCCcHHHHHHHHHHhhcCCccceEEEEECCCCCHHHHHHH
Confidence            35789999999999999999887543110 11156777777653 455666665442  110     111111111    


Q ss_pred             -HHHHHHHHHh---CCceEEEEEeCCC
Q 047559          279 -EVQVQIKRAV---DGKKLLLVLDDVW  301 (444)
Q Consensus       279 -~~~~~l~~~l---~~kr~LlVlDdv~  301 (444)
                       ...-.+.+++   .++.+||++||+-
T Consensus       232 ~~~a~tiAEyfrd~~G~~VLl~~DslT  258 (465)
T 3vr4_D          232 PRMALTAAEYLAYEKGMHVLVIMTDMT  258 (465)
T ss_dssp             HHHHHHHHHHHHHTTCCEEEEEEECHH
T ss_pred             HHHHHHHHHHHHHhcCCeEEEEEcChH
Confidence             1122355665   3789999999983

>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=94.85  E-value=0.022  Score=50.86  Aligned_cols=25  Identities=20%  Similarity=0.226  Sum_probs=22.1

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ...|.|.|++|+||||+|+.+.+..
T Consensus        29 ~~~I~l~G~~GsGKsT~a~~L~~~~   53 (243)
T 3tlx_A           29 DGRYIFLGAPGSGKGTQSLNLKKSH   53 (243)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            4789999999999999999998653

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=94.83  E-value=0.015  Score=51.19  Aligned_cols=23  Identities=26%  Similarity=0.407  Sum_probs=21.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ..|.|.|++|+||||+|+.+...
T Consensus         8 ~~I~l~G~~GsGKsT~a~~La~~   30 (227)
T 1zd8_A            8 LRAVIMGAPGSGKGTVSSRITTH   30 (227)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            68999999999999999999875

>2r9v_A ATP synthase subunit alpha; TM1612, structural genomics, JOI for structural genomics, JCSG, protein structure initiative ATP synthesis; HET: ATP PG4; 2.10A {Thermotoga maritima MSB8}

Probab=94.81  E-value=0.12  Score=50.67  Aligned_cols=85  Identities=22%  Similarity=0.245  Sum_probs=51.6

Q ss_pred             eEEEEEecCCChHHHHH-HHHhhccccccCCcc-eeEEEEeCCCC-CHHHHHHHHHHHhc-------cCCCCccc-HHH-
Q 047559          212 AVIPIVGMAGVGKTTLA-REVYNDRAVEDSKFD-VKAWVCVSDDF-DVLNISRALLESIT-------FASCDLKA-LNE-  279 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa-~~v~~~~~~~~~~f~-~~~wv~vs~~~-~~~~~~~~il~~l~-------~~~~~~~~-~~~-  279 (444)
                      .-++|+|.+|+|||+|| ..+.+..     ..+ .++++-++... .+.++.+.+...=.       ....+.+. ... 
T Consensus       176 QR~~I~g~~g~GKT~Lal~~I~~~~-----~~dv~~V~~~IGeR~~Ev~e~~~~~~~~g~m~rtvvV~atad~p~~~r~~  250 (515)
T 2r9v_A          176 QRELIIGDRQTGKTAIAIDTIINQK-----GQGVYCIYVAIGQKKSAIARIIDKLRQYGAMEYTTVVVASASDPASLQYI  250 (515)
T ss_dssp             CBEEEEEETTSSHHHHHHHHHHTTT-----TTTEEEEEEEESCCHHHHHHHHHHHHHTTGGGGEEEEEECTTSCHHHHHH
T ss_pred             CEEEEEcCCCCCccHHHHHHHHHhh-----cCCcEEEEEEcCCCcHHHHHHHHHHHhCCCcceeEEEEECCCCCHHHHHH
Confidence            46899999999999995 5777763     345 35777777654 44556666554211       01111111 111 


Q ss_pred             ---HHHHHHHHh--CCceEEEEEeCCC
Q 047559          280 ---VQVQIKRAV--DGKKLLLVLDDVW  301 (444)
Q Consensus       280 ---~~~~l~~~l--~~kr~LlVlDdv~  301 (444)
                         ..-.+.+++  +++.+||++||+-
T Consensus       251 a~~~a~tiAEyfrd~G~dVLli~DslT  277 (515)
T 2r9v_A          251 APYAGCAMGEYFAYSGRDALVVYDDLS  277 (515)
T ss_dssp             HHHHHHHHHHHHHTTTCEEEEEEETHH
T ss_pred             HHHHHHHHHHHHHHcCCcEEEEeccHH
Confidence               122344555  6789999999983

>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=94.81  E-value=0.016  Score=50.87  Aligned_cols=25  Identities=16%  Similarity=0.325  Sum_probs=22.1

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      -.+++|+|+.|+|||||.+.+....
T Consensus        16 G~ii~l~GpsGsGKSTLlk~L~g~~   40 (219)
T 1s96_A           16 GTLYIVSAPSGAGKSSLIQALLKTQ   40 (219)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CcEEEEECCCCCCHHHHHHHHhccC
Confidence            3699999999999999999988653

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A

Probab=94.80  E-value=0.16  Score=59.97  Aligned_cols=160  Identities=14%  Similarity=0.066  Sum_probs=0.0

Q ss_pred             HHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccC--
Q 047559          193 KAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFA--  270 (444)
Q Consensus       193 ~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~--  270 (444)
                      ...+++.+....       +-+.++|++|+|||++|+.+....     .--..+.++.+...+...+...+-..+...  
T Consensus      1256 ~~~ll~~~l~~~-------~~vLL~GPpGtGKT~la~~~l~~~-----~~~~~~~infsa~ts~~~~~~~i~~~~~~~~~ 1323 (2695)
T 4akg_A         1256 HEKIFYDLLNSK-------RGIILCGPPGSGKTMIMNNALRNS-----SLYDVVGINFSKDTTTEHILSALHRHTNYVTT 1323 (2695)
T ss_dssp             HHHHHHHHHHHT-------CEEEEECSTTSSHHHHHHHHHHSC-----SSCEEEEEECCTTCCHHHHHHHHHHHBCCEEE
T ss_pred             HHHHHHHHHHCC-------CeEEEECCCCCCHHHHHHHHHhcC-----CCCceEEEEeecCCCHHHHHHHHHHHhhhccc


Q ss_pred             ----------CCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChh------cHHHhhcccCCCC------------CCc
Q 047559          271 ----------SCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYC------LWEDLKAPFLAAA------------PNS  322 (444)
Q Consensus       271 ----------~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~------~~~~l~~~l~~~~------------~gs  322 (444)
                                .                  +++.+|.+||+.-...+      ..+.++..+..++            .+.
T Consensus      1324 ~~g~~~~P~~~------------------gk~~VlFiDEinmp~~d~yg~q~~lelLRq~le~gg~yd~~~~~~~~~~~i 1385 (2695)
T 4akg_A         1324 SKGLTLLPKSD------------------IKNLVLFCDEINLPKLDKYGSQNVVLFLRQLMEKQGFWKTPENKWVTIERI 1385 (2695)
T ss_dssp             TTTEEEEEBSS------------------SSCEEEEEETTTCSCCCSSSCCHHHHHHHHHHHTSSEECTTTCCEEEEESE
T ss_pred             cCCccccCCCC------------------CceEEEEecccccccccccCchhHHHHHHHHHhcCCEEEcCCCcEEEecCE


Q ss_pred             EEEEecCChH-------HHhhcCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHc
Q 047559          323 KIIVTTRHAH-------VAATMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKC  384 (444)
Q Consensus       323 ~iivTTr~~~-------va~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~  384 (444)
                      .+|.++....       -....+...++.+...+.++-..+|.....+--.  ..+.+..++..|+...
T Consensus      1386 ~lIaA~Npp~~gGR~~l~~rllRrf~vi~i~~P~~~~l~~I~~~il~~~l~--~~~~v~~~~~~lv~at 1452 (2695)
T 4akg_A         1386 HIVGACNPPTDPGRIPMSERFTRHAAILYLGYPSGKSLSQIYEIYYKAIFK--LVPEFRSYTEPFARAS 1452 (2695)
T ss_dssp             EEEEEECCTTSTTCCCCCHHHHTTEEEEECCCCTTTHHHHHHHHHHHHHTT--SSGGGGGGHHHHHHHH
T ss_pred             EEEEecCCCccCCCccCChhhhheeeEEEeCCCCHHHHHHHHHHHHHHHhc--cCHHHHHHHHHHHHHH

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=94.79  E-value=0.015  Score=52.23  Aligned_cols=23  Identities=35%  Similarity=0.572  Sum_probs=21.1

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+|+|+|+.|+||||+++.+...
T Consensus        28 ~~I~I~G~~GsGKSTl~k~La~~   50 (252)
T 4e22_A           28 PVITVDGPSGAGKGTLCKALAES   50 (252)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHh
Confidence            58999999999999999999854

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=94.79  E-value=0.13  Score=51.56  Aligned_cols=23  Identities=30%  Similarity=0.621  Sum_probs=21.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        26 ei~gLiGpNGaGKSTLlkiL~Gl   48 (538)
T 3ozx_A           26 TILGVLGKNGVGKTTVLKILAGE   48 (538)
T ss_dssp             EEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCcHHHHHHHHhcC
Confidence            79999999999999999998764

>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=94.77  E-value=0.02  Score=49.08  Aligned_cols=26  Identities=31%  Similarity=0.464  Sum_probs=22.9

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ..-.+|+|.|+.|+||||+++.+...
T Consensus        10 ~~~~iIgltG~~GSGKSTva~~L~~~   35 (192)
T 2grj_A           10 HHHMVIGVTGKIGTGKSTVCEILKNK   35 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHHh
Confidence            44589999999999999999998764

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=94.75  E-value=0.093  Score=51.43  Aligned_cols=49  Identities=18%  Similarity=0.220  Sum_probs=33.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALL  264 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il  264 (444)
                      .++.|.|.+|+|||||+..+.......  .-..++|++...  +..++...++
T Consensus       204 ~liiI~G~pG~GKTtl~l~ia~~~~~~--~g~~Vl~~s~E~--s~~~l~~r~~  252 (454)
T 2r6a_A          204 DLIIVAARPSVGKTAFALNIAQNVATK--TNENVAIFSLEM--SAQQLVMRML  252 (454)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHHH--SSCCEEEEESSS--CHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHh--CCCcEEEEECCC--CHHHHHHHHH
Confidence            689999999999999999988764322  112566766433  3445555443

>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=94.75  E-value=0.15  Score=47.52  Aligned_cols=25  Identities=40%  Similarity=0.371  Sum_probs=22.2

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..+++|+|+.|+||||+++.+....
T Consensus       129 g~vi~lvG~nGaGKTTll~~Lag~l  153 (328)
T 3e70_C          129 PYVIMFVGFNGSGKTTTIAKLANWL  153 (328)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4799999999999999999988654

>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=94.74  E-value=0.038  Score=48.77  Aligned_cols=24  Identities=29%  Similarity=0.501  Sum_probs=21.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+|.|.|++|+||||+++.+....
T Consensus        10 ~~i~i~G~~GsGKsTla~~la~~l   33 (233)
T 3r20_A           10 LVVAVDGPAGTGKSSVSRGLARAL   33 (233)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            589999999999999999998653

>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=94.73  E-value=0.016  Score=49.82  Aligned_cols=24  Identities=29%  Similarity=0.380  Sum_probs=21.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..|+|.|+.|+||||+++.+.+..
T Consensus         5 ~~I~l~G~~GsGKsT~~~~L~~~l   28 (204)
T 2v54_A            5 ALIVFEGLDKSGKTTQCMNIMESI   28 (204)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHTS
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHHH
Confidence            589999999999999999998763

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=94.73  E-value=0.015  Score=50.59  Aligned_cols=23  Identities=30%  Similarity=0.536  Sum_probs=20.2

Q ss_pred             EEEEEecCCChHHHHHHHHhhcc
Q 047559          213 VIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .|.|.|++|+||||+|+.+....
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            47899999999999999997653

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=94.71  E-value=0.014  Score=51.10  Aligned_cols=24  Identities=21%  Similarity=0.202  Sum_probs=21.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..|.|.|++|+||||+++.+....
T Consensus         6 ~~I~l~G~~GsGKsT~~~~La~~l   29 (222)
T 1zak_A            6 LKVMISGAPASGKGTQCELIKTKY   29 (222)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            578999999999999999998764

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=94.69  E-value=0.025  Score=48.58  Aligned_cols=38  Identities=11%  Similarity=0.099  Sum_probs=27.2

Q ss_pred             HHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          193 KAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       193 ~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      +..+..++..-     ++...+.|+|++|+||||+|..+++..
T Consensus        45 ~~~l~~~~~~i-----Pkkn~ili~GPPGtGKTt~a~ala~~l   82 (212)
T 1tue_A           45 LGALKSFLKGT-----PKKNCLVFCGPANTGKSYFGMSFIHFI   82 (212)
T ss_dssp             HHHHHHHHHTC-----TTCSEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcC-----CcccEEEEECCCCCCHHHHHHHHHHHh
Confidence            44555555431     333579999999999999998888763

>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A

Probab=94.69  E-value=0.12  Score=49.88  Aligned_cols=24  Identities=33%  Similarity=0.354  Sum_probs=21.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .++.|+|.+|+||||++..+....
T Consensus        99 ~vi~i~G~~GsGKTT~~~~LA~~l  122 (425)
T 2ffh_A           99 NLWFLVGLQGSGKTTTAAKLALYY  122 (425)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            689999999999999998887553

>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=94.66  E-value=0.021  Score=48.15  Aligned_cols=24  Identities=25%  Similarity=0.412  Sum_probs=21.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+|.|.|+.|+||||+++.+....
T Consensus         6 ~~i~l~G~~GsGKST~~~~L~~~l   29 (179)
T 2pez_A            6 CTVWLTGLSGAGKTTVSMALEEYL   29 (179)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHH
Confidence            689999999999999999998753

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B

Probab=94.66  E-value=0.073  Score=52.08  Aligned_cols=85  Identities=25%  Similarity=0.283  Sum_probs=51.2

Q ss_pred             eEEEEEecCCChHHHHH-HHHhhccccccCCcc-eeEEEEeCCCC-CHHHHHHHHHHHhcc-------CCCCcccHHH--
Q 047559          212 AVIPIVGMAGVGKTTLA-REVYNDRAVEDSKFD-VKAWVCVSDDF-DVLNISRALLESITF-------ASCDLKALNE--  279 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa-~~v~~~~~~~~~~f~-~~~wv~vs~~~-~~~~~~~~il~~l~~-------~~~~~~~~~~--  279 (444)
                      .-++|+|.+|+|||+|| ..+.+..     ..+ .++++-++... .+.++.+.+...=..       ...+.+....  
T Consensus       163 QR~~Ifg~~g~GKT~Lal~~I~~~~-----~~dv~~V~~~iGeR~~Ev~~~~~~~~~~g~m~~tvvV~atad~p~~~r~~  237 (502)
T 2qe7_A          163 QRELIIGDRQTGKTTIAIDTIINQK-----GQDVICIYVAIGQKQSTVAGVVETLRQHDALDYTIVVTASASEPAPLLYL  237 (502)
T ss_dssp             CBCEEEECSSSCHHHHHHHHHHGGG-----SCSEEEEEEEESCCHHHHHHHHHHHHHTTCSTTEEEEEECTTSCHHHHHH
T ss_pred             CEEEEECCCCCCchHHHHHHHHHhh-----cCCcEEEEEECCCcchHHHHHHHHHhhCCCcceeEEEEECCCCCHHHHHH
Confidence            46899999999999995 5777763     344 35777777654 445555555542111       1111111111  


Q ss_pred             ---HHHHHHHHh--CCceEEEEEeCCC
Q 047559          280 ---VQVQIKRAV--DGKKLLLVLDDVW  301 (444)
Q Consensus       280 ---~~~~l~~~l--~~kr~LlVlDdv~  301 (444)
                         ..-.+.+++  +++.+||++||+-
T Consensus       238 a~~~a~tiAEyfrd~G~dVLl~~Dslt  264 (502)
T 2qe7_A          238 APYAGCAMGEYFMYKGKHALVVYDDLS  264 (502)
T ss_dssp             HHHHHHHHHHHHHTTTCEEEEEEECHH
T ss_pred             HHHHHHHHHHHHHHcCCcEEEEEecHH
Confidence               112344555  6789999999983

>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=94.66  E-value=0.019  Score=50.39  Aligned_cols=45  Identities=22%  Similarity=0.328  Sum_probs=30.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccc--cC-CcceeEEEEeCCCCCH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVE--DS-KFDVKAWVCVSDDFDV  256 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~--~~-~f~~~~wv~vs~~~~~  256 (444)
                      .+++|+|++|+|||||++.+.......  .. .....+|+.....+..
T Consensus        26 ~~~~l~G~nGsGKSTll~~l~g~~~~~~~~g~~~~~~i~~~~~~~~~~   73 (231)
T 4a74_A           26 AITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRP   73 (231)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCEEEEEECCCCCCH
Confidence            799999999999999999997632111  10 1345778776554443

>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=94.64  E-value=0.016  Score=52.00  Aligned_cols=22  Identities=50%  Similarity=0.732  Sum_probs=20.4

Q ss_pred             EEEEecCCChHHHHHHHHhhcc
Q 047559          214 IPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      +.|+|++|+|||||++.++...
T Consensus        52 ~ll~G~~G~GKTtl~~~i~~~~   73 (254)
T 1ixz_A           52 VLLVGPPGVGKTHLARAVAGEA   73 (254)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            8999999999999999998764

>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=94.63  E-value=0.021  Score=49.63  Aligned_cols=24  Identities=33%  Similarity=0.437  Sum_probs=21.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+|.|.|+.|+||||+++.+....
T Consensus        26 ~~i~~~G~~GsGKsT~~~~l~~~l   49 (211)
T 1m7g_A           26 LTIWLTGLSASGKSTLAVELEHQL   49 (211)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHh
Confidence            789999999999999999998754

>1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET: DNA; 3.45A {Enterobacteria phage T7} SCOP: c.37.1.11 e.13.1.2

Probab=94.63  E-value=0.14  Score=50.91  Aligned_cols=50  Identities=14%  Similarity=0.122  Sum_probs=34.4

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLE  265 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~  265 (444)
                      .++.|.|.+|+||||||.++..+....  +-..++|++...  +..++...++.
T Consensus       243 ~l~li~G~pG~GKT~lal~~a~~~a~~--~g~~vl~~s~E~--s~~~l~~r~~~  292 (503)
T 1q57_A          243 EVIMVTSGSGMVMSTFVRQQALQWGTA--MGKKVGLAMLEE--SVEETAEDLIG  292 (503)
T ss_dssp             CEEEEEESSCHHHHHHHHHHHHHHTTT--SCCCEEEEESSS--CHHHHHHHHHH
T ss_pred             eEEEEeecCCCCchHHHHHHHHHHHHh--cCCcEEEEeccC--CHHHHHHHHHH
Confidence            689999999999999999988764322  123566776543  45566655543

>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=94.63  E-value=0.018  Score=50.42  Aligned_cols=24  Identities=25%  Similarity=0.342  Sum_probs=21.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..|.|.|++|+||||+|+.+....
T Consensus         5 ~~I~l~G~~GsGKsT~a~~La~~l   28 (220)
T 1aky_A            5 IRMVLIGPPGAGKGTQAPNLQERF   28 (220)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            579999999999999999998753

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=94.62  E-value=0.013  Score=49.25  Aligned_cols=25  Identities=32%  Similarity=0.412  Sum_probs=21.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRA  236 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~  236 (444)
                      .+++|+|..|+|||||++.+..-..
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~~   27 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPILR   27 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhh
Confidence            5899999999999999999886643

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=94.61  E-value=0.032  Score=48.80  Aligned_cols=25  Identities=24%  Similarity=0.498  Sum_probs=22.1

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhc
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ....|+|+|.+|+|||||+..+...
T Consensus        37 ~~~~i~ivG~~gvGKTtl~~~l~~~   61 (226)
T 2hf9_A           37 GVVAFDFMGAIGSGKTLLIEKLIDN   61 (226)
T ss_dssp             TCEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            3478999999999999999998876

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=94.61  E-value=0.063  Score=61.31  Aligned_cols=84  Identities=17%  Similarity=0.127  Sum_probs=54.3

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCC-----CcccHHHHHHHH
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASC-----DLKALNEVQVQI  284 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~-----~~~~~~~~~~~l  284 (444)
                      .-+++.|+|++|+|||+||.++......   +=..++|+++...++...     ++.++....     .....++....+
T Consensus      1426 ~g~~vll~GppGtGKT~LA~ala~ea~~---~G~~v~Fi~~e~~~~~l~-----a~~~G~dl~~l~v~~~~~~E~~l~~~ 1497 (2050)
T 3cmu_A         1426 MGRIVEIYGPESSGKTTLTLQVIAAAQR---EGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEIC 1497 (2050)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHHHT---TTCCEEEECTTSCCCHHH-----HHHTTCCTTTCEEECCSSHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH---cCCcEEEEEcccccCHHH-----HHHcCCCchhceeecCChHHHHHHHH
Confidence            3479999999999999999998776432   223567888877766655     333331110     122234455555


Q ss_pred             HHHh-CCceEEEEEeCCC
Q 047559          285 KRAV-DGKKLLLVLDDVW  301 (444)
Q Consensus       285 ~~~l-~~kr~LlVlDdv~  301 (444)
                      .... ..+.-+||+|.+.
T Consensus      1498 ~~lvr~~~~~lVVIDsi~ 1515 (2050)
T 3cmu_A         1498 DALARSGAVDVIVVDSVA 1515 (2050)
T ss_dssp             HHHHHHTCCSEEEESCGG
T ss_pred             HHHHhcCCCCEEEEcChh
Confidence            5554 3566799999994

>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=94.59  E-value=0.018  Score=50.26  Aligned_cols=22  Identities=23%  Similarity=0.514  Sum_probs=19.7

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .|.|.|++|+||||+|+.+...
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~   23 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEK   23 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999999765

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=94.56  E-value=0.019  Score=51.10  Aligned_cols=23  Identities=17%  Similarity=0.277  Sum_probs=20.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        25 e~~~liG~nGsGKSTLl~~l~Gl   47 (240)
T 2onk_A           25 DYCVLLGPTGAGKSVFLELIAGI   47 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEEECCCCCCHHHHHHHHhCC
Confidence            68999999999999999999753

>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=94.55  E-value=0.02  Score=52.96  Aligned_cols=25  Identities=36%  Similarity=0.406  Sum_probs=21.7

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..+++|+|++|+|||||++.+..-.
T Consensus       102 g~vi~lvG~nGsGKTTll~~Lagll  126 (304)
T 1rj9_A          102 GRVVLVVGVNGVGKTTTIAKLGRYY  126 (304)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHH
Confidence            3699999999999999999987543

>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=94.55  E-value=0.11  Score=50.28  Aligned_cols=25  Identities=36%  Similarity=0.373  Sum_probs=21.7

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..+|.++|++|+||||++..+....
T Consensus        97 ~~vI~lvG~~GsGKTTt~~kLA~~l  121 (433)
T 3kl4_A           97 PFIIMLVGVQGSGKTTTAGKLAYFY  121 (433)
T ss_dssp             SEEEEECCCTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4799999999999999998887543

>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=94.55  E-value=0.024  Score=51.85  Aligned_cols=23  Identities=30%  Similarity=0.638  Sum_probs=21.0

Q ss_pred             CceEEEEEecCCChHHHHHHHHh
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVY  232 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~  232 (444)
                      ...+|+|.|+.|+||||+|+.+.
T Consensus        74 ~~~iI~I~G~~GSGKSTva~~La   96 (281)
T 2f6r_A           74 GLYVLGLTGISGSGKSSVAQRLK   96 (281)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
Confidence            34799999999999999999987

>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=94.52  E-value=0.16  Score=51.51  Aligned_cols=125  Identities=18%  Similarity=0.154  Sum_probs=64.7

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCC--cc-eeEEEEeC----CCCCHHHHHH--------------HHHHHhccC
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSK--FD-VKAWVCVS----DDFDVLNISR--------------ALLESITFA  270 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~--f~-~~~wv~vs----~~~~~~~~~~--------------~il~~l~~~  270 (444)
                      .+++|+|+.|+|||||++.+..-.....+.  +. .+.++.-.    ...++.+.+.              .++..++..
T Consensus       383 ei~~i~G~NGsGKSTLlk~l~Gl~~p~~G~I~~~~~i~~v~Q~~~~~~~~tv~e~~~~~~~~~~~~~~~~~~~l~~~~l~  462 (607)
T 3bk7_A          383 EVIGIVGPNGIGKTTFVKMLAGVEEPTEGKVEWDLTVAYKPQYIKAEYEGTVYELLSKIDSSKLNSNFYKTELLKPLGII  462 (607)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTSSCCSBSCCCCCCCEEEECSSCCCCCSSBHHHHHHHHHHHHHHCHHHHHHTHHHHTCT
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCceEEEEeeEEEEEecCccCCCCCcHHHHHHhhhccCCCHHHHHHHHHHHcCCc
Confidence            589999999999999999998753221111  11 12333211    1123333322              222233222


Q ss_pred             CC-----CcccH-HHHHHHHHHHhCCceEEEEEeCCCC-CChhcHHHhhcccCC--CCCCcEEEEecCChHHHhh
Q 047559          271 SC-----DLKAL-NEVQVQIKRAVDGKKLLLVLDDVWN-EDYCLWEDLKAPFLA--AAPNSKIIVTTRHAHVAAT  336 (444)
Q Consensus       271 ~~-----~~~~~-~~~~~~l~~~l~~kr~LlVlDdv~~-~~~~~~~~l~~~l~~--~~~gs~iivTTr~~~va~~  336 (444)
                      ..     ..-+- +...-.|...|...+=+|+||+--+ .|...-..+...+..  ...|..||++|.+...+..
T Consensus       463 ~~~~~~~~~LSGGe~QRv~iAraL~~~p~lLlLDEPt~~LD~~~~~~l~~~l~~l~~~~g~tvi~vsHd~~~~~~  537 (607)
T 3bk7_A          463 DLYDRNVEDLSGGELQRVAIAATLLRDADIYLLDEPSAYLDVEQRLAVSRAIRHLMEKNEKTALVVEHDVLMIDY  537 (607)
T ss_dssp             TTTTSBGGGCCHHHHHHHHHHHHHTSCCSEEEEECTTTTCCHHHHHHHHHHHHHHHHHTTCEEEEECSCHHHHHH
T ss_pred             hHhcCChhhCCHHHHHHHHHHHHHHhCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHhCCCEEEEEeCCHHHHHH
Confidence            11     11122 2233356667777788999999743 233322223333322  1235678888888666554

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=94.52  E-value=0.12  Score=52.43  Aligned_cols=125  Identities=11%  Similarity=0.047  Sum_probs=63.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCC-c-c-eeEEEEeC--C--CCCHHH--------------HHHHHHHHhccC
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSK-F-D-VKAWVCVS--D--DFDVLN--------------ISRALLESITFA  270 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~-f-~-~~~wv~vs--~--~~~~~~--------------~~~~il~~l~~~  270 (444)
                      .+++|+|+.|+|||||++.+..-.....+. . . ...++.-.  .  ..++.+              ....++..++..
T Consensus       379 Eiv~iiG~NGsGKSTLlk~l~Gl~~p~~G~~~~~~~i~~~~q~~~~~~~~tv~e~~~~~~~~~~~~~~~~~~~l~~l~l~  458 (608)
T 3j16_B          379 EILVMMGENGTGKTTLIKLLAGALKPDEGQDIPKLNVSMKPQKIAPKFPGTVRQLFFKKIRGQFLNPQFQTDVVKPLRID  458 (608)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHTSSCCSBCCCCCSCCEEEECSSCCCCCCSBHHHHHHHHCSSTTTSHHHHHHTHHHHTST
T ss_pred             eEEEEECCCCCcHHHHHHHHhcCCCCCCCcCccCCcEEEecccccccCCccHHHHHHHHhhcccccHHHHHHHHHHcCCh
Confidence            579999999999999999998643221111 0 0 11222100  0  011222              222333333322


Q ss_pred             CC-----Cccc-HHHHHHHHHHHhCCceEEEEEeCCCCC-ChhcHHHhhcccCC--CCCCcEEEEecCChHHHhh
Q 047559          271 SC-----DLKA-LNEVQVQIKRAVDGKKLLLVLDDVWNE-DYCLWEDLKAPFLA--AAPNSKIIVTTRHAHVAAT  336 (444)
Q Consensus       271 ~~-----~~~~-~~~~~~~l~~~l~~kr~LlVlDdv~~~-~~~~~~~l~~~l~~--~~~gs~iivTTr~~~va~~  336 (444)
                      ..     ..-+ -+...-.|...|..++=+|+||+--.. |...-..+...+..  ...|..||++|.+...+..
T Consensus       459 ~~~~~~~~~LSGGqkQRv~iAraL~~~p~lLlLDEPT~gLD~~~~~~i~~ll~~l~~~~g~tviivtHdl~~~~~  533 (608)
T 3j16_B          459 DIIDQEVQHLSGGELQRVAIVLALGIPADIYLIDEPSAYLDSEQRIICSKVIRRFILHNKKTAFIVEHDFIMATY  533 (608)
T ss_dssp             TTSSSBSSSCCHHHHHHHHHHHHTTSCCSEEEECCTTTTCCHHHHHHHHHHHHHHHHHHTCEEEEECSCHHHHHH
T ss_pred             hhhcCChhhCCHHHHHHHHHHHHHHhCCCEEEEECCCCCCCHHHHHHHHHHHHHHHHhCCCEEEEEeCCHHHHHH
Confidence            11     1122 223334567778788889999997432 32222222222222  1236678888887766654

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=94.51  E-value=0.032  Score=47.36  Aligned_cols=26  Identities=35%  Similarity=0.336  Sum_probs=22.2

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .....|+|+|.+|+|||||...+...
T Consensus        46 ~~~~~i~vvG~~g~GKSsll~~l~~~   71 (193)
T 2ged_A           46 SYQPSIIIAGPQNSGKTSLLTLLTTD   71 (193)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            33468899999999999999999865

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=94.49  E-value=0.069  Score=47.34  Aligned_cols=48  Identities=23%  Similarity=0.304  Sum_probs=31.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRAL  263 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~i  263 (444)
                      .++.|.|.+|+|||+||.+++.+....  .-..+++++..  .+..++...+
T Consensus        31 ~l~~i~G~pG~GKT~l~l~~~~~~~~~--~~~~v~~~s~E--~~~~~~~~~~   78 (251)
T 2zts_A           31 TTVLLTGGTGTGKTTFAAQFIYKGAEE--YGEPGVFVTLE--ERARDLRREM   78 (251)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHHH--HCCCEEEEESS--SCHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHHh--cCCCceeeccc--CCHHHHHHHH
Confidence            689999999999999998876442222  22345555543  3455555544

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=94.47  E-value=0.025  Score=49.41  Aligned_cols=22  Identities=27%  Similarity=0.507  Sum_probs=20.4

Q ss_pred             eEEEEEecCCChHHHHHHHHhh
Q 047559          212 AVIPIVGMAGVGKTTLAREVYN  233 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~  233 (444)
                      .+|+|.|+.|+||||+++.+..
T Consensus         5 ~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            5 YIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999999865

>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=94.47  E-value=0.02  Score=50.88  Aligned_cols=23  Identities=26%  Similarity=0.384  Sum_probs=20.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        32 e~~~iiG~nGsGKSTLl~~l~Gl   54 (235)
T 3tif_A           32 EFVSIMGPSGSGKSTMLNIIGCL   54 (235)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCcHHHHHHHHhcC
Confidence            58999999999999999998753

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=94.47  E-value=0.02  Score=50.37  Aligned_cols=23  Identities=30%  Similarity=0.381  Sum_probs=20.7

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        31 e~~~iiG~nGsGKSTLl~~l~Gl   53 (224)
T 2pcj_A           31 EFVSIIGASGSGKSTLLYILGLL   53 (224)
T ss_dssp             CEEEEEECTTSCHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            58999999999999999998753

>3gqb_B V-type ATP synthase beta chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_D* 3a5d_D 3j0j_D*

Probab=94.47  E-value=0.053  Score=52.46  Aligned_cols=89  Identities=10%  Similarity=0.213  Sum_probs=52.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccc--------cCCcc-eeEEEEeCCCC-CHHHHHHHHHHH--hcc-----CCCCc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVE--------DSKFD-VKAWVCVSDDF-DVLNISRALLES--ITF-----ASCDL  274 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~--------~~~f~-~~~wv~vs~~~-~~~~~~~~il~~--l~~-----~~~~~  274 (444)
                      .-++|+|.+|+|||+|+..+.+.....        + +-+ .++++-++... .+.++...+...  +..     ...+.
T Consensus       148 Qr~~Ifgg~G~GKt~L~~~Ia~~~~a~~~~~~~~~d-~~~~~~V~~~iGeR~~Ev~e~~~~l~~~g~~~rtvvv~~t~d~  226 (464)
T 3gqb_B          148 QKLPIFSGSGLPANEIAAQIARQATVRPDLSGEGEK-EEPFAVVFAAMGITQRELSYFIQEFERTGALSRSVLFLNKADD  226 (464)
T ss_dssp             CBCCEEEETTSCHHHHHHHHHHHCBCCHHHHCCCST-TCCEEEEEEEEEECHHHHHHHHHHHHHTSGGGGEEEEEEETTS
T ss_pred             CEEEEecCCCCCchHHHHHHHHHHHhcccccccccC-CCceEEEEEEecCchHHHHHHHHHhhhcccccceEEEEECCCC
Confidence            467899999999999999998875431        1 122 56677777654 445555554432  110     11111


Q ss_pred             ccHH-----HHHHHHHHHh---CCceEEEEEeCCC
Q 047559          275 KALN-----EVQVQIKRAV---DGKKLLLVLDDVW  301 (444)
Q Consensus       275 ~~~~-----~~~~~l~~~l---~~kr~LlVlDdv~  301 (444)
                      +...     ...-.+.+++   .++.+||++||+-
T Consensus       227 p~~~r~~~~~~a~tiAEyfrd~~G~~VLl~~DdlT  261 (464)
T 3gqb_B          227 PTIERILTPRMALTVAEYLAFEHDYHVLVILTDMT  261 (464)
T ss_dssp             CTHHHHHHHHHHHHHHHHHHHTTCCEEEEEEETHH
T ss_pred             CHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEcChH
Confidence            1111     1122355665   3789999999983

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=94.45  E-value=0.01  Score=52.21  Aligned_cols=24  Identities=25%  Similarity=0.315  Sum_probs=21.4

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .-++|.|++|+||||+|+.+.+..
T Consensus         9 ~~~~~~G~pGsGKsT~a~~L~~~~   32 (230)
T 3gmt_A            9 MRLILLGAPGAGKGTQANFIKEKF   32 (230)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cceeeECCCCCCHHHHHHHHHHHh
Confidence            578999999999999999998764

>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=94.44  E-value=0.14  Score=50.27  Aligned_cols=89  Identities=20%  Similarity=0.293  Sum_probs=52.4

Q ss_pred             eEEEEEecCCChHHHHH-HHHhhcccc----ccCCcc-eeEEEEeCCCC-CHHHHHHHHHHHhc-------cCCCCcc-c
Q 047559          212 AVIPIVGMAGVGKTTLA-REVYNDRAV----EDSKFD-VKAWVCVSDDF-DVLNISRALLESIT-------FASCDLK-A  276 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa-~~v~~~~~~----~~~~f~-~~~wv~vs~~~-~~~~~~~~il~~l~-------~~~~~~~-~  276 (444)
                      .-++|+|.+|+|||+|| ..+.+....    .+ +.+ .++++-++... .+.++.+.+...=.       ....+.+ .
T Consensus       163 QR~~I~g~~g~GKT~Lal~~I~~q~~~~~~~~~-~~d~~~V~~~IGeR~~Ev~~~~~~~~~~g~m~~tvvV~atad~p~~  241 (510)
T 2ck3_A          163 QRELIIGDRQTGKTSIAIDTIINQKRFNDGTDE-KKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAP  241 (510)
T ss_dssp             CBCEEEESTTSSHHHHHHHHHHHTHHHHTSCCT-TTCCEEEEEEESCCHHHHHHHHHHHHHTTCGGGEEEEEECTTSCHH
T ss_pred             CEEEEecCCCCCchHHHHHHHHHHHhhcccccc-CCCeEEEEEECCCCcHHHHHHHHHHHhcCCcccceEEEECCCCCHH
Confidence            46899999999999994 566666432    11 344 46788887654 44555555554210       0111111 1


Q ss_pred             HHH----HHHHHHHHh--CCceEEEEEeCCC
Q 047559          277 LNE----VQVQIKRAV--DGKKLLLVLDDVW  301 (444)
Q Consensus       277 ~~~----~~~~l~~~l--~~kr~LlVlDdv~  301 (444)
                      ...    ..-.+.+++  .++.+||++||+-
T Consensus       242 ~r~~a~~~a~tiAEyfrd~G~dVLli~Dslt  272 (510)
T 2ck3_A          242 LQYLAPYSGCSMGEYFRDNGKHALIIYDDLS  272 (510)
T ss_dssp             HHHHHHHHHHHHHHHHHTTTCEEEEEEETHH
T ss_pred             HHHHHHHHHHHHHHHHHHcCCcEEEEEcCHH
Confidence            111    122344555  6789999999983

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=94.44  E-value=0.018  Score=49.27  Aligned_cols=24  Identities=33%  Similarity=0.387  Sum_probs=20.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+++|+|+.|+|||||++.+....
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            368999999999999999988654

>3mfy_A V-type ATP synthase alpha chain; A-type ATP synthase, P loop, phenylalanine mutant, hydrolase; 2.35A {Pyrococcus horikoshii} PDB: 3i4l_A* 3i72_A 3i73_A* 3p20_A 3ikj_A 3qg1_A 3nd8_A 3nd9_A 1vdz_A 3qia_A 3qjy_A 3m4y_A 3se0_A 3sdz_A

Probab=94.44  E-value=0.11  Score=51.45  Aligned_cols=47  Identities=17%  Similarity=0.239  Sum_probs=35.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCC-HHHHHHHH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFD-VLNISRAL  263 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~-~~~~~~~i  263 (444)
                      .-++|+|..|+|||+|++.+.+..     +-+.++++-++.... +.+++..+
T Consensus       228 qr~~I~g~~g~GKT~L~~~ia~~~-----~~~~~V~~~iGER~~Ev~e~~~~~  275 (588)
T 3mfy_A          228 GTAAIPGPAGSGKTVTQHQLAKWS-----DAQVVIYIGCGERGNEMTDVLEEF  275 (588)
T ss_dssp             CEEEECSCCSHHHHHHHHHHHHHS-----SCSEEEEEECCSSSSHHHHHHHHT
T ss_pred             CeEEeecCCCCCHHHHHHHHHhcc-----CCCEEEEEEecccHHHHHHHHHHH
Confidence            578999999999999999987652     456788888887654 44555554

>3dzd_A Transcriptional regulator (NTRC family); sigma43 activator, AAA+ ATPase, response regulator, transcriptional activator, ATP-binding; HET: ADP; 2.40A {Aquifex aeolicus} PDB: 1zit_A 2jrl_A

Probab=94.44  E-value=0.077  Score=50.45  Aligned_cols=47  Identities=21%  Similarity=0.300  Sum_probs=31.8

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          185 AVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .++|....+.++...+..-..   .. ..+.|.|.+|+||+++|+.++...
T Consensus       130 ~~ig~s~~~~~~~~~~~~~a~---~~-~~vli~GesGtGKe~lAr~ih~~s  176 (368)
T 3dzd_A          130 EFVGEHPKILEIKRLIPKIAK---SK-APVLITGESGTGKEIVARLIHRYS  176 (368)
T ss_dssp             CCCCCSHHHHHHHHHHHHHHT---SC-SCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cccccchHHHHHHhhhhhhhc---cc-hhheEEeCCCchHHHHHHHHHHhc
Confidence            467776666666554432211   11 347799999999999999998754

>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase, ultrahigh resolution, protein transport; 1.10A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B* 1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B* 2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 2xkv_A 3ng1_A 1ffh_A 2ng1_A*

Probab=94.42  E-value=0.14  Score=47.01  Aligned_cols=24  Identities=33%  Similarity=0.354  Sum_probs=21.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+++|+|.+|+||||++..++...
T Consensus        99 ~~i~i~g~~G~GKTT~~~~la~~~  122 (295)
T 1ls1_A           99 NLWFLVGLQGSGKTTTAAKLALYY  122 (295)
T ss_dssp             EEEEEECCTTTTHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            689999999999999999988664

>2c61_A A-type ATP synthase non-catalytic subunit B; hydrolase, H+ ATPase, A1AO, ATP synthesis, hydrogen ION transport, ION transport; 1.5A {Methanosarcina mazei GO1} PDB: 3dsr_A* 3b2q_A* 2rkw_A* 3eiu_A*

Probab=94.38  E-value=0.055  Score=52.63  Aligned_cols=89  Identities=13%  Similarity=0.219  Sum_probs=53.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccC-CcceeEEEEeCCCC-CHHHHHHHHHHHhcc-------CCCCcccHH----
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDS-KFDVKAWVCVSDDF-DVLNISRALLESITF-------ASCDLKALN----  278 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~-~f~~~~wv~vs~~~-~~~~~~~~il~~l~~-------~~~~~~~~~----  278 (444)
                      .-++|+|.+|+|||+|+..+.++...... .-+.++++-++... .+.++++.+...=..       ...+.+...    
T Consensus       153 Qr~~Ifgg~G~GKt~Ll~~Ia~~~~~n~~~~~~~~V~~~iGER~~Ev~e~~~~~~~~g~m~rtvvV~~tsd~p~~~r~~~  232 (469)
T 2c61_A          153 QKLPIFSASGLPHNEIALQIARQASVPGSESAFAVVFAAMGITNEEAQYFMSDFEKTGALERAVVFLNLADDPAVERIVT  232 (469)
T ss_dssp             CBCCEEECTTSCHHHHHHHHHHHCBCTTCSSCEEEEEEEEEECHHHHHHHHHHHHHHSGGGGEEEEEEETTSCHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHhhccCCCCcEEEEEEccCCcHHHHHHHHHHHhccCccceEEEEECCCCCHHHHHHH
Confidence            46788999999999999999887543210 11466777777654 455666666543111       111111111    


Q ss_pred             -HHHHHHHHHh---CCceEEEEEeCC
Q 047559          279 -EVQVQIKRAV---DGKKLLLVLDDV  300 (444)
Q Consensus       279 -~~~~~l~~~l---~~kr~LlVlDdv  300 (444)
                       ...-.+.+++   +++.+||++||+
T Consensus       233 ~~~a~tiAEyfrdd~G~dVLl~~Dsl  258 (469)
T 2c61_A          233 PRMALTAAEYLAYEHGMHVLVILTDI  258 (469)
T ss_dssp             HHHHHHHHHHHHHHHCCEEEEEEECH
T ss_pred             HHHHHHHHHHHHHhcCCeEEEEEeCH
Confidence             1122345555   368999999997

>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=94.35  E-value=0.052  Score=56.79  Aligned_cols=52  Identities=23%  Similarity=0.263  Sum_probs=36.0

Q ss_pred             CcccccchhHHHHHHHHhcCCC-------CCCCCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTS-------SDHSNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~-------~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..+.|.++.++.|.+.+.-.-.       .+....+-+.++|++|.|||.||+.+++..
T Consensus       477 ~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~  535 (806)
T 3cf2_A          477 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANEC  535 (806)
T ss_dssp             TTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTT
T ss_pred             HHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHh
Confidence            4567777777777665432211       011334568899999999999999999874

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=94.31  E-value=0.41  Score=47.26  Aligned_cols=26  Identities=35%  Similarity=0.436  Sum_probs=21.3

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ....+|+|+|.+|+||||++..+...
T Consensus        99 ~~~~vI~ivG~~GvGKTTl~~kLA~~  124 (504)
T 2j37_W           99 GKQNVIMFVGLQGSGKTTTCSKLAYY  124 (504)
T ss_dssp             S--EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            34679999999999999999998754

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=94.30  E-value=0.015  Score=51.43  Aligned_cols=23  Identities=26%  Similarity=0.518  Sum_probs=16.0

Q ss_pred             eEEEEEecCCChHHHHHHHHh-hc
Q 047559          212 AVIPIVGMAGVGKTTLAREVY-ND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~-~~  234 (444)
                      .+++|+|+.|+|||||++.+. ..
T Consensus        28 ~ii~l~Gp~GsGKSTl~~~L~~~~   51 (231)
T 3lnc_A           28 VILVLSSPSGCGKTTVANKLLEKQ   51 (231)
T ss_dssp             CEEEEECSCC----CHHHHHHC--
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcC
Confidence            589999999999999999998 54

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=94.30  E-value=0.019  Score=51.50  Aligned_cols=24  Identities=33%  Similarity=0.486  Sum_probs=21.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+|.|+|+.|+||||+++.+....
T Consensus        49 ~~i~l~G~~GsGKSTl~~~La~~l   72 (250)
T 3nwj_A           49 RSMYLVGMMGSGKTTVGKIMARSL   72 (250)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhc
Confidence            579999999999999999998753

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=94.28  E-value=0.1  Score=44.75  Aligned_cols=50  Identities=16%  Similarity=0.068  Sum_probs=31.5

Q ss_pred             EEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHH
Q 047559          213 VIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLE  265 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~  265 (444)
                      .|+|-|..|+||||.++.+.+.....+  . .+++..-+......+.++.++.
T Consensus         2 fI~~EG~DGsGKsTq~~~L~~~L~~~g--~-~v~~treP~~t~~~~~ir~~l~   51 (197)
T 3hjn_A            2 FITFEGIDGSGKSTQIQLLAQYLEKRG--K-KVILKREPGGTETGEKIRKILL   51 (197)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTT--C-CEEEEESSCSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCC--C-cEEEEECCCCCcHHHHHHHHhh
Confidence            477889999999999999988754332  2 2334433333344455555543

>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=94.27  E-value=0.062  Score=47.56  Aligned_cols=51  Identities=24%  Similarity=0.209  Sum_probs=33.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALL  264 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il  264 (444)
                      ..|.|.|+.|+||||+++.+.+.....  .+..+....-.......+.+++++
T Consensus        28 ~~i~~eG~~GsGKsT~~~~l~~~l~~~--~~~~~~~~rep~~t~~g~~ir~~l   78 (236)
T 3lv8_A           28 KFIVIEGLEGAGKSTAIQVVVETLQQN--GIDHITRTREPGGTLLAEKLRALV   78 (236)
T ss_dssp             CEEEEEESTTSCHHHHHHHHHHHHHHT--TCCCEEEEESSCSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHhc--CCCeeeeecCCCCCHHHHHHHHHH
Confidence            689999999999999999998875433  455344444333323334444444

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=94.27  E-value=0.19  Score=48.72  Aligned_cols=26  Identities=31%  Similarity=0.345  Sum_probs=22.0

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhcc
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..++|.|+|.+|+||||++..+....
T Consensus        99 ~~~vI~ivG~~GvGKTT~a~~LA~~l  124 (433)
T 2xxa_A           99 PPAVVLMAGLQGAGKTTSVGKLGKFL  124 (433)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            35799999999999999998887543

>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=94.26  E-value=0.029  Score=52.03  Aligned_cols=24  Identities=38%  Similarity=0.415  Sum_probs=21.7

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ..+|+|+|+.|+|||||++.+...
T Consensus        80 g~iigI~G~~GsGKSTl~~~L~~~  103 (308)
T 1sq5_A           80 PYIISIAGSVAVGKSTTARVLQAL  103 (308)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH
Confidence            379999999999999999998865

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=94.25  E-value=0.027  Score=52.00  Aligned_cols=24  Identities=46%  Similarity=0.501  Sum_probs=21.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+++|+|+.|+||||+++.+....
T Consensus       101 ~vi~lvG~nGsGKTTll~~Lag~l  124 (302)
T 3b9q_A          101 AVIMIVGVNGGGKTTSLGKLAHRL  124 (302)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHHH
Confidence            799999999999999999987643

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=94.24  E-value=0.03  Score=52.20  Aligned_cols=24  Identities=21%  Similarity=0.458  Sum_probs=21.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ++|.|+|+.|+|||||+..++...
T Consensus        41 ~lIvI~GPTgsGKTtLa~~LA~~l   64 (339)
T 3a8t_A           41 KLLVLMGATGTGKSRLSIDLAAHF   64 (339)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTTS
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHC
Confidence            689999999999999999998753

>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=94.24  E-value=0.026  Score=47.52  Aligned_cols=25  Identities=24%  Similarity=0.474  Sum_probs=22.2

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..++.|+|..|+|||||++.+....
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            4689999999999999999988764

>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=94.22  E-value=0.044  Score=53.24  Aligned_cols=52  Identities=21%  Similarity=0.296  Sum_probs=35.8

Q ss_pred             CcccccchhHHHHHHHHhcC--------CCCCCCCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          184 RAVFGRQQDKAKMLEMVLTD--------TSSDHSNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~--------~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..++|.+..++.+...+...        ........+-+.++|++|+||||+|+.+....
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            45889888887776655321        00000123568999999999999999998764

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=94.22  E-value=0.2  Score=50.88  Aligned_cols=23  Identities=26%  Similarity=0.478  Sum_probs=20.7

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|.|||||++.+..-
T Consensus       370 e~~~ivG~sGsGKSTll~~l~g~  392 (587)
T 3qf4_A          370 SLVAVLGETGSGKSTLMNLIPRL  392 (587)
T ss_dssp             CEEEEECSSSSSHHHHHHTTTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            68999999999999999988754

>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=94.22  E-value=0.025  Score=48.74  Aligned_cols=22  Identities=32%  Similarity=0.529  Sum_probs=20.5

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      +|+|.|+.|+||||+++.+...
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~   25 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAA   25 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            8999999999999999999765

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=94.21  E-value=0.039  Score=48.04  Aligned_cols=25  Identities=28%  Similarity=0.437  Sum_probs=22.2

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhc
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ...+++|+|.+|+|||||+..+...
T Consensus        29 ~~~~i~i~G~~g~GKTTl~~~l~~~   53 (221)
T 2wsm_A           29 GTVAVNIMGAIGSGKTLLIERTIER   53 (221)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHHHH
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHH
Confidence            3479999999999999999998866

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=94.16  E-value=0.024  Score=51.51  Aligned_cols=23  Identities=39%  Similarity=0.507  Sum_probs=20.7

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|+|||||++.+..-
T Consensus        35 e~~~iiGpnGsGKSTLl~~l~Gl   57 (275)
T 3gfo_A           35 EVTAILGGNGVGKSTLFQNFNGI   57 (275)
T ss_dssp             SEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHHcC
Confidence            58999999999999999998753

>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=94.16  E-value=0.027  Score=49.02  Aligned_cols=23  Identities=26%  Similarity=0.278  Sum_probs=20.3

Q ss_pred             EEEEEecCCChHHHHHHHHhhcc
Q 047559          213 VIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .|.|.|++|+||||+|+.+....
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            47899999999999999998753

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=94.15  E-value=0.027  Score=49.16  Aligned_cols=24  Identities=21%  Similarity=0.338  Sum_probs=21.3

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..|.|.|++|+||||+|+.+....
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            578999999999999999998753

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=94.14  E-value=0.032  Score=56.93  Aligned_cols=44  Identities=16%  Similarity=0.265  Sum_probs=36.1

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..++|.+.-++.+...+...        ..+.|+|++|+||||||+.+....
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            46899988888777776543        478999999999999999998753

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=94.13  E-value=0.028  Score=52.56  Aligned_cols=23  Identities=43%  Similarity=0.499  Sum_probs=21.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+|+|.|+.|+||||||..+...
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~   30 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKK   30 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCcCcHHHHHHHHHHH
Confidence            58999999999999999999875

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=94.13  E-value=0.025  Score=51.08  Aligned_cols=23  Identities=39%  Similarity=0.543  Sum_probs=20.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        33 e~~~liG~nGsGKSTLlk~l~Gl   55 (262)
T 1b0u_A           33 DVISIIGSSGSGKSTFLRCINFL   55 (262)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            58999999999999999999753

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=94.11  E-value=0.027  Score=49.47  Aligned_cols=22  Identities=36%  Similarity=0.376  Sum_probs=20.0

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .|.|.|++|+||||+|+.+...
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~~   23 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKDK   23 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5889999999999999999865

>3b60_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; HET: ANP; 3.70A {Salmonella typhimurium} SCOP: c.37.1.12 f.37.1.1 PDB: 3b5y_A* 3b5z_A* 3b5w_A

Probab=94.10  E-value=0.15  Score=51.80  Aligned_cols=23  Identities=30%  Similarity=0.491  Sum_probs=20.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|.|||||++.+..-
T Consensus       370 ~~~~ivG~sGsGKSTLl~~l~g~  392 (582)
T 3b60_A          370 KTVALVGRSGSGKSTIASLITRF  392 (582)
T ss_dssp             CEEEEEECTTSSHHHHHHHHTTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhhc
Confidence            58999999999999999998754

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=94.07  E-value=0.027  Score=50.18  Aligned_cols=23  Identities=26%  Similarity=0.489  Sum_probs=20.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        33 e~~~l~G~nGsGKSTLl~~l~Gl   55 (240)
T 1ji0_A           33 QIVTLIGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999999753

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=94.05  E-value=0.02  Score=49.78  Aligned_cols=23  Identities=35%  Similarity=0.326  Sum_probs=20.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|+|||||++.+..-
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            48999999999999999998765

>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=94.05  E-value=0.029  Score=54.41  Aligned_cols=27  Identities=33%  Similarity=0.497  Sum_probs=23.2

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ....+|.|+|++|+||||+|+.+....
T Consensus       256 ~~~~lIil~G~pGSGKSTla~~L~~~~  282 (416)
T 3zvl_A          256 PNPEVVVAVGFPGAGKSTFIQEHLVSA  282 (416)
T ss_dssp             SSCCEEEEESCTTSSHHHHHHHHTGGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHhc
Confidence            345799999999999999999998753

>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=94.05  E-value=0.032  Score=51.32  Aligned_cols=23  Identities=30%  Similarity=0.424  Sum_probs=21.1

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+|.|+|+.|+||||||..++..
T Consensus         4 ~~i~i~GptgsGKt~la~~La~~   26 (322)
T 3exa_A            4 KLVAIVGPTAVGKTKTSVMLAKR   26 (322)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHT
T ss_pred             cEEEEECCCcCCHHHHHHHHHHh
Confidence            68999999999999999999864

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=94.03  E-value=0.031  Score=47.59  Aligned_cols=25  Identities=28%  Similarity=0.505  Sum_probs=21.8

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .-.++|+|.+|+|||||.+.+....
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            3578999999999999999998653

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=94.02  E-value=0.028  Score=52.14  Aligned_cols=23  Identities=30%  Similarity=0.420  Sum_probs=21.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+|.|+|+.|+||||||+.+...
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~   28 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADA   28 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            58999999999999999999875

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=94.01  E-value=0.027  Score=50.67  Aligned_cols=23  Identities=35%  Similarity=0.426  Sum_probs=20.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        34 e~~~liG~nGsGKSTLlk~l~Gl   56 (257)
T 1g6h_A           34 DVTLIIGPNGSGKSTLINVITGF   56 (257)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999998753

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=94.00  E-value=0.03  Score=49.96  Aligned_cols=23  Identities=26%  Similarity=0.355  Sum_probs=20.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~Gl   51 (243)
T 1mv5_A           29 SIIAFAGPSGGGKSTIFSLLERF   51 (243)
T ss_dssp             EEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            69999999999999999998753

>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=93.99  E-value=0.031  Score=49.31  Aligned_cols=25  Identities=28%  Similarity=0.240  Sum_probs=21.9

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhc
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .-.+|+|.|+.|+|||||++.+...
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            3479999999999999999988764

>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=93.99  E-value=0.03  Score=51.54  Aligned_cols=23  Identities=39%  Similarity=0.608  Sum_probs=20.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+|.|.|++|+||||+|+.+...
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            58999999999999999999863

>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=93.98  E-value=0.028  Score=50.75  Aligned_cols=23  Identities=30%  Similarity=0.457  Sum_probs=20.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        51 ei~~liG~NGsGKSTLlk~l~Gl   73 (263)
T 2olj_A           51 EVVVVIGPSGSGKSTFLRCLNLL   73 (263)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEEcCCCCcHHHHHHHHHcC
Confidence            58999999999999999998753

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=93.96  E-value=0.03  Score=50.21  Aligned_cols=23  Identities=35%  Similarity=0.573  Sum_probs=21.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        30 e~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           30 EVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999999873

>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=93.96  E-value=0.024  Score=49.48  Aligned_cols=23  Identities=35%  Similarity=0.537  Sum_probs=20.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        36 e~~~iiG~NGsGKSTLlk~l~Gl   58 (214)
T 1sgw_A           36 NVVNFHGPNGIGKTTLLKTISTY   58 (214)
T ss_dssp             CCEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            58999999999999999999764

>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=93.95  E-value=0.031  Score=49.40  Aligned_cols=24  Identities=25%  Similarity=0.321  Sum_probs=21.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..|.|.|++|+||||+|+.+....
T Consensus        17 ~~I~l~G~~GsGKsT~a~~La~~l   40 (233)
T 1ak2_A           17 VRAVLLGPPGAGKGTQAPKLAKNF   40 (233)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            579999999999999999998763

>3vr4_A V-type sodium ATPase catalytic subunit A; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_A* 3vr2_A* 3vr5_A 3vr6_A*

Probab=93.90  E-value=0.22  Score=49.51  Aligned_cols=58  Identities=14%  Similarity=0.263  Sum_probs=39.8

Q ss_pred             HHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCC-CHHHHHHH
Q 047559          195 KMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDF-DVLNISRA  262 (444)
Q Consensus       195 ~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~-~~~~~~~~  262 (444)
                      +.++.|..-..     -.-++|.|..|+|||+|+..+.+..     +-+.++++-++... .+.+++..
T Consensus       221 rvID~l~Pigr-----Gqr~~Ifgg~g~GKT~L~~~ia~~~-----~~~v~V~~~iGER~~Ev~e~~~~  279 (600)
T 3vr4_A          221 RVIDTFFPVTK-----GGAAAVPGPFGAGKTVVQHQIAKWS-----DVDLVVYVGCGERGNEMTDVVNE  279 (600)
T ss_dssp             HHHHHHSCCBT-----TCEEEEECCTTSCHHHHHHHHHHHS-----SCSEEEEEEEEECHHHHHHHHHH
T ss_pred             hhhhccCCccC-----CCEEeeecCCCccHHHHHHHHHhcc-----CCCEEEEEEecccHHHHHHHHHH
Confidence            34555544322     2578999999999999999998752     44678888887653 34444444

>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=93.86  E-value=0.03  Score=50.29  Aligned_cols=23  Identities=30%  Similarity=0.450  Sum_probs=21.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        42 ei~~l~G~NGsGKSTLlk~l~Gl   64 (256)
T 1vpl_A           42 EIFGLIGPNGAGKTTTLRIISTL   64 (256)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTS
T ss_pred             cEEEEECCCCCCHHHHHHHHhcC
Confidence            58999999999999999999754

>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=93.85  E-value=0.032  Score=50.56  Aligned_cols=23  Identities=35%  Similarity=0.501  Sum_probs=21.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        47 e~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           47 EVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999999874

>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=93.80  E-value=0.029  Score=47.34  Aligned_cols=22  Identities=41%  Similarity=0.605  Sum_probs=19.9

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -|+|+|.+|+|||||.+.+...
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            5889999999999999999874

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=93.80  E-value=0.095  Score=45.59  Aligned_cols=52  Identities=23%  Similarity=0.191  Sum_probs=33.7

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLE  265 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~  265 (444)
                      ..|.|.|+.|+||||+++.+.+.....  .+..+.+..-.......+.+++++.
T Consensus         4 ~~i~~eG~~gsGKsT~~~~l~~~l~~~--~~~~v~~~rep~~t~~g~~ir~~l~   55 (213)
T 4tmk_A            4 KYIVIEGLEGAGKTTARNVVVETLEQL--GIRDMVFTREPGGTQLAEKLRSLLL   55 (213)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHHHT--TCCCEEEEESSCSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHc--CCCcceeeeCCCCCHHHHHHHHHHh
Confidence            589999999999999999998875443  3423344433333334455555554

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=93.79  E-value=0.032  Score=50.67  Aligned_cols=23  Identities=39%  Similarity=0.478  Sum_probs=20.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        46 e~~~i~G~nGsGKSTLlk~l~Gl   68 (271)
T 2ixe_A           46 KVTALVGPNGSGKSTVAALLQNL   68 (271)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            58999999999999999999754

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=93.78  E-value=0.039  Score=55.23  Aligned_cols=24  Identities=29%  Similarity=0.487  Sum_probs=21.7

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .++.|.|.+|+|||||++.++...
T Consensus       282 ~i~~i~G~~GsGKSTLl~~l~g~~  305 (525)
T 1tf7_A          282 SIILATGATGTGKTLLVSRFVENA  305 (525)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHH
Confidence            699999999999999999998653

>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=93.78  E-value=0.039  Score=45.61  Aligned_cols=23  Identities=26%  Similarity=0.468  Sum_probs=20.7

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ..|+|+|.+|+|||||.+.+...
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            57899999999999999999864

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=93.78  E-value=0.032  Score=50.29  Aligned_cols=23  Identities=35%  Similarity=0.606  Sum_probs=20.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        47 e~~~i~G~nGsGKSTLl~~l~Gl   69 (260)
T 2ghi_A           47 TTCALVGHTGSGKSTIAKLLYRF   69 (260)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcc
Confidence            58999999999999999999754

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=93.76  E-value=0.037  Score=52.28  Aligned_cols=25  Identities=44%  Similarity=0.450  Sum_probs=22.0

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..+++|+|+.|+||||+++.+....
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            4799999999999999999987643

>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=93.76  E-value=0.033  Score=49.86  Aligned_cols=23  Identities=30%  Similarity=0.505  Sum_probs=20.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        27 e~~~liG~NGsGKSTLlk~l~Gl   49 (249)
T 2qi9_C           27 EILHLVGPNGAGKSTLLARMAGM   49 (249)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCC
Confidence            58999999999999999998754

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=93.75  E-value=0.041  Score=44.88  Aligned_cols=24  Identities=33%  Similarity=0.531  Sum_probs=21.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .-|.|+|.+|+|||||...+....
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            468999999999999999998653

>2j9r_A Thymidine kinase; TK1, DNK, lasso, transferase, ATP-binding, deoxyribonucleoside kinase, DNA synthesis, phosphate accept nucleotide-binding; HET: THM; 2.7A {Bacillus anthracis} PDB: 2ja1_A*

Probab=93.73  E-value=0.075  Score=46.02  Aligned_cols=108  Identities=13%  Similarity=0.068  Sum_probs=54.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCC-CCCHHHHHHHHHHHhccCCC--CcccHHHHHHHHHHHh
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSD-DFDVLNISRALLESITFASC--DLKALNEVQVQIKRAV  288 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~-~~~~~~~~~~il~~l~~~~~--~~~~~~~~~~~l~~~l  288 (444)
                      .+..++|.-|.||||.+.....+....  ...+.++-..-+ .+...    .+.+.++....  ...+..    .+.+.+
T Consensus        29 ~l~vitG~MgsGKTT~lL~~a~r~~~~--g~kVli~k~~~d~R~ge~----~i~s~~g~~~~a~~~~~~~----~~~~~~   98 (214)
T 2j9r_A           29 WIEVICGSMFSGKSEELIRRVRRTQFA--KQHAIVFKPCIDNRYSEE----DVVSHNGLKVKAVPVSASK----DIFKHI   98 (214)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHHHHHT--TCCEEEEECC---------------------CCEEECSSGG----GGGGGC
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHHC--CCEEEEEEeccCCcchHH----HHHhhcCCeeEEeecCCHH----HHHHHH
Confidence            788999999999999998887765433  233333321111 11122    23333322111  011111    222233


Q ss_pred             CCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCChH
Q 047559          289 DGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAH  332 (444)
Q Consensus       289 ~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~~  332 (444)
                      .++--+|++|++.-.+....+.+.. +.+  .|..||+|.++-+
T Consensus        99 ~~~~dvViIDEaQF~~~~~V~~l~~-l~~--~~~~Vi~~Gl~~D  139 (214)
T 2j9r_A           99 TEEMDVIAIDEVQFFDGDIVEVVQV-LAN--RGYRVIVAGLDQD  139 (214)
T ss_dssp             CSSCCEEEECCGGGSCTTHHHHHHH-HHH--TTCEEEEEECSBC
T ss_pred             hcCCCEEEEECcccCCHHHHHHHHH-Hhh--CCCEEEEEecccc
Confidence            3333399999997765555544433 222  3778999998543

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=93.70  E-value=0.041  Score=49.58  Aligned_cols=111  Identities=9%  Similarity=0.088  Sum_probs=55.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCC-CCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCC
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSD-DFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDG  290 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~-~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~  290 (444)
                      .+++|+|+.|+|||||++.+..-....   +...+++.-.. .+-.... ..++.+-.. ..+.   ..+...+...|..
T Consensus        26 ~~v~i~Gp~GsGKSTll~~l~g~~~~~---~~G~I~~~g~~i~~~~~~~-~~~v~q~~~-gl~~---~~l~~~la~aL~~   97 (261)
T 2eyu_A           26 GLILVTGPTGSGKSTTIASMIDYINQT---KSYHIITIEDPIEYVFKHK-KSIVNQREV-GEDT---KSFADALRAALRE   97 (261)
T ss_dssp             EEEEEECSTTCSHHHHHHHHHHHHHHH---CCCEEEEEESSCCSCCCCS-SSEEEEEEB-TTTB---SCHHHHHHHHHHH
T ss_pred             CEEEEECCCCccHHHHHHHHHHhCCCC---CCCEEEEcCCcceeecCCc-ceeeeHHHh-CCCH---HHHHHHHHHHHhh
Confidence            799999999999999999987643211   12333332111 0000000 000000000 0011   1224455666655


Q ss_pred             ceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCChHHHh
Q 047559          291 KKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAA  335 (444)
Q Consensus       291 kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~~va~  335 (444)
                      ++=+|++|+..+  ......+....   ..|.-|++||.......
T Consensus        98 ~p~illlDEp~D--~~~~~~~l~~~---~~g~~vl~t~H~~~~~~  137 (261)
T 2eyu_A           98 DPDVIFVGEMRD--LETVETALRAA---ETGHLVFGTLHTNTAID  137 (261)
T ss_dssp             CCSEEEESCCCS--HHHHHHHHHHH---HTTCEEEEEECCSSHHH
T ss_pred             CCCEEEeCCCCC--HHHHHHHHHHH---ccCCEEEEEeCcchHHH
Confidence            666888999852  33333322222   24667888887765443

>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=93.68  E-value=0.068  Score=50.58  Aligned_cols=38  Identities=29%  Similarity=0.420  Sum_probs=27.7

Q ss_pred             HHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhc
Q 047559          193 KAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       193 ~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ...+...+....    ....+|+|+|.+|+|||||+..+...
T Consensus        65 ~~~~~~~~~~~~----~~~~~I~i~G~~G~GKSTl~~~L~~~  102 (355)
T 3p32_A           65 AQQLLLRLLPDS----GNAHRVGITGVPGVGKSTAIEALGMH  102 (355)
T ss_dssp             HHHHHHHHGGGC----CCSEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHhHhhc----CCceEEEEECCCCCCHHHHHHHHHHH
Confidence            445555554322    34579999999999999999988754

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=93.67  E-value=0.034  Score=49.86  Aligned_cols=23  Identities=26%  Similarity=0.502  Sum_probs=21.1

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        32 e~~~l~G~nGsGKSTLl~~l~Gl   54 (253)
T 2nq2_C           32 DILAVLGQNGCGKSTLLDLLLGI   54 (253)
T ss_dssp             CEEEEECCSSSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999999865

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=93.67  E-value=0.034  Score=50.29  Aligned_cols=23  Identities=30%  Similarity=0.397  Sum_probs=20.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        34 e~~~liG~nGsGKSTLl~~i~Gl   56 (266)
T 2yz2_A           34 ECLLVAGNTGSGKSTLLQIVAGL   56 (266)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCC
Confidence            58999999999999999998754

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=93.65  E-value=0.11  Score=45.49  Aligned_cols=53  Identities=19%  Similarity=0.074  Sum_probs=33.5

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcccc-ccCCcceeEEEEeCCCCCHHHHHHHHHH
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDRAV-EDSKFDVKAWVCVSDDFDVLNISRALLE  265 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~-~~~~f~~~~wv~vs~~~~~~~~~~~il~  265 (444)
                      ...|.|.|+.|+||||+++.+.+.... .  .+.......-+......+.+++++.
T Consensus        21 ~~~i~~~G~~g~GKst~~~~l~~~l~~~~--g~~v~~~treP~~t~~g~~ir~~l~   74 (223)
T 3ld9_A           21 SMFITFEGIDGSGKTTQSHLLAEYLSEIY--GVNNVVLTREPGGTLLNESVRNLLF   74 (223)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHHH--CGGGEEEEESSCSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhhcc--CceeeEeeeCCCCChHHHHHHHHHh
Confidence            478999999999999999999887544 2  3444332222332233444555544

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=93.64  E-value=0.035  Score=50.61  Aligned_cols=23  Identities=30%  Similarity=0.343  Sum_probs=20.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        48 e~~~liG~NGsGKSTLlk~l~Gl   70 (279)
T 2ihy_A           48 DKWILYGLNGAGKTTLLNILNAY   70 (279)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCC
Confidence            58999999999999999999754

>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=93.63  E-value=0.038  Score=47.22  Aligned_cols=23  Identities=35%  Similarity=0.433  Sum_probs=21.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      +.|.|.|++|+||||||..+...
T Consensus        35 ~~ilI~GpsGsGKStLA~~La~~   57 (205)
T 2qmh_A           35 LGVLITGDSGVGKSETALELVQR   57 (205)
T ss_dssp             EEEEEECCCTTTTHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            67999999999999999999865

>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=93.62  E-value=0.044  Score=50.32  Aligned_cols=24  Identities=33%  Similarity=0.332  Sum_probs=21.6

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ..+|.|+|+.|+||||||..+...
T Consensus        10 ~~~i~i~GptgsGKt~la~~La~~   33 (316)
T 3foz_A           10 PKAIFLMGPTASGKTALAIELRKI   33 (316)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CcEEEEECCCccCHHHHHHHHHHh
Confidence            368999999999999999999865

>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=93.62  E-value=0.041  Score=51.05  Aligned_cols=26  Identities=23%  Similarity=0.463  Sum_probs=21.0

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+.+||+|.|=||+||||.+--+.--
T Consensus        46 ~~aKVIAIaGKGGVGKTTtavNLA~a   71 (314)
T 3fwy_A           46 TGAKVFAVYGKGGIGKSTTSSNLSAA   71 (314)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCceEEEEECCCccCHHHHHHHHHHH
Confidence            44589999999999999998766543

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=93.61  E-value=0.12  Score=52.35  Aligned_cols=23  Identities=35%  Similarity=0.485  Sum_probs=20.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|.|||||++.+..-
T Consensus       368 ~~~~ivG~sGsGKSTll~~l~g~  390 (578)
T 4a82_A          368 ETVAFVGMSGGGKSTLINLIPRF  390 (578)
T ss_dssp             CEEEEECSTTSSHHHHHTTTTTS
T ss_pred             CEEEEECCCCChHHHHHHHHhcC
Confidence            68999999999999999988653

>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=93.60  E-value=0.036  Score=47.46  Aligned_cols=23  Identities=26%  Similarity=0.485  Sum_probs=20.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -.|+|+|..|+|||||.+.+...
T Consensus         6 ~kv~lvG~~g~GKSTLl~~l~~~   28 (199)
T 2f9l_A            6 FKVVLIGDSGVGKSNLLSRFTRN   28 (199)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECcCCCCHHHHHHHHhcC
Confidence            57899999999999999999875

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=93.58  E-value=0.39  Score=51.26  Aligned_cols=120  Identities=23%  Similarity=0.200  Sum_probs=62.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCC--cceeEEEEeCCC-------CCHHH-----------HHHHHHHHhccCC
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSK--FDVKAWVCVSDD-------FDVLN-----------ISRALLESITFAS  271 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~--f~~~~wv~vs~~-------~~~~~-----------~~~~il~~l~~~~  271 (444)
                      .+++|+|+.|+|||||.+.+..-. +.+..  -... .+.+.+.       .++.+           -...++..++...
T Consensus       462 e~v~LiGpNGsGKSTLLk~LagG~-i~g~~~~~~~~-~~~v~q~~~~~~~~ltv~e~l~~~~~~~~~~v~~~L~~lgL~~  539 (986)
T 2iw3_A          462 RRYGICGPNGCGKSTLMRAIANGQ-VDGFPTQEECR-TVYVEHDIDGTHSDTSVLDFVFESGVGTKEAIKDKLIEFGFTD  539 (986)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHTC-STTCCCTTTSC-EEETTCCCCCCCTTSBHHHHHHTTCSSCHHHHHHHHHHTTCCH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC-cCCCcccccee-EEEEcccccccccCCcHHHHHHHhhcCHHHHHHHHHHHcCCCh
Confidence            589999999999999999998421 11000  0011 1222221       12222           2334444444310


Q ss_pred             ------CCccc-HHHHHHHHHHHhCCceEEEEEeCCCCC-ChhcHHHhhcccCCCCCCcEEEEecCChHHHh
Q 047559          272 ------CDLKA-LNEVQVQIKRAVDGKKLLLVLDDVWNE-DYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAA  335 (444)
Q Consensus       272 ------~~~~~-~~~~~~~l~~~l~~kr~LlVlDdv~~~-~~~~~~~l~~~l~~~~~gs~iivTTr~~~va~  335 (444)
                            ...-+ -+...-.|...+-.++=+|+||+--+. |...-..+...+..  .|..||++|.+.....
T Consensus       540 ~~~~~~~~~LSGGqkQRvaLArAL~~~P~lLLLDEPTs~LD~~~~~~l~~~L~~--~g~tvIivSHdl~~l~  609 (986)
T 2iw3_A          540 EMIAMPISALSGGWKMKLALARAVLRNADILLLDEPTNHLDTVNVAWLVNYLNT--CGITSITISHDSVFLD  609 (986)
T ss_dssp             HHHHSBGGGCCHHHHHHHHHHHHHHTTCSEEEEESTTTTCCHHHHHHHHHHHHH--SCSEEEEECSCHHHHH
T ss_pred             hhhcCCcccCCHHHHHHHHHHHHHhcCCCEEEEECCccCCCHHHHHHHHHHHHh--CCCEEEEEECCHHHHH
Confidence                  01112 222233455666667779999997442 33333334444433  4667888888766554

>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=93.57  E-value=0.039  Score=50.85  Aligned_cols=23  Identities=17%  Similarity=0.368  Sum_probs=20.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|.|||||++.+..-
T Consensus       127 e~vaIvGpsGsGKSTLl~lL~gl  149 (305)
T 2v9p_A          127 NCLAFIGPPNTGKSMLCNSLIHF  149 (305)
T ss_dssp             SEEEEECSSSSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCcHHHHHHHHhhh
Confidence            68999999999999999998754

>1fx0_A ATP synthase alpha chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_A*

Probab=93.57  E-value=0.1  Score=51.11  Aligned_cols=84  Identities=15%  Similarity=0.209  Sum_probs=49.1

Q ss_pred             eEEEEEecCCChHHHHH-HHHhhccccccCCcc-eeEEEEeCCCC-CHHHHHHHHHHHhc--------cCCCCccc----
Q 047559          212 AVIPIVGMAGVGKTTLA-REVYNDRAVEDSKFD-VKAWVCVSDDF-DVLNISRALLESIT--------FASCDLKA----  276 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa-~~v~~~~~~~~~~f~-~~~wv~vs~~~-~~~~~~~~il~~l~--------~~~~~~~~----  276 (444)
                      .-++|+|.+|+|||+|| ..+.+..     ..+ .++++-++... .+.++.+.+...=.        ....+...    
T Consensus       164 QR~~Ifg~~g~GKT~Lal~~I~~~~-----~~dv~~V~~~iGeR~~Ev~~~~~~~~~~g~m~rtvvV~atad~p~~~r~~  238 (507)
T 1fx0_A          164 QRELIIGDRQTGKTAVATDTILNQQ-----GQNVICVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYL  238 (507)
T ss_dssp             CBCBEEESSSSSHHHHHHHHHHTCC-----TTTCEEEEEEESCCHHHHHHHHHHTGGGTGGGSEEEEEECTTSCGGGTTH
T ss_pred             CEEEEecCCCCCccHHHHHHHHHhh-----cCCcEEEEEEcCCCchHHHHHHHHHHhcCccccceEEEECCCCCHHHHHH
Confidence            46899999999999995 5777763     234 45777777654 34445444433110        00111111    


Q ss_pred             HHHHHHHHHHHh--CCceEEEEEeCC
Q 047559          277 LNEVQVQIKRAV--DGKKLLLVLDDV  300 (444)
Q Consensus       277 ~~~~~~~l~~~l--~~kr~LlVlDdv  300 (444)
                      .....-.+.+++  +++.+||++||+
T Consensus       239 a~~~a~tiAEyfrd~G~dVLli~Dsl  264 (507)
T 1fx0_A          239 APYTGAALAEYFMYRERHTLIIYDDL  264 (507)
T ss_dssp             HHHHHHHHHHHHHHTTCEEEEEEECH
T ss_pred             HHHHHHHHHHHHHHcCCcEEEEEecH
Confidence            111222334444  689999999998

>2xau_A PRE-mRNA-splicing factor ATP-dependent RNA helica; hydrolase, ribosome biogenesis, ATPase, ATP-binding, OB-fold; HET: ADP; 1.90A {Saccharomyces cerevisiae} PDB: 3kx2_B*

Probab=93.57  E-value=0.52  Score=49.39  Aligned_cols=90  Identities=11%  Similarity=0.111  Sum_probs=45.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCC------------------
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCD------------------  273 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~------------------  273 (444)
                      .++.|+|+.|.||||++..+........ .....+.+......-..++...+...++.....                  
T Consensus       110 ~~vii~gpTGSGKTtllp~ll~~~~~~~-~~g~~ilvl~P~r~La~q~~~~l~~~~~~~v~~~vG~~i~~~~~~~~~~~I  188 (773)
T 2xau_A          110 QIMVFVGETGSGKTTQIPQFVLFDEMPH-LENTQVACTQPRRVAAMSVAQRVAEEMDVKLGEEVGYSIRFENKTSNKTIL  188 (773)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHHHHCGG-GGTCEEEEEESCHHHHHHHHHHHHHHTTCCBTTTEEEEETTEEECCTTCSE
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhcccc-CCCceEEecCchHHHHHHHHHHHHHHhCCchhheecceeccccccCCCCCE
Confidence            4899999999999996665543321111 112334444443333334444444443221110                  


Q ss_pred             -cccHHHHHHHHHH-HhCCceEEEEEeCCCC
Q 047559          274 -LKALNEVQVQIKR-AVDGKKLLLVLDDVWN  302 (444)
Q Consensus       274 -~~~~~~~~~~l~~-~l~~kr~LlVlDdv~~  302 (444)
                       ..+...+...+.. .+-.+--+||||+++.
T Consensus       189 ~v~T~G~l~r~l~~~~~l~~~~~lIlDEah~  219 (773)
T 2xau_A          189 KYMTDGMLLREAMEDHDLSRYSCIILDEAHE  219 (773)
T ss_dssp             EEEEHHHHHHHHHHSTTCTTEEEEEECSGGG
T ss_pred             EEECHHHHHHHHhhCccccCCCEEEecCccc
Confidence             0123344433332 2234556899999975

>2fz4_A DNA repair protein RAD25; RECA-like domain, DNA damage recognition domain, DNA binding; HET: DNA; 2.40A {Archaeoglobus fulgidus} SCOP: c.37.1.19

Probab=93.56  E-value=0.31  Score=43.01  Aligned_cols=104  Identities=16%  Similarity=0.093  Sum_probs=54.0

Q ss_pred             EEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccC-C-------CC-----cccHHHH
Q 047559          214 IPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFA-S-------CD-----LKALNEV  280 (444)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~-~-------~~-----~~~~~~~  280 (444)
                      +.|+|+.|.|||.+|..+....     . ..++++ +....-..+....+.. ++.. .       ..     ..+.+.+
T Consensus       111 ~ll~~~tG~GKT~~a~~~~~~~-----~-~~~liv-~P~~~L~~q~~~~~~~-~~~~~v~~~~g~~~~~~~i~v~T~~~l  182 (237)
T 2fz4_A          111 GCIVLPTGSGKTHVAMAAINEL-----S-TPTLIV-VPTLALAEQWKERLGI-FGEEYVGEFSGRIKELKPLTVSTYDSA  182 (237)
T ss_dssp             EEEEESSSTTHHHHHHHHHHHS-----C-SCEEEE-ESSHHHHHHHHHHHGG-GCGGGEEEESSSCBCCCSEEEEEHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHHHc-----C-CCEEEE-eCCHHHHHHHHHHHHh-CCCCeEEEEeCCCCCcCCEEEEeHHHH
Confidence            7889999999999998877642     1 123333 2222112222222222 2111 0       00     1122333


Q ss_pred             HHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecC
Q 047559          281 QVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTR  329 (444)
Q Consensus       281 ~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr  329 (444)
                      ..... .+.++--+||+|+++......+..+...+.   ...++++|..
T Consensus       183 ~~~~~-~~~~~~~llIiDEaH~l~~~~~~~i~~~~~---~~~~l~LSAT  227 (237)
T 2fz4_A          183 YVNAE-KLGNRFMLLIFDEVHHLPAESYVQIAQMSI---APFRLGLTAT  227 (237)
T ss_dssp             HHTHH-HHTTTCSEEEEECSSCCCTTTHHHHHHTCC---CSEEEEEEES
T ss_pred             HhhHH-HhcccCCEEEEECCccCCChHHHHHHHhcc---CCEEEEEecC
Confidence            33332 333445699999998875556766655543   2345556654

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=93.55  E-value=0.063  Score=45.19  Aligned_cols=25  Identities=24%  Similarity=0.413  Sum_probs=21.8

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhc
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ....|+|+|.+|+|||||.+.+...
T Consensus         6 ~~~~i~lvG~~gvGKStL~~~l~~~   30 (188)
T 2wjg_A            6 KSYEIALIGNPNVGKSTIFNALTGE   30 (188)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3467999999999999999999874

>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=93.53  E-value=0.037  Score=50.41  Aligned_cols=23  Identities=30%  Similarity=0.407  Sum_probs=20.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .++.|+|++|+|||||+..+...
T Consensus        31 ~i~~i~G~~GsGKTtl~~~l~~~   53 (279)
T 1nlf_A           31 TVGALVSPGGAGKSMLALQLAAQ   53 (279)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHH
Confidence            69999999999999999998754

>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=93.49  E-value=0.2  Score=46.03  Aligned_cols=25  Identities=40%  Similarity=0.392  Sum_probs=21.8

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..++.++|.+|+||||++..+....
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            3789999999999999999887654

>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=0.042  Score=44.87  Aligned_cols=22  Identities=32%  Similarity=0.637  Sum_probs=19.8

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -|.++|.+|+|||||...+...
T Consensus         5 ~i~v~G~~~~GKssl~~~l~~~   26 (166)
T 2ce2_X            5 KLVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            5889999999999999999765

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=93.45  E-value=0.15  Score=58.42  Aligned_cols=85  Identities=16%  Similarity=0.122  Sum_probs=56.6

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCC-----CcccHHHHHHHHH
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASC-----DLKALNEVQVQIK  285 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~-----~~~~~~~~~~~l~  285 (444)
                      -.++.|.|++|+||||||.++......   .-..++|++....++...     .+.++....     +..+.+++...+.
T Consensus       383 G~lilI~G~pGsGKTtLaLqia~~~a~---~G~~vlyis~E~s~~~~~-----a~~lGvd~~~L~I~~~~~~e~il~~~~  454 (2050)
T 3cmu_A          383 GRIVEIYGPESSGKTTLTLQVIAAAQR---EGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEICD  454 (2050)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHHHHHT---TTCCEEEECTTSCCCHHH-----HHHTTCCTTTCEEECCSSHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHHHh---cCCeEEEEEcCCCHHHHH-----HHHcCCCHHHeEEeCCCCHHHHHHHHH
Confidence            379999999999999999999876432   223678888777666432     344443221     2345566666666


Q ss_pred             HHh-CCceEEEEEeCCCCC
Q 047559          286 RAV-DGKKLLLVLDDVWNE  303 (444)
Q Consensus       286 ~~l-~~kr~LlVlDdv~~~  303 (444)
                      ... ..+.-+||+|.+...
T Consensus       455 ~lv~~~~~~lIVIDSL~al  473 (2050)
T 3cmu_A          455 ALARSGAVDVIVVDSVAAL  473 (2050)
T ss_dssp             HHHHHTCCSEEEESCGGGC
T ss_pred             HHHHhcCCcEEEECCHHHh
Confidence            544 345569999998543

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=93.43  E-value=0.043  Score=49.76  Aligned_cols=22  Identities=36%  Similarity=0.717  Sum_probs=19.9

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .++|+|+.|+|||||.+.++..
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g~   25 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFKS   25 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            6899999999999999998864

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=93.42  E-value=0.084  Score=53.75  Aligned_cols=23  Identities=30%  Similarity=0.446  Sum_probs=21.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|.|||||++.+..-
T Consensus       382 ~~~~ivG~sGsGKSTll~~l~g~  404 (598)
T 3qf4_B          382 QKVALVGPTGSGKTTIVNLLMRF  404 (598)
T ss_dssp             CEEEEECCTTSSTTHHHHHHTTS
T ss_pred             CEEEEECCCCCcHHHHHHHHhcC
Confidence            69999999999999999999754

>1xx6_A Thymidine kinase; NESG, northeast structural genomics consortium, protein STRU initiative, PSI, structural genomics, DNA synthesis; HET: ADP; 2.00A {Clostridium acetobutylicum} SCOP: c.37.1.24 g.39.1.14

Probab=93.41  E-value=0.028  Score=48.10  Aligned_cols=108  Identities=14%  Similarity=0.088  Sum_probs=54.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCC--CcccHHHHHHHHHHHhC
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASC--DLKALNEVQVQIKRAVD  289 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~--~~~~~~~~~~~l~~~l~  289 (444)
                      .+..++|..|.||||.+..+..+....  .....++-..-..   ..-...+.+.++....  ...+..    .+.+.+.
T Consensus         9 ~i~v~~G~mgsGKTT~ll~~a~r~~~~--g~kV~v~k~~~d~---r~~~~~i~s~~g~~~~a~~~~~~~----~i~~~~~   79 (191)
T 1xx6_A            9 WVEVIVGPMYSGKSEELIRRIRRAKIA--KQKIQVFKPEIDN---RYSKEDVVSHMGEKEQAVAIKNSR----EILKYFE   79 (191)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHHT--TCCEEEEEEC----------CEEECTTSCEEECEEESSST----HHHHHCC
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHHC--CCEEEEEEeccCc---cchHHHHHhhcCCceeeEeeCCHH----HHHHHHh
Confidence            799999999999999998887765433  2333333211110   0000011111111100  011111    2333444


Q ss_pred             CceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCCh
Q 047559          290 GKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHA  331 (444)
Q Consensus       290 ~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~  331 (444)
                      ++-=+|++|++...+....+.+... .+  .|..||+|.++.
T Consensus        80 ~~~dvViIDEaqfl~~~~v~~l~~l-~~--~~~~Vi~~Gl~~  118 (191)
T 1xx6_A           80 EDTEVIAIDEVQFFDDEIVEIVNKI-AE--SGRRVICAGLDM  118 (191)
T ss_dssp             TTCSEEEECSGGGSCTHHHHHHHHH-HH--TTCEEEEEECSB
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHHH-Hh--CCCEEEEEeccc
Confidence            3334999999866544444444332 22  277899998854

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=93.36  E-value=0.14  Score=57.75  Aligned_cols=85  Identities=16%  Similarity=0.122  Sum_probs=56.0

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCC-----CcccHHHHHHHHH
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASC-----DLKALNEVQVQIK  285 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~-----~~~~~~~~~~~l~  285 (444)
                      -+++.|.|.+|+||||||.++......   .-..++|++....++...     ++.++....     ...+.+++...+.
T Consensus       383 G~lilI~G~pGsGKTtLaLq~a~~~~~---~G~~vlyis~E~s~~~~~-----a~~lGvd~~~L~i~~~~~~e~~l~~l~  454 (1706)
T 3cmw_A          383 GRIVEIYGPESSGKTTLTLQVIAAAQR---EGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEICD  454 (1706)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHHHHH---TTCCEEEECTTSCCCHHH-----HHHTTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHHHH---hCCCeEEEEccCchHHHH-----HHHcCCCHHHeEEcCCCCHHHHHHHHH
Confidence            379999999999999999998876432   224678888877766531     344433211     2234555555555


Q ss_pred             HHh-CCceEEEEEeCCCCC
Q 047559          286 RAV-DGKKLLLVLDDVWNE  303 (444)
Q Consensus       286 ~~l-~~kr~LlVlDdv~~~  303 (444)
                      ... ..+.-+||+|.+...
T Consensus       455 ~lv~~~~~~lVVIDSL~al  473 (1706)
T 3cmw_A          455 ALARSGAVDVIVVDSVAAL  473 (1706)
T ss_dssp             HHHHHTCCSEEEESCSTTC
T ss_pred             HHHHhcCCCEEEECCHHHh
Confidence            544 345569999998553

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=93.34  E-value=0.14  Score=44.44  Aligned_cols=26  Identities=19%  Similarity=0.215  Sum_probs=22.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcccc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAV  237 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~  237 (444)
                      ..|.|.|+.|+||||+++.+.+....
T Consensus         7 ~~i~~eG~~gsGKsT~~~~l~~~l~~   32 (213)
T 4edh_A            7 LFVTLEGPEGAGKSTNRDYLAERLRE   32 (213)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHT
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            68999999999999999999877543

>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=93.33  E-value=0.044  Score=45.01  Aligned_cols=23  Identities=22%  Similarity=0.429  Sum_probs=20.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      --|.|+|.+|+|||||...+.+.
T Consensus         6 ~~i~v~G~~~~GKssl~~~l~~~   28 (168)
T 1z2a_A            6 IKMVVVGNGAVGKSSMIQRYCKG   28 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEEECcCCCCHHHHHHHHHcC
Confidence            46789999999999999999865

>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=93.31  E-value=0.045  Score=50.29  Aligned_cols=24  Identities=29%  Similarity=0.407  Sum_probs=21.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .++.|+|++|+|||||++.+....
T Consensus        36 ~~~~i~G~~G~GKTTl~~~ia~~~   59 (296)
T 1cr0_A           36 EVIMVTSGSGMGKSTFVRQQALQW   59 (296)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHH
Confidence            699999999999999999988764

>3oaa_A ATP synthase subunit alpha; rossmann fold, hydrolase, hydrolase-transport PROT complex; HET: ANP ADP; 3.26A {Escherichia coli DH1} PDB: 2a7u_A

Probab=93.30  E-value=0.3  Score=47.75  Aligned_cols=85  Identities=24%  Similarity=0.312  Sum_probs=50.8

Q ss_pred             eEEEEEecCCChHHHHH-HHHhhccccccCCcc-eeEEEEeCCCC-CHHHHHHHHHHHhcc--------CCCCcccHHH-
Q 047559          212 AVIPIVGMAGVGKTTLA-REVYNDRAVEDSKFD-VKAWVCVSDDF-DVLNISRALLESITF--------ASCDLKALNE-  279 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa-~~v~~~~~~~~~~f~-~~~wv~vs~~~-~~~~~~~~il~~l~~--------~~~~~~~~~~-  279 (444)
                      .-++|+|..|+|||+|+ ..+.+..     +.+ .++++-+++.. .+.++.+.+...=..        ...+...... 
T Consensus       163 QR~~Ifg~~g~GKT~l~l~~I~n~~-----~~dv~~V~~~IGeR~~ev~e~~~~l~~~g~m~~tvvV~atad~p~~~r~~  237 (513)
T 3oaa_A          163 QRELIIGDRQTGKTALAIDAIINQR-----DSGIKCIYVAIGQKASTISNVVRKLEEHGALANTIVVVATASESAALQYL  237 (513)
T ss_dssp             CBCEEEESSSSSHHHHHHHHHHTTS-----SSSCEEEEEEESCCHHHHHHHHHHHHHHSCSTTEEEEEECTTSCHHHHHH
T ss_pred             CEEEeecCCCCCcchHHHHHHHhhc-----cCCceEEEEEecCChHHHHHHHHHHhhcCcccceEEEEECCCCChHHHHH
Confidence            46899999999999996 5676652     333 45788888764 445566655432100        0111111111 


Q ss_pred             ---HHHHHHHHh--CCceEEEEEeCCC
Q 047559          280 ---VQVQIKRAV--DGKKLLLVLDDVW  301 (444)
Q Consensus       280 ---~~~~l~~~l--~~kr~LlVlDdv~  301 (444)
                         ..-.+.+++  +++.+||++||+-
T Consensus       238 a~~~a~tiAEyfrd~G~dVLli~Dslt  264 (513)
T 3oaa_A          238 APYAGCAMGEYFRDRGEDALIIYDDLS  264 (513)
T ss_dssp             HHHHHHHHHHHHHHTTCEEEEEEETHH
T ss_pred             HHHHHHHHHHHHHhcCCCEEEEecChH
Confidence               112344454  6899999999983

>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=93.29  E-value=0.056  Score=47.68  Aligned_cols=25  Identities=44%  Similarity=0.603  Sum_probs=22.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRA  236 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~  236 (444)
                      ..|+|.|++|+||||+++.+.+...
T Consensus        27 ~~i~i~G~~GsGKsT~~~~l~~~l~   51 (229)
T 4eaq_A           27 AFITFEGPEGSGKTTVINEVYHRLV   51 (229)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHHh
Confidence            7899999999999999999988753

>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=93.25  E-value=0.052  Score=48.68  Aligned_cols=27  Identities=37%  Similarity=0.393  Sum_probs=22.6

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ....++.++|.||+||||++..+....
T Consensus        12 ~~~~i~~~~GkgGvGKTTl~~~La~~l   38 (262)
T 1yrb_A           12 MASMIVVFVGTAGSGKTTLTGEFGRYL   38 (262)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cceEEEEEeCCCCCCHHHHHHHHHHHH
Confidence            345789999999999999999987543

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=93.23  E-value=0.046  Score=45.33  Aligned_cols=24  Identities=33%  Similarity=0.461  Sum_probs=20.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      --|+|+|.+|+|||||.+.+....
T Consensus         5 ~ki~i~G~~~vGKSsl~~~l~~~~   28 (175)
T 2nzj_A            5 YRVVLLGDPGVGKTSLASLFAGKQ   28 (175)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHCC-
T ss_pred             EEEEEECCCCccHHHHHHHHhcCC
Confidence            568999999999999999987653

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=93.19  E-value=0.046  Score=49.33  Aligned_cols=23  Identities=39%  Similarity=0.494  Sum_probs=20.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        31 e~~~i~G~NGsGKSTLlk~l~Gl   53 (263)
T 2pjz_A           31 EKVIILGPNGSGKTTLLRAISGL   53 (263)
T ss_dssp             SEEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999999754

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=93.18  E-value=0.053  Score=47.98  Aligned_cols=26  Identities=35%  Similarity=0.406  Sum_probs=22.4

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ....+|+|.|+.|+||||+++.+...
T Consensus        14 ~~~~~i~i~G~~gsGKst~~~~l~~~   39 (236)
T 1q3t_A           14 MKTIQIAIDGPASSGKSTVAKIIAKD   39 (236)
T ss_dssp             CCCCEEEEECSSCSSHHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            44568999999999999999998764

>3thx_A DNA mismatch repair protein MSH2; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 2o8c_A* 2o8d_A* 2o8f_A* 3thw_A* 2o8b_A* 3thy_A* 3thz_A* 2o8e_A*

Probab=93.11  E-value=0.18  Score=53.80  Aligned_cols=20  Identities=30%  Similarity=0.253  Sum_probs=19.2

Q ss_pred             eEEEEEecCCChHHHHHHHH
Q 047559          212 AVIPIVGMAGVGKTTLAREV  231 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v  231 (444)
                      .+++|+|+.|.||||+.+.+
T Consensus       663 ~i~~ItGpNGsGKSTlLr~i  682 (934)
T 3thx_A          663 MFHIITGPNMGGKSTYIRQT  682 (934)
T ss_dssp             CEEEEECCTTSSHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHH
Confidence            69999999999999999988

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=93.10  E-value=0.053  Score=45.23  Aligned_cols=23  Identities=22%  Similarity=0.354  Sum_probs=20.7

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ..|+|+|.+|+|||||.+.+...
T Consensus         5 ~ki~ivG~~g~GKStLl~~l~~~   27 (172)
T 2gj8_A            5 MKVVIAGRPNAGKSSLLNALAGR   27 (172)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            46899999999999999999865

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=93.04  E-value=0.062  Score=47.67  Aligned_cols=24  Identities=25%  Similarity=0.347  Sum_probs=21.7

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..|+|.|..|+||||+++.+.+..
T Consensus         3 ~~i~~~G~~g~GKtt~~~~l~~~l   26 (241)
T 2ocp_A            3 RRLSIEGNIAVGKSTFVKLLTKTY   26 (241)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHC
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHc
Confidence            689999999999999999998763

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=93.04  E-value=0.058  Score=50.17  Aligned_cols=25  Identities=36%  Similarity=0.491  Sum_probs=22.0

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..++.|+|.+|+||||++..+....
T Consensus       105 ~~vI~ivG~~G~GKTT~~~~LA~~l  129 (320)
T 1zu4_A          105 LNIFMLVGVNGTGKTTSLAKMANYY  129 (320)
T ss_dssp             CEEEEEESSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4799999999999999999887654

>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=93.03  E-value=0.054  Score=51.57  Aligned_cols=23  Identities=30%  Similarity=0.223  Sum_probs=21.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|++|+|||||++.+...
T Consensus       170 ~~i~l~G~~GsGKSTl~~~l~~~  192 (377)
T 1svm_A          170 RYWLFKGPIDSGKTTLAAALLEL  192 (377)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHhh
Confidence            69999999999999999999864

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=93.03  E-value=0.026  Score=51.77  Aligned_cols=24  Identities=21%  Similarity=0.401  Sum_probs=18.6

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ..+|+|.|..|+||||+|+.+.+.
T Consensus         5 ~~iIgItG~sGSGKSTva~~L~~~   28 (290)
T 1a7j_A            5 HPIISVTGSSGAGTSTVKHTFDQI   28 (290)
T ss_dssp             SCEEEEESCC---CCTHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHH
Confidence            368999999999999999998764

>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=93.02  E-value=0.052  Score=45.87  Aligned_cols=24  Identities=29%  Similarity=0.562  Sum_probs=20.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      --|+|+|.+|+|||||+..+....
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            468899999999999999998653

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=92.99  E-value=0.054  Score=44.38  Aligned_cols=24  Identities=33%  Similarity=0.545  Sum_probs=20.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .-|+|+|.+|+|||||...+....
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            468899999999999999998653

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=92.98  E-value=0.049  Score=50.69  Aligned_cols=25  Identities=44%  Similarity=0.715  Sum_probs=22.5

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhc
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+.++.|+|+.|.|||||.+.+...
T Consensus         3 ~i~v~~i~G~~GaGKTTll~~l~~~   27 (318)
T 1nij_A            3 PIAVTLLTGFLGAGKTTLLRHILNE   27 (318)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             cccEEEEEecCCCCHHHHHHHHHhh
Confidence            4689999999999999999999854

>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=92.98  E-value=0.05  Score=44.69  Aligned_cols=22  Identities=36%  Similarity=0.513  Sum_probs=19.5

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -|+|+|.+|+|||||.+.+.+.
T Consensus         4 ki~~vG~~~~GKSsli~~l~~~   25 (166)
T 3q72_A            4 KVLLLGAPGVGKSALARIFGGV   25 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHCCC
T ss_pred             EEEEECCCCCCHHHHHHHHcCc
Confidence            5799999999999999998754

>1ny5_A Transcriptional regulator (NTRC family); AAA+ ATPase, sigma54 activator, bacterial transcription, DIM transcription; HET: ADP; 2.40A {Aquifex aeolicus} SCOP: c.23.1.1 c.37.1.20 PDB: 1ny6_A* 3m0e_A* 1zy2_A*

Probab=92.95  E-value=0.17  Score=48.36  Aligned_cols=45  Identities=22%  Similarity=0.271  Sum_probs=31.3

Q ss_pred             ccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhc
Q 047559          186 VFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       186 ~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ++|....+.++.+.+..-..   .+ ..|.|.|..|+|||++|+.++..
T Consensus       139 ~ig~s~~m~~l~~~i~~~a~---~~-~~vli~Ge~GtGK~~lAr~ih~~  183 (387)
T 1ny5_A          139 YVFESPKMKEILEKIKKISC---AE-CPVLITGESGVGKEVVARLIHKL  183 (387)
T ss_dssp             CCCCSHHHHHHHHHHHHHTT---CC-SCEEEECSTTSSHHHHHHHHHHH
T ss_pred             hhhccHHhhHHHHHHHHhcC---CC-CCeEEecCCCcCHHHHHHHHHHh
Confidence            55666666666665544222   22 23599999999999999999865

>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=92.93  E-value=0.059  Score=45.33  Aligned_cols=22  Identities=27%  Similarity=0.511  Sum_probs=19.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhh
Q 047559          212 AVIPIVGMAGVGKTTLAREVYN  233 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~  233 (444)
                      .+.+|+|+.|.|||||+..++-
T Consensus        27 g~~~i~G~NGsGKStll~ai~~   48 (182)
T 3kta_A           27 GFTAIVGANGSGKSNIGDAILF   48 (182)
T ss_dssp             SEEEEEECTTSSHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHH
Confidence            3889999999999999999864

>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=92.92  E-value=0.11  Score=46.63  Aligned_cols=36  Identities=22%  Similarity=0.242  Sum_probs=26.5

Q ss_pred             HHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhc
Q 047559          195 KMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       195 ~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -+..||....    ++...+.|+|++|+|||.+|..+.+.
T Consensus        92 ~l~~~l~~~~----~~~n~~~l~GppgtGKt~~a~ala~~  127 (267)
T 1u0j_A           92 VFLGWATKKF----GKRNTIWLFGPATTGKTNIAEAIAHT  127 (267)
T ss_dssp             HHHHHHTTCS----TTCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHHHHHhCCC----CCCcEEEEECCCCCCHHHHHHHHHhh
Confidence            3555554321    22357999999999999999999875

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=92.89  E-value=0.072  Score=44.28  Aligned_cols=25  Identities=32%  Similarity=0.458  Sum_probs=21.7

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhc
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ....|+|+|.+|+|||||...+...
T Consensus         7 ~~~~i~v~G~~~~GKssl~~~l~~~   31 (178)
T 2lkc_A            7 RPPVVTIMGHVDHGKTTLLDAIRHS   31 (178)
T ss_dssp             CCCEEEEESCTTTTHHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3467899999999999999999764

>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=92.89  E-value=0.058  Score=45.41  Aligned_cols=24  Identities=33%  Similarity=0.375  Sum_probs=20.9

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .--|+|+|.+|+|||||.+.+.+.
T Consensus         7 ~~ki~v~G~~~vGKSsli~~l~~~   30 (184)
T 1m7b_A            7 KCKIVVVGDSQCGKTALLHVFAKD   30 (184)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEEEECCCCCCHHHHHHHHhcC
Confidence            356789999999999999999865

>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=92.87  E-value=0.057  Score=44.17  Aligned_cols=24  Identities=25%  Similarity=0.468  Sum_probs=20.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      --|+|+|.+|+|||||...+....
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            358999999999999999987653

>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=92.86  E-value=0.057  Score=44.36  Aligned_cols=23  Identities=22%  Similarity=0.443  Sum_probs=20.2

Q ss_pred             EEEEEecCCChHHHHHHHHhhcc
Q 047559          213 VIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      -|.|+|.+|+|||||...+.+..
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            57899999999999999987653

>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=92.85  E-value=0.058  Score=44.24  Aligned_cols=23  Identities=26%  Similarity=0.489  Sum_probs=20.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      --|+|+|.+|+|||||.+.+.+.
T Consensus         4 ~ki~v~G~~~~GKssli~~l~~~   26 (167)
T 1c1y_A            4 YKLVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            35789999999999999999865

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=92.84  E-value=0.057  Score=47.78  Aligned_cols=38  Identities=18%  Similarity=0.296  Sum_probs=27.4

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCC
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSD  252 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~  252 (444)
                      .++.|.|++|+|||||+.++......   .-..++|++...
T Consensus        24 ~~~~i~G~~GsGKTtl~~~~~~~~~~---~~~~v~~~~~e~   61 (247)
T 2dr3_A           24 NVVLLSGGPGTGKTIFSQQFLWNGLK---MGEPGIYVALEE   61 (247)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHHH---TTCCEEEEESSS
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHh---cCCeEEEEEccC
Confidence            68999999999999999887654321   223566776544

>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=92.84  E-value=0.071  Score=44.77  Aligned_cols=24  Identities=29%  Similarity=0.506  Sum_probs=21.4

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ...|+|+|.+|+|||||...+.+.
T Consensus        16 ~~ki~ivG~~~vGKSsL~~~l~~~   39 (181)
T 1fzq_A           16 EVRILLLGLDNAGKTTLLKQLASE   39 (181)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcC
Confidence            367899999999999999999865

>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=92.84  E-value=0.057  Score=44.46  Aligned_cols=24  Identities=25%  Similarity=0.333  Sum_probs=21.0

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .--|.|+|.+|+|||||...+...
T Consensus         6 ~~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1z08_A            6 SFKVVLLGEGCVGKTSLVLRYCEN   29 (170)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcC
Confidence            356899999999999999998865

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=92.83  E-value=0.059  Score=44.39  Aligned_cols=23  Identities=26%  Similarity=0.491  Sum_probs=20.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      --|.|+|.+|+|||||...+...
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~   26 (172)
T 2erx_A            4 YRVAVFGAGGVGKSSLVLRFVKG   26 (172)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            45789999999999999999864

>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=92.82  E-value=0.07  Score=45.21  Aligned_cols=24  Identities=29%  Similarity=0.535  Sum_probs=21.4

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ...|+|+|.+|+|||||...+.+.
T Consensus        23 ~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 1svi_A           23 LPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             CCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            467899999999999999999865

>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=92.81  E-value=0.058  Score=44.36  Aligned_cols=24  Identities=25%  Similarity=0.473  Sum_probs=21.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      --|.|+|.+|+|||||.+.+.+..
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            468999999999999999998653

>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=92.77  E-value=0.064  Score=51.18  Aligned_cols=23  Identities=39%  Similarity=0.615  Sum_probs=20.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+|+|.|+.|+||||||..+...
T Consensus         3 ~~i~i~GptgsGKttla~~La~~   25 (409)
T 3eph_A            3 KVIVIAGTTGVGKSQLSIQLAQK   25 (409)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHHH
T ss_pred             cEEEEECcchhhHHHHHHHHHHH
Confidence            68999999999999999998764

>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=92.76  E-value=0.059  Score=44.37  Aligned_cols=22  Identities=41%  Similarity=0.519  Sum_probs=19.4

Q ss_pred             eEEEEEecCCChHHHHHHHHhh
Q 047559          212 AVIPIVGMAGVGKTTLAREVYN  233 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~  233 (444)
                      --|+|+|.+|+|||||...+..
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            4589999999999999999864

>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=92.74  E-value=0.059  Score=45.48  Aligned_cols=23  Identities=26%  Similarity=0.365  Sum_probs=20.3

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      --|+|+|.+|+|||||...+.+.
T Consensus        21 ~ki~ivG~~~vGKSsL~~~~~~~   43 (184)
T 3ihw_A           21 LKVGIVGNLSSGKSALVHRYLTG   43 (184)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            57899999999999999888765

>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=92.71  E-value=0.064  Score=44.12  Aligned_cols=23  Identities=35%  Similarity=0.530  Sum_probs=20.3

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      --|+|+|.+|+|||||...+...
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1g16_A            4 MKILLIGDSGVGKSCLLVRFVED   26 (170)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHhC
Confidence            46899999999999999998765

>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=92.68  E-value=0.062  Score=44.79  Aligned_cols=26  Identities=42%  Similarity=0.664  Sum_probs=21.9

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhcc
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ...-|.|+|.+|+|||||...+....
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            34678999999999999999987653

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=92.65  E-value=0.081  Score=44.68  Aligned_cols=25  Identities=28%  Similarity=0.575  Sum_probs=21.7

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ...|+|+|.+|+|||||...+....
T Consensus        23 ~~~i~v~G~~~~GKSsli~~l~~~~   47 (195)
T 3pqc_A           23 KGEVAFVGRSNVGKSSLLNALFNRK   47 (195)
T ss_dssp             TCEEEEEEBTTSSHHHHHHHHHTSC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCc
Confidence            3578999999999999999998764

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=92.63  E-value=0.15  Score=46.58  Aligned_cols=42  Identities=14%  Similarity=0.249  Sum_probs=28.9

Q ss_pred             HHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          194 AKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       194 ~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      +.+.+.|.............|+|+|.+|+|||||...+....
T Consensus         9 ~~l~~~l~~~~~~~~~~~~~i~vvG~~~~GKSSLln~l~g~~   50 (299)
T 2aka_B            9 NRLQDAFSAIGQNADLDLPQIAVVGGQSAGKSSVLENFVGRD   50 (299)
T ss_dssp             HHHHHHHTTSCCCTTCCCCEEEEEEBTTSCHHHHHHHHHTSC
T ss_pred             HHHHHHHHhcCCCCCCCCCeEEEEeCCCCCHHHHHHHHHCCC
Confidence            444454443222222445689999999999999999998764

>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=92.63  E-value=0.092  Score=48.42  Aligned_cols=33  Identities=15%  Similarity=0.346  Sum_probs=26.5

Q ss_pred             HHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          193 KAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       193 ~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ++++.+.+..         .+++|+|+.|+|||||.+.+. ..
T Consensus       156 i~~L~~~l~G---------~i~~l~G~sG~GKSTLln~l~-~~  188 (302)
T 2yv5_A          156 IDELVDYLEG---------FICILAGPSGVGKSSILSRLT-GE  188 (302)
T ss_dssp             HHHHHHHTTT---------CEEEEECSTTSSHHHHHHHHH-SC
T ss_pred             HHHHHhhccC---------cEEEEECCCCCCHHHHHHHHH-Hh
Confidence            5666666531         589999999999999999998 53

>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=92.62  E-value=0.064  Score=44.56  Aligned_cols=24  Identities=29%  Similarity=0.508  Sum_probs=21.0

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .--|+|+|.+|+|||||...+...
T Consensus         7 ~~~i~v~G~~~~GKSsli~~l~~~   30 (177)
T 1wms_A            7 LFKVILLGDGGVGKSSLMNRYVTN   30 (177)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcC
Confidence            356899999999999999999765

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8

Probab=92.61  E-value=0.065  Score=45.12  Aligned_cols=22  Identities=32%  Similarity=0.436  Sum_probs=19.8

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -|+|+|.+|+|||||...+.+.
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~   24 (190)
T 2cxx_A            3 TIIFAGRSNVGKSTLIYRLTGK   24 (190)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCc
Confidence            4789999999999999998865

>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=92.59  E-value=0.075  Score=46.06  Aligned_cols=26  Identities=31%  Similarity=0.305  Sum_probs=22.2

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhcc
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ....|.|+|.+|+|||||...+....
T Consensus        11 ~~~~i~~~G~~g~GKTsl~~~l~~~~   36 (218)
T 1nrj_B           11 YQPSIIIAGPQNSGKTSLLTLLTTDS   36 (218)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34678999999999999999998753

>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=92.58  E-value=0.09  Score=43.69  Aligned_cols=25  Identities=28%  Similarity=0.462  Sum_probs=21.9

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhc
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ...-|+|+|.+|+|||||...+.+.
T Consensus         8 ~~~~i~v~G~~~~GKssli~~l~~~   32 (181)
T 2fn4_A            8 ETHKLVVVGGGGVGKSALTIQFIQS   32 (181)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhC
Confidence            4467899999999999999998865

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=92.55  E-value=0.069  Score=44.40  Aligned_cols=24  Identities=25%  Similarity=0.317  Sum_probs=20.8

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .--|+|+|.+|+|||||...+.+.
T Consensus         6 ~~ki~v~G~~~~GKssl~~~l~~~   29 (178)
T 2hxs_A            6 QLKIVVLGDGASGKTSLTTCFAQE   29 (178)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHGG
T ss_pred             eEEEEEECcCCCCHHHHHHHHHhC
Confidence            356889999999999999998765

>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=92.54  E-value=0.062  Score=43.99  Aligned_cols=21  Identities=33%  Similarity=0.476  Sum_probs=19.0

Q ss_pred             EEEEecCCChHHHHHHHHhhc
Q 047559          214 IPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (444)
                      |+|+|.+|+|||||...+...
T Consensus         3 i~~~G~~~~GKssl~~~l~~~   23 (164)
T 1r8s_A            3 ILMVGLDAAGKTTILYKLKLG   23 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            789999999999999998754

>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=92.52  E-value=0.066  Score=45.25  Aligned_cols=24  Identities=29%  Similarity=0.547  Sum_probs=20.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      --|+|+|.+|+|||||...+.+..
T Consensus        22 ~ki~vvG~~~vGKTsLi~~l~~~~   45 (187)
T 3c5c_A           22 VNLAILGRRGAGKSALTVKFLTKR   45 (187)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEEECCCCCcHHHHHHHHHhCC
Confidence            568999999999999999887653

>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=92.51  E-value=0.069  Score=45.30  Aligned_cols=23  Identities=35%  Similarity=0.524  Sum_probs=20.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ..|+|+|.+|+|||||.+.+.+.
T Consensus        24 ~ki~~vG~~~vGKSsli~~l~~~   46 (190)
T 1m2o_B           24 GKLLFLGLDNAGKTTLLHMLKND   46 (190)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHhcC
Confidence            46899999999999999999864

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=92.45  E-value=0.05  Score=49.04  Aligned_cols=25  Identities=24%  Similarity=0.256  Sum_probs=21.9

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ...|+|.|..|+||||+++.+.+..
T Consensus        24 ~~~I~ieG~~GsGKST~~~~L~~~l   48 (263)
T 1p5z_B           24 IKKISIEGNIAAGKSTFVNILKQLC   48 (263)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGGGC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc
Confidence            3789999999999999999887653

>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=92.45  E-value=0.07  Score=43.81  Aligned_cols=23  Identities=22%  Similarity=0.381  Sum_probs=20.4

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      --|+|+|.+|+|||||...+...
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1r2q_A            7 FKLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            46899999999999999998864

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=92.44  E-value=0.062  Score=44.74  Aligned_cols=27  Identities=30%  Similarity=0.493  Sum_probs=22.3

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ...--|+|+|.+|+|||||...+....
T Consensus         7 ~~~~~i~v~G~~~~GKssl~~~l~~~~   33 (181)
T 3tw8_B            7 DHLFKLLIIGDSGVGKSSLLLRFADNT   33 (181)
T ss_dssp             CEEEEEEEECCTTSCHHHHHHHHCSCC
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhcCC
Confidence            334678999999999999999997653

>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=92.44  E-value=0.081  Score=51.37  Aligned_cols=26  Identities=38%  Similarity=0.461  Sum_probs=22.2

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhcc
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ...+|.|+|.+|+||||++..+....
T Consensus        98 ~~~vI~ivG~~GvGKTTla~~La~~l  123 (432)
T 2v3c_C           98 KQNVILLVGIQGSGKTTTAAKLARYI  123 (432)
T ss_dssp             SCCCEEEECCSSSSTTHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            34689999999999999998887653

>3gqb_A V-type ATP synthase alpha chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_A* 3a5d_A 3j0j_A* 1um2_C

Probab=92.43  E-value=0.13  Score=50.76  Aligned_cols=46  Identities=17%  Similarity=0.201  Sum_probs=34.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCC-CHHHHHHH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDF-DVLNISRA  262 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~-~~~~~~~~  262 (444)
                      .-++|.|..|+|||+|+..+.+..     +-+.++++-++... .+.+++..
T Consensus       222 qr~~Ifg~~g~GKT~l~~~ia~~~-----~~~v~V~~~iGER~~Ev~e~~~~  268 (578)
T 3gqb_A          222 GTAAIPGPFGSGKSVTQQSLAKWS-----NADVVVYVGSGERGNEMTDVLVE  268 (578)
T ss_dssp             CEEEECCCTTSCHHHHHHHHHHHS-----SCSEEEEEEEEECHHHHHHHHTT
T ss_pred             CEEeeeCCCCccHHHHHHHHHhcc-----CCCEEEEEEecccHHHHHHHHHH
Confidence            578999999999999999998762     44678888887653 33444433

>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=92.42  E-value=0.06  Score=46.09  Aligned_cols=23  Identities=30%  Similarity=0.508  Sum_probs=20.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .-|+|+|.+|+|||||.+.+...
T Consensus        26 ~ki~lvG~~~vGKSsLi~~l~~~   48 (198)
T 1f6b_A           26 GKLVFLGLDNAGKTTLLHMLKDD   48 (198)
T ss_dssp             EEEEEEEETTSSHHHHHHHHSCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhcC
Confidence            46889999999999999998754

>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=92.40  E-value=0.14  Score=49.35  Aligned_cols=23  Identities=26%  Similarity=0.413  Sum_probs=21.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|+|||||.+.+...
T Consensus       168 gii~I~GpnGSGKTTlL~allg~  190 (418)
T 1p9r_A          168 GIILVTGPTGSGKSTTLYAGLQE  190 (418)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHhh
Confidence            68999999999999999998764

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=92.39  E-value=0.081  Score=49.89  Aligned_cols=24  Identities=21%  Similarity=0.218  Sum_probs=21.7

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ..+|+|+|.+|+|||||...+...
T Consensus        74 ~~~v~lvG~pgaGKSTLln~L~~~   97 (349)
T 2www_A           74 AFRVGLSGPPGAGKSTFIEYFGKM   97 (349)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHH
Confidence            479999999999999999999864

>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=92.37  E-value=0.074  Score=44.61  Aligned_cols=25  Identities=28%  Similarity=0.504  Sum_probs=21.4

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .--|.|+|.+|+|||||.+.+.+..
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            4578999999999999999987653

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=92.36  E-value=0.6  Score=45.44  Aligned_cols=50  Identities=18%  Similarity=0.213  Sum_probs=34.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLES  266 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~  266 (444)
                      .++.|.|.+|+||||||..++.+....+   ..++|++.-  .+..++...++..
T Consensus       198 ~liiIaG~pG~GKTtlal~ia~~~a~~g---~~vl~fSlE--ms~~ql~~R~~~~  247 (444)
T 3bgw_A          198 NFVLIAARPSMGKTAFALKQAKNMSDND---DVVNLHSLE--MGKKENIKRLIVT  247 (444)
T ss_dssp             CEEEEEECSSSSHHHHHHHHHHHHHHTT---CEEEEECSS--SCTTHHHHHHHHH
T ss_pred             cEEEEEeCCCCChHHHHHHHHHHHHHcC---CEEEEEECC--CCHHHHHHHHHHH
Confidence            6899999999999999999887643322   245666543  3444555555543

>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=92.35  E-value=0.073  Score=43.84  Aligned_cols=23  Identities=35%  Similarity=0.488  Sum_probs=20.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .-|+|+|.+|+|||||...+...
T Consensus         8 ~~i~v~G~~~~GKssl~~~l~~~   30 (171)
T 1upt_A            8 MRILILGLDGAGKTTILYRLQVG   30 (171)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHhcC
Confidence            57899999999999999999764

>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=92.35  E-value=0.072  Score=44.74  Aligned_cols=24  Identities=29%  Similarity=0.551  Sum_probs=20.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      --|+|+|.+|+|||||...+.+..
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            468999999999999999998654

>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=92.34  E-value=0.076  Score=44.09  Aligned_cols=23  Identities=30%  Similarity=0.413  Sum_probs=20.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      --|+|+|.+|+|||||...+...
T Consensus        15 ~~i~v~G~~~~GKssli~~l~~~   37 (179)
T 2y8e_A           15 FKLVFLGEQSVGKTSLITRFMYD   37 (179)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            46889999999999999998754

>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=92.33  E-value=0.076  Score=50.43  Aligned_cols=23  Identities=22%  Similarity=0.358  Sum_probs=21.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ..++|+|..|+|||||++.+..-
T Consensus       171 ~k~~IvG~nGsGKSTLlk~L~gl  193 (365)
T 1lw7_A          171 KTVAILGGESSGKSVLVNKLAAV  193 (365)
T ss_dssp             EEEEEECCTTSHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            68999999999999999998764

>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=92.33  E-value=0.073  Score=44.17  Aligned_cols=25  Identities=28%  Similarity=0.450  Sum_probs=21.7

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..-|.|+|.+|+|||||...+....
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            4678999999999999999998654

>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=92.29  E-value=0.074  Score=44.51  Aligned_cols=24  Identities=29%  Similarity=0.537  Sum_probs=21.2

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .--|.|+|.+|+|||||...+.+.
T Consensus        18 ~~ki~v~G~~~~GKSsl~~~l~~~   41 (183)
T 3kkq_A           18 TYKLVVVGDGGVGKSALTIQFFQK   41 (183)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            457899999999999999999865

>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase; 1.90A {Tomato mosaic virus}

Probab=92.25  E-value=0.29  Score=47.31  Aligned_cols=25  Identities=32%  Similarity=0.381  Sum_probs=22.4

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhh
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYN  233 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~  233 (444)
                      ...++..|.|.+|.||||+.+..++
T Consensus       159 ~~~~v~~I~G~aGsGKTt~I~~~~~  183 (446)
T 3vkw_A          159 SSAKVVLVDGVPGCGKTKEILSRVN  183 (446)
T ss_dssp             CCSEEEEEEECTTSCHHHHHHHHCC
T ss_pred             ccccEEEEEcCCCCCHHHHHHHHhc
Confidence            5678999999999999999988875

>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=92.24  E-value=0.059  Score=44.92  Aligned_cols=23  Identities=22%  Similarity=0.358  Sum_probs=20.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      --|+|+|.+|+|||||...+.+.
T Consensus         8 ~ki~~vG~~~vGKTsli~~l~~~   30 (178)
T 2iwr_A            8 LRLGVLGDARSGKSSLIHRFLTG   30 (178)
T ss_dssp             EEEEEECCGGGCHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            46889999999999999998865

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=92.22  E-value=0.05  Score=55.28  Aligned_cols=23  Identities=22%  Similarity=0.287  Sum_probs=20.5

Q ss_pred             EEEEEecCCChHHHHHHHHhhcc
Q 047559          213 VIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      -|.++|++|+|||+||+.+.+..
T Consensus       329 ~vLL~GppGtGKT~LAr~la~~~  351 (595)
T 3f9v_A          329 HILIIGDPGTAKSQMLQFISRVA  351 (595)
T ss_dssp             CEEEEESSCCTHHHHHHSSSTTC
T ss_pred             ceEEECCCchHHHHHHHHHHHhC
Confidence            58999999999999999988753

>1w36_D RECD, exodeoxyribonuclease V alpha chain; recombination, helicase, hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19 PDB: 3k70_D*

Probab=92.20  E-value=0.19  Score=51.16  Aligned_cols=43  Identities=16%  Similarity=0.123  Sum_probs=27.3

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCC
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDF  254 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~  254 (444)
                      +++.|.|.+|+||||++..+..........-...+.+..+..-
T Consensus       165 ~~~vi~G~pGTGKTt~l~~ll~~l~~~~~~~~~~vll~APTg~  207 (608)
T 1w36_D          165 RISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAAPTGK  207 (608)
T ss_dssp             SEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEBSSHH
T ss_pred             CCEEEEeCCCCCHHHHHHHHHHHHHHhhhcCCCeEEEEeCChh
Confidence            5899999999999999887765432110011245666655543

>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport, alpha and beta proteins (A/B) TM0421, structural genomics, NPPSFA; 2.11A {Thermotoga maritima}

Probab=92.20  E-value=0.075  Score=50.17  Aligned_cols=23  Identities=26%  Similarity=0.354  Sum_probs=20.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        30 e~~~llGpnGsGKSTLLr~iaGl   52 (359)
T 2yyz_A           30 EFVALLGPSGCGKTTTLLMLAGI   52 (359)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CEEEEEcCCCchHHHHHHHHHCC
Confidence            58999999999999999999753

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=92.19  E-value=0.49  Score=52.79  Aligned_cols=24  Identities=25%  Similarity=0.454  Sum_probs=21.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..++|+|+.|.|||||++.+....
T Consensus       445 ~~vaivG~sGsGKSTll~ll~~~~  468 (1321)
T 4f4c_A          445 QTVALVGSSGCGKSTIISLLLRYY  468 (1321)
T ss_dssp             CEEEEEECSSSCHHHHHHHHTTSS
T ss_pred             cEEEEEecCCCcHHHHHHHhcccc
Confidence            689999999999999999997654

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=92.17  E-value=0.15  Score=44.67  Aligned_cols=25  Identities=28%  Similarity=0.353  Sum_probs=19.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRA  236 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~  236 (444)
                      ..|.|.|+.|+||||+++.+.+...
T Consensus        26 ~~I~~eG~~GsGKsT~~~~l~~~l~   50 (227)
T 3v9p_A           26 KFITFEGIDGAGKTTHLQWFCDRLQ   50 (227)
T ss_dssp             CEEEEECCC---CHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH
Confidence            6899999999999999999987754

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* 3sea_A*

Probab=92.16  E-value=0.082  Score=44.15  Aligned_cols=24  Identities=29%  Similarity=0.445  Sum_probs=21.1

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ..-|+|+|.+|+|||||...+.+.
T Consensus         6 ~~ki~~~G~~~~GKSsli~~l~~~   29 (181)
T 3t5g_A            6 SRKIAILGYRSVGKSSLTIQFVEG   29 (181)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcC
Confidence            457899999999999999999854

>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics, nysgxrc T16, GTPase, PSI, protein structure initiative; 2.00A {Escherichia coli} SCOP: c.37.1.8

Probab=92.16  E-value=0.053  Score=46.70  Aligned_cols=23  Identities=17%  Similarity=0.342  Sum_probs=20.7

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ..|+|+|..|+|||||.+.+...
T Consensus        27 ~~v~lvG~~g~GKSTLl~~l~g~   49 (210)
T 1pui_A           27 IEVAFAGRSNAGKSSALNTLTNQ   49 (210)
T ss_dssp             EEEEEEECTTSSHHHHHTTTCCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            68999999999999999988754

>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=92.16  E-value=0.099  Score=44.88  Aligned_cols=23  Identities=30%  Similarity=0.309  Sum_probs=20.4

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      --|+|+|.+|+|||||...+.+.
T Consensus        31 ~ki~vvG~~~~GKSsLi~~l~~~   53 (204)
T 4gzl_A           31 IKCVVVGDGAVGKTCLLISYTTN   53 (204)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEEECcCCCCHHHHHHHHHhC
Confidence            57799999999999999988765

>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=92.13  E-value=0.079  Score=44.83  Aligned_cols=24  Identities=29%  Similarity=0.196  Sum_probs=20.0

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .--|+|+|.+|+|||||.+.+.+.
T Consensus        14 ~~ki~vvG~~~~GKssL~~~l~~~   37 (198)
T 3t1o_A           14 NFKIVYYGPGLSGKTTNLKWIYSK   37 (198)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHT
T ss_pred             ccEEEEECCCCCCHHHHHHHHHhh
Confidence            356899999999999999777654

>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=92.12  E-value=0.079  Score=44.62  Aligned_cols=24  Identities=29%  Similarity=0.411  Sum_probs=21.1

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .--|+|+|.+|+|||||...+...
T Consensus        11 ~~ki~v~G~~~~GKSsli~~l~~~   34 (195)
T 3bc1_A           11 LIKFLALGDSGVGKTSVLYQYTDG   34 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            457899999999999999999864

>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=92.11  E-value=0.08  Score=44.30  Aligned_cols=23  Identities=30%  Similarity=0.309  Sum_probs=20.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      --|+|+|.+|+|||||...+.+.
T Consensus         6 ~~i~~~G~~~~GKssl~~~l~~~   28 (186)
T 1mh1_A            6 IKCVVVGDGAVGKTCLLISYTTN   28 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            46899999999999999998754

>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=92.11  E-value=0.088  Score=52.50  Aligned_cols=25  Identities=28%  Similarity=0.420  Sum_probs=22.1

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..+|.++|++|.||||+|+.+....
T Consensus        35 ~~lIvlvGlpGSGKSTia~~La~~L   59 (520)
T 2axn_A           35 PTVIVMVGLPARGKTYISKKLTRYL   59 (520)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            3689999999999999999997654

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=92.08  E-value=0.079  Score=44.84  Aligned_cols=25  Identities=28%  Similarity=0.502  Sum_probs=21.5

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .--|+|+|.+|+|||||...+....
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            3578999999999999999988653

>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=92.06  E-value=0.082  Score=44.23  Aligned_cols=25  Identities=36%  Similarity=0.577  Sum_probs=21.4

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..-|.|+|.+|+|||||...+....
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            3568999999999999999998653

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=92.05  E-value=0.082  Score=44.06  Aligned_cols=25  Identities=28%  Similarity=0.465  Sum_probs=21.2

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..-|.|+|.+|+|||||...+....
T Consensus        12 ~~ki~v~G~~~~GKSsli~~l~~~~   36 (181)
T 2efe_B           12 NAKLVLLGDVGAGKSSLVLRFVKDQ   36 (181)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHCC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcCC
Confidence            3568999999999999999988653

>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=92.05  E-value=0.079  Score=50.31  Aligned_cols=23  Identities=30%  Similarity=0.419  Sum_probs=20.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        30 e~~~llGpnGsGKSTLLr~iaGl   52 (372)
T 1g29_1           30 EFMILLGPSGCGKTTTLRMIAGL   52 (372)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCcHHHHHHHHHHcC
Confidence            58999999999999999999753

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=92.04  E-value=0.095  Score=49.14  Aligned_cols=24  Identities=29%  Similarity=0.364  Sum_probs=21.4

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ..+++|+|++|+|||||.+.+...
T Consensus        55 g~~v~i~G~~GaGKSTLl~~l~g~   78 (337)
T 2qm8_A           55 AIRVGITGVPGVGKSTTIDALGSL   78 (337)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHh
Confidence            379999999999999999998753

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8

Probab=92.03  E-value=0.085  Score=45.46  Aligned_cols=23  Identities=35%  Similarity=0.421  Sum_probs=20.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      --|+|+|.+|+|||||.+.+...
T Consensus        29 ~ki~vvG~~~vGKSsLi~~l~~~   51 (205)
T 1gwn_A           29 CKIVVVGDSQCGKTALLHVFAKD   51 (205)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            57899999999999999999865

>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=92.03  E-value=0.081  Score=45.01  Aligned_cols=22  Identities=36%  Similarity=0.508  Sum_probs=19.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhh
Q 047559          212 AVIPIVGMAGVGKTTLAREVYN  233 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~  233 (444)
                      --|+|+|.+|+|||||...+..
T Consensus         7 ~kv~lvG~~~vGKSsL~~~~~~   28 (192)
T 2cjw_A            7 YRVVLIGEQGVGKSTLANIFAG   28 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            5689999999999999999874

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=92.00  E-value=0.084  Score=44.02  Aligned_cols=23  Identities=30%  Similarity=0.261  Sum_probs=20.3

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      --|+|+|.+|+|||||...+...
T Consensus         9 ~ki~v~G~~~~GKssl~~~~~~~   31 (182)
T 3bwd_D            9 IKCVTVGDGAVGKTCLLISYTSN   31 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            46889999999999999998865

>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=91.99  E-value=0.084  Score=44.90  Aligned_cols=23  Identities=35%  Similarity=0.557  Sum_probs=20.7

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      --|+|+|.+|+|||||...+...
T Consensus        29 ~ki~v~G~~~vGKSsli~~l~~~   51 (196)
T 2atv_A           29 VKLAIFGRAGVGKSALVVRFLTK   51 (196)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            56889999999999999999865

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=91.98  E-value=0.28  Score=55.40  Aligned_cols=84  Identities=17%  Similarity=0.133  Sum_probs=57.3

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCC-----CcccHHHHHHHH
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASC-----DLKALNEVQVQI  284 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~-----~~~~~~~~~~~l  284 (444)
                      .-++|-|+|+.|+||||||.++.....  . .=...+|+...+..++.-     ++.++....     .+...++....+
T Consensus      1430 rg~~iei~g~~~sGkttl~~~~~a~~~--~-~g~~~~~i~~e~~~~~~~-----~~~~Gv~~~~l~~~~p~~~e~~l~~~ 1501 (1706)
T 3cmw_A         1430 MGRIVEIYGPESSGKTTLTLQVIAAAQ--R-EGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEIC 1501 (1706)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHH--H-TTCCEEEECTTSCCCHHH-----HHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHH--h-cCCeEEEEecCCCCCHHH-----HHHcCCCHHHeEEeCCCcHHHHHHHH
Confidence            347999999999999999999886532  2 345778998887777653     556554432     233335555555


Q ss_pred             HHHh-CCceEEEEEeCCC
Q 047559          285 KRAV-DGKKLLLVLDDVW  301 (444)
Q Consensus       285 ~~~l-~~kr~LlVlDdv~  301 (444)
                      ...+ .+..-+||+|-|-
T Consensus      1502 ~~~~~s~~~~~vvvDsv~ 1519 (1706)
T 3cmw_A         1502 DALARSGAVDVIVVDSVA 1519 (1706)
T ss_dssp             HHHHHHTCCSEEEESCST
T ss_pred             HHHHHcCCCCEEEEccHH
Confidence            5555 3456699999983

>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=91.97  E-value=0.082  Score=50.17  Aligned_cols=23  Identities=30%  Similarity=0.434  Sum_probs=20.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|+|||||.+.+..-
T Consensus        38 e~~~llGpnGsGKSTLLr~iaGl   60 (372)
T 1v43_A           38 EFLVLLGPSGCGKTTTLRMIAGL   60 (372)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCChHHHHHHHHHcC
Confidence            58999999999999999999753

>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=91.95  E-value=0.084  Score=45.09  Aligned_cols=26  Identities=35%  Similarity=0.551  Sum_probs=21.8

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhcc
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ...-|+|+|.+|+|||||...+....
T Consensus        13 ~~~ki~v~G~~~~GKSsli~~l~~~~   38 (206)
T 2bov_A           13 ALHKVIMVGSGGVGKSALTLQFMYDE   38 (206)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhCC
Confidence            34578999999999999999987653

>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=91.95  E-value=0.088  Score=44.61  Aligned_cols=24  Identities=25%  Similarity=0.484  Sum_probs=21.1

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      --|+|+|.+|+|||||...+....
T Consensus        24 ~ki~vvG~~~~GKSsli~~l~~~~   47 (192)
T 2fg5_A           24 LKVCLLGDTGVGKSSIVCRFVQDH   47 (192)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHCC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCC
Confidence            568999999999999999997653

>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=91.92  E-value=0.099  Score=45.56  Aligned_cols=22  Identities=32%  Similarity=0.466  Sum_probs=19.4

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -|.|+|.+|+|||+|...+.++
T Consensus        15 KivlvGd~~VGKTsLi~r~~~~   36 (216)
T 4dkx_A           15 KLVFLGEQSVGKTSLITRFMYD   36 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCcCHHHHHHHHHhC
Confidence            4788999999999999998765

>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=91.92  E-value=0.067  Score=45.66  Aligned_cols=24  Identities=38%  Similarity=0.520  Sum_probs=20.6

Q ss_pred             CceEEEEEecCCChHHHHHHHHhh
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYN  233 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~  233 (444)
                      ...-|+|+|.+|+|||||.+.+..
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            346789999999999999999853

>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=91.91  E-value=0.089  Score=45.17  Aligned_cols=24  Identities=46%  Similarity=0.624  Sum_probs=20.9

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ..-|+|+|.+|+|||||.+.+.+.
T Consensus        26 ~~ki~lvG~~~vGKSsLi~~l~~~   49 (201)
T 2ew1_A           26 LFKIVLIGNAGVGKTCLVRRFTQG   49 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhC
Confidence            357899999999999999998764

>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=91.90  E-value=0.088  Score=43.81  Aligned_cols=25  Identities=32%  Similarity=0.389  Sum_probs=21.4

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .--|+|+|.+|+|||||...+....
T Consensus        10 ~~~i~v~G~~~~GKssli~~l~~~~   34 (180)
T 2g6b_A           10 AFKVMLVGDSGVGKTCLLVRFKDGA   34 (180)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhCC
Confidence            3568999999999999999987653

>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=91.90  E-value=0.089  Score=44.79  Aligned_cols=23  Identities=22%  Similarity=0.546  Sum_probs=20.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      --|.|+|.+|+|||||.+.+.+.
T Consensus        21 ~ki~~vG~~~vGKTsLi~~l~~~   43 (196)
T 3llu_A           21 PRILLMGLRRSGKSSIQKVVFHK   43 (196)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhc
Confidence            57899999999999999977664

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=91.87  E-value=0.091  Score=44.92  Aligned_cols=25  Identities=32%  Similarity=0.466  Sum_probs=21.7

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..-|+|+|.+|+|||||...+.+..
T Consensus        24 ~~ki~vvG~~~~GKSsli~~l~~~~   48 (201)
T 3oes_A           24 YRKVVILGYRCVGKTSLAHQFVEGE   48 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             cEEEEEECCCCcCHHHHHHHHHhCC
Confidence            3578999999999999999998654

>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=91.87  E-value=0.087  Score=45.09  Aligned_cols=26  Identities=38%  Similarity=0.562  Sum_probs=22.1

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhcc
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ...-|+|+|.+|+|||||...+....
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            34678999999999999999987653

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=91.86  E-value=0.096  Score=45.08  Aligned_cols=24  Identities=21%  Similarity=0.261  Sum_probs=22.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+|.|.|+.|+||||+++.+....
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            589999999999999999998865

>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=91.82  E-value=0.2  Score=41.99  Aligned_cols=23  Identities=30%  Similarity=0.429  Sum_probs=20.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .-|+|+|.+|+|||||...+.+.
T Consensus        17 ~~i~v~G~~~~GKssl~~~l~~~   39 (187)
T 1zj6_A           17 HKVIIVGLDNAGKTTILYQFSMN   39 (187)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTT
T ss_pred             cEEEEECCCCCCHHHHHHHHhcC
Confidence            67899999999999999999854

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=91.80  E-value=0.077  Score=46.14  Aligned_cols=23  Identities=35%  Similarity=0.512  Sum_probs=20.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+|.|.|+.|+||||+++.+...
T Consensus         4 ~~i~i~G~~gsGkst~~~~l~~~   26 (219)
T 2h92_A            4 INIALDGPAAAGKSTIAKRVASE   26 (219)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            47999999999999999988764

>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=91.79  E-value=0.087  Score=44.58  Aligned_cols=23  Identities=30%  Similarity=0.411  Sum_probs=20.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      --|+|+|.+|+|||||...+.+.
T Consensus        24 ~ki~v~G~~~~GKSsli~~l~~~   46 (191)
T 3dz8_A           24 FKLLIIGNSSVGKTSFLFRYADD   46 (191)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHhcC
Confidence            56899999999999999998865

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=91.79  E-value=0.1  Score=44.30  Aligned_cols=27  Identities=22%  Similarity=0.353  Sum_probs=22.5

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .....|+|+|.+|+|||||...+....
T Consensus        15 ~~~~ki~v~G~~~~GKSsl~~~l~~~~   41 (199)
T 4bas_A           15 KTKLQVVMCGLDNSGKTTIINQVKPAQ   41 (199)
T ss_dssp             -CEEEEEEECCTTSCHHHHHHHHSCCC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            344789999999999999999998653

>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=91.79  E-value=0.12  Score=45.28  Aligned_cols=24  Identities=25%  Similarity=0.333  Sum_probs=21.4

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ...|+|+|.+|+|||||...+...
T Consensus        29 ~~kI~vvG~~~vGKSsLin~l~~~   52 (228)
T 2qu8_A           29 KKTIILSGAPNVGKSSFMNIVSRA   52 (228)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHTTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            367899999999999999999865

>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=91.77  E-value=0.092  Score=44.84  Aligned_cols=25  Identities=32%  Similarity=0.429  Sum_probs=21.5

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .--|+|+|.+|+|||||...+....
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~~   32 (203)
T 1zbd_A            8 MFKILIIGNSSVGKTSFLFRYADDS   32 (203)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTCC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcCC
Confidence            4568999999999999999988653

>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=91.77  E-value=0.1  Score=49.64  Aligned_cols=110  Identities=9%  Similarity=0.074  Sum_probs=55.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeE-EEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCC
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKA-WVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDG  290 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~-wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~  290 (444)
                      .+++|+|+.|+|||||++.+.......   ....+ ++.  ++...  .+..-...+.....+ .+...+...+...+..
T Consensus       137 ~~i~ivG~~GsGKTTll~~l~~~~~~~---~~g~I~~~e--~~~e~--~~~~~~~~v~Q~~~g-~~~~~~~~~l~~~L~~  208 (372)
T 2ewv_A          137 GLILVTGPTGSGKSTTIASMIDYINQT---KSYHIITIE--DPIEY--VFKHKKSIVNQREVG-EDTKSFADALRAALRE  208 (372)
T ss_dssp             EEEEEECSSSSSHHHHHHHHHHHHHHH---SCCEEEEEE--SSCCS--CCCCSSSEEEEEEBT-TTBSCSHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhcCcC---CCcEEEEec--ccHhh--hhccCceEEEeeecC-CCHHHHHHHHHHHhhh
Confidence            689999999999999999987653211   11222 222  11110  000000000000000 0011223456667766


Q ss_pred             ceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCChHHH
Q 047559          291 KKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVA  334 (444)
Q Consensus       291 kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~~va  334 (444)
                      .+=+|++|++.+  ......+....   ..|..||.|+...++.
T Consensus       209 ~pd~illdE~~d--~e~~~~~l~~~---~~g~~vi~t~H~~~~~  247 (372)
T 2ewv_A          209 DPDVIFVGEMRD--LETVETALRAA---ETGHLVFGTLHTNTAI  247 (372)
T ss_dssp             CCSEEEESCCCS--HHHHHHHHHHH---TTTCEEEECCCCCSHH
T ss_pred             CcCEEEECCCCC--HHHHHHHHHHH---hcCCEEEEEECcchHH
Confidence            677899999963  23333322222   3466688887765544

>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=91.74  E-value=0.093  Score=44.28  Aligned_cols=23  Identities=26%  Similarity=0.405  Sum_probs=20.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      --|+|+|.+|+|||||...+.+.
T Consensus        23 ~ki~v~G~~~~GKSsli~~l~~~   45 (188)
T 1zd9_A           23 MELTLVGLQYSGKTTFVNVIASG   45 (188)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHHcC
Confidence            46899999999999999999865

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A*

Probab=91.73  E-value=0.092  Score=44.10  Aligned_cols=24  Identities=21%  Similarity=0.459  Sum_probs=21.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .-|.|+|.+|+|||||...+.+..
T Consensus        19 ~~i~v~G~~~~GKssl~~~l~~~~   42 (186)
T 1ksh_A           19 LRLLMLGLDNAGKTTILKKFNGED   42 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHTTCC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCC
Confidence            678999999999999999998654

>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=91.73  E-value=0.081  Score=48.74  Aligned_cols=22  Identities=32%  Similarity=0.643  Sum_probs=18.8

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -|+|+|..|+|||||.+.++..
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            4599999999999999997753

>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=91.72  E-value=0.13  Score=47.44  Aligned_cols=34  Identities=21%  Similarity=0.398  Sum_probs=27.1

Q ss_pred             HHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          193 KAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       193 ~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ++++...+..         .+++|+|++|+|||||.+.+....
T Consensus       160 v~~lf~~l~g---------eiv~l~G~sG~GKSTll~~l~g~~  193 (301)
T 1u0l_A          160 IEELKEYLKG---------KISTMAGLSGVGKSSLLNAINPGL  193 (301)
T ss_dssp             HHHHHHHHSS---------SEEEEECSTTSSHHHHHHHHSTTC
T ss_pred             HHHHHHHhcC---------CeEEEECCCCCcHHHHHHHhcccc
Confidence            5666666632         489999999999999999998653

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=91.71  E-value=0.093  Score=44.57  Aligned_cols=24  Identities=21%  Similarity=0.375  Sum_probs=21.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      --|+|+|.+|+|||||...+....
T Consensus         8 ~ki~v~G~~~~GKSsli~~l~~~~   31 (208)
T 3clv_A            8 YKTVLLGESSVGKSSIVLRLTKDT   31 (208)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCc
Confidence            568899999999999999998763

>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=91.70  E-value=0.095  Score=44.21  Aligned_cols=24  Identities=25%  Similarity=0.375  Sum_probs=21.1

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .-|+|+|.+|+|||||...+....
T Consensus        23 ~ki~vvG~~~~GKSsli~~l~~~~   46 (189)
T 2gf9_A           23 FKLLLIGNSSVGKTSFLFRYADDS   46 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            578999999999999999987653

>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=91.70  E-value=0.095  Score=44.43  Aligned_cols=24  Identities=33%  Similarity=0.358  Sum_probs=21.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      --|+|+|.+|+|||||...+.+..
T Consensus        24 ~ki~~vG~~~~GKSsl~~~l~~~~   47 (194)
T 3reg_A           24 LKIVVVGDGAVGKTCLLLAFSKGE   47 (194)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCC
Confidence            568999999999999999998753

>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=91.69  E-value=0.064  Score=50.59  Aligned_cols=22  Identities=36%  Similarity=0.525  Sum_probs=20.4

Q ss_pred             eEEEEEecCCChHHHHHHHHhh
Q 047559          212 AVIPIVGMAGVGKTTLAREVYN  233 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~  233 (444)
                      .+++|+|+.|+|||||.+.+..
T Consensus        32 e~~~llGpnGsGKSTLLr~iaG   53 (353)
T 1oxx_K           32 ERFGILGPSGAGKTTFMRIIAG   53 (353)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCcHHHHHHHHhC
Confidence            5899999999999999999975

>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=91.66  E-value=0.068  Score=44.70  Aligned_cols=23  Identities=35%  Similarity=0.472  Sum_probs=20.4

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .-|+|+|.+|+|||||...+...
T Consensus        19 ~~i~v~G~~~~GKssli~~l~~~   41 (183)
T 1moz_A           19 LRILILGLDGAGKTTILYRLQIG   41 (183)
T ss_dssp             EEEEEEEETTSSHHHHHHHTCCS
T ss_pred             cEEEEECCCCCCHHHHHHHHhcC
Confidence            67899999999999999988754

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=91.65  E-value=0.096  Score=44.32  Aligned_cols=25  Identities=32%  Similarity=0.501  Sum_probs=21.7

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .--|+|+|.+|+|||||...+.+..
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            4568999999999999999998653

>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=91.64  E-value=0.09  Score=44.64  Aligned_cols=23  Identities=30%  Similarity=0.395  Sum_probs=20.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      --|+|+|.+|+|||||...+...
T Consensus        30 ~ki~v~G~~~vGKSsLi~~l~~~   52 (192)
T 2b6h_A           30 MRILMVGLDAAGKTTILYKLKLG   52 (192)
T ss_dssp             EEEEEEESTTSSHHHHHHHHCSS
T ss_pred             cEEEEECCCCCCHHHHHHHHHhC
Confidence            56899999999999999998754

>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=91.62  E-value=0.096  Score=45.20  Aligned_cols=24  Identities=25%  Similarity=0.400  Sum_probs=21.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..|.|+|.+|+|||||...+....
T Consensus         8 ~ki~vvG~~~~GKTsli~~l~~~~   31 (214)
T 2fh5_B            8 RAVLFVGLCDSGKTLLFVRLLTGQ   31 (214)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            578999999999999999998653

>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=91.60  E-value=0.28  Score=42.26  Aligned_cols=24  Identities=46%  Similarity=0.627  Sum_probs=21.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      +-|+|-|..|+||||+++.+.+..
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            578899999999999999998865

>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=91.58  E-value=0.11  Score=48.09  Aligned_cols=26  Identities=31%  Similarity=0.523  Sum_probs=23.3

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      +....|+|+|.+|+|||||...+...
T Consensus         8 ~~~g~v~ivG~~nvGKSTLin~l~g~   33 (308)
T 3iev_A            8 MKVGYVAIVGKPNVGKSTLLNNLLGT   33 (308)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHhCC
Confidence            55689999999999999999999865

>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=91.58  E-value=0.098  Score=44.25  Aligned_cols=23  Identities=30%  Similarity=0.407  Sum_probs=20.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      --|.|+|.+|+|||||...+.+.
T Consensus        22 ~ki~v~G~~~~GKSsli~~l~~~   44 (191)
T 2a5j_A           22 FKYIIIGDTGVGKSCLLLQFTDK   44 (191)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHhcC
Confidence            46889999999999999998865

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A*

Probab=91.57  E-value=0.097  Score=43.83  Aligned_cols=23  Identities=30%  Similarity=0.429  Sum_probs=20.7

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      --|.|+|.+|+|||||...+...
T Consensus        22 ~~i~v~G~~~~GKSsli~~l~~~   44 (181)
T 2h17_A           22 HKVIIVGLDNAGKTTILYQFSMN   44 (181)
T ss_dssp             EEEEEEEETTSSHHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            57899999999999999999864

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=91.57  E-value=0.098  Score=44.71  Aligned_cols=24  Identities=29%  Similarity=0.522  Sum_probs=20.3

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .--|+|+|.+|+|||||...+.+.
T Consensus        25 ~~ki~v~G~~~~GKSsLi~~l~~~   48 (200)
T 2o52_A           25 LFKFLVIGSAGTGKSCLLHQFIEN   48 (200)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHC-
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhC
Confidence            356889999999999999998754

>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=91.56  E-value=0.11  Score=47.83  Aligned_cols=24  Identities=38%  Similarity=0.570  Sum_probs=21.6

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ...|+|+|.+|+|||||...+...
T Consensus         8 ~~~VaIvG~~nvGKSTLln~L~g~   31 (301)
T 1ega_A            8 CGFIAIVGRPNVGKSTLLNKLLGQ   31 (301)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCC
Confidence            468999999999999999999865

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=91.55  E-value=0.082  Score=50.12  Aligned_cols=24  Identities=38%  Similarity=0.589  Sum_probs=21.4

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+++|+|+.|+|||||++.+..-.
T Consensus       176 ~~i~ivG~sGsGKSTll~~l~~~~  199 (361)
T 2gza_A          176 RVIVVAGETGSGKTTLMKALMQEI  199 (361)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcC
Confidence            589999999999999999998653

>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=91.52  E-value=0.1  Score=44.02  Aligned_cols=24  Identities=29%  Similarity=0.408  Sum_probs=21.0

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ..-|+|+|.+|+|||||...+...
T Consensus        20 ~~ki~v~G~~~~GKSsli~~l~~~   43 (189)
T 1z06_A           20 IFKIIVIGDSNVGKTCLTYRFCAG   43 (189)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHcC
Confidence            357899999999999999998754

>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=91.48  E-value=0.19  Score=48.31  Aligned_cols=22  Identities=18%  Similarity=0.433  Sum_probs=20.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhh
Q 047559          212 AVIPIVGMAGVGKTTLAREVYN  233 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~  233 (444)
                      .+++|+|+.|+|||||.+.+..
T Consensus        70 ~~valvG~nGaGKSTLln~L~G   91 (413)
T 1tq4_A           70 LNVAVTGETGSGKSSFINTLRG   91 (413)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHT
T ss_pred             eEEEEECCCCCcHHHHHHHHhC
Confidence            6999999999999999999986

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=91.47  E-value=0.099  Score=44.57  Aligned_cols=23  Identities=30%  Similarity=0.371  Sum_probs=19.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      --|.|+|.+|+|||||...+.+.
T Consensus        21 ~ki~~~G~~~~GKssl~~~l~~~   43 (201)
T 2q3h_A           21 VKCVLVGDGAVGKTSLVVSYTTN   43 (201)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHC-
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            56889999999999999998765

>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=91.46  E-value=0.1  Score=49.81  Aligned_cols=22  Identities=27%  Similarity=0.483  Sum_probs=20.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhh
Q 047559          212 AVIPIVGMAGVGKTTLAREVYN  233 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~  233 (444)
                      .+++|+|+.|+|||||.+.+..
T Consensus        48 e~~~llGpsGsGKSTLLr~iaG   69 (390)
T 3gd7_A           48 QRVGLLGRTGSGKSTLLSAFLR   69 (390)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCChHHHHHHHHhC
Confidence            5899999999999999999875

>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=91.44  E-value=0.11  Score=44.58  Aligned_cols=25  Identities=32%  Similarity=0.515  Sum_probs=21.4

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..-|+|+|.+|+|||||...+....
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            4578999999999999999997653

>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=91.42  E-value=0.1  Score=44.47  Aligned_cols=24  Identities=25%  Similarity=0.369  Sum_probs=21.2

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ..-|+|+|.+|+|||||...+...
T Consensus        28 ~~ki~v~G~~~~GKSsli~~l~~~   51 (199)
T 2p5s_A           28 AYKIVLAGDAAVGKSSFLMRLCKN   51 (199)
T ss_dssp             CEEEEEESSTTSSHHHHHHHHHHC
T ss_pred             CeEEEEECcCCCCHHHHHHHHHhC
Confidence            367899999999999999999765

>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=91.41  E-value=0.11  Score=43.97  Aligned_cols=24  Identities=38%  Similarity=0.560  Sum_probs=21.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      --|+|+|.+|+|||||...+.+..
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            468999999999999999997653

>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=91.41  E-value=0.11  Score=44.17  Aligned_cols=23  Identities=26%  Similarity=0.460  Sum_probs=20.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      --|+|+|.+|+|||||...+...
T Consensus         9 ~ki~vvG~~~~GKSsli~~l~~~   31 (199)
T 2gf0_A            9 YRVVVFGAGGVGKSSLVLRFVKG   31 (199)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCcHHHHHHHHHcC
Confidence            56899999999999999999764

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=91.40  E-value=0.091  Score=52.68  Aligned_cols=24  Identities=33%  Similarity=0.513  Sum_probs=22.1

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .++.|+|+.|+|||||++.+....
T Consensus       370 ~iI~LiG~sGSGKSTLar~La~~L  393 (552)
T 3cr8_A          370 FTVFFTGLSGAGKSTLARALAARL  393 (552)
T ss_dssp             EEEEEEESSCHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCChHHHHHHHHHHhh
Confidence            789999999999999999998764

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=91.40  E-value=0.14  Score=42.61  Aligned_cols=23  Identities=26%  Similarity=0.413  Sum_probs=20.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .-+.|.|.+|+||||||..+...
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            57899999999999999988764

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=91.35  E-value=0.094  Score=44.47  Aligned_cols=24  Identities=38%  Similarity=0.588  Sum_probs=19.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      --|+|+|..|+|||||...+.+..
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            468899999999999999997653

>3ch4_B Pmkase, phosphomevalonate kinase; parallel beta-sheet with the strand order 23145, walker A motif, cholesterol biosynthesis, lipid synthesis; 1.76A {Homo sapiens}

Probab=91.35  E-value=0.16  Score=43.54  Aligned_cols=25  Identities=16%  Similarity=0.178  Sum_probs=21.7

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhc
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      +..+|+|+|++|+||+|+|..+.+.
T Consensus        10 ~~~II~itGk~~SGKd~va~~l~~~   34 (202)
T 3ch4_B           10 PRLVLLFSGKRKSGKDFVTEALQSR   34 (202)
T ss_dssp             CSEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCChHHHHHHHHHH
Confidence            4479999999999999999888653

>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=91.31  E-value=0.14  Score=50.77  Aligned_cols=27  Identities=11%  Similarity=-0.012  Sum_probs=23.6

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhccc
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDRA  236 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  236 (444)
                      ...+|.+.|+.|+||||+|+.+.....
T Consensus       394 ~~~~I~l~GlsGsGKSTIa~~La~~L~  420 (511)
T 1g8f_A          394 QGFSIVLGNSLTVSREQLSIALLSTFL  420 (511)
T ss_dssp             CCEEEEECTTCCSCHHHHHHHHHHHHT
T ss_pred             cceEEEecccCCCCHHHHHHHHHHHHH
Confidence            347899999999999999999998753

>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=91.30  E-value=0.14  Score=46.37  Aligned_cols=23  Identities=30%  Similarity=0.430  Sum_probs=20.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ..|+|+|.+|+|||||...+...
T Consensus         4 ~~i~lvG~~g~GKTTL~n~l~g~   26 (271)
T 3k53_A            4 KTVALVGNPNVGKTTIFNALTGL   26 (271)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHhCC
Confidence            57899999999999999999765

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=91.30  E-value=0.11  Score=48.83  Aligned_cols=24  Identities=38%  Similarity=0.444  Sum_probs=22.1

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+++|+|..|+|||||.+.+.+..
T Consensus        72 q~~gIiG~nGaGKTTLl~~I~g~~   95 (347)
T 2obl_A           72 QRIGIFAGSGVGKSTLLGMICNGA   95 (347)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            689999999999999999999874

>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=91.30  E-value=0.11  Score=45.03  Aligned_cols=23  Identities=30%  Similarity=0.433  Sum_probs=20.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      --|+|+|.+|+|||||...+.+.
T Consensus        35 ~ki~vvG~~~vGKSsli~~l~~~   57 (214)
T 2j1l_A           35 VKVVLVGDGGCGKTSLLMVFADG   57 (214)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHC-
T ss_pred             EEEEEECcCCCCHHHHHHHHHcC
Confidence            56889999999999999998764

>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC, coiled coil, GTP- binding, nucleotide-binding, immune system; HET: GDP; 2.15A {Homo sapiens}

Probab=91.29  E-value=0.13  Score=45.34  Aligned_cols=26  Identities=23%  Similarity=0.443  Sum_probs=22.4

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhcc
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ....|+|+|.+|+|||||...+....
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            34678999999999999999998654

>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=91.29  E-value=0.13  Score=48.31  Aligned_cols=25  Identities=24%  Similarity=0.288  Sum_probs=21.6

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhc
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      +..+++|+|.+|+|||||+..+...
T Consensus        55 ~~~~i~i~G~~g~GKSTl~~~l~~~   79 (341)
T 2p67_A           55 NTLRLGVTGTPGAGKSTFLEAFGML   79 (341)
T ss_dssp             CSEEEEEEECTTSCHHHHHHHHHHH
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHH
Confidence            4479999999999999999998643

>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=91.29  E-value=0.11  Score=45.18  Aligned_cols=23  Identities=35%  Similarity=0.486  Sum_probs=20.2

Q ss_pred             ceEEEEEecCCChHHHHHHHHhh
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYN  233 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~  233 (444)
                      ..-|+|+|.+|+|||||...+..
T Consensus        37 ~~kVvlvG~~~vGKSSLl~r~~~   59 (211)
T 2g3y_A           37 YYRVVLIGEQGVGKSTLANIFAG   59 (211)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHh
Confidence            35689999999999999999874

>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=91.22  E-value=0.12  Score=44.30  Aligned_cols=24  Identities=33%  Similarity=0.434  Sum_probs=21.1

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .--|+|+|.+|+|||||...+.+.
T Consensus        29 ~~ki~vvG~~~vGKSsli~~l~~~   52 (201)
T 2hup_A           29 LFKLVLVGDASVGKTCVVQRFKTG   52 (201)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHhhC
Confidence            457899999999999999998765

>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=91.20  E-value=0.12  Score=50.85  Aligned_cols=24  Identities=25%  Similarity=0.447  Sum_probs=21.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+|.++|++|+||||+++.+....
T Consensus        40 ~~IvlvGlpGsGKSTia~~La~~l   63 (469)
T 1bif_A           40 TLIVMVGLPARGKTYISKKLTRYL   63 (469)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHH
Confidence            689999999999999999998654

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=91.20  E-value=0.12  Score=44.48  Aligned_cols=23  Identities=30%  Similarity=0.349  Sum_probs=20.7

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .-|+|+|.+|+|||||...+...
T Consensus        26 ~ki~vvG~~~~GKSsli~~l~~~   48 (207)
T 2fv8_A           26 KKLVVVGDGACGKTCLLIVFSKD   48 (207)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             cEEEEECcCCCCHHHHHHHHhcC
Confidence            46899999999999999998865

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8

Probab=91.20  E-value=0.12  Score=43.78  Aligned_cols=23  Identities=39%  Similarity=0.393  Sum_probs=20.7

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .-|+|+|.+|+|||||...+.+.
T Consensus        19 ~ki~v~G~~~~GKssli~~l~~~   41 (194)
T 2atx_A           19 LKCVVVGDGAVGKTCLLMSYAND   41 (194)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            57899999999999999999865

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=91.11  E-value=0.72  Score=51.46  Aligned_cols=23  Identities=26%  Similarity=0.410  Sum_probs=20.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ..|+|||..|.|||||++.+..-
T Consensus      1106 e~vaIVG~SGsGKSTL~~lL~rl 1128 (1321)
T 4f4c_A         1106 QTLALVGPSGCGKSTVVALLERF 1128 (1321)
T ss_dssp             CEEEEECSTTSSTTSHHHHHTTS
T ss_pred             CEEEEECCCCChHHHHHHHHhcC
Confidence            58999999999999999999754

>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=91.07  E-value=0.094  Score=44.29  Aligned_cols=24  Identities=21%  Similarity=0.362  Sum_probs=21.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      --|+|+|.+|+|||||...+....
T Consensus        22 ~ki~v~G~~~~GKSsli~~l~~~~   45 (190)
T 2h57_A           22 VHVLCLGLDNSGKTTIINKLKPSN   45 (190)
T ss_dssp             EEEEEEECTTSSHHHHHHHTSCGG
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCC
Confidence            568999999999999999988664

>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=91.06  E-value=0.12  Score=48.74  Aligned_cols=24  Identities=25%  Similarity=0.439  Sum_probs=21.4

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+++|+|++|+|||||.+.+....
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            489999999999999999998653

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=91.05  E-value=0.12  Score=44.43  Aligned_cols=24  Identities=25%  Similarity=0.217  Sum_probs=20.9

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .--|+|+|.+|+|||||...+.+.
T Consensus         9 ~~ki~i~G~~~~GKTsli~~l~~~   32 (212)
T 2j0v_A            9 FIKCVTVGDGAVGKTCMLICYTSN   32 (212)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            356899999999999999998765

>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=91.00  E-value=0.09  Score=49.14  Aligned_cols=106  Identities=8%  Similarity=0.042  Sum_probs=55.3

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGK  291 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~k  291 (444)
                      .+++|+|+.|+|||||++.+..-...    -...+.+.-......... .   +.+..-..   .-......+...|..+
T Consensus       172 ~~v~i~G~~GsGKTTll~~l~g~~~~----~~g~i~i~~~~e~~~~~~-~---~~i~~~~g---gg~~~r~~la~aL~~~  240 (330)
T 2pt7_A          172 KNVIVCGGTGSGKTTYIKSIMEFIPK----EERIISIEDTEEIVFKHH-K---NYTQLFFG---GNITSADCLKSCLRMR  240 (330)
T ss_dssp             CCEEEEESTTSCHHHHHHHGGGGSCT----TSCEEEEESSCCCCCSSC-S---SEEEEECB---TTBCHHHHHHHHTTSC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCcC----CCcEEEECCeeccccccc-h---hEEEEEeC---CChhHHHHHHHHhhhC
Confidence            48999999999999999999865321    234444432221110000 0   00000000   1112334566677777


Q ss_pred             eEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCChHH
Q 047559          292 KLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAHV  333 (444)
Q Consensus       292 r~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~~v  333 (444)
                      +=+|+||++.+.  ..++.+. .+..+  +.-+|+||.....
T Consensus       241 p~ilildE~~~~--e~~~~l~-~~~~g--~~tvi~t~H~~~~  277 (330)
T 2pt7_A          241 PDRIILGELRSS--EAYDFYN-VLCSG--HKGTLTTLHAGSS  277 (330)
T ss_dssp             CSEEEECCCCST--HHHHHHH-HHHTT--CCCEEEEEECSSH
T ss_pred             CCEEEEcCCChH--HHHHHHH-HHhcC--CCEEEEEEcccHH
Confidence            888999999653  3444443 33221  2236666665443

>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=90.99  E-value=0.13  Score=44.01  Aligned_cols=23  Identities=35%  Similarity=0.362  Sum_probs=20.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .-|+|+|.+|+|||||...+...
T Consensus        26 ~ki~vvG~~~~GKSsli~~l~~~   48 (201)
T 2gco_A           26 KKLVIVGDGACGKTCLLIVFSKD   48 (201)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            46899999999999999998865

>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=90.94  E-value=0.15  Score=41.45  Aligned_cols=22  Identities=27%  Similarity=0.496  Sum_probs=19.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhh
Q 047559          212 AVIPIVGMAGVGKTTLAREVYN  233 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~  233 (444)
                      .+.+|+|+.|.|||||...++-
T Consensus        24 g~~~I~G~NGsGKStil~Ai~~   45 (149)
T 1f2t_A           24 GINLIIGQNGSGKSSLLDAILV   45 (149)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            5889999999999999988764

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=90.89  E-value=0.14  Score=46.04  Aligned_cols=24  Identities=25%  Similarity=0.470  Sum_probs=20.3

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ++|+|.|-||+||||+|..+....
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            578889999999999998877654

>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=90.89  E-value=0.13  Score=44.29  Aligned_cols=24  Identities=33%  Similarity=0.547  Sum_probs=21.0

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ..-|+|+|.+|+|||||...+...
T Consensus        20 ~~~i~v~G~~~~GKSsli~~l~~~   43 (213)
T 3cph_A           20 IMKILLIGDSGVGKSCLLVRFVED   43 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            357899999999999999998855

>1jwy_B Dynamin A GTPase domain; dynamin, GTPase, GDP, myosin, fusion-protein, hydrolase; HET: BGC ADP GDP; 2.30A {Dictyostelium discoideum} SCOP: c.37.1.8 PDB: 1jx2_B*

Probab=90.86  E-value=0.27  Score=45.36  Aligned_cols=27  Identities=22%  Similarity=0.402  Sum_probs=23.4

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .....|+|+|.+|+|||||...+....
T Consensus        22 ~~~~~I~vvG~~~~GKSTlln~l~g~~   48 (315)
T 1jwy_B           22 LDLPQIVVVGSQSSGKSSVLENIVGRD   48 (315)
T ss_dssp             TCCCEEEEEECSSSSHHHHHHHHHTSC
T ss_pred             CCCCeEEEEcCCCCCHHHHHHHHHCCC
Confidence            456789999999999999999997653

>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=90.85  E-value=0.13  Score=44.61  Aligned_cols=23  Identities=26%  Similarity=0.406  Sum_probs=20.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      --|+|+|.+|+|||||...+.+.
T Consensus        28 ~ki~vvG~~~vGKSsL~~~l~~~   50 (214)
T 3q3j_B           28 CKLVLVGDVQCGKTAMLQVLAKD   50 (214)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECcCCCCHHHHHHHHhcC
Confidence            56889999999999999998765

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=90.82  E-value=0.29  Score=44.14  Aligned_cols=25  Identities=28%  Similarity=0.549  Sum_probs=21.9

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ...|+++|.+|+|||||...+....
T Consensus        39 ~~~I~vvG~~g~GKSSLin~l~~~~   63 (270)
T 1h65_A           39 SLTILVMGKGGVGKSSTVNSIIGER   63 (270)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             CeEEEEECCCCCCHHHHHHHHhCCC
Confidence            4678999999999999999998654

>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=90.81  E-value=0.26  Score=49.67  Aligned_cols=27  Identities=22%  Similarity=0.244  Sum_probs=23.2

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ....+|.|.|++|+||||+|+.+....
T Consensus       394 q~~~~I~l~GlsGSGKSTiA~~La~~L  420 (573)
T 1m8p_A          394 TQGFTIFLTGYMNSGKDAIARALQVTL  420 (573)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             ccceEEEeecCCCCCHHHHHHHHHHHh
Confidence            344789999999999999999998764

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=90.76  E-value=0.11  Score=45.06  Aligned_cols=25  Identities=24%  Similarity=0.369  Sum_probs=22.0

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ...|+|+|..|+|||||...+....
T Consensus        29 ~~~i~v~G~~~~GKSslin~l~~~~   53 (223)
T 4dhe_A           29 QPEIAFAGRSNAGKSTAINVLCNQK   53 (223)
T ss_dssp             SCEEEEEESCHHHHHHHHHHHTTCS
T ss_pred             CCEEEEEcCCCCCHHHHHHHHhCCC
Confidence            3678999999999999999998764

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=90.72  E-value=0.3  Score=43.82  Aligned_cols=39  Identities=15%  Similarity=0.332  Sum_probs=27.6

Q ss_pred             HHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          193 KAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       193 ~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      +.++.+.+....    .....|+|+|..|+|||||...+....
T Consensus        22 l~~~~~~~~~~~----~~~~~I~lvG~~g~GKSSLin~l~~~~   60 (262)
T 3def_A           22 LIEFFGKLKQKD----MNSMTVLVLGKGGVGKSSTVNSLIGEQ   60 (262)
T ss_dssp             HHHHHHHHHHTT----CCEEEEEEEECTTSSHHHHHHHHHTSC
T ss_pred             HHHHHHHHhhcc----CCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            334444444332    234678999999999999999998654

---

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	444
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	2e-60
d1uj2a_	213	c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Ho	0.004
d1h65a_	257	c.37.1.8 (A:) Chloroplast protein translocon GTPas	0.004

>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 =  196 bits (499), Expect = 2e-60
 Identities = 44/290 (15%), Positives = 93/290 (32%), Gaps = 28/290 (9%)

Query: 167 STTTAQRRTPTSSVSTERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTT 226
           S     R+    +V  +   + R+    ++++ +      D      + + G AG GK+ 
Sbjct: 3   SRQMLDRKLLLGNVPKQMTCYIREYHVDRVIKKLDEMCDLD---SFFLFLHGRAGSGKSV 59

Query: 227 LAREVYND-RAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCD----------LK 275
           +A +  +    +    +D   W+  S               +   S D          + 
Sbjct: 60  IASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVT 119

Query: 276 ALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAHVA- 334
           ++   ++     +D    L V DDV  E+   W              + +VTTR   ++ 
Sbjct: 120 SVVLKRMICNALIDRPNTLFVFDDVVQEETIRWAQELR--------LRCLVTTRDVEISN 171

Query: 335 ATMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTL 394
           A  +  +   +  L  ++C+     +         ++       K +    G P      
Sbjct: 172 AASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEED---VLNKTIELSSGNPATLMMF 228

Query: 395 GGLLRSKRHDEWDEILNSNILDLPQQNGILSVLRLSYHYLPSQLKRCFAY 444
                 K  ++  ++ N   L+     G+  +   SY  L   L+RC   
Sbjct: 229 FKSCEPKTFEKMAQLNNK--LESRGLVGVECITPYSYKSLAMALQRCVEV 276

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]} Length = 213

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]

 Score = 36.5 bits (83), Expect = 0.004
 Identities = 15/151 (9%), Positives = 42/151 (27%), Gaps = 1/151 (0%)

Query: 213 VIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASC 272
           +I + G    GK+++  ++       +  +  K  V +S D     ++            
Sbjct: 4   LIGVSGGTASGKSSVCAKIVQLLGQNEVDYRQKQVVILSQDSFYRVLTSEQKAKALKGQF 63

Query: 273 DLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAH 332
           +    +    ++      +               +    K   +   P   ++     A 
Sbjct: 64  NFDHPDAFDNELILKTLKEITEGK-TVQIPVYDFVSHSRKEETVTVYPADVVLFEGILAF 122

Query: 333 VAATMEPIQQYNLQCLSDEDCWSLFMMHAFV 363
            +  +  + Q  L   +D D      +   +
Sbjct: 123 YSQEVRDLFQMKLFVDTDADTRLSRRVLRDI 153

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]} Length = 257

class: 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]

 Score = 36.7 bits (84), Expect = 0.004
 Identities = 29/164 (17%), Positives = 61/164 (37%), Gaps = 7/164 (4%)

Query: 190 QQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVC 249
              + K+LE++      D ++L  I ++G  GVGK++    +  +R V  S F  +    
Sbjct: 12  PATQTKLLELLGNLKQEDVNSL-TILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRP 70

Query: 250 VSDDFDVLNISRALLESITFAS---CDLKALNEVQVQIK-RAVDGKKLLLVLDDVW--NE 303
           V         +  ++++         +  ALN ++  +  + +D    +  LD     N 
Sbjct: 71  VMVSRSRAGFTLNIIDTPGLIEGGYINDMALNIIKSFLLDKTIDVLLYVDRLDAYRVDNL 130

Query: 304 DYCLWEDLKAPFLAAAPNSKIIVTTRHAHVAATMEPIQQYNLQC 347
           D  + + +   F     N  I+  T          P  ++  + 
Sbjct: 131 DKLVAKAITDSFGKGIWNKAIVALTHAQFSPPDGLPYDEFFSKR 174

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	444
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	100.0
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	99.34
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	99.08
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	99.0
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	98.96
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	98.91
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	98.9
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	98.87
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	98.84
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.74
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	98.68
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.67
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	98.66
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	98.64
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	98.61
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	98.54
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	98.48
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	98.29
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	98.19
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.14
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	98.13
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	98.0
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	97.9
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	97.84
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.63
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.29
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	97.2
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	97.16
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.06
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	97.04
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.03
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	97.01
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	96.98
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	96.98
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	96.98
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	96.98
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	96.97
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	96.95
d2awna2	232	Maltose transport protein MalK, N-terminal domain	96.93
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	96.9
d1g2912	240	Maltose transport protein MalK, N-terminal domain	96.89
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	96.89
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	96.86
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	96.84
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	96.82
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	96.8
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	96.79
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	96.79
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	96.78
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	96.72
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	96.72
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	96.7
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	96.67
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	96.67
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	96.67
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	96.63
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	96.6
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	96.58
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.57
d2qy9a2	211	GTPase domain of the signal recognition particle r	96.57
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.56
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.55
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	96.55
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	96.53
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	96.52
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	96.5
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	96.48
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	96.47
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.46
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	96.45
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.44
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	96.44
d1xpua3	289	Transcription termination factor Rho, ATPase domai	96.4
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	96.38
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	96.38
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.37
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	96.33
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	96.33
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	96.3
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	96.25
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.25
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.2
d1j8yf2	211	GTPase domain of the signal sequence recognition p	96.18
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	96.17
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	96.15
d1ls1a2	207	GTPase domain of the signal sequence recognition p	96.14
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.13
d1okkd2	207	GTPase domain of the signal recognition particle r	96.12
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	96.1
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	96.08
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.05
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	96.0
d1vmaa2	213	GTPase domain of the signal recognition particle r	95.95
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	95.94
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	95.89
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	95.87
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	95.82
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	95.7
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	95.7
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	95.67
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	95.65
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	95.62
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	95.59
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	95.53
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	95.48
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	95.46
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	95.41
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	95.36
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	95.36
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	95.35
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	95.35
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	95.23
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	95.21
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	95.16
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	95.13
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	95.08
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	95.04
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	94.96
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	94.82
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	94.81
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	94.79
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	94.73
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	94.54
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	94.53
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	94.52
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	94.47
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	94.4
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.36
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	94.35
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	94.3
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	94.24
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	94.09
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	94.07
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	93.97
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	93.97
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	93.96
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	93.95
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	93.93
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	93.91
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	93.9
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	93.82
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	93.8
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	93.69
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	93.64
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	93.62
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	93.59
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	93.58
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	93.57
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	93.53
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	93.52
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	93.5
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	93.5
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	93.45
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	93.43
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	93.43
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	93.43
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	93.42
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	93.42
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	93.42
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	93.36
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	93.35
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	93.34
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	93.33
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	93.31
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	93.28
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	93.28
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	93.28
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	93.26
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	93.25
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	93.24
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	93.2
d2fh5b1	207	Signal recognition particle receptor beta-subunit	93.19
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	93.19
d1nrjb_	209	Signal recognition particle receptor beta-subunit	93.15
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	93.12
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	93.1
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	93.09
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	93.09
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	93.04
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	92.99
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	92.96
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	92.95
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	92.92
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	92.87
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	92.69
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	92.67
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	92.64
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	92.62
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	92.62
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	92.47
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	92.4
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	92.38
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	92.36
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	92.33
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	92.32
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	92.3
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	92.22
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	92.22
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	92.21
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	92.21
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	92.2
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	92.18
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	92.16
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	92.15
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	91.94
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	91.82
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	91.81
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	91.71
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	91.68
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	91.6
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	91.47
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	91.38
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	91.32
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	91.19
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	90.89
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	90.74
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	90.45
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	90.4
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	90.32
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	89.94
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	89.43
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	89.37
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	89.12
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	88.97
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	88.91
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	88.81
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	88.65
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	88.21
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	88.16
d1tuea_	205	Replication protein E1 helicase domain {Human papi	88.14
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	87.96
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	87.79
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	87.53
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	87.32
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	86.76
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	86.61
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	86.34
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	85.74
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	85.46
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	85.25
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	83.54
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	83.23
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	82.17
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	81.16

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=100.00  E-value=1.8e-44  Score=333.63  Aligned_cols=246  Identities=14%  Similarity=0.168  Sum_probs=193.9

Q ss_pred             cCCcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccc--cccCCcceeEEEEeCCCCCHHHH
Q 047559          182 TERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRA--VEDSKFDVKAWVCVSDDFDVLNI  259 (444)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~--~~~~~f~~~~wv~vs~~~~~~~~  259 (444)
                      .++.++||+.++++|+++|.....   .+.++|+|+||||+||||||+++|++..  ... +|++++|+++++.++...+
T Consensus        18 ~~~~~~gR~~~~~~i~~~L~~~~~---~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~-~f~~~~Wv~vs~~~~~~~l   93 (277)
T d2a5yb3          18 KQMTCYIREYHVDRVIKKLDEMCD---LDSFFLFLHGRAGSGKSVIASQALSKSDQLIGI-NYDSIVWLKDSGTAPKSTF   93 (277)
T ss_dssp             CCCCSCCCHHHHHHHHHHHHHHTT---SSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTT-TBSEEEEEECCCCSTTHHH
T ss_pred             CCCceeCcHHHHHHHHHHHHhccC---CCceEEEEECCCCCCHHHHHHHHHHhhhhhhhh-cCceEEEEEecCCCCHHHH
Confidence            455688999999999999976433   4568999999999999999999998754  455 8999999999999888777


Q ss_pred             HHHHHHHhc---cCCC-------CcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecC
Q 047559          260 SRALLESIT---FASC-------DLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTR  329 (444)
Q Consensus       260 ~~~il~~l~---~~~~-------~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr  329 (444)
                      ...+...+.   ....       ...........+.+.+.++|+||||||+|+.  ..|..+.      ..||+||||||
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlVLDDv~~~--~~~~~~~------~~~srilvTTR  165 (277)
T d2a5yb3          94 DLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQE--ETIRWAQ------ELRLRCLVTTR  165 (277)
T ss_dssp             HHHHHHHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCH--HHHHHHH------HTTCEEEEEES
T ss_pred             HHHHHHHHHHhcchhhcCCccchhhhhHHHHHHHHHHHhccCCeeEecchhhHH--hhhhhhc------ccCceEEEEee
Confidence            666654432   2111       1122333445677888999999999999986  4454332      24899999999


Q ss_pred             ChHHHhhcCCC-CcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHHHHhcCCCHHHHHH
Q 047559          330 HAHVAATMEPI-QQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLGGLLRSKRHDEWDE  408 (444)
Q Consensus       330 ~~~va~~~~~~-~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~~~L~~~~~~~w~~  408 (444)
                      +..++..+... +.|++++|+.++||+||..++|...   ..+..++++++|+++|+|+|||++++|+.|+.++.+.|.+
T Consensus       166 ~~~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~---~~~~~~~~~~~iv~~c~GlPLAl~~ig~~l~~k~~~~~~~  242 (277)
T d2a5yb3         166 DVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMP---VGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQ  242 (277)
T ss_dssp             BGGGGGGCCSCEEEEECCCCCHHHHHHHHHHTSCCCC-----CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSSHHHHHH
T ss_pred             hHHHHHhcCCCCceEECCCCCHHHHHHHHHHHhCCcc---CchhhHHHHHHHHHHhCCCHHHHHHHHHHhccCCHHHHHH
Confidence            99999876554 6799999999999999999887543   2345678889999999999999999999999889999988


Q ss_pred             HHhcccCCCCCccChHHHHHHhhcCCchhhhcccCC
Q 047559          409 ILNSNILDLPQQNGILSVLRLSYHYLPSQLKRCFAY  444 (444)
Q Consensus       409 ~l~~~~~~~~~~~~i~~~l~~sy~~Lp~~lk~cflY  444 (444)
                      ..+....  ....++..+|.+||++||+++|+||-|
T Consensus       243 ~~~~L~~--~~~~~v~~il~~sY~~L~~~lk~c~~~  276 (277)
T d2a5yb3         243 LNNKLES--RGLVGVECITPYSYKSLAMALQRCVEV  276 (277)
T ss_dssp             HHHHHHH--HCSSTTCCCSSSSSSSHHHHHHHHHHT
T ss_pred             HHHHHhc--CcHHHHHHHHHHHHhcccHHHHHHHHh
Confidence            7665321  123678899999999999999999965

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=99.34  E-value=3.2e-12  Score=116.11  Aligned_cols=195  Identities=14%  Similarity=0.168  Sum_probs=112.2

Q ss_pred             cCCcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCC-----CCCH
Q 047559          182 TERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSD-----DFDV  256 (444)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~-----~~~~  256 (444)
                      ....|+||++++++|.+..          .+++.|+|++|+|||+|++++.++..  .    ...|+.+..     ....
T Consensus        10 ~~~~f~GR~~el~~l~~~~----------~~~i~i~G~~G~GKTsLl~~~~~~~~--~----~~~~i~~~~~~~~~~~~~   73 (283)
T d2fnaa2          10 NRKDFFDREKEIEKLKGLR----------APITLVLGLRRTGKSSIIKIGINELN--L----PYIYLDLRKFEERNYISY   73 (283)
T ss_dssp             SGGGSCCCHHHHHHHHHTC----------SSEEEEEESTTSSHHHHHHHHHHHHT--C----CEEEEEGGGGTTCSCCCH
T ss_pred             ChhhCCChHHHHHHHHhcc----------CCEEEEEcCCCCcHHHHHHHHHHHCC--C----CeEEEEeccccccccccH
Confidence            3568999999999987631          15889999999999999999987632  1    224444322     2223


Q ss_pred             HHHHHHHHHHhccC-----------------------------CCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCCh--
Q 047559          257 LNISRALLESITFA-----------------------------SCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDY--  305 (444)
Q Consensus       257 ~~~~~~il~~l~~~-----------------------------~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~--  305 (444)
                      ..+...+.......                             ........++...+. ...++++++|+|++.....  
T Consensus        74 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~-~~~~~~~~i~id~~~~~~~~~  152 (283)
T d2fnaa2          74 KDFLLELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFE-QASKDNVIIVLDEAQELVKLR  152 (283)
T ss_dssp             HHHHHHHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHH-HTCSSCEEEEEETGGGGGGCT
T ss_pred             HHHHHHHHHHhhhhhhhhHHHHHHHHhhhcccccccccccccchhhhhHHHHHHHHHH-hhcccccccccchhhhhcccc
Confidence            44444433322100                             000112223333222 2357889999999844211  


Q ss_pred             --hcHHHhhcccCCCCCCcEEEEecCChHHHh-hcC-----------CCCcccCCCCChHhHHHHHHHhhccCCCCCccc
Q 047559          306 --CLWEDLKAPFLAAAPNSKIIVTTRHAHVAA-TME-----------PIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQ  371 (444)
Q Consensus       306 --~~~~~l~~~l~~~~~gs~iivTTr~~~va~-~~~-----------~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~  371 (444)
                        ..+..+.... ........+++++...... ...           ....+.|.+++.+++.+++.+..-... . ..+
T Consensus       153 ~~~~~~~l~~~~-~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~~l~~~e~~~~l~~~~~~~~-~-~~~  229 (283)
T d2fnaa2         153 GVNLLPALAYAY-DNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEAD-I-DFK  229 (283)
T ss_dssp             TCCCHHHHHHHH-HHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHT-C-CCC
T ss_pred             hHHHHHHHHHHH-HhhhhhhhhhccccchHHHHHHHhhhhcchhcccceeEEeeCCCCHHHHHHHHHhhhhhcC-C-CHH
Confidence              1122222222 2233445555555443322 111           124578999999999999877542211 1 112


Q ss_pred             hHHHHHHHHHHHcCCChHHHHHHHHHhcC
Q 047559          372 ISDLFREKVVGKCGGLPLAAKTLGGLLRS  400 (444)
Q Consensus       372 ~~~~~~~~i~~~~~G~Plai~~~~~~L~~  400 (444)
                      .    ..+|++.++|+|..+..++..+..
T Consensus       230 ~----~~~i~~~~~G~P~~L~~~~~~~~~  254 (283)
T d2fnaa2         230 D----YEVVYEKIGGIPGWLTYFGFIYLD  254 (283)
T ss_dssp             C----HHHHHHHHCSCHHHHHHHHHHHHH
T ss_pred             H----HHHHHHHhCCCHHHHHHHHHHHHh
Confidence            2    256999999999999999876644

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=99.08  E-value=4.2e-09  Score=94.60  Aligned_cols=177  Identities=11%  Similarity=0.079  Sum_probs=112.0

Q ss_pred             CCcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHH
Q 047559          183 ERAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRA  262 (444)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~  262 (444)
                      +..++||+.+++++.++|...-.+.......+.|+|++|+|||++|+.+++...-.  .....+|+...........+..
T Consensus        15 p~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l~~~--~~~~~~~~~~~~~~~~~~~~~~   92 (276)
T d1fnna2          15 PKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDK--TTARFVYINGFIYRNFTAIIGE   92 (276)
T ss_dssp             CSCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTS--CCCEEEEEETTTCCSHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHHhcc--cCCcEEEecchhhhhhhhhhhh
Confidence            34589999999999998864210111445789999999999999999999875322  1223467777777888888888


Q ss_pred             HHHHhccCCC-CcccHHHHHHHHHHHh--CCceEEEEEeCCCCCChhcHHHhhccc---CC-CCCCcEEEEecCChHHHh
Q 047559          263 LLESITFASC-DLKALNEVQVQIKRAV--DGKKLLLVLDDVWNEDYCLWEDLKAPF---LA-AAPNSKIIVTTRHAHVAA  335 (444)
Q Consensus       263 il~~l~~~~~-~~~~~~~~~~~l~~~l--~~kr~LlVlDdv~~~~~~~~~~l~~~l---~~-~~~gs~iivTTr~~~va~  335 (444)
                      +......... .......+...+.+.+  .....++++|+++.........+...+   .. ......+|.++.......
T Consensus        93 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~  172 (276)
T d1fnna2          93 IARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLN  172 (276)
T ss_dssp             HHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHHH
T ss_pred             hHHhhhhhhhhhccchhHHHHHHHHHHhhcccccccchhHHHHhhhhhhhhHHHHHhccccccccceEEeecCCchhhhh
Confidence            8887765433 2333444445555544  345677888888765443333322221   11 223344555555544332


Q ss_pred             hcC-------CCCcccCCCCChHhHHHHHHHhh
Q 047559          336 TME-------PIQQYNLQCLSDEDCWSLFMMHA  361 (444)
Q Consensus       336 ~~~-------~~~~~~l~~L~~~~~~~lf~~~~  361 (444)
                      ...       ....+.+.+.+.++.++++.+++
T Consensus       173 ~~~~~~~~r~~~~~i~~~~~~~~e~~~il~~r~  205 (276)
T d1fnna2         173 NLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRA  205 (276)
T ss_dssp             TSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHH
T ss_pred             hcchhhhhhhcchhccccchhHHHHHHHHHHHH
Confidence            211       12457899999999999998765

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.00  E-value=3.6e-09  Score=92.49  Aligned_cols=186  Identities=14%  Similarity=0.099  Sum_probs=114.6

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRAL  263 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~i  263 (444)
                      .+++|.+..++.|..++....      ...+.++|++|+||||+|+.+.+...... .-....-++.+.......+...+
T Consensus        15 ~d~ig~~~~~~~L~~~~~~~~------~~~~ll~Gp~G~GKTt~a~~la~~l~~~~-~~~~~~~~n~~~~~~~~~i~~~~   87 (224)
T d1sxjb2          15 SDIVGNKETIDRLQQIAKDGN------MPHMIISGMPGIGKTTSVHCLAHELLGRS-YADGVLELNASDDRGIDVVRNQI   87 (224)
T ss_dssp             GGCCSCTHHHHHHHHHHHSCC------CCCEEEECSTTSSHHHHHHHHHHHHHGGG-HHHHEEEECTTSCCSHHHHHTHH
T ss_pred             HHhcCCHHHHHHHHHHHHcCC------CCeEEEECCCCCCchhhHHHHHHHHhccc-cccccccccccccCCceehhhHH
Confidence            468999999999999987643      23477999999999999999887643221 11122334444443333332222


Q ss_pred             HHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCChH-HH-hhcCCCC
Q 047559          264 LESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAH-VA-ATMEPIQ  341 (444)
Q Consensus       264 l~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~~-va-~~~~~~~  341 (444)
                      .........              ...++.-++|+|+++.........+...+......+++++||.... +. ...+...
T Consensus        88 ~~~~~~~~~--------------~~~~~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~~~i~~~l~sr~~  153 (224)
T d1sxjb2          88 KHFAQKKLH--------------LPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCA  153 (224)
T ss_dssp             HHHHHBCCC--------------CCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSE
T ss_pred             HHHHHhhcc--------------CCCcceEEEEEecccccchhHHHHHhhhccccccceeeeeccCchhhhhhHHHHHHH
Confidence            221111100              0123556888999988766666666666666666777777766532 21 1223346


Q ss_pred             cccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHH
Q 047559          342 QYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTL  394 (444)
Q Consensus       342 ~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~  394 (444)
                      .+++.+++.++...++.+.+....-..++    +....|++.|+|.+--+...
T Consensus       154 ~i~~~~~~~~~i~~~l~~i~~~e~~~i~~----~~l~~I~~~s~Gd~R~ai~~  202 (224)
T d1sxjb2         154 ILRYSKLSDEDVLKRLLQIIKLEDVKYTN----DGLEAIIFTAEGDMRQAINN  202 (224)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHHHTCCBCH----HHHHHHHHHHTTCHHHHHHH
T ss_pred             HhhhcccchhhhHHHHHHHHHhcccCCCH----HHHHHHHHHcCCcHHHHHHH
Confidence            78999999999999988766432222222    23467999999987654433

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.96  E-value=2.7e-09  Score=93.43  Aligned_cols=180  Identities=14%  Similarity=0.103  Sum_probs=110.0

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRAL  263 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~i  263 (444)
                      .+++|.++.++.|..++....      ...+.++|++|+||||+|+.+++...... ......-.+.+...........+
T Consensus        14 ~divg~~~~~~~L~~~i~~~~------~~~lLl~Gp~G~GKttl~~~la~~l~~~~-~~~~~~e~~~~~~~~~~~~~~~~   86 (227)
T d1sxjc2          14 DEVYGQNEVITTVRKFVDEGK------LPHLLFYGPPGTGKTSTIVALAREIYGKN-YSNMVLELNASDDRGIDVVRNQI   86 (227)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTC------CCCEEEECSSSSSHHHHHHHHHHHHHTTS-HHHHEEEECTTSCCSHHHHHTHH
T ss_pred             HHccCcHHHHHHHHHHHHcCC------CCeEEEECCCCCChhHHHHHHHHHhhcCC-CcceeEEecccccCCeeeeecch
Confidence            459999999999999986543      23477999999999999999987642221 11112222333333222211111


Q ss_pred             HHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCChH-HH-hhcCCCC
Q 047559          264 LESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAH-VA-ATMEPIQ  341 (444)
Q Consensus       264 l~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~~-va-~~~~~~~  341 (444)
                      .......               ....++.-+||+|++..........+...+......+.++++|.... +. .......
T Consensus        87 ~~~~~~~---------------~~~~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~i~~~i~sr~~  151 (227)
T d1sxjc2          87 KDFASTR---------------QIFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCT  151 (227)
T ss_dssp             HHHHHBC---------------CSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSE
T ss_pred             hhccccc---------------cccCCCeEEEEEeccccchhhHHHHHHHHhhhcccceeeccccCcHHHhHHHHHHHHh
Confidence            1111100               01123455889999987766666667777766667788888877532 21 1223346


Q ss_pred             cccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChH
Q 047559          342 QYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPL  389 (444)
Q Consensus       342 ~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl  389 (444)
                      .+.+.+++.++...++.+.+...+-..+    .+....|++.++|..-
T Consensus       152 ~i~~~~~~~~~i~~~l~~I~~~e~i~i~----~~~l~~i~~~s~Gd~R  195 (227)
T d1sxjc2         152 RFRFQPLPQEAIERRIANVLVHEKLKLS----PNAEKALIELSNGDMR  195 (227)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHTTTCCBC----HHHHHHHHHHHTTCHH
T ss_pred             hhccccccccccccccccccccccccCC----HHHHHHHHHHcCCcHH
Confidence            7899999999999988876643322222    2334668999999753

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.91  E-value=5.3e-09  Score=92.07  Aligned_cols=191  Identities=9%  Similarity=0.049  Sum_probs=112.8

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRAL  263 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~i  263 (444)
                      .+++|.+..++.+..++....      ...+.++|++|+||||+++.+++..............++.+.......+...+
T Consensus        12 ~diig~~~~~~~l~~~i~~~~------~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (237)
T d1sxjd2          12 DEVTAQDHAVTVLKKTLKSAN------LPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKV   85 (237)
T ss_dssp             TTCCSCCTTHHHHHHHTTCTT------CCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHTTHH
T ss_pred             HHccCcHHHHHHHHHHHHcCC------CCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheeccccccchHHHHHH
Confidence            358999999999999886432      23478999999999999999987632111012223344444444443332222


Q ss_pred             HHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCChH-H-HhhcCCCC
Q 047559          264 LESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAH-V-AATMEPIQ  341 (444)
Q Consensus       264 l~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~~-v-a~~~~~~~  341 (444)
                       .............    ..+......+.-+||+|++.......+..+...+........+|+|+.... + ........
T Consensus        86 -~~~~~~~~~~~~~----~~~~~~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~l~sr~~  160 (237)
T d1sxjd2          86 -KNFARLTVSKPSK----HDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCS  160 (237)
T ss_dssp             -HHHHHSCCCCCCT----THHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHSE
T ss_pred             -HHHhhhhhhhhhH----HHHhhccccCceEEEEecccccCHHHHHHHhhccccccccccccccccccccccccccchhh
Confidence             2221111111111    112222334444799999987766666666666655566677777766432 1 11112235


Q ss_pred             cccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChH
Q 047559          342 QYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPL  389 (444)
Q Consensus       342 ~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl  389 (444)
                      .+++.+++.++..+++.+.+....-..+    .+..+.|++.++|.+-
T Consensus       161 ~i~f~~~~~~~~~~~L~~i~~~e~i~i~----~~~l~~ia~~s~gd~R  204 (237)
T d1sxjd2         161 KFRFKALDASNAIDRLRFISEQENVKCD----DGVLERILDISAGDLR  204 (237)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHTTTCCCC----HHHHHHHHHHTSSCHH
T ss_pred             hhccccccccccchhhhhhhhhhcCcCC----HHHHHHHHHHcCCCHH
Confidence            6899999999999999877643322222    2344668899988653

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=98.90  E-value=1.3e-08  Score=89.66  Aligned_cols=192  Identities=14%  Similarity=0.127  Sum_probs=111.4

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRAL  263 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~i  263 (444)
                      .+++|.+..++.+..++.....     ...+.|+|++|+||||+|+.+.+...... ...       ..+.........+
T Consensus        12 ~dlig~~~~~~~L~~~i~~~~~-----~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~-~~~-------~~~~~~~~~~~~i   78 (239)
T d1njfa_          12 ADVVGQEHVLTALANGLSLGRI-----HHAYLFSGTRGVGKTSIARLLAKGLNCET-GIT-------ATPCGVCDNCREI   78 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHTTCC-----CSEEEEECSTTSSHHHHHHHHHHHHHCTT-CSC-------SSCCSCSHHHHHH
T ss_pred             HHccChHHHHHHHHHHHHcCCC-----CeeEEEECCCCCcHHHHHHHHHHHhcCcc-ccc-------cCccccchHHHHH
Confidence            3689999999999999876432     24678999999999999998876532111 000       0000111111111


Q ss_pred             HHHhcc-----CCCCcccHHHHHHHHHHHh-----CCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCChH-
Q 047559          264 LESITF-----ASCDLKALNEVQVQIKRAV-----DGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAH-  332 (444)
Q Consensus       264 l~~l~~-----~~~~~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~~-  332 (444)
                      ...-..     ...+....+.... +.+.+     .++.-++|||+++..+......|...+......+++|++|.+.. 
T Consensus        79 ~~~~~~~~~~~~~~~~~~i~~ir~-~~~~~~~~~~~~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il~tn~~~~  157 (239)
T d1njfa_          79 EQGRFVDLIEIDAASRTKVEDTRD-LLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQK  157 (239)
T ss_dssp             HHTCCTTEEEEETTCSSSHHHHHH-HHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGG
T ss_pred             HcCCCCeEEEecchhcCCHHHHHH-HHHHHHhccccCCCEEEEEECcccCCHHHHHHHHHHHhcCCCCeEEEEEcCCccc
Confidence            111000     0001111222221 12211     24556899999988766666677777766667778888876543 


Q ss_pred             HH-hhcCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChH-HHHH
Q 047559          333 VA-ATMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPL-AAKT  393 (444)
Q Consensus       333 va-~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl-ai~~  393 (444)
                      +- ...+....+.+.+++.++....+...+-......+    +.....|++.++|.+- |+..
T Consensus       158 i~~~i~SRc~~i~~~~~~~~~i~~~l~~i~~~e~~~~~----~~~l~~i~~~s~Gd~R~ain~  216 (239)
T d1njfa_         158 LPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAHE----PRALQLLARAAEGSLRDALSL  216 (239)
T ss_dssp             SCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCCBC----HHHHHHHHHHTTTCHHHHHHH
T ss_pred             cChhHhhhhcccccccCcHHHhhhHHHHHHhhhccCCC----HHHHHHHHHHcCCCHHHHHHH
Confidence            21 12223367899999999998888776533222222    2344668999999885 4443

>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=98.87  E-value=2.5e-08  Score=88.38  Aligned_cols=156  Identities=14%  Similarity=0.178  Sum_probs=97.7

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcccc---ccCCcceeEEE-EeCCCCCHHHHH
Q 047559          185 AVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAV---EDSKFDVKAWV-CVSDDFDVLNIS  260 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~---~~~~f~~~~wv-~vs~~~~~~~~~  260 (444)
                      .++||++|+++++..|.....      .-+.+||++|+|||+|+..++.....   .....+..+|. +++.        
T Consensus        19 ~~igRd~Ei~~l~~iL~r~~k------~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~--------   84 (268)
T d1r6bx2          19 PLIGREKELERAIQVLCRRRK------NNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGS--------   84 (268)
T ss_dssp             CCCSCHHHHHHHHHHHTSSSS------CEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---------
T ss_pred             cccChHHHHHHHHHHHhcCcc------CCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeech--------
Confidence            488999999999999976543      35679999999999999888765321   11022344553 2221        


Q ss_pred             HHHHHHhccCCCCcccHHHHHHHHHHHh-CCceEEEEEeCCCCCC--------hhcHHHhhcccCCCCCCcEEEEecCCh
Q 047559          261 RALLESITFASCDLKALNEVQVQIKRAV-DGKKLLLVLDDVWNED--------YCLWEDLKAPFLAAAPNSKIIVTTRHA  331 (444)
Q Consensus       261 ~~il~~l~~~~~~~~~~~~~~~~l~~~l-~~kr~LlVlDdv~~~~--------~~~~~~l~~~l~~~~~gs~iivTTr~~  331 (444)
                           -+.+ .......++....+.+.+ +.++.++++|+++..-        ..+...+..++.. ...-++|.||..+
T Consensus        85 -----liag-~~~~g~~e~r~~~i~~~~~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~-rg~i~vIgatT~e  157 (268)
T d1r6bx2          85 -----LLAG-TKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS-SGKIRVIGSTTYQ  157 (268)
T ss_dssp             -------CC-CCCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS-SCCCEEEEEECHH
T ss_pred             -----Hhcc-CccchhHHHHHHHHHHHhhccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHh-CCCCeEEEeCCHH
Confidence                 0111 111223334333333344 5567999999987641        1122333333322 3356899999988


Q ss_pred             HHHhhcCC-------CCcccCCCCChHhHHHHHHHhh
Q 047559          332 HVAATMEP-------IQQYNLQCLSDEDCWSLFMMHA  361 (444)
Q Consensus       332 ~va~~~~~-------~~~~~l~~L~~~~~~~lf~~~~  361 (444)
                      .+......       .+.+.+++++.+++..++....
T Consensus       158 ey~~~~e~d~al~rrF~~I~V~Eps~e~t~~IL~~~~  194 (268)
T d1r6bx2         158 EFSNIFEKDRALARRFQKIDITEPSIEETVQIINGLK  194 (268)
T ss_dssp             HHHCCCCCTTSSGGGEEEEECCCCCHHHHHHHHHHHH
T ss_pred             HHHHHHhhcHHHHhhhcccccCCCCHHHHHHHHHHhh
Confidence            88765543       2568999999999999987643

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=98.84  E-value=9.8e-09  Score=90.02  Aligned_cols=181  Identities=16%  Similarity=0.100  Sum_probs=108.5

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcce-eEEEEeCCCCCHHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDV-KAWVCVSDDFDVLNISRA  262 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~-~~wv~vs~~~~~~~~~~~  262 (444)
                      .+++|.+..++.+..++....      ...+.|+|++|+||||+|+.+.+.....  .+.. .+-++.+...+...+ ..
T Consensus        24 ~diig~~~~~~~l~~~i~~~~------~~~lll~Gp~G~GKTtla~~iak~l~~~--~~~~~~~e~n~s~~~~~~~~-~~   94 (231)
T d1iqpa2          24 DDIVGQEHIVKRLKHYVKTGS------MPHLLFAGPPGVGKTTAALALARELFGE--NWRHNFLELNASDERGINVI-RE   94 (231)
T ss_dssp             TTCCSCHHHHHHHHHHHHHTC------CCEEEEESCTTSSHHHHHHHHHHHHHGG--GHHHHEEEEETTCHHHHHTT-HH
T ss_pred             HHccCcHHHHHHHHHHHHcCC------CCeEEEECCCCCcHHHHHHHHHHHHHhc--ccCCCeeEEecCcccchhHH-HH
Confidence            469999999999999987643      3468899999999999999998754221  1211 122333322111111 11


Q ss_pred             HHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCChH-HHh-hcCCC
Q 047559          263 LLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAH-VAA-TMEPI  340 (444)
Q Consensus       263 il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~~-va~-~~~~~  340 (444)
                      ........              ......++.+|++||+.......+..+...+........+|.||.... +.. .....
T Consensus        95 ~~~~~~~~--------------~~~~~~~~~iilide~d~~~~~~~~~ll~~l~~~~~~~~~i~~~n~~~~i~~~l~sR~  160 (231)
T d1iqpa2          95 KVKEFART--------------KPIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRC  160 (231)
T ss_dssp             HHHHHHHS--------------CCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTE
T ss_pred             HHHHHHhh--------------hhccCCCceEEeehhhhhcchhHHHHHhhhcccCCcceEEEeccCChhhchHhHhCcc
Confidence            11111000              001134677899999987766677777766655555566666665432 211 11223


Q ss_pred             CcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHH
Q 047559          341 QQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAA  391 (444)
Q Consensus       341 ~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai  391 (444)
                      ..+.+.+.+.++....+.+.+....-...    ....+.|++.|+|..-.+
T Consensus       161 ~~i~~~~~~~~~~~~~l~~~~~~e~i~i~----~~~l~~I~~~~~gdiR~a  207 (231)
T d1iqpa2         161 AIFRFRPLRDEDIAKRLRYIAENEGLELT----EEGLQAILYIAEGDMRRA  207 (231)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHHTTTCEEC----HHHHHHHHHHHTTCHHHH
T ss_pred             ccccccccchhhHHHHHHHHHHHhCCCCC----HHHHHHHHHHcCCCHHHH
Confidence            56899999999999888777643221111    233466889999975543

>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=98.74  E-value=3.8e-08  Score=82.33  Aligned_cols=152  Identities=15%  Similarity=0.144  Sum_probs=88.9

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccc---cccCCcceeEEEEeCCCCCHHHHHH
Q 047559          185 AVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRA---VEDSKFDVKAWVCVSDDFDVLNISR  261 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~---~~~~~f~~~~wv~vs~~~~~~~~~~  261 (444)
                      .++||++|+++++..|.....      .-+.++|.+|+|||+++..++.+..   +.....+..+|.-     +...++ 
T Consensus        23 ~~igRd~Ei~~l~~iL~r~~k------~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~l-----d~~~Li-   90 (195)
T d1jbka_          23 PVIGRDEEIRRTIQVLQRRTK------NNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLAL-----DMGALV-   90 (195)
T ss_dssp             CCCSCHHHHHHHHHHHTSSSS------CEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEE-----CHHHHH-
T ss_pred             CCcCcHHHHHHHHHHHhccCC------CCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEe-----eHHHHh-
Confidence            478999999999999976543      3578999999999999988876532   1111223444431     111111 


Q ss_pred             HHHHHhccCCCCcccHHHHHHH-HHHHh-CCceEEEEEeCCCCCCh-------hcH-HHhhcccCCCCCCcEEEEecCCh
Q 047559          262 ALLESITFASCDLKALNEVQVQ-IKRAV-DGKKLLLVLDDVWNEDY-------CLW-EDLKAPFLAAAPNSKIIVTTRHA  331 (444)
Q Consensus       262 ~il~~l~~~~~~~~~~~~~~~~-l~~~l-~~kr~LlVlDdv~~~~~-------~~~-~~l~~~l~~~~~gs~iivTTr~~  331 (444)
                            .+ .......++.... +.+.. ...+.+|++|+++..-.       .+. +.|+.++.  ...-++|.||..+
T Consensus        91 ------Ag-~~~rG~~E~rl~~il~e~~~~~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~--rg~l~~IgatT~e  161 (195)
T d1jbka_          91 ------AG-AKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALA--RGELHCVGATTLD  161 (195)
T ss_dssp             ------TT-TCSHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHH--TTSCCEEEEECHH
T ss_pred             ------cc-CCccHHHHHHHHHHHHHHhcCCCcEEEEcchHHHHhcCCCCCCcccHHHHHHHHHh--CCCceEEecCCHH
Confidence                  11 1111122222222 22322 34579999999976410       011 22333332  2346788888888


Q ss_pred             HHHhhcCC-------CCcccCCCCChHhHHHHH
Q 047559          332 HVAATMEP-------IQQYNLQCLSDEDCWSLF  357 (444)
Q Consensus       332 ~va~~~~~-------~~~~~l~~L~~~~~~~lf  357 (444)
                      .+......       ...+.++.++.+++..++
T Consensus       162 ey~~~~e~d~aL~rrF~~I~V~Ep~~e~t~~IL  194 (195)
T d1jbka_         162 EYRQYIEKDAALERRFQKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             HHHHHTTTCHHHHTTEEEEECCCCCHHHHHTTC
T ss_pred             HHHHHHHcCHHHHhcCCEeecCCCCHHHHHHHh
Confidence            77765433       356788888888876543

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.68  E-value=5.1e-08  Score=86.42  Aligned_cols=193  Identities=11%  Similarity=0.091  Sum_probs=100.7

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcccccc---CCcceeEEEEeCCC-------
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVED---SKFDVKAWVCVSDD-------  253 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~---~~f~~~~wv~vs~~-------  253 (444)
                      .+++|.++..+.|..++...     ....-+.|+|++|+||||+|+.+++......   ..++...|...+..       
T Consensus        11 ~diig~~~~~~~L~~~~~~~-----~~~~~lll~Gp~G~GKTt~~~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (252)
T d1sxje2          11 NALSHNEELTNFLKSLSDQP-----RDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVV   85 (252)
T ss_dssp             GGCCSCHHHHHHHHTTTTCT-----TCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCE
T ss_pred             HHccCcHHHHHHHHHHHHcC-----CCCCeEEEECCCCCCHHHHHHHHHHhhcCccccccccccccccccccchhhhhhc
Confidence            35899988888887766433     2223478999999999999999987531111   01222222211110       


Q ss_pred             --------------CCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccCCCC
Q 047559          254 --------------FDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAA  319 (444)
Q Consensus       254 --------------~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~  319 (444)
                                    ...................    ...  ..-.....++.-++|||+++......+..+...+....
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~--~~~~~~~~~~~~iiiide~d~l~~~~~~~l~~~~e~~~  159 (252)
T d1sxje2          86 SSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQ----VDF--QDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYS  159 (252)
T ss_dssp             ECSSEEEECCC----CCHHHHHHHHHHHTTTTC------------------CCEEEEEECTTSSCHHHHHHHHHHHHHST
T ss_pred             cCCccceeeecccccCCcceeeehhhhhhhhhh----hhh--hhcccccCCCceEEEeccccccccccchhhhccccccc
Confidence                          0001111111111110000    000  00001112344588999998876666777766666556


Q ss_pred             CCcEEEEecCChH-HH-hhcCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHH
Q 047559          320 PNSKIIVTTRHAH-VA-ATMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLA  390 (444)
Q Consensus       320 ~gs~iivTTr~~~-va-~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pla  390 (444)
                      ..+++|+||.+.. +. ...+....+++.+++.++..+++...+-... ....  .+++.+.|++.+.|.+-.
T Consensus       160 ~~~~~Il~tn~~~~i~~~l~sR~~~i~~~~~~~~~~~~~l~~i~~~e~-~~~~--~~~~l~~i~~~s~Gd~R~  229 (252)
T d1sxje2         160 KNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNER-IQLE--TKDILKRIAQASNGNLRV  229 (252)
T ss_dssp             TTEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHT-CEEC--CSHHHHHHHHHHTTCHHH
T ss_pred             ccccceeeeccccchhhhhhcchheeeecccchhhHHHHHHHHHHHcC-CCCC--cHHHHHHHHHHcCCcHHH
Confidence            6777788776542 11 1112225688999999999998876542211 1111  123446689999998754

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=98.67  E-value=6.4e-07  Score=80.29  Aligned_cols=180  Identities=11%  Similarity=0.103  Sum_probs=105.8

Q ss_pred             cCCcccccchhHHHHHHHHhc---CCCCCCCCceEEEEEecCCChHHHHHHHHhhcccc---ccCCcceeEEEEeCCCCC
Q 047559          182 TERAVFGRQQDKAKMLEMVLT---DTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAV---EDSKFDVKAWVCVSDDFD  255 (444)
Q Consensus       182 ~~~~~vGr~~~~~~l~~~L~~---~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~---~~~~f~~~~wv~vs~~~~  255 (444)
                      .++.+.||+.++++|.+.+..   ..........++.|+|++|+|||++++.+++....   .........++.+.....
T Consensus        14 ~P~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~   93 (287)
T d1w5sa2          14 IPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPN   93 (287)
T ss_dssp             CCSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCS
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeeccccccc
Confidence            356789999999999887633   11111122345677899999999999999876421   110224556778888778


Q ss_pred             HHHHHHHHHHHhccCCCC-cccHHHHHHHHHHHh--CCceEEEEEeCCCCCC------hhcH---HHhhcccCC---CCC
Q 047559          256 VLNISRALLESITFASCD-LKALNEVQVQIKRAV--DGKKLLLVLDDVWNED------YCLW---EDLKAPFLA---AAP  320 (444)
Q Consensus       256 ~~~~~~~il~~l~~~~~~-~~~~~~~~~~l~~~l--~~kr~LlVlDdv~~~~------~~~~---~~l~~~l~~---~~~  320 (444)
                      ....+..+...+...... ..........+.+..  .+...++++|.+....      ....   ..+...+..   ...
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iide~d~l~~~~~~~~~~~~~l~~l~~~l~~~~~~~~  173 (287)
T d1w5sa2          94 LYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNR  173 (287)
T ss_dssp             HHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCCB
T ss_pred             hhhHHHHHhhhcccccccccchHHHHHHHHHHHHHhccCccccceeEEEEeccccccchhHHHHHHHHHHhcchhhcccc
Confidence            888888888777654332 233344444454444  3556788888874321      1111   111111222   122


Q ss_pred             CcEEEEecCChHHHh--------hcCCCCcccCCCCChHhHHHHHHHhh
Q 047559          321 NSKIIVTTRHAHVAA--------TMEPIQQYNLQCLSDEDCWSLFMMHA  361 (444)
Q Consensus       321 gs~iivTTr~~~va~--------~~~~~~~~~l~~L~~~~~~~lf~~~~  361 (444)
                      -..|++++.......        ...-...+.+++++.++..+++..++
T Consensus       174 ~~~i~i~~~~~~~~~~~~~~~~~~~r~~~~i~f~~y~~~el~~Il~~r~  222 (287)
T d1w5sa2         174 IGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRA  222 (287)
T ss_dssp             EEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHH
T ss_pred             eeEEeecccHHHHHHHHhhccchhcccceeeeccCCcHHHHHHHHhhhH
Confidence            234444544432221        11223568899999999999998776

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.66  E-value=1.2e-07  Score=84.04  Aligned_cols=191  Identities=13%  Similarity=0.036  Sum_probs=104.6

Q ss_pred             CcccccchhHHHHHHHHhcC-----------CCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCC
Q 047559          184 RAVFGRQQDKAKMLEMVLTD-----------TSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSD  252 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~-----------~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~  252 (444)
                      .+++|.+..+++|.++|..-           ........+.+.++|++|+||||+|+.+++..      .-...+++.+.
T Consensus        14 ~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~------~~~~~~~~~~~   87 (253)
T d1sxja2          14 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQEL------GYDILEQNASD   87 (253)
T ss_dssp             GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHT------TCEEEEECTTS
T ss_pred             HHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHH------Hhhhhcccccc
Confidence            46899999999999988530           11112445789999999999999999999863      22345666665


Q ss_pred             CCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhc---HHHhhcccCCCCCCcEEEEecC
Q 047559          253 DFDVLNISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCL---WEDLKAPFLAAAPNSKIIVTTR  329 (444)
Q Consensus       253 ~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~---~~~l~~~l~~~~~gs~iivTTr  329 (444)
                      ..+...+ ...................  ........++..++++|++.......   +..+........  ..+++|+.
T Consensus        88 ~~~~~~~-~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~vi~ide~~~~~~~~~~~~~~~~~~~~~~~--~~ii~i~~  162 (253)
T d1sxja2          88 VRSKTLL-NAGVKNALDNMSVVGYFKH--NEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKTS--TPLILICN  162 (253)
T ss_dssp             CCCHHHH-HHTGGGGTTBCCSTTTTTC------CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHHCS--SCEEEEES
T ss_pred             chhhHHH-HHHHHHHhhcchhhhhhhh--hhhcccccccceEEEeeeccccccchhhhhHHHhhhhcccc--cccccccc
Confidence            4444332 2222222111110000000  00111234567889999986543222   333333222222  23444433


Q ss_pred             C--h-HHHhhcCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChH
Q 047559          330 H--A-HVAATMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPL  389 (444)
Q Consensus       330 ~--~-~va~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl  389 (444)
                      .  . .+.........+.+.+++.++....+...+-...-...+.    ....|++.++|..-
T Consensus       163 ~~~~~~~~~l~~~~~~i~f~~~~~~~i~~~l~~i~~~e~i~i~~~----~l~~i~~~s~GDiR  221 (253)
T d1sxja2         163 ERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLDPN----VIDRLIQTTRGDIR  221 (253)
T ss_dssp             CTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCCTT----HHHHHHHHTTTCHH
T ss_pred             cccccccccccceeeeeeccccchhHHHHHHHHHHHHhCCCCCHH----HHHHHHHhCCCcHH
Confidence            2  2 2222223345789999999999888876542211112222    23568889999763

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=98.64  E-value=3.4e-07  Score=80.28  Aligned_cols=179  Identities=16%  Similarity=0.080  Sum_probs=97.4

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRAL  263 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~i  263 (444)
                      +++||.++-++++..++....... ...+-+.++|++|+||||+|+.+++....      ...+++.+.......     
T Consensus         9 ddivGq~~~~~~L~~~i~~~~~~~-~~~~~~Ll~GPpG~GKTtla~~la~~~~~------~~~~~~~~~~~~~~~-----   76 (239)
T d1ixsb2           9 DEYIGQERLKQKLRVYLEAAKARK-EPLEHLLLFGPPGLGKTTLAHVIAHELGV------NLRVTSGPAIEKPGD-----   76 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHTTSS-SCCCCEEEECCTTSCHHHHHHHHHHHHTC------CEEEEETTTCCSHHH-----
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhcC-CCCCeEEEECCCCCCHHHHHHHHHHHhCC------CeEeccCCccccchh-----
Confidence            358999988888877765422111 33456789999999999999999876321      123444333222211     


Q ss_pred             HHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhcccC------------------CCCCCcEEE
Q 047559          264 LESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPFL------------------AAAPNSKII  325 (444)
Q Consensus       264 l~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l~------------------~~~~gs~ii  325 (444)
                                      ....+.+.+ +.+.++++|+++......-+.+...+.                  ...+...++
T Consensus        77 ----------------~~~~~~~~~-~~~~i~~iDe~~~~~~~~~~~l~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~i  139 (239)
T d1ixsb2          77 ----------------LAAILANSL-EEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLI  139 (239)
T ss_dssp             ----------------HHHHHHTTC-CTTCEEEEETGGGCCHHHHHHHHHHHHHSEEEEECSCTTCCCEEEEECCCCEEE
T ss_pred             ----------------hHHHHHhhc-cCCCeeeeecccccchhHHHhhhhhhhhhhhhhhhccchhhhhcccCCCCEEEE
Confidence                            111222222 233456678876654322222211110                  011223344


Q ss_pred             EecCC-hHH--HhhcCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHHH
Q 047559          326 VTTRH-AHV--AATMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTLG  395 (444)
Q Consensus       326 vTTr~-~~v--a~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~~  395 (444)
                      .+|.+ ...  .........+.+...+.++...++...+....-..    ..+....|++.++|.+-.+..+.
T Consensus       140 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~i~~----~~~~l~~ia~~s~gd~R~a~~~l  208 (239)
T d1ixsb2         140 GATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGVRI----TEEAALEIGRRSRGTMRVAKRLF  208 (239)
T ss_dssp             EEESCCSSCSCGGGGGCSEEEECCCCCHHHHHHHHHHHHGGGCCCB----CHHHHHHHHHHTTSSHHHHHHHH
T ss_pred             eeccCcccccchhhcccceeeEeeccChhhhhHHHHHHHHHhCCcc----chHHHHHHHHHcCCCHHHHHHHH
Confidence            44433 221  11222235678888999998888776654322212    23345679999999876664443

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=98.61  E-value=5.3e-07  Score=77.10  Aligned_cols=184  Identities=10%  Similarity=0.031  Sum_probs=104.8

Q ss_pred             chhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhcc
Q 047559          190 QQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITF  269 (444)
Q Consensus       190 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~  269 (444)
                      +...+++...+....-     ...+.++|++|+||||+|+.+.+..--.. . .  .+-.+....+...+.......+..
T Consensus         8 ~~~~~~l~~~~~~~~l-----~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~-~-~--~~~~~~~~~~~~~i~~~~~~~~~~   78 (207)
T d1a5ta2           8 RPDFEKLVASYQAGRG-----HHALLIQALPGMGDDALIYALSRYLLCQQ-P-Q--GHKSCGHCRGCQLMQAGTHPDYYT   78 (207)
T ss_dssp             HHHHHHHHHHHHTTCC-----CSEEEEECCTTSCHHHHHHHHHHHHTCSS-C-B--TTBCCSCSHHHHHHHHTCCTTEEE
T ss_pred             HHHHHHHHHHHHcCCc-----CeEEEEECCCCCcHHHHHHHHHHhccccc-c-c--ccccccccchhhhhhhccccccch
Confidence            3456777777765432     24689999999999999998876421000 0 0  000000011111110000000000


Q ss_pred             C----CCCcccHHHHHHHHHHHh-----CCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCChH-HHh-hcC
Q 047559          270 A----SCDLKALNEVQVQIKRAV-----DGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAH-VAA-TME  338 (444)
Q Consensus       270 ~----~~~~~~~~~~~~~l~~~l-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~~-va~-~~~  338 (444)
                      .    .......++. ..+.+.+     .+++-++|+||++.........+...+.....++.+|+||++.. +-. ..+
T Consensus        79 ~~~~~~~~~i~~~~i-r~l~~~~~~~~~~~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~~ll~tI~S  157 (207)
T d1a5ta2          79 LAPEKGKNTLGVDAV-REVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRS  157 (207)
T ss_dssp             ECCCTTCSSBCHHHH-HHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHT
T ss_pred             hhhhhcccccccchh-hHHhhhhhhccccCccceEEechhhhhhhhhhHHHHHHHHhhcccceeeeeecChhhhhhhhcc
Confidence            0    0001112222 2222222     34566999999998888888888888887778888888887753 222 223


Q ss_pred             CCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHH
Q 047559          339 PIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAK  392 (444)
Q Consensus       339 ~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~  392 (444)
                      ....+.+.+++.++....+....    +. .    +.....|++.++|.|-.+.
T Consensus       158 Rc~~i~~~~~~~~~~~~~L~~~~----~~-~----~~~~~~i~~~s~Gs~r~al  202 (207)
T d1a5ta2         158 RCRLHYLAPPPEQYAVTWLSREV----TM-S----QDALLAALRLSAGSPGAAL  202 (207)
T ss_dssp             TSEEEECCCCCHHHHHHHHHHHC----CC-C----HHHHHHHHHHTTTCHHHHH
T ss_pred             eeEEEecCCCCHHHHHHHHHHcC----CC-C----HHHHHHHHHHcCCCHHHHH
Confidence            33678999999999998886543    11 1    2334668899999986554

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=98.54  E-value=3.7e-07  Score=80.00  Aligned_cols=177  Identities=16%  Similarity=0.103  Sum_probs=97.6

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRAL  263 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~i  263 (444)
                      .+++|.+.-++.|..++......+ ...+-+.++|++|+||||+|+.+.+...     ++ ...++.+......++ ..+
T Consensus         9 ~divGqe~~~~~l~~~i~~~~~~~-~~~~~~L~~GPpGtGKT~lA~~la~~~~-----~~-~~~~~~~~~~~~~~~-~~~   80 (238)
T d1in4a2           9 DEFIGQENVKKKLSLALEAAKMRG-EVLDHVLLAGPPGLGKTTLAHIIASELQ-----TN-IHVTSGPVLVKQGDM-AAI   80 (238)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHHT-CCCCCEEEESSTTSSHHHHHHHHHHHHT-----CC-EEEEETTTCCSHHHH-HHH
T ss_pred             HHcCChHHHHHHHHHHHHHHHhcC-CCCCeEEEECCCCCcHHHHHHHHHhccC-----CC-cccccCcccccHHHH-HHH
Confidence            458999999999888875321111 2234678999999999999999998632     22 233443333332222 111


Q ss_pred             HHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCChhcHHHhhccc------------------CCCCCCcEEE
Q 047559          264 LESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDYCLWEDLKAPF------------------LAAAPNSKII  325 (444)
Q Consensus       264 l~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~~~~~~l~~~l------------------~~~~~gs~ii  325 (444)
                      +..                      ..++..+++|++.......-+.+...+                  ........+|
T Consensus        81 ~~~----------------------~~~~~~~~ide~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I  138 (238)
T d1in4a2          81 LTS----------------------LERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLV  138 (238)
T ss_dssp             HHH----------------------CCTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEEE
T ss_pred             HHh----------------------hccCCchHHHHHHHhhhHHHhhcccceeeeeeeeeecCcccccccccCCCCeEEE
Confidence            111                      234456677777554322111111111                  0012234455


Q ss_pred             EecCCh-HH--HhhcCCCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHHHHHH
Q 047559          326 VTTRHA-HV--AATMEPIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLAAKTL  394 (444)
Q Consensus       326 vTTr~~-~v--a~~~~~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Plai~~~  394 (444)
                      .+|... ..  +........+.++..+.++...++...+........    +.....|++.++|.+-.+..+
T Consensus       139 ~at~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~----~~~l~~i~~~s~gd~R~ai~~  206 (238)
T d1in4a2         139 GATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMDVEIE----DAAAEMIAKRSRGTPRIAIRL  206 (238)
T ss_dssp             EEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTCCBC----HHHHHHHHHTSTTCHHHHHHH
T ss_pred             EecCCCccccccceeeeeEEEEecCCCHHHHHHHHHHhhhhccchhh----HHHHHHHHHhCCCCHHHHHHH
Confidence            555443 22  122222345789999999999988876643322222    234566889999987766543

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=98.48  E-value=7.2e-07  Score=83.27  Aligned_cols=155  Identities=15%  Similarity=0.142  Sum_probs=86.0

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcc---ccccCCcceeEEE-EeCCCCCHHHHH
Q 047559          185 AVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDR---AVEDSKFDVKAWV-CVSDDFDVLNIS  260 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~---~~~~~~f~~~~wv-~vs~~~~~~~~~  260 (444)
                      .++||+.+++++++.|.....+      -+.+||.+|+|||+|+..++.+.   .+.....+.++|. +++.-      +
T Consensus        23 ~~~gr~~ei~~~~~~L~r~~k~------n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l------~   90 (387)
T d1qvra2          23 PVIGRDEEIRRVIQILLRRTKN------NPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSL------L   90 (387)
T ss_dssp             CCCSCHHHHHHHHHHHHCSSCC------CCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC----------
T ss_pred             CCcCcHHHHHHHHHHHhcCCCC------CCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhh------h
Confidence            3789999999999999875542      24788999999999887665432   1222133455554 33221      0


Q ss_pred             HHHHHHhccCCCCcccHHHHHHHH-HHHhCC-ceEEEEEeCCCCCCh-------hcH-HHhhcccCCCCCCcEEEEecCC
Q 047559          261 RALLESITFASCDLKALNEVQVQI-KRAVDG-KKLLLVLDDVWNEDY-------CLW-EDLKAPFLAAAPNSKIIVTTRH  330 (444)
Q Consensus       261 ~~il~~l~~~~~~~~~~~~~~~~l-~~~l~~-kr~LlVlDdv~~~~~-------~~~-~~l~~~l~~~~~gs~iivTTr~  330 (444)
                          .   + .......++....+ .+.... .+++|++|+++..-.       .+- +.|+.+|.  ...-++|-+|..
T Consensus        91 ----a---g-~~~~g~~e~r~~~i~~~~~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~--rg~~~~I~~tT~  160 (387)
T d1qvra2          91 ----A---G-AKYRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALA--RGELRLIGATTL  160 (387)
T ss_dssp             ---------------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHH--TTCCCEEEEECH
T ss_pred             ----c---c-cCcchhHHHHHHHHHHHhccCCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHHh--CCCcceeeecCH
Confidence                0   0 00111222222222 333333 479999999976410       011 12222222  233577888877


Q ss_pred             hHHHhhc------CCCCcccCCCCChHhHHHHHHHhh
Q 047559          331 AHVAATM------EPIQQYNLQCLSDEDCWSLFMMHA  361 (444)
Q Consensus       331 ~~va~~~------~~~~~~~l~~L~~~~~~~lf~~~~  361 (444)
                      +.+...-      ..++.+.++..+.+++..++....
T Consensus       161 ~ey~~~e~d~al~rrF~~v~v~ep~~~~~~~il~~~~  197 (387)
T d1qvra2         161 DEYREIEKDPALERRFQPVYVDEPTVEETISILRGLK  197 (387)
T ss_dssp             HHHHHHTTCTTTCSCCCCEEECCCCHHHHHHHHHHHH
T ss_pred             HHHHHhcccHHHHHhcccccCCCCcHHHHHHHHHHHH
Confidence            7776431      233678999999999999887543

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=98.29  E-value=4.8e-06  Score=71.19  Aligned_cols=156  Identities=17%  Similarity=0.175  Sum_probs=85.9

Q ss_pred             CCcccccchhH-HHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHH
Q 047559          183 ERAVFGRQQDK-AKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISR  261 (444)
Q Consensus       183 ~~~~vGr~~~~-~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~  261 (444)
                      +.-++|...+. -.+...+.....   .....+.|+|++|+|||.|++.+++.....   ...+++++      ..++..
T Consensus        10 dnF~vg~~N~~a~~~~~~~~~~~~---~~~n~l~l~G~~G~GKTHLl~A~~~~~~~~---~~~~~~~~------~~~~~~   77 (213)
T d1l8qa2          10 ENFIVGEGNRLAYEVVKEALENLG---SLYNPIFIYGSVGTGKTHLLQAAGNEAKKR---GYRVIYSS------ADDFAQ   77 (213)
T ss_dssp             SSCCCCTTTHHHHHHHHHHHHTTT---TSCSSEEEECSSSSSHHHHHHHHHHHHHHT---TCCEEEEE------HHHHHH
T ss_pred             hhccCCCcHHHHHHHHHHHHhCcC---CCCCcEEEECCCCCcHHHHHHHHHHHhccC---ccceEEec------hHHHHH
Confidence            44466764443 233333323222   222447899999999999999999885432   33445554      334444


Q ss_pred             HHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCC-hhcHHH-hhcccCC-CCCCcEEEEecCCh-------
Q 047559          262 ALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNED-YCLWED-LKAPFLA-AAPNSKIIVTTRHA-------  331 (444)
Q Consensus       262 ~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~-~~~~~~-l~~~l~~-~~~gs~iivTTr~~-------  331 (444)
                      .+...+....     ..    .+.+.+. .--+|+|||++... ...|+. +...+.. ...|..||+|++..       
T Consensus        78 ~~~~~~~~~~-----~~----~~~~~~~-~~dll~iDDi~~i~~~~~~~~~lf~lin~~~~~~~~iiits~~~p~~l~~~  147 (213)
T d1l8qa2          78 AMVEHLKKGT-----IN----EFRNMYK-SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGV  147 (213)
T ss_dssp             HHHHHHHHTC-----HH----HHHHHHH-TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTS
T ss_pred             HHHHHHHccc-----hh----hHHHHHh-hccchhhhhhhhhcCchHHHHHHHHHHHHHhhccceEEEecCCcchhcccc
Confidence            4444443211     11    1222222 34589999996542 234554 3222222 24677899999853       


Q ss_pred             --HHHhhcCCCCcccCCCCChHhHHHHHHHhh
Q 047559          332 --HVAATMEPIQQYNLQCLSDEDCWSLFMMHA  361 (444)
Q Consensus       332 --~va~~~~~~~~~~l~~L~~~~~~~lf~~~~  361 (444)
                        ++...+....++.++ ++.++-.+++.+++
T Consensus       148 ~~dL~SRL~~g~~~~i~-p~d~~~~~iL~~~a  178 (213)
T d1l8qa2         148 SDRLVSRFEGGILVEIE-LDNKTRFKIIKEKL  178 (213)
T ss_dssp             CHHHHHHHHTSEEEECC-CCHHHHHHHHHHHH
T ss_pred             chHHHHHhhCceEEEEC-CCcHHHHHHHHHHH
Confidence              233334444566675 46666667776665

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=98.19  E-value=9.3e-06  Score=71.35  Aligned_cols=181  Identities=14%  Similarity=0.089  Sum_probs=96.8

Q ss_pred             CcccccchhHHHHHH---HHhcCC---CCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHH
Q 047559          184 RAVFGRQQDKAKMLE---MVLTDT---SSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVL  257 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~---~L~~~~---~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~  257 (444)
                      .+++|.++.+++|.+   ++....   .-+....+.+.++|++|+|||++|+.+.+....   +   .+-++.+.-.+  
T Consensus        12 ~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~~~---~---~~~i~~~~l~~--   83 (256)
T d1lv7a_          12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKV---P---FFTISGSDFVE--   83 (256)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTC---C---EEEECSCSSTT--
T ss_pred             HHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHcCC---C---EEEEEhHHhhh--
Confidence            468899887777754   333211   001133467889999999999999999976421   1   12233222111  


Q ss_pred             HHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCC------h----hc----HHHhhcccC--CCCCC
Q 047559          258 NISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNED------Y----CL----WEDLKAPFL--AAAPN  321 (444)
Q Consensus       258 ~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~------~----~~----~~~l~~~l~--~~~~g  321 (444)
                                   .........+...+...-...+++|++||++..-      .    ..    ...+...+.  ....+
T Consensus        84 -------------~~~g~~~~~l~~~f~~A~~~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~  150 (256)
T d1lv7a_          84 -------------MFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEG  150 (256)
T ss_dssp             -------------SCCCCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSC
T ss_pred             -------------cchhHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCC
Confidence                         0001112222223333335678899999995410      0    01    122322222  12334


Q ss_pred             cEEEEecCChHHH-hh-cC--C-CCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHH
Q 047559          322 SKIIVTTRHAHVA-AT-ME--P-IQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLA  390 (444)
Q Consensus       322 s~iivTTr~~~va-~~-~~--~-~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pla  390 (444)
                      .-||.||...... .. ..  . ...+.+.+.+.++-.++|....-. .....+.++    ..+++.+.|..-+
T Consensus       151 v~vIatTn~~~~ld~al~R~gRfd~~i~i~~P~~~~R~~il~~~l~~-~~~~~~~~~----~~la~~t~G~s~a  219 (256)
T d1lv7a_         151 IIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRR-VPLAPDIDA----AIIARGTPGFSGA  219 (256)
T ss_dssp             EEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTT-SCBCTTCCH----HHHHHTCTTCCHH
T ss_pred             EEEEEeCCCcccCCHhHcCCCCCCEEEECCCcCHHHHHHHHHHhccC-CCcCcccCH----HHHHHhCCCCCHH
Confidence            4556577764332 22 22  2 256889999999999998876522 222222233    4577888887533

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.14  E-value=1.9e-05  Score=69.56  Aligned_cols=180  Identities=14%  Similarity=0.117  Sum_probs=98.5

Q ss_pred             cccccchhHHHHHHHHh----cCC---CCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHH
Q 047559          185 AVFGRQQDKAKMLEMVL----TDT---SSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVL  257 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~----~~~---~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~  257 (444)
                      +++|-+..+++|.+.+.    ...   ..+....+-+.++|++|+|||++|+.+.+....      ..+.++.+.     
T Consensus         5 dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~~~------~~~~i~~~~-----   73 (258)
T d1e32a2           5 DVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGA------FFFLINGPE-----   73 (258)
T ss_dssp             GCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHTTC------EEEEECHHH-----
T ss_pred             hhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHhCC------eEEEEEchh-----
Confidence            48899988888877642    110   001133467899999999999999999986321      112222111     


Q ss_pred             HHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCCh-------hcH----HHhhcccC--CCCCCcEE
Q 047559          258 NISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDY-------CLW----EDLKAPFL--AAAPNSKI  324 (444)
Q Consensus       258 ~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~-------~~~----~~l~~~l~--~~~~gs~i  324 (444)
                               +... ........+...+...-..++.+|++||++..-.       ...    ..+...+.  ....+.-|
T Consensus        74 ---------l~~~-~~g~~~~~l~~~f~~A~~~~p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~vlv  143 (258)
T d1e32a2          74 ---------IMSK-LAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIV  143 (258)
T ss_dssp             ---------HTTS-CTTHHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCCCSSCEEE
T ss_pred             ---------hccc-ccccHHHHHHHHHHHHHhcCCeEEEehhhhhhccCCCCCCCchHHHHHHHhccccccccccCCccE
Confidence                     1100 0111122222223333356789999999976311       011    11111111  22344556


Q ss_pred             EEecCChHHH-hhc-C---CCCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHH
Q 047559          325 IVTTRHAHVA-ATM-E---PIQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLA  390 (444)
Q Consensus       325 ivTTr~~~va-~~~-~---~~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pla  390 (444)
                      |.||....-. ..+ .   -...+.+...+.++-..+|....- ......+..+    ..|++.+.|+--|
T Consensus       144 i~tTn~~~~ld~al~r~gRfd~~i~~~~P~~~~R~~il~~~l~-~~~~~~~~~~----~~la~~t~G~s~a  209 (258)
T d1e32a2         144 MAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTK-NMKLADDVDL----EQVANETHGHVGA  209 (258)
T ss_dssp             EEEESCGGGSCGGGTSTTSSCEEEECCCCCHHHHHHHHHHTTT-TSCBCTTCCH----HHHHHHCTTCCHH
T ss_pred             EEeCCCccccchhhhhcccccceeECCCCCHHHHHHHhhhhcc-Ccccccccch----hhhhhcccCCCHH
Confidence            6688765432 222 2   225689999999999999987652 2222222233    4588999886443

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=98.13  E-value=8.5e-06  Score=71.28  Aligned_cols=179  Identities=15%  Similarity=0.113  Sum_probs=92.4

Q ss_pred             cccccchhHHHHHH---HHhcCC---CCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHH
Q 047559          185 AVFGRQQDKAKMLE---MVLTDT---SSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLN  258 (444)
Q Consensus       185 ~~vGr~~~~~~l~~---~L~~~~---~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~  258 (444)
                      +++|-++.++.|.+   .+....   ..+....+.+.++|++|+|||+||+.+.+....   +   .+-++.+      +
T Consensus        10 di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~~~---~---~~~i~~~------~   77 (247)
T d1ixza_          10 DVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARV---P---FITASGS------D   77 (247)
T ss_dssp             GCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTC---C---EEEEEHH------H
T ss_pred             HHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHcCC---C---EEEEEhH------H
Confidence            58898877666544   332210   000123467899999999999999999986421   1   1223221      1


Q ss_pred             HHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCC-------C----hh---cHHHhhcccCC--CCCCc
Q 047559          259 ISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNE-------D----YC---LWEDLKAPFLA--AAPNS  322 (444)
Q Consensus       259 ~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~-------~----~~---~~~~l~~~l~~--~~~gs  322 (444)
                      +.    ..     ........+...+...-...+++|+|||++..       .    ..   ....+...+..  ...+.
T Consensus        78 l~----~~-----~~g~~~~~l~~~f~~a~~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~v  148 (247)
T d1ixza_          78 FV----EM-----FVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAI  148 (247)
T ss_dssp             HH----HS-----CTTHHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCE
T ss_pred             hh----hc-----cccHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCE
Confidence            11    10     00011111222222223457899999998531       0    00   12222222221  22233


Q ss_pred             EEEEecCChH-HHhhc---CCC-CcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChH
Q 047559          323 KIIVTTRHAH-VAATM---EPI-QQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPL  389 (444)
Q Consensus       323 ~iivTTr~~~-va~~~---~~~-~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pl  389 (444)
                      -||.||.... +...+   +.. ..+++.+.+.++-.++|+....... ...+..+    ..+++.|.|+.-
T Consensus       149 ivi~tTn~~~~ld~al~R~~Rf~~~i~~~~P~~~eR~~il~~~l~~~~-~~~~~~~----~~la~~t~g~s~  215 (247)
T d1ixza_         149 VVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKP-LAEDVDL----ALLAKRTPGFVG  215 (247)
T ss_dssp             EEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSC-BCTTCCH----HHHHHTCTTCCH
T ss_pred             EEEEeCCCccccCHhHcCCCCCcEEEEECCcCHHHHHHHHHHHhcccC-CccccCH----HHHHHHCCCCCH
Confidence            3444666543 22222   122 4688999999999999987763322 2222233    447788888643

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=98.00  E-value=1.5e-05  Score=69.56  Aligned_cols=49  Identities=16%  Similarity=0.238  Sum_probs=35.8

Q ss_pred             CcccccchhHHHHHHHHh-------cCCCCCCCCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          184 RAVFGRQQDKAKMLEMVL-------TDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~-------~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..++|..++++.+++.+.       ....   .+.+.|.++|++|+|||++|+.+++..
T Consensus         9 ~~~i~~~~~i~~i~~~~~~~~~~~~~~~~---~p~~~vLL~GppGtGKT~la~alA~~~   64 (246)
T d1d2na_           9 NGIIKWGDPVTRVLDDGELLVQQTKNSDR---TPLVSVLLEGPPHSGKTALAAKIAEES   64 (246)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCSS---CSEEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cCCcCcCHHHHHHHHHHHHHHHHHhccCC---CCCeEEEEECcCCCCHHHHHHHHhhcc
Confidence            348888777776655432       2221   346789999999999999999999864

>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=97.90  E-value=1.2e-05  Score=71.21  Aligned_cols=180  Identities=13%  Similarity=0.098  Sum_probs=93.7

Q ss_pred             cccccchhHHHHHHHHhc---C-C---CCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHH
Q 047559          185 AVFGRQQDKAKMLEMVLT---D-T---SSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVL  257 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~---~-~---~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~  257 (444)
                      +++|-++.+++|.+.+..   . .   ..+....+.|.++|++|+|||+||+.+++....   +     .+.++    ..
T Consensus         8 di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~~~---~-----~~~~~----~~   75 (265)
T d1r7ra3           8 DIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQA---N-----FISIK----GP   75 (265)
T ss_dssp             SCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHTTC---E-----EEEEC----HH
T ss_pred             HhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHHhCC---c-----EEEEE----HH
Confidence            477777766666554421   0 0   001133467899999999999999999987422   1     12222    11


Q ss_pred             HHHHHHHHHhccCCCCcccHHHHHHHHHHHhCCceEEEEEeCCCCCCh------hc--------HHHhhcccCC--CCCC
Q 047559          258 NISRALLESITFASCDLKALNEVQVQIKRAVDGKKLLLVLDDVWNEDY------CL--------WEDLKAPFLA--AAPN  321 (444)
Q Consensus       258 ~~~~~il~~l~~~~~~~~~~~~~~~~l~~~l~~kr~LlVlDdv~~~~~------~~--------~~~l~~~l~~--~~~g  321 (444)
                      .+.        . .........+...+...-...+++|+|||++..-.      ..        ...+...+..  ...+
T Consensus        76 ~l~--------~-~~~~~~~~~l~~~f~~A~~~~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~  146 (265)
T d1r7ra3          76 ELL--------T-MWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKN  146 (265)
T ss_dssp             HHH--------T-SCTTTHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC------C
T ss_pred             Hhh--------h-ccccchHHHHHHHHHHHHhcCCcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCcCCCCC
Confidence            110        0 11111222222333333346789999999964311      00        1223333321  2334


Q ss_pred             cEEEEecCChHH-Hhhc-C--C-CCcccCCCCChHhHHHHHHHhhccCCCCCccchHHHHHHHHHHHcCCChHH
Q 047559          322 SKIIVTTRHAHV-AATM-E--P-IQQYNLQCLSDEDCWSLFMMHAFVGQDITAQQISDLFREKVVGKCGGLPLA  390 (444)
Q Consensus       322 s~iivTTr~~~v-a~~~-~--~-~~~~~l~~L~~~~~~~lf~~~~~~~~~~~~~~~~~~~~~~i~~~~~G~Pla  390 (444)
                      .-||.||....- -..+ .  . ...+++...+.++-.++|.... .......+.++    .+|++++.|...+
T Consensus       147 v~vi~ttn~~~~ld~al~r~gRf~~~i~~~~p~~~~R~~il~~~l-~~~~~~~~~~l----~~la~~t~g~s~~  215 (265)
T d1r7ra3         147 VFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANL-RKSPVAKDVDL----EFLAKMTNGFSGA  215 (265)
T ss_dssp             CEEEECCBSCTTTSCGGGSSTTSEEEEECCCCCCHHHHHHHHHHT-TCC----CCCC----HHHHHHHCSSCCH
T ss_pred             EEEEEeCCCchhCCHHHhCCCCccEEEEecchHHHHHHHHHHHHh-ccCCchhhhhH----HHHHhcCCCCCHH
Confidence            566677775442 2222 1  1 2568999999999999997654 22111122233    4577888886544

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=97.84  E-value=7.3e-05  Score=62.74  Aligned_cols=105  Identities=12%  Similarity=0.042  Sum_probs=66.7

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhcccccc-CCcceeEEEEeCC-CCCHHHHHHHHHHHhccCCCCcccHHHHHHHHHHH
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDRAVED-SKFDVKAWVCVSD-DFDVLNISRALLESITFASCDLKALNEVQVQIKRA  287 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~-~~f~~~~wv~vs~-~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~l~~~  287 (444)
                      ....+.++|++|+|||++|..+.+...... .|.|. .++.-.. ...+.++ +.+.+.+....                
T Consensus        14 ~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~-~~i~~~~~~I~Id~I-R~i~~~~~~~~----------------   75 (198)
T d2gnoa2          14 EGISILINGEDLSYPREVSLELPEYVEKFPPKASDV-LEIDPEGENIGIDDI-RTIKDFLNYSP----------------   75 (198)
T ss_dssp             SSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTE-EEECCSSSCBCHHHH-HHHHHHHTSCC----------------
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHHhccccCCCCE-EEEeCCcCCCCHHHH-HHHHHHHhhCc----------------
Confidence            347999999999999999998876532111 13333 3333221 1122222 23333333221                


Q ss_pred             hCCceEEEEEeCCCCCChhcHHHhhcccCCCCCCcEEEEecCChH
Q 047559          288 VDGKKLLLVLDDVWNEDYCLWEDLKAPFLAAAPNSKIIVTTRHAH  332 (444)
Q Consensus       288 l~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTTr~~~  332 (444)
                      ..+++=++|+|+++..+...++.|...+.....++.+|++|.+..
T Consensus        76 ~~~~~KviIId~ad~l~~~aqNaLLK~LEEPp~~t~fiLit~~~~  120 (198)
T d2gnoa2          76 ELYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWH  120 (198)
T ss_dssp             SSSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGG
T ss_pred             ccCCCEEEEEeCccccchhhhhHHHHHHhCCCCCceeeeccCChh
Confidence            124455899999999888889999988877777888887777643

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=97.63  E-value=5.3e-05  Score=68.61  Aligned_cols=120  Identities=16%  Similarity=0.165  Sum_probs=66.9

Q ss_pred             CcccccchhHHHHHHHHhc---CCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHH
Q 047559          184 RAVFGRQQDKAKMLEMVLT---DTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNIS  260 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~---~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~  260 (444)
                      ..++|.+..++.+...+..   .-.+......++.++|++|+|||.||+.+..-.      +...+-++++.-.+...  
T Consensus        22 ~~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l------~~~~i~~d~s~~~~~~~--   93 (315)
T d1r6bx3          22 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL------GIELLRFDMSEYMERHT--   93 (315)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHH------TCEEEEEEGGGCSSSSC--
T ss_pred             CeecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhhc------cCCeeEeccccccchhh--
Confidence            3588999888888776532   111112445689999999999999999998752      22333444433111000  


Q ss_pred             HHHHHHhccCCCCcccHHHHHHHHHHHh-CCceEEEEEeCCCCCChhcHHHhhccc
Q 047559          261 RALLESITFASCDLKALNEVQVQIKRAV-DGKKLLLVLDDVWNEDYCLWEDLKAPF  315 (444)
Q Consensus       261 ~~il~~l~~~~~~~~~~~~~~~~l~~~l-~~kr~LlVlDdv~~~~~~~~~~l~~~l  315 (444)
                         ...+.+..+..... .....+...+ +....+++||++......-|+.+...+
T Consensus        94 ---~~~l~g~~~gy~g~-~~~~~l~~~~~~~~~~vvl~DeieKa~~~V~~~lLqil  145 (315)
T d1r6bx3          94 ---VSRLIGAPPGYVGF-DQGGLLTDAVIKHPHAVLLLDEIEKAHPDVFNILLQVM  145 (315)
T ss_dssp             ---CSSSCCCCSCSHHH-HHTTHHHHHHHHCSSEEEEEETGGGSCHHHHHHHHHHH
T ss_pred             ---hhhhcccCCCcccc-ccCChhhHHHHhCccchhhhcccccccchHhhhhHHhh
Confidence               01111111111000 0011122222 355679999999888877777766655

>d1qvra3 c.37.1.20 (A:536-850) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=97.29  E-value=0.00023  Score=64.15  Aligned_cols=122  Identities=14%  Similarity=0.171  Sum_probs=62.5

Q ss_pred             cccccchhHHHHHHHHhcC---CCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHH
Q 047559          185 AVFGRQQDKAKMLEMVLTD---TSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISR  261 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~---~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~  261 (444)
                      .++|.+..++.+...+...   -.+...+..++.++|+.|+|||.||+.+.+..-  . .-...+-++.+.-.+...+  
T Consensus        24 ~v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l~--~-~~~~~~~~~~~~~~~~~~~--   98 (315)
T d1qvra3          24 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLF--D-TEEAMIRIDMTEYMEKHAV--   98 (315)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHH--S-SGGGEEEECTTTCCSSGGG--
T ss_pred             eEeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHHHhc--C-CCcceEEEeccccccchhh--
Confidence            4778888787776655321   111113456889999999999999999887531  0 1112222333332211110  


Q ss_pred             HHHHHhccCCCCcccHHHHHHHHHHHh-CCceEEEEEeCCCCCChhcHHHhhccc
Q 047559          262 ALLESITFASCDLKALNEVQVQIKRAV-DGKKLLLVLDDVWNEDYCLWEDLKAPF  315 (444)
Q Consensus       262 ~il~~l~~~~~~~~~~~~~~~~l~~~l-~~kr~LlVlDdv~~~~~~~~~~l~~~l  315 (444)
                         ..+.+..+.-.... ....+.+.+ +....+|+||+++......++.+...+
T Consensus        99 ---~~L~g~~~gyvG~~-~~~~l~~~~~~~p~~Vvl~DEieK~~~~v~~~ll~~l  149 (315)
T d1qvra3          99 ---SRLIGAPPGYVGYE-EGGQLTEAVRRRPYSVILFDEIEKAHPDVFNILLQIL  149 (315)
T ss_dssp             ---GGC---------------CHHHHHHHCSSEEEEESSGGGSCHHHHHHHHHHH
T ss_pred             ---hhhcCCCCCCcCcc-cCChHHHHHHhCCCcEEEEehHhhcCHHHHHHHHHHh
Confidence               11111111000000 011223333 345789999999887777676666554

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=97.20  E-value=8.3e-05  Score=67.16  Aligned_cols=51  Identities=22%  Similarity=0.287  Sum_probs=34.7

Q ss_pred             CcccccchhHHHHHHHHhc----CCC----CCCCCceEEEEEecCCChHHHHHHHHhhc
Q 047559          184 RAVFGRQQDKAKMLEMVLT----DTS----SDHSNLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~----~~~----~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ..++|.++-++.+...+..    ..-    ......+.+.++||+|+|||.||+.+++.
T Consensus        14 ~~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~   72 (309)
T d1ofha_          14 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKL   72 (309)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhc
Confidence            3578888888777654411    000    00013366789999999999999999876

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=97.16  E-value=0.0017  Score=55.08  Aligned_cols=56  Identities=20%  Similarity=0.198  Sum_probs=35.4

Q ss_pred             HHHHHHHhCCceEEEEEeCCCC-CChhcHHHhhcccCC--CCCCcEEEEecCChHHHhh
Q 047559          281 QVQIKRAVDGKKLLLVLDDVWN-EDYCLWEDLKAPFLA--AAPNSKIIVTTRHAHVAAT  336 (444)
Q Consensus       281 ~~~l~~~l~~kr~LlVlDdv~~-~~~~~~~~l~~~l~~--~~~gs~iivTTr~~~va~~  336 (444)
                      .-.|.+.|..++-+|++|+.-. .|+..-..+...+..  ...|..||++|.+..++..
T Consensus       153 RvaIAraL~~~P~lLllDEPTs~LD~~~~~~i~~~l~~l~~~~g~tii~vTHd~~~a~~  211 (230)
T d1l2ta_         153 RVAIARALANNPPIILADQPTGALDSKTGEKIMQLLKKLNEEDGKTVVVVTHDINVARF  211 (230)
T ss_dssp             HHHHHHHHTTCCSEEEEESTTTTSCHHHHHHHHHHHHHHHHTTCCEEEEECSCHHHHTT
T ss_pred             HHHHHhhhhcCCCEEEecCCccccCHHHHHHHHHHHHHHHHhhCCEEEEECCCHHHHHh
Confidence            3456677778888999999843 233332333333332  2457789999998888753

>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=97.06  E-value=0.00022  Score=58.24  Aligned_cols=36  Identities=17%  Similarity=0.097  Sum_probs=27.4

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEE
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWV  248 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv  248 (444)
                      -.+|.|+|++|+||||+|+.+.......  +++...++
T Consensus         6 g~~I~l~G~~GsGKTTia~~La~~L~~~--~~~~~~~~   41 (183)
T d1m8pa3           6 GFTIFLTGYMNSGKDAIARALQVTLNQQ--GGRSVSLL   41 (183)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHH--CSSCEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhhc--CCCchhhh
Confidence            3789999999999999999998775432  34444444

>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=97.04  E-value=0.0012  Score=56.58  Aligned_cols=55  Identities=16%  Similarity=0.138  Sum_probs=33.7

Q ss_pred             HHHHHhCCceEEEEEeCCCC-CChhcHHHhhcccCC-CCCCcEEEEecCChHHHhhc
Q 047559          283 QIKRAVDGKKLLLVLDDVWN-EDYCLWEDLKAPFLA-AAPNSKIIVTTRHAHVAATM  337 (444)
Q Consensus       283 ~l~~~l~~kr~LlVlDdv~~-~~~~~~~~l~~~l~~-~~~gs~iivTTr~~~va~~~  337 (444)
                      .+...+..++=+|+||+.-. .|+.....+...+.. ...|..||+||.+-..+...
T Consensus       143 ~iA~al~~~p~illLDEPt~gLD~~~~~~i~~~i~~~~~~g~tii~~tH~l~~~~~~  199 (238)
T d1vpla_         143 LIARALMVNPRLAILDEPTSGLDVLNAREVRKILKQASQEGLTILVSSHNMLEVEFL  199 (238)
T ss_dssp             HHHHHHTTCCSEEEEESTTTTCCHHHHHHHHHHHHHHHHTTCEEEEEECCHHHHTTT
T ss_pred             HHHHHHhcCCCEEEecCCCCCCCHHHHHHHHHHHHHHHhcCCEEEEEeCCHHHHHHh
Confidence            46667777888899999744 233333333333322 23477899999887766543

>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=97.03  E-value=0.00016  Score=59.54  Aligned_cols=25  Identities=20%  Similarity=0.271  Sum_probs=22.5

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+.|+|.|++|+||||||+.+....
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            4789999999999999999998753

>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=97.01  E-value=0.0015  Score=55.75  Aligned_cols=56  Identities=18%  Similarity=0.179  Sum_probs=34.4

Q ss_pred             HHHHHHhCCceEEEEEeCCCC-CChhcHHHhhcccCC--CCCCcEEEEecCChHHHhhc
Q 047559          282 VQIKRAVDGKKLLLVLDDVWN-EDYCLWEDLKAPFLA--AAPNSKIIVTTRHAHVAATM  337 (444)
Q Consensus       282 ~~l~~~l~~kr~LlVlDdv~~-~~~~~~~~l~~~l~~--~~~gs~iivTTr~~~va~~~  337 (444)
                      -.|...|..++-+|++|+--. .|+..-..+...+..  ...|..||++|.+-..+..+
T Consensus       149 vaiAraL~~~P~lLllDEPt~~LD~~~~~~i~~~l~~l~~~~g~tvi~vTHdl~~~~~~  207 (240)
T d3dhwc1         149 VAIARALASNPKVLLCDEATSALDPATTRSILELLKDINRRLGLTILLITHEMDVVKRI  207 (240)
T ss_dssp             HHHHHHHHTCCSEEEEESGGGSSCHHHHHHHHHHHHHHHHHHCCEEEEEBSCHHHHHHH
T ss_pred             HHHhhhhccCCCeEEeccccccCCHHHhhHHHHHHHHHHhccCCEEEEEcCCHHHHHHh
Confidence            346667778888999999733 333322233333322  23377899999987776543

>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=96.98  E-value=0.00017  Score=57.33  Aligned_cols=23  Identities=39%  Similarity=0.608  Sum_probs=20.4

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ++|.|.|++|+||||||+.+...
T Consensus         3 klIii~G~pGsGKTTla~~L~~~   25 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIAK   25 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            57889999999999999988654

>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=96.98  E-value=0.00013  Score=58.79  Aligned_cols=24  Identities=33%  Similarity=0.505  Sum_probs=21.3

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      +.|.|+|++|+||||+|+.+....
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            468888999999999999999864

>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=96.98  E-value=0.00015  Score=58.78  Aligned_cols=25  Identities=24%  Similarity=0.444  Sum_probs=22.3

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRA  236 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~  236 (444)
                      +|+.|+|..|+|||||++++.+...
T Consensus         3 Pvi~itG~~GSGKTTL~~~L~~~l~   27 (170)
T d1np6a_           3 PLLAFAAWSGTGKTTLLKKLIPALC   27 (170)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            6899999999999999999987643

>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=96.98  E-value=0.00096  Score=57.74  Aligned_cols=46  Identities=22%  Similarity=0.278  Sum_probs=35.2

Q ss_pred             cccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhc
Q 047559          185 AVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       185 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .|||....++++.+.+..-....    ..|.|.|..|+|||++|+.++..
T Consensus         1 ~~v~~S~~~~~~~~~~~~~a~~~----~pvlI~Ge~GtGK~~~A~~ih~~   46 (247)
T d1ny5a2           1 EYVFESPKMKEILEKIKKISCAE----CPVLITGESGVGKEVVARLIHKL   46 (247)
T ss_dssp             CCCCCSHHHHHHHHHHHHHTTCC----SCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEecCHHHHHHHHHHHHHhCCC----CCEEEECCCCcCHHHHHHHHHHh
Confidence            37888888888887776533211    35789999999999999999864

>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=96.97  E-value=0.0028  Score=55.21  Aligned_cols=87  Identities=18%  Similarity=0.140  Sum_probs=60.2

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCC-----CcccHHHHHHH
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASC-----DLKALNEVQVQ  283 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~-----~~~~~~~~~~~  283 (444)
                      +.-+++-|.|++|+||||||.+++......   -..++|++.-..++.+.     +++++....     ...+.++..+.
T Consensus        58 ~~g~i~e~~G~~~~GKT~l~l~~~~~~q~~---g~~~vyIDtE~~~~~e~-----a~~~GvD~d~il~~~~~~~E~~~~~  129 (269)
T d1mo6a1          58 PRGRVIEIYGPESSGKTTVALHAVANAQAA---GGVAAFIDAEHALDPDY-----AKKLGVDTDSLLVSQPDTGEQALEI  129 (269)
T ss_dssp             CSSSEEEEECSSSSSHHHHHHHHHHHHHHT---TCEEEEEESSCCCCHHH-----HHHHTCCGGGCEEECCSSHHHHHHH
T ss_pred             ccceeEEEecCCCcHHHHHHHHHHHHHhcC---CCEEEEEECCccCCHHH-----HHHhCCCHHHeEEecCCCHHHHHHH
Confidence            444899999999999999998887654332   34689999888887654     444544322     23455666665


Q ss_pred             HHHHh-CCceEEEEEeCCCCC
Q 047559          284 IKRAV-DGKKLLLVLDDVWNE  303 (444)
Q Consensus       284 l~~~l-~~kr~LlVlDdv~~~  303 (444)
                      +..++ .++.-|||+|.+-..
T Consensus       130 ~~~l~~~~~~~liIiDSi~al  150 (269)
T d1mo6a1         130 ADMLIRSGALDIVVIDSVAAL  150 (269)
T ss_dssp             HHHHHHTTCEEEEEEECSTTC
T ss_pred             HHHHHhcCCCCEEEEeccccc
Confidence            65555 345779999999543

>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=96.95  E-value=0.00074  Score=57.67  Aligned_cols=121  Identities=19%  Similarity=0.122  Sum_probs=64.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEE----------------eCCCC------CH-------------
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVC----------------VSDDF------DV-------------  256 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~----------------vs~~~------~~-------------  256 (444)
                      .+++|+|+.|.|||||.+.+..-..    .-.+.+|+.                +.+++      ++             
T Consensus        25 e~~~liGpnGaGKSTll~~i~Gl~~----p~~G~I~~~G~~i~~~~~~~r~ig~v~Q~~~l~~~ltV~enl~~~l~~~~~  100 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAGIVK----PDRGEVRLNGADITPLPPERRGIGFVPQDYALFPHLSVYRNIAYGLRNVER  100 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSSC----CSEEEEEETTEECTTSCTTTSCCBCCCSSCCCCTTSCHHHHHHTTCTTSCH
T ss_pred             EEEEEECCCCChHHHHHHHHHcCCC----CCceEEEECCEECCcCCHHHcCceeeccchhhcccchhhHhhhhhhcccCH
Confidence            3788999999999999999976432    112333332                11111      11             


Q ss_pred             ---HHHHHHHHHHhccCCCC-----c-ccHHHHHHHHHHHhCCceEEEEEeCCCC-CChhcHHHhhcccCC--CCCCcEE
Q 047559          257 ---LNISRALLESITFASCD-----L-KALNEVQVQIKRAVDGKKLLLVLDDVWN-EDYCLWEDLKAPFLA--AAPNSKI  324 (444)
Q Consensus       257 ---~~~~~~il~~l~~~~~~-----~-~~~~~~~~~l~~~l~~kr~LlVlDdv~~-~~~~~~~~l~~~l~~--~~~gs~i  324 (444)
                         .+-..++++.++.....     . +.-+...-.+.+.+-.++-+|+||+--. .|+..-..+...+..  ...|..|
T Consensus       101 ~~~~~~v~~~l~~~gl~~~~~~~~~~LSGG~kQRvaiAral~~~P~illlDEPts~LD~~~~~~i~~~i~~l~~~~g~tv  180 (240)
T d2onka1         101 VERDRRVREMAEKLGIAHLLDRKPARLSGGERQRVALARALVIQPRLLLLDEPLSAVDLKTKGVLMEELRFVQREFDVPI  180 (240)
T ss_dssp             HHHHHHHHHHHHTTTCTTTTTCCGGGSCHHHHHHHHHHHHHTTCCSSBEEESTTSSCCHHHHHHHHHHHHHHHHHHTCCE
T ss_pred             HHHHHHHHHHHHhcCcHhhhhCChhhCCHHHHHHHHHHHHHhccCCceEecCccccCCHHHHHHHHHHHHHHHHhcCCeE
Confidence               12234444444332211     1 1122233456777778888999999743 233322223333222  1236678


Q ss_pred             EEecCChHHHhh
Q 047559          325 IVTTRHAHVAAT  336 (444)
Q Consensus       325 ivTTr~~~va~~  336 (444)
                      |++|.+...+..
T Consensus       181 i~vtHd~~~~~~  192 (240)
T d2onka1         181 LHVTHDLIEAAM  192 (240)
T ss_dssp             EEEESCHHHHHH
T ss_pred             EEEeCCHHHHHH
Confidence            888887655544

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=96.93  E-value=0.0011  Score=56.38  Aligned_cols=54  Identities=19%  Similarity=0.214  Sum_probs=32.0

Q ss_pred             HHHHhCCceEEEEEeCCCC-CChhcHHHhhcccCC--CCCCcEEEEecCChHHHhhc
Q 047559          284 IKRAVDGKKLLLVLDDVWN-EDYCLWEDLKAPFLA--AAPNSKIIVTTRHAHVAATM  337 (444)
Q Consensus       284 l~~~l~~kr~LlVlDdv~~-~~~~~~~~l~~~l~~--~~~gs~iivTTr~~~va~~~  337 (444)
                      |.+.|-.++=+|++|+.-. .|+..-..+...+..  ...|..||++|.+-..+..+
T Consensus       141 iAraL~~~P~illlDEPts~LD~~~~~~i~~~l~~l~~~~g~tii~vTHd~~~a~~~  197 (232)
T d2awna2         141 IGRTLVAEPSVFLLDEPLSNLDAALRVQMRIEISRLHKRLGRTMIYVTHDQVEAMTL  197 (232)
T ss_dssp             HHHHHHTCCSEEEEESTTTTSCHHHHHHHHHHHHHHHHHSCCEEEEEESCHHHHHHH
T ss_pred             HHHHHhcCCCEEEEcCCCCCCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHHHHHHh
Confidence            5556667778999999743 233322223333322  23477888888887766543

>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=96.90  E-value=0.00024  Score=57.66  Aligned_cols=23  Identities=35%  Similarity=0.508  Sum_probs=21.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ++|.|.|++|+||||+|+.+...
T Consensus         3 klI~i~G~~GsGKTTva~~L~~~   25 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAAQ   25 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            68999999999999999999864

>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=96.89  E-value=0.0013  Score=56.25  Aligned_cols=57  Identities=23%  Similarity=0.227  Sum_probs=34.7

Q ss_pred             HHHHHHHhCCceEEEEEeCCCC-CChhcHHHhhcccCC--CCCCcEEEEecCChHHHhhc
Q 047559          281 QVQIKRAVDGKKLLLVLDDVWN-EDYCLWEDLKAPFLA--AAPNSKIIVTTRHAHVAATM  337 (444)
Q Consensus       281 ~~~l~~~l~~kr~LlVlDdv~~-~~~~~~~~l~~~l~~--~~~gs~iivTTr~~~va~~~  337 (444)
                      .-.|.+.|..++-+|++|+--. .|...-..+...+..  ...|..||++|.+-..+..+
T Consensus       147 Rv~IAraL~~~P~iLllDEPt~~LD~~~~~~i~~~l~~l~~~~g~tvi~vTHd~~~~~~~  206 (240)
T d1g2912         147 RVALGRAIVRKPQVFLMDEPLSNLDAKLRVRMRAELKKLQRQLGVTTIYVTHDQVEAMTM  206 (240)
T ss_dssp             HHHHHHHHHTCCSEEEEECTTTTSCHHHHHHHHHHHHHHHHHHTCEEEEEESCHHHHHHH
T ss_pred             HHHHHHHHhcCCCEEEecCCCcccCHHHHHHHHHHHHHHHhccCCEEEEEcCCHHHHHHh
Confidence            3456777778888999999743 233322233333322  12377899999987766543

>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=96.89  E-value=0.00044  Score=60.71  Aligned_cols=45  Identities=18%  Similarity=0.331  Sum_probs=31.9

Q ss_pred             chhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          190 QQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       190 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ++.+.+.++.+....... ...+.|.++|++|+||||||+.+++..
T Consensus        12 ~~~~~~~~~~~~~~~~~~-~~P~~ilL~GpPGtGKT~la~~la~~~   56 (273)
T d1gvnb_          12 ENRLNDNLEELIQGKKAV-ESPTAFLLGGQPGSGKTSLRSAIFEET   56 (273)
T ss_dssp             HHHHHHHHHHHHTTCCCC-SSCEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhcccCC-CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            344445555554443322 556789999999999999999999863

>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=96.86  E-value=0.00057  Score=56.67  Aligned_cols=28  Identities=32%  Similarity=0.398  Sum_probs=23.7

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhccc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDRA  236 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~  236 (444)
                      .+.-+|+|.|.+|+||||||+.+.....
T Consensus        20 ~~~~iIgI~G~~GSGKSTla~~L~~~l~   47 (198)
T d1rz3a_          20 AGRLVLGIDGLSRSGKTTLANQLSQTLR   47 (198)
T ss_dssp             SSSEEEEEEECTTSSHHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            4457899999999999999999987643

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=96.84  E-value=0.0016  Score=55.65  Aligned_cols=57  Identities=23%  Similarity=0.203  Sum_probs=34.5

Q ss_pred             HHHHHHHhCCceEEEEEeCCCC-CChhcHHHhhcccCC--CCCCcEEEEecCChHHHhhc
Q 047559          281 QVQIKRAVDGKKLLLVLDDVWN-EDYCLWEDLKAPFLA--AAPNSKIIVTTRHAHVAATM  337 (444)
Q Consensus       281 ~~~l~~~l~~kr~LlVlDdv~~-~~~~~~~~l~~~l~~--~~~gs~iivTTr~~~va~~~  337 (444)
                      .-.|...|..++=+|+||+.-. .|+..-..+...+..  ...|..||++|.+-..+..+
T Consensus       144 RvaiAraL~~~P~iLllDEPts~LD~~~~~~i~~ll~~l~~~~g~tii~vTHd~~~a~~~  203 (239)
T d1v43a3         144 RVAVARAIVVEPDVLLMDEPLSNLDAKLRVAMRAEIKKLQQKLKVTTIYVTHDQVEAMTM  203 (239)
T ss_dssp             HHHHHHHHTTCCSEEEEESTTTTSCHHHHHHHHHHHHHHHHHHTCEEEEEESCHHHHHHH
T ss_pred             HHHHHhhhccCCCceeecCCcccCCHHHHHHHHHHHHHHHHhcCCeEEEEeCCHHHHHHh
Confidence            3456677778888999999743 233322222222222  12377899999987776554

>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=96.82  E-value=0.0015  Score=55.87  Aligned_cols=56  Identities=18%  Similarity=0.231  Sum_probs=34.1

Q ss_pred             HHHHHHHhCCceEEEEEeCCCC-CChhcHHHhhcccCC--CCCCcEEEEecCChHHHhh
Q 047559          281 QVQIKRAVDGKKLLLVLDDVWN-EDYCLWEDLKAPFLA--AAPNSKIIVTTRHAHVAAT  336 (444)
Q Consensus       281 ~~~l~~~l~~kr~LlVlDdv~~-~~~~~~~~l~~~l~~--~~~gs~iivTTr~~~va~~  336 (444)
                      .-.|.+.|..++-+|++|+.-. .|+..-..+...+..  ...|..||++|.+...+..
T Consensus       148 RvaiARaL~~~P~llllDEPt~~LD~~~~~~i~~~i~~l~~~~g~tvi~vTHd~~~~~~  206 (242)
T d1oxxk2         148 RVALARALVKDPSLLLLDEPFSNLDARMRDSARALVKEVQSRLGVTLLVVSHDPADIFA  206 (242)
T ss_dssp             HHHHHHHHTTCCSEEEEESTTTTSCGGGHHHHHHHHHHHHHHHCCEEEEEESCHHHHHH
T ss_pred             HHHHHhHHhhcccceeecCCccCCCHHHHHHHHHHHHHHHhccCCEEEEEECCHHHHHH
Confidence            3456777888889999999733 333332333333322  1237778888888666544

>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=96.80  E-value=0.00034  Score=58.33  Aligned_cols=27  Identities=30%  Similarity=0.480  Sum_probs=24.5

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ++.++|.|.|++|+||||+|+.+.+..
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            567899999999999999999998864

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=96.79  E-value=0.00035  Score=58.13  Aligned_cols=27  Identities=30%  Similarity=0.386  Sum_probs=23.8

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      +++.+|.|+|++|+||||+|+.+.+..
T Consensus         4 ~kp~iI~i~G~pGSGKsT~a~~La~~~   30 (194)
T d1qf9a_           4 SKPNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            455899999999999999999998764

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=96.79  E-value=0.0027  Score=54.35  Aligned_cols=23  Identities=43%  Similarity=0.585  Sum_probs=20.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ..++|+|..|.|||||++.+..-
T Consensus        30 e~vaIvG~sGsGKSTLl~ll~gl   52 (241)
T d2pmka1          30 EVIGIVGRSGSGKSTLTKLIQRF   52 (241)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhc
Confidence            58999999999999999999754

>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=96.78  E-value=0.00041  Score=56.16  Aligned_cols=27  Identities=26%  Similarity=0.492  Sum_probs=23.8

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ...+++.|.|++|+||||+|+.+....
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            456899999999999999999998764

>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=96.72  E-value=0.00028  Score=57.84  Aligned_cols=24  Identities=33%  Similarity=0.387  Sum_probs=21.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      +.|.|+|++|+|||||++.+....
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            568999999999999999998764

>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=96.72  E-value=0.00031  Score=56.90  Aligned_cols=24  Identities=42%  Similarity=0.630  Sum_probs=20.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..|.|.|++|+||||+|+.+.+..
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~~l   28 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELASKS   28 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            457799999999999999998763

>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=96.70  E-value=0.005  Score=52.67  Aligned_cols=23  Identities=26%  Similarity=0.489  Sum_probs=20.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|.|||||.+.+..-
T Consensus        33 ei~~liGpnGaGKSTl~~~i~Gl   55 (240)
T d1ji0a_          33 QIVTLIGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCC
Confidence            59999999999999999999754

>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=96.67  E-value=0.0031  Score=54.94  Aligned_cols=85  Identities=16%  Similarity=0.113  Sum_probs=59.8

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCC-----CcccHHHHHHHH
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASC-----DLKALNEVQVQI  284 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~-----~~~~~~~~~~~l  284 (444)
                      .-+++-|+|++|+|||+||.++.....-.   =..++|++.-..++.+     +++.++....     ...+.++....+
T Consensus        56 ~g~itei~G~~~sGKT~l~l~~~~~aqk~---g~~v~yiDtE~~~~~~-----~a~~~Gvd~d~i~~~~~~~~E~~~~~~  127 (268)
T d1xp8a1          56 RGRITEIYGPESGGKTTLALAIVAQAQKA---GGTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIM  127 (268)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHT---TCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CceEEEEecCCccchHHHHHHHHHHHHhC---CCEEEEEECCccCCHH-----HHHHhCCCchhEEEEcCCCHHHHHHHH
Confidence            33799999999999999999887664322   2457899988888874     4566655432     234566666666


Q ss_pred             HHHhCC-ceEEEEEeCCCC
Q 047559          285 KRAVDG-KKLLLVLDDVWN  302 (444)
Q Consensus       285 ~~~l~~-kr~LlVlDdv~~  302 (444)
                      ..+++. +.-|||+|-+-.
T Consensus       128 ~~l~~~~~~~liIiDSi~a  146 (268)
T d1xp8a1         128 ELLVRSGAIDVVVVDSVAA  146 (268)
T ss_dssp             HHHHTTTCCSEEEEECTTT
T ss_pred             HHHHhcCCCcEEEEecccc
Confidence            666644 456999999844

>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=96.67  E-value=0.0097  Score=51.14  Aligned_cols=23  Identities=39%  Similarity=0.483  Sum_probs=20.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|+|||||++.+..-
T Consensus        41 e~vaivG~sGsGKSTLl~li~gl   63 (251)
T d1jj7a_          41 EVTALVGPNGSGKSTVAALLQNL   63 (251)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCcHHHHHHHHhcc
Confidence            58999999999999999998753

>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=96.67  E-value=0.0016  Score=54.20  Aligned_cols=23  Identities=35%  Similarity=0.537  Sum_probs=21.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|+|||||.+.++.-
T Consensus        28 ei~~l~G~NGsGKSTLl~~i~gl   50 (200)
T d1sgwa_          28 NVVNFHGPNGIGKTTLLKTISTY   50 (200)
T ss_dssp             CCEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCChHHHHHHHHhcc
Confidence            58999999999999999999864

>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=96.63  E-value=0.0043  Score=53.88  Aligned_cols=88  Identities=22%  Similarity=0.319  Sum_probs=56.4

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCC-CHHHHHHHHHHHhccC-------------CCCcccH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDF-DVLNISRALLESITFA-------------SCDLKAL  277 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~-~~~~~~~~il~~l~~~-------------~~~~~~~  277 (444)
                      .-++|+|.+|+|||+|+..+.++.. +. +-+..+++-++... ...++.+.+.+.-...             ..+....
T Consensus        69 Qr~~If~~~g~GKt~l~~~i~~~~~-~~-~~~v~V~~~iGer~~ev~~~~~~~~~~~~~~~~~~~~~tvvv~~~s~~~~~  146 (276)
T d2jdid3          69 GKIGLFGGAGVGKTVLIMELINNVA-KA-HGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSKVALVYGQMNEPPG  146 (276)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHT-TT-CSSEEEEEEESCCHHHHHHHHHHHHHHTSSCSSSSCCCEEEEEECTTSCHH
T ss_pred             CEEEeeCCCCCCHHHHHHHHHHHHH-hh-CCCeEEEEEeccChHHHHHHHHHHHhcCccccccccceEEEEEECCCCCHH
Confidence            4699999999999999999886631 12 45678888888764 4566777766532110             0111111


Q ss_pred             H-----HHHHHHHHHh---CCceEEEEEeCCC
Q 047559          278 N-----EVQVQIKRAV---DGKKLLLVLDDVW  301 (444)
Q Consensus       278 ~-----~~~~~l~~~l---~~kr~LlVlDdv~  301 (444)
                      .     ...-.+.+++   +++++|+++||+-
T Consensus       147 ~r~~~~~~a~~iAEyf~~~~G~~VLv~~Dslt  178 (276)
T d2jdid3         147 ARARVALTGLTVAEYFRDQEGQDVLLFIDNIF  178 (276)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCSCEEEEEECTH
T ss_pred             HHHHHHHHHHHHHHHHHhcCCCeEEEEEcchh
Confidence            1     1223455665   3789999999993

>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=96.60  E-value=0.00057  Score=55.50  Aligned_cols=23  Identities=30%  Similarity=0.509  Sum_probs=21.4

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ++|.|.|++|+||||+|+.+.+.
T Consensus         5 ~iI~l~G~~GsGKSTia~~La~~   27 (176)
T d1zp6a1           5 NILLLSGHPGSGKSTIAEALANL   27 (176)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHTC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            79999999999999999999765

>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=96.58  E-value=0.004  Score=52.65  Aligned_cols=56  Identities=18%  Similarity=0.173  Sum_probs=33.2

Q ss_pred             HHHHHHHhCCceEEEEEeCCCC-CChhcHHHhhcccCC--CCCCcEEEEecCChHHHhh
Q 047559          281 QVQIKRAVDGKKLLLVLDDVWN-EDYCLWEDLKAPFLA--AAPNSKIIVTTRHAHVAAT  336 (444)
Q Consensus       281 ~~~l~~~l~~kr~LlVlDdv~~-~~~~~~~~l~~~l~~--~~~gs~iivTTr~~~va~~  336 (444)
                      .-.|.+.|-.++=+|+||+--. .|+..-..+...+..  ...|..||++|.+...+..
T Consensus       135 RvaiAraL~~~P~iLllDEPts~LD~~~~~~i~~~l~~l~~~~g~tii~vtHd~~~~~~  193 (229)
T d3d31a2         135 RVALARALVTNPKILLLDEPLSALDPRTQENAREMLSVLHKKNKLTVLHITHDQTEARI  193 (229)
T ss_dssp             HHHHHHHTTSCCSEEEEESSSTTSCHHHHHHHHHHHHHHHHHTTCEEEEEESCHHHHHH
T ss_pred             chhhhhhhhccCCceeecCCCcCCCHHHHHHHHHHHHHHHhcCCcEEEEEcCCHHHHHH
Confidence            3356677778888999999743 233222223333322  2347778888887765544

>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=96.57  E-value=0.00037  Score=57.80  Aligned_cols=26  Identities=23%  Similarity=0.328  Sum_probs=22.7

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhcc
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .-.+|.++|++|+||||+|+.+....
T Consensus        18 ~g~vI~L~G~pGSGKTTiAk~La~~l   43 (195)
T d1x6va3          18 RGCTVWLTGLSGAGKTTVSMALEEYL   43 (195)
T ss_dssp             CCEEEEEESSCHHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            34688999999999999999998764

>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=96.57  E-value=0.0028  Score=52.90  Aligned_cols=58  Identities=21%  Similarity=0.221  Sum_probs=37.1

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCH--HHHHHHHHHHhccC
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDV--LNISRALLESITFA  270 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~--~~~~~~il~~l~~~  270 (444)
                      ....||.++|+.|+||||.+.+++.....    ....+.+-..+.+.+  .+-++...+.++..
T Consensus         7 ~~p~vi~lvGptGvGKTTTiAKLA~~~~~----~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~   66 (211)
T d2qy9a2           7 KAPFVILMVGVNGVGKTTTIGKLARQFEQ----QGKSVMLAAGDTFRAAAVEQLQVWGQRNNIP   66 (211)
T ss_dssp             CTTEEEEEECCTTSCHHHHHHHHHHHHHT----TTCCEEEECCCTTCHHHHHHHHHHHHHTTCC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHH----CCCcEEEEecccccccchhhhhhhhhhcCCc
Confidence            44689999999999999888777765432    223455544455544  44455555555543

>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=96.56  E-value=0.00079  Score=57.06  Aligned_cols=41  Identities=32%  Similarity=0.324  Sum_probs=31.3

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLES  266 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~  266 (444)
                      +||+|.|++|+||||+|+.+.++.....              .+..++++.+...
T Consensus         4 piI~I~GppGSGKgT~ak~La~~~gl~~--------------iStGdLlR~~a~~   44 (225)
T d1ckea_           4 PVITIDGPSGAGKGTLCKAMAEALQWHL--------------LDSGAIYRVLALA   44 (225)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHTCEE--------------EEHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhCCcE--------------ECHHHHHHHHHHH
Confidence            5999999999999999999998753321              3456777776544

>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=96.55  E-value=0.00053  Score=56.27  Aligned_cols=25  Identities=28%  Similarity=0.492  Sum_probs=22.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRA  236 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~  236 (444)
                      ++|+|.|++|+||||+++.+.....
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l~   26 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNLR   26 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHH
Confidence            6999999999999999999987643

>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=96.55  E-value=0.00058  Score=55.43  Aligned_cols=23  Identities=22%  Similarity=0.300  Sum_probs=21.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ++|.|.|++|+||||+|+.+.+.
T Consensus         4 kiI~l~G~~GsGKsTva~~L~~~   26 (178)
T d1qhxa_           4 RMIILNGGSSAGKSGIVRCLQSV   26 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            79999999999999999999876

>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=96.53  E-value=0.00069  Score=55.21  Aligned_cols=26  Identities=35%  Similarity=0.524  Sum_probs=22.4

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      +...+|.++|++|+||||+|+.+...
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~~   37 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLVS   37 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHh
Confidence            44579999999999999999988754

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=96.52  E-value=0.0052  Score=53.10  Aligned_cols=23  Identities=39%  Similarity=0.543  Sum_probs=20.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|.|||||++.+..-
T Consensus        29 Ei~~iiG~sGsGKSTLl~~i~Gl   51 (258)
T d1b0ua_          29 DVISIIGSSGSGKSTFLRCINFL   51 (258)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCcHHHHHHHHHcC
Confidence            59999999999999999999753

>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=96.50  E-value=0.00063  Score=55.13  Aligned_cols=27  Identities=30%  Similarity=0.383  Sum_probs=22.7

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ++...|.|.|++|+||||+|+.+.+..
T Consensus         3 pk~~~I~i~G~~GsGKTT~~~~La~~l   29 (174)
T d1y63a_           3 PKGINILITGTPGTGKTSMAEMIAAEL   29 (174)
T ss_dssp             CSSCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCCEEEEEeCCCCCHHHHHHHHHHHh
Confidence            344678999999999999999998753

>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=96.48  E-value=0.0038  Score=54.21  Aligned_cols=84  Identities=18%  Similarity=0.141  Sum_probs=56.5

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCC-----CcccHHHHHHHHH
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASC-----DLKALNEVQVQIK  285 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~-----~~~~~~~~~~~l~  285 (444)
                      -+++-|+|++|+|||||+.++.....-.   -..++|++....++...     ++.++....     ...+.++....+.
T Consensus        54 g~itei~G~~gsGKTtl~l~~~~~~q~~---g~~~vyidtE~~~~~~~-----a~~~Gvd~d~v~~~~~~~~E~~~~~i~  125 (263)
T d1u94a1          54 GRIVEIYGPESSGKTTLTLQVIAAAQRE---GKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEICD  125 (263)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHHHHHT---TCCEEEEESSCCCCHHH-----HHHTTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             ceEEEEecCCCcHHHHHHHHHHHHHHcC---CCEEEEEccccccCHHH-----HHHhCCCHHHEEEecCCCHHHHHHHHH
Confidence            3799999999999999999988765332   24578998888777643     445544322     2334555555555


Q ss_pred             HHhC-CceEEEEEeCCCC
Q 047559          286 RAVD-GKKLLLVLDDVWN  302 (444)
Q Consensus       286 ~~l~-~kr~LlVlDdv~~  302 (444)
                      ...+ ++.-|||+|.+-.
T Consensus       126 ~l~~~~~~~liViDSi~a  143 (263)
T d1u94a1         126 ALARSGAVDVIVVDSVAA  143 (263)
T ss_dssp             HHHHHTCCSEEEEECGGG
T ss_pred             HHHhcCCCCEEEEECccc
Confidence            5553 3445899999843

>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=96.47  E-value=0.0006  Score=55.08  Aligned_cols=27  Identities=33%  Similarity=0.343  Sum_probs=23.3

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVE  238 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~  238 (444)
                      ++++|+|..|+|||||+.++......+
T Consensus         2 kii~I~G~~gSGKTTli~~l~~~L~~~   28 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVAAAVRE   28 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHHhC
Confidence            589999999999999999998775433

>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=96.46  E-value=0.0006  Score=54.90  Aligned_cols=22  Identities=45%  Similarity=0.715  Sum_probs=19.9

Q ss_pred             EEEEecCCChHHHHHHHHhhcc
Q 047559          214 IPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      |.|+||+|+||||+++.++...
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            6778999999999999999875

>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=96.45  E-value=0.00074  Score=56.68  Aligned_cols=25  Identities=24%  Similarity=0.425  Sum_probs=22.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRA  236 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~  236 (444)
                      .+|.++|.+|+||||+|+++.....
T Consensus         3 ~li~l~GlpgsGKSTla~~L~~~l~   27 (213)
T d1bifa1           3 TLIVMVGLPARGKTYISKKLTRYLN   27 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHH
Confidence            6899999999999999999987543

>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=96.44  E-value=0.0022  Score=54.22  Aligned_cols=46  Identities=26%  Similarity=0.187  Sum_probs=33.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCC
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFAS  271 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~  271 (444)
                      -+|+|-|++|+||||+|+.+........              .+..++++.+........
T Consensus         4 i~IaIdGp~GsGKgT~ak~La~~lg~~~--------------istGdl~R~~a~~~~~~~   49 (223)
T d1q3ta_           4 IQIAIDGPASSGKSTVAKIIAKDFGFTY--------------LDTGAMYRAATYMALKNQ   49 (223)
T ss_dssp             CEEEEECSSCSSHHHHHHHHHHHHCCEE--------------EEHHHHHHHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCcE--------------ECHHHHHHHHHHHHHHcC
Confidence            4688999999999999999998753321              345677777765554433

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=96.44  E-value=0.0039  Score=53.79  Aligned_cols=22  Identities=32%  Similarity=0.581  Sum_probs=20.3

Q ss_pred             eEEEEEecCCChHHHHHHHHhh
Q 047559          212 AVIPIVGMAGVGKTTLAREVYN  233 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~  233 (444)
                      .+++|+|+.|+|||||++.+..
T Consensus        42 e~iaivG~sGsGKSTLl~ll~g   63 (253)
T d3b60a1          42 KTVALVGRSGSGKSTIASLITR   63 (253)
T ss_dssp             CEEEEEECTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCChHHHHHHHHhc
Confidence            5899999999999999999964

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

Probab=96.40  E-value=0.0052  Score=53.72  Aligned_cols=97  Identities=16%  Similarity=0.193  Sum_probs=54.1

Q ss_pred             HHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEE-eCCCCCHHHHHHHHHHHhc----c
Q 047559          195 KMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVC-VSDDFDVLNISRALLESIT----F  269 (444)
Q Consensus       195 ~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~-vs~~~~~~~~~~~il~~l~----~  269 (444)
                      ++++.|..-..     -.-++|+|..|+|||+|+..+.+.....  +-++++.+. +.....  + ...+.+...    .
T Consensus        32 r~ID~l~Pigr-----GQr~~I~g~~g~GKT~l~~~i~~~~~~~--~~~~v~~~~~iger~~--e-v~~~~~~~~~~vv~  101 (289)
T d1xpua3          32 RVLDLASPIGR-----GQRGLIVAPPKAGKTMLLQNIAQSIAYN--HPDCVLMVLLIDERPE--E-VTEMQRLVKGEVVA  101 (289)
T ss_dssp             HHHHHHSCCBT-----TCEEEEEECSSSSHHHHHHHHHHHHHHH--CTTSEEEEEEEEECHH--H-HHHHHHHCSSEEEE
T ss_pred             eeeeecccccC-----CCeeeEeCCCCCCHHHHHHHHHHHHhhc--CCCeEEEEEeeceeHH--H-HHhHHhhcceEEEe
Confidence            57777765432     2578999999999999999998764332  444444433 332221  1 122222221    1


Q ss_pred             CCCCcccH-----HHHHHHHHHHh--CCceEEEEEeCCC
Q 047559          270 ASCDLKAL-----NEVQVQIKRAV--DGKKLLLVLDDVW  301 (444)
Q Consensus       270 ~~~~~~~~-----~~~~~~l~~~l--~~kr~LlVlDdv~  301 (444)
                      +..+.+..     ....-.+.+++  +++.+||++||+-
T Consensus       102 ~t~d~~~~~r~~~~~~a~~iAEyfrd~G~dVLli~Dslt  140 (289)
T d1xpua3         102 STFDEPASRHVQVAEMVIEKAKRLVEHKKDVIILLDSIT  140 (289)
T ss_dssp             EETTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEESCHH
T ss_pred             ccCCCchhHHHHHHHHHHHHHHHHHHhccCceeecCcHH
Confidence            11111111     12233455555  6789999999983

>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=96.38  E-value=0.00071  Score=54.63  Aligned_cols=22  Identities=32%  Similarity=0.591  Sum_probs=18.8

Q ss_pred             EEEEecCCChHHHHHHHHhhcc
Q 047559          214 IPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      |.++|++|+||||+++.+++..
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            3455999999999999999775

>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=96.38  E-value=0.0023  Score=54.90  Aligned_cols=85  Identities=18%  Similarity=0.178  Sum_probs=51.3

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccC---------------CCCc
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESITFA---------------SCDL  274 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~---------------~~~~  274 (444)
                      .-.++.|.|.+|+|||+||.++..+.  .. +...++|++....  ...+.+.. ..++..               ....
T Consensus        25 ~gsl~li~G~pGsGKT~l~~qia~~~--~~-~~~~~~~is~e~~--~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~   98 (242)
T d1tf7a2          25 KDSIILATGATGTGKTLLVSRFVENA--CA-NKERAILFAYEES--RAQLLRNA-YSWGMDFEEMERQNLLKIVCAYPES   98 (242)
T ss_dssp             SSCEEEEEECTTSSHHHHHHHHHHHH--HT-TTCCEEEEESSSC--HHHHHHHH-HTTSCCHHHHHHTTSEEECCCCGGG
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHH--HH-hccccceeeccCC--HHHHHHHH-HHcCCChHHHhhcCceEEEEeecch
Confidence            34799999999999999999998773  22 5566778876543  33332222 222111               0012


Q ss_pred             ccHHHHHHHHHHHh-CCceEEEEEeCC
Q 047559          275 KALNEVQVQIKRAV-DGKKLLLVLDDV  300 (444)
Q Consensus       275 ~~~~~~~~~l~~~l-~~kr~LlVlDdv  300 (444)
                      .........+...+ ..+.-++|+|.+
T Consensus        99 ~~~~~~~~~i~~~i~~~~~~~vviDs~  125 (242)
T d1tf7a2          99 AGLEDHLQIIKSEINDFKPARIAIDSL  125 (242)
T ss_dssp             SCHHHHHHHHHHHHHTTCCSEEEEECH
T ss_pred             hhHHHHHHHHHHHHHhcCCceeeeecc
Confidence            33445555565555 445668888986

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=96.37  E-value=0.00061  Score=55.36  Aligned_cols=23  Identities=39%  Similarity=0.499  Sum_probs=20.3

Q ss_pred             EEEEEecCCChHHHHHHHHhhcc
Q 047559          213 VIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .|.++|++|+||||+|+.+++..
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~~L   26 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELARAL   26 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            46688999999999999999864

>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=96.33  E-value=0.0037  Score=53.92  Aligned_cols=22  Identities=36%  Similarity=0.575  Sum_probs=20.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhh
Q 047559          212 AVIPIVGMAGVGKTTLAREVYN  233 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~  233 (444)
                      ..++|+|..|+|||||++.+..
T Consensus        45 e~vaivG~sGsGKSTLl~ll~g   66 (255)
T d2hyda1          45 ETVAFVGMSGGGKSTLINLIPR   66 (255)
T ss_dssp             CEEEEECSTTSSHHHHHTTTTT
T ss_pred             CEEEEECCCCCcHHHHHHHHHh
Confidence            5899999999999999998864

>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=96.33  E-value=0.0074  Score=51.60  Aligned_cols=22  Identities=27%  Similarity=0.439  Sum_probs=20.4

Q ss_pred             eEEEEEecCCChHHHHHHHHhh
Q 047559          212 AVIPIVGMAGVGKTTLAREVYN  233 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~  233 (444)
                      ..++|+|+.|+|||||++.+..
T Consensus        29 e~vaivG~sGsGKSTLl~ll~g   50 (242)
T d1mv5a_          29 SIIAFAGPSGGGKSTIFSLLER   50 (242)
T ss_dssp             EEEEEECCTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            6999999999999999999864

>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=96.30  E-value=0.00088  Score=54.53  Aligned_cols=22  Identities=45%  Similarity=0.659  Sum_probs=20.1

Q ss_pred             EEEEecCCChHHHHHHHHhhcc
Q 047559          214 IPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      |.|+|++|+|||||++.+....
T Consensus         3 i~I~G~~G~GKSTLl~~i~~~l   24 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVERL   24 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCcHHHHHHHHHHhcC
Confidence            7999999999999999998754

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=96.25  E-value=0.0092  Score=52.85  Aligned_cols=80  Identities=13%  Similarity=0.064  Sum_probs=43.9

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHh--ccCCCCcccHHHHHHHHHH
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESI--TFASCDLKALNEVQVQIKR  286 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l--~~~~~~~~~~~~~~~~l~~  286 (444)
                      ...-+|+|.|..|+||||+|+.+........ .-..+.-++...=+-..+.+..  +.+  ....+++-+.+.+...|..
T Consensus        78 k~P~iIGIaG~sgSGKSTla~~L~~lL~~~~-~~~~v~~Is~D~F~~~~~~l~~--~~~~~~~g~Pes~D~~~L~~~L~~  154 (308)
T d1sq5a_          78 RIPYIISIAGSVAVGKSTTARVLQALLSRWP-EHRRVELITTDGFLHPNQVLKE--RGLMKKKGFPESYDMHRLVKFVSD  154 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHHHTTST-TCCCEEEEEGGGGBCCHHHHHH--HTCTTCTTSGGGBCHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCCCcHHHHHHHHHHhhhc-CCCceEEEeeeeeECCchHHHH--hcCCccCCchHhhhHHHHHHHHHH
Confidence            4568999999999999999999876532110 1112223333222222222211  111  1122345677777777777


Q ss_pred             HhCCc
Q 047559          287 AVDGK  291 (444)
Q Consensus       287 ~l~~k  291 (444)
                      ...++
T Consensus       155 lk~g~  159 (308)
T d1sq5a_         155 LKSGV  159 (308)
T ss_dssp             HTTTC
T ss_pred             HHcCC
Confidence            76554

>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=96.25  E-value=0.0018  Score=53.59  Aligned_cols=25  Identities=28%  Similarity=0.393  Sum_probs=22.5

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .++|.|.|++|+||||+|+.+.+..
T Consensus         8 ~~iI~l~G~pGSGKsT~a~~La~~~   32 (194)
T d3adka_           8 SKIIFVVGGPGSGKGTQCEKIVQKY   32 (194)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHT
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            3799999999999999999998864

>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=96.20  E-value=0.0067  Score=50.78  Aligned_cols=24  Identities=17%  Similarity=0.271  Sum_probs=21.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      -+|+|.|..|+||||+|+.+.+..
T Consensus         3 ~iIgI~G~~gSGKSTla~~L~~~l   26 (213)
T d1uj2a_           3 FLIGVSGGTASGKSSVCAKIVQLL   26 (213)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHh
Confidence            689999999999999999987764

>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=96.18  E-value=0.0049  Score=51.46  Aligned_cols=58  Identities=24%  Similarity=0.146  Sum_probs=29.9

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCC-CCHHHHHHHHHHHhcc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDD-FDVLNISRALLESITF  269 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~-~~~~~~~~~il~~l~~  269 (444)
                      ....||.++|+.|+||||.+-+++.....+  .. .+..|++... ....+-++...+.++.
T Consensus        10 k~p~vi~lvGptGvGKTTTiAKLA~~~~~~--g~-kV~lit~Dt~R~ga~eQL~~~a~~l~v   68 (211)
T d1j8yf2          10 KIPYVIMLVGVQGTGKATTAGKLAYFYKKK--GF-KVGLVGADVYRPAALEQLQQLGQQIGV   68 (211)
T ss_dssp             SSSEEEEEECSCCC----HHHHHHHHHHHT--TC-CEEEEECCCSSHHHHHHHHHHHHHHTC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHC--CC-ceEEEEeeccccchhHHHHHhccccCc
Confidence            345899999999999998877776554322  22 3455554321 1223334444444443

>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=96.17  E-value=0.0022  Score=52.78  Aligned_cols=24  Identities=21%  Similarity=0.202  Sum_probs=21.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..|.|.|++|+||||+|+.+.+..
T Consensus         4 m~I~i~GppGsGKsT~a~~La~~~   27 (189)
T d1zaka1           4 LKVMISGAPASGKGTQCELIKTKY   27 (189)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            457799999999999999998764

>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=96.15  E-value=0.0013  Score=54.46  Aligned_cols=24  Identities=25%  Similarity=0.390  Sum_probs=21.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+|.|.|++|+||||+|+.+++..
T Consensus         2 ~iI~i~GppGSGKsT~a~~La~~~   25 (194)
T d1teva_           2 LVVFVLGGPGAGKGTQCARIVEKY   25 (194)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            589999999999999999999864

>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=96.14  E-value=0.022  Score=47.25  Aligned_cols=27  Identities=30%  Similarity=0.310  Sum_probs=22.0

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhccc
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDRA  236 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  236 (444)
                      +.+|+.++|+.|+||||.+.+++....
T Consensus         9 ~~~vi~lvGp~GvGKTTTiaKLA~~~~   35 (207)
T d1ls1a2           9 DRNLWFLVGLQGSGKTTTAAKLALYYK   35 (207)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHH
Confidence            347999999999999988877766543

>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=96.13  E-value=0.0014  Score=53.72  Aligned_cols=25  Identities=28%  Similarity=0.388  Sum_probs=22.3

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRA  236 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~  236 (444)
                      ++|.|.|++|+||||+++.+.....
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~L~   26 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEILD   26 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH
Confidence            6899999999999999999987653

>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=96.12  E-value=0.0068  Score=50.44  Aligned_cols=57  Identities=16%  Similarity=0.058  Sum_probs=35.4

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCC-CCCHHHHHHHHHHHhcc
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSD-DFDVLNISRALLESITF  269 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~-~~~~~~~~~~il~~l~~  269 (444)
                      +.+++.++|+.|+||||.+-+++......  . ..+..++... .....+-++...+.++.
T Consensus         5 ~~~vi~lvGptGvGKTTTiaKLA~~~~~~--g-~kV~lit~Dt~R~gA~eQL~~~a~~l~i   62 (207)
T d1okkd2           5 KGRVVLVVGVNGVGKTTTIAKLGRYYQNL--G-KKVMFCAGDTFRAAGGTQLSEWGKRLSI   62 (207)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHHTT--T-CCEEEECCCCSSTTHHHHHHHHHHHHTC
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHC--C-CcEEEEEeccccccchhhHhhcccccCc
Confidence            44799999999999998887777654322  2 2455665443 23344555555555443

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.10  E-value=0.037  Score=48.19  Aligned_cols=24  Identities=29%  Similarity=0.504  Sum_probs=21.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+++|+|+.|+|||||++.+..-.
T Consensus        63 e~vaivG~nGsGKSTLl~~i~Gl~   86 (281)
T d1r0wa_          63 EMLAITGSTGSGKTSLLMLILGEL   86 (281)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             CEEEEECCCCChHHHHHHHHhCCC
Confidence            589999999999999999997643

>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=96.08  E-value=0.0074  Score=52.06  Aligned_cols=23  Identities=35%  Similarity=0.426  Sum_probs=21.1

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+++|+|+.|.|||||++.+..-
T Consensus        31 ei~~liG~nGaGKSTLl~~i~Gl   53 (254)
T d1g6ha_          31 DVTLIIGPNGSGKSTLINVITGF   53 (254)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCcHHHHHHHHHCC
Confidence            58999999999999999999764

>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=96.05  E-value=0.0017  Score=53.58  Aligned_cols=26  Identities=23%  Similarity=0.417  Sum_probs=21.3

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+.++| |+|++|+||||+|+.+.+..
T Consensus         2 ~~~rii-l~G~pGSGKsT~a~~La~~~   27 (190)
T d1ak2a1           2 KGVRAV-LLGPPGAGKGTQAPKLAKNF   27 (190)
T ss_dssp             CCCEEE-EECCTTSSHHHHHHHHHHHH
T ss_pred             CccEEE-EECCCCCCHHHHHHHHHHHh
Confidence            345666 68999999999999998753

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=96.00  E-value=0.0084  Score=53.32  Aligned_cols=24  Identities=21%  Similarity=0.336  Sum_probs=21.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .++.++|++|+|||.||+.+....
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            467779999999999999999874

>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=95.95  E-value=0.0097  Score=49.65  Aligned_cols=58  Identities=19%  Similarity=0.111  Sum_probs=35.8

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCC-CCHHHHHHHHHHHhcc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDD-FDVLNISRALLESITF  269 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~-~~~~~~~~~il~~l~~  269 (444)
                      .+..||.++|+.|+||||.+.+++.....+  . ..+..+++... ....+-++...+.++.
T Consensus         9 ~~p~vi~lvGptGvGKTTTiAKLAa~~~~~--~-~kV~lit~Dt~R~gA~eQL~~~a~~l~i   67 (213)
T d1vmaa2           9 EPPFVIMVVGVNGTGKTTSCGKLAKMFVDE--G-KSVVLAAADTFRAAAIEQLKIWGERVGA   67 (213)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHHHHT--T-CCEEEEEECTTCHHHHHHHHHHHHHHTC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHC--C-CceEEEeecccccchhHHHHHHhhhcCc
Confidence            455799999999999998877777654322  2 34555554431 2233445555555543

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=95.94  E-value=0.0033  Score=51.81  Aligned_cols=25  Identities=28%  Similarity=0.417  Sum_probs=20.9

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .--|.|.|++|+||||+|+.+....
T Consensus         6 ~mrIiliG~PGSGKtT~a~~La~~~   30 (189)
T d2ak3a1           6 LLRAAIMGAPGSGKGTVSSRITKHF   30 (189)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHB
T ss_pred             ceeEEEECCCCCCHHHHHHHHHHHH
Confidence            3456678999999999999999864

>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=95.89  E-value=0.012  Score=49.90  Aligned_cols=22  Identities=32%  Similarity=0.573  Sum_probs=20.3

Q ss_pred             eEEEEEecCCChHHHHHHHHhh
Q 047559          212 AVIPIVGMAGVGKTTLAREVYN  233 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~  233 (444)
                      .+++|+|+.|.|||||.+.+..
T Consensus        26 ei~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          26 EILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             CEEECBCCTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCCcHHHHHHHHhC
Confidence            5999999999999999998875

>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=95.87  E-value=0.0025  Score=53.49  Aligned_cols=26  Identities=31%  Similarity=0.351  Sum_probs=22.6

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhcc
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      +..+|.+.|++|+||||||+.+....
T Consensus        23 kg~vIwltGlsGsGKTTia~~L~~~l   48 (208)
T d1m7ga_          23 RGLTIWLTGLSASGKSTLAVELEHQL   48 (208)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            34799999999999999999998653

>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=95.82  E-value=0.0019  Score=52.70  Aligned_cols=22  Identities=27%  Similarity=0.531  Sum_probs=19.9

Q ss_pred             EEEEecCCChHHHHHHHHhhcc
Q 047559          214 IPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      |.|.|++|+||||+|+.+....
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1zina1           3 LVLMGLPGAGKGTQAEKIVAAY   24 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            7799999999999999998764

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=95.70  E-value=0.0023  Score=52.36  Aligned_cols=23  Identities=30%  Similarity=0.501  Sum_probs=20.5

Q ss_pred             EEEEEecCCChHHHHHHHHhhcc
Q 047559          213 VIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .|.|.|++|+||||+|+.+++..
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            37789999999999999999864

>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=95.70  E-value=0.0066  Score=54.38  Aligned_cols=58  Identities=21%  Similarity=0.163  Sum_probs=36.7

Q ss_pred             HHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCC
Q 047559          193 KAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFD  255 (444)
Q Consensus       193 ~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~  255 (444)
                      ..++++.+....    .+..+|+|.|++|+|||||...+....+..+ +--.++=++.+.+++
T Consensus        37 ~~~~~~~~~~~~----~~~~~igitG~pGaGKSTli~~l~~~~~~~g-~~vaViavDpss~~~   94 (323)
T d2qm8a1          37 VRDLIDAVLPQT----GRAIRVGITGVPGVGKSTTIDALGSLLTAAG-HKVAVLAVDPSSTRT   94 (323)
T ss_dssp             HHHHHHHHGGGC----CCSEEEEEECCTTSCHHHHHHHHHHHHHHTT-CCEEEEEECGGGGSS
T ss_pred             HHHHHHHhhhcc----CCceEEeeeCCCCCCHHHHHHHHHHHHhhcC-CceeeeecccccHHH
Confidence            445555554332    4558999999999999999999886543332 223344444444443

>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=95.67  E-value=0.0025  Score=52.12  Aligned_cols=23  Identities=30%  Similarity=0.481  Sum_probs=21.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ++|.|+|++|+|||||++.+.++
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~~   25 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRER   25 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHhh
Confidence            58899999999999999998765

>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=95.65  E-value=0.0024  Score=52.11  Aligned_cols=23  Identities=26%  Similarity=0.358  Sum_probs=20.3

Q ss_pred             EEEEEecCCChHHHHHHHHhhcc
Q 047559          213 VIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      -|.|.|++|+||||+|+.+++..
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            36788999999999999999764

>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=95.62  E-value=0.0022  Score=53.02  Aligned_cols=22  Identities=27%  Similarity=0.668  Sum_probs=19.7

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .|.|+|++|+|||||++.+...
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~   23 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQE   23 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHh
Confidence            4779999999999999999865

>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=95.59  E-value=0.0078  Score=53.95  Aligned_cols=67  Identities=16%  Similarity=0.057  Sum_probs=34.8

Q ss_pred             HHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHH
Q 047559          193 KAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALL  264 (444)
Q Consensus       193 ~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il  264 (444)
                      ..+++..+....    ++..+|+|+|++|+|||||...+.....-++ +=-+++=++.+.+++-..++.+-.
T Consensus        40 ~~~ll~~~~~~~----~~~~~IgitG~pGaGKSTLi~~l~~~~~~~g-~~vavlavDpss~~~ggailgdr~  106 (327)
T d2p67a1          40 STQLLDAIMPYC----GNTLRLGVTGTPGAGKSTFLEAFGMLLIREG-LKVAVIAVDPSSPVTGGSILGDKT  106 (327)
T ss_dssp             HHHHHHHHGGGC----SCSEEEEEEECTTSCHHHHHHHHHHHHHHTT-CCEEEEEECCC-------------
T ss_pred             HHHHHHHhhhcc----CCceEEEeeCCCCCCHHHHHHHHHHHHHhcC-CceeeecCCCceeeeccccccchh
Confidence            344555554322    4568999999999999999999876654332 222334455555555555554433

>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=95.53  E-value=0.0024  Score=52.46  Aligned_cols=23  Identities=35%  Similarity=0.645  Sum_probs=20.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      +.|.|+|++|+|||||++.+.++
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~~   24 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHh
Confidence            45889999999999999999876

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=95.48  E-value=0.019  Score=49.88  Aligned_cols=87  Identities=16%  Similarity=0.217  Sum_probs=50.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCC-HHHHHHHHHHHhcc-------CCCCccc-----HH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFD-VLNISRALLESITF-------ASCDLKA-----LN  278 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~-~~~~~~~il~~l~~-------~~~~~~~-----~~  278 (444)
                      .-++|+|.+|+|||+|+.......  .. +-+.++++-+..... ..++...+...=..       +..+...     ..
T Consensus        68 Qr~~Ifg~~g~GKt~l~~~~~~~~--~~-~~~v~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~tsd~p~~~r~~a~  144 (276)
T d1fx0a3          68 QRELIIGDRQTGKTAVATDTILNQ--QG-QNVICVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYLAP  144 (276)
T ss_dssp             CBCBEEESSSSSHHHHHHHHHHTC--CT-TTCEEEEEEESCCHHHHHHHHHHTGGGTGGGSEEEEEECTTSCGGGTTHHH
T ss_pred             ceEeeccCCCCChHHHHHHHHhhh--cc-cCceeeeeeecchhHHHHHHHHhhccCCcceeeeecccccCccHHHHHHHH
Confidence            358899999999999998755442  22 445778887776543 33444443322100       0011111     11


Q ss_pred             HHHHHHHHHh--CCceEEEEEeCCC
Q 047559          279 EVQVQIKRAV--DGKKLLLVLDDVW  301 (444)
Q Consensus       279 ~~~~~l~~~l--~~kr~LlVlDdv~  301 (444)
                      ...-.+.+++  +++++|+++||+-
T Consensus       145 ~~a~tiAEyfrd~G~~Vlll~Dslt  169 (276)
T d1fx0a3         145 YTGAALAEYFMYRERHTLIIYDDLS  169 (276)
T ss_dssp             HHHHHHHHHHHHTTCEEEEEEECHH
T ss_pred             HHHHHHHHHHHHcCCceeEEeeccH
Confidence            2333455555  6889999999993

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.46  E-value=0.024  Score=49.47  Aligned_cols=81  Identities=14%  Similarity=0.092  Sum_probs=46.1

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhccccccCCcc-eeEEEEeCCCCCHHHHHHHHHHHhc-------cCCCCcccHHHH
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFD-VKAWVCVSDDFDVLNISRALLESIT-------FASCDLKALNEV  280 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~-~~~wv~vs~~~~~~~~~~~il~~l~-------~~~~~~~~~~~~  280 (444)
                      ...-+|+|.|..|+|||||+..+........ .+. .++-++..+=+-..+-...+.....       ...+++-+...+
T Consensus        25 ~~P~iIGi~G~qGSGKSTl~~~l~~~L~~~~-~~~~~v~~iS~DdfY~t~~~r~~L~~~~~~~pl~~~RG~PgThD~~ll  103 (286)
T d1odfa_          25 KCPLFIFFSGPQGSGKSFTSIQIYNHLMEKY-GGEKSIGYASIDDFYLTHEDQLKLNEQFKNNKLLQGRGLPGTHDMKLL  103 (286)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHHHHHH-GGGSCEEEEEGGGGBCCHHHHHHHHHHTTTCGGGSSSCSTTSBCHHHH
T ss_pred             CCCEEEEeECCCCCCHHHHHHHHHHHHHHHh-CCCcceEeeccCCCCCCHHHHHHHhhhccccccceecCCCcchhHHHH
Confidence            4456999999999999999988876532221 122 3344454332222222223333321       233566777777


Q ss_pred             HHHHHHHhCC
Q 047559          281 QVQIKRAVDG  290 (444)
Q Consensus       281 ~~~l~~~l~~  290 (444)
                      .+.|....++
T Consensus       104 ~~~l~~l~~~  113 (286)
T d1odfa_         104 QEVLNTIFNN  113 (286)
T ss_dssp             HHHHHHHTC-
T ss_pred             HHHHHHHHhh
Confidence            7777776654

>d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: HCV helicase domain
species: Human hepatitis C virus (HCV), different isolates [TaxId: 11103]

Probab=95.41  E-value=0.032  Score=42.64  Aligned_cols=52  Identities=17%  Similarity=0.166  Sum_probs=35.2

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHh
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESI  267 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l  267 (444)
                      ++.++..|+++.|.|||+++-.++..       ...++.+.+....-..+....+.+.+
T Consensus         6 ~~~~~~ll~apTGsGKT~~~~~~~~~-------~~~~vli~~P~~~l~~q~~~~~~~~~   57 (136)
T d1a1va1           6 QSFQVAHLHAPTGSGKSTKVPAAYAA-------QGYKVLVLNPSVAATLGFGAYMSKAH   57 (136)
T ss_dssp             SSCEEEEEECCTTSCTTTHHHHHHHT-------TTCCEEEEESCHHHHHHHHHHHHHHH
T ss_pred             cCCCEEEEEeCCCCCHHHHHHHHHHH-------cCCcEEEEcChHHHHHHHHHHHHHHh
Confidence            34588999999999999998766542       33456777766555555555554444

>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=95.36  E-value=0.0037  Score=50.87  Aligned_cols=22  Identities=27%  Similarity=0.321  Sum_probs=19.6

Q ss_pred             EEEEecCCChHHHHHHHHhhcc
Q 047559          214 IPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      |.|.|++|+||||+|+.+++..
T Consensus         3 I~i~G~pGSGKsT~~~~La~~~   24 (179)
T d1e4va1           3 IILLGAPVAGKGTQAQFIMEKY   24 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6789999999999999998764

>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=95.36  E-value=0.0035  Score=51.07  Aligned_cols=22  Identities=27%  Similarity=0.415  Sum_probs=19.1

Q ss_pred             EEEEecCCChHHHHHHHHhhcc
Q 047559          214 IPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      |.|.|++|+||||+|+.+.+..
T Consensus         5 Ivl~G~pGSGKtT~a~~La~~~   26 (180)
T d1akya1           5 MVLIGPPGAGKGTQAPNLQERF   26 (180)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5577999999999999998764

>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=95.35  E-value=0.0038  Score=50.85  Aligned_cols=23  Identities=17%  Similarity=0.491  Sum_probs=20.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      +.|.|+|++|+|||||++++..+
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~~   26 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLITK   26 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHHh
Confidence            57999999999999999998865

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.35  E-value=0.0092  Score=49.85  Aligned_cols=26  Identities=27%  Similarity=0.427  Sum_probs=22.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcccc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAV  237 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~  237 (444)
                      ..|+|-|+.|+||||+++.+.+....
T Consensus         4 ~lI~ieG~dGsGKsT~~~~L~~~L~~   29 (209)
T d1nn5a_           4 ALIVLEGVDRAGKSTQSRKLVEALCA   29 (209)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            57899999999999999999887543

>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=95.23  E-value=0.011  Score=53.73  Aligned_cols=52  Identities=17%  Similarity=0.191  Sum_probs=32.6

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccc-cccCCcceeEEEEeCCCCCHHHHHHHHH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRA-VEDSKFDVKAWVCVSDDFDVLNISRALL  264 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~-~~~~~f~~~~wv~vs~~~~~~~~~~~il  264 (444)
                      ++..|.|++|.||||++..+..... ... .-...+.+..+..-....+...+.
T Consensus       164 ~~~vI~G~pGTGKTt~i~~~l~~l~~~~~-~~~~~I~l~ApTgkAA~~L~e~~~  216 (359)
T d1w36d1         164 RISVISGGPGTGKTTTVAKLLAALIQMAD-GERCRIRLAAPTGKAAARLTESLG  216 (359)
T ss_dssp             SEEEEECCTTSTHHHHHHHHHHHHHHTCS-SCCCCEEEEBSSHHHHHHHHHHHT
T ss_pred             CeEEEEcCCCCCceehHHHHHHHHHHHHh-ccCCeEEEecCcHHHHHHHHHHHH
Confidence            6899999999999998865543221 111 234567777766555555444443

>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=95.21  E-value=0.0055  Score=50.36  Aligned_cols=22  Identities=36%  Similarity=0.459  Sum_probs=19.6

Q ss_pred             ceEEEEEecCCChHHHHHHHHh
Q 047559          211 LAVIPIVGMAGVGKTTLAREVY  232 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~  232 (444)
                      .-+|+|.|..|+||||+|..+-
T Consensus         3 p~IIgitG~~gSGKstva~~l~   24 (191)
T d1uf9a_           3 PIIIGITGNIGSGKSTVAALLR   24 (191)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH
Confidence            3689999999999999998774

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=95.16  E-value=0.0054  Score=51.18  Aligned_cols=23  Identities=17%  Similarity=0.395  Sum_probs=21.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .++.|+|++|+|||||.+.+...
T Consensus         3 ~livi~GPSG~GK~tl~~~L~~~   25 (205)
T d1s96a_           3 TLYIVSAPSGAGKSSLIQALLKT   25 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHhh
Confidence            58899999999999999999875

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.13  E-value=0.093  Score=44.37  Aligned_cols=48  Identities=15%  Similarity=0.104  Sum_probs=34.9

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhccc----cccCCcceeEEEEeCCCCCHH
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDRA----VEDSKFDVKAWVCVSDDFDVL  257 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~----~~~~~f~~~~wv~vs~~~~~~  257 (444)
                      +.-+++.|.|.+|+|||++|.++.....    ... .+....|+.....+...
T Consensus        35 p~G~~~~i~G~~GsGKT~lalq~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~   86 (258)
T d1v5wa_          35 ESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGY-PGGKIIFIDTENTFRPD   86 (258)
T ss_dssp             CSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTB-CCCEEEEEESSSCCCHH
T ss_pred             cCCEEEEEECCCCCCHHHHHHHHHHHHHhhhhccc-ccceEEEechHHHHHHH
Confidence            4448999999999999999999875421    112 45677888877766544

>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=95.08  E-value=0.033  Score=48.46  Aligned_cols=90  Identities=19%  Similarity=0.243  Sum_probs=49.4

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccC-----CcceeEEEEeCCCCC-HHHHHHHHHHHhcc--------CCCCcccH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDS-----KFDVKAWVCVSDDFD-VLNISRALLESITF--------ASCDLKAL  277 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~-----~f~~~~wv~vs~~~~-~~~~~~~il~~l~~--------~~~~~~~~  277 (444)
                      .-++|+|.+|+|||+|+..+.........     .-..++++-++.... ..++...+...-..        ...+....
T Consensus        69 Qr~~If~~~g~GKt~ll~~~~~~~~~~~~~~~~~~~~~~v~~~IGer~~E~~e~~~~~~~~~~~~~tvvv~~ts~~~~~~  148 (285)
T d2jdia3          69 QRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAPL  148 (285)
T ss_dssp             CBCEEEESTTSSHHHHHHHHHHHTHHHHTSSCTTTCCEEEEEEESCCHHHHHHHHHHHHHTTCGGGEEEEEECTTSCHHH
T ss_pred             CEEEeecCCCCChHHHHHHHHHhHHhhccccccccceEEEEeeeCccHHHHHHHHHHhcccccccceEEEEECCCCCHHH
Confidence            46899999999999998877644211110     111346666666543 34555554432111        01111111


Q ss_pred             HH----HHHHHHHHh--CCceEEEEEeCCC
Q 047559          278 NE----VQVQIKRAV--DGKKLLLVLDDVW  301 (444)
Q Consensus       278 ~~----~~~~l~~~l--~~kr~LlVlDdv~  301 (444)
                      ..    ..-.+.+++  ++|++|+++||+-
T Consensus       149 r~~~~~~a~tiAEyfrd~G~~VLll~Dslt  178 (285)
T d2jdia3         149 QYLAPYSGCSMGEYFRDNGKHALIIYDDLS  178 (285)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCEEEEEEETHH
T ss_pred             HHHHHHHHHHHHHHHHHcCCcEEEEEcChH
Confidence            11    122344555  6899999999993

>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=95.04  E-value=0.0054  Score=50.59  Aligned_cols=26  Identities=27%  Similarity=0.250  Sum_probs=22.4

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ....+|+|-|..|+||||+++.+.+.
T Consensus         7 ~kp~~I~ieG~~GsGKTTl~~~L~~~   32 (197)
T d2vp4a1           7 TQPFTVLIEGNIGSGKTTYLNHFEKY   32 (197)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHH
Confidence            34468999999999999999988765

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=94.96  E-value=0.041  Score=45.56  Aligned_cols=25  Identities=36%  Similarity=0.418  Sum_probs=21.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRA  236 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~  236 (444)
                      +.|+|-|+.|+||||+++.+.+...
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~~L~   27 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVETLE   27 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHH
Confidence            5789999999999999999987643

>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=94.82  E-value=0.031  Score=47.54  Aligned_cols=50  Identities=22%  Similarity=0.281  Sum_probs=34.9

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhccccc---cCCcceeEEEEeCCCCCHHHH
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDRAVE---DSKFDVKAWVCVSDDFDVLNI  259 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~---~~~f~~~~wv~vs~~~~~~~~  259 (444)
                      .-+++.|.|++|+|||+||.++..+....   .......+|+......+...+
T Consensus        35 ~G~~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (254)
T d1pzna2          35 TQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERI   87 (254)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHH
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHhhchHHhcCCCceEEEEeccchhHHHHH
Confidence            34899999999999999999887543211   013456788887776665443

>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=94.81  E-value=0.019  Score=48.68  Aligned_cols=47  Identities=11%  Similarity=0.089  Sum_probs=32.8

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhcccccc---CCcceeEEEEeCCCCCH
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDRAVED---SKFDVKAWVCVSDDFDV  256 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~---~~f~~~~wv~vs~~~~~  256 (444)
                      .-+++.|.|.+|+|||||+.++........   ..-...+|++....+..
T Consensus        33 ~G~~~li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~~~~~   82 (251)
T d1szpa2          33 TGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRP   82 (251)
T ss_dssp             SSSEEEEEESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSSCCCG
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHhhhhhhhccCCceEEEEeecchHHH
Confidence            337999999999999999998875532211   02246778877666553

>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=94.79  E-value=0.1  Score=43.91  Aligned_cols=25  Identities=24%  Similarity=0.367  Sum_probs=22.0

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      -.++.|.|.+|+|||++|.+++.+.
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            3799999999999999999987543

>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=94.73  E-value=0.0075  Score=51.36  Aligned_cols=22  Identities=45%  Similarity=0.582  Sum_probs=20.1

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ||+|+|+.|+|||||...+.+.
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~   23 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRY   23 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Confidence            7999999999999999998754

>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=94.54  E-value=0.0083  Score=47.23  Aligned_cols=21  Identities=33%  Similarity=0.476  Sum_probs=18.8

Q ss_pred             EEEEecCCChHHHHHHHHhhc
Q 047559          214 IPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (444)
                      |.|+|.+|+|||||.+.+..+
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~   23 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLG   23 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            679999999999999998755

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Gene 4 protein (g4p, DNA primase), helicase domain
species: Bacteriophage T7 [TaxId: 10760]

Probab=94.53  E-value=0.087  Score=45.50  Aligned_cols=53  Identities=17%  Similarity=0.112  Sum_probs=35.1

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCCCCCHHHHHHHHHHHhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSDDFDVLNISRALLESIT  268 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~  268 (444)
                      .++.|.|.+|+|||+++..+..+..... .+ .+.+++  -..+..++...++....
T Consensus        36 ~l~vi~G~~G~GKT~~~~~la~~~a~~~-g~-~v~~~s--~E~~~~~~~~r~~~~~~   88 (277)
T d1cr2a_          36 EVIMVTSGSGMGKSTFVRQQALQWGTAM-GK-KVGLAM--LEESVEETAEDLIGLHN   88 (277)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHHHTS-CC-CEEEEE--SSSCHHHHHHHHHHHHT
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHhhhhhc-cc-ceeEee--eccchhhHHhHHHHHhh
Confidence            5889999999999999988876532222 22 334444  34556777777666544

>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=94.52  E-value=0.016  Score=52.66  Aligned_cols=27  Identities=26%  Similarity=0.153  Sum_probs=23.6

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ++.+.+.++|++|+|||++|..+++..
T Consensus       152 ~~~~~~~~~g~~~~gk~~~~~~~~~~~  178 (362)
T d1svma_         152 PKKRYWLFKGPIDSGKTTLAAALLELC  178 (362)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCcCeEEEECCCCCCHHHHHHHHHHHc
Confidence            444799999999999999999999864

>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=94.47  E-value=0.018  Score=50.17  Aligned_cols=37  Identities=24%  Similarity=0.423  Sum_probs=27.1

Q ss_pred             hHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhc
Q 047559          192 DKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       192 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ++..+.+.+..      +..+||.+.|-||+||||++-.+...
T Consensus         7 ~~~~~~~~~~~------~~~~iii~sGKGGVGKTT~a~nLA~~   43 (279)
T d1ihua2           7 SLSALVDDIAR------NEHGLIMLMGKGGVGKTTMAAAIAVR   43 (279)
T ss_dssp             CHHHHHHHHHT------TSCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             cHHHHHHHhhc------CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            35566666653      34489999999999999987666543

>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=94.40  E-value=0.0066  Score=54.76  Aligned_cols=44  Identities=23%  Similarity=0.369  Sum_probs=31.3

Q ss_pred             CcccccchhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhh
Q 047559          184 RAVFGRQQDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYN  233 (444)
Q Consensus       184 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~  233 (444)
                      ..++|.+.-+..+.-.+....      ..-+.|.|.+|+||||||+.+..
T Consensus         7 ~~I~Gq~~~kral~laa~~~~------~h~vLl~G~pG~GKT~lar~~~~   50 (333)
T d1g8pa_           7 SAIVGQEDMKLALLLTAVDPG------IGGVLVFGDRGTGKSTAVRALAA   50 (333)
T ss_dssp             GGSCSCHHHHHHHHHHHHCGG------GCCEEEECCGGGCTTHHHHHHHH
T ss_pred             hhccCcHHHHHHHHHHHhccC------CCeEEEECCCCccHHHHHHHHHH
Confidence            358999877665554333211      12489999999999999998863

>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=94.36  E-value=0.01  Score=47.02  Aligned_cols=23  Identities=35%  Similarity=0.504  Sum_probs=20.2

Q ss_pred             EEEEEecCCChHHHHHHHHhhcc
Q 047559          213 VIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      -|+|+|.+|+|||||.+.+.++.
T Consensus         7 kI~ivG~~~vGKSSLi~~~~~~~   29 (169)
T d1upta_           7 RILILGLDGAGKTTILYRLQVGE   29 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            37899999999999999987764

>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=94.35  E-value=0.011  Score=51.32  Aligned_cols=24  Identities=25%  Similarity=0.470  Sum_probs=20.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      +.|+|+|-||+||||+|-.+....
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            689999999999999998876654

>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=94.30  E-value=0.012  Score=50.08  Aligned_cols=25  Identities=24%  Similarity=0.303  Sum_probs=22.4

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ++.|+|-|+-|+||||+++.+.+..
T Consensus         2 pk~IviEG~~GsGKST~~~~L~~~l   26 (241)
T d2ocpa1           2 PRRLSIEGNIAVGKSTFVKLLTKTY   26 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHC
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHH
Confidence            4789999999999999999998753

>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=94.24  E-value=0.014  Score=47.84  Aligned_cols=26  Identities=27%  Similarity=0.505  Sum_probs=22.6

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .++..|+|+|.+|+|||||...+.+.
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            44567999999999999999999864

>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=94.09  E-value=0.0091  Score=50.79  Aligned_cols=25  Identities=24%  Similarity=0.256  Sum_probs=22.1

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      .+.|+|-|+.|+||||+++.+.+..
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            3789999999999999999988753

>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=94.07  E-value=0.022  Score=47.91  Aligned_cols=39  Identities=18%  Similarity=0.276  Sum_probs=26.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhccccccCCcceeEEEEeCC
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVSD  252 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs~  252 (444)
                      .++.|.|.+|+|||+||.++.......  .-....|++...
T Consensus        27 ~~~~I~G~~G~GKT~la~~~~~~~~~~--~~~~~~~~s~e~   65 (242)
T d1tf7a1          27 RSTLVSGTSGTGKTLFSIQFLYNGIIE--FDEPGVFVTFEE   65 (242)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHHHH--HCCCEEEEESSS
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHHh--cCCCcccccccC
Confidence            799999999999999998765432222  122455665443

>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=93.97  E-value=0.024  Score=52.91  Aligned_cols=53  Identities=21%  Similarity=0.323  Sum_probs=34.9

Q ss_pred             CCcccccchhHHHHHHHHh--------cCCCCCCCCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          183 ERAVFGRQQDKAKMLEMVL--------TDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       183 ~~~~vGr~~~~~~l~~~L~--------~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      +..+||.++-++.+--.+-        .......-..+=|.++||.|+|||.||+.++...
T Consensus        13 d~yVvGQ~~AKk~lsvav~nhyrR~~~~~~~~~ei~ksNILliGPTGvGKTlLAr~LAk~l   73 (443)
T d1g41a_          13 DQHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA   73 (443)
T ss_dssp             HTTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             cCcccCcHHHHHHHHHHHHHHHHHhhcccccccccccccEEEECCCCCCHHHHHHHHHHHh
Confidence            3467888877776654431        1111111223468999999999999999998754

>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=93.97  E-value=0.023  Score=46.94  Aligned_cols=24  Identities=33%  Similarity=0.512  Sum_probs=21.0

Q ss_pred             EEEEEecCCChHHHHHHHHhhccc
Q 047559          213 VIPIVGMAGVGKTTLAREVYNDRA  236 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~~  236 (444)
                      .|+|-|..|+||||+++.+.+...
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~l~   25 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGAFR   25 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            589999999999999999887643

>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=93.96  E-value=0.014  Score=46.41  Aligned_cols=21  Identities=24%  Similarity=0.509  Sum_probs=18.7

Q ss_pred             EEEEecCCChHHHHHHHHhhc
Q 047559          214 IPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (444)
                      |.++|.+|+|||||+..+.+.
T Consensus         5 v~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999988764

>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=93.95  E-value=0.014  Score=46.36  Aligned_cols=22  Identities=32%  Similarity=0.437  Sum_probs=19.6

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -|.++|.+|+|||||...+.++
T Consensus         4 Kv~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           4 KIIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999999865

>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=93.93  E-value=0.017  Score=52.46  Aligned_cols=25  Identities=28%  Similarity=0.456  Sum_probs=20.9

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhc
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ....+..+|+.|+|||.||+.+...
T Consensus        67 p~~niLfiGPTGvGKTElAk~LA~~   91 (364)
T d1um8a_          67 SKSNILLIGPTGSGKTLMAQTLAKH   91 (364)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCcceeeeCCCCccHHHHHHHHHhh
Confidence            3456888999999999999998754

>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=93.91  E-value=0.014  Score=46.87  Aligned_cols=22  Identities=32%  Similarity=0.460  Sum_probs=19.3

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -|.|+|.+|+|||||+..+.++
T Consensus         5 KivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           5 KYIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            3678999999999999998765

>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=93.90  E-value=0.015  Score=46.39  Aligned_cols=22  Identities=32%  Similarity=0.463  Sum_probs=19.3

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -|+|+|.+|+|||+|++.+.++
T Consensus         6 KivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4788999999999999998764

>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=93.82  E-value=0.015  Score=46.18  Aligned_cols=22  Identities=23%  Similarity=0.524  Sum_probs=19.3

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -|.|+|.+|+|||||.+.+.+.
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~~   25 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNGE   25 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHcCC
Confidence            3679999999999999998764

>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=93.80  E-value=0.047  Score=45.47  Aligned_cols=24  Identities=33%  Similarity=0.463  Sum_probs=21.7

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      +.|+|-|+.|+||||+++.+.+..
T Consensus         4 k~I~iEG~DGsGKST~~~~L~~~L   27 (214)
T d1tmka_           4 KLILIEGLDRTGKTTQCNILYKKL   27 (214)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHH
Confidence            689999999999999999998764

>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=93.69  E-value=0.017  Score=45.75  Aligned_cols=21  Identities=33%  Similarity=0.515  Sum_probs=18.9

Q ss_pred             EEEEecCCChHHHHHHHHhhc
Q 047559          214 IPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (444)
                      |+|+|.+|+|||+|++.+.++
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~   23 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYD   23 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            688999999999999998764

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.64  E-value=0.017  Score=46.11  Aligned_cols=21  Identities=29%  Similarity=0.604  Sum_probs=18.7

Q ss_pred             EEEEecCCChHHHHHHHHhhc
Q 047559          214 IPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (444)
                      |.|+|.+|+|||||...+.++
T Consensus         5 i~viG~~~vGKTsLi~r~~~~   25 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKG   25 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            578999999999999988765

>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=93.62  E-value=0.018  Score=46.08  Aligned_cols=22  Identities=45%  Similarity=0.655  Sum_probs=19.6

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -|.|+|.+|+|||||.+.+.++
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999998864

>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=93.59  E-value=0.029  Score=45.02  Aligned_cols=23  Identities=30%  Similarity=0.508  Sum_probs=19.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .-|+|+|.+|+|||||...+...
T Consensus        14 ~kI~lvG~~~vGKTsLl~~l~~~   36 (186)
T d1f6ba_          14 GKLVFLGLDNAGKTTLLHMLKDD   36 (186)
T ss_dssp             EEEEEEEETTSSHHHHHHHHSCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            45779999999999999998654

>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=93.58  E-value=0.015  Score=48.29  Aligned_cols=46  Identities=11%  Similarity=0.109  Sum_probs=29.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcccccc---CCcceeEEEEeCCCCCHH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAVED---SKFDVKAWVCVSDDFDVL  257 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~---~~f~~~~wv~vs~~~~~~  257 (444)
                      .++.|.|++|+|||+||.++..+.....   ..+....++.........
T Consensus        24 ~v~~i~G~~GsGKT~l~l~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~   72 (242)
T d1n0wa_          24 SITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPE   72 (242)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHH
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHHHHHhhccccccceehhhhhhhhhHHH
Confidence            7999999999999999998875432222   022344455555444443

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.57  E-value=0.018  Score=45.86  Aligned_cols=22  Identities=27%  Similarity=0.546  Sum_probs=19.6

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -|.|+|.+|+|||+|..++.++
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4788999999999999998765

>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=93.53  E-value=0.019  Score=45.88  Aligned_cols=22  Identities=36%  Similarity=0.549  Sum_probs=19.4

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .|+|+|.+|+|||||.+.+...
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~   23 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKK   23 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC-
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999998753

>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=93.52  E-value=0.019  Score=45.91  Aligned_cols=22  Identities=36%  Similarity=0.483  Sum_probs=19.4

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -|.++|.+|+|||||...+.++
T Consensus         7 Ki~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           7 KILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            4789999999999999988754

>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=93.50  E-value=0.019  Score=45.78  Aligned_cols=22  Identities=27%  Similarity=0.430  Sum_probs=19.3

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -|.|+|.+|+|||+|...+.++
T Consensus         5 KivlvG~~~vGKTsLi~r~~~~   26 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCEN   26 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4689999999999999998754

>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=93.50  E-value=0.019  Score=45.75  Aligned_cols=21  Identities=29%  Similarity=0.589  Sum_probs=18.8

Q ss_pred             EEEEecCCChHHHHHHHHhhc
Q 047559          214 IPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (444)
                      |+|+|.+|+|||||.+.+.++
T Consensus         7 i~lvG~~~vGKTsli~rl~~~   27 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVED   27 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678899999999999998765

>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=93.45  E-value=0.036  Score=48.47  Aligned_cols=25  Identities=24%  Similarity=0.268  Sum_probs=20.6

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhc
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ..++|.+.|-||+||||+|..+...
T Consensus         7 ~p~~i~~sGKGGVGKTTvaa~lA~~   31 (296)
T d1ihua1           7 IPPYLFFTGKGGVGKTSISCATAIR   31 (296)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCcChHHHHHHHHHHH
Confidence            3578999999999999988776654

>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=93.43  E-value=0.02  Score=45.46  Aligned_cols=22  Identities=36%  Similarity=0.564  Sum_probs=19.6

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -|.++|.+|+|||||...+.+.
T Consensus         4 Ki~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           4 KILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999998765

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.43  E-value=0.02  Score=45.74  Aligned_cols=22  Identities=41%  Similarity=0.678  Sum_probs=19.4

Q ss_pred             EEEEecCCChHHHHHHHHhhcc
Q 047559          214 IPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      |.++|.+|+|||+|.+.+.++.
T Consensus         5 i~lvG~~~vGKTsli~r~~~~~   26 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTKR   26 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            6789999999999999998753

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.43  E-value=0.02  Score=45.91  Aligned_cols=23  Identities=30%  Similarity=0.508  Sum_probs=20.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      --|.|+|.+|+|||+|...+.++
T Consensus         7 ~Kv~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           7 HKLVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCcCHHHHHHHHHhC
Confidence            45779999999999999998765

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.42  E-value=0.019  Score=46.68  Aligned_cols=22  Identities=32%  Similarity=0.457  Sum_probs=19.4

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -|.|+|.+|+|||||++.+.+.
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~~   28 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTDN   28 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            4778999999999999998765

>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=93.42  E-value=0.019  Score=47.70  Aligned_cols=20  Identities=30%  Similarity=0.557  Sum_probs=18.1

Q ss_pred             EEEEEecCCChHHHHHHHHh
Q 047559          213 VIPIVGMAGVGKTTLAREVY  232 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~  232 (444)
                      +|+|+|+.|+||||+|+.+-
T Consensus         5 iIgitG~igSGKStv~~~l~   24 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAFA   24 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHHH
Confidence            89999999999999998653

>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=93.42  E-value=0.02  Score=48.23  Aligned_cols=25  Identities=44%  Similarity=0.715  Sum_probs=22.6

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhc
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ++.|..|.|.-|+|||||.+.+...
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhc
Confidence            5689999999999999999999865

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=93.36  E-value=0.019  Score=46.11  Aligned_cols=23  Identities=30%  Similarity=0.569  Sum_probs=20.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      --|.|+|.+|+|||||...+...
T Consensus        17 ~kI~vvG~~~vGKSsLi~~l~~~   39 (176)
T d1fzqa_          17 VRILLLGLDNAGKTTLLKQLASE   39 (176)
T ss_dssp             EEEEEEESTTSSHHHHHHHHCCS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            45789999999999999998764

>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=93.35  E-value=0.024  Score=45.45  Aligned_cols=25  Identities=36%  Similarity=0.529  Sum_probs=22.0

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhc
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+..|+|+|.+|+|||||...+.+.
T Consensus         4 ~~~~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           4 YCGFIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             cccEEEEECCCCCCHHHHHHHHhCC
Confidence            3567999999999999999999864

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.34  E-value=0.021  Score=45.56  Aligned_cols=22  Identities=36%  Similarity=0.513  Sum_probs=19.1

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -|.|+|.+|+|||+|++.+.+.
T Consensus         3 Ki~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           3 KVLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCcCHHHHHHHHhCC
Confidence            3678999999999999998754

>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=93.33  E-value=0.021  Score=45.83  Aligned_cols=22  Identities=45%  Similarity=0.662  Sum_probs=19.4

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -|+|+|.+|+|||||...+.++
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~~~   25 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYVND   25 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            4789999999999999998754

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.31  E-value=0.021  Score=45.61  Aligned_cols=22  Identities=23%  Similarity=0.433  Sum_probs=19.3

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -|.|+|.+|+|||||+..+.+.
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3689999999999999998754

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.28  E-value=0.022  Score=45.65  Aligned_cols=22  Identities=27%  Similarity=0.505  Sum_probs=19.3

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -|.++|.+|+|||||+..+..+
T Consensus         7 KI~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           7 KFLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999988754

>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=93.28  E-value=0.035  Score=46.42  Aligned_cols=34  Identities=21%  Similarity=0.398  Sum_probs=27.2

Q ss_pred             HHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          193 KAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       193 ~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ++.|.++|..         +..+++|.+|+|||||...+..+.
T Consensus        86 ~~~L~~~l~~---------kt~~~~G~SGVGKSTLiN~L~~~~  119 (225)
T d1u0la2          86 IEELKEYLKG---------KISTMAGLSGVGKSSLLNAINPGL  119 (225)
T ss_dssp             HHHHHHHHSS---------SEEEEECSTTSSHHHHHHHHSTTC
T ss_pred             HhhHHHHhcC---------CeEEEECCCCCCHHHHHHhhcchh
Confidence            6777777731         477899999999999999997653

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.28  E-value=0.022  Score=45.52  Aligned_cols=22  Identities=32%  Similarity=0.539  Sum_probs=19.5

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -|.|+|.+|+|||+|.+.+.++
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4788999999999999988765

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.26  E-value=0.023  Score=45.24  Aligned_cols=23  Identities=30%  Similarity=0.495  Sum_probs=20.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .-|+|+|.+|+|||||...+.++
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            45788999999999999998764

>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=93.25  E-value=0.026  Score=45.43  Aligned_cols=24  Identities=33%  Similarity=0.497  Sum_probs=21.6

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ...|+|+|.+|+|||||.+.+.+.
T Consensus         5 ~~~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           5 SGFVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999865

>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=93.24  E-value=0.023  Score=49.79  Aligned_cols=24  Identities=25%  Similarity=0.401  Sum_probs=19.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      +.|+|.|=||+||||+|-.+....
T Consensus         3 r~IaisgKGGVGKTT~a~NLA~~L   26 (289)
T d2afhe1           3 RQCAIYGKGGIGKSTTTQNLVAAL   26 (289)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHH
Confidence            678899999999999887776543

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.20  E-value=0.023  Score=45.13  Aligned_cols=21  Identities=33%  Similarity=0.694  Sum_probs=19.1

Q ss_pred             EEEEecCCChHHHHHHHHhhc
Q 047559          214 IPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (444)
                      |+|+|.+|+|||||...+.++
T Consensus         6 i~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            788999999999999998865

>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=93.19  E-value=0.023  Score=47.00  Aligned_cols=23  Identities=26%  Similarity=0.395  Sum_probs=20.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      +-|+|+|.+|+|||||...+...
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~~   23 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLTG   23 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHHcC
Confidence            35899999999999999999765

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.19  E-value=0.023  Score=44.57  Aligned_cols=22  Identities=36%  Similarity=0.540  Sum_probs=19.5

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -|+|+|.+|+|||||...+.+.
T Consensus         2 KI~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3789999999999999998765

>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=93.15  E-value=0.024  Score=46.85  Aligned_cols=23  Identities=35%  Similarity=0.391  Sum_probs=20.7

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ..|+|+|.+|+|||||...+.+.
T Consensus         4 p~V~lvG~~n~GKTSLln~l~~~   26 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLLTTD   26 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            47899999999999999999765

>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=93.12  E-value=0.023  Score=47.07  Aligned_cols=21  Identities=33%  Similarity=0.458  Sum_probs=18.7

Q ss_pred             eEEEEEecCCChHHHHHHHHh
Q 047559          212 AVIPIVGMAGVGKTTLAREVY  232 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~  232 (444)
                      -+|+|+|..|+||||+|+.+-
T Consensus         3 ~iIgITG~igSGKStv~~~l~   23 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFT   23 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            589999999999999998663

>d1ewqa2 c.37.1.12 (A:542-765) DNA repair protein MutS, the C-terminal domain {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Thermus aquaticus [TaxId: 271]

Probab=93.10  E-value=0.17  Score=42.13  Aligned_cols=107  Identities=14%  Similarity=0.099  Sum_probs=56.7

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc------------ccccCCcceeEEEEeCCCCCHHHHHHHHHHHhccCCCCcccHHH
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR------------AVEDSKFDVKAWVCVSDDFDVLNISRALLESITFASCDLKALNE  279 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~------------~~~~~~f~~~~wv~vs~~~~~~~~~~~il~~l~~~~~~~~~~~~  279 (444)
                      +++.|.|+...||||+.+.+.-..            ...-+.|+. ++..+....++..              +.+....
T Consensus        36 ~~~iiTGpN~~GKSt~lk~i~l~~ilAq~G~~vpA~~~~i~~~d~-I~~~~~~~d~~~~--------------~~StF~~  100 (224)
T d1ewqa2          36 ELVLITGPNMAGKSTFLRQTALIALLAQVGSFVPAEEAHLPLFDG-IYTRIGASDDLAG--------------GKSTFMV  100 (224)
T ss_dssp             CEEEEESCSSSSHHHHHHHHHHHHHHHTTTCCBSSSEEEECCCSE-EEEECCC--------------------CCSHHHH
T ss_pred             cEEEEECCCccccchhhhhhHHHHHHHhccceeecCceEEeecce-EEEEECCCccccC--------------CccHHHH
Confidence            478999999999999999875321            001012332 3333333222111              1112222


Q ss_pred             HHHHHHHHh--CCceEEEEEeCCCCCCh-h-----cHHHhhcccCCCCCCcEEEEecCChHHHhh
Q 047559          280 VQVQIKRAV--DGKKLLLVLDDVWNEDY-C-----LWEDLKAPFLAAAPNSKIIVTTRHAHVAAT  336 (444)
Q Consensus       280 ~~~~l~~~l--~~kr~LlVlDdv~~~~~-~-----~~~~l~~~l~~~~~gs~iivTTr~~~va~~  336 (444)
                      -...+...+  .+++.|+++|++-.... .     .|..+ ..|.  ..++.+++||....+...
T Consensus       101 el~~~~~il~~~~~~sLvliDE~~~gT~~~eg~ala~ail-e~L~--~~~~~~i~tTH~~eL~~l  162 (224)
T d1ewqa2         101 EMEEVALILKEATENSLVLLDEVGRGTSSLDGVAIATAVA-EALH--ERRAYTLFATHYFELTAL  162 (224)
T ss_dssp             HHHHHHHHHHHCCTTEEEEEESTTTTSCHHHHHHHHHHHH-HHHH--HHTCEEEEECCCHHHHTC
T ss_pred             hHHHHHHHhccCCCCcEEeecccccCcchhhhcchHHHHH-HHHh--hcCcceEEeeechhhhhh
Confidence            222333333  36789999999965422 1     12222 2232  246789999998877653

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.09  E-value=0.024  Score=45.12  Aligned_cols=21  Identities=29%  Similarity=0.597  Sum_probs=18.9

Q ss_pred             EEEEecCCChHHHHHHHHhhc
Q 047559          214 IPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (444)
                      |.|+|.+|+|||+|.+.+...
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            678999999999999998765

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.09  E-value=0.023  Score=45.60  Aligned_cols=22  Identities=27%  Similarity=0.542  Sum_probs=19.5

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -|+|+|..|+|||||+..+.++
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999988764

>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=93.04  E-value=0.025  Score=45.21  Aligned_cols=23  Identities=30%  Similarity=0.429  Sum_probs=19.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      --|.|+|.+|+|||||..++...
T Consensus        16 ~kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1          16 HKVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            45779999999999999988765

>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=92.99  E-value=0.026  Score=45.39  Aligned_cols=22  Identities=36%  Similarity=0.350  Sum_probs=19.2

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -|.|+|.+|+|||+|...+.++
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4678899999999999988765

>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=92.96  E-value=0.026  Score=45.57  Aligned_cols=22  Identities=32%  Similarity=0.436  Sum_probs=19.9

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .|+|+|.+|+|||||...+.+.
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999999864

>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=92.95  E-value=0.026  Score=46.21  Aligned_cols=22  Identities=32%  Similarity=0.563  Sum_probs=19.5

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -|+|+|.+|+|||||...+.+.
T Consensus         8 KivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           8 KLLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHhhC
Confidence            4789999999999999998865

>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=92.92  E-value=0.17  Score=42.49  Aligned_cols=22  Identities=27%  Similarity=0.253  Sum_probs=19.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhh
Q 047559          212 AVIPIVGMAGVGKTTLAREVYN  233 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~  233 (444)
                      +++.|.|+...||||+.+.+.-
T Consensus        42 ~~~iiTGpN~~GKSt~lk~i~l   63 (234)
T d1wb9a2          42 RMLIITGPNMGGKSTYMRQTAL   63 (234)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEeccCchhhHHHHHHHHH
Confidence            7899999999999999998853

>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=92.87  E-value=0.027  Score=44.93  Aligned_cols=22  Identities=23%  Similarity=0.468  Sum_probs=19.0

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -|+|+|..|+|||+|...+.+.
T Consensus         5 Ki~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           5 KLVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3678999999999999998765

>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=92.69  E-value=0.03  Score=44.38  Aligned_cols=21  Identities=29%  Similarity=0.485  Sum_probs=18.4

Q ss_pred             EEEEecCCChHHHHHHHHhhc
Q 047559          214 IPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (444)
                      |+|+|.+|+|||||..++...
T Consensus         5 i~i~G~~~~GKTsLl~~l~~~   25 (164)
T d1zd9a1           5 LTLVGLQYSGKTTFVNVIASG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            568899999999999988765

>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=92.67  E-value=0.029  Score=45.35  Aligned_cols=23  Identities=30%  Similarity=0.309  Sum_probs=20.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      --|.|+|.+|+|||+|.+++.++
T Consensus         6 iKivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           6 IKCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            45889999999999999998765

>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=92.64  E-value=0.031  Score=45.36  Aligned_cols=22  Identities=41%  Similarity=0.428  Sum_probs=19.6

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -|.|+|.+|+|||+|.+.+.++
T Consensus        11 Ki~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1          11 KCVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhhC
Confidence            4789999999999999998765

>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=92.62  E-value=0.03  Score=44.60  Aligned_cols=22  Identities=36%  Similarity=0.504  Sum_probs=19.5

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -|+|+|.+|+|||+|+.++.+.
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4899999999999999988664

>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=92.62  E-value=0.021  Score=46.11  Aligned_cols=21  Identities=24%  Similarity=0.471  Sum_probs=19.0

Q ss_pred             EEEEecCCChHHHHHHHHhhc
Q 047559          214 IPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (444)
                      |+|+|.+|+|||||...+.+.
T Consensus         4 VaivG~~nvGKSTLin~L~~~   24 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTRA   24 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCSS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            899999999999999998753

>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=92.47  E-value=0.015  Score=50.72  Aligned_cols=25  Identities=20%  Similarity=0.343  Sum_probs=18.7

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhcc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..||+|.|.+|+||||+++.+.+..
T Consensus         4 ~pIIgIaG~SGSGKTTva~~l~~i~   28 (288)
T d1a7ja_           4 HPIISVTGSSGAGTSTVKHTFDQIF   28 (288)
T ss_dssp             SCEEEEESCC---CCTHHHHHHHHH
T ss_pred             CCEEEEECCCCCcHHHHHHHHHHHH
Confidence            3599999999999999999887653

>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=92.40  E-value=0.032  Score=44.62  Aligned_cols=22  Identities=36%  Similarity=0.498  Sum_probs=19.1

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -|.++|.+|+|||+|.+.+...
T Consensus         5 Kv~lvG~~~vGKTsLi~~~~~~   26 (172)
T d2g3ya1           5 RVVLIGEQGVGKSTLANIFAGV   26 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999988653

>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=92.38  E-value=0.034  Score=44.51  Aligned_cols=22  Identities=27%  Similarity=0.528  Sum_probs=19.3

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -|.|+|.+|+|||||...+.++
T Consensus         8 KI~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           8 KVILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3789999999999999888764

>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=92.36  E-value=0.063  Score=42.06  Aligned_cols=26  Identities=31%  Similarity=0.415  Sum_probs=23.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcccc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDRAV  237 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~~~  237 (444)
                      .+|.+.|.=|+||||+++.+.+...+
T Consensus        34 ~ii~L~G~LGaGKTtfvr~~~~~lg~   59 (158)
T d1htwa_          34 IMVYLNGDLGAGKTTLTRGMLQGIGH   59 (158)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTTC
T ss_pred             eEEEEecCCCccHHHHHHHHHhhccc
Confidence            68999999999999999999876543

>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=92.33  E-value=0.032  Score=45.31  Aligned_cols=22  Identities=18%  Similarity=0.335  Sum_probs=19.0

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -|.++|.+|+|||+|.+++..+
T Consensus         4 KivllG~~~vGKTsl~~r~~~~   25 (195)
T d1svsa1           4 KLLLLGAGESGKSTIVKQMKII   25 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhhC
Confidence            4689999999999999988654

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=92.32  E-value=0.034  Score=44.93  Aligned_cols=22  Identities=41%  Similarity=0.614  Sum_probs=19.4

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -|.++|.+|+|||||+..+.+.
T Consensus         4 Kv~vvG~~~vGKSSLi~~l~~~   25 (184)
T d1vg8a_           4 KVIILGDSGVGKTSLMNQYVNK   25 (184)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3779999999999999998764

>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=92.30  E-value=0.036  Score=44.65  Aligned_cols=22  Identities=36%  Similarity=0.433  Sum_probs=19.2

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -|.++|..|+|||+|.+.+.+.
T Consensus         4 KivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           4 KIVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3678999999999999988765

>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=92.22  E-value=0.036  Score=44.48  Aligned_cols=21  Identities=43%  Similarity=0.689  Sum_probs=18.9

Q ss_pred             EEEEecCCChHHHHHHHHhhc
Q 047559          214 IPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (444)
                      |.++|.+|+|||||.+.+.+.
T Consensus        10 i~vvG~~~vGKTsli~~l~~~   30 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDD   30 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988754

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=92.22  E-value=0.039  Score=43.33  Aligned_cols=22  Identities=23%  Similarity=0.380  Sum_probs=19.2

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -|+|+|.+|+|||||..++...
T Consensus         3 kI~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4679999999999999998754

>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=92.21  E-value=0.037  Score=44.05  Aligned_cols=24  Identities=38%  Similarity=0.595  Sum_probs=20.4

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      +--|.|+|.+|+|||||.+.+.++
T Consensus         4 ~~KivlvG~~~vGKTsli~~~~~~   27 (168)
T d1u8za_           4 LHKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCcCHHHHHHHHHhC
Confidence            346789999999999999998754

>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=92.21  E-value=0.037  Score=44.11  Aligned_cols=23  Identities=30%  Similarity=0.576  Sum_probs=19.4

Q ss_pred             EEEEEecCCChHHHHHHHHhhcc
Q 047559          213 VIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      -|.++|.+|+|||+|...+.++.
T Consensus         6 Ki~lvG~~~vGKTsll~~~~~~~   28 (169)
T d1x1ra1           6 KLVVVGDGGVGKSALTIQFFQKI   28 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            35678999999999999988653

>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=92.20  E-value=0.027  Score=45.05  Aligned_cols=24  Identities=25%  Similarity=0.437  Sum_probs=20.1

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhc
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .++ |.|+|.+|+|||||.+.+.+.
T Consensus        12 ~~k-IvlvG~~~vGKTSli~rl~~~   35 (173)
T d1e0sa_          12 EMR-ILMLGLDAAGKTTILYKLKLG   35 (173)
T ss_dssp             CEE-EEEEEETTSSHHHHHHHTTCC
T ss_pred             eEE-EEEECCCCCCHHHHHHHHhcC
Confidence            344 668999999999999998765

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.18  E-value=0.034  Score=45.46  Aligned_cols=19  Identities=26%  Similarity=0.524  Sum_probs=17.5

Q ss_pred             EEEEEecCCChHHHHHHHH
Q 047559          213 VIPIVGMAGVGKTTLAREV  231 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v  231 (444)
                      -|.|+|.+|+|||||..++
T Consensus         4 KivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4789999999999999988

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.16  E-value=0.023  Score=45.40  Aligned_cols=21  Identities=33%  Similarity=0.580  Sum_probs=17.3

Q ss_pred             EEEEecCCChHHHHHHHHhhc
Q 047559          214 IPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (444)
                      |.|+|.+|+|||+|...+.++
T Consensus         6 i~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC--
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678899999999999887654

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=92.15  E-value=0.024  Score=45.97  Aligned_cols=22  Identities=36%  Similarity=0.511  Sum_probs=19.4

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -|+|+|.+++|||||...+.+.
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~~   24 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSSA   24 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEE
T ss_pred             eEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999998653

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.94  E-value=0.042  Score=44.74  Aligned_cols=22  Identities=32%  Similarity=0.335  Sum_probs=18.9

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -|.++|.+|+|||+|...+.+.
T Consensus         5 KvvllG~~~vGKTSli~r~~~~   26 (191)
T d2ngra_           5 KCVVVGDGAVGKTCLLISYTTN   26 (191)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3678899999999999988765

>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=91.82  E-value=0.044  Score=46.42  Aligned_cols=23  Identities=26%  Similarity=0.355  Sum_probs=20.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ++|+|.|..|+||||+|+.+.+.
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e~   24 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMSN   24 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            58999999999999999988764

>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=91.81  E-value=0.03  Score=45.17  Aligned_cols=23  Identities=35%  Similarity=0.472  Sum_probs=19.3

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      --|.++|.+|+|||||.+.+...
T Consensus        18 ~KI~lvG~~~vGKTsLi~~l~~~   40 (182)
T d1moza_          18 LRILILGLDGAGKTTILYRLQIG   40 (182)
T ss_dssp             EEEEEEEETTSSHHHHHHHTCCS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            45669999999999999988654

>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=91.71  E-value=0.042  Score=44.74  Aligned_cols=22  Identities=18%  Similarity=0.315  Sum_probs=19.1

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -|.++|.+|+|||+|..++...
T Consensus         4 Kiv~lG~~~vGKTsll~r~~~~   25 (200)
T d2bcjq2           4 KLLLLGTGESGKSTFIKQMRII   25 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999988654

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=91.68  E-value=0.088  Score=45.09  Aligned_cols=41  Identities=22%  Similarity=0.396  Sum_probs=29.8

Q ss_pred             hhHHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhcc
Q 047559          191 QDKAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       191 ~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ..+.++...+.....    .---|+|+|.+|+|||||...++.+.
T Consensus        16 ~~l~e~~~~l~~~~~----~~l~I~LvG~tg~GKSSliN~ilg~~   56 (257)
T d1h65a_          16 TKLLELLGNLKQEDV----NSLTILVMGKGGVGKSSTVNSIIGER   56 (257)
T ss_dssp             HHHHHHHHHHHHTTC----CEEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHhhcCC----CCcEEEEECCCCCcHHHHHHHHhCCC
Confidence            445566666655432    22467899999999999999998754

>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=91.60  E-value=0.048  Score=43.76  Aligned_cols=23  Identities=22%  Similarity=0.358  Sum_probs=20.0

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      --|.++|.+|+|||||...+.+.
T Consensus         6 ~ki~vlG~~~vGKTsLi~~~~~~   28 (175)
T d2bmja1           6 LRLGVLGDARSGKSSLIHRFLTG   28 (175)
T ss_dssp             EEEEEECCTTTTHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            35789999999999999988765

>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=91.47  E-value=0.052  Score=45.49  Aligned_cols=37  Identities=24%  Similarity=0.178  Sum_probs=26.5

Q ss_pred             eEEEEE-ecCCChHHHHHHHHhhccccccCCcceeEEEEeC
Q 047559          212 AVIPIV-GMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCVS  251 (444)
Q Consensus       212 ~vi~I~-G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~vs  251 (444)
                      +||+|+ |-||+||||+|..+......   .-..+..|...
T Consensus         2 kvIav~s~KGGvGKTtia~nlA~~la~---~g~~VlliD~D   39 (232)
T d1hyqa_           2 RTITVASGKGGTGKTTITANLGVALAQ---LGHDVTIVDAD   39 (232)
T ss_dssp             EEEEEEESSSCSCHHHHHHHHHHHHHH---TTCCEEEEECC
T ss_pred             EEEEEECCCCCChHHHHHHHHHHHHHh---CCCCEEEEeCC
Confidence            688888 77999999999988766432   22346677654

>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=91.38  E-value=0.051  Score=43.79  Aligned_cols=23  Identities=39%  Similarity=0.588  Sum_probs=19.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      --|+|+|.+|+|||||...+.+.
T Consensus         9 ~kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2           9 IKVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHHCC
Confidence            34789999999999999998764

>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=91.32  E-value=0.064  Score=42.91  Aligned_cols=23  Identities=35%  Similarity=0.433  Sum_probs=20.3

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      +-|.|.|.+|+||||+|..+..+
T Consensus        15 ~gvl~~G~sG~GKStlal~l~~~   37 (176)
T d1kkma_          15 LGVLITGDSGVGKSETALELVQR   37 (176)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHc
Confidence            57899999999999999987764

>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=91.19  E-value=0.071  Score=42.65  Aligned_cols=23  Identities=26%  Similarity=0.495  Sum_probs=20.1

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .-|.|.|.+|+||||||..+..+
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            57899999999999999888754

>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=90.89  E-value=0.035  Score=44.42  Aligned_cols=22  Identities=32%  Similarity=0.498  Sum_probs=8.7

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -|.|+|.+|+|||||...+.++
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           8 KLLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEEECCCCC------------
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3788999999999999877654

>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=90.74  E-value=0.058  Score=45.10  Aligned_cols=23  Identities=17%  Similarity=0.306  Sum_probs=19.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .-|.++|.+|+|||||.+++...
T Consensus         7 ~KilllG~~~vGKTsll~~~~~~   29 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMRIL   29 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            45789999999999999988543

>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=90.45  E-value=0.09  Score=41.72  Aligned_cols=23  Identities=30%  Similarity=0.455  Sum_probs=20.3

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .-|.|.|.+|+||||+|..+..+
T Consensus        16 ~gvli~G~sg~GKS~la~~l~~~   38 (169)
T d1ko7a2          16 VGVLITGDSGIGKSETALELIKR   38 (169)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHc
Confidence            57899999999999999887755

>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=90.40  E-value=0.076  Score=44.49  Aligned_cols=36  Identities=28%  Similarity=0.192  Sum_probs=25.1

Q ss_pred             eEEEEE-ecCCChHHHHHHHHhhccccccCCcceeEEEEe
Q 047559          212 AVIPIV-GMAGVGKTTLAREVYNDRAVEDSKFDVKAWVCV  250 (444)
Q Consensus       212 ~vi~I~-G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~v  250 (444)
                      ++|+|+ +-||+||||+|..+.......   -..++-++.
T Consensus         3 ~vIav~~~kGGvGKTtia~nLA~~la~~---g~~VlliD~   39 (237)
T d1g3qa_           3 RIISIVSGKGGTGKTTVTANLSVALGDR---GRKVLAVDG   39 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHHHHT---TCCEEEEEC
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHHHHhC---CCCEEEEeC
Confidence            689998 669999999998887654322   223455554

>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=90.32  E-value=0.05  Score=43.67  Aligned_cols=24  Identities=17%  Similarity=0.267  Sum_probs=20.7

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ..-|+|+|.+++|||||.+.+...
T Consensus        16 ~~~I~lvG~~NvGKSSL~n~L~~~   39 (188)
T d1puia_          16 GIEVAFAGRSNAGKSSALNTLTNQ   39 (188)
T ss_dssp             SEEEEEEECTTSSHHHHHTTTCCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            467999999999999999888654

>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=89.94  E-value=0.078  Score=45.68  Aligned_cols=23  Identities=30%  Similarity=0.407  Sum_probs=19.8

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+..|+|.+|+|||||+..++-.
T Consensus        30 ~~~~i~G~~G~GKS~l~l~la~~   52 (274)
T d1nlfa_          30 TVGALVSPGGAGKSMLALQLAAQ   52 (274)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHH
Confidence            57889999999999999887654

>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=89.43  E-value=0.51  Score=37.40  Aligned_cols=22  Identities=32%  Similarity=0.356  Sum_probs=19.7

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -|+|+|.+++|||||...+...
T Consensus         7 nIaiiG~~naGKSTL~n~L~~~   28 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTEI   28 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHTT
T ss_pred             EEEEEeCCCCcHHHHHHHHHHh
Confidence            5899999999999999998753

>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=89.37  E-value=0.12  Score=45.85  Aligned_cols=22  Identities=27%  Similarity=0.409  Sum_probs=19.7

Q ss_pred             EEEEEecCCChHHHHHHHHhhc
Q 047559          213 VIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      -|.|.|..|+||||+.+.+...
T Consensus       168 nili~G~tgSGKTT~l~al~~~  189 (323)
T d1g6oa_         168 NVIVCGGTGSGKTTYIKSIMEF  189 (323)
T ss_dssp             CEEEEESTTSSHHHHHHHHGGG
T ss_pred             CEEEEeeccccchHHHHHHhhh
Confidence            4789999999999999998864

>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=89.12  E-value=0.03  Score=43.95  Aligned_cols=21  Identities=43%  Similarity=0.683  Sum_probs=19.1

Q ss_pred             EEEEecCCChHHHHHHHHhhc
Q 047559          214 IPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       214 i~I~G~~GiGKTtLa~~v~~~  234 (444)
                      |+++|.+|+|||||...+...
T Consensus         3 I~liG~~n~GKSSLin~l~g~   23 (160)
T d1xzpa2           3 MVIVGKPNVGKSTLLNRLLNE   23 (160)
T ss_dssp             EEEECCHHHHTCHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999998754

>d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: YFV helicase domain
species: Yellow fever virus [TaxId: 11089]

Probab=88.91  E-value=0.35  Score=36.13  Aligned_cols=20  Identities=20%  Similarity=0.014  Sum_probs=15.9

Q ss_pred             eEEEEEecCCChHHHHHHHH
Q 047559          212 AVIPIVGMAGVGKTTLAREV  231 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v  231 (444)
                      +.+.|+++.|.|||..|-..
T Consensus         8 ~~~il~~~tGsGKT~~~~~~   27 (140)
T d1yksa1           8 MTTVLDFHPGAGKTRRFLPQ   27 (140)
T ss_dssp             CEEEECCCTTSSTTTTHHHH
T ss_pred             CcEEEEcCCCCChhHHHHHH
Confidence            57788999999999766433

>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=88.81  E-value=0.12  Score=42.46  Aligned_cols=25  Identities=20%  Similarity=0.211  Sum_probs=20.7

Q ss_pred             eEEEEEecC-CChHHHHHHHHhhccc
Q 047559          212 AVIPIVGMA-GVGKTTLAREVYNDRA  236 (444)
Q Consensus       212 ~vi~I~G~~-GiGKTtLa~~v~~~~~  236 (444)
                      +.+.|.|-+ |+||||++-.+.....
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aLa   27 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAAK   27 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHHH
Confidence            578999998 9999999988776543

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=88.65  E-value=0.11  Score=44.72  Aligned_cols=26  Identities=27%  Similarity=0.264  Sum_probs=22.4

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .++|-|+|+|..|.|||||+..+...
T Consensus         4 ~~iRni~i~gh~~~GKTtL~e~ll~~   29 (276)
T d2bv3a2           4 KRLRNIGIAAHIDAGKTTTTERILYY   29 (276)
T ss_dssp             GGEEEEEEEECTTSCHHHHHHHHHHH
T ss_pred             hhceEEEEEeCCCCCHHHHHHHHHHh
Confidence            45788999999999999999888643

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.21  E-value=0.24  Score=42.66  Aligned_cols=26  Identities=27%  Similarity=0.479  Sum_probs=23.8

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .++.||+|+|+-+.|||+|+..++..
T Consensus        30 ~~v~vvsi~G~~~sGKS~llN~l~~~   55 (277)
T d1f5na2          30 QPMVVVAIVGLYRTGKSYLMNKLAGK   55 (277)
T ss_dssp             SBEEEEEEEEBTTSSHHHHHHHHTTC
T ss_pred             CCEEEEEEECCCCCCHHHHHHHHcCC
Confidence            56899999999999999999999865

>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=88.16  E-value=0.16  Score=45.08  Aligned_cols=27  Identities=26%  Similarity=0.423  Sum_probs=22.9

Q ss_pred             CceEEEEEecCCChHHHHHHHHhhccc
Q 047559          210 NLAVIPIVGMAGVGKTTLAREVYNDRA  236 (444)
Q Consensus       210 ~~~vi~I~G~~GiGKTtLa~~v~~~~~  236 (444)
                      .+-.|.|-|.-|+||||+++.+.+...
T Consensus         5 ~~~rI~iEG~iGsGKSTl~~~L~~~l~   31 (333)
T d1p6xa_           5 TIVRIYLDGVYGIGKSTTGRVMASAAS   31 (333)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHSGGG
T ss_pred             ceEEEEEECCccCCHHHHHHHHHHHhc
Confidence            356788899999999999999988753

>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=88.14  E-value=0.21  Score=40.56  Aligned_cols=37  Identities=11%  Similarity=0.123  Sum_probs=27.8

Q ss_pred             HHHHHHHHhcCCCCCCCCceEEEEEecCCChHHHHHHHHhhc
Q 047559          193 KAKMLEMVLTDTSSDHSNLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       193 ~~~l~~~L~~~~~~~~~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      +..+..+|...     ++-..+.|+|+++.|||++|..+..-
T Consensus        40 l~~l~~~l~~~-----PKkn~i~~~GP~~TGKS~f~~sl~~~   76 (205)
T d1tuea_          40 LGALKSFLKGT-----PKKNCLVFCGPANTGKSYFGMSFIHF   76 (205)
T ss_dssp             HHHHHHHHHTC-----TTCSEEEEESCGGGCHHHHHHHHHHH
T ss_pred             HHHHHHHHcCC-----CCceEEEEECCCCccHHHHHHHHHHH
Confidence            45555566433     45589999999999999999887654

>d2fz4a1 c.37.1.19 (A:24-229) DNA repair protein RAD25 {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DNA repair protein RAD25
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=87.96  E-value=3.2  Score=33.26  Aligned_cols=20  Identities=40%  Similarity=0.403  Sum_probs=16.2

Q ss_pred             EEEecCCChHHHHHHHHhhc
Q 047559          215 PIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       215 ~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .|+++.|.|||.+|..+...
T Consensus        89 ll~~~tG~GKT~~a~~~~~~  108 (206)
T d2fz4a1          89 CIVLPTGSGKTHVAMAAINE  108 (206)
T ss_dssp             EEEESSSTTHHHHHHHHHHH
T ss_pred             EEEeCCCCCceehHHhHHHH
Confidence            47789999999988777654

>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=87.79  E-value=0.067  Score=44.81  Aligned_cols=24  Identities=25%  Similarity=0.441  Sum_probs=19.1

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      ++..++|.+|+|||||...+..+.
T Consensus        98 ~~~vl~G~SGVGKSSLiN~L~~~~  121 (231)
T d1t9ha2          98 KTTVFAGQSGVGKSSLLNAISPEL  121 (231)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC--
T ss_pred             ceEEEECCCCccHHHHHHhhccHh
Confidence            355688999999999999987653

>d1e2ka_ c.37.1.1 (A:) Thymidine kinase {Herpes simplex virus type 1, different strains [TaxId: 10298]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Herpes simplex virus type 1, different strains [TaxId: 10298]

Probab=87.53  E-value=0.12  Score=45.68  Aligned_cols=24  Identities=33%  Similarity=0.317  Sum_probs=20.5

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      +..|+|-|.-|+||||+++.+.+.
T Consensus         4 ~lrI~IEG~iGsGKTTl~~~La~~   27 (329)
T d1e2ka_           4 LLRVYIDGPHGMGKTTTTQLLVAL   27 (329)
T ss_dssp             EEEEEECSCTTSSHHHHHHHHTC-
T ss_pred             ceEEEEECCcCCCHHHHHHHHHHH
Confidence            456899999999999999999765

>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=87.32  E-value=0.18  Score=43.27  Aligned_cols=22  Identities=41%  Similarity=0.708  Sum_probs=19.7

Q ss_pred             ceEEEEEecCCChHHHHHHHHh
Q 047559          211 LAVIPIVGMAGVGKTTLAREVY  232 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~  232 (444)
                      +|-|+|+|..|.|||||+..+.
T Consensus         2 iRNv~iiGh~~~GKTtL~e~ll   23 (267)
T d2dy1a2           2 IRTVALVGHAGSGKTTLTEALL   23 (267)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHH
T ss_pred             eeEEEEEcCCCCcHHHHHHHHH
Confidence            4779999999999999999884

>d1uaaa1 c.37.1.19 (A:2-307) DEXX box DNA helicase {Escherichia coli, RepD [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Escherichia coli, RepD [TaxId: 562]

Probab=86.76  E-value=0.28  Score=42.49  Aligned_cols=16  Identities=31%  Similarity=0.372  Sum_probs=13.5

Q ss_pred             EEEEEecCCChHHHHH
Q 047559          213 VIPIVGMAGVGKTTLA  228 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa  228 (444)
                      .+.|.|.+|+||||.+
T Consensus        16 ~~lI~g~aGTGKTt~l   31 (306)
T d1uaaa1          16 PCLVLAGAGSGKTRVI   31 (306)
T ss_dssp             EEEECCCTTSCHHHHH
T ss_pred             CEEEEeeCCccHHHHH
Confidence            4778999999999754

>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=86.61  E-value=0.34  Score=42.37  Aligned_cols=17  Identities=35%  Similarity=0.429  Sum_probs=13.8

Q ss_pred             EEEEEecCCChHHHHHH
Q 047559          213 VIPIVGMAGVGKTTLAR  229 (444)
Q Consensus       213 vi~I~G~~GiGKTtLa~  229 (444)
                      .+.|.|.+|+||||.+-
T Consensus        26 ~~lV~g~aGSGKTt~l~   42 (318)
T d1pjra1          26 PLLIMAGAGSGKTRVLT   42 (318)
T ss_dssp             CEEEEECTTSCHHHHHH
T ss_pred             CEEEEecCCccHHHHHH
Confidence            36788999999997653

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor IF2/eIF5b, N-terminal (G) domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=86.34  E-value=0.19  Score=41.92  Aligned_cols=23  Identities=26%  Similarity=0.511  Sum_probs=20.2

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      .+|+|+|-.+.|||||...+...
T Consensus         6 p~IaIiGh~d~GKSTL~~~L~~~   28 (227)
T d1g7sa4           6 PIVSVLGHVDHGKTTLLDHIRGS   28 (227)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEEeCCCccHHHHHHHHHhh
Confidence            46999999999999999988654

>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=85.74  E-value=0.55  Score=42.75  Aligned_cols=23  Identities=26%  Similarity=0.413  Sum_probs=20.9

Q ss_pred             eEEEEEecCCChHHHHHHHHhhc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      ..|.|.|+.|+||||....+.+.
T Consensus       159 GliLvtGpTGSGKSTTl~~~l~~  181 (401)
T d1p9ra_         159 GIILVTGPTGSGKSTTLYAGLQE  181 (401)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHH
T ss_pred             ceEEEEcCCCCCccHHHHHHhhh
Confidence            79999999999999999888764

>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=85.25  E-value=0.46  Score=40.58  Aligned_cols=26  Identities=27%  Similarity=0.342  Sum_probs=22.2

Q ss_pred             CCceEEEEEecCCChHHHHHHHHhhc
Q 047559          209 SNLAVIPIVGMAGVGKTTLAREVYND  234 (444)
Q Consensus       209 ~~~~vi~I~G~~GiGKTtLa~~v~~~  234 (444)
                      +....+.++|+|+.|||+++..+..-
T Consensus       102 ~k~n~~~l~G~~~tGKS~f~~~i~~~  127 (267)
T d1u0ja_         102 GKRNTIWLFGPATTGKTNIAEAIAHT  127 (267)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CccEEEEEEcCCCCCHHHHHHHHHHH
Confidence            44578999999999999999888764

>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=83.54  E-value=0.21  Score=44.20  Aligned_cols=24  Identities=38%  Similarity=0.411  Sum_probs=21.1

Q ss_pred             eEEEEEecCCChHHHHHHHHhhcc
Q 047559          212 AVIPIVGMAGVGKTTLAREVYNDR  235 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~~~  235 (444)
                      -.|+|-|.-|+||||+++.+.+..
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            458899999999999999998764

>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=83.23  E-value=0.12  Score=41.87  Aligned_cols=22  Identities=27%  Similarity=0.360  Sum_probs=18.5

Q ss_pred             eEEEEEecCCChHHHHHHHHhh
Q 047559          212 AVIPIVGMAGVGKTTLAREVYN  233 (444)
Q Consensus       212 ~vi~I~G~~GiGKTtLa~~v~~  233 (444)
                      .+..|+|+.|+||||+...+.-
T Consensus        25 ~~tvi~G~NGsGKStil~Ai~~   46 (222)
T d1qhla_          25 LVTTLSGGNGAGKSTTMAAFVT   46 (222)
T ss_dssp             HHHHHHSCCSHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            3567889999999999998863

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=81.16  E-value=0.43  Score=40.91  Aligned_cols=26  Identities=27%  Similarity=0.402  Sum_probs=22.4

Q ss_pred             ceEEEEEecCCChHHHHHHHHhhccc
Q 047559          211 LAVIPIVGMAGVGKTTLAREVYNDRA  236 (444)
Q Consensus       211 ~~vi~I~G~~GiGKTtLa~~v~~~~~  236 (444)
                      .-.|+|+|++.+|||||...+.....
T Consensus       112 ~~~v~vvG~PNvGKSsliN~L~~~~~  137 (273)
T d1puja_         112 AIRALIIGIPNVGKSTLINRLAKKNI  137 (273)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTSCC
T ss_pred             ceEEEEEecCccchhhhhhhhhccce
Confidence            35689999999999999999987643