Citrus Sinensis ID: 048765

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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----
Protein Sequence
MVDAIVSPLLEQLISVSAEELTQQVKLVKGAEQEVEKLTSHLQTIQAVLSDAEQRQVKEESVRVWLGRLKDVSYDIEDVLDEWITARRRLQMKQNADSAQKQVSSCFPASSIGFKKIILRQDIAVKIKGINKKLGVIATQKDMFKFVESGGASSARPGRVQSTSFIDEEEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTRK
Secondary Structure (PSIPRED)
cHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHcccccccEEccccccccccccccccccccccccccHHHHHHHHHHHccccccccccEEEEEEEccccccHHHHHHHHHcHHHHHHccccEEEEEEcccccHHHHHHHHHHHccccccccccHHHHHHHHHHHccccEEEEEEccccccccccHHHHHHHHcccccccEEEEcccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccEEEccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccEEEcccEEccccHHHHHHHHHHccccccccccEEEEEEccccccHHHHHHHHHccHHHHHcccEEEEEEEcccccHHHHHHHHHHHHcccccccccHHHHHHHHHHHHcccEEEEEEEccccccHHHHHHHHHHHHccccccEEEEEEcc
Coil and Loop (DISEMBL)
MVDAIVSPLLEQLISVSAEELTQQVKLVKGAEQEVEKLTSHLQTIQAVLSDAEQRQVKEESVRVWLGRLKDVSYDIEDVLDEWITARRRLQMKQNADSAQkqvsscfpassigfkkiILRQDIAVKIKGINKKLGVIATQKDMFKFVesggassarpgrvqstsfideeeicgrvgeKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDdvwdgnyvkwepfyhclknglhgskILVTTRK
Flexible Loop (DISEMBL)
MVDAIVSPLLEQLISVSAEELTQQVKLVKGAEQEVEKLTSHLQTIQAvlsdaeqrqvkeeSVRVwlgrlkdvsydieDVLDEWITARRRLQMKQNADSAQKQVSSCFPASSIGFKKIILRQDIAVKIKGINKKLGVIATQKDMFKFVEsggassarpgrvqstsfideeeicgRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYhclknglhgskilvttrk
Low Complexity Region (SEG)
MVDAIVSPLLEQLISVSAEELTQQVKLVKGAEQEVEKLTSHLQTIQAVLSDAEQRQVKEESVRVWLGRLKDVSYDIEDVLDEWITARRRLQMKQNADSAQKQVSSCFPASSIGFKKIILRQDIAVKIKGINKKLGVIATQKDMFKFVESGGASSARPGRVQSTSFIDEEEICGRVGeknellskllcesseQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTRK
Disordered region (IsUnstruct)
********LLEQLISVSA**LTQQVKLV***********SHLQTIQAVL*********EESVRVWLGRLKDVSYDIEDVLDEWITARRRL**************SCFPASSIGFKKIILRQDIAVKIKGINKKLGVIATQKDMFKFV******************IDEEEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILV****
Disordered Region (DISOPRED)
MVDAIVSPLLEQLISVSAEELTQQVKLVKGAEQEVEKLTSHLQTIQAVLSDAEQRQVKEESVRVWLGRLKDVSYDIEDVLDEWITAR*******************FPASSIGFKKIILRQDIAVKIKGINKKLGVIATQKDMF*********************IDEEEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEAL*************LRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTRK
Disordered Region (DISEMBL)
MVDAIVSPLLEQLISVSAEELTQQVKLVKGAEQEVEKLTSHLQTIQAVLSDAEQRQVKEESVRVWLGRLKDVSYDIEDVLDEWITARRRL**************SCFPASSIGFKKIILRQDIAVKIKGINKKLGVIATQKDMFKFVE************QSTSFIDEEEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTRK
Disordered Region (DISPRO)
MVDAIVSPLLEQLISVSAEELTQQVKLVKGAEQEVEKLTSHLQTIQAVLSDAEQRQVKEESVRVWLGRLKDVSYDIEDVLDEWITARRRLQMKQNADSAQKQVSSCFPASSIGFKKIILRQDIAVKIKGINKKLGVIATQKDMFKFVE*************STSFIDEEEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTRK
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MVDAIVSPLLEQLISVSAEELTQQVKLxxxxxxxxxxxxxxxxxxxxxxxxxxxxQVKEESVRVWLGRLKDVSYDIEDVLDEWITARRRLQMKQNADSAQKQVSSCFPASSIGFKKIILRQDIAVKIKGINKKLGVIATQKDMFKFVESGGASSARPGRVQSTSFIDEEEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTRK
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	314	2.2.26 [Sep-21-2011]
Q7XA39	988	Putative disease resistan	N/A	no	0.926	0.294	0.335	3e-42
Q7XBQ9	970	Disease resistance protei	N/A	no	0.926	0.3	0.349	2e-41
Q7XA42	979	Putative disease resistan	N/A	no	0.917	0.294	0.324	1e-40
Q7XA40	992	Putative disease resistan	N/A	no	0.929	0.294	0.319	2e-38
Q9LRR4	1054	Putative disease resistan	yes	no	0.952	0.283	0.310	9e-35
Q38834	852	Disease resistance RPP13-	no	no	0.942	0.347	0.302	2e-33
Q9LRR5	1424	Putative disease resistan	no	no	0.847	0.186	0.296	6e-23
P0C8S1	906	Probable disease resistan	no	no	0.923	0.320	0.283	7e-23
Q8W4J9	908	Disease resistance protei	no	no	0.843	0.291	0.277	5e-22
Q9M667	835	Disease resistance protei	no	no	0.926	0.348	0.274	3e-21

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

 Score =  172 bits (436), Expect = 3e-42,   Method: Compositional matrix adjust.
 Identities = 106/316 (33%), Positives = 170/316 (53%), Gaps = 25/316 (7%)

Query: 1   MVDAIVSPLLEQLISVSAEELTQQVKLVKGAEQEVEKLTSHLQTIQAVLSDAEQRQVKEE 60
           M +A +  LLE L S   ++L     L+ G E+E EKL+S   TIQAVL DA+++Q+K++
Sbjct: 1   MAEAFLQVLLENLTSFIGDKLV----LIFGFEKECEKLSSVFSTIQAVLQDAQEKQLKDK 56

Query: 61  SVRVWLGRLKDVSYDIEDVLDEWITARRRLQMKQNADSAQKQVSSCFPASSIGFKK---I 117
           ++  WL +L   +Y+++D+L E      R                 F  S +GF     I
Sbjct: 57  AIENWLQKLNSAAYEVDDILGECKNEAIR-----------------FEQSRLGFYHPGII 99

Query: 118 ILRQDIAVKIKGINKKLGVIATQKDMFKFVESGGASSARPGRVQSTSFIDEEEICGRVGE 177
             R  I  ++K I +KL  I+ ++  F F+E      A     ++   + E ++ GR  E
Sbjct: 100 NFRHKIGRRMKEIMEKLDAISEERRKFHFLEKITERQAAAATRETGFVLTEPKVYGRDKE 159

Query: 178 KNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSET 237
           ++E++ K+L  +    + L +  I+GMGG+GKTTLAQ+  N E V + F+  +WVCVS+ 
Sbjct: 160 EDEIV-KILINNVNVAEELPVFPIIGMGGLGKTTLAQMIFNDERVTKHFNPKIWVCVSDD 218

Query: 238 FEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYH 297
           F+E R+ K ++  ++    H+ +  S  + + E + GK +LLVLDDVW+ +  KW     
Sbjct: 219 FDEKRLIKTIIGNIERSSPHVEDLASFQKKLQELLNGKRYLLVLDDVWNDDLEKWAKLRA 278

Query: 298 CLKNGLHGSKILVTTR 313
            L  G  G+ IL TTR
Sbjct: 279 VLTVGARGASILATTR 294

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 =  169 bits (429), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 110/315 (34%), Positives = 171/315 (54%), Gaps = 24/315 (7%)

Query: 1   MVDAIVSPLLEQLISVSAEELTQQVKLVKGAEQEVEKLTSHLQTIQAVLSDAEQRQVKEE 60
           M +A +  LL+ L S    EL     L+ G + E ++L+S   TIQAVL DA+++Q+  +
Sbjct: 1   MAEAFIQVLLDNLTSFLKGELV----LLFGFQDEFQRLSSMFSTIQAVLEDAQEKQLNNK 56

Query: 61  SVRVWLGRLKDVSYDIEDVLDEWITARRRLQMKQNADSAQKQVSSCFPASSIGFKKIILR 120
            +  WL +L   +Y+++D+LDE+ T   R         +Q +     P      K I  R
Sbjct: 57  PLENWLQKLNAATYEVDDILDEYKTKATRF--------SQSEYGRYHP------KVIPFR 102

Query: 121 QDIAVKIKGINKKLGVIATQKDMFKFVESGGASSARPGRVQSTSFIDEEEICGRVGEKNE 180
             +  ++  + KKL  IA ++  F   E      A   R ++ S + E ++ GR  EK+E
Sbjct: 103 HKVGKRMDQVMKKLKAIAEERKNFHLHEKIVERQAV--RRETGSVLTEPQVYGRDKEKDE 160

Query: 181 LLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEE 240
           ++  L+   S+ Q  L ++ I+GMGG+GKTTLAQ+  N + V   F   +W+CVSE F+E
Sbjct: 161 IVKILINNVSDAQH-LSVLPILGMGGLGKTTLAQMVFNDQRVTEHFHSKIWICVSEDFDE 219

Query: 241 FRVAKAMVEALDGHESHLGEFQ--SLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHC 298
            R+ KA+VE+++G    LGE     L + + E + GK +LLVLDDVW+ +  KW      
Sbjct: 220 KRLIKAIVESIEG-RPLLGEMDLAPLQKKLQELLNGKRYLLVLDDVWNEDQQKWANLRAV 278

Query: 299 LKNGLHGSKILVTTR 313
           LK G  G+ +L TTR
Sbjct: 279 LKVGASGASVLTTTR 293

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

 Score =  167 bits (423), Expect = 1e-40,   Method: Compositional matrix adjust.
 Identities = 103/317 (32%), Positives = 172/317 (54%), Gaps = 29/317 (9%)

Query: 1   MVDAIVSPLLEQLISVSAEELTQQVKLVKGAEQEVEKLTSHLQTIQAVLSDAEQRQVKEE 60
           M +A +  +L+ L S    EL     L+ G + E ++L+S   TIQAVL DA+++Q+ ++
Sbjct: 1   MAEAFIQVVLDNLTSFLKGELV----LLFGFQDEFQRLSSMFSTIQAVLEDAQEKQLNDK 56

Query: 61  SVRVWLGRLKDVSYDIEDVLDEWITARRRLQMKQNADSAQKQVSSCFPASSIGFKKIILR 120
            +  WL +L   +Y+++D+LDE+ T   R          Q +     P      K I  R
Sbjct: 57  PLENWLQKLNAATYEVDDILDEYKTKATRF--------LQSEYGRYHP------KVIPFR 102

Query: 121 QDIAVKIKGINKKLGVIATQKDMF----KFVESGGASSARPGRVQSTSFIDEEEICGRVG 176
             +  ++  + KKL  IA ++  F    K +E   A+       ++ S + E ++ GR  
Sbjct: 103 HKVGKRMDQVMKKLNAIAEERKKFHLQEKIIERQAATR------ETGSVLTEPQVYGRDK 156

Query: 177 EKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSE 236
           EK+E++  L+  +S+ QK L ++ I+GMGG+GKTTL+Q+  N + V  +F   +W+C+S+
Sbjct: 157 EKDEIVKILINTASDAQK-LSVLPILGMGGLGKTTLSQMVFNDQRVTERFYPKIWICISD 215

Query: 237 TFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFY 296
            F E R+ KA+VE+++G      +   L + + E + GK + LVLDDVW+ +  KW    
Sbjct: 216 DFNEKRLIKAIVESIEGKSLSDMDLAPLQKKLQELLNGKRYFLVLDDVWNEDQHKWANLR 275

Query: 297 HCLKNGLHGSKILVTTR 313
             LK G  G+ +L TTR
Sbjct: 276 AVLKVGASGAFVLTTTR 292

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

 Score =  159 bits (403), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 100/313 (31%), Positives = 171/313 (54%), Gaps = 21/313 (6%)

Query: 1   MVDAIVSPLLEQLISVSAEELTQQVKLVKGAEQEVEKLTSHLQTIQAVLSDAEQRQVKEE 60
           M +A +  LL+ L      EL     LV G E+E +KL+S    IQAVL DA+++Q+K +
Sbjct: 1   MAEAFLQVLLDNLTFFIQGELG----LVFGFEKEFKKLSSMFSMIQAVLEDAQEKQLKYK 56

Query: 61  SVRVWLGRLKDVSYDIEDVLDEWITARRRLQMKQNADSAQKQVSSCFPASSIGFKKIILR 120
           +++ WL +L   +Y+++D+LD+  T   R +         + ++ C+             
Sbjct: 57  AIKNWLQKLNVAAYEVDDILDDCKTEAARFKQAVLGRYHPRTITFCY------------- 103

Query: 121 QDIAVKIKGINKKLGVIATQKDMFKFVESGGASSARPGRVQSTSFIDEEEICGRVGEKNE 180
             +  ++K + +KL  IA ++  F   E      A   R Q+   + E ++ GR  E++E
Sbjct: 104 -KVGKRMKEMMEKLDAIAEERRNFHLDERIIERQA--ARRQTGFVLTEPKVYGREKEEDE 160

Query: 181 LLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEE 240
           ++ K+L  +    + + ++ I+GMGG+GKTTLAQ+  N + +   F+  +WVCVS+ F+E
Sbjct: 161 IV-KILINNVSYSEEVPVLPILGMGGLGKTTLAQMVFNDQRITEHFNLKIWVCVSDDFDE 219

Query: 241 FRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLK 300
            R+ KA+VE+++G      +   L + + E + GK + LVLDDVW+ +  KW+     LK
Sbjct: 220 KRLIKAIVESIEGKSLGDMDLAPLQKKLQELLNGKRYFLVLDDVWNEDQEKWDNLRAVLK 279

Query: 301 NGLHGSKILVTTR 313
            G  G+ IL+TTR
Sbjct: 280 IGASGASILITTR 292

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

 Score =  147 bits (371), Expect = 9e-35,   Method: Compositional matrix adjust.
 Identities = 98/316 (31%), Positives = 167/316 (52%), Gaps = 17/316 (5%)

Query: 4   AIVSPLLEQLISVSAEELTQQVKLVKGAEQEVEKLTSHLQTIQAVLSDAEQRQVKEESVR 63
           A +  L + L+S       ++ +L    E  +E+L++ L TI AVL DAE++Q+    V 
Sbjct: 11  AFLQALFQTLVSEPFRSFFKRREL---NENLLERLSTALLTITAVLIDAEEKQITNPVVE 67

Query: 64  VWLGRLKDVSYDIEDVLDEWITARRRLQMKQNADSAQKQVSSCFPASSIGFKKIILRQDI 123
            W+  L+DV Y  ED LD+  T   RL +   + S+ + +       S+G       + +
Sbjct: 68  KWVNELRDVVYHAEDALDDIATEALRLNIGAESSSSNR-LRQLRGRMSLGDFLDGNSEHL 126

Query: 124 AVKIKGINKKLGVIATQKDMFKFVESGGASSARPGRVQSTSFIDEEEICGRVGEKNELLS 183
             +++ +  +L  +A+Q+++    E       +  R+ +TS +DE E+ GR  +K+E++ 
Sbjct: 127 ETRLEKVTIRLERLASQRNILGLKELTAMIPKQ--RLPTTSLVDESEVFGRDDDKDEIMR 184

Query: 184 KLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRV 243
            L+ E+  +  G+ +++IVG+GG+GKTTL+QL  N + V   F   +W  VSE F+ F++
Sbjct: 185 FLIPENG-KDNGITVVAIVGIGGVGKTTLSQLLYNDQHVRSYFGTKVWAHVSEEFDVFKI 243

Query: 244 AKAMVEALDGHESHLGEFQSLLRHIYESIAGK--SFLLVLDDVWDGNYVKWE----PFYH 297
            K + E++        +   L   + E + G    FLLVLDD+W+ N+  W+    PF H
Sbjct: 244 TKKVYESVTSRPCEFTDLDVLQVKLKERLTGTGLPFLLVLDDLWNENFADWDLLRQPFIH 303

Query: 298 CLKNGLHGSKILVTTR 313
                  GS+ILVTTR
Sbjct: 304 ----AAQGSQILVTTR 315

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 =  143 bits (360), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 95/314 (30%), Positives = 175/314 (55%), Gaps = 18/314 (5%)

Query: 1   MVDAIVSPLLEQLISVSAEELTQQVKLVKGAEQEVEKLTSHLQTIQAVLSDAEQRQVKEE 60
           MVDA+V+  LE+ +++    L ++ + V    +++E L S L+ +Q+ L DAE+++   E
Sbjct: 1   MVDAVVTVFLEKTLNI----LEEKGRTVSDYRKQLEDLQSELKYMQSFLKDAERQKRTNE 56

Query: 61  SVRVWLGRLKDVSYDIEDVLDEWITARRRLQMKQNADSAQKQVSSCFPASSIGFKKIILR 120
           ++R  +  L+++ Y+ ED+L +   A        + D   +Q SS    S +   ++ L+
Sbjct: 57  TLRTLVADLRELVYEAEDILVDCQLA--------DGDDGNEQRSSNAWLSRLHPARVPLQ 108

Query: 121 QDIAVKIKGINKKLGVIATQ-KDMFKFVESGGASSARPGRVQSTSFIDEEEICGRVGEKN 179
              + +++ IN+++  I +Q +  F+F+              S+   D  ++ G  G+K 
Sbjct: 109 YKKSKRLQEINERITKIKSQVEPYFEFITPSNVGRDNGTDRWSSPVYDHTQVVGLEGDKR 168

Query: 180 ELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFE 239
           ++  + L  S++ Q  L I++ VGMGG+GKTT+AQ   N +E+  +F++ +WV VS+TF 
Sbjct: 169 KI-KEWLFRSNDSQ--LLIMAFVGMGGLGKTTIAQEVFNDKEIEHRFERRIWVSVSQTFT 225

Query: 240 EFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCL 299
           E ++ ++++  L G  S   +  +LLR I + + GK +L+V+DDVWD N   W+  Y  L
Sbjct: 226 EEQIMRSILRNL-GDASVGDDIGTLLRKIQQYLLGKRYLIVMDDVWDKNLSWWDKIYQGL 284

Query: 300 KNGLHGSKILVTTR 313
             G  G  ++VTTR
Sbjct: 285 PRG-QGGSVIVTTR 297

Disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  108 bits (269), Expect = 6e-23,   Method: Compositional matrix adjust.
 Identities = 92/310 (29%), Positives = 146/310 (47%), Gaps = 44/310 (14%)

Query: 25  VKLVKGAEQE--VEKLTSHLQTIQAVLSDAEQRQVKEESVRVWLGRLKDVSYDIEDVLDE 82
           V+L KG      +++L   L T   VL+DA+QR      V+ WL  +KD  +  ED+LDE
Sbjct: 24  VELCKGKSSSALLKRLKVALVTANPVLADADQRAEHVREVKHWLTGIKDAFFQAEDILDE 83

Query: 83  WITA--RRRLQMKQNADSAQKQVSSCFPASSIG--FKKIIL-RQDIAVKIKGINKKLGVI 137
             T   RRR+  +               A  +G  F+ ++  R+ I  KI+   +K  V+
Sbjct: 84  LQTEALRRRVVAE---------------AGGLGGLFQNLMAGREAIQKKIEPKMEK--VV 126

Query: 138 ATQKDMFKFVESGG--------------ASSARPGRVQSTSFIDEEEICGRVGEKNELLS 183
              +   K +E  G              AS +RP        + +  + GRV +K  L++
Sbjct: 127 RLLEHHVKHIEVIGLKEYSETREPQWRQASRSRPDD------LPQGRLVGRVEDKLALVN 180

Query: 184 KLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRV 243
            LL +         +IS+VGM G+GKTTL ++  N   V   F+  +W+     F  F V
Sbjct: 181 LLLSDDEISIGKPAVISVVGMPGVGKTTLTEIVFNDYRVTEHFEVKMWISAGINFNVFTV 240

Query: 244 AKAMVEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGL 303
            KA+++ +     +  +  SL   + ++++GK FLLVLDD W  +  +WE F     +  
Sbjct: 241 TKAVLQDITSSAVNTEDLPSLQIQLKKTLSGKRFLLVLDDFWSESDSEWESFQVAFTDAE 300

Query: 304 HGSKILVTTR 313
            GSKI++TTR
Sbjct: 301 EGSKIVLTTR 310

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 =  108 bits (269), Expect = 7e-23,   Method: Compositional matrix adjust.
 Identities = 92/324 (28%), Positives = 164/324 (50%), Gaps = 34/324 (10%)

Query: 1   MVDAIVSPLLEQLISVSAEELTQQVKLVKGAEQEVEKLTSHLQTIQAVLSDAEQRQVKEE 60
           M +A+VS  +E+L     E L+++   + G +++V+ L   L  +Q++L DA+ ++ + E
Sbjct: 1   MAEAVVSFGVEKL----WELLSRESARLNGIDEQVDGLKRQLGRLQSLLKDADAKKNETE 56

Query: 61  SVRVWLGRLKDVSYDIEDVLDEWITARRRLQMKQNADSAQKQVSSCFPASSIGFKKIILR 120
            VR +L  +KD+ YD +D+++ ++     L+ K+     Q +  +CF         ++ R
Sbjct: 57  RVRNFLEDVKDIVYDADDIIESFLL--NELRGKEKGIKKQVRTLACF---------LVDR 105

Query: 121 QDIAVKIKGINKKLG--VIATQKDMFKFVESGGASS------ARPGRVQSTSFIDEEEIC 172
           +  A  I+GI K++   ++  Q    + +  GG  S       R  R Q+ S   E ++ 
Sbjct: 106 RKFASDIEGITKRISEVIVGMQSLGIQHIADGGGRSLSLQERQREIR-QTFSRNSESDLV 164

Query: 173 GRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWV 232
           G      EL+  L+   S Q     ++S+ GMGGIGKTTLA+   +H+ V R FD   WV
Sbjct: 165 GLDQSVEELVDHLVENDSVQ-----VVSVSGMGGIGKTTLARQVFHHDIVRRHFDGFSWV 219

Query: 233 CVSETFEEFRVAKAMVEALDGHESHLGEFQ--SLLRHIYESIAGKSFLLVLDDVWDGNYV 290
           CVS+ F    V + +++ L  ++  + +    +L   ++E +    +LLVLDDVW     
Sbjct: 220 CVSQQFTRKDVWQRILQDLRPYDEGIIQMDEYTLQGELFELLESGRYLLVLDDVWKEE-- 277

Query: 291 KWEPFYHCLKNGLHGSKILVTTRK 314
            W+       +   G K+L+T+R 
Sbjct: 278 DWDRIKAVFPHK-RGWKMLLTSRN 300

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8W4J9|RPP8_ARATH Disease resistance protein RPP8 OS=Arabidopsis thaliana GN=RPP8 PE=1 SV=2

 Score =  105 bits (261), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 82/296 (27%), Positives = 151/296 (51%), Gaps = 31/296 (10%)

Query: 1   MVDAIVSPLLEQLISVSAEELTQQVKLVKGAEQEVEKLTSHLQTIQAVLSDAEQRQVKEE 60
           M +A VS  LE+L  +    L+++ + ++G + +++ L   L+++Q++L DA+ ++   +
Sbjct: 1   MAEAFVSFGLEKLWDL----LSRESERLQGIDGQLDGLKRQLRSLQSLLKDADAKKHGSD 56

Query: 61  SVRVWLGRLKDVSYDIEDVLDEWITARRRLQMKQNADSAQKQVSSCFPASSIGFKKIILR 120
            VR +L  +KD+ +D ED+++ ++    +L  K        +  +CF            R
Sbjct: 57  RVRNFLEDVKDLVFDAEDIIESYVL--NKLSGKGKGVKKHVRRLACFLTD---------R 105

Query: 121 QDIAVKIKGINKKLGVIATQKDMFKF--VESGGASSA-----RPGRVQSTSFID--EEEI 171
             +A  I+GI K++  +  +   F    +  GG S +     R  R    ++ D  E ++
Sbjct: 106 HKVASDIEGITKRISEVIGEMQSFGIQQIIDGGRSLSLQERQRVQREIRQTYPDSSESDL 165

Query: 172 CGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILW 231
            G      EL+  L+     Q     ++SI GMGGIGKTTLA+   +H+ V R FD   W
Sbjct: 166 VGVEQSVKELVGHLVENDVHQ-----VVSIAGMGGIGKTTLARQVFHHDLVRRHFDGFAW 220

Query: 232 VCVSETFEEFRVAKAMVEALDGHESHLGEFQ--SLLRHIYESIAGKSFLLVLDDVW 285
           VCVS+ F +  V + +++ L  H+  + +    +L R +++ +    +L+VLDDVW
Sbjct: 221 VCVSQQFTQKHVWQRILQELQPHDGDILQMDEYALQRKLFQLLEAGRYLVVLDDVW 276

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via an indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth. The interaction with TIP (TCV-interacting protein) may be essential for the recognition of the avirulence proteins, and the triggering of the defense response.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9M667|RPP13_ARATH Disease resistance protein RPP13 OS=Arabidopsis thaliana GN=RPP13 PE=2 SV=2

 Score =  102 bits (254), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 90/328 (27%), Positives = 154/328 (46%), Gaps = 37/328 (11%)

Query: 1   MVDAIVSPLLEQLISVSAEELTQQVKLVKGAEQEVEKLTSHLQTIQAVLSDAEQRQVKEE 60
           MVDAI     E ++      L ++  +    ++++E+L + L  I   L D E R+ ++E
Sbjct: 1   MVDAIT----EFVVGKIGNYLIEEASMFMAVKEDLEELKTELTCIHGYLKDVEAREREDE 56

Query: 61  SVRVWLGRLKDVSYDIEDVLDEW------ITARRRLQMKQNADSAQKQVSSCFPASSIGF 114
             + W   + D +YD+EDVLD +       + RR L+   N    +    S      I  
Sbjct: 57  VSKEWSKLVLDFAYDVEDVLDTYHLKLEERSQRRGLRRLTNKIGRKMDAYSIVDDIRILK 116

Query: 115 KKI--ILRQDIAVKIKGINKKLGVIATQKDMFKFVESGGASSARPGRVQSTSFIDEEE-I 171
           ++I  I R+     I G+ +  G              G  SS R  +++    +D+EE +
Sbjct: 117 RRILDITRKRETYGIGGLKEPQG-------------GGNTSSLRVRQLRRARSVDQEEVV 163

Query: 172 CGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILW 231
            G   +   LL KLL     ++K   IISI GMGG+GKT LA+   N  +V  +F+   W
Sbjct: 164 VGLEDDAKILLEKLL---DYEEKNRFIISIFGMGGLGKTALARKLYNSRDVKERFEYRAW 220

Query: 232 VCVSETFEEFRVAKAMVEAL---DGHE-SHLGEF--QSLLRHIYESIAGKSFLLVLDDVW 285
             VS+ ++   +   ++ +L    G E   + +F  + L  ++Y  + GK +L+V+DD+W
Sbjct: 221 TYVSQEYKTGDILMRIIRSLGMTSGEELEKIRKFAEEELEVYLYGLLEGKKYLVVVDDIW 280

Query: 286 DGNYVKWEPFYHCLKNGLHGSKILVTTR 313
           +     W+     L     GS++++TTR
Sbjct: 281 ERE--AWDSLKRALPCNHEGSRVIITTR 306

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via an indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth. In contrast to other resistance proteins, it works independently of ESD1 and NSD1 proteins and does not require the accumulation of salicylic acid, suggesting the existence of an independent signaling pathway. The specificity to avirulence proteins differs in the different cultivars.

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	314
224122712	945	cc-nbs-lrr resistance protein [Populus t	0.993	0.330	0.470	8e-74
225463558	928	PREDICTED: putative disease resistance p	0.993	0.336	0.479	9e-74
224134406	987	cc-nbs-lrr resistance protein [Populus t	0.993	0.316	0.454	1e-71
359482798	932	PREDICTED: putative disease resistance p	0.990	0.333	0.463	2e-71
359482800	1006	PREDICTED: putative disease resistance p	0.980	0.306	0.479	3e-71
359482784	919	PREDICTED: putative disease resistance p	0.990	0.338	0.479	3e-71
147855900	541	hypothetical protein VITISV_034887 [Viti	0.990	0.574	0.457	1e-70
224115620	963	cc-nbs-lrr resistance protein [Populus t	0.993	0.323	0.490	1e-70
359482790	923	PREDICTED: putative disease resistance p	0.993	0.338	0.465	2e-70
224115686	938	cc-nbs-lrr resistance protein [Populus t	0.987	0.330	0.482	3e-70

>gi|224122712|ref|XP_002318907.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222859580|gb|EEE97127.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  283 bits (723), Expect = 8e-74,   Method: Compositional matrix adjust.
 Identities = 149/317 (47%), Positives = 219/317 (69%), Gaps = 5/317 (1%)

Query: 1   MVDAIVSPLLEQLISVSAEELTQQVKLVKGAEQEVEKLTSHLQTIQAVLSDAEQRQVKEE 60
           M +A++SP+LEQL ++ A+++ ++V LV G +++V+KL S+L  IQ+VL DA+++QVK++
Sbjct: 1   MAEALLSPILEQLTTIVAQQVQEEVNLVVGVKKQVDKLKSNLLDIQSVLEDADRKQVKDK 60

Query: 61  SVRVWLGRLKDVSYDIEDVLDEWITARRRLQMKQ---NADSAQKQVSSCFPASSIGFKKI 117
           +VR W+ +LKD  YD++DVLDEW TA  R +M++   N  S QK   S   +    F ++
Sbjct: 61  AVRDWVDKLKDACYDMDDVLDEWSTAILRWKMEEAEENTHSRQKIRCSFLGSPCFCFNQV 120

Query: 118 ILRQDIAVKIKGINKKLGVIATQKDMFKFVESGGASSARPGRVQSTSFIDEEEICGRVGE 177
           + R+DIA+KIK +++K+  IA ++  + F    G    +  R+ +TSF+DE  + GR GE
Sbjct: 121 VRRRDIALKIKEVSEKVDDIAKERAKYGFDLYKGTDELQ--RLTTTSFVDESSVIGRDGE 178

Query: 178 KNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSET 237
           K  ++SKLL ESS + + + +IS+VG+GGIGKTTLAQLA N  EV   F+K +WVCVSE 
Sbjct: 179 KRNVVSKLLAESSHEARDVDVISLVGLGGIGKTTLAQLAFNDSEVTAHFEKKIWVCVSEP 238

Query: 238 FEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYH 297
           F+E R+AKA++E L+G  ++L E QSLL+ + ESI GK  LLVLDDVW  N+ +WE    
Sbjct: 239 FDEIRIAKAILEQLEGRPTNLVELQSLLQGVSESITGKRLLLVLDDVWTENHGQWEQLKP 298

Query: 298 CLKNGLHGSKILVTTRK 314
            L     GS+ILVTTRK
Sbjct: 299 SLTGCARGSRILVTTRK 315

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225463558|ref|XP_002267795.1| PREDICTED: putative disease resistance protein RGA3-like [Vitis vinifera]

 Score =  283 bits (723), Expect = 9e-74,   Method: Compositional matrix adjust.
 Identities = 151/315 (47%), Positives = 211/315 (66%), Gaps = 3/315 (0%)

Query: 1   MVDAIVSPLLEQLISVSAEELTQQVKLVKGAEQEVEKLTSHLQTIQAVLSDAEQRQVKEE 60
           M DA+VS +LE+L SV  +++ QQV LV G E EV+ L S LQ+I+AVL DAE+RQ  EE
Sbjct: 1   MADALVSIVLERLASVLEQQIRQQVTLVVGVESEVDNLKSTLQSIRAVLGDAEKRQFTEE 60

Query: 61  SVRVWLGRLKDVSYDIEDVLDEWITARRRLQMK-QNADSAQKQVSSCFPASSIGFKKIIL 119
            V+VWL RLKD+SY ++DV+D W TA  +LQ+  +N    + ++SSC P+  + FK++ L
Sbjct: 61  LVKVWLERLKDISYQMDDVVDGWSTALLKLQIAAENPGIPKPKISSCLPSPCVCFKQVSL 120

Query: 120 RQDIAVKIKGINKKLGVIATQKDMFKFVESGGASSARPGRVQSTSFIDEEEICGRVGEKN 179
           R DIA++IK I K+L  IA +++ F FV S  +   +P R  ++S ID  + CGR  + N
Sbjct: 121 RHDIALQIKDIKKQLNAIANERNQFNFVSS--SIIQQPHRRITSSVIDVSQFCGRDADIN 178

Query: 180 ELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFE 239
            ++ KLL  S ++   L+I+SIVGMGGIGKTTLAQLA NHE+V   F + +WVCVS+ F+
Sbjct: 179 IIIGKLLGGSCQESSSLYIVSIVGMGGIGKTTLAQLAYNHEKVKSYFHERMWVCVSDPFD 238

Query: 240 EFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCL 299
             R+++A++EAL    S   + +++ + I   IA + FLLVLDDVW  NY  WE     L
Sbjct: 239 PMRISRAILEALQKKSSGFHDLEAVQQKICTLIADEKFLLVLDDVWTENYELWEQVESSL 298

Query: 300 KNGLHGSKILVTTRK 314
           K G  GS+ILVTTR 
Sbjct: 299 KGGAPGSRILVTTRN 313

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224134406|ref|XP_002321815.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222868811|gb|EEF05942.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  276 bits (705), Expect = 1e-71,   Method: Compositional matrix adjust.
 Identities = 156/343 (45%), Positives = 214/343 (62%), Gaps = 31/343 (9%)

Query: 1   MVDAIVSPLLEQLISVSAEELTQQVKLVKGAEQEVEKLTSHLQTIQAVLSDAEQRQVKEE 60
           M DA+VS +LEQ+I+++  ++  +VKLV G E+E++ L ++ Q I+ VL DAE++Q+K+ 
Sbjct: 1   MADALVSTILEQIITIARHQVEHEVKLVVGVEKEIQHLKNNFQAIRDVLEDAERKQLKDT 60

Query: 61  SVRVWLGRLKDVSYDIEDVLDEWITA-----------------------------RRRLQ 91
           +V+ WL  LKDVSYD++DVLDEW TA                              RR +
Sbjct: 61  AVKHWLNNLKDVSYDMDDVLDEWSTAVLKWEMEEAENALAPKSVVFSFLRSCCFCFRRAE 120

Query: 92  MKQNADSAQKQVSSCFPASSIGFKKIILRQDIAVKIKGINKKLGVIATQKDMFKFVESGG 151
             +NA + +  VSS   +    F+++  R DIA KI  + +KL  IA +K MF F E   
Sbjct: 121 QAENALAPKSVVSSFLCSFCCSFRRVARRHDIAHKIIEVGQKLEDIAKRKAMFGF-ELHK 179

Query: 152 ASSARPGRVQSTSFIDEEEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTT 211
           A    P R Q+TSF+D   + GR  EK  ++SKLLC+SS++ + + +ISIVGMGG+GKTT
Sbjct: 180 AIEKEPDR-QTTSFVDVSRVHGREDEKKNVISKLLCDSSQEGRKVQVISIVGMGGLGKTT 238

Query: 212 LAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYES 271
           LAQLA N +E+   F+K +WVCVS  F+E  VAKA++E L G   +L E + L + I ES
Sbjct: 239 LAQLAYNADEIKTYFEKRIWVCVSHPFDENTVAKAIIEDLSGAAPNLVELEPLCKRISES 298

Query: 272 IAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTRK 314
           I GK FLLVLDDVW+ N  KWEP    LK G  GS+ILVTTRK
Sbjct: 299 IEGKKFLLVLDDVWEDNPRKWEPLKESLKCGAPGSRILVTTRK 341

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359482798|ref|XP_002268266.2| PREDICTED: putative disease resistance protein RGA4-like [Vitis vinifera]

 Score =  275 bits (704), Expect = 2e-71,   Method: Compositional matrix adjust.
 Identities = 147/317 (46%), Positives = 217/317 (68%), Gaps = 6/317 (1%)

Query: 1   MVDAIVSPLLEQLISVSAEELTQQVKLVKGAEQEVEKLTSHLQTIQAVLSDAEQRQVKEE 60
           M  A++S +L +L SV  +++  ++ LV G E E++ LT  L++++ VL DAE+RQVKE+
Sbjct: 1   MAHALLSIVLTRLASVVEQQIRDELTLVLGVEAEIQSLTDTLRSVRDVLEDAERRQVKEK 60

Query: 61  SVRVWLGRLKDVSYDIEDVLDEWITARRRLQMK--QNADSAQKQVSSCFPASSIGFKKII 118
           SV+ WL RLKD++Y ++DVLDEW TA  +LQM+  +NA  ++ +VSSC P+    FK++ 
Sbjct: 61  SVQGWLERLKDMAYQMDDVLDEWSTAILQLQMEGAENASMSKNKVSSCIPSPCFCFKQVA 120

Query: 119 LRQDIAVKIKGINKKLGVIATQKDMFKFVESGGASSARPGRVQSTSFIDEEEICGRVGEK 178
            R+DIA+KIK + ++L VIA+++  F F+ SG   +  P R+ +TS ID  E+ GR  + 
Sbjct: 121 SRRDIALKIKDLKQQLDVIASERTRFNFISSG---TQEPQRLITTSAIDVSEVYGRDTDV 177

Query: 179 NELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETF 238
           N +L +LL E+ E++  L+II+IVG GG+GKTTLAQLA NH EV   FD+ +WVCVS+ F
Sbjct: 178 NAILGRLLGENDEEKSRLYIIAIVGTGGMGKTTLAQLAYNHPEVKAHFDERIWVCVSDPF 237

Query: 239 EEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHC 298
           +  RV +A+VE L     +L + +++ + I   IAGK FLLVLDD+W  +Y  WE   + 
Sbjct: 238 DPIRVCRAIVETLQKKPCNLHDLEAVQQEIQTCIAGKKFLLVLDDMWTEDYRLWEQLKNT 297

Query: 299 LKNG-LHGSKILVTTRK 314
           L  G + GS+ILVTTRK
Sbjct: 298 LNYGAVGGSRILVTTRK 314

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359482800|ref|XP_003632842.1| PREDICTED: putative disease resistance protein RGA4-like [Vitis vinifera]

 Score =  275 bits (702), Expect = 3e-71,   Method: Compositional matrix adjust.
 Identities = 151/315 (47%), Positives = 208/315 (66%), Gaps = 7/315 (2%)

Query: 1   MVDAIVSPLLEQLISVSAEELTQQVKLVKGAEQEVEKLTSHLQTIQAVLSDAEQRQVKEE 60
           M DA+VS +LE+L SV    L QQV LV G   EV+ L S LQ+I+AVL+DAE+RQ  EE
Sbjct: 1   MADALVSIVLERLASV----LEQQVTLVVGVGSEVDNLNSTLQSIRAVLADAEKRQFSEE 56

Query: 61  SVRVWLGRLKDVSYDIEDVLDEWITARRRLQM-KQNADSAQKQVSSCFPASSIGFKKIIL 119
            V+VWL RLKD+SY ++DV+D W TA  +LQ+  +N    + ++SSC P+  + FK+++L
Sbjct: 57  LVKVWLERLKDISYQMDDVVDGWNTALLKLQIGAENPCIPKLKISSCLPSPCVCFKQVLL 116

Query: 120 RQDIAVKIKGINKKLGVIATQKDMFKFVESGGASSARPGRVQSTSFIDEEEICGRVGEKN 179
           R DI +KIK I K+L  IA +++ F FV S  ++  +P R  ++S ID  + CGR  + +
Sbjct: 117 RCDIGIKIKDIRKQLDAIANERNQFNFVSS--STIQQPHRRMTSSVIDVSQFCGRDADMD 174

Query: 180 ELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFE 239
            ++ KLL  SS++   L+IISIVGMGGIGKTTLAQLA N + V   F + +WVCVS+ F+
Sbjct: 175 VIIDKLLGGSSQESSSLYIISIVGMGGIGKTTLAQLAYNDDRVKAYFHERMWVCVSDPFD 234

Query: 240 EFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCL 299
              +++A++EAL        E +++ + I   IA K FLLVLDDVW  NY  WE     L
Sbjct: 235 PVTISRAILEALQKESCDFHELENVEQKICTLIADKKFLLVLDDVWTENYELWEKVESSL 294

Query: 300 KNGLHGSKILVTTRK 314
           K G  GS+ILVTTRK
Sbjct: 295 KGGAPGSRILVTTRK 309

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359482784|ref|XP_002269044.2| PREDICTED: putative disease resistance protein RGA4-like [Vitis vinifera]

 Score =  275 bits (702), Expect = 3e-71,   Method: Compositional matrix adjust.
 Identities = 152/317 (47%), Positives = 213/317 (67%), Gaps = 6/317 (1%)

Query: 1   MVDAIVSPLLEQLISVSAEELTQQVKLVKGAEQEVEKLTSHLQTIQAVLSDAEQRQVKEE 60
           M DA++S +LE+L SV  +++  ++ LV G E E++ LT  L++++ VL DAE+RQVKE+
Sbjct: 1   MADALLSIVLERLASVVEQQIRDELTLVLGVEAEIQSLTDTLRSVRDVLEDAERRQVKEK 60

Query: 61  SVRVWLGRLKDVSYDIEDVLDEWITARRRLQMK--QNADSAQKQVSSCFPASSIGFKKII 118
           SV+ WL RLKD++Y ++DV+DEW TA  +LQ+K  ++A  ++K+VSSC P+     K++ 
Sbjct: 61  SVQGWLERLKDMAYQMDDVVDEWSTAILQLQIKGAESASMSKKKVSSCIPSPCFCLKQVA 120

Query: 119 LRQDIAVKIKGINKKLGVIATQKDMFKFVESGGASSARPGRVQSTSFIDEEEICGRVGEK 178
            R+DIA+KIKGI ++L VIA+Q+  F F+ S    S  P R  +TS +D  E+ GR  +K
Sbjct: 121 SRRDIALKIKGIKQQLDVIASQRSQFNFISS---LSEEPQRFITTSQLDIPEVYGRDMDK 177

Query: 179 NELLSKLLCESS-EQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSET 237
           N +L  LL E+  E + G HIISIVG GG+GKTTLAQLA NH EV   FD+ +WVCVS+ 
Sbjct: 178 NTILGHLLGETCQETESGPHIISIVGTGGMGKTTLAQLAYNHPEVKAHFDERIWVCVSDP 237

Query: 238 FEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYH 297
           F+  R+ + +VE L     +L   ++L + I   IAGK FLLVLDDVW  N+  WE    
Sbjct: 238 FDPIRIFREIVEILQRESPNLHSLEALQQKIQTCIAGKKFLLVLDDVWTENHQLWEQLNS 297

Query: 298 CLKNGLHGSKILVTTRK 314
            L  G  GS+ILVTTRK
Sbjct: 298 TLSCGGVGSRILVTTRK 314

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147855900|emb|CAN78628.1| hypothetical protein VITISV_034887 [Vitis vinifera]

 Score =  272 bits (696), Expect = 1e-70,   Method: Compositional matrix adjust.
 Identities = 145/317 (45%), Positives = 215/317 (67%), Gaps = 6/317 (1%)

Query: 1   MVDAIVSPLLEQLISVSAEELTQQVKLVKGAEQEVEKLTSHLQTIQAVLSDAEQRQVKEE 60
           M  A++S +L +L SV  +++  ++ LV G E E++ LT  L++++ VL DAE+RQVKE+
Sbjct: 1   MAHALLSIVLTRLASVVEQQIRDELTLVLGVEAEIQSLTDTLRSVRDVLEDAERRQVKEK 60

Query: 61  SVRVWLGRLKDVSYDIEDVLDEWITARRRLQMK--QNADSAQKQVSSCFPASSIGFKKII 118
           SV+ WL RLKD++Y ++DVLDEW TA  +LQM+  +NA  +  +VSSC P+    FK++ 
Sbjct: 61  SVQGWLERLKDMAYQMDDVLDEWSTAILQLQMEGAENASMSTNKVSSCIPSPCFCFKQVA 120

Query: 119 LRQDIAVKIKGINKKLGVIATQKDMFKFVESGGASSARPGRVQSTSFIDEEEICGRVGEK 178
            R+DIA+KIK + ++L VI +++  F F+ SG   +  P R+ +TS ID  E+ GR  + 
Sbjct: 121 SRRDIALKIKDLKQQLDVIGSERTRFNFISSG---TQEPQRLITTSAIDVSEVYGRDTDV 177

Query: 179 NELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETF 238
           N +L +LL E+ E++  L+II+IVG GG+GKTTLAQLA NH EV   FD+ +WVCVS+ F
Sbjct: 178 NAILGRLLGENDEEKSRLYIIAIVGTGGMGKTTLAQLAYNHPEVKAHFDERIWVCVSDPF 237

Query: 239 EEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHC 298
           +  RV +A+VE L     +L + +++ + I   IAG+ FLLVLDD+W  +Y  WE   + 
Sbjct: 238 DPIRVCRAIVETLQKKPCNLHDLEAVQQEIQTCIAGQKFLLVLDDMWTEDYRLWEQLKNT 297

Query: 299 LKNG-LHGSKILVTTRK 314
           L  G + GS+ILVTTRK
Sbjct: 298 LNYGAVGGSRILVTTRK 314

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224115620|ref|XP_002332101.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222874921|gb|EEF12052.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  272 bits (696), Expect = 1e-70,   Method: Compositional matrix adjust.
 Identities = 155/316 (49%), Positives = 213/316 (67%), Gaps = 4/316 (1%)

Query: 1   MVDAIVSPLLEQLISVSAEELTQQVKLVKGAEQEVEKLTSHLQTIQAVLSDAEQRQVKEE 60
           M DA+VS +LEQL S+  +E+ ++V+LV G E EV+KLTS+ Q IQA+ +DAE+RQ+K++
Sbjct: 1   MADALVSVVLEQLSSIIIQEVQREVRLVVGVENEVKKLTSNFQAIQAMFADAEERQLKDQ 60

Query: 61  SVRVWLGRLKDVSYDIEDVLDEWIT--ARRRLQMKQNADSAQKQVSSCFPASSIGFKKII 118
            V+ WL +LKDVSYD++DVLDEW T  A+ + ++ ++     ++V S    S   F+++ 
Sbjct: 61  LVKHWLDQLKDVSYDMDDVLDEWGTEIAKSQSKVNEHPRKNTRKVCSFMIFSCFRFREVG 120

Query: 119 LRQDIAVKIKGINKKLGVIATQKDMFKFVESGGASSARPGRVQSTSFIDEEEICGRVGEK 178
           LR+DIA+KIK +N+++  IA +K+ F F  S         R ++ SFID  E+ GR  +K
Sbjct: 121 LRRDIALKIKELNERIDGIAIEKNRFHFKSSEVVIKQHDHR-KTVSFIDAAEVKGRETDK 179

Query: 179 NELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETF 238
             + + LL ESS Q   L  IS+VGMGGIGKTTLAQL  N  EV   FDK +WVCVS+ F
Sbjct: 180 GRVRNMLLTESS-QGPALRTISLVGMGGIGKTTLAQLVYNDHEVEIHFDKRIWVCVSDPF 238

Query: 239 EEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHC 298
           +E ++AKA++EAL G  S L E Q+LL +I   I GK FLLVLDDVW+ +  KWE   + 
Sbjct: 239 DETKIAKAILEALKGSASDLIELQTLLENIQPLIRGKKFLLVLDDVWNEDSTKWEQLKYS 298

Query: 299 LKNGLHGSKILVTTRK 314
           L  GL GS ILVTTRK
Sbjct: 299 LMCGLPGSSILVTTRK 314

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359482790|ref|XP_002268671.2| PREDICTED: putative disease resistance protein RGA4-like [Vitis vinifera]

 Score =  271 bits (694), Expect = 2e-70,   Method: Compositional matrix adjust.
 Identities = 147/316 (46%), Positives = 215/316 (68%), Gaps = 4/316 (1%)

Query: 1   MVDAIVSPLLEQLISVSAEELTQQVKLVKGAEQEVEKLTSHLQTIQAVLSDAEQRQVKEE 60
           M DA+VS +LE+L SV  +++ +QV LV+G + E++ L   L++++ VL DAE+RQVK++
Sbjct: 1   MADALVSIVLERLTSVVEQQIHEQVSLVQGVKSEIQSLKKTLRSVRDVLEDAERRQVKDK 60

Query: 61  SVRVWLGRLKDVSYDIEDVLDEWITARRRLQMK--QNADSAQKQVSSCFPASSIGFKKII 118
           SV+ WL  LKD++Y++EDVLDEW  A  + QM+  +NA +++K+VS C P+  I FK++ 
Sbjct: 61  SVQGWLESLKDMAYEMEDVLDEWSIAILQFQMEGVENASTSKKKVSFCMPSPCICFKQVA 120

Query: 119 LRQDIAVKIKGINKKLGVIATQKDMFKFVESGGASSARPGRVQSTSFIDEEEICGRVGEK 178
            R+DIA+KIKGI ++L  I  ++  F FV S   S  RP R+ +TS ID  E+ GR  +K
Sbjct: 121 SRRDIALKIKGIKQQLDDIERERIRFNFVSS--RSEERPQRLITTSAIDISEVYGRDMDK 178

Query: 179 NELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETF 238
             +L  LL +  +++ GL+I+SIVG GG+GKTTLAQLA +H EV   FD+ +WVCVS+ +
Sbjct: 179 KIILDHLLGKMCQEKSGLYIVSIVGTGGMGKTTLAQLAYSHSEVKVHFDERIWVCVSDPY 238

Query: 239 EEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHC 298
           +  RV +A+VEAL     HL + +++ + I   IAG+ FLLVLDDVW  +   WE   + 
Sbjct: 239 DPIRVCRAIVEALQKKPCHLHDLEAVQQEIQTCIAGQKFLLVLDDVWTEDNQLWEQLKNT 298

Query: 299 LKNGLHGSKILVTTRK 314
           L  G  GS+IL TTRK
Sbjct: 299 LHCGAAGSRILATTRK 314

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224115686|ref|XP_002332117.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222874937|gb|EEF12068.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  271 bits (693), Expect = 3e-70,   Method: Compositional matrix adjust.
 Identities = 153/317 (48%), Positives = 215/317 (67%), Gaps = 7/317 (2%)

Query: 1   MVDAIVSPLLEQLISVSAEELTQQVKLVKGAEQEVEKLTSHLQTIQAVLSDAEQRQVKEE 60
           M DA+V  ++EQL  + A+E+ Q+V+LV G + EV+KLT++ QTIQAVL+DAE+R++K+ 
Sbjct: 1   MADALVFVVMEQLSLIFAQEVQQEVRLVVGVKNEVQKLTNNFQTIQAVLADAEERELKDG 60

Query: 61  SVRVWLGRLKDVSYDIEDVLDEWITARRRLQMKQNA---DSAQKQVSSCFPASSIGFKKI 117
           S++ W+ +LK VSYD++DVLDEW TA  + QMK N     +A+K  S  F  S + F+++
Sbjct: 61  SIKRWIDQLKGVSYDMDDVLDEWGTAIAKSQMKVNEHPRKTARKVCSMIF--SCLCFREV 118

Query: 118 ILRQDIAVKIKGINKKLGVIATQKDMFKFVESGGASSARPGRVQSTSFIDEEEICGRVGE 177
            LR+DIA KIK +N+++  I  +KD F F +S      +    ++TS ID  E+ GR  +
Sbjct: 119 GLRRDIAHKIKELNERIDGIVIEKDRFHF-KSSEVGIKQLEHQKTTSVIDAAEVKGREND 177

Query: 178 KNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSET 237
           K+ + + LL ESS Q   L  IS+VGMGGIGKTTLA+L  N  +V   FDK +WVCVS+ 
Sbjct: 178 KDRVKNMLLSESS-QGPALRTISLVGMGGIGKTTLAKLVYNDHDVTTHFDKRIWVCVSDP 236

Query: 238 FEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYH 297
           F E  +AKA++E L G   +L E Q+L++H+ ESI  K FLLVLDDVW+ +  KWE    
Sbjct: 237 FNEITIAKAILEDLTGSAPNLNELQTLVKHVQESIREKKFLLVLDDVWNEDSTKWEQLKD 296

Query: 298 CLKNGLHGSKILVTTRK 314
            LK GL GS+I+VTTRK
Sbjct: 297 SLKCGLPGSRIMVTTRK 313

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	314
TAIR|locus:2078012	852	ZAR1 "HOPZ-ACTIVATED RESISTANC	0.942	0.347	0.289	1.4e-30
TAIR|locus:2091672	1054	AT3G14470 [Arabidopsis thalian	0.952	0.283	0.297	3.6e-30
TAIR|locus:2075170	835	RPP13 "RECOGNITION OF PERONOSP	0.955	0.359	0.257	2.7e-23
TAIR|locus:504956483	847	AT3G46730 [Arabidopsis thalian	0.936	0.347	0.276	4.6e-23
TAIR|locus:2091662	1424	AT3G14460 [Arabidopsis thalian	0.949	0.209	0.279	2.1e-22
TAIR|locus:2176486	908	RPP8 "RECOGNITION OF PERONOSPO	0.926	0.320	0.266	2.9e-22
TAIR|locus:2037623	899	AT1G58410 [Arabidopsis thalian	0.891	0.311	0.277	2.1e-21
TAIR|locus:2011982	857	AT1G50180 [Arabidopsis thalian	0.929	0.340	0.274	2.9e-20
TAIR|locus:2169523	901	AT5G35450 [Arabidopsis thalian	0.929	0.324	0.25	1.1e-19
TAIR|locus:2152536	908	AT5G48620 [Arabidopsis thalian	0.929	0.321	0.260	1.4e-19

TAIR|locus:2078012 ZAR1 "HOPZ-ACTIVATED RESISTANCE 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 347 (127.2 bits), Expect = 1.4e-30, P = 1.4e-30
 Identities = 91/314 (28%), Positives = 169/314 (53%)

Query:     1 MVDAIVSPLLEQLISVSAEELTQQVKLVKGAEQEVEKLTSHLQTIQAVLSDAEQRQVKEE 60
             MVDA+V+  LE+ +++    L ++ + V    +++E L S L+ +Q+ L DAE+++   E
Sbjct:     1 MVDAVVTVFLEKTLNI----LEEKGRTVSDYRKQLEDLQSELKYMQSFLKDAERQKRTNE 56

Query:    61 SVRVWLGRLKDVSYDIEDVLDEWITARRRLQMKQNADSAQKQVSSCFPASSIGFKKIILR 120
             ++R  +  L+++ Y+ ED+L +        Q+    D  +++ S+ +  S +   ++ L+
Sbjct:    57 TLRTLVADLRELVYEAEDILVD-------CQLADGDDGNEQRSSNAW-LSRLHPARVPLQ 108

Query:   121 QDIAVKIKGINKKLGVIATQKD-MFKFVESGGASSARPGRVQSTSFIDEEEICGRVGXXX 179
                + +++ IN+++  I +Q +  F+F+              S+   D  ++ G  G   
Sbjct:   109 YKKSKRLQEINERITKIKSQVEPYFEFITPSNVGRDNGTDRWSSPVYDHTQVVGLEGDKR 168

Query:   180 XXXXXXXXXXXXQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFE 239
                         Q   L I++ VGMGG+GKTT+AQ   N +E+  +F++ +WV VS+TF 
Sbjct:   169 KIKEWLFRSNDSQ---LLIMAFVGMGGLGKTTIAQEVFNDKEIEHRFERRIWVSVSQTFT 225

Query:   240 EFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCL 299
             E ++ ++++  L G  S   +  +LLR I + + GK +L+V+DDVWD N   W+  Y  L
Sbjct:   226 EEQIMRSILRNL-GDASVGDDIGTLLRKIQQYLLGKRYLIVMDDVWDKNLSWWDKIYQGL 284

Query:   300 KNGLHGSKILVTTR 313
               G  GS ++VTTR
Sbjct:   285 PRGQGGS-VIVTTR 297

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 345 (126.5 bits), Expect = 3.6e-30, P = 3.6e-30
 Identities = 94/316 (29%), Positives = 158/316 (50%)

Query:     4 AIVSPLLEQLISVSAEELTQQVKLVKGAEQEVEKLTSHLQTIQAVLSDAEQRQVKEESVR 63
             A +  L + L+S       ++ +L    E  +E+L++ L TI AVL DAE++Q+    V 
Sbjct:    11 AFLQALFQTLVSEPFRSFFKRREL---NENLLERLSTALLTITAVLIDAEEKQITNPVVE 67

Query:    64 VWLGRLKDVSYDIEDVLDEWITARRRLQMKQNADSAQKQVSSCFPASSIGFKKIILRQDI 123
              W+  L+DV Y  ED LD+  T   RL +   + S+ + +       S+G       + +
Sbjct:    68 KWVNELRDVVYHAEDALDDIATEALRLNIGAESSSSNR-LRQLRGRMSLGDFLDGNSEHL 126

Query:   124 AVKIKGINKKLGVIATQKDMFKFVESGGASSARPGRVQSTSFIDEEEICGRVGXXXXXXX 183
               +++ +  +L  +A+Q+++    E       +  R+ +TS +DE E+ GR         
Sbjct:   127 ETRLEKVTIRLERLASQRNILGLKELTAMIPKQ--RLPTTSLVDESEVFGR-DDDKDEIM 183

Query:   184 XXXXXXXXQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRV 243
                     +  G+ +++IVG+GG+GKTTL+QL  N + V   F   +W  VSE F+ F++
Sbjct:   184 RFLIPENGKDNGITVVAIVGIGGVGKTTLSQLLYNDQHVRSYFGTKVWAHVSEEFDVFKI 243

Query:   244 AKAMVEALDGHESHLGEFQSLLRHIYESIAGKS--FLLVLDDVWDGNYVKWE----PFYH 297
              K + E++        +   L   + E + G    FLLVLDD+W+ N+  W+    PF H
Sbjct:   244 TKKVYESVTSRPCEFTDLDVLQVKLKERLTGTGLPFLLVLDDLWNENFADWDLLRQPFIH 303

Query:   298 CLKNGLHGSKILVTTR 313
               +    GS+ILVTTR
Sbjct:   304 AAQ----GSQILVTTR 315

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:2075170 RPP13 "RECOGNITION OF PERONOSPORA PARASITICA 13" [Arabidopsis thaliana (taxid:3702)]

 Score = 279 (103.3 bits), Expect = 2.7e-23, P = 2.7e-23
 Identities = 82/319 (25%), Positives = 148/319 (46%)

Query:     1 MVDAIVSPLLEQLISVSAEELTQQVKLVKGAEQEVEKLTSHLQTIQAVLSDAEQRQVKEE 60
             MVDAI     E ++      L ++  +    ++++E+L + L  I   L D E R+ ++E
Sbjct:     1 MVDAIT----EFVVGKIGNYLIEEASMFMAVKEDLEELKTELTCIHGYLKDVEAREREDE 56

Query:    61 SVRVWLGRLKDVSYDIEDVLDEWITARRRLQMKQNADSAQKQVSSCFPASSIGFKKIILR 120
               + W   + D +YD+EDVLD +         ++       ++     A SI     IL+
Sbjct:    57 VSKEWSKLVLDFAYDVEDVLDTYHLKLEERSQRRGLRRLTNKIGRKMDAYSIVDDIRILK 116

Query:   121 QDIAVKIKGINKKLGVIATQKDMFKFVESGGASSARPGRVQSTSFIDEEEICGRVGXXXX 180
             + I + I    +  G+   ++        G  SS R  +++    +D+EE+   VG    
Sbjct:   117 RRI-LDITRKRETYGIGGLKEPQ----GGGNTSSLRVRQLRRARSVDQEEVV--VGLEDD 169

Query:   181 XXXXXXXXXXXQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEE 240
                        ++K   IISI GMGG+GKT LA+   N  +V  +F+   W  VS+ ++ 
Sbjct:   170 AKILLEKLLDYEEKNRFIISIFGMGGLGKTALARKLYNSRDVKERFEYRAWTYVSQEYKT 229

Query:   241 FRVAKAMVEAL---DGHE-SHLGEF--QSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEP 294
               +   ++ +L    G E   + +F  + L  ++Y  + GK +L+V+DD+W+     W+ 
Sbjct:   230 GDILMRIIRSLGMTSGEELEKIRKFAEEELEVYLYGLLEGKKYLVVVDDIWERE--AWDS 287

Query:   295 FYHCLKNGLHGSKILVTTR 313
                 L     GS++++TTR
Sbjct:   288 LKRALPCNHEGSRVIITTR 306

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=TAS

GO:0009814 "defense response, incompatible interaction" evidence=IMP

GO:0005886 "plasma membrane" evidence=IDA

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

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

 Score = 277 (102.6 bits), Expect = 4.6e-23, P = 4.6e-23
 Identities = 90/326 (27%), Positives = 163/326 (50%)

Query:     1 MVDAIVSPLLEQLISVSAEELTQQVKLVKGAEQEVEKLTSHLQTIQAVLSDAEQRQVKEE 60
             MVDA+   +L ++       L  +V  + G + ++E+L + L  I   L D E R+ ++E
Sbjct:     1 MVDAVTGFVLNKI----GGYLINEVLALMGVKDDLEELKTELTCIHGYLKDVEAREREDE 56

Query:    61 SVRVWLGRLKDVSYDIEDVLDEWITARRRLQMKQNADSAQKQVSSCFPASSIGFKKIILR 120
               + W   + D++YDIEDVLD +      L++++   S ++ +      + IG K+    
Sbjct:    57 VSKEWTKLVLDIAYDIEDVLDTYF-----LKLEER--SLRRGLLRL--TNKIGKKRDAY- 106

Query:   121 QDIAVKIKGINKKLGVIATQKDMF---KFVESGGAS--SARPGRVQSTSFIDEEEICGRV 175
              +I   I+ + +++  I  +++ F    F E  G +  + R  +++    +D+EE+   V
Sbjct:   107 -NIVEDIRTLKRRILDITRKRETFGIGSFNEPRGENITNVRVRQLRRAPPVDQEELV--V 163

Query:   176 GXXXXXXXXXXXXXXXQQKGL-HIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCV 234
             G                +K   +IISI GMGG+GKT LA+   N  +V R+FD   W  V
Sbjct:   164 GLEDDVKILLVKLLSDNEKDKSYIISIFGMGGLGKTALARKLYNSGDVKRRFDCRAWTYV 223

Query:   235 SETFEE----FRVAKAM--VEALDGHESHLGEFQSLLR-HIYESIAGKSFLLVLDDVWDG 287
             S+ ++      R+ +++  V A +  +  + E    L  ++Y  + GK++++V+DDVWD 
Sbjct:   224 SQEYKTRDILIRIIRSLGIVSAEEMEKIKMFEEDEELEVYLYGLLEGKNYMVVVDDVWDP 283

Query:   288 NYVKWEPFYHCLKNGLHGSKILVTTR 313
             +   WE     L     GSK+++TTR
Sbjct:   284 D--AWESLKRALPCDHRGSKVIITTR 307

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 274 (101.5 bits), Expect = 2.1e-22, P = 2.1e-22
 Identities = 87/311 (27%), Positives = 140/311 (45%)

Query:    10 LEQLISVSAEEL-TQQ--VKLVKGAEQE--VEKLTSHLQTIQAVLSDAEQRQVKEESVRV 64
             L    +V  E + T Q  V+L KG      +++L   L T   VL+DA+QR      V+ 
Sbjct:     6 LSSCANVMVERINTSQELVELCKGKSSSALLKRLKVALVTANPVLADADQRAEHVREVKH 65

Query:    65 WLGRLKDVSYDIEDVLDEWITARRRLQMKQNADSAQKQVSSCFPASSIGFKKIILRQDIA 124
             WL  +KD  +  ED+LDE  T   R ++   A        +         KKI  + +  
Sbjct:    66 WLTGIKDAFFQAEDILDELQTEALRRRVVAEAGGLGGLFQNLMAGREAIQKKIEPKMEKV 125

Query:   125 VKIKGIN-KKLGVIATQK-DMFKFVESGGASSARPGRVQSTSFIDEEEICGRVGXXXXXX 182
             V++   + K + VI  ++    +  +   AS +RP        + +  + GRV       
Sbjct:   126 VRLLEHHVKHIEVIGLKEYSETREPQWRQASRSRPDD------LPQGRLVGRVEDKLALV 179

Query:   183 XXXXXXXXXQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFR 242
                            +IS+VGM G+GKTTL ++  N   V   F+  +W+     F  F 
Sbjct:   180 NLLLSDDEISIGKPAVISVVGMPGVGKTTLTEIVFNDYRVTEHFEVKMWISAGINFNVFT 239

Query:   243 VAKAMVEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNG 302
             V KA+++ +     +  +  SL   + ++++GK FLLVLDD W  +  +WE F     + 
Sbjct:   240 VTKAVLQDITSSAVNTEDLPSLQIQLKKTLSGKRFLLVLDDFWSESDSEWESFQVAFTDA 299

Query:   303 LHGSKILVTTR 313
               GSKI++TTR
Sbjct:   300 EEGSKIVLTTR 310

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 270 (100.1 bits), Expect = 2.9e-22, P = 2.9e-22
 Identities = 86/323 (26%), Positives = 160/323 (49%)

Query:     1 MVDAIVSPLLEQLISVSAEELTQQVKLVKGAEQEVEKLTSHLQTIQAVLSDAEQRQVKEE 60
             M +A VS  LE+L  +    L+++ + ++G + +++ L   L+++Q++L DA+ ++   +
Sbjct:     1 MAEAFVSFGLEKLWDL----LSRESERLQGIDGQLDGLKRQLRSLQSLLKDADAKKHGSD 56

Query:    61 SVRVWLGRLKDVSYDIEDVLDEWITARRRLQMKQNADSAQKQVSSCFPASSIGFKKIILR 120
              VR +L  +KD+ +D ED+++ ++    +L  K        +  +CF            R
Sbjct:    57 RVRNFLEDVKDLVFDAEDIIESYVL--NKLSGKGKGVKKHVRRLACFLTD---------R 105

Query:   121 QDIAVKIKGINKKLGVIATQKDMF---KFVESGGASSARPG-RVQST---SFIDEEEICG 173
               +A  I+GI K++  +  +   F   + ++ G + S +   RVQ     ++ D  E   
Sbjct:   106 HKVASDIEGITKRISEVIGEMQSFGIQQIIDGGRSLSLQERQRVQREIRQTYPDSSE-SD 164

Query:   174 RVGXXXXXXXXXXXXXXXQQKGLH-IISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWV 232
              VG                +  +H ++SI GMGGIGKTTLA+   +H+ V R FD   WV
Sbjct:   165 LVGVEQSVKELVGHLV---ENDVHQVVSIAGMGGIGKTTLARQVFHHDLVRRHFDGFAWV 221

Query:   233 CVSETFEEFRVAKAMVEALDGHESHLGEFQ--SLLRHIYESIAGKSFLLVLDDVWDGNYV 290
             CVS+ F +  V + +++ L  H+  + +    +L R +++ +    +L+VLDDVW     
Sbjct:   222 CVSQQFTQKHVWQRILQELQPHDGDILQMDEYALQRKLFQLLEAGRYLVVLDDVWKKE-- 279

Query:   291 KWEPFYHCLKNGLHGSKILVTTR 313
              W+           G K+L+T+R
Sbjct:   280 DWDVIKAVFPRK-RGWKMLLTSR 301

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:2037623 AT1G58410 [Arabidopsis thaliana (taxid:3702)]

 Score = 262 (97.3 bits), Expect = 2.1e-21, P = 2.1e-21
 Identities = 89/321 (27%), Positives = 155/321 (48%)

Query:    12 QLISVSAEEL----TQQVKLVKGAEQEVEKLTSHLQTIQAVLSDAEQRQVKEESVRVWLG 67
             +L+S   E+L    +Q+    KG E +V +L S+L  +++ L DA+ ++   E VR  + 
Sbjct:     2 ELVSFGVEKLWDRLSQEYDQFKGVEDQVTELKSNLNLLKSFLKDADAKKHISEMVRHCVE 61

Query:    68 RLKDVSYDIEDVLDEWITARRRLQMKQNADSAQKQVSSCFPASSIGFKKIILRQDIAVKI 127
              +KD+ YD ED+++ +I  + +++MK+      K+ +S           I+ R+++A  I
Sbjct:    62 EIKDIVYDTEDIIETFIL-KEKVEMKRGIMKRIKRFAST----------IMDRRELASDI 110

Query:   128 KGINKKLGVIATQKDMF---KFVESGGASS----ARPGRVQSTSFIDEEEICGRVGXXXX 180
              GI+K++  +      F   + +  G  SS     R   ++ T   D E     VG    
Sbjct:   111 GGISKRISKVIQDMQSFGVQQIITDGSRSSHPLQERQREMRHTFSRDSEN--DFVGMEAN 168

Query:   181 XXXXXXXXXXXQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEE 240
                        ++    I+S+ GMGG+GKTTLA+   NH+ V  +FD   WV VS+ F  
Sbjct:   169 VKKLVGYLV--EKDDYQIVSLTGMGGLGKTTLARQVFNHDVVKDRFDGFAWVSVSQEFTR 226

Query:   241 FRVAKAMVEALDGHESHLGEFQSLLR---H--IYESIAGKSFLLVLDDVW---DGNYVKW 292
               V + +++ L   E    E Q++     H  ++  +     L+VLDD+W   D + +K 
Sbjct:   227 ISVWQTILQNLTSKERK-DEIQNMKEADLHDDLFRLLESSKTLIVLDDIWKEEDWDLIK- 284

Query:   293 EPFYHCLKNGLHGSKILVTTR 313
              P +   K    G K+L+T+R
Sbjct:   285 -PIFPPKK----GWKVLLTSR 300

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 251 (93.4 bits), Expect = 2.9e-20, P = 2.9e-20
 Identities = 89/324 (27%), Positives = 150/324 (46%)

Query:     1 MVDAIVSPLLEQLISVSAEELTQQVKLVKGAEQEVEKLTSHLQTIQAVLSDAEQRQVKEE 60
             M +AIVS  +++L     + L ++   + G   +V++L   L+ +   L DA+++Q + E
Sbjct:     1 MAEAIVSVTVQKL----GQLLLEEPLFLFGIGDQVKQLQDELKRLNCFLKDADEKQHESE 56

Query:    61 SVRVWLGRLKDVSYDIEDVLDEW-ITARRRLQMKQNADSAQKQVSSCFPASSIGFKKIIL 119
              VR W+  +++ SYD ED+L+ + + A  R   KQ       +  +C    ++       
Sbjct:    57 RVRNWVAGIREASYDAEDILEAFFLKAESR---KQKGMKRVLRRLACILNEAVSL----- 108

Query:   120 RQDIAVKIKGINKKLGVIATQKDMFKFVESGG------ASSARPGRVQSTSFIDEEEICG 173
                +  +I+ I  +L  IA     F   ES G      + S R  R QS  ++ E  +  
Sbjct:   109 -HSVGSEIREITSRLSKIAASMLDFGIKESMGREGLSLSDSLREQR-QSFPYVVEHNL-- 164

Query:   174 RVGXXXXXXXXXXXXXXXQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVC 233
              VG                +K L + SI GMGG+GKTTLA+   +H +V R FD+  WV 
Sbjct:   165 -VGLEQSLEKLVNDLVSGGEK-LRVTSICGMGGLGKTTLAKQIFHHHKVRRHFDRFAWVY 222

Query:   234 VSETFEEFRVAKAMVEAL---DGHESHLG-EFQSLLRHIYESIAGKSFLLVLDDVWDGNY 289
             VS+      V + +   L   D ++  L    + L   ++  +     L+VLDD+W  + 
Sbjct:   223 VSQDCRRRHVWQDIFLNLSYKDENQRILSLRDEQLGEELHRFLKRNKCLIVLDDIWGKD- 281

Query:   290 VKWEPFYHCLKNGLHGSKILVTTR 313
               W+   H   +   GS+I++TTR
Sbjct:   282 -AWDCLKHVFPHET-GSEIILTTR 303

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

GO:0043531 "ADP binding" evidence=IEA

GO:0009506 "plasmodesma" evidence=IDA

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

 Score = 246 (91.7 bits), Expect = 1.1e-19, P = 1.1e-19
 Identities = 80/320 (25%), Positives = 158/320 (49%)

Query:     1 MVDAIVSPLLEQLISVSAEELTQQVKLVKGAEQEVEKLTSHLQTIQAVLSDAEQRQVKEE 60
             M + +VS  +++L ++    L ++ + + G +++V+ L   L+ +Q++L DA+ ++   +
Sbjct:     1 MAEGVVSFGVQKLWAL----LNRESERLNGIDEQVDGLKRQLRGLQSLLKDADAKKHGSD 56

Query:    61 SVRVWLGRLKDVSYDIEDVLDEWITARRRLQMKQNADSAQKQVSSCFPASSIGFKKIILR 120
              VR +L  +KD+ +D ED+++ ++  + R + K   +  ++   +CF            R
Sbjct:    57 RVRNFLEDVKDLVFDAEDIIESYVLNKLRGEGKGVKNHVRRL--ACFLTD---------R 105

Query:   121 QDIAVKIKGINKKLG-VIATQKDMF---KFVESGGASSARP-GRVQSTSFIDEEEICGRV 175
               +A  I+GI K++  VI   + +    + ++ G + S +   R    +F +  E    V
Sbjct:   106 HKVASDIEGITKRISKVIGEMQSLGIQQQIIDGGRSLSLQDIQREIRQTFPNSSE-SDLV 164

Query:   176 GXXXXXXXXXXXXXXXQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVS 235
             G                   + ++SI GMGGIGKTTLA+   +H+ V R FD   WVCVS
Sbjct:   165 GVEQSVEELVGPMVEIDN--IQVVSISGMGGIGKTTLARQIFHHDLVRRHFDGFAWVCVS 222

Query:   236 ETFEEFRVAKAMVEALDGHESHLGEFQ--SLLRHIYESIAGKSFLLVLDDVWDGNYVKWE 293
             + F +  V + +++ L  H+  + +    ++   +++ +    +L+VLDDVW      W+
Sbjct:   223 QQFTQKHVWQRILQELRPHDGEILQMDEYTIQGKLFQLLETGRYLVVLDDVWKEE--DWD 280

Query:   294 PFYHCLKNGLHGSKILVTTR 313
                        G K+L+T+R
Sbjct:   281 RIKEVFPRK-RGWKMLLTSR 299

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005886 "plasma membrane" evidence=IDA

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

 Score = 245 (91.3 bits), Expect = 1.4e-19, P = 1.4e-19
 Identities = 84/322 (26%), Positives = 160/322 (49%)

Query:     1 MVDAIVSPLLEQLISVSAEELTQQVKLVKGAEQEVEKLTSHLQTIQAVLSDAEQRQVKEE 60
             M +  VS  LE+L  +    L+++ + ++G +++++ L   L+++Q++L DA+ ++   +
Sbjct:     1 MAEGFVSFGLEKLWDL----LSRESERLQGIDEQLDGLKRQLRSLQSLLKDADAKKHGSD 56

Query:    61 SVRVWLGRLKDVSYDIEDVLDEWITARRRLQMKQNADSAQKQVSSCFPASSIGFKKIILR 120
              VR +L  +KD+ +D ED+++ ++  + R + K      +K V           + +  R
Sbjct:    57 RVRNFLEDVKDLVFDAEDIIESYVLNKLRGEGK----GVKKHVRRLA-------RFLTDR 105

Query:   121 QDIAVKIKGINKKLGVIATQKDMF---KFVESGGASSARPG-RVQST---SFIDEEEICG 173
               +A  I+GI K++  +  +   F   + ++   + S +   RVQ     ++ D  E   
Sbjct:   106 HKVASDIEGITKRISDVIGEMQSFGIQQIIDGVRSLSLQERQRVQREIRQTYPDSSE-SD 164

Query:   174 RVGXXXXXXXXXXXXXXXQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVC 233
              VG               +     ++SI GMGGIGKTTLA+   +H+ V R FD   WVC
Sbjct:   165 LVGVEQSVEELVGHLV--ENDIYQVVSIAGMGGIGKTTLARQVFHHDLVRRHFDGFAWVC 222

Query:   234 VSETFEEFRVAKAMVEALDGHESHLGEF-QSLLR-HIYESIAGKSFLLVLDDVWDGNYVK 291
             VS+ F    V + +++ L  H+ ++ +  +S L+  +++ +    +LLVLDDVW      
Sbjct:   223 VSQQFTLKHVWQRILQELQPHDGNILQMDESALQPKLFQLLETGRYLLVLDDVWKKE--D 280

Query:   292 WEPFYHCLKNGLHGSKILVTTR 313
             W+           G K+L+T+R
Sbjct:   281 WDRIKAVFPRK-RGWKMLLTSR 301

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005886 "plasma membrane" evidence=IDA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	314
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	6e-30

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

 Score =  114 bits (288), Expect = 6e-30
 Identities = 55/143 (38%), Positives = 78/143 (54%), Gaps = 8/143 (5%)

Query: 174 RVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVC 233
           R      L+ KL     E    L ++ IVGMGG+GKTTLA+   N + V   FD + WV 
Sbjct: 1   REDMIEALIEKL----LEMSDNLGVVGIVGMGGVGKTTLAKQIYNDDSVGGHFDSVAWVV 56

Query: 234 VSETFEEFRVAKAMVEALDGHESHLGE--FQSLLRHIYESIAGKSFLLVLDDVWDGNYVK 291
           VS+T+ EFR+ K +++ L   +S   E     L   I E++  K FLLVLDDVW+     
Sbjct: 57  VSKTYTEFRLQKDILQELGLDDSDWVEKNESELAVKIKEALLRKRFLLVLDDVWE--KND 114

Query: 292 WEPFYHCLKNGLHGSKILVTTRK 314
           W+       +G +GS+++VTTR 
Sbjct: 115 WDKIGVPFPDGENGSRVIVTTRS 137

Length = 285

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	314
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	100.0
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	99.92
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.75
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.22
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.12
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	99.12
PF05729	166	NACHT: NACHT domain	99.05
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	98.99
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.94
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.91
PTZ00202	550	tuzin; Provisional	98.88
PTZ00112	1164	origin recognition complex 1 protein; Provisional	98.82
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	98.79
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	98.78
PRK04841	903	transcriptional regulator MalT; Provisional	98.77
cd01128	249	rho_factor Transcription termination factor rho is	98.75
PF13173	128	AAA_14: AAA domain	98.75
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	98.6
PRK09376	416	rho transcription termination factor Rho; Provisio	98.58
PRK05564	313	DNA polymerase III subunit delta'; Validated	98.53
PRK12402	337	replication factor C small subunit 2; Reviewed	98.48
TIGR00767	415	rho transcription termination factor Rho. Members	98.47
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	98.46
PRK06893	229	DNA replication initiation factor; Validated	98.46
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	98.44
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	98.43
COG2256	436	MGS1 ATPase related to the helicase subunit of the	98.43
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	98.41
PRK08116	268	hypothetical protein; Validated	98.41
PRK13342	413	recombination factor protein RarA; Reviewed	98.38
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	98.37
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	98.36
PLN03025	319	replication factor C subunit; Provisional	98.36
PRK04195	482	replication factor C large subunit; Provisional	98.35
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	98.32
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	98.32
KOG2028	554	consensus ATPase related to the helicase subunit o	98.32
PHA02544	316	44 clamp loader, small subunit; Provisional	98.31
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	98.3
PRK00440	319	rfc replication factor C small subunit; Reviewed	98.3
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	98.28
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	98.27
PF00004	132	AAA: ATPase family associated with various cellula	98.27
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	98.23
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	98.22
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	98.22
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	98.2
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	98.2
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	98.2
PRK13341	725	recombination factor protein RarA/unknown domain f	98.19
smart00382	148	AAA ATPases associated with a variety of cellular	98.18
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	98.18
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	98.17
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	98.16
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	98.16
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	98.16
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	98.15
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	98.15
PRK08727	233	hypothetical protein; Validated	98.14
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	98.13
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	98.13
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	98.12
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	98.1
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	98.09
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	98.08
PRK12377	248	putative replication protein; Provisional	98.08
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	98.06
PRK05642	234	DNA replication initiation factor; Validated	98.05
PRK07940	394	DNA polymerase III subunit delta'; Validated	98.05
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	98.04
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	98.04
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	98.03
PRK08181	269	transposase; Validated	98.03
PRK08903	227	DnaA regulatory inactivator Hda; Validated	98.02
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	98.02
PRK10536	262	hypothetical protein; Provisional	98.0
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	98.0
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	98.0
PRK08084	235	DNA replication initiation factor; Provisional	97.99
PRK06921	266	hypothetical protein; Provisional	97.99
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	97.99
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.99
PRK07952	244	DNA replication protein DnaC; Validated	97.98
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	97.98
PRK08939	306	primosomal protein DnaI; Reviewed	97.98
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	97.96
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	97.96
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	97.94
PRK14087	450	dnaA chromosomal replication initiation protein; P	97.93
PRK14086	617	dnaA chromosomal replication initiation protein; P	97.92
PRK10865	857	protein disaggregation chaperone; Provisional	97.91
PRK06526	254	transposase; Provisional	97.91
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	97.9
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	97.89
PRK03992	389	proteasome-activating nucleotidase; Provisional	97.88
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	97.88
PRK06835	329	DNA replication protein DnaC; Validated	97.88
PRK09183	259	transposase/IS protein; Provisional	97.87
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	97.87
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	97.86
PRK14088	440	dnaA chromosomal replication initiation protein; P	97.85
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	97.84
PRK08118	167	topology modulation protein; Reviewed	97.83
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	97.82
PRK00149	450	dnaA chromosomal replication initiation protein; R	97.82
CHL00095	821	clpC Clp protease ATP binding subunit	97.81
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	97.8
TIGR02237	209	recomb_radB DNA repair and recombination protein R	97.79
CHL00095	821	clpC Clp protease ATP binding subunit	97.79
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.79
PRK07471	365	DNA polymerase III subunit delta'; Validated	97.78
PRK12422	445	chromosomal replication initiation protein; Provis	97.77
PRK09112	351	DNA polymerase III subunit delta'; Validated	97.76
COG1484	254	DnaC DNA replication protein [DNA replication, rec	97.75
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	97.75
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	97.74
PRK04296	190	thymidine kinase; Provisional	97.73
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	97.72
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	97.71
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	97.7
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	97.69
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	97.69
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	97.68
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	97.68
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	97.68
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	97.68
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	97.67
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	97.66
PRK09087	226	hypothetical protein; Validated	97.65
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	97.65
COG0593	408	DnaA ATPase involved in DNA replication initiation	97.64
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	97.64
PRK05541	176	adenylylsulfate kinase; Provisional	97.63
KOG1514	767	consensus Origin recognition complex, subunit 1, a	97.63
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	97.62
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.62
PRK07261	171	topology modulation protein; Provisional	97.61
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	97.61
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	97.6
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	97.6
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	97.59
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	97.59
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	97.58
cd01394	218	radB RadB. The archaeal protein radB shares simila	97.58
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	97.57
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	97.57
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	97.56
PRK12608	380	transcription termination factor Rho; Provisional	97.55
PRK06620	214	hypothetical protein; Validated	97.54
PRK10865	857	protein disaggregation chaperone; Provisional	97.53
PHA00729	226	NTP-binding motif containing protein	97.49
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	97.49
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	97.47
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	97.45
PRK08058	329	DNA polymerase III subunit delta'; Validated	97.45
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	97.44
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	97.44
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	97.43
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	97.43
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	97.42
COG1875	436	NYN ribonuclease and ATPase of PhoH family domains	97.42
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	97.41
cd00983	325	recA RecA is a bacterial enzyme which has roles in	97.41
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	97.41
CHL00181	287	cbbX CbbX; Provisional	97.4
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	97.39
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	97.39
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	97.39
PRK09354	349	recA recombinase A; Provisional	97.39
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	97.38
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	97.37
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.37
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.36
PRK06067	234	flagellar accessory protein FlaH; Validated	97.36
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	97.34
KOG1969	877	consensus DNA replication checkpoint protein CHL12	97.29
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	97.29
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	97.29
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	97.28
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	97.26
PRK05707	328	DNA polymerase III subunit delta'; Validated	97.25
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	97.24
PRK06696	223	uridine kinase; Validated	97.23
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	97.23
COG3899	849	Predicted ATPase [General function prediction only	97.22
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	97.21
CHL00176	638	ftsH cell division protein; Validated	97.19
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	97.19
PRK11608	326	pspF phage shock protein operon transcriptional ac	97.18
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	97.17
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	97.17
PRK00771	437	signal recognition particle protein Srp54; Provisi	97.16
cd03115	173	SRP The signal recognition particle (SRP) mediates	97.15
TIGR02236	310	recomb_radA DNA repair and recombination protein R	97.14
PRK07399	314	DNA polymerase III subunit delta'; Validated	97.14
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	97.14
PRK04301	317	radA DNA repair and recombination protein RadA; Va	97.13
PRK10867	433	signal recognition particle protein; Provisional	97.13
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	97.13
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	97.12
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	97.12
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	97.11
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	97.1
TIGR00959	428	ffh signal recognition particle protein. This mode	97.1
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	97.1
PTZ00035	337	Rad51 protein; Provisional	97.1
PRK14974	336	cell division protein FtsY; Provisional	97.09
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	97.09
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	97.08
PF12061	402	DUF3542: Protein of unknown function (DUF3542); In	97.08
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	97.07
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	97.05
PRK13695	174	putative NTPase; Provisional	97.05
PRK15455	644	PrkA family serine protein kinase; Provisional	97.04
PRK08233	182	hypothetical protein; Provisional	97.04
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	96.99
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	96.98
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	96.97
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	96.96
COG3903	414	Predicted ATPase [General function prediction only	96.95
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	96.95
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	96.94
PRK06762	166	hypothetical protein; Provisional	96.94
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	96.94
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	96.94
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	96.94
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	96.93
PRK06871	325	DNA polymerase III subunit delta'; Validated	96.91
TIGR00064	272	ftsY signal recognition particle-docking protein F	96.91
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	96.9
PRK05022	509	anaerobic nitric oxide reductase transcription reg	96.9
PF05659	147	RPW8: Arabidopsis broad-spectrum mildew resistance	96.89
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	96.89
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	96.88
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	96.88
cd03216	163	ABC_Carb_Monos_I This family represents the domain	96.87
PRK08533	230	flagellar accessory protein FlaH; Reviewed	96.87
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	96.87
PF14516	331	AAA_35: AAA-like domain	96.87
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	96.87
PF00154	322	RecA: recA bacterial DNA recombination protein; In	96.86
PRK00889	175	adenylylsulfate kinase; Provisional	96.85
PRK07667	193	uridine kinase; Provisional	96.85
PRK06090	319	DNA polymerase III subunit delta'; Validated	96.85
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	96.84
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	96.84
PTZ00301	210	uridine kinase; Provisional	96.83
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	96.82
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	96.81
KOG2170	344	consensus ATPase of the AAA+ superfamily [General	96.79
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	96.79
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	96.78
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	96.77
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	96.77
PHA02244	383	ATPase-like protein	96.77
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	96.76
PTZ00494	664	tuzin-like protein; Provisional	96.75
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	96.75
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	96.74
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	96.74
PRK05973	237	replicative DNA helicase; Provisional	96.73
PRK05439	311	pantothenate kinase; Provisional	96.73
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	96.72
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	96.72
PRK04328	249	hypothetical protein; Provisional	96.72
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	96.72
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	96.71
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	96.7
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	96.7
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	96.69
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	96.69
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	96.69
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	96.68
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	96.68
PRK08769	319	DNA polymerase III subunit delta'; Validated	96.68
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	96.67
PRK08699	325	DNA polymerase III subunit delta'; Validated	96.66
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	96.65
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	96.65
PRK05480	209	uridine/cytidine kinase; Provisional	96.65
TIGR00235	207	udk uridine kinase. Model contains a number of lon	96.64
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	96.64
PRK03846	198	adenylylsulfate kinase; Provisional	96.62
PHA02774	613	E1; Provisional	96.61
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	96.6
PRK05917	290	DNA polymerase III subunit delta'; Validated	96.6
PTZ00088	229	adenylate kinase 1; Provisional	96.59
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	96.59
COG0714	329	MoxR-like ATPases [General function prediction onl	96.57
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	96.57
PRK09519	790	recA DNA recombination protein RecA; Reviewed	96.56
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	96.55
PRK07993	334	DNA polymerase III subunit delta'; Validated	96.55
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	96.55
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	96.54
PRK06964	342	DNA polymerase III subunit delta'; Validated	96.53
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	96.53
PRK05986	191	cob(I)alamin adenolsyltransferase/cobinamide ATP-d	96.53
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	96.53
cd03246	173	ABCC_Protease_Secretion This family represents the	96.53
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	96.5
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	96.49
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	96.48
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	96.47
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	96.47
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	96.47
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	96.46
COG2884	223	FtsE Predicted ATPase involved in cell division [C	96.45
PRK13531	498	regulatory ATPase RavA; Provisional	96.43
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	96.42
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	96.4
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	96.4
PRK06547	172	hypothetical protein; Provisional	96.4
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	96.4
TIGR03880	224	KaiC_arch_3 KaiC domain protein, AF_0351 family. T	96.4
PRK03839	180	putative kinase; Provisional	96.39
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	96.39
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	96.38
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	96.38
smart00534	185	MUTSac ATPase domain of DNA mismatch repair MUTS f	96.37
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	96.37
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	96.36
cd03282	204	ABC_MSH4_euk MutS4 homolog in eukaryotes. The MutS	96.36
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	96.34
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	96.3
) proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor" target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF06309">PF06309	127	Torsin: Torsin; InterPro: IPR010448 This family co	96.3
PRK10875	615	recD exonuclease V subunit alpha; Provisional	96.29
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	96.29
PF07726	131	AAA_3: ATPase family associated with various cellu	96.27
PRK10416	318	signal recognition particle-docking protein FtsY;	96.26
TIGR01069	771	mutS2 MutS2 family protein. Function of MutS2 is u	96.25
PRK04040	188	adenylate kinase; Provisional	96.24
TIGR02329	526	propionate_PrpR propionate catabolism operon regul	96.24
TIGR00041	195	DTMP_kinase thymidylate kinase. Function: phosphor	96.22
PRK11823	446	DNA repair protein RadA; Provisional	96.21
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	96.2
cd03369	207	ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-ty	96.2
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	96.19
PRK00625	173	shikimate kinase; Provisional	96.19
PRK12597	461	F0F1 ATP synthase subunit beta; Provisional	96.19
cd03287	222	ABC_MSH3_euk MutS3 homolog in eukaryotes. The MutS	96.19
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	96.16
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	96.16
PRK00131	175	aroK shikimate kinase; Reviewed	96.15
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	96.12
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	96.12
cd03213	194	ABCG_EPDR ABCG transporters are involved in eye pi	96.12
PRK06002	450	fliI flagellum-specific ATP synthase; Validated	96.11
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	96.1
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	96.1
TIGR03522	301	GldA_ABC_ATP gliding motility-associated ABC trans	96.09
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	96.08
PF13245	76	AAA_19: Part of AAA domain	96.07
PRK07594	433	type III secretion system ATPase SsaN; Validated	96.05
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	96.05
TIGR01447	586	recD exodeoxyribonuclease V, alpha subunit. This f	96.05
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	96.05
PRK08972	444	fliI flagellum-specific ATP synthase; Validated	96.05
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	96.04
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	96.04
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	96.03
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	96.02
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	96.01
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	96.01
cd03217	200	ABC_FeS_Assembly ABC-type transport system involve	96.0
cd01135	276	V_A-ATPase_B V/A-type ATP synthase (non-catalytic)	96.0
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	95.99
PRK15424	538	propionate catabolism operon regulatory protein Pr	95.99
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	95.99
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	95.97
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	95.96
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	95.95
cd00046	144	DEXDc DEAD-like helicases superfamily. A diverse f	95.95
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	95.95
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	95.94
PRK06217	183	hypothetical protein; Validated	95.94
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	95.93
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	95.93
smart00487	201	DEXDc DEAD-like helicases superfamily.	95.91
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	95.9
PF03796	259	DnaB_C: DnaB-like helicase C terminal domain; Inte	95.89
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	95.89
PRK09280	463	F0F1 ATP synthase subunit beta; Validated	95.88
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	95.88
PRK12678	672	transcription termination factor Rho; Provisional	95.86
PRK13949	169	shikimate kinase; Provisional	95.86
PRK08927	442	fliI flagellum-specific ATP synthase; Validated	95.86
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	95.85
PRK00300	205	gmk guanylate kinase; Provisional	95.84
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	95.84
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	95.84
PRK13947	171	shikimate kinase; Provisional	95.84
CHL00195	489	ycf46 Ycf46; Provisional	95.83
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	95.83
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	95.83
TIGR00455	184	apsK adenylylsulfate kinase (apsK). Important resi	95.83
PTZ00185	574	ATPase alpha subunit; Provisional	95.82
PRK09302	509	circadian clock protein KaiC; Reviewed	95.8
PF13479	213	AAA_24: AAA domain	95.8
PRK11174	588	cysteine/glutathione ABC transporter membrane/ATP-	95.8
COG4618	580	ArpD ABC-type protease/lipase transport system, AT	95.79
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	95.79
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	95.77
PRK09435	332	membrane ATPase/protein kinase; Provisional	95.77
PRK14530	215	adenylate kinase; Provisional	95.77
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	95.76
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	95.76
PRK15453	290	phosphoribulokinase; Provisional	95.74
PRK08149	428	ATP synthase SpaL; Validated	95.73
PRK05922	434	type III secretion system ATPase; Validated	95.72
cd01132	274	F1_ATPase_alpha F1 ATP synthase alpha, central dom	95.72
TIGR03498	418	FliI_clade3 flagellar protein export ATPase FliI.	95.71
PRK14738	206	gmk guanylate kinase; Provisional	95.7
COG0541	451	Ffh Signal recognition particle GTPase [Intracellu	95.69
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	95.69
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	95.68
PRK13975	196	thymidylate kinase; Provisional	95.67
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	95.67
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	95.66
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	95.66
PRK14527	191	adenylate kinase; Provisional	95.64
cd03227	162	ABC_Class2 ABC-type Class 2 contains systems invol	95.6
PRK05057	172	aroK shikimate kinase I; Reviewed	95.6
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	95.59
PRK12339	197	2-phosphoglycerate kinase; Provisional	95.59
PF00005	137	ABC_tran: ABC transporter This structure is on hol	95.59
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	95.59
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	95.58
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	95.56
PRK13765	637	ATP-dependent protease Lon; Provisional	95.55
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	95.55
TIGR02788	308	VirB11 P-type DNA transfer ATPase VirB11. The VirB	95.54
PRK06936	439	type III secretion system ATPase; Provisional	95.51
TIGR03305	449	alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit	95.51
KOG0736	953	consensus Peroxisome assembly factor 2 containing	95.5
PRK09302	509	circadian clock protein KaiC; Reviewed	95.49
PRK13948	182	shikimate kinase; Provisional	95.49
PRK14737	186	gmk guanylate kinase; Provisional	95.48
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	95.47
PRK09099	441	type III secretion system ATPase; Provisional	95.47
TIGR01818	463	ntrC nitrogen regulation protein NR(I). This model	95.45
PLN02200	234	adenylate kinase family protein	95.45
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	95.45
cd03284	216	ABC_MutS1 MutS1 homolog in eukaryotes. The MutS pr	95.43
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	95.42
TIGR02768	744	TraA_Ti Ti-type conjugative transfer relaxase TraA	95.41
PRK14493	274	putative bifunctional molybdopterin-guanine dinucl	95.41
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	95.41
cd01136	326	ATPase_flagellum-secretory_path_III Flagellum-spec	95.4
PRK04132	846	replication factor C small subunit; Provisional	95.39
cd02029	277	PRK_like Phosphoribulokinase-like (PRK-like) is a	95.38
COG1100	219	GTPase SAR1 and related small G proteins [General	95.38
TIGR03600	421	phage_DnaB phage replicative helicase, DnaB family	95.37
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	95.37
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	95.37
TIGR01448	720	recD_rel helicase, putative, RecD/TraA family. Thi	95.36
COG0003	322	ArsA Predicted ATPase involved in chromosome parti	95.35
PRK08356	195	hypothetical protein; Provisional	95.34
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	95.33
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	95.32
COG2842	297	Uncharacterized ATPase, putative transposase [Gene	95.32
PRK06761	282	hypothetical protein; Provisional	95.31
COG2019	189	AdkA Archaeal adenylate kinase [Nucleotide transpo	95.31
PF05707	193	Zot: Zonular occludens toxin (Zot); InterPro: IPR0	95.3
PF02374	305	ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_	95.29
PRK13946	184	shikimate kinase; Provisional	95.29
PRK06793	432	fliI flagellum-specific ATP synthase; Validated	95.27
TIGR03496	411	FliI_clade1 flagellar protein export ATPase FliI.	95.26
PRK05688	451	fliI flagellum-specific ATP synthase; Validated	95.25
PRK14532	188	adenylate kinase; Provisional	95.25
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	95.24
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	95.23
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	95.22
PF02367	123	UPF0079: Uncharacterised P-loop hydrolase UPF0079;	95.22
PRK04182	180	cytidylate kinase; Provisional	95.21
PF12780	268	AAA_8: P-loop containing dynein motor region D4; I	95.2
cd02040	270	NifH NifH gene encodes component II (iron protein)	95.2
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	95.2
TIGR01287	275	nifH nitrogenase iron protein. This model describe	95.19
COG5635	824	Predicted NTPase (NACHT family) [Signal transducti	95.19
PRK06820	440	type III secretion system ATPase; Validated	95.19
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	95.18
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	95.18
PRK09825	176	idnK D-gluconate kinase; Provisional	95.18
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	95.17
PLN02924	220	thymidylate kinase	95.16
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	95.16
TIGR02173	171	cyt_kin_arch cytidylate kinase, putative. Proteins	95.16
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	95.16
TIGR03375	694	type_I_sec_LssB type I secretion system ATPase, Ls	95.16
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	95.15
COG1763	161	MobB Molybdopterin-guanine dinucleotide biosynthes	95.14
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	95.14
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	95.14
PF09848	352	DUF2075: Uncharacterized conserved protein (DUF207	95.13
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	95.13
cd03285	222	ABC_MSH2_euk MutS2 homolog in eukaryotes. The MutS	95.13
PRK08472	434	fliI flagellum-specific ATP synthase; Validated	95.12
PRK07132	299	DNA polymerase III subunit delta'; Validated	95.12
PF05970	364	PIF1: PIF1-like helicase; InterPro: IPR010285 This	95.11

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=2.1e-35  Score=287.72  Aligned_cols=288  Identities=23%  Similarity=0.365  Sum_probs=220.9

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHHHHHHHhhccCChHHHHHHHHHHHhhhhhhhhHHH
Q 048765            3 DAIVSPLLEQLISVSAEELTQQVKLVKGAEQEVEKLTSHLQTIQAVLSDAEQRQVKEESVRVWLGRLKDVSYDIEDVLDE   82 (314)
Q Consensus         3 ~~~v~~~~~kl~~~l~~~l~~e~~~~~~v~~~~~~L~~~l~~i~~~l~~a~~~~~~~~~~~~wl~~lr~~ayd~eD~ld~   82 (314)
                      ++.++..++++...    +.+++..+.+.+..+..|+++|..++.++++++.++........|.+.+++++|++||.++.
T Consensus         2 ~~~~s~~~~~~~~~----l~~~~~~~~~~~~~i~~Lk~~L~~l~~~l~d~~a~~~~~~~~~~~~e~~~~~~~~~e~~~~~   77 (889)
T KOG4658|consen    2 GACVSFGVEKLDQL----LNRESECLDGKDNYILELKENLKALQSALEDLDAKRDDLERRVNWEEDVGDLVYLAEDIIWL   77 (889)
T ss_pred             CeEEEEehhhHHHH----HHHHHHHHhchHHHHHHHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34555566677765    78899999999999999999999999999999999888899999999999999999999999


Q ss_pred             HHHHHHHHHHhhccc---cccccccccccCcccchhhhhhHHHHHHHHHHHHHHHHHHHhcccccCceecC--CCC-CCC
Q 048765           83 WITARRRLQMKQNAD---SAQKQVSSCFPASSIGFKKIILRQDIAVKIKGINKKLGVIATQKDMFKFVESG--GAS-SAR  156 (314)
Q Consensus        83 ~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~i~~~i~~l~~~l~~v~~~~~~~~~~~~~--~~~-~~~  156 (314)
                      |.......+..+.-.   ...+..|.           ..+++..+..+..+..++..+....+.++.....  ... ..+
T Consensus        78 ~~v~~~~~~~~~~l~~~~~~~~~~c~-----------~~~~~~~~~~~~~~~~rv~~~l~~ve~l~~~~~~~~~~~~~~~  146 (889)
T KOG4658|consen   78 FLVEEIERKANDLLSTRSVERQRLCL-----------CGFCSKNVSDSYKYGKRVSKVLREVESLGSKGVFEVVGESLDP  146 (889)
T ss_pred             HHHHHHHHHHhHHhhhhHHHHHHHhh-----------hhhHhHhhhhhHhHHHHHHHHHHHHHHhccccceecccccccc
Confidence            987655443322110   01111111           1234455555555555555555555544432211  000 111


Q ss_pred             CCCccccccccccccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHh-hhhcCceeEEEEcC
Q 048765          157 PGRVQSTSFIDEEEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEE-VIRKFDKILWVCVS  235 (314)
Q Consensus       157 ~~~~~~~~~~~~~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~-~~~~F~~~~wv~~~  235 (314)
                      .....+.+...... ||.+..++++.+.|..++      ..+++|+||||+||||||+.++|+.. ++.+|+.++||.+|
T Consensus       147 ~~~~e~~~~~~~~~-VG~e~~~~kl~~~L~~d~------~~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VS  219 (889)
T KOG4658|consen  147 REKVETRPIQSESD-VGLETMLEKLWNRLMEDD------VGIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVS  219 (889)
T ss_pred             hhhcccCCCCcccc-ccHHHHHHHHHHHhccCC------CCEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEEEc
Confidence            11223333344444 999999999999998865      28999999999999999999999987 99999999999999


Q ss_pred             ccccHHHHHHHHHHHhcCCCCCCCc--HHHHHHHHHHHccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEecc
Q 048765          236 ETFEEFRVAKAMVEALDGHESHLGE--FQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTR  313 (314)
Q Consensus       236 ~~~~~~~~~~~i~~~~~~~~~~~~~--~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR  313 (314)
                      ++++...++..|+..++.......+  ..++...|.+.|++|||||||||||+.  .+|+.+..++|...+||||++|||
T Consensus       220 k~f~~~~iq~~Il~~l~~~~~~~~~~~~~~~~~~i~~~L~~krfllvLDDIW~~--~dw~~I~~~~p~~~~g~KvvlTTR  297 (889)
T KOG4658|consen  220 KEFTTRKIQQTILERLGLLDEEWEDKEEDELASKLLNLLEGKRFLLVLDDIWEE--VDWDKIGVPFPSRENGSKVVLTTR  297 (889)
T ss_pred             ccccHHhHHHHHHHHhccCCcccchhhHHHHHHHHHHHhccCceEEEEeccccc--ccHHhcCCCCCCccCCeEEEEEec
Confidence            9999999999999999875443322  368889999999999999999999998  679999999999889999999999


Q ss_pred             C
Q 048765          314 K  314 (314)
Q Consensus       314 ~  314 (314)
                      +
T Consensus       298 s  298 (889)
T KOG4658|consen  298 S  298 (889)
T ss_pred             c
Confidence            6

>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=99.92  E-value=7.8e-25  Score=191.88  Aligned_cols=135  Identities=36%  Similarity=0.529  Sum_probs=110.6

Q ss_pred             chhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcC
Q 048765          174 RVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDG  253 (314)
Q Consensus       174 r~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~  253 (314)
                      |+.++++|.++|....    ...++|+|+||||+||||||+.++++...+.+|+.++|++++...+...++..|+.+++.
T Consensus         1 re~~~~~l~~~L~~~~----~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~   76 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNS----NEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGE   76 (287)
T ss_dssp             -HHHHHHHHHHHHTTT----TSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHhhCCC----CCeEEEEEEcCCcCCcceeeeecccccccccccccccccccccccccccccccccccccc
Confidence            6889999999998754    568999999999999999999999987789999999999999999999999999999987


Q ss_pred             CCC---CCCcHHHHHHHHHHHccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEeccC
Q 048765          254 HES---HLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTRK  314 (314)
Q Consensus       254 ~~~---~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR~  314 (314)
                      ...   ...+.......+.+.|.++++||||||||+.  ..|+.+...++....||+||||||+
T Consensus        77 ~~~~~~~~~~~~~~~~~l~~~L~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~kilvTTR~  138 (287)
T PF00931_consen   77 PDSSISDPKDIEELQDQLRELLKDKRCLLVLDDVWDE--EDLEELREPLPSFSSGSKILVTTRD  138 (287)
T ss_dssp             C-STSSCCSSHHHHHHHHHHHHCCTSEEEEEEEE-SH--HHH-------HCHHSS-EEEEEESC
T ss_pred             cccccccccccccccccchhhhccccceeeeeeeccc--ccccccccccccccccccccccccc
Confidence            643   3466778899999999999999999999987  5788888888877779999999996

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=99.75  E-value=1.4e-17  Score=170.26  Aligned_cols=136  Identities=23%  Similarity=0.346  Sum_probs=99.1

Q ss_pred             cccccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEc---Ccc------
Q 048765          167 DEEEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCV---SET------  237 (314)
Q Consensus       167 ~~~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~---~~~------  237 (314)
                      +...+||++..++++..+|....    ...++++|+||||+||||||+.+|+  ++..+|+..+|++.   +..      
T Consensus       182 ~~~~~vG~~~~l~~l~~lL~l~~----~~~~vvgI~G~gGiGKTTLA~~l~~--~l~~~F~g~vfv~~~~v~~~~~~~~~  255 (1153)
T PLN03210        182 DFEDFVGIEDHIAKMSSLLHLES----EEVRMVGIWGSSGIGKTTIARALFS--RLSRQFQSSVFIDRAFISKSMEIYSS  255 (1153)
T ss_pred             ccccccchHHHHHHHHHHHcccc----CceEEEEEEcCCCCchHHHHHHHHH--HHhhcCCeEEEeeccccccchhhccc
Confidence            34579999999999999886543    5689999999999999999999998  67788998888752   111      


Q ss_pred             -----cc-HHHHHHHHHHHhcCCCC-CCCcHHHHHHHHHHHccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEE
Q 048765          238 -----FE-EFRVAKAMVEALDGHES-HLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILV  310 (314)
Q Consensus       238 -----~~-~~~~~~~i~~~~~~~~~-~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiv  310 (314)
                           .+ ...+...++..+..... ....    ...+++.|.++|+||||||||+.  ..|+.+........+||+|||
T Consensus       256 ~~~~~~~~~~~l~~~~l~~il~~~~~~~~~----~~~~~~~L~~krvLLVLDdv~~~--~~l~~L~~~~~~~~~GsrIIi  329 (1153)
T PLN03210        256 ANPDDYNMKLHLQRAFLSEILDKKDIKIYH----LGAMEERLKHRKVLIFIDDLDDQ--DVLDALAGQTQWFGSGSRIIV  329 (1153)
T ss_pred             ccccccchhHHHHHHHHHHHhCCCCcccCC----HHHHHHHHhCCeEEEEEeCCCCH--HHHHHHHhhCccCCCCcEEEE
Confidence                 01 12234444444432211 1111    24577888999999999999976  568888766555578999999


Q ss_pred             eccC
Q 048765          311 TTRK  314 (314)
Q Consensus       311 TtR~  314 (314)
                      |||+
T Consensus       330 TTrd  333 (1153)
T PLN03210        330 ITKD  333 (1153)
T ss_pred             EeCc
Confidence            9996

syringae 6; Provisional

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.22  E-value=2.8e-10  Score=104.30  Aligned_cols=119  Identities=21%  Similarity=0.171  Sum_probs=87.9

Q ss_pred             cccccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHH
Q 048765          167 DEEEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKA  246 (314)
Q Consensus       167 ~~~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~  246 (314)
                      .++.++||+++++.|...|...-.  +.....+.|+|++|+|||++++.++++.......-..+++++....+...++..
T Consensus        28 ~P~~l~~Re~e~~~l~~~l~~~~~--~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~~~~~~  105 (394)
T PRK00411         28 VPENLPHREEQIEELAFALRPALR--GSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRYAIFSE  105 (394)
T ss_pred             cCCCCCCHHHHHHHHHHHHHHHhC--CCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHHHHHHH
Confidence            446799999999999999854321  133456789999999999999999985443332345778888877788899999


Q ss_pred             HHHHhcCCC--CCCCcHHHHHHHHHHHcc--CceEEEEEeccccC
Q 048765          247 MVEALDGHE--SHLGEFQSLLRHIYESIA--GKSFLLVLDDVWDG  287 (314)
Q Consensus       247 i~~~~~~~~--~~~~~~~~~~~~l~~~L~--~kr~LlVlDdv~~~  287 (314)
                      +++++....  ....+..++...+.+.+.  ++..+||||+++..
T Consensus       106 i~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l  150 (394)
T PRK00411        106 IARQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYL  150 (394)
T ss_pred             HHHHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHh
Confidence            999987522  122345667777777774  46789999999764

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.12  E-value=1.4e-09  Score=98.72  Aligned_cols=119  Identities=18%  Similarity=0.174  Sum_probs=84.4

Q ss_pred             cccccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhh-hcC---ceeEEEEcCccccHHH
Q 048765          167 DEEEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVI-RKF---DKILWVCVSETFEEFR  242 (314)
Q Consensus       167 ~~~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~-~~F---~~~~wv~~~~~~~~~~  242 (314)
                      .+..++||+.+++.|..+|...-.  +.....+.|+|++|+|||++++.+++...-. ...   -..+|+++....+...
T Consensus        13 ~p~~l~gRe~e~~~l~~~l~~~~~--~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~   90 (365)
T TIGR02928        13 VPDRIVHRDEQIEELAKALRPILR--GSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQ   90 (365)
T ss_pred             CCCCCCCcHHHHHHHHHHHHHHHc--CCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHH
Confidence            335799999999999999864221  1334578999999999999999998853211 111   2467888888778888


Q ss_pred             HHHHHHHHhc---CCCC-CCCcHHHHHHHHHHHc--cCceEEEEEeccccC
Q 048765          243 VAKAMVEALD---GHES-HLGEFQSLLRHIYESI--AGKSFLLVLDDVWDG  287 (314)
Q Consensus       243 ~~~~i~~~~~---~~~~-~~~~~~~~~~~l~~~L--~~kr~LlVlDdv~~~  287 (314)
                      ++..|++++.   ...+ ...+..++...+.+.+  .+++++||||+++..
T Consensus        91 ~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L  141 (365)
T TIGR02928        91 VLVELANQLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYL  141 (365)
T ss_pred             HHHHHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhh
Confidence            9999999984   2211 1223455556666666  356899999999775

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.

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

Probab=99.12  E-value=3.7e-10  Score=86.85  Aligned_cols=117  Identities=20%  Similarity=0.185  Sum_probs=79.0

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhh---cCceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHH
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIR---KFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYES  271 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~---~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~  271 (314)
                      +.+++.|+|.+|+|||++++.+........   .-..++|++++...+...+...|++.++.......+...+.+.+.+.
T Consensus         3 ~~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~l~~~~~~~   82 (131)
T PF13401_consen    3 SQRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKSRQTSDELRSLLIDA   82 (131)
T ss_dssp             ----EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSSTS-HHHHHHHHHHH
T ss_pred             CCcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccccCCHHHHHHHHHHH
Confidence            457899999999999999999987532110   13456799998888999999999999987655545667777888877


Q ss_pred             cc-CceEEEEEeccccC-CccCHHhHHHhhccCCCCceEEEecc
Q 048765          272 IA-GKSFLLVLDDVWDG-NYVKWEPFYHCLKNGLHGSKILVTTR  313 (314)
Q Consensus       272 L~-~kr~LlVlDdv~~~-~~~~~~~l~~~l~~~~~gs~iivTtR  313 (314)
                      +. .+..+||||++... +...++.|.... + ..+.+||++.+
T Consensus        83 l~~~~~~~lviDe~~~l~~~~~l~~l~~l~-~-~~~~~vvl~G~  124 (131)
T PF13401_consen   83 LDRRRVVLLVIDEADHLFSDEFLEFLRSLL-N-ESNIKVVLVGT  124 (131)
T ss_dssp             HHHCTEEEEEEETTHHHHTHHHHHHHHHHT-C-SCBEEEEEEES
T ss_pred             HHhcCCeEEEEeChHhcCCHHHHHHHHHHH-h-CCCCeEEEEEC
Confidence            74 44569999999765 433334443332 2 55667777643

>PF05729 NACHT: NACHT domain

Probab=99.05  E-value=1.1e-09  Score=87.55  Aligned_cols=112  Identities=19%  Similarity=0.243  Sum_probs=67.5

Q ss_pred             EEEEEEccCCCChHHHHHHhhchHhhhhc----CceeEEEEcCccccHH---HHHHHHHHHhcCCCCCCCcHHHHHHHHH
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHEEVIRK----FDKILWVCVSETFEEF---RVAKAMVEALDGHESHLGEFQSLLRHIY  269 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~----F~~~~wv~~~~~~~~~---~~~~~i~~~~~~~~~~~~~~~~~~~~l~  269 (314)
                      +++.|+|.+|+||||+++.++........    +...+|++........   .+...|..+.....   .....   .+.
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~---~~~~~---~~~   74 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESI---APIEE---LLQ   74 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccch---hhhHH---HHH
Confidence            47889999999999999999886544333    4567777765443322   34334444432221   11111   122


Q ss_pred             HHc-cCceEEEEEeccccCCcc-------CHHh-HHHhhcc-CCCCceEEEeccC
Q 048765          270 ESI-AGKSFLLVLDDVWDGNYV-------KWEP-FYHCLKN-GLHGSKILVTTRK  314 (314)
Q Consensus       270 ~~L-~~kr~LlVlDdv~~~~~~-------~~~~-l~~~l~~-~~~gs~iivTtR~  314 (314)
                      ..+ ..++++||||+++.....       .+.. +...++. ..++++|+||||+
T Consensus        75 ~~~~~~~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~  129 (166)
T PF05729_consen   75 ELLEKNKRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRP  129 (166)
T ss_pred             HHHHcCCceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcC
Confidence            222 678999999999764321       1222 3344443 3678999999985

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

Probab=98.99  E-value=1.5e-08  Score=91.03  Aligned_cols=138  Identities=22%  Similarity=0.259  Sum_probs=101.1

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcC-ce-eEEEEcCccccHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKF-DK-ILWVCVSETFEEFRVAKA  246 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F-~~-~~wv~~~~~~~~~~~~~~  246 (314)
                      +.+.+|+++++++...|...-.+  .....+.|+|.+|+|||+.++.+..  ++.... .. .++|+|....++..++..
T Consensus        17 ~~l~~Re~ei~~l~~~l~~~~~~--~~p~n~~iyG~~GTGKT~~~~~v~~--~l~~~~~~~~~~yINc~~~~t~~~i~~~   92 (366)
T COG1474          17 EELPHREEEINQLASFLAPALRG--ERPSNIIIYGPTGTGKTATVKFVME--ELEESSANVEVVYINCLELRTPYQVLSK   92 (366)
T ss_pred             ccccccHHHHHHHHHHHHHHhcC--CCCccEEEECCCCCCHhHHHHHHHH--HHHhhhccCceEEEeeeeCCCHHHHHHH
Confidence            44999999999999888764432  2334588999999999999999998  444332 22 799999999999999999


Q ss_pred             HHHHhcCCCCCCCcHHHHHHHHHHHc--cCceEEEEEeccccCCccCHHhHHHhhccC-CCCceEEE
Q 048765          247 MVEALDGHESHLGEFQSLLRHIYESI--AGKSFLLVLDDVWDGNYVKWEPFYHCLKNG-LHGSKILV  310 (314)
Q Consensus       247 i~~~~~~~~~~~~~~~~~~~~l~~~L--~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~-~~gs~iiv  310 (314)
                      |++.++..+.......+....+.+.+  .++.++||||++.......-+.|...+... ..+++|++
T Consensus        93 i~~~~~~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~~~~LY~L~r~~~~~~~~v~v  159 (366)
T COG1474          93 ILNKLGKVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDGEVLYSLLRAPGENKVKVSI  159 (366)
T ss_pred             HHHHcCCCCCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhccccchHHHHHHhhccccceeEEE
Confidence            99999855555555666777777777  468999999999765322224555555533 33565554

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

Probab=98.94  E-value=4.1e-09  Score=85.92  Aligned_cols=51  Identities=22%  Similarity=0.219  Sum_probs=33.8

Q ss_pred             ccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhh
Q 048765          170 EICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVI  223 (314)
Q Consensus       170 ~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~  223 (314)
                      .|+||+++++.+...|....   ....+++.|+|.+|+|||+|.+.++......
T Consensus         1 ~fvgR~~e~~~l~~~l~~~~---~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~   51 (185)
T PF13191_consen    1 QFVGREEEIERLRDLLDAAQ---SGSPRNLLLTGESGSGKTSLLRALLDRLAER   51 (185)
T ss_dssp             --TT-HHHHHHHHHTTGGTS---S-----EEE-B-TTSSHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHH---cCCCcEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            48999999999999995222   2557899999999999999999998854433

>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=98.91  E-value=2.1e-08  Score=78.01  Aligned_cols=122  Identities=19%  Similarity=0.129  Sum_probs=71.4

Q ss_pred             ccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHh
Q 048765          172 CGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEAL  251 (314)
Q Consensus       172 vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~  251 (314)
                      .|++..+..+...+...      ....+.|+|++|+|||+|++.+++...  ..-..++++++.+..........+... 
T Consensus         1 ~~~~~~~~~i~~~~~~~------~~~~v~i~G~~G~GKT~l~~~i~~~~~--~~~~~v~~~~~~~~~~~~~~~~~~~~~-   71 (151)
T cd00009           1 VGQEEAIEALREALELP------PPKNLLLYGPPGTGKTTLARAIANELF--RPGAPFLYLNASDLLEGLVVAELFGHF-   71 (151)
T ss_pred             CchHHHHHHHHHHHhCC------CCCeEEEECCCCCCHHHHHHHHHHHhh--cCCCCeEEEehhhhhhhhHHHHHhhhh-
Confidence            36777788888877542      246788999999999999999988432  222456677665543332221111100 


Q ss_pred             cCCCCCCCcHHHHHHHHHHHccCceEEEEEeccccCCccCHHhHHHhhccC------CCCceEEEecc
Q 048765          252 DGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNG------LHGSKILVTTR  313 (314)
Q Consensus       252 ~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~------~~gs~iivTtR  313 (314)
                                 ............+..+||+||++.........+...+...      ..+..||+||.
T Consensus        72 -----------~~~~~~~~~~~~~~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~  128 (151)
T cd00009          72 -----------LVRLLFELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATN  128 (151)
T ss_pred             -----------hHhHHHHhhccCCCeEEEEeChhhhhHHHHHHHHHHHHhcCceeccCCCeEEEEecC
Confidence                       0001111223456789999999854222233444444432      35778888875

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.

>PTZ00202 tuzin; Provisional

Probab=98.88  E-value=9e-08  Score=85.94  Aligned_cols=106  Identities=24%  Similarity=0.258  Sum_probs=71.8

Q ss_pred             ccccccccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHH
Q 048765          164 SFIDEEEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRV  243 (314)
Q Consensus       164 ~~~~~~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~  243 (314)
                      .+.+.+.|+||+.+...|...|.....   ...+++.|.|++|+|||||++.+....    ++ ...+++..   +..++
T Consensus       257 lPa~~~~FVGReaEla~Lr~VL~~~d~---~~privvLtG~~G~GKTTLlR~~~~~l----~~-~qL~vNpr---g~eEl  325 (550)
T PTZ00202        257 APAVIRQFVSREAEESWVRQVLRRLDT---AHPRIVVFTGFRGCGKSSLCRSAVRKE----GM-PAVFVDVR---GTEDT  325 (550)
T ss_pred             CCCCccCCCCcHHHHHHHHHHHhccCC---CCceEEEEECCCCCCHHHHHHHHHhcC----Cc-eEEEECCC---CHHHH
Confidence            444557899999999999998865332   234688999999999999999987522    22 23333333   67999


Q ss_pred             HHHHHHHhcCCCCCCCcHHHHHHHHHHHc-----c-CceEEEEEe
Q 048765          244 AKAMVEALDGHESHLGEFQSLLRHIYESI-----A-GKSFLLVLD  282 (314)
Q Consensus       244 ~~~i~~~~~~~~~~~~~~~~~~~~l~~~L-----~-~kr~LlVlD  282 (314)
                      ++.++.+|+..+.  ....++...|.+.|     . +++.+|||-
T Consensus       326 Lr~LL~ALGV~p~--~~k~dLLrqIqeaLl~~~~e~GrtPVLII~  368 (550)
T PTZ00202        326 LRSVVKALGVPNV--EACGDLLDFISEACRRAKKMNGETPLLVLK  368 (550)
T ss_pred             HHHHHHHcCCCCc--ccHHHHHHHHHHHHHHHHHhCCCCEEEEEE
Confidence            9999999997432  22233444443333     3 667777764

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=98.82  E-value=7.7e-08  Score=92.83  Aligned_cols=142  Identities=13%  Similarity=0.079  Sum_probs=90.9

Q ss_pred             ccccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhh---hhcC--ceeEEEEcCccccHHH
Q 048765          168 EEEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEV---IRKF--DKILWVCVSETFEEFR  242 (314)
Q Consensus       168 ~~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~---~~~F--~~~~wv~~~~~~~~~~  242 (314)
                      +..+.||+++++.|...|...-.+ ...-.++.|+|++|+|||++++.|.....-   ....  -.+++|++....+...
T Consensus       754 PD~LPhREeEIeeLasfL~paIkg-sgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp~s  832 (1164)
T PTZ00112        754 PKYLPCREKEIKEVHGFLESGIKQ-SGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHPNA  832 (1164)
T ss_pred             CCcCCChHHHHHHHHHHHHHHHhc-CCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCHHH
Confidence            357889999999999888653321 123367889999999999999999874321   1111  1367888887778888


Q ss_pred             HHHHHHHHhcCCCC-CCCcHHHHHHHHHHHcc---CceEEEEEeccccCCccCHHhHHHhhcc-CCCCceEEE
Q 048765          243 VAKAMVEALDGHES-HLGEFQSLLRHIYESIA---GKSFLLVLDDVWDGNYVKWEPFYHCLKN-GLHGSKILV  310 (314)
Q Consensus       243 ~~~~i~~~~~~~~~-~~~~~~~~~~~l~~~L~---~kr~LlVlDdv~~~~~~~~~~l~~~l~~-~~~gs~iiv  310 (314)
                      ++..|.+++....+ ......+....+...+.   ....+||||+++......-+.|...+.. ...+++|+|
T Consensus       833 IYqvI~qqL~g~~P~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L~kK~QDVLYnLFR~~~~s~SKLiL  905 (1164)
T PTZ00112        833 AYQVLYKQLFNKKPPNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYLITKTQKVLFTLFDWPTKINSKLVL  905 (1164)
T ss_pred             HHHHHHHHHcCCCCCccccHHHHHHHHHhhhhcccccceEEEeehHhhhCccHHHHHHHHHHHhhccCCeEEE
Confidence            99999998854332 22233445555555542   2346999999976432222334444432 234666665

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

Probab=98.79  E-value=1.6e-07  Score=81.46  Aligned_cols=99  Identities=21%  Similarity=0.203  Sum_probs=64.1

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHH----H
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYE----S  271 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~----~  271 (314)
                      ..++.|+|++|+|||||++.+++.... ..+ ..+|+ +....+..+++..++..++..... .+...+...+..    .
T Consensus        43 ~~~~~l~G~~G~GKTtl~~~l~~~l~~-~~~-~~~~~-~~~~~~~~~~l~~i~~~lG~~~~~-~~~~~~~~~l~~~l~~~  118 (269)
T TIGR03015        43 EGFILITGEVGAGKTTLIRNLLKRLDQ-ERV-VAAKL-VNTRVDAEDLLRMVAADFGLETEG-RDKAALLRELEDFLIEQ  118 (269)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHhcCC-CCe-EEeee-eCCCCCHHHHHHHHHHHcCCCCCC-CCHHHHHHHHHHHHHHH
Confidence            458899999999999999999874321 111 22333 233456778888999888664322 222233333333    2


Q ss_pred             c-cCceEEEEEeccccCCccCHHhHHHh
Q 048765          272 I-AGKSFLLVLDDVWDGNYVKWEPFYHC  298 (314)
Q Consensus       272 L-~~kr~LlVlDdv~~~~~~~~~~l~~~  298 (314)
                      + .+++.+||+||+|......++.+...
T Consensus       119 ~~~~~~~vliiDe~~~l~~~~~~~l~~l  146 (269)
T TIGR03015       119 FAAGKRALLVVDEAQNLTPELLEELRML  146 (269)
T ss_pred             HhCCCCeEEEEECcccCCHHHHHHHHHH
Confidence            2 67889999999988765556666543

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=98.78  E-value=1e-08  Score=86.60  Aligned_cols=59  Identities=27%  Similarity=0.253  Sum_probs=40.7

Q ss_pred             cccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCcc
Q 048765          171 ICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSET  237 (314)
Q Consensus       171 ~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~  237 (314)
                      |+||+.+++.|.+++...      ....+.|+|+.|+|||+|++.+.+.  .+..-...+|+.....
T Consensus         1 F~gR~~el~~l~~~l~~~------~~~~~~l~G~rg~GKTsLl~~~~~~--~~~~~~~~~y~~~~~~   59 (234)
T PF01637_consen    1 FFGREKELEKLKELLESG------PSQHILLYGPRGSGKTSLLKEFINE--LKEKGYKVVYIDFLEE   59 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH--------SSEEEEEESTTSSHHHHHHHHHHH--CT--EECCCHHCCTTB
T ss_pred             CCCHHHHHHHHHHHHHhh------cCcEEEEEcCCcCCHHHHHHHHHHH--hhhcCCcEEEEecccc
Confidence            689999999999988653      2468899999999999999999873  3221124555554443

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

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.77  E-value=1e-07  Score=96.53  Aligned_cols=131  Identities=20%  Similarity=0.274  Sum_probs=84.3

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcC-ccccHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVS-ETFEEFRVAKAM  247 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~-~~~~~~~~~~~i  247 (314)
                      +.++-|..    |.+.|...     ...+++.|+|++|.||||++..+..      .++.++|+++. .+.++..++..+
T Consensus        14 ~~~~~R~r----l~~~l~~~-----~~~~~~~v~apaG~GKTtl~~~~~~------~~~~~~w~~l~~~d~~~~~f~~~l   78 (903)
T PRK04841         14 HNTVVRER----LLAKLSGA-----NNYRLVLVTSPAGYGKTTLISQWAA------GKNNLGWYSLDESDNQPERFASYL   78 (903)
T ss_pred             cccCcchH----HHHHHhcc-----cCCCeEEEECCCCCCHHHHHHHHHH------hCCCeEEEecCcccCCHHHHHHHH
Confidence            34565654    44444322     3478999999999999999998874      23369999985 555777787888


Q ss_pred             HHHhcCCCCC-------------CCcHHHHHHHHHHHcc--CceEEEEEeccccCCccCHHh-HHHhhccCCCCceEEEe
Q 048765          248 VEALDGHESH-------------LGEFQSLLRHIYESIA--GKSFLLVLDDVWDGNYVKWEP-FYHCLKNGLHGSKILVT  311 (314)
Q Consensus       248 ~~~~~~~~~~-------------~~~~~~~~~~l~~~L~--~kr~LlVlDdv~~~~~~~~~~-l~~~l~~~~~gs~iivT  311 (314)
                      +..+......             ..+...+...+...+.  +.+++|||||+...+...... +...++...++.++|||
T Consensus        79 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~lv~~  158 (903)
T PRK04841         79 IAALQQATNGHCSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTLVVL  158 (903)
T ss_pred             HHHHHHhcCcccchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEEEEE
Confidence            8877422111             0122333444433332  678999999997654344443 44444455667788899


Q ss_pred             ccC
Q 048765          312 TRK  314 (314)
Q Consensus       312 tR~  314 (314)
                      ||+
T Consensus       159 sR~  161 (903)
T PRK04841        159 SRN  161 (903)
T ss_pred             eCC
Confidence            985

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

Probab=98.75  E-value=1.5e-08  Score=86.20  Aligned_cols=91  Identities=19%  Similarity=0.092  Sum_probs=61.9

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCcc--ccHHHHHHHHHHHhcCCCCCCCc------HHHHHH
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSET--FEEFRVAKAMVEALDGHESHLGE------FQSLLR  266 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~--~~~~~~~~~i~~~~~~~~~~~~~------~~~~~~  266 (314)
                      +-..+.|+|++|+|||||++.++++.... +|+.++|+.+.+.  +++.++++.+...+-....+...      ......
T Consensus        15 ~Gqr~~I~G~~G~GKTTLlr~I~n~l~~~-~fdv~~~v~vI~er~~ev~el~~~I~~~~v~~~~~~~~~~~~~~~~~~~~   93 (249)
T cd01128          15 KGQRGLIVAPPKAGKTTLLQSIANAITKN-HPEVYLIVLLIDERPEEVTDMQRSVKGEVIASTFDEPPERHVQVAEMVLE   93 (249)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhccccc-cCCeEEEEEEccCCCccHHHHHHHhccEEEEecCCCCHHHHHHHHHHHHH
Confidence            34678999999999999999999865444 8999999997666  78889988883322111111111      112223


Q ss_pred             HHHHHc-cCceEEEEEecccc
Q 048765          267 HIYESI-AGKSFLLVLDDVWD  286 (314)
Q Consensus       267 ~l~~~L-~~kr~LlVlDdv~~  286 (314)
                      ....+. .+++.++++|++-.
T Consensus        94 ~a~~~~~~G~~vll~iDei~r  114 (249)
T cd01128          94 KAKRLVEHGKDVVILLDSITR  114 (249)
T ss_pred             HHHHHHHCCCCEEEEEECHHH
Confidence            333322 58999999999943

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.

>PF13173 AAA_14: AAA domain

Probab=98.75  E-value=5.6e-08  Score=74.43  Aligned_cols=96  Identities=23%  Similarity=0.284  Sum_probs=64.0

Q ss_pred             EEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHccCce
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGKS  276 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~kr  276 (314)
                      +++.|.|+.|+|||||+++++.+..   ....++|+++...........+                 ..+.+.+...++.
T Consensus         3 ~~~~l~G~R~vGKTtll~~~~~~~~---~~~~~~yi~~~~~~~~~~~~~~-----------------~~~~~~~~~~~~~   62 (128)
T PF13173_consen    3 KIIILTGPRGVGKTTLLKQLAKDLL---PPENILYINFDDPRDRRLADPD-----------------LLEYFLELIKPGK   62 (128)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhc---ccccceeeccCCHHHHHHhhhh-----------------hHHHHHHhhccCC
Confidence            6889999999999999999987432   3356778877654332111000                 1222333334477


Q ss_pred             EEEEEeccccCCccCHHhHHHhhccCCCCceEEEeccC
Q 048765          277 FLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTRK  314 (314)
Q Consensus       277 ~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR~  314 (314)
                      .+|+||++...  ..|......+-+..+..+|++|+.+
T Consensus        63 ~~i~iDEiq~~--~~~~~~lk~l~d~~~~~~ii~tgS~   98 (128)
T PF13173_consen   63 KYIFIDEIQYL--PDWEDALKFLVDNGPNIKIILTGSS   98 (128)
T ss_pred             cEEEEehhhhh--ccHHHHHHHHHHhccCceEEEEccc
Confidence            89999999765  5688877777665556789998753

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=98.60  E-value=1.3e-06  Score=83.77  Aligned_cols=134  Identities=23%  Similarity=0.274  Sum_probs=90.9

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcC-ccccHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVS-ETFEEFRVAKAM  247 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~-~~~~~~~~~~~i  247 (314)
                      ...+-|..    |++.|...     ...+.+.|..|+|.|||||+..+..  . ...-.-+.|.++. .+.++..+++.+
T Consensus        19 ~~~v~R~r----L~~~L~~~-----~~~RL~li~APAGfGKttl~aq~~~--~-~~~~~~v~Wlslde~dndp~rF~~yL   86 (894)
T COG2909          19 DNYVVRPR----LLDRLRRA-----NDYRLILISAPAGFGKTTLLAQWRE--L-AADGAAVAWLSLDESDNDPARFLSYL   86 (894)
T ss_pred             ccccccHH----HHHHHhcC-----CCceEEEEeCCCCCcHHHHHHHHHH--h-cCcccceeEeecCCccCCHHHHHHHH
Confidence            44554544    55555443     3589999999999999999998864  1 1233569999984 566888999999


Q ss_pred             HHHhcCCCCCC-------------CcHHHHHHHHHHHcc--CceEEEEEeccccCCccCHHh-HHHhhccCCCCceEEEe
Q 048765          248 VEALDGHESHL-------------GEFQSLLRHIYESIA--GKSFLLVLDDVWDGNYVKWEP-FYHCLKNGLHGSKILVT  311 (314)
Q Consensus       248 ~~~~~~~~~~~-------------~~~~~~~~~l~~~L~--~kr~LlVlDdv~~~~~~~~~~-l~~~l~~~~~gs~iivT  311 (314)
                      +..++...++.             .+...+.+.+..-|.  .++..+||||..-........ +...+...+++-..|+|
T Consensus        87 i~al~~~~p~~~~~a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~P~~l~lvv~  166 (894)
T COG2909          87 IAALQQATPTLGDEAQTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLKHAPENLTLVVT  166 (894)
T ss_pred             HHHHHHhCccccHHHHHHHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHHhCCCCeEEEEE
Confidence            99987543322             223344444444442  467999999986443344555 55555667888899999


Q ss_pred             ccC
Q 048765          312 TRK  314 (314)
Q Consensus       312 tR~  314 (314)
                      ||+
T Consensus       167 SR~  169 (894)
T COG2909         167 SRS  169 (894)
T ss_pred             ecc
Confidence            995

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=98.58  E-value=1.8e-07  Score=83.29  Aligned_cols=89  Identities=18%  Similarity=0.101  Sum_probs=59.2

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccc--cHHHHHHHHHHHhcCCC-CCCCcHH-----HHHHH
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETF--EEFRVAKAMVEALDGHE-SHLGEFQ-----SLLRH  267 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~--~~~~~~~~i~~~~~~~~-~~~~~~~-----~~~~~  267 (314)
                      -.-..|+|++|+|||||++.+|++.... ||+.++||.+.+..  .+.++++.+...+-... ......+     .....
T Consensus       169 GQR~lIvgppGvGKTTLaK~Ian~I~~n-hFDv~~~VvLIgER~~EVtdiqrsIlg~vv~st~d~~~~~~~~~a~~~ie~  247 (416)
T PRK09376        169 GQRGLIVAPPKAGKTVLLQNIANSITTN-HPEVHLIVLLIDERPEEVTDMQRSVKGEVVASTFDEPAERHVQVAEMVIEK  247 (416)
T ss_pred             CceEEEeCCCCCChhHHHHHHHHHHHhh-cCCeEEEEEEeCCchhHHHHHHHHhcCcEEEECCCCCHHHHHHHHHHHHHH
Confidence            4567899999999999999999976554 89999999998887  66677777652111111 1111111     11122


Q ss_pred             HHHH-ccCceEEEEEeccc
Q 048765          268 IYES-IAGKSFLLVLDDVW  285 (314)
Q Consensus       268 l~~~-L~~kr~LlVlDdv~  285 (314)
                      -..+ -.++..||++|++.
T Consensus       248 Ae~~~e~G~dVlL~iDsIt  266 (416)
T PRK09376        248 AKRLVEHGKDVVILLDSIT  266 (416)
T ss_pred             HHHHHHcCCCEEEEEEChH
Confidence            2222 26899999999994

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=98.53  E-value=6.9e-07  Score=79.24  Aligned_cols=124  Identities=17%  Similarity=0.207  Sum_probs=83.4

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchH----hhhhcCceeEEEEc-CccccHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHE----EVIRKFDKILWVCV-SETFEEFRV  243 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~----~~~~~F~~~~wv~~-~~~~~~~~~  243 (314)
                      .+++|.+...+.+..++....     -.....++|+.|+||||+|+.++...    ....|+|...|... +.....+. 
T Consensus         4 ~~i~g~~~~~~~l~~~~~~~~-----~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~-   77 (313)
T PRK05564          4 HTIIGHENIKNRIKNSIIKNR-----FSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDD-   77 (313)
T ss_pred             hhccCcHHHHHHHHHHHHcCC-----CCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHH-
Confidence            357898888888998886532     34577899999999999998887621    12356676655442 22223323 


Q ss_pred             HHHHHHHhcCCCCCCCcHHHHHHHHHHHccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEeccC
Q 048765          244 AKAMVEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTRK  314 (314)
Q Consensus       244 ~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR~  314 (314)
                      .+++.+.+...                -..+++-++|+|++...+...++.|...+...+.++.+|++|.+
T Consensus        78 ir~~~~~~~~~----------------p~~~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~  132 (313)
T PRK05564         78 IRNIIEEVNKK----------------PYEGDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCEN  132 (313)
T ss_pred             HHHHHHHHhcC----------------cccCCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCC
Confidence            22233322211                12456778888888777667899999999988889999888753

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=98.48  E-value=9.9e-07  Score=79.06  Aligned_cols=138  Identities=14%  Similarity=0.153  Sum_probs=72.2

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCc-eeEEEEcCccccH--HHHH-
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFD-KILWVCVSETFEE--FRVA-  244 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~-~~~wv~~~~~~~~--~~~~-  244 (314)
                      ..++|++...+.|..++...      ..+.+.++|++|+||||+|+.+.+... ...+. ..+.++++.....  ..+. 
T Consensus        15 ~~~~g~~~~~~~L~~~~~~~------~~~~lll~Gp~GtGKT~la~~~~~~l~-~~~~~~~~~~i~~~~~~~~~~~~~~~   87 (337)
T PRK12402         15 EDILGQDEVVERLSRAVDSP------NLPHLLVQGPPGSGKTAAVRALARELY-GDPWENNFTEFNVADFFDQGKKYLVE   87 (337)
T ss_pred             HHhcCCHHHHHHHHHHHhCC------CCceEEEECCCCCCHHHHHHHHHHHhc-CcccccceEEechhhhhhcchhhhhc
Confidence            46889999999988888543      234578999999999999999876321 11122 2345554432100  0000 


Q ss_pred             -HHHHHHhcCCC-C---CCCcHHHHHHHHHHHc--cCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEecc
Q 048765          245 -KAMVEALDGHE-S---HLGEFQSLLRHIYESI--AGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTR  313 (314)
Q Consensus       245 -~~i~~~~~~~~-~---~~~~~~~~~~~l~~~L--~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR  313 (314)
                       ......++... .   .....+.+........  .+.+-+|||||+..........|...+......+++|+||.
T Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~  163 (337)
T PRK12402         88 DPRFAHFLGTDKRIRSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATR  163 (337)
T ss_pred             CcchhhhhhhhhhhccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCCHHHHHHHHHHHHhccCCCeEEEEeC
Confidence             00000000000 0   0011111111222221  24456899999976543345556666654445567877763

>TIGR00767 rho transcription termination factor Rho

Probab=98.47  E-value=3.3e-07  Score=82.05  Aligned_cols=91  Identities=14%  Similarity=0.054  Sum_probs=61.7

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCcc--ccHHHHHHHHHHHhcCCCCC-CCcH-----HHHHH
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSET--FEEFRVAKAMVEALDGHESH-LGEF-----QSLLR  266 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~--~~~~~~~~~i~~~~~~~~~~-~~~~-----~~~~~  266 (314)
                      .-..+.|+|++|+|||||++.+++.... +||+..+|+.+.+.  ..+.++++.+...+-....+ ....     ....+
T Consensus       167 ~Gq~~~IvG~~g~GKTtL~~~i~~~I~~-nhfdv~v~VlLIgER~~EVtDLqrsIlg~Vvast~d~p~~~~~~va~~v~e  245 (415)
T TIGR00767       167 KGQRGLIVAPPKAGKTVLLQKIAQAITR-NHPEVELIVLLIDERPEEVTDMQRSVKGEVVASTFDEPASRHVQVAEMVIE  245 (415)
T ss_pred             CCCEEEEECCCCCChhHHHHHHHHhhcc-cCCceEEEEEEcCCCCccHHHHHHHhhceEEEecCCCChHHHHHHHHHHHH
Confidence            3467899999999999999999985443 37999999998865  78888888885433211111 1111     12222


Q ss_pred             HHHHHc-cCceEEEEEecccc
Q 048765          267 HIYESI-AGKSFLLVLDDVWD  286 (314)
Q Consensus       267 ~l~~~L-~~kr~LlVlDdv~~  286 (314)
                      ....+. ++++.+|++|++..
T Consensus       246 ~Ae~~~~~GkdVVLlIDEitR  266 (415)
T TIGR00767       246 KAKRLVEHKKDVVILLDSITR  266 (415)
T ss_pred             HHHHHHHcCCCeEEEEEChhH
Confidence            222332 68999999999943

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

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

Probab=98.46  E-value=8.5e-07  Score=80.71  Aligned_cols=120  Identities=11%  Similarity=0.126  Sum_probs=75.8

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMV  248 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  248 (314)
                      +.+++.+...+.+...|..        .+.+.++|++|+|||++|+.+++......+|+.+.||.+++..+..+++..+ 
T Consensus       175 ~d~~i~e~~le~l~~~L~~--------~~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySYeDFI~G~-  245 (459)
T PRK11331        175 NDLFIPETTIETILKRLTI--------KKNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSYEDFIQGY-  245 (459)
T ss_pred             hcccCCHHHHHHHHHHHhc--------CCCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccHHHHhccc-
Confidence            4577788889999998864        3477889999999999999998755444578889999999888776654322 


Q ss_pred             HHhcCCCCCCCcH-HHHHHHHHHHc--cCceEEEEEeccccCCcc-CHHhHHHhhc
Q 048765          249 EALDGHESHLGEF-QSLLRHIYESI--AGKSFLLVLDDVWDGNYV-KWEPFYHCLK  300 (314)
Q Consensus       249 ~~~~~~~~~~~~~-~~~~~~l~~~L--~~kr~LlVlDdv~~~~~~-~~~~l~~~l~  300 (314)
                         ........-. ....+.+....  .+++++||||++...+.. .+..+...+.
T Consensus       246 ---rP~~vgy~~~~G~f~~~~~~A~~~p~~~~vliIDEINRani~kiFGel~~lLE  298 (459)
T PRK11331        246 ---RPNGVGFRRKDGIFYNFCQQAKEQPEKKYVFIIDEINRANLSKVFGEVMMLME  298 (459)
T ss_pred             ---CCCCCCeEecCchHHHHHHHHHhcccCCcEEEEehhhccCHHHhhhhhhhhcc
Confidence               1110000000 11112222222  246899999999765422 2344444443

>PRK06893 DNA replication initiation factor; Validated

Probab=98.46  E-value=4.5e-07  Score=76.68  Aligned_cols=89  Identities=19%  Similarity=0.318  Sum_probs=52.0

Q ss_pred             EEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHccCce
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGKS  276 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~kr  276 (314)
                      ..+.|+|++|+|||+|++.+++.  .......+.|+++...   .....                     .+.+.+. +.
T Consensus        40 ~~l~l~G~~G~GKThL~~ai~~~--~~~~~~~~~y~~~~~~---~~~~~---------------------~~~~~~~-~~   92 (229)
T PRK06893         40 PFFYIWGGKSSGKSHLLKAVSNH--YLLNQRTAIYIPLSKS---QYFSP---------------------AVLENLE-QQ   92 (229)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH--HHHcCCCeEEeeHHHh---hhhhH---------------------HHHhhcc-cC
Confidence            56899999999999999999984  3333445677766421   00000                     1111122 23


Q ss_pred             EEEEEeccccCC-ccCHH-hHHHhhccC-CCCceEEEec
Q 048765          277 FLLVLDDVWDGN-YVKWE-PFYHCLKNG-LHGSKILVTT  312 (314)
Q Consensus       277 ~LlVlDdv~~~~-~~~~~-~l~~~l~~~-~~gs~iivTt  312 (314)
                      -+|+|||+|... ...|+ .+...+... ..|+.+||+|
T Consensus        93 dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illit  131 (229)
T PRK06893         93 DLVCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLIS  131 (229)
T ss_pred             CEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEe
Confidence            599999998742 23565 345545422 3466665544

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=98.44  E-value=2e-06  Score=82.60  Aligned_cols=123  Identities=16%  Similarity=0.181  Sum_probs=76.3

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhh-------------------cCcee
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIR-------------------KFDKI  229 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~-------------------~F~~~  229 (314)
                      ++++|.+.-++.|..++....     -...+.++|..|+||||+++.+.+...-..                   .|.-.
T Consensus        16 dEVIGQe~Vv~~L~~aL~~gR-----L~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C~sCr~I~~G~h~Dv   90 (830)
T PRK07003         16 ASLVGQEHVVRALTHALDGGR-----LHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRACREIDEGRFVDY   90 (830)
T ss_pred             HHHcCcHHHHHHHHHHHhcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCcccHHHHHHhcCCCceE
Confidence            569999999999999886532     244567999999999999988765321111                   11112


Q ss_pred             EEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHH-ccCceEEEEEeccccCCccCHHhHHHhhccCCCCceE
Q 048765          230 LWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYES-IAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKI  308 (314)
Q Consensus       230 ~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~-L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~i  308 (314)
                      ++++.+.....                  .++.++++.+... ..++.-++|||++...+...++.|+..|..-..+.++
T Consensus        91 iEIDAas~rgV------------------DdIReLIe~a~~~P~~gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~F  152 (830)
T PRK07003         91 VEMDAASNRGV------------------DEMAALLERAVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKF  152 (830)
T ss_pred             EEecccccccH------------------HHHHHHHHHHHhccccCCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEE
Confidence            22222111111                  1122222222211 2345668999999887766788888888766667888


Q ss_pred             EEeccC
Q 048765          309 LVTTRK  314 (314)
Q Consensus       309 ivTtR~  314 (314)
                      |++|.+
T Consensus       153 ILaTtd  158 (830)
T PRK07003        153 ILATTD  158 (830)
T ss_pred             EEEECC
Confidence            888764

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=98.43  E-value=1.1e-06  Score=74.07  Aligned_cols=106  Identities=22%  Similarity=0.259  Sum_probs=61.6

Q ss_pred             hhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCC
Q 048765          175 VGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGH  254 (314)
Q Consensus       175 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~  254 (314)
                      ...++.+..++..      .....+.|+|+.|+|||+||+.+++.  ........++++++......   .         
T Consensus        23 ~~~~~~l~~~~~~------~~~~~lll~G~~G~GKT~la~~~~~~--~~~~~~~~~~i~~~~~~~~~---~---------   82 (226)
T TIGR03420        23 AELLAALRQLAAG------KGDRFLYLWGESGSGKSHLLQAACAA--AEERGKSAIYLPLAELAQAD---P---------   82 (226)
T ss_pred             HHHHHHHHHHHhc------CCCCeEEEECCCCCCHHHHHHHHHHH--HHhcCCcEEEEeHHHHHHhH---H---------
Confidence            4456666666532      33568899999999999999999874  33334456667654322100   0         


Q ss_pred             CCCCCcHHHHHHHHHHHccCceEEEEEeccccCCcc-C-HHhHHHhhccC-CCCceEEEecc
Q 048765          255 ESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYV-K-WEPFYHCLKNG-LHGSKILVTTR  313 (314)
Q Consensus       255 ~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~-~-~~~l~~~l~~~-~~gs~iivTtR  313 (314)
                                  .+...+.+ .-+|||||+...... . .+.+...+... ..+..+|+||+
T Consensus        83 ------------~~~~~~~~-~~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~  131 (226)
T TIGR03420        83 ------------EVLEGLEQ-ADLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGR  131 (226)
T ss_pred             ------------HHHhhccc-CCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECC
Confidence                        11112222 238999999765422 2 33455554421 23447888875

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.

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

Probab=98.43  E-value=7.9e-07  Score=78.54  Aligned_cols=90  Identities=24%  Similarity=0.397  Sum_probs=56.3

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHH-Hc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYE-SI  272 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~-~L  272 (314)
                      .++.-..+||++|+||||||+.+..  .....|.     .+|-..+                 ...+++...+.-++ ..
T Consensus        46 ~~l~SmIl~GPPG~GKTTlA~liA~--~~~~~f~-----~~sAv~~-----------------gvkdlr~i~e~a~~~~~  101 (436)
T COG2256          46 GHLHSMILWGPPGTGKTTLARLIAG--TTNAAFE-----ALSAVTS-----------------GVKDLREIIEEARKNRL  101 (436)
T ss_pred             CCCceeEEECCCCCCHHHHHHHHHH--hhCCceE-----Eeccccc-----------------cHHHHHHHHHHHHHHHh
Confidence            4577888999999999999999977  4444442     2222111                 12233333333322 23


Q ss_pred             cCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEE
Q 048765          273 AGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILV  310 (314)
Q Consensus       273 ~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiv  310 (314)
                      .+++.+|++|.|...+...-+.+   ||...+|.-|+|
T Consensus       102 ~gr~tiLflDEIHRfnK~QQD~l---Lp~vE~G~iilI  136 (436)
T COG2256         102 LGRRTILFLDEIHRFNKAQQDAL---LPHVENGTIILI  136 (436)
T ss_pred             cCCceEEEEehhhhcChhhhhhh---hhhhcCCeEEEE
Confidence            68999999999987654443444   455556775555

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.41  E-value=3.3e-06  Score=76.37  Aligned_cols=137  Identities=18%  Similarity=0.193  Sum_probs=73.0

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMV  248 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  248 (314)
                      ++++|.+.-++.+...+....     -...+.++|+.|+||||+|+.+.....-...+...   .+........+.....
T Consensus        16 ~~iiGq~~~~~~l~~~~~~~~-----~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~~~---pc~~c~~c~~~~~~~~   87 (363)
T PRK14961         16 RDIIGQKHIVTAISNGLSLGR-----IHHAWLLSGTRGVGKTTIARLLAKSLNCQNGITSN---PCRKCIICKEIEKGLC   87 (363)
T ss_pred             hhccChHHHHHHHHHHHHcCC-----CCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCCCC---CCCCCHHHHHHhcCCC
Confidence            468999998888888886532     24567899999999999999987632100000000   0000000000000000


Q ss_pred             HHhc-CCC---CCCCcHHHHHHHHHHH-ccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEecc
Q 048765          249 EALD-GHE---SHLGEFQSLLRHIYES-IAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTR  313 (314)
Q Consensus       249 ~~~~-~~~---~~~~~~~~~~~~l~~~-L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR  313 (314)
                      -.+. ...   ....+..++.+.+... ..+++-++|||++.......++.+...+...+...++|++|.
T Consensus        88 ~d~~~~~~~~~~~v~~ir~i~~~~~~~p~~~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~  157 (363)
T PRK14961         88 LDLIEIDAASRTKVEEMREILDNIYYSPSKSRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATT  157 (363)
T ss_pred             CceEEecccccCCHHHHHHHHHHHhcCcccCCceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcC
Confidence            0000 000   0111122222222111 134567999999987765567788888876666777777764

>PRK08116 hypothetical protein; Validated

Probab=98.41  E-value=1.9e-06  Score=74.40  Aligned_cols=102  Identities=24%  Similarity=0.289  Sum_probs=60.3

Q ss_pred             EEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHccCce
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGKS  276 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~kr  276 (314)
                      ..+.++|..|+|||+||..+++.  .......+++++      ..+++..+...+....  ..+..    .+.+.+.+- 
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~~--l~~~~~~v~~~~------~~~ll~~i~~~~~~~~--~~~~~----~~~~~l~~~-  179 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIANE--LIEKGVPVIFVN------FPQLLNRIKSTYKSSG--KEDEN----EIIRSLVNA-  179 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH--HHHcCCeEEEEE------HHHHHHHHHHHHhccc--cccHH----HHHHHhcCC-
Confidence            35789999999999999999984  333344556664      4445555555543211  11111    223333333 


Q ss_pred             EEEEEeccccCCccCHHh--HHHhhccC-CCCceEEEecc
Q 048765          277 FLLVLDDVWDGNYVKWEP--FYHCLKNG-LHGSKILVTTR  313 (314)
Q Consensus       277 ~LlVlDdv~~~~~~~~~~--l~~~l~~~-~~gs~iivTtR  313 (314)
                      =||||||+......+|..  |...+... .+|..+|+||.
T Consensus       180 dlLviDDlg~e~~t~~~~~~l~~iin~r~~~~~~~IiTsN  219 (268)
T PRK08116        180 DLLILDDLGAERDTEWAREKVYNIIDSRYRKGLPTIVTTN  219 (268)
T ss_pred             CEEEEecccCCCCCHHHHHHHHHHHHHHHHCCCCEEEECC
Confidence            389999996543345544  44444322 45667999984

>PRK13342 recombination factor protein RarA; Reviewed

Probab=98.38  E-value=1.7e-06  Score=79.62  Aligned_cols=109  Identities=18%  Similarity=0.269  Sum_probs=62.6

Q ss_pred             cccccchhhHHH---HHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHH
Q 048765          169 EEICGRVGEKNE---LLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAK  245 (314)
Q Consensus       169 ~~~vgr~~~~~~---l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~  245 (314)
                      ++++|.+..+..   |..++..      .....+.++|++|+||||||+.+++.  ....|   ..++.+.  ...+-++
T Consensus        12 ~d~vGq~~~v~~~~~L~~~i~~------~~~~~ilL~GppGtGKTtLA~~ia~~--~~~~~---~~l~a~~--~~~~~ir   78 (413)
T PRK13342         12 DEVVGQEHLLGPGKPLRRMIEA------GRLSSMILWGPPGTGKTTLARIIAGA--TDAPF---EALSAVT--SGVKDLR   78 (413)
T ss_pred             HHhcCcHHHhCcchHHHHHHHc------CCCceEEEECCCCCCHHHHHHHHHHH--hCCCE---EEEeccc--ccHHHHH
Confidence            458887766544   6666643      23557788999999999999999873  32233   1222221  1111111


Q ss_pred             HHHHHhcCCCCCCCcHHHHHHHHHHHc-cCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEE
Q 048765          246 AMVEALDGHESHLGEFQSLLRHIYESI-AGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILV  310 (314)
Q Consensus       246 ~i~~~~~~~~~~~~~~~~~~~~l~~~L-~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiv  310 (314)
                      .                 +.+...... .+++.+|+||+++..+....+.|...+..   |..+++
T Consensus        79 ~-----------------ii~~~~~~~~~g~~~vL~IDEi~~l~~~~q~~LL~~le~---~~iilI  124 (413)
T PRK13342         79 E-----------------VIEEARQRRSAGRRTILFIDEIHRFNKAQQDALLPHVED---GTITLI  124 (413)
T ss_pred             H-----------------HHHHHHHhhhcCCceEEEEechhhhCHHHHHHHHHHhhc---CcEEEE
Confidence            2                 222222211 46788999999987654445556555543   444444

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

Probab=98.37  E-value=2.8e-06  Score=76.38  Aligned_cols=142  Identities=17%  Similarity=0.089  Sum_probs=93.6

Q ss_pred             cccccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHH
Q 048765          167 DEEEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKA  246 (314)
Q Consensus       167 ~~~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~  246 (314)
                      .+..++||+.+++.+.+|+...-+  .....-+.|.|-+|.|||.+...++.+..-...=-+++++++..-.....++..
T Consensus       148 ~p~~l~gRe~e~~~v~~F~~~hle--~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~~~~aiF~k  225 (529)
T KOG2227|consen  148 PPGTLKGRELEMDIVREFFSLHLE--LNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLTEASAIFKK  225 (529)
T ss_pred             CCCCccchHHHHHHHHHHHHhhhh--cccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeeccccchHHHHHH
Confidence            446799999999999999876433  356778899999999999999999885432222135688888776677888888


Q ss_pred             HHHHhc-CCCCCCCcHHHHHHHHHHHccC--ceEEEEEeccccCCccCHHhHHHhhcc-CCCCceEEEe
Q 048765          247 MVEALD-GHESHLGEFQSLLRHIYESIAG--KSFLLVLDDVWDGNYVKWEPFYHCLKN-GLHGSKILVT  311 (314)
Q Consensus       247 i~~~~~-~~~~~~~~~~~~~~~l~~~L~~--kr~LlVlDdv~~~~~~~~~~l~~~l~~-~~~gs~iivT  311 (314)
                      |...+- .......+ .+....+..+..+  ..+|+|+|..+......-..|...|.+ ..++|++|+.
T Consensus       226 I~~~~~q~~~s~~~~-~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~~~vLy~lFewp~lp~sr~iLi  293 (529)
T KOG2227|consen  226 IFSSLLQDLVSPGTG-MQHLEKFEKHTKQSKFMLLLVLDEMDHLITRSQTVLYTLFEWPKLPNSRIILI  293 (529)
T ss_pred             HHHHHHHHhcCCchh-HHHHHHHHHHHhcccceEEEEechhhHHhhcccceeeeehhcccCCcceeeee
Confidence            888772 21111222 4455666666633  369999999976432222334444432 2456666653

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.36  E-value=3.5e-06  Score=79.34  Aligned_cols=121  Identities=20%  Similarity=0.246  Sum_probs=75.7

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhh-------------------hhcCcee
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEV-------------------IRKFDKI  229 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~-------------------~~~F~~~  229 (314)
                      .+++|.+..+..|...+....     -...+.++|+.|+||||+|+.++....-                   ...|.-.
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            468999999988888886532     2355778999999999999998762110                   0011122


Q ss_pred             EEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHH-ccCceEEEEEeccccCCccCHHhHHHhhccCCCCceE
Q 048765          230 LWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYES-IAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKI  308 (314)
Q Consensus       230 ~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~-L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~i  308 (314)
                      ++++.......                  .+.+.+.+.+... ..+++-++|||++...+...++.|...+......+.+
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                  1223333333221 2466779999999877666788888888876667767


Q ss_pred             EEec
Q 048765          309 LVTT  312 (314)
Q Consensus       309 ivTt  312 (314)
                      |++|
T Consensus       153 IL~T  156 (546)
T PRK14957        153 ILAT  156 (546)
T ss_pred             EEEE
Confidence            6655

>PLN03025 replication factor C subunit; Provisional

Probab=98.36  E-value=4.2e-06  Score=74.46  Aligned_cols=123  Identities=12%  Similarity=0.099  Sum_probs=70.1

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCc-eeEEEEcCccccHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFD-KILWVCVSETFEEFRVAKAM  247 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~-~~~wv~~~~~~~~~~~~~~i  247 (314)
                      .+++|.+..+..|..++...      +...+.++|++|+||||+|+.+++... ...|. .++-++.+...+.. ..+.+
T Consensus        13 ~~~~g~~~~~~~L~~~~~~~------~~~~lll~Gp~G~GKTtla~~la~~l~-~~~~~~~~~eln~sd~~~~~-~vr~~   84 (319)
T PLN03025         13 DDIVGNEDAVSRLQVIARDG------NMPNLILSGPPGTGKTTSILALAHELL-GPNYKEAVLELNASDDRGID-VVRNK   84 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhcC------CCceEEEECCCCCCHHHHHHHHHHHHh-cccCccceeeecccccccHH-HHHHH
Confidence            46888888888887776542      234577999999999999999877321 12222 12222333322222 22222


Q ss_pred             HHHhcCCCCCCCcHHHHHHHHHHHccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEec
Q 048765          248 VEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTT  312 (314)
Q Consensus       248 ~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTt  312 (314)
                      +..+......             .-.++.-+++||++..........|...+......+++|+++
T Consensus        85 i~~~~~~~~~-------------~~~~~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~  136 (319)
T PLN03025         85 IKMFAQKKVT-------------LPPGRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALAC  136 (319)
T ss_pred             HHHHHhcccc-------------CCCCCeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEe
Confidence            2222110000             002456799999998765555566766665444566777765

>PRK04195 replication factor C large subunit; Provisional

Probab=98.35  E-value=3.8e-06  Score=78.96  Aligned_cols=120  Identities=18%  Similarity=0.186  Sum_probs=72.9

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMV  248 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  248 (314)
                      ++++|.+...+.|..|+.....+  ...+.+.|+|++|+||||+|+.+++...    |+ .+-++.+...+.. .+..++
T Consensus        14 ~dlvg~~~~~~~l~~~l~~~~~g--~~~~~lLL~GppG~GKTtla~ala~el~----~~-~ielnasd~r~~~-~i~~~i   85 (482)
T PRK04195         14 SDVVGNEKAKEQLREWIESWLKG--KPKKALLLYGPPGVGKTSLAHALANDYG----WE-VIELNASDQRTAD-VIERVA   85 (482)
T ss_pred             HHhcCCHHHHHHHHHHHHHHhcC--CCCCeEEEECCCCCCHHHHHHHHHHHcC----CC-EEEEcccccccHH-HHHHHH
Confidence            56999999999999998754321  2367889999999999999999987431    22 3334555433222 223333


Q ss_pred             HHhcCCCCCCCcHHHHHHHHHHHccCceEEEEEeccccCCc----cCHHhHHHhhccCCCCceEEEec
Q 048765          249 EALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNY----VKWEPFYHCLKNGLHGSKILVTT  312 (314)
Q Consensus       249 ~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~----~~~~~l~~~l~~~~~gs~iivTt  312 (314)
                      .......              .....++-+||||+++....    ..+..|...+..  .+..||+|+
T Consensus        86 ~~~~~~~--------------sl~~~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~~--~~~~iIli~  137 (482)
T PRK04195         86 GEAATSG--------------SLFGARRKLILLDEVDGIHGNEDRGGARAILELIKK--AKQPIILTA  137 (482)
T ss_pred             HHhhccC--------------cccCCCCeEEEEecCcccccccchhHHHHHHHHHHc--CCCCEEEec
Confidence            2221110              01113678999999976432    235566666653  234466665

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=98.32  E-value=6.4e-06  Score=79.35  Aligned_cols=136  Identities=19%  Similarity=0.217  Sum_probs=83.3

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcC---ceeEEEEc--Cc-cccHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKF---DKILWVCV--SE-TFEEFR  242 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F---~~~~wv~~--~~-~~~~~~  242 (314)
                      +.++|++..+..+.+.+...      ....+.|+|++|+||||||+.+++.......+   ...-|+.+  .. ..+...
T Consensus       154 ~~iiGqs~~~~~l~~~ia~~------~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~~~~l~~d~~~  227 (615)
T TIGR02903       154 SEIVGQERAIKALLAKVASP------FPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVDGTTLRWDPRE  227 (615)
T ss_pred             HhceeCcHHHHHHHHHHhcC------CCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEEechhccCCHHH
Confidence            45889998888888777432      34578999999999999999998754332222   12234433  21 112222


Q ss_pred             HHHH---------------HHHHhcCCC----------------CCCCcH-HHHHHHHHHHccCceEEEEEeccccCCcc
Q 048765          243 VAKA---------------MVEALDGHE----------------SHLGEF-QSLLRHIYESIAGKSFLLVLDDVWDGNYV  290 (314)
Q Consensus       243 ~~~~---------------i~~~~~~~~----------------~~~~~~-~~~~~~l~~~L~~kr~LlVlDdv~~~~~~  290 (314)
                      +...               .+...+...                .+...+ ...+..+...++.++++++-|+.|..+..
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            1111               111111100                011122 24567888888999999998888877767


Q ss_pred             CHHhHHHhhccCCCCceEEE
Q 048765          291 KWEPFYHCLKNGLHGSKILV  310 (314)
Q Consensus       291 ~~~~l~~~l~~~~~gs~iiv  310 (314)
                      .|+.+...+....+...|++
T Consensus       308 ~~~~ik~~~~~~~~~~~VLI  327 (615)
T TIGR02903       308 VPKYIKKLFEEGAPADFVLI  327 (615)
T ss_pred             cchhhhhhcccCccceEEEE
Confidence            78888877776665655555

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.

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.32  E-value=4.4e-06  Score=79.34  Aligned_cols=133  Identities=20%  Similarity=0.192  Sum_probs=75.6

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMV  248 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  248 (314)
                      ++++|.+.....|..++....     -...+.++|+.|+||||+|+.+++...      |.-++... +++.=...+.+.
T Consensus        15 ddVIGQe~vv~~L~~aI~~gr-----l~HAyLF~GPpGvGKTTlAriLAK~Ln------C~~~~~~~-pCg~C~sC~~I~   82 (702)
T PRK14960         15 NELVGQNHVSRALSSALERGR-----LHHAYLFTGTRGVGKTTIARILAKCLN------CETGVTST-PCEVCATCKAVN   82 (702)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhC------CCcCCCCC-CCccCHHHHHHh
Confidence            569999999999999887532     246778999999999999998866321      11111100 000000000010


Q ss_pred             HHhcC-----C---CCCCCcHHHHHHHHHHH-ccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEecc
Q 048765          249 EALDG-----H---ESHLGEFQSLLRHIYES-IAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTR  313 (314)
Q Consensus       249 ~~~~~-----~---~~~~~~~~~~~~~l~~~-L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR  313 (314)
                      ..-..     .   .....+++++...+... ..++.-++|||++...+....+.|...+.....+.++|++|.
T Consensus        83 ~g~hpDviEIDAAs~~~VddIReli~~~~y~P~~gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FILaTt  156 (702)
T PRK14960         83 EGRFIDLIEIDAASRTKVEDTRELLDNVPYAPTQGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATT  156 (702)
T ss_pred             cCCCCceEEecccccCCHHHHHHHHHHHhhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEEEEC
Confidence            00000     0   00111222233222211 245677999999987765677788888876666777887764

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

Probab=98.32  E-value=1.5e-06  Score=75.79  Aligned_cols=95  Identities=21%  Similarity=0.257  Sum_probs=59.2

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHcc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIA  273 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~  273 (314)
                      ..+.-+.+||++|+||||||+.+.+..+...    ..+|.+|-...-..-.+.|.++-..               ...+.
T Consensus       160 ~~ipSmIlWGppG~GKTtlArlia~tsk~~S----yrfvelSAt~a~t~dvR~ife~aq~---------------~~~l~  220 (554)
T KOG2028|consen  160 NRIPSMILWGPPGTGKTTLARLIASTSKKHS----YRFVELSATNAKTNDVRDIFEQAQN---------------EKSLT  220 (554)
T ss_pred             CCCCceEEecCCCCchHHHHHHHHhhcCCCc----eEEEEEeccccchHHHHHHHHHHHH---------------HHhhh
Confidence            4577888999999999999999987433222    5567666543333333333333211               01246


Q ss_pred             CceEEEEEeccccCCccCHHhHHHhhccCCCCceEEE
Q 048765          274 GKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILV  310 (314)
Q Consensus       274 ~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiv  310 (314)
                      ++|.+|++|.|...+...-+   .+||.-.+|+-++|
T Consensus       221 krkTilFiDEiHRFNksQQD---~fLP~VE~G~I~lI  254 (554)
T KOG2028|consen  221 KRKTILFIDEIHRFNKSQQD---TFLPHVENGDITLI  254 (554)
T ss_pred             cceeEEEeHHhhhhhhhhhh---cccceeccCceEEE
Confidence            78999999999766533322   24666667874444

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=98.31  E-value=5e-06  Score=73.88  Aligned_cols=118  Identities=16%  Similarity=0.183  Sum_probs=70.8

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMV  248 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  248 (314)
                      .+++|.+...+.+..++...     ....++.++|++|+|||++|+.+++.  ...   ....++.+. ... ...+..+
T Consensus        21 ~~~~~~~~~~~~l~~~~~~~-----~~~~~lll~G~~G~GKT~la~~l~~~--~~~---~~~~i~~~~-~~~-~~i~~~l   88 (316)
T PHA02544         21 DECILPAADKETFKSIVKKG-----RIPNMLLHSPSPGTGKTTVAKALCNE--VGA---EVLFVNGSD-CRI-DFVRNRL   88 (316)
T ss_pred             HHhcCcHHHHHHHHHHHhcC-----CCCeEEEeeCcCCCCHHHHHHHHHHH--hCc---cceEeccCc-ccH-HHHHHHH
Confidence            56899999999999888642     23567778999999999999999773  221   233445444 221 1111211


Q ss_pred             HHhcCCCCCCCcHHHHHHHHHHHccCceEEEEEeccccC-CccCHHhHHHhhccCCCCceEEEecc
Q 048765          249 EALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDG-NYVKWEPFYHCLKNGLHGSKILVTTR  313 (314)
Q Consensus       249 ~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~-~~~~~~~l~~~l~~~~~gs~iivTtR  313 (314)
                      ..+...             .  .+.+.+-+||||++... .......|...+.....++++|+||.
T Consensus        89 ~~~~~~-------------~--~~~~~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n  139 (316)
T PHA02544         89 TRFAST-------------V--SLTGGGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITAN  139 (316)
T ss_pred             HHHHHh-------------h--cccCCCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcC
Confidence            111000             0  01234568999999755 22223445555655556778888874

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.30  E-value=7.4e-07  Score=83.51  Aligned_cols=135  Identities=20%  Similarity=0.219  Sum_probs=73.5

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHH--
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKA--  246 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~--  246 (314)
                      .+++|.+...+.|..++....     -...+.++|++|+||||+|+.++....-.+.+...+|.+-+-    ..+...  
T Consensus        14 ~dvvGq~~v~~~L~~~i~~~~-----l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc----~~i~~~~h   84 (504)
T PRK14963         14 DEVVGQEHVKEVLLAALRQGR-----LGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESC----LAVRRGAH   84 (504)
T ss_pred             HHhcChHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhh----HHHhcCCC
Confidence            468998888888888876532     245678999999999999999877432112222222222110    000000  


Q ss_pred             -HHHHhcCC-CCCCCcHHHHHHHHHH-HccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEec
Q 048765          247 -MVEALDGH-ESHLGEFQSLLRHIYE-SIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTT  312 (314)
Q Consensus       247 -i~~~~~~~-~~~~~~~~~~~~~l~~-~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTt  312 (314)
                       -...+... .....+.+++...+.. -+.+++-++|||+++......++.|...+........+|++|
T Consensus        85 ~dv~el~~~~~~~vd~iR~l~~~~~~~p~~~~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t  153 (504)
T PRK14963         85 PDVLEIDAASNNSVEDVRDLREKVLLAPLRGGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILAT  153 (504)
T ss_pred             CceEEecccccCCHHHHHHHHHHHhhccccCCCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEc
Confidence             00000000 0011122222222221 123567799999998765556788888887654555555555

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=98.30  E-value=9.4e-06  Score=72.13  Aligned_cols=122  Identities=14%  Similarity=0.100  Sum_probs=69.4

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCc-eeEEEEcCccccHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFD-KILWVCVSETFEEFRVAKAM  247 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~-~~~wv~~~~~~~~~~~~~~i  247 (314)
                      .+++|++..++.+..++...      ..+.+.++|++|+||||+++.+++... ...+. ..+-++.+...... .....
T Consensus        17 ~~~~g~~~~~~~l~~~i~~~------~~~~~ll~G~~G~GKt~~~~~l~~~l~-~~~~~~~~i~~~~~~~~~~~-~~~~~   88 (319)
T PRK00440         17 DEIVGQEEIVERLKSYVKEK------NMPHLLFAGPPGTGKTTAALALARELY-GEDWRENFLELNASDERGID-VIRNK   88 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhCC------CCCeEEEECCCCCCHHHHHHHHHHHHc-CCccccceEEeccccccchH-HHHHH
Confidence            45889999999999888643      234579999999999999999977321 11121 11112222222221 11111


Q ss_pred             HHHhcCCCCCCCcHHHHHHHHHHHccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEec
Q 048765          248 VEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTT  312 (314)
Q Consensus       248 ~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTt  312 (314)
                      +..+....+              .....+-+|++|++..........|...+......+++|+++
T Consensus        89 i~~~~~~~~--------------~~~~~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~  139 (319)
T PRK00440         89 IKEFARTAP--------------VGGAPFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSC  139 (319)
T ss_pred             HHHHHhcCC--------------CCCCCceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEe
Confidence            111111000              001345689999987654344556777776555556777765

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.28  E-value=5.8e-06  Score=80.89  Aligned_cols=122  Identities=20%  Similarity=0.263  Sum_probs=75.4

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhc-------------------Ccee
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRK-------------------FDKI  229 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~-------------------F~~~  229 (314)
                      .+++|.+.-+..|.+++....     -...+.++|+.|+||||+|+.++....-...                   |.-+
T Consensus        16 ddIIGQe~Iv~~LknaI~~~r-----l~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~sC~~i~~g~~~Dv   90 (944)
T PRK14949         16 EQMVGQSHVLHALTNALTQQR-----LHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCSSCVEIAQGRFVDL   90 (944)
T ss_pred             HHhcCcHHHHHHHHHHHHhCC-----CCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCchHHHHHhcCCCceE
Confidence            468999998988888886532     2345579999999999999998763211000                   0001


Q ss_pred             EEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHH-ccCceEEEEEeccccCCccCHHhHHHhhccCCCCceE
Q 048765          230 LWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYES-IAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKI  308 (314)
Q Consensus       230 ~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~-L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~i  308 (314)
                      ++++....                  ....+++.+...+... ..+++-++|||++........+.|+..+..-....++
T Consensus        91 iEidAas~------------------~kVDdIReLie~v~~~P~~gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrF  152 (944)
T PRK14949         91 IEVDAASR------------------TKVDDTRELLDNVQYRPSRGRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKF  152 (944)
T ss_pred             EEeccccc------------------cCHHHHHHHHHHHHhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhccCCCeEE
Confidence            11111100                  1112233333333221 2467789999999887766788888888765566777


Q ss_pred             EEecc
Q 048765          309 LVTTR  313 (314)
Q Consensus       309 ivTtR  313 (314)
                      |++|.
T Consensus       153 ILaTT  157 (944)
T PRK14949        153 LLATT  157 (944)
T ss_pred             EEECC
Confidence            77663

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.27  E-value=8.4e-06  Score=77.32  Aligned_cols=122  Identities=18%  Similarity=0.223  Sum_probs=75.2

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhh------------------------h
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVI------------------------R  224 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~------------------------~  224 (314)
                      .+++|.+.-++.|.+++....     -...+.++|..|+||||+|+.+....--.                        +
T Consensus        16 ddVIGQe~vv~~L~~al~~gR-----LpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~~~PCG~C~sC~~I~aG   90 (700)
T PRK12323         16 TTLVGQEHVVRALTHALEQQR-----LHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGITAQPCGQCRACTEIDAG   90 (700)
T ss_pred             HHHcCcHHHHHHHHHHHHhCC-----CceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCCCCCCcccHHHHHHHcC
Confidence            469999999999999887543     24566889999999999998886522100                        0


Q ss_pred             cCceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHH-ccCceEEEEEeccccCCccCHHhHHHhhccCC
Q 048765          225 KFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYES-IAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGL  303 (314)
Q Consensus       225 ~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~-L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~  303 (314)
                      .|.-.++++.+....                  .++++++.+.+... ..++.-++|||++...+...++.|+..|..-.
T Consensus        91 ~hpDviEIdAas~~g------------------VDdIReLie~~~~~P~~gr~KViIIDEah~Ls~~AaNALLKTLEEPP  152 (700)
T PRK12323         91 RFVDYIEMDAASNRG------------------VDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLTNHAFNAMLKTLEEPP  152 (700)
T ss_pred             CCCcceEecccccCC------------------HHHHHHHHHHHHhchhcCCceEEEEEChHhcCHHHHHHHHHhhccCC
Confidence            000111221111111                  12223333322211 24567799999999887677888888887655


Q ss_pred             CCceEEEecc
Q 048765          304 HGSKILVTTR  313 (314)
Q Consensus       304 ~gs~iivTtR  313 (314)
                      .+.++|++|.
T Consensus       153 ~~v~FILaTt  162 (700)
T PRK12323        153 EHVKFILATT  162 (700)
T ss_pred             CCceEEEEeC
Confidence            5667666664

>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=98.27  E-value=6.7e-06  Score=62.88  Aligned_cols=95  Identities=20%  Similarity=0.107  Sum_probs=51.2

Q ss_pred             EEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHccC-ceE
Q 048765          199 ISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAG-KSF  277 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~-kr~  277 (314)
                      |.|+|++|+|||++|+.+++..  ..   ..+.++.+...+.               ........+...+.+.-.. ++.
T Consensus         1 ill~G~~G~GKT~l~~~la~~l--~~---~~~~i~~~~~~~~---------------~~~~~~~~i~~~~~~~~~~~~~~   60 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYL--GF---PFIEIDGSELISS---------------YAGDSEQKIRDFFKKAKKSAKPC   60 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHT--TS---EEEEEETTHHHTS---------------STTHHHHHHHHHHHHHHHTSTSE
T ss_pred             CEEECcCCCCeeHHHHHHHhhc--cc---ccccccccccccc---------------cccccccccccccccccccccce
Confidence            5689999999999999998843  21   2355554432210               0011111222222222122 479


Q ss_pred             EEEEeccccCCccC-----------HHhHHHhhccCC---CCceEEEecc
Q 048765          278 LLVLDDVWDGNYVK-----------WEPFYHCLKNGL---HGSKILVTTR  313 (314)
Q Consensus       278 LlVlDdv~~~~~~~-----------~~~l~~~l~~~~---~gs~iivTtR  313 (314)
                      +|+|||+.......           ...+...+....   ++..||.||.
T Consensus        61 vl~iDe~d~l~~~~~~~~~~~~~~~~~~L~~~l~~~~~~~~~~~vI~ttn  110 (132)
T PF00004_consen   61 VLFIDEIDKLFPKSQPSSSSFEQRLLNQLLSLLDNPSSKNSRVIVIATTN  110 (132)
T ss_dssp             EEEEETGGGTSHHCSTSSSHHHHHHHHHHHHHHHTTTTTSSSEEEEEEES
T ss_pred             eeeeccchhcccccccccccccccccceeeecccccccccccceeEEeeC
Confidence            99999997653333           344555554332   2345555553

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 ....

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

Probab=98.23  E-value=9.3e-06  Score=71.35  Aligned_cols=112  Identities=19%  Similarity=0.194  Sum_probs=81.5

Q ss_pred             ccccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHH
Q 048765          168 EEEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAM  247 (314)
Q Consensus       168 ~~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i  247 (314)
                      ++.+.+|+.++..+...+...++   .-+.++.|+|-.|+|||.+++.+++..  .   -.-+|+++-+.++...++..|
T Consensus         5 ~~~v~~Re~qi~~L~~Llg~~~~---~~PS~~~iyG~sgTGKT~~~r~~l~~~--n---~~~vw~n~~ecft~~~lle~I   76 (438)
T KOG2543|consen    5 EPNVPCRESQIRRLKSLLGNNSC---TIPSIVHIYGHSGTGKTYLVRQLLRKL--N---LENVWLNCVECFTYAILLEKI   76 (438)
T ss_pred             ccCccchHHHHHHHHHHhCCCCc---ccceeEEEeccCCCchhHHHHHHHhhc--C---CcceeeehHHhccHHHHHHHH
Confidence            46788999999999998876552   345666899999999999999998844  2   235899999999999999999


Q ss_pred             HHHhcCCCCCC-------CcHHHHHHHHHH--Hc--cCceEEEEEeccccC
Q 048765          248 VEALDGHESHL-------GEFQSLLRHIYE--SI--AGKSFLLVLDDVWDG  287 (314)
Q Consensus       248 ~~~~~~~~~~~-------~~~~~~~~~l~~--~L--~~kr~LlVlDdv~~~  287 (314)
                      +......+.+.       .+..+.+..+.+  ..  .++.++||||++...
T Consensus        77 L~~~~~~d~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~l  127 (438)
T KOG2543|consen   77 LNKSQLADKDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADAL  127 (438)
T ss_pred             HHHhccCCCchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHhh
Confidence            99985322211       122233333333  12  256899999999654

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.22  E-value=1.2e-05  Score=75.58  Aligned_cols=121  Identities=18%  Similarity=0.227  Sum_probs=75.3

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhh-------------------cCcee
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIR-------------------KFDKI  229 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~-------------------~F~~~  229 (314)
                      ++++|.+.-+..|..++....     -...+.++|+.|+||||+|+.+....--..                   .|.-+
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 QEVIGQAPVVRALSNALDQQY-----LHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENCREIDEGRFPDL   90 (509)
T ss_pred             HHhcCCHHHHHHHHHHHHhCC-----CCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHHHHhcCCCceE
Confidence            469999999999999986532     234678999999999999988865221000                   11112


Q ss_pred             EEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHH-ccCceEEEEEeccccCCccCHHhHHHhhccCCCCceE
Q 048765          230 LWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYES-IAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKI  308 (314)
Q Consensus       230 ~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~-L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~i  308 (314)
                      +.++.+.....+                  +.+++.+.+... ..++.-++|||++........+.|...+......+++
T Consensus        91 ~eidaas~~~v~------------------~iR~l~~~~~~~p~~~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~f  152 (509)
T PRK14958         91 FEVDAASRTKVE------------------DTRELLDNIPYAPTKGRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKF  152 (509)
T ss_pred             EEEcccccCCHH------------------HHHHHHHHHhhccccCCcEEEEEEChHhcCHHHHHHHHHHHhccCCCeEE
Confidence            222222222222                  222222222211 1456679999999887666778888888776667777


Q ss_pred             EEec
Q 048765          309 LVTT  312 (314)
Q Consensus       309 ivTt  312 (314)
                      |++|
T Consensus       153 Ilat  156 (509)
T PRK14958        153 ILAT  156 (509)
T ss_pred             EEEE
Confidence            7765

>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=98.22  E-value=4.1e-06  Score=69.11  Aligned_cols=55  Identities=29%  Similarity=0.398  Sum_probs=34.6

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcC
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKF  226 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F  226 (314)
                      .+|+|.+.-+..+.-++.... .....+..+.+||++|+||||||+-+.+  +....|
T Consensus        24 ~efiGQ~~l~~~l~i~i~aa~-~r~~~l~h~lf~GPPG~GKTTLA~IIA~--e~~~~~   78 (233)
T PF05496_consen   24 DEFIGQEHLKGNLKILIRAAK-KRGEALDHMLFYGPPGLGKTTLARIIAN--ELGVNF   78 (233)
T ss_dssp             CCS-S-HHHHHHHHHHHHHHH-CTTS---EEEEESSTTSSHHHHHHHHHH--HCT--E
T ss_pred             HHccCcHHHHhhhHHHHHHHH-hcCCCcceEEEECCCccchhHHHHHHHh--ccCCCe
Confidence            579999888777655443211 1124578899999999999999999988  444444

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.

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.20  E-value=1.2e-05  Score=76.83  Aligned_cols=135  Identities=16%  Similarity=0.150  Sum_probs=72.2

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhc--CceeEEEEcCccccHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRK--FDKILWVCVSETFEEFRVAKA  246 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~--F~~~~wv~~~~~~~~~~~~~~  246 (314)
                      ++++|.+.-+..|..++....     -...+.++|+.|+||||+|+.+....--...  ......-.|....+.    +.
T Consensus        16 ~dviGQe~vv~~L~~~l~~~r-----l~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~~pCg~C~~C----~~   86 (618)
T PRK14951         16 SEMVGQEHVVQALTNALTQQR-----LHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITATPCGVCQAC----RD   86 (618)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCCCCCCccHHH----HH
Confidence            468998888888888887543     2456789999999999999988542110000  000000001111011    11


Q ss_pred             HHHHhc-----CCC---CCCCcHHHHHHHHHHH-ccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEec
Q 048765          247 MVEALD-----GHE---SHLGEFQSLLRHIYES-IAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTT  312 (314)
Q Consensus       247 i~~~~~-----~~~---~~~~~~~~~~~~l~~~-L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTt  312 (314)
                      |...-.     ...   ....+.+++.+.+... ..++.-++|||++...+...++.|...+.......++|++|
T Consensus        87 i~~g~h~D~~eldaas~~~Vd~iReli~~~~~~p~~g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~T  161 (618)
T PRK14951         87 IDSGRFVDYTELDAASNRGVDEVQQLLEQAVYKPVQGRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLAT  161 (618)
T ss_pred             HHcCCCCceeecCcccccCHHHHHHHHHHHHhCcccCCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEE
Confidence            100000     000   0011122222221111 13456689999998877667888888887666666676665

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=98.20  E-value=3.6e-06  Score=74.39  Aligned_cols=50  Identities=30%  Similarity=0.396  Sum_probs=38.7

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .+|+|++..++.|..++...... ......+.++|++|+|||+||+.+++.
T Consensus         4 ~~~iG~~~~~~~l~~~l~~~~~~-~~~~~~~ll~Gp~G~GKT~la~~ia~~   53 (305)
T TIGR00635         4 AEFIGQEKVKEQLQLFIEAAKMR-QEALDHLLLYGPPGLGKTTLAHIIANE   53 (305)
T ss_pred             HHHcCHHHHHHHHHHHHHHHHhc-CCCCCeEEEECCCCCCHHHHHHHHHHH
Confidence            46999999999998888632211 133556789999999999999999873

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.

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

Probab=98.20  E-value=1.6e-05  Score=66.54  Aligned_cols=121  Identities=20%  Similarity=0.251  Sum_probs=72.4

Q ss_pred             ccccccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHH
Q 048765          166 IDEEEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAK  245 (314)
Q Consensus       166 ~~~~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~  245 (314)
                      ...+.++|.+.+.+.|++--..=-  .+.....+.++|..|+|||+|++.+.+...-++    .--|.+.+         
T Consensus        24 ~~l~~L~Gie~Qk~~l~~Nt~~Fl--~G~pannvLL~G~rGtGKSSlVkall~~y~~~G----LRlIev~k---------   88 (249)
T PF05673_consen   24 IRLDDLIGIERQKEALIENTEQFL--QGLPANNVLLWGARGTGKSSLVKALLNEYADQG----LRLIEVSK---------   88 (249)
T ss_pred             CCHHHhcCHHHHHHHHHHHHHHHH--cCCCCcceEEecCCCCCHHHHHHHHHHHHhhcC----ceEEEECH---------
Confidence            444679999998888776532211  124467788999999999999999987322211    11222222         


Q ss_pred             HHHHHhcCCCCCCCcHHHHHHHHHHHccCceEEEEEecccc-CCccCHHhHHHhhccC---CCCceEEEecc
Q 048765          246 AMVEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWD-GNYVKWEPFYHCLKNG---LHGSKILVTTR  313 (314)
Q Consensus       246 ~i~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~-~~~~~~~~l~~~l~~~---~~gs~iivTtR  313 (314)
                                ....++..+.+.++.  ...||+|++||+.= .....+..|+..|.-+   .+..-+|..|-
T Consensus        89 ----------~~L~~l~~l~~~l~~--~~~kFIlf~DDLsFe~~d~~yk~LKs~LeGgle~~P~NvliyATS  148 (249)
T PF05673_consen   89 ----------EDLGDLPELLDLLRD--RPYKFILFCDDLSFEEGDTEYKALKSVLEGGLEARPDNVLIYATS  148 (249)
T ss_pred             ----------HHhccHHHHHHHHhc--CCCCEEEEecCCCCCCCcHHHHHHHHHhcCccccCCCcEEEEEec
Confidence                      112333444444442  45799999999952 2234577788777632   34444454443

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

Probab=98.19  E-value=4.9e-06  Score=81.09  Aligned_cols=109  Identities=21%  Similarity=0.285  Sum_probs=62.1

Q ss_pred             cccccchhhHH---HHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHH
Q 048765          169 EEICGRVGEKN---ELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAK  245 (314)
Q Consensus       169 ~~~vgr~~~~~---~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~  245 (314)
                      ++++|.+..+.   .|...+..      .....+.++|++|+||||||+.+++  ....+|.   .++.+. ...     
T Consensus        28 dd~vGQe~ii~~~~~L~~~i~~------~~~~slLL~GPpGtGKTTLA~aIA~--~~~~~f~---~lna~~-~~i-----   90 (725)
T PRK13341         28 EEFVGQDHILGEGRLLRRAIKA------DRVGSLILYGPPGVGKTTLARIIAN--HTRAHFS---SLNAVL-AGV-----   90 (725)
T ss_pred             HHhcCcHHHhhhhHHHHHHHhc------CCCceEEEECCCCCCHHHHHHHHHH--HhcCcce---eehhhh-hhh-----
Confidence            46888877663   45555543      2355678999999999999999987  3334441   111110 000     


Q ss_pred             HHHHHhcCCCCCCCcHHHHHHHHHHHc--cCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEE
Q 048765          246 AMVEALDGHESHLGEFQSLLRHIYESI--AGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILV  310 (314)
Q Consensus       246 ~i~~~~~~~~~~~~~~~~~~~~l~~~L--~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiv  310 (314)
                                   .+...........+  .+++.+|||||++..+...++.|...+.   .|+.+++
T Consensus        91 -------------~dir~~i~~a~~~l~~~~~~~IL~IDEIh~Ln~~qQdaLL~~lE---~g~IiLI  141 (725)
T PRK13341         91 -------------KDLRAEVDRAKERLERHGKRTILFIDEVHRFNKAQQDALLPWVE---NGTITLI  141 (725)
T ss_pred             -------------HHHHHHHHHHHHHhhhcCCceEEEEeChhhCCHHHHHHHHHHhc---CceEEEE
Confidence                         11122222222222  2467899999998765445556655443   3554554

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=98.18  E-value=1.1e-05  Score=61.93  Aligned_cols=88  Identities=23%  Similarity=0.204  Sum_probs=47.4

Q ss_pred             EEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHccCc-
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGK-  275 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~k-  275 (314)
                      ..+.|+|++|+||||+++.++..  .......+++++.+........... ...... .............+.+..+.. 
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~--~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~-~~~~~~~~~~~~~~~~~~~~~~   78 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARE--LGPPGGGVIYIDGEDILEEVLDQLL-LIIVGG-KKASGSGELRLRLALALARKLK   78 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhc--cCCCCCCEEEECCEEccccCHHHHH-hhhhhc-cCCCCCHHHHHHHHHHHHHhcC
Confidence            57889999999999999999773  2222224666665543322221111 001111 111112222233444444433 


Q ss_pred             eEEEEEeccccCC
Q 048765          276 SFLLVLDDVWDGN  288 (314)
Q Consensus       276 r~LlVlDdv~~~~  288 (314)
                      ..+|++|++....
T Consensus        79 ~~viiiDei~~~~   91 (148)
T smart00382       79 PDVLILDEITSLL   91 (148)
T ss_pred             CCEEEEECCcccC
Confidence            4999999997763

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.

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.18  E-value=2e-05  Score=74.52  Aligned_cols=121  Identities=19%  Similarity=0.244  Sum_probs=72.6

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhh-------------------cCcee
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIR-------------------KFDKI  229 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~-------------------~F~~~  229 (314)
                      ++++|.+.-+..|..++....     -...+.++|+.|+||||+|+.+....--..                   .|.-.
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 SELVGQEHVVRALTNALEQQR-----LHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSACLEIDSGRFVDL   90 (527)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCce
Confidence            468999998888888886532     234567999999999999998865221000                   01111


Q ss_pred             EEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHH-HccCceEEEEEeccccCCccCHHhHHHhhccCCCCceE
Q 048765          230 LWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYE-SIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKI  308 (314)
Q Consensus       230 ~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~-~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~i  308 (314)
                      ++++.+.....                  .+++++...+.. -..+++-++|||++........+.|...+......+.+
T Consensus        91 ~ei~~~~~~~v------------------d~ir~l~~~~~~~p~~~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~f  152 (527)
T PRK14969         91 IEVDAASNTQV------------------DAMRELLDNAQYAPTRGRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKF  152 (527)
T ss_pred             eEeeccccCCH------------------HHHHHHHHHHhhCcccCCceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEE
Confidence            22222111111                  112222222211 12456779999999877655677888888766566667


Q ss_pred             EEec
Q 048765          309 LVTT  312 (314)
Q Consensus       309 ivTt  312 (314)
                      |++|
T Consensus       153 IL~t  156 (527)
T PRK14969        153 ILAT  156 (527)
T ss_pred             EEEe
Confidence            6665

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

Probab=98.17  E-value=2.1e-05  Score=67.90  Aligned_cols=115  Identities=17%  Similarity=0.149  Sum_probs=79.4

Q ss_pred             cccccc---hhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhh----cCceeEEEEcCccccHH
Q 048765          169 EEICGR---VGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIR----KFDKILWVCVSETFEEF  241 (314)
Q Consensus       169 ~~~vgr---~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~----~F~~~~wv~~~~~~~~~  241 (314)
                      +..+|.   .+-++.|.+.|.....   .....+.|||..|.|||++++++....-...    .--+++.|.+...++..
T Consensus        34 ~rWIgY~~A~~~L~~L~~Ll~~P~~---~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~  110 (302)
T PF05621_consen   34 DRWIGYPRAKEALDRLEELLEYPKR---HRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDER  110 (302)
T ss_pred             CCeecCHHHHHHHHHHHHHHhCCcc---cCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChH
Confidence            446664   3345566666654432   5667899999999999999999976432111    11257888899999999


Q ss_pred             HHHHHHHHHhcCCCCCCCcHHHHHHHHHHHcc-CceEEEEEecccc
Q 048765          242 RVAKAMVEALDGHESHLGEFQSLLRHIYESIA-GKSFLLVLDDVWD  286 (314)
Q Consensus       242 ~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~-~kr~LlVlDdv~~  286 (314)
                      .+...|+.+++...........+...+...|+ -+--+||||++.+
T Consensus       111 ~~Y~~IL~~lgaP~~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~  156 (302)
T PF05621_consen  111 RFYSAILEALGAPYRPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHN  156 (302)
T ss_pred             HHHHHHHHHhCcccCCCCCHHHHHHHHHHHHHHcCCcEEEeechHH
Confidence            99999999998775555555544444444442 3456899999965

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

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=98.16  E-value=2.1e-05  Score=73.67  Aligned_cols=139  Identities=13%  Similarity=0.151  Sum_probs=74.5

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCc-eeEEEEcCccccHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFD-KILWVCVSETFEEFRVAKAM  247 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~-~~~wv~~~~~~~~~~~~~~i  247 (314)
                      .+++|.+.-+..|...+....     -...+.++|+.|+||||+|+.++....-...+. .-.+..|....+...+....
T Consensus        21 ~dliGq~~vv~~L~~ai~~~r-----i~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C~~C~~C~~i~~~~   95 (507)
T PRK06645         21 AELQGQEVLVKVLSYTILNDR-----LAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEQCTNCISFNNHN   95 (507)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCCCCChHHHHHhcCC
Confidence            468999888888877665432     246788999999999999999976321110000 00000111110111100000


Q ss_pred             HH---HhcC-CCCCCCcHHHHHHHHHH-HccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEec
Q 048765          248 VE---ALDG-HESHLGEFQSLLRHIYE-SIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTT  312 (314)
Q Consensus       248 ~~---~~~~-~~~~~~~~~~~~~~l~~-~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTt  312 (314)
                      ..   .+.. ......+++++.+.... -+.+++-++|||+++......++.|...+....+.+.+|++|
T Consensus        96 h~Dv~eidaas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aT  165 (507)
T PRK06645         96 HPDIIEIDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFAT  165 (507)
T ss_pred             CCcEEEeeccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEe
Confidence            00   0000 00111222333322221 134677899999998876667888988888666666666554

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.16  E-value=2.1e-05  Score=73.19  Aligned_cols=121  Identities=16%  Similarity=0.174  Sum_probs=74.9

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHh------------------hh-hcCcee
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEE------------------VI-RKFDKI  229 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~------------------~~-~~F~~~  229 (314)
                      .+++|.+.-++.|...+....     -...+.++|+.|+||||+|+.++....                  +. ..+.-+
T Consensus        13 ~dliGQe~vv~~L~~a~~~~r-----i~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~Dv   87 (491)
T PRK14964         13 KDLVGQDVLVRILRNAFTLNK-----IPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHPDV   87 (491)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCCCE
Confidence            468998888888877775432     235788999999999999988865210                  00 011122


Q ss_pred             EEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHH-ccCceEEEEEeccccCCccCHHhHHHhhccCCCCceE
Q 048765          230 LWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYES-IAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKI  308 (314)
Q Consensus       230 ~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~-L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~i  308 (314)
                      +.++.+...+.++                  .+++.+..... +.++.-++|||++........+.|...+....+.+++
T Consensus        88 ~eidaas~~~vdd------------------IR~Iie~~~~~P~~~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~f  149 (491)
T PRK14964         88 IEIDAASNTSVDD------------------IKVILENSCYLPISSKFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKF  149 (491)
T ss_pred             EEEecccCCCHHH------------------HHHHHHHHHhccccCCceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEE
Confidence            3333333222222                  22222222111 2456778999999876656678888888876777777


Q ss_pred             EEec
Q 048765          309 LVTT  312 (314)
Q Consensus       309 ivTt  312 (314)
                      |++|
T Consensus       150 Ilat  153 (491)
T PRK14964        150 ILAT  153 (491)
T ss_pred             EEEe
Confidence            7766

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=98.16  E-value=2e-05  Score=75.48  Aligned_cols=122  Identities=17%  Similarity=0.230  Sum_probs=72.8

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhh-------------------cCcee
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIR-------------------KFDKI  229 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~-------------------~F~~~  229 (314)
                      .+++|.+..+..|..++....     -...+.++|+.|+||||+|+.+.....-..                   .|.-.
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            569999999999999987532     245788999999999999998865211000                   01001


Q ss_pred             EEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHH-ccCceEEEEEeccccCCccCHHhHHHhhccCCCCceE
Q 048765          230 LWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYES-IAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKI  308 (314)
Q Consensus       230 ~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~-L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~i  308 (314)
                      +.++.+.....                  .++++++...... ..+++-++|||++...+....+.|...+.......++
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            12221111111                  1222222222111 2356679999999776544566777777655556677


Q ss_pred             EEecc
Q 048765          309 LVTTR  313 (314)
Q Consensus       309 ivTtR  313 (314)
                      |++|.
T Consensus       153 ILaTt  157 (709)
T PRK08691        153 ILATT  157 (709)
T ss_pred             EEEeC
Confidence            77764

>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=98.15  E-value=3.1e-05  Score=64.96  Aligned_cols=125  Identities=16%  Similarity=0.255  Sum_probs=68.1

Q ss_pred             ccccc-hhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHH
Q 048765          170 EICGR-VGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMV  248 (314)
Q Consensus       170 ~~vgr-~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  248 (314)
                      .++|- ....-.....+.....   .....+.|+|..|+|||+|.+.+++...-...-..++|+      +..++...+.
T Consensus        10 fv~g~~N~~a~~~~~~ia~~~~---~~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~------~~~~f~~~~~   80 (219)
T PF00308_consen   10 FVVGESNELAYAAAKAIAENPG---ERYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYL------SAEEFIREFA   80 (219)
T ss_dssp             S--TTTTHHHHHHHHHHHHSTT---TSSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEE------EHHHHHHHHH
T ss_pred             CCcCCcHHHHHHHHHHHHhcCC---CCCCceEEECCCCCCHHHHHHHHHHHHHhccccccceee------cHHHHHHHHH
Confidence            34564 2333344444443321   345568899999999999999999843221112245565      5556666666


Q ss_pred             HHhcCCCCCCCcHHHHHHHHHHHccCceEEEEEeccccCCcc-CHHh-HHHhhcc-CCCCceEEEecc
Q 048765          249 EALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYV-KWEP-FYHCLKN-GLHGSKILVTTR  313 (314)
Q Consensus       249 ~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~-~~~~-l~~~l~~-~~~gs~iivTtR  313 (314)
                      ..+..     ...    ..+...+. .-=+|+|||+...... .|.. +...+.. ...|-+||+|+.
T Consensus        81 ~~~~~-----~~~----~~~~~~~~-~~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~  138 (219)
T PF00308_consen   81 DALRD-----GEI----EEFKDRLR-SADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSD  138 (219)
T ss_dssp             HHHHT-----TSH----HHHHHHHC-TSSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEES
T ss_pred             HHHHc-----ccc----hhhhhhhh-cCCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeC
Confidence            66643     112    23333444 3458899999764221 2332 3333331 134668999885

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.

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=98.15  E-value=1.7e-05  Score=76.05  Aligned_cols=133  Identities=18%  Similarity=0.232  Sum_probs=76.5

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMV  248 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  248 (314)
                      .+++|.+.-+..|...+....     -...+.++|+.|+||||+|+.++...--...+..   -.|...    ...+.|.
T Consensus        16 ~divGQe~vv~~L~~~l~~~r-----l~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~~~---~pCg~C----~~C~~i~   83 (647)
T PRK07994         16 AEVVGQEHVLTALANALDLGR-----LHHAYLFSGTRGVGKTTIARLLAKGLNCETGITA---TPCGEC----DNCREIE   83 (647)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHhhhhccCCCC---CCCCCC----HHHHHHH
Confidence            569999988888888886532     2345679999999999999988763211000000   001111    1111111


Q ss_pred             HH-------hcCC-CCCCCcHHHHHHHHHHH-ccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEecc
Q 048765          249 EA-------LDGH-ESHLGEFQSLLRHIYES-IAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTR  313 (314)
Q Consensus       249 ~~-------~~~~-~~~~~~~~~~~~~l~~~-L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR  313 (314)
                      ..       +... .....+++++.+.+... ..+++-++|||++...+....+.|...+..-....++|++|.
T Consensus        84 ~g~~~D~ieidaas~~~VddiR~li~~~~~~p~~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt  157 (647)
T PRK07994         84 QGRFVDLIEIDAASRTKVEDTRELLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATT  157 (647)
T ss_pred             cCCCCCceeecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecC
Confidence            10       0000 01112233333333322 256778999999988776778888888876666666776664

>PRK08727 hypothetical protein; Validated

Probab=98.14  E-value=2e-05  Score=66.81  Aligned_cols=90  Identities=20%  Similarity=0.235  Sum_probs=51.4

Q ss_pred             EEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHccCce
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGKS  276 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~kr  276 (314)
                      ..+.|+|..|+|||+|++.+++.  .......+.|+++.+      ....+..              ...    .+ .+.
T Consensus        42 ~~l~l~G~~G~GKThL~~a~~~~--~~~~~~~~~y~~~~~------~~~~~~~--------------~~~----~l-~~~   94 (233)
T PRK08727         42 DWLYLSGPAGTGKTHLALALCAA--AEQAGRSSAYLPLQA------AAGRLRD--------------ALE----AL-EGR   94 (233)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEEeHHH------hhhhHHH--------------HHH----HH-hcC
Confidence            45999999999999999999873  333344566775432      1111111              111    11 123


Q ss_pred             EEEEEeccccCC-ccCHHh-HHHhhccC-CCCceEEEecc
Q 048765          277 FLLVLDDVWDGN-YVKWEP-FYHCLKNG-LHGSKILVTTR  313 (314)
Q Consensus       277 ~LlVlDdv~~~~-~~~~~~-l~~~l~~~-~~gs~iivTtR  313 (314)
                      -+|||||+.... ...|.. +...+... .+|..||+||+
T Consensus        95 dlLiIDDi~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~  134 (233)
T PRK08727         95 SLVALDGLESIAGQREDEVALFDFHNRARAAGITLLYTAR  134 (233)
T ss_pred             CEEEEeCcccccCChHHHHHHHHHHHHHHHcCCeEEEECC
Confidence            589999996432 123433 44333221 34666999886

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.13  E-value=2.2e-05  Score=73.10  Aligned_cols=45  Identities=29%  Similarity=0.358  Sum_probs=35.2

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ++++|.+.....|...+....     -...+.++|++|+||||+|+.++.
T Consensus        14 ~divGq~~i~~~L~~~i~~~~-----l~~~~Lf~GPpGtGKTTlA~~lA~   58 (472)
T PRK14962         14 SEVVGQDHVKKLIINALKKNS-----ISHAYIFAGPRGTGKTTVARILAK   58 (472)
T ss_pred             HHccCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHH
Confidence            568998877777777765432     235678999999999999999876

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.13  E-value=2.4e-05  Score=71.64  Aligned_cols=135  Identities=15%  Similarity=0.156  Sum_probs=73.3

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEE-----EcCccccHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWV-----CVSETFEEFRV  243 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv-----~~~~~~~~~~~  243 (314)
                      .+++|.+.-...|..++....     -...+.++|+.|+||||+|+.+.....-...+....|.     .+....+..  
T Consensus        16 ~eiiGq~~~~~~L~~~~~~~~-----~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~~~c~~c~~c~--   88 (397)
T PRK14955         16 ADITAQEHITRTIQNSLRMGR-----VGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVTEPCGECESCR--   88 (397)
T ss_pred             hhccChHHHHHHHHHHHHhCC-----cceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCCCCCCCCHHHH--
Confidence            468998888888888876432     23457899999999999999886632111111101111     111111111  


Q ss_pred             HHHHHHHhcCC-----C---CCCCcHHHHHHHHHH-HccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEec
Q 048765          244 AKAMVEALDGH-----E---SHLGEFQSLLRHIYE-SIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTT  312 (314)
Q Consensus       244 ~~~i~~~~~~~-----~---~~~~~~~~~~~~l~~-~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTt  312 (314)
                        .+......+     .   ....++.++.+.+.. -..+++-++|+|++.......++.|..++....+.+.+|++|
T Consensus        89 --~~~~~~~~n~~~~~~~~~~~id~Ir~l~~~~~~~p~~~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t~~Il~t  164 (397)
T PRK14955         89 --DFDAGTSLNISEFDAASNNSVDDIRLLRENVRYGPQKGRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFAT  164 (397)
T ss_pred             --HHhcCCCCCeEeecccccCCHHHHHHHHHHHhhchhcCCeEEEEEeChhhCCHHHHHHHHHHHhcCCCCeEEEEEe
Confidence              111000000     0   001122222222211 124566789999998766557888888887666677766665

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=98.12  E-value=3.6e-05  Score=69.49  Aligned_cols=121  Identities=15%  Similarity=0.184  Sum_probs=71.2

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhh--------------------hcCce
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVI--------------------RKFDK  228 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~--------------------~~F~~  228 (314)
                      .+++|.+..++.|.+++....     -...+.++|++|+|||++|+.+.....-.                    .||+.
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            468999999999999886432     34577899999999999998886531100                    12222


Q ss_pred             eEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHH-ccCceEEEEEeccccCCccCHHhHHHhhccCCCCce
Q 048765          229 ILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYES-IAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSK  307 (314)
Q Consensus       229 ~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~-L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~  307 (314)
                       .+++.+......                  +...+.+.+... ..+++-++|+|++........+.+...+......+.
T Consensus        89 -~~~~~~~~~~~~------------------~~~~l~~~~~~~p~~~~~~vviidea~~l~~~~~~~Ll~~le~~~~~~~  149 (355)
T TIGR02397        89 -IEIDAASNNGVD------------------DIREILDNVKYAPSSGKYKVYIIDEVHMLSKSAFNALLKTLEEPPEHVV  149 (355)
T ss_pred             -EEeeccccCCHH------------------HHHHHHHHHhcCcccCCceEEEEeChhhcCHHHHHHHHHHHhCCcccee
Confidence             222221111111                  112222222111 234566899999876544456777777765555666


Q ss_pred             EEEecc
Q 048765          308 ILVTTR  313 (314)
Q Consensus       308 iivTtR  313 (314)
                      +|++|.
T Consensus       150 lIl~~~  155 (355)
T TIGR02397       150 FILATT  155 (355)
T ss_pred             EEEEeC
Confidence            666653

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=98.10  E-value=1.2e-05  Score=74.16  Aligned_cols=136  Identities=14%  Similarity=0.150  Sum_probs=75.1

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMV  248 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  248 (314)
                      .+++|.+..+..|..++....     -...+.++|+.|+||||+|+.++....-.....   ...+........+...+.
T Consensus        18 ~dvVGQe~iv~~L~~~i~~~r-----i~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~---~~pCg~C~sC~~i~~g~~   89 (484)
T PRK14956         18 RDVIHQDLAIGALQNALKSGK-----IGHAYIFFGPRGVGKTTIARILAKRLNCENPIG---NEPCNECTSCLEITKGIS   89 (484)
T ss_pred             HHHhChHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHhcCcccccC---ccccCCCcHHHHHHccCC
Confidence            468999888888888886532     234678999999999999999976321100000   001111111111111111


Q ss_pred             HHhcC-C---CCCCCcHHHHHHHHHHH-ccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEec
Q 048765          249 EALDG-H---ESHLGEFQSLLRHIYES-IAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTT  312 (314)
Q Consensus       249 ~~~~~-~---~~~~~~~~~~~~~l~~~-L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTt  312 (314)
                      ..+.. .   .....+.+++.+.+... ..++.-++|||++.......++.|...+........+|++|
T Consensus        90 ~dviEIdaas~~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaT  158 (484)
T PRK14956         90 SDVLEIDAASNRGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILAT  158 (484)
T ss_pred             ccceeechhhcccHHHHHHHHHHHHhhhhcCCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeec
Confidence            00000 0   01122333444443322 24566799999998877667888888776544455555555

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=98.09  E-value=3e-05  Score=73.48  Aligned_cols=132  Identities=16%  Similarity=0.176  Sum_probs=73.1

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMV  248 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  248 (314)
                      ..++|.+..++.|...+....     -.+.+.++|+.|+||||+|+.+....      .|.-|.... .++.-...+.+.
T Consensus        16 ~dIIGQe~iv~~L~~aI~~~r-----l~hA~Lf~GP~GvGKTTlA~~lAk~L------~C~~~~~~~-~Cg~C~sCr~i~   83 (605)
T PRK05896         16 KQIIGQELIKKILVNAILNNK-----LTHAYIFSGPRGIGKTSIAKIFAKAI------NCLNPKDGD-CCNSCSVCESIN   83 (605)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCceEEEECCCCCCHHHHHHHHHHHh------cCCCCCCCC-CCcccHHHHHHH
Confidence            468999999999998886532     24578899999999999999886521      111121110 001101111111


Q ss_pred             HHhcCC-----C---CCCCcHHHHHHHHHHH-ccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEec
Q 048765          249 EALDGH-----E---SHLGEFQSLLRHIYES-IAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTT  312 (314)
Q Consensus       249 ~~~~~~-----~---~~~~~~~~~~~~l~~~-L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTt  312 (314)
                      ......     .   ....+.+.+...+... ..+++-++|||++.......++.|...+...+....+|++|
T Consensus        84 ~~~h~DiieIdaas~igVd~IReIi~~~~~~P~~~~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfIL~T  156 (605)
T PRK05896         84 TNQSVDIVELDAASNNGVDEIRNIIDNINYLPTTFKYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFAT  156 (605)
T ss_pred             cCCCCceEEeccccccCHHHHHHHHHHHHhchhhCCcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEEEEC
Confidence            110000     0   0111223333222211 12345579999998766567788888887655566666555

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=98.08  E-value=9.9e-06  Score=72.37  Aligned_cols=50  Identities=28%  Similarity=0.399  Sum_probs=38.8

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .+|+|++...+.+...+..... .......+.++|++|+|||+||+.+++.
T Consensus        25 ~~~vG~~~~~~~l~~~l~~~~~-~~~~~~~~ll~GppG~GKT~la~~ia~~   74 (328)
T PRK00080         25 DEFIGQEKVKENLKIFIEAAKK-RGEALDHVLLYGPPGLGKTTLANIIANE   74 (328)
T ss_pred             HHhcCcHHHHHHHHHHHHHHHh-cCCCCCcEEEECCCCccHHHHHHHHHHH
Confidence            5799999999988877753211 1134567889999999999999999873

>PRK12377 putative replication protein; Provisional

Probab=98.08  E-value=1.2e-05  Score=68.39  Aligned_cols=101  Identities=22%  Similarity=0.188  Sum_probs=57.6

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHccCc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGK  275 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~k  275 (314)
                      ...+.++|.+|+|||+||..+++.  .....-.++++++.      +++..+-.....    ......    +.+.+ .+
T Consensus       101 ~~~l~l~G~~GtGKThLa~AIa~~--l~~~g~~v~~i~~~------~l~~~l~~~~~~----~~~~~~----~l~~l-~~  163 (248)
T PRK12377        101 CTNFVFSGKPGTGKNHLAAAIGNR--LLAKGRSVIVVTVP------DVMSRLHESYDN----GQSGEK----FLQEL-CK  163 (248)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH--HHHcCCCeEEEEHH------HHHHHHHHHHhc----cchHHH----HHHHh-cC
Confidence            357899999999999999999984  33444445666543      444444443321    111111    22222 35


Q ss_pred             eEEEEEeccccCCccCHHh--HHHhhccC-CCCceEEEecc
Q 048765          276 SFLLVLDDVWDGNYVKWEP--FYHCLKNG-LHGSKILVTTR  313 (314)
Q Consensus       276 r~LlVlDdv~~~~~~~~~~--l~~~l~~~-~~gs~iivTtR  313 (314)
                      --||||||+.......|..  |...+... .+.-.+||||-
T Consensus       164 ~dLLiIDDlg~~~~s~~~~~~l~~ii~~R~~~~~ptiitSN  204 (248)
T PRK12377        164 VDLLVLDEIGIQRETKNEQVVLNQIIDRRTASMRSVGMLTN  204 (248)
T ss_pred             CCEEEEcCCCCCCCCHHHHHHHHHHHHHHHhcCCCEEEEcC
Confidence            6799999995543344543  44444422 22234777763

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=98.06  E-value=7.6e-05  Score=61.07  Aligned_cols=41  Identities=10%  Similarity=0.106  Sum_probs=30.7

Q ss_pred             cCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEecc
Q 048765          273 AGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTR  313 (314)
Q Consensus       273 ~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR  313 (314)
                      .+.+-++|+|++........+.|...+......+.+|++|.
T Consensus        94 ~~~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~  134 (188)
T TIGR00678        94 ESGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITP  134 (188)
T ss_pred             cCCeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEEC
Confidence            35677999999987665567888888876666667777765

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.

>PRK05642 DNA replication initiation factor; Validated

Probab=98.05  E-value=4.1e-05  Score=64.94  Aligned_cols=91  Identities=20%  Similarity=0.372  Sum_probs=52.5

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHccCc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGK  275 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~k  275 (314)
                      ...+.|+|..|+|||+|++.+++.  ....-..++|++..+      +...              .    ..+.+.+.+-
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~~--~~~~~~~v~y~~~~~------~~~~--------------~----~~~~~~~~~~   98 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACLR--FEQRGEPAVYLPLAE------LLDR--------------G----PELLDNLEQY   98 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH--HHhCCCcEEEeeHHH------HHhh--------------h----HHHHHhhhhC
Confidence            367899999999999999999773  333234566776532      2111              0    1122222222


Q ss_pred             eEEEEEeccccCC-ccCHHh-HHHhhcc-CCCCceEEEecc
Q 048765          276 SFLLVLDDVWDGN-YVKWEP-FYHCLKN-GLHGSKILVTTR  313 (314)
Q Consensus       276 r~LlVlDdv~~~~-~~~~~~-l~~~l~~-~~~gs~iivTtR  313 (314)
                       =+|+|||+.... ...|.. +...+.. ..+|..||+||.
T Consensus        99 -d~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~  138 (234)
T PRK05642         99 -ELVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAAS  138 (234)
T ss_pred             -CEEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCC
Confidence             278899996431 134544 5554432 234667888875

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=98.05  E-value=4.9e-05  Score=69.16  Aligned_cols=126  Identities=13%  Similarity=0.098  Sum_probs=73.0

Q ss_pred             cccccchhhHHHHHHHhhccCcC----CCCCeEEEEEEccCCCChHHHHHHhhchHhh-------------------hhc
Q 048765          169 EEICGRVGEKNELLSKLLCESSE----QQKGLHIISIVGMGGIGKTTLAQLACNHEEV-------------------IRK  225 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~----~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~-------------------~~~  225 (314)
                      ++++|.+.-++.|...+..+...    ...-...+.++|+.|+|||++|+.+....--                   ..|
T Consensus         5 ~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~~~~Cg~C~~C~~~~~~~h   84 (394)
T PRK07940          5 DDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPDEPGCGECRACRTVLAGTH   84 (394)
T ss_pred             hhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCC
Confidence            45889888888888888764310    0013466889999999999999888552100                   011


Q ss_pred             CceeEEEEcC-ccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHH-HccCceEEEEEeccccCCccCHHhHHHhhccCC
Q 048765          226 FDKILWVCVS-ETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYE-SIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGL  303 (314)
Q Consensus       226 F~~~~wv~~~-~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~-~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~  303 (314)
                      .|. .++... ....                  ..+++++.+.+.. -..+++-++|||++...+....+.|...+....
T Consensus        85 pD~-~~i~~~~~~i~------------------i~~iR~l~~~~~~~p~~~~~kViiIDead~m~~~aanaLLk~LEep~  145 (394)
T PRK07940         85 PDV-RVVAPEGLSIG------------------VDEVRELVTIAARRPSTGRWRIVVIEDADRLTERAANALLKAVEEPP  145 (394)
T ss_pred             CCE-EEeccccccCC------------------HHHHHHHHHHHHhCcccCCcEEEEEechhhcCHHHHHHHHHHhhcCC
Confidence            111 111110 0011                  1112222222211 113556689999998876666677888887666


Q ss_pred             CCceEEEecc
Q 048765          304 HGSKILVTTR  313 (314)
Q Consensus       304 ~gs~iivTtR  313 (314)
                      ++..+|++|.
T Consensus       146 ~~~~fIL~a~  155 (394)
T PRK07940        146 PRTVWLLCAP  155 (394)
T ss_pred             CCCeEEEEEC
Confidence            6777777764

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=98.04  E-value=4e-05  Score=75.84  Aligned_cols=121  Identities=13%  Similarity=0.158  Sum_probs=75.0

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhh----------------------cC
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIR----------------------KF  226 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~----------------------~F  226 (314)
                      .+++|.+..++.|..++....     -...+.++|+.|+||||+|+.+.....-..                      ++
T Consensus        15 ~eiiGqe~v~~~L~~~i~~~r-----i~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~pCg~C~sC~~~~~g~~~~~   89 (824)
T PRK07764         15 AEVIGQEHVTEPLSTALDSGR-----INHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGECDSCVALAPGGPGSL   89 (824)
T ss_pred             HHhcCcHHHHHHHHHHHHhCC-----CCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCcccHHHHHHHcCCCCCC
Confidence            468999888888988886532     234678999999999999998865321000                      11


Q ss_pred             ceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHH-HccCceEEEEEeccccCCccCHHhHHHhhccCCCC
Q 048765          227 DKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYE-SIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHG  305 (314)
Q Consensus       227 ~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~-~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~g  305 (314)
                      + +++++.....                  ...+++++...+.. -..++.-++|||++.......++.|+.+|..-...
T Consensus        90 d-v~eidaas~~------------------~Vd~iR~l~~~~~~~p~~~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~  150 (824)
T PRK07764         90 D-VTEIDAASHG------------------GVDDARELRERAFFAPAESRYKIFIIDEAHMVTPQGFNALLKIVEEPPEH  150 (824)
T ss_pred             c-EEEecccccC------------------CHHHHHHHHHHHHhchhcCCceEEEEechhhcCHHHHHHHHHHHhCCCCC
Confidence            1 1112111111                  11222333222221 12456678999999888777888899999876667


Q ss_pred             ceEEEecc
Q 048765          306 SKILVTTR  313 (314)
Q Consensus       306 s~iivTtR  313 (314)
                      +.+|++|.
T Consensus       151 ~~fIl~tt  158 (824)
T PRK07764        151 LKFIFATT  158 (824)
T ss_pred             eEEEEEeC
Confidence            77776653

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=98.04  E-value=2.4e-05  Score=70.89  Aligned_cols=52  Identities=21%  Similarity=0.184  Sum_probs=38.3

Q ss_pred             cccccccchhhHHHHHHHhhccCcC-------CCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          167 DEEEICGRVGEKNELLSKLLCESSE-------QQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       167 ~~~~~vgr~~~~~~l~~~L~~~~~~-------~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ...++.|.+..++.|.+.+...-..       +-...+-+.++|++|+|||+||+.+++
T Consensus       120 ~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~  178 (364)
T TIGR01242       120 SYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAH  178 (364)
T ss_pred             CHHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHH
Confidence            3357899999999988876432110       012345688999999999999999987

Many proteins may score above the trusted cutoff because an internal

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.03  E-value=5.4e-05  Score=72.08  Aligned_cols=132  Identities=14%  Similarity=0.119  Sum_probs=74.3

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMV  248 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  248 (314)
                      .+++|.+.-++.|..++....     -...+.++|+.|+||||+|+.+.....-....+   +-.|....+.    +.|.
T Consensus        13 ~eivGq~~i~~~L~~~i~~~r-----~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~---~~pCg~C~~C----~~i~   80 (584)
T PRK14952         13 AEVVGQEHVTEPLSSALDAGR-----INHAYLFSGPRGCGKTSSARILARSLNCAQGPT---ATPCGVCESC----VALA   80 (584)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhccccCCC---CCcccccHHH----HHhh
Confidence            468999998999999886532     244578999999999999998875211000000   0001110000    0110


Q ss_pred             HH---------hcC-CCCCCCcHHHHHHHHHHH-ccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEec
Q 048765          249 EA---------LDG-HESHLGEFQSLLRHIYES-IAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTT  312 (314)
Q Consensus       249 ~~---------~~~-~~~~~~~~~~~~~~l~~~-L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTt  312 (314)
                      ..         +.. ......+.+++.+.+... ..+++-++|||++........+.|...+........+|++|
T Consensus        81 ~~~~~~~dvieidaas~~gvd~iRel~~~~~~~P~~~~~KVvIIDEah~Lt~~A~NALLK~LEEpp~~~~fIL~t  155 (584)
T PRK14952         81 PNGPGSIDVVELDAASHGGVDDTRELRDRAFYAPAQSRYRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFAT  155 (584)
T ss_pred             cccCCCceEEEeccccccCHHHHHHHHHHHHhhhhcCCceEEEEECCCcCCHHHHHHHHHHHhcCCCCeEEEEEe
Confidence            00         000 000122233333333221 24566799999998776667888888888666666666655

>PRK08181 transposase; Validated

Probab=98.03  E-value=2.9e-05  Score=66.89  Aligned_cols=98  Identities=20%  Similarity=0.186  Sum_probs=55.3

Q ss_pred             EEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHccCce
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGKS  276 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~kr  276 (314)
                      ..+.++|++|+|||+||..+.+  ......-.+.|++      ..+++..+.....     ..........    + .+-
T Consensus       107 ~nlll~Gp~GtGKTHLa~Aia~--~a~~~g~~v~f~~------~~~L~~~l~~a~~-----~~~~~~~l~~----l-~~~  168 (269)
T PRK08181        107 ANLLLFGPPGGGKSHLAAAIGL--ALIENGWRVLFTR------TTDLVQKLQVARR-----ELQLESAIAK----L-DKF  168 (269)
T ss_pred             ceEEEEecCCCcHHHHHHHHHH--HHHHcCCceeeee------HHHHHHHHHHHHh-----CCcHHHHHHH----H-hcC
Confidence            4589999999999999999987  3333333455654      3445444433321     1122222222    2 234


Q ss_pred             EEEEEeccccCCccCHH--hHHHhhccC-CCCceEEEecc
Q 048765          277 FLLVLDDVWDGNYVKWE--PFYHCLKNG-LHGSKILVTTR  313 (314)
Q Consensus       277 ~LlVlDdv~~~~~~~~~--~l~~~l~~~-~~gs~iivTtR  313 (314)
                      -||||||+.......|.  .|...+... ..+ .+||||.
T Consensus       169 dLLIIDDlg~~~~~~~~~~~Lf~lin~R~~~~-s~IiTSN  207 (269)
T PRK08181        169 DLLILDDLAYVTKDQAETSVLFELISARYERR-SILITAN  207 (269)
T ss_pred             CEEEEeccccccCCHHHHHHHHHHHHHHHhCC-CEEEEcC
Confidence            59999999654333332  345555422 234 4888875

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=98.02  E-value=2.8e-05  Score=65.68  Aligned_cols=39  Identities=13%  Similarity=0.124  Sum_probs=27.0

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSE  236 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~  236 (314)
                      ...+.|+|..|+|||+||+.+++...  ..-....++++..
T Consensus        42 ~~~~~l~G~~G~GKT~La~ai~~~~~--~~~~~~~~i~~~~   80 (227)
T PRK08903         42 DRFFYLWGEAGSGRSHLLQALVADAS--YGGRNARYLDAAS   80 (227)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHH--hCCCcEEEEehHH
Confidence            45788999999999999999987432  2122345555443

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=98.02  E-value=4e-05  Score=73.32  Aligned_cols=135  Identities=12%  Similarity=0.147  Sum_probs=75.9

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCc--eeEEEEcCccccHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFD--KILWVCVSETFEEFRVAKA  246 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~--~~~wv~~~~~~~~~~~~~~  246 (314)
                      .+++|.+..++.|...+....     -...+.++|+.|+||||+|+.+....--.....  ...+-.+....+.    +.
T Consensus        24 ~dliGq~~~v~~L~~~~~~gr-----i~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~~cg~c~~C----~~   94 (598)
T PRK09111         24 DDLIGQEAMVRTLTNAFETGR-----IAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTIDLCGVGEHC----QA   94 (598)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccccCcccHHH----HH
Confidence            569999999999999886532     345788999999999999998876321111000  0000001111011    11


Q ss_pred             HHHHhcCC--------CCCCCcHHHHHHHHHHH-ccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEec
Q 048765          247 MVEALDGH--------ESHLGEFQSLLRHIYES-IAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTT  312 (314)
Q Consensus       247 i~~~~~~~--------~~~~~~~~~~~~~l~~~-L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTt  312 (314)
                      |....+..        .....+++++++.+... ..+++-++|||++...+....+.|..++..-..++++|++|
T Consensus        95 i~~g~h~Dv~e~~a~s~~gvd~IReIie~~~~~P~~a~~KVvIIDEad~Ls~~a~naLLKtLEePp~~~~fIl~t  169 (598)
T PRK09111         95 IMEGRHVDVLEMDAASHTGVDDIREIIESVRYRPVSARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHVKFIFAT  169 (598)
T ss_pred             HhcCCCCceEEecccccCCHHHHHHHHHHHHhchhcCCcEEEEEEChHhCCHHHHHHHHHHHHhCCCCeEEEEEe
Confidence            11111110        01122233333333211 23556689999998776556778888887666677777665

>PRK10536 hypothetical protein; Provisional

Probab=98.00  E-value=0.0001  Score=62.50  Aligned_cols=131  Identities=17%  Similarity=0.204  Sum_probs=73.5

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEc----Cc-----ccc
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCV----SE-----TFE  239 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~----~~-----~~~  239 (314)
                      ..+.++......++.+|..        ..++.+.|++|+|||+||..+..+.-..+.|+.++...-    .+     +.+
T Consensus        55 ~~i~p~n~~Q~~~l~al~~--------~~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI~RP~v~~ge~LGfLPG~  126 (262)
T PRK10536         55 SPILARNEAQAHYLKAIES--------KQLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVTRPVLQADEDLGFLPGD  126 (262)
T ss_pred             ccccCCCHHHHHHHHHHhc--------CCeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEEeCCCCCchhhhCcCCCC
Confidence            3467788888888888853        248999999999999999988764322344554444321    11     111


Q ss_pred             HHH----HHHHHHHHhcCCCCCCCcHHHHHH----H----HHHHccCceE---EEEEeccccCCccCHHhHHHhhccCCC
Q 048765          240 EFR----VAKAMVEALDGHESHLGEFQSLLR----H----IYESIAGKSF---LLVLDDVWDGNYVKWEPFYHCLKNGLH  304 (314)
Q Consensus       240 ~~~----~~~~i~~~~~~~~~~~~~~~~~~~----~----l~~~L~~kr~---LlVlDdv~~~~~~~~~~l~~~l~~~~~  304 (314)
                      ..+    .+.-+...+..-- .....+.+..    .    -..++++..+   +||+|+..+.+   -..+...+.....
T Consensus       127 ~~eK~~p~~~pi~D~L~~~~-~~~~~~~~~~~~~~~Iei~~l~ymRGrtl~~~~vIvDEaqn~~---~~~~k~~ltR~g~  202 (262)
T PRK10536        127 IAEKFAPYFRPVYDVLVRRL-GASFMQYCLRPEIGKVEIAPFAYMRGRTFENAVVILDEAQNVT---AAQMKMFLTRLGE  202 (262)
T ss_pred             HHHHHHHHHHHHHHHHHHHh-ChHHHHHHHHhccCcEEEecHHHhcCCcccCCEEEEechhcCC---HHHHHHHHhhcCC
Confidence            111    1111222111100 0011111110    0    0135566554   99999997764   3666666666678


Q ss_pred             CceEEEe
Q 048765          305 GSKILVT  311 (314)
Q Consensus       305 gs~iivT  311 (314)
                      +|+||+|
T Consensus       203 ~sk~v~~  209 (262)
T PRK10536        203 NVTVIVN  209 (262)
T ss_pred             CCEEEEe
Confidence            9999986

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.00  E-value=2.6e-05  Score=74.96  Aligned_cols=133  Identities=12%  Similarity=0.162  Sum_probs=74.5

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMV  248 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  248 (314)
                      .+++|.+.-++.|..++....     -...+.++|+.|+||||+|+.++....-...+      .-...++.-...+.+.
T Consensus        16 ~eiiGq~~~~~~L~~~i~~~~-----i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~------~~~~~c~~c~~c~~i~   84 (585)
T PRK14950         16 AELVGQEHVVQTLRNAIAEGR-----VAHAYLFTGPRGVGKTSTARILAKAVNCTTND------PKGRPCGTCEMCRAIA   84 (585)
T ss_pred             HHhcCCHHHHHHHHHHHHhCC-----CceEEEEECCCCCCHHHHHHHHHHHhcCCCCC------CCCCCCccCHHHHHHh
Confidence            469999988888888886532     24567899999999999999987632100000      0000111112222222


Q ss_pred             HHhcCC-----C---CCCCcHHHHHHHHHHH-ccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEec
Q 048765          249 EALDGH-----E---SHLGEFQSLLRHIYES-IAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTT  312 (314)
Q Consensus       249 ~~~~~~-----~---~~~~~~~~~~~~l~~~-L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTt  312 (314)
                      ...+..     .   ....+++++.+.+... ..+++-++|||++........+.|..++......+.+|++|
T Consensus        85 ~~~~~d~~~i~~~~~~~vd~ir~ii~~~~~~p~~~~~kVvIIDEa~~L~~~a~naLLk~LEepp~~tv~Il~t  157 (585)
T PRK14950         85 EGSAVDVIEMDAASHTSVDDAREIIERVQFRPALARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILAT  157 (585)
T ss_pred             cCCCCeEEEEeccccCCHHHHHHHHHHHhhCcccCCeEEEEEeChHhCCHHHHHHHHHHHhcCCCCeEEEEEe
Confidence            221110     0   0111222333322211 23567799999997765556777888887655566666665

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

Probab=98.00  E-value=1e-05  Score=65.53  Aligned_cols=99  Identities=24%  Similarity=0.394  Sum_probs=51.3

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHccCc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGK  275 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~k  275 (314)
                      ..-+.++|..|+|||.||..+.+.  ...+--.+.|++      ..+++..+-.    ... ..........    +. +
T Consensus        47 ~~~l~l~G~~G~GKThLa~ai~~~--~~~~g~~v~f~~------~~~L~~~l~~----~~~-~~~~~~~~~~----l~-~  108 (178)
T PF01695_consen   47 GENLILYGPPGTGKTHLAVAIANE--AIRKGYSVLFIT------ASDLLDELKQ----SRS-DGSYEELLKR----LK-R  108 (178)
T ss_dssp             --EEEEEESTTSSHHHHHHHHHHH--HHHTT--EEEEE------HHHHHHHHHC----CHC-CTTHCHHHHH----HH-T
T ss_pred             CeEEEEEhhHhHHHHHHHHHHHHH--hccCCcceeEee------cCceeccccc----ccc-ccchhhhcCc----cc-c
Confidence            457999999999999999999873  333333456664      3444444332    111 1122222222    22 3


Q ss_pred             eEEEEEeccccCCccCHHh--HHHhhccC-CCCceEEEecc
Q 048765          276 SFLLVLDDVWDGNYVKWEP--FYHCLKNG-LHGSKILVTTR  313 (314)
Q Consensus       276 r~LlVlDdv~~~~~~~~~~--l~~~l~~~-~~gs~iivTtR  313 (314)
                      -=||||||+.......|..  +...+... .++ .+||||.
T Consensus       109 ~dlLilDDlG~~~~~~~~~~~l~~ii~~R~~~~-~tIiTSN  148 (178)
T PF01695_consen  109 VDLLILDDLGYEPLSEWEAELLFEIIDERYERK-PTIITSN  148 (178)
T ss_dssp             SSCEEEETCTSS---HHHHHCTHHHHHHHHHT--EEEEEES
T ss_pred             ccEecccccceeeecccccccchhhhhHhhccc-CeEeeCC
Confidence            3588899997654333432  34434321 234 4778874

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.

>PRK08084 DNA replication initiation factor; Provisional

Probab=97.99  E-value=6.9e-05  Score=63.58  Aligned_cols=38  Identities=18%  Similarity=0.289  Sum_probs=27.7

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcC
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVS  235 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~  235 (314)
                      ...+.|+|+.|+|||+|++.+++.  .......+.|+++.
T Consensus        45 ~~~l~l~Gp~G~GKThLl~a~~~~--~~~~~~~v~y~~~~   82 (235)
T PRK08084         45 SGYIYLWSREGAGRSHLLHAACAE--LSQRGRAVGYVPLD   82 (235)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH--HHhCCCeEEEEEHH
Confidence            357899999999999999999873  33333445666553

>PRK06921 hypothetical protein; Provisional

Probab=97.99  E-value=5.6e-05  Score=65.26  Aligned_cols=98  Identities=24%  Similarity=0.366  Sum_probs=55.5

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhc-CceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHccC
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRK-FDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAG  274 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~-F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~  274 (314)
                      ...+.++|..|+|||+|+..+++  ..... ...++|++..      +++..+...+          ......+. .+ .
T Consensus       117 ~~~l~l~G~~G~GKThLa~aia~--~l~~~~g~~v~y~~~~------~l~~~l~~~~----------~~~~~~~~-~~-~  176 (266)
T PRK06921        117 KNSIALLGQPGSGKTHLLTAAAN--ELMRKKGVPVLYFPFV------EGFGDLKDDF----------DLLEAKLN-RM-K  176 (266)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHH--HHhhhcCceEEEEEHH------HHHHHHHHHH----------HHHHHHHH-Hh-c
Confidence            45789999999999999999988  44333 3456676542      3333332222          11111122 22 2


Q ss_pred             ceEEEEEecc-----ccCCccCHHh--HHHhhccC-CCCceEEEecc
Q 048765          275 KSFLLVLDDV-----WDGNYVKWEP--FYHCLKNG-LHGSKILVTTR  313 (314)
Q Consensus       275 kr~LlVlDdv-----~~~~~~~~~~--l~~~l~~~-~~gs~iivTtR  313 (314)
                      +--||||||+     ......+|..  |...+... .++..+||||.
T Consensus       177 ~~dlLiIDDl~~~~~g~e~~t~~~~~~lf~iin~R~~~~k~tIitsn  223 (266)
T PRK06921        177 KVEVLFIDDLFKPVNGKPRATEWQIEQMYSVLNYRYLNHKPILISSE  223 (266)
T ss_pred             CCCEEEEeccccccCCCccCCHHHHHHHHHHHHHHHHCCCCEEEECC
Confidence            4569999999     3222234553  55544322 23455888874

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=97.99  E-value=2.8e-05  Score=77.62  Aligned_cols=135  Identities=20%  Similarity=0.273  Sum_probs=78.2

Q ss_pred             cccccchhhHHHHHHHhhccCc---CCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESS---EQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAK  245 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~  245 (314)
                      ..++|.+..++.+.+.+.....   .......++.++|+.|+|||.||+.+...  .-+.....+-++++......    
T Consensus       566 ~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~--l~~~~~~~~~~dmse~~~~~----  639 (852)
T TIGR03345       566 ERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAEL--LYGGEQNLITINMSEFQEAH----  639 (852)
T ss_pred             CeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHH--HhCCCcceEEEeHHHhhhhh----
Confidence            4689999999999888754211   11244567899999999999999988663  22222233334444322111    


Q ss_pred             HHHHHhcCCCCCCC--cHHHHHHHHHHHccCceEEEEEeccccCCccCHHhHHHhhccCC-----------CCceEEEec
Q 048765          246 AMVEALDGHESHLG--EFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGL-----------HGSKILVTT  312 (314)
Q Consensus       246 ~i~~~~~~~~~~~~--~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~iivTt  312 (314)
                      .+..-++..+....  ....+...++   +....+|+||++...+...++.|...+.++.           ..+-||+||
T Consensus       640 ~~~~l~g~~~gyvg~~~~g~L~~~v~---~~p~svvllDEieka~~~v~~~Llq~ld~g~l~d~~Gr~vd~~n~iiI~TS  716 (852)
T TIGR03345       640 TVSRLKGSPPGYVGYGEGGVLTEAVR---RKPYSVVLLDEVEKAHPDVLELFYQVFDKGVMEDGEGREIDFKNTVILLTS  716 (852)
T ss_pred             hhccccCCCCCcccccccchHHHHHH---hCCCcEEEEechhhcCHHHHHHHHHHhhcceeecCCCcEEeccccEEEEeC
Confidence            11111222111111  1112233333   3456799999998877777777877776542           345566665

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.

>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=97.99  E-value=3.1e-05  Score=65.11  Aligned_cols=37  Identities=32%  Similarity=0.419  Sum_probs=29.4

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCV  234 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~  234 (314)
                      .-.+.|+|..|+|||||+..+..  .....|..+++++-
T Consensus        13 ~fr~viIG~sGSGKT~li~~lL~--~~~~~f~~I~l~t~   49 (241)
T PF04665_consen   13 PFRMVIIGKSGSGKTTLIKSLLY--YLRHKFDHIFLITP   49 (241)
T ss_pred             CceEEEECCCCCCHHHHHHHHHH--hhcccCCEEEEEec
Confidence            34678999999999999999987  45677877776643

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

>PRK07952 DNA replication protein DnaC; Validated

Probab=97.98  E-value=8.3e-05  Score=63.16  Aligned_cols=101  Identities=17%  Similarity=0.228  Sum_probs=57.7

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHccCc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGK  275 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~k  275 (314)
                      ...+.++|.+|+|||+|+..+++..  ...-..+++++      ..+++..+-..+..   ......    .+.+.+. +
T Consensus        99 ~~~~~l~G~~GtGKThLa~aia~~l--~~~g~~v~~it------~~~l~~~l~~~~~~---~~~~~~----~~l~~l~-~  162 (244)
T PRK07952         99 IASFIFSGKPGTGKNHLAAAICNEL--LLRGKSVLIIT------VADIMSAMKDTFSN---SETSEE----QLLNDLS-N  162 (244)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHH--HhcCCeEEEEE------HHHHHHHHHHHHhh---ccccHH----HHHHHhc-c
Confidence            3478899999999999999998843  33334556663      34444444443321   011122    2223344 3


Q ss_pred             eEEEEEeccccCCccCHHh--HHHhhccC-CCCceEEEec
Q 048765          276 SFLLVLDDVWDGNYVKWEP--FYHCLKNG-LHGSKILVTT  312 (314)
Q Consensus       276 r~LlVlDdv~~~~~~~~~~--l~~~l~~~-~~gs~iivTt  312 (314)
                      .=||||||+......+|..  +...+... .+.-.+||||
T Consensus       163 ~dlLvIDDig~~~~s~~~~~~l~~Ii~~Ry~~~~~tiitS  202 (244)
T PRK07952        163 VDLLVIDEIGVQTESRYEKVIINQIVDRRSSSKRPTGMLT  202 (244)
T ss_pred             CCEEEEeCCCCCCCCHHHHHHHHHHHHHHHhCCCCEEEeC
Confidence            4589999997765556664  34444321 2233477776

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.98  E-value=7.9e-05  Score=67.70  Aligned_cols=122  Identities=16%  Similarity=0.212  Sum_probs=68.4

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhh------hhcCcee-EEEEcCccccHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEV------IRKFDKI-LWVCVSETFEEF  241 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~------~~~F~~~-~wv~~~~~~~~~  241 (314)
                      .+++|.+...+.+...+....     -.+.+.++|++|+|||++|+.+.....-      ...|... +-++.....+..
T Consensus        17 ~~iig~~~~~~~l~~~i~~~~-----~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~   91 (367)
T PRK14970         17 DDVVGQSHITNTLLNAIENNH-----LAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFELDAASNNSVD   91 (367)
T ss_pred             HhcCCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEeccccCCCHH
Confidence            468999999999998886532     3468889999999999999988653110      0112111 111111111111


Q ss_pred             HHHHHHHHHhcCCCCCCCcHHHHHHHHHHHccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEec
Q 048765          242 RVAKAMVEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTT  312 (314)
Q Consensus       242 ~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTt  312 (314)
                      . ...+.+.+..                .-..+++-+|++|++.......++.+...+......+.+|++|
T Consensus        92 ~-i~~l~~~~~~----------------~p~~~~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~  145 (367)
T PRK14970         92 D-IRNLIDQVRI----------------PPQTGKYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILAT  145 (367)
T ss_pred             H-HHHHHHHHhh----------------ccccCCcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEe
Confidence            1 1111111110                0123455689999997654445677777776544455555554

>PRK08939 primosomal protein DnaI; Reviewed

Probab=97.98  E-value=6.9e-05  Score=65.96  Aligned_cols=121  Identities=15%  Similarity=0.169  Sum_probs=69.9

Q ss_pred             cchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhc
Q 048765          173 GRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALD  252 (314)
Q Consensus       173 gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~  252 (314)
                      ++........+++..-..  ....+-+.++|..|+|||.|+..+++..  ...--.+.++++      ..++..+...+.
T Consensus       135 ~~~~~~~~~~~fi~~~~~--~~~~~gl~L~G~~G~GKThLa~Aia~~l--~~~g~~v~~~~~------~~l~~~lk~~~~  204 (306)
T PRK08939        135 DRLDALMAALDFLEAYPP--GEKVKGLYLYGDFGVGKSYLLAAIANEL--AKKGVSSTLLHF------PEFIRELKNSIS  204 (306)
T ss_pred             HHHHHHHHHHHHHHHhhc--cCCCCeEEEECCCCCCHHHHHHHHHHHH--HHcCCCEEEEEH------HHHHHHHHHHHh
Confidence            344444445555543221  1234678999999999999999999843  333333556644      345555555542


Q ss_pred             CCCCCCCcHHHHHHHHHHHccCceEEEEEeccccCCccCHHh--HHHhh-ccC-CCCceEEEecc
Q 048765          253 GHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEP--FYHCL-KNG-LHGSKILVTTR  313 (314)
Q Consensus       253 ~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~--l~~~l-~~~-~~gs~iivTtR  313 (314)
                      .     ......   +.. + .+--||||||+......+|..  +...+ ... ..+-.+|+||-
T Consensus       205 ~-----~~~~~~---l~~-l-~~~dlLiIDDiG~e~~s~~~~~~ll~~Il~~R~~~~~~ti~TSN  259 (306)
T PRK08939        205 D-----GSVKEK---IDA-V-KEAPVLMLDDIGAEQMSSWVRDEVLGVILQYRMQEELPTFFTSN  259 (306)
T ss_pred             c-----CcHHHH---HHH-h-cCCCEEEEecCCCccccHHHHHHHHHHHHHHHHHCCCeEEEECC
Confidence            2     112222   222 2 246699999998765567864  54444 322 24455888873

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.96  E-value=6.7e-05  Score=71.96  Aligned_cols=139  Identities=16%  Similarity=0.231  Sum_probs=72.7

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEE-cCccccHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVC-VSETFEEFRVAKAM  247 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~-~~~~~~~~~~~~~i  247 (314)
                      .+++|.+.-+..|...+..+.     -...+.++|+.|+||||+|+.+....--...++-..|.. ...+++.-...+.+
T Consensus        16 ~eivGQe~i~~~L~~~i~~~r-----i~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~~~~Cg~C~sC~~~   90 (620)
T PRK14954         16 ADITAQEHITHTIQNSLRMDR-----VGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEVTEPCGECESCRDF   90 (620)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccccCCCCccCHHHHHH
Confidence            468998888888888776432     235588999999999999988865321111010000110 00000000000111


Q ss_pred             HHHhc-------C-CCCCCCcHHHHHHHHHH-HccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEec
Q 048765          248 VEALD-------G-HESHLGEFQSLLRHIYE-SIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTT  312 (314)
Q Consensus       248 ~~~~~-------~-~~~~~~~~~~~~~~l~~-~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTt  312 (314)
                      ...-.       + ......++.++.+.+.. -..+++-++|+|++........+.|..++......+.+|++|
T Consensus        91 ~~g~~~n~~~~d~~s~~~vd~Ir~l~e~~~~~P~~~~~KVvIIdEad~Lt~~a~naLLK~LEePp~~tv~IL~t  164 (620)
T PRK14954         91 DAGTSLNISEFDAASNNSVDDIRQLRENVRYGPQKGRYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHAIFIFAT  164 (620)
T ss_pred             hccCCCCeEEecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEeChhhcCHHHHHHHHHHHhCCCCCeEEEEEe
Confidence            10000       0 00011223333333321 124556689999998776556778888887665566666555

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=97.96  E-value=6.2e-05  Score=75.50  Aligned_cols=125  Identities=16%  Similarity=0.234  Sum_probs=74.0

Q ss_pred             cccccchhhHHHHHHHhhccCcC---CCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSE---QQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAK  245 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~---~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~  245 (314)
                      ..++|.+..++.+...+.....+   ......++.++|+.|+|||++|+.+...  ....-...+.++++.......+  
T Consensus       565 ~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~--l~~~~~~~i~~d~s~~~~~~~~--  640 (852)
T TIGR03346       565 ERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEF--LFDDEDAMVRIDMSEYMEKHSV--  640 (852)
T ss_pred             cccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHH--hcCCCCcEEEEechhhcccchH--
Confidence            46899999999999888653211   1123467789999999999999999762  2222234455666653322111  


Q ss_pred             HHHHHhcCCCCCC--CcHHHHHHHHHHHccCceEEEEEeccccCCccCHHhHHHhhccC
Q 048765          246 AMVEALDGHESHL--GEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNG  302 (314)
Q Consensus       246 ~i~~~~~~~~~~~--~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~  302 (314)
                        ...++..+...  .....+...++   .....+|+||++...+...++.|...|..+
T Consensus       641 --~~l~g~~~g~~g~~~~g~l~~~v~---~~p~~vlllDeieka~~~v~~~Ll~~l~~g  694 (852)
T TIGR03346       641 --ARLIGAPPGYVGYEEGGQLTEAVR---RKPYSVVLFDEVEKAHPDVFNVLLQVLDDG  694 (852)
T ss_pred             --HHhcCCCCCccCcccccHHHHHHH---cCCCcEEEEeccccCCHHHHHHHHHHHhcC
Confidence              11122211111  11122222222   233459999999988777888888887544

Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.

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

Probab=97.94  E-value=4.3e-05  Score=75.47  Aligned_cols=122  Identities=16%  Similarity=0.174  Sum_probs=72.0

Q ss_pred             cccccchhhHHHHHHHhhccCcC---CCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSE---QQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAK  245 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~---~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~  245 (314)
                      ..++|.+..++.+...+.....+   ......++.++|+.|+|||+||+.++..  .   +...+.+++++......   
T Consensus       454 ~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~--l---~~~~~~~d~se~~~~~~---  525 (731)
T TIGR02639       454 AKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEA--L---GVHLERFDMSEYMEKHT---  525 (731)
T ss_pred             cceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHH--h---cCCeEEEeCchhhhccc---
Confidence            35788888888888877642110   1123456889999999999999999763  2   33456666655322211   


Q ss_pred             HHHHHhcCCCCCC--CcHHHHHHHHHHHccCceEEEEEeccccCCccCHHhHHHhhccC
Q 048765          246 AMVEALDGHESHL--GEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNG  302 (314)
Q Consensus       246 ~i~~~~~~~~~~~--~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~  302 (314)
                       +...++..+...  .....+...++   .....+|+||++...+.+.++.|...+..+
T Consensus       526 -~~~lig~~~gyvg~~~~~~l~~~~~---~~p~~VvllDEieka~~~~~~~Ll~~ld~g  580 (731)
T TIGR02639       526 -VSRLIGAPPGYVGFEQGGLLTEAVR---KHPHCVLLLDEIEKAHPDIYNILLQVMDYA  580 (731)
T ss_pred             -HHHHhcCCCCCcccchhhHHHHHHH---hCCCeEEEEechhhcCHHHHHHHHHhhccC
Confidence             122222221111  11122222222   234569999999987777777787777543

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=97.93  E-value=7.9e-05  Score=69.21  Aligned_cols=104  Identities=22%  Similarity=0.249  Sum_probs=59.6

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHccCc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGK  275 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~k  275 (314)
                      ..-+.|+|..|+|||+|++.+.+.......-..++++      +..++...+...+....       .....+.+.+. +
T Consensus       141 ~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv------~~~~f~~~~~~~l~~~~-------~~~~~~~~~~~-~  206 (450)
T PRK14087        141 YNPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYM------SGDEFARKAVDILQKTH-------KEIEQFKNEIC-Q  206 (450)
T ss_pred             cCceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEE------EHHHHHHHHHHHHHHhh-------hHHHHHHHHhc-c
Confidence            4568899999999999999998732221212234454      44566667766664210       11233433333 3


Q ss_pred             eEEEEEeccccCCc--cCHHhHHHhhccC-CCCceEEEecc
Q 048765          276 SFLLVLDDVWDGNY--VKWEPFYHCLKNG-LHGSKILVTTR  313 (314)
Q Consensus       276 r~LlVlDdv~~~~~--~~~~~l~~~l~~~-~~gs~iivTtR  313 (314)
                      .-+|||||+.....  ...+.+...+... ..|..||+|+.
T Consensus       207 ~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd  247 (450)
T PRK14087        207 NDVLIIDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSD  247 (450)
T ss_pred             CCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECC
Confidence            45899999965321  1123455444321 34557888864

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=97.92  E-value=0.00017  Score=68.55  Aligned_cols=99  Identities=15%  Similarity=0.230  Sum_probs=56.2

Q ss_pred             EEEEEEccCCCChHHHHHHhhchHhhhhcC--ceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHccC
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHEEVIRKF--DKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAG  274 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F--~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~  274 (314)
                      ..+.|+|..|+|||+|++.+++.  ....+  -.++|++      ..+++..+...+...     .    ...+++.+..
T Consensus       315 NpL~LyG~sGsGKTHLL~AIa~~--a~~~~~g~~V~Yit------aeef~~el~~al~~~-----~----~~~f~~~y~~  377 (617)
T PRK14086        315 NPLFIYGESGLGKTHLLHAIGHY--ARRLYPGTRVRYVS------SEEFTNEFINSIRDG-----K----GDSFRRRYRE  377 (617)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHH--HHHhCCCCeEEEee------HHHHHHHHHHHHHhc-----c----HHHHHHHhhc
Confidence            45899999999999999999884  33322  2455654      344444555444221     1    1223333332


Q ss_pred             ceEEEEEeccccCCcc-CHH-hHHHhhccC-CCCceEEEecc
Q 048765          275 KSFLLVLDDVWDGNYV-KWE-PFYHCLKNG-LHGSKILVTTR  313 (314)
Q Consensus       275 kr~LlVlDdv~~~~~~-~~~-~l~~~l~~~-~~gs~iivTtR  313 (314)
                       -=+|+|||+...... .|. .|...|... .+|..|||||.
T Consensus       378 -~DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~gk~IIITSd  418 (617)
T PRK14086        378 -MDILLVDDIQFLEDKESTQEEFFHTFNTLHNANKQIVLSSD  418 (617)
T ss_pred             -CCEEEEehhccccCCHHHHHHHHHHHHHHHhcCCCEEEecC
Confidence             358899999654222 232 344444321 33556888875

>PRK10865 protein disaggregation chaperone; Provisional

Probab=97.91  E-value=8.7e-05  Score=74.30  Aligned_cols=125  Identities=16%  Similarity=0.260  Sum_probs=70.8

Q ss_pred             cccccchhhHHHHHHHhhccCc---CCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESS---EQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAK  245 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~  245 (314)
                      ..++|.+..++.+...+.....   .......++.++|+.|+|||+||+.++..  ....-...+.++++......    
T Consensus       568 ~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~--l~~~~~~~i~id~se~~~~~----  641 (857)
T PRK10865        568 HRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANF--MFDSDDAMVRIDMSEFMEKH----  641 (857)
T ss_pred             CeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHH--hhcCCCcEEEEEhHHhhhhh----
Confidence            4688999998888888754211   01123457889999999999999999763  22222334556665432111    


Q ss_pred             HHHHHhcCCCCCCC-cHHHHHHHHHHHc-cCceEEEEEeccccCCccCHHhHHHhhccC
Q 048765          246 AMVEALDGHESHLG-EFQSLLRHIYESI-AGKSFLLVLDDVWDGNYVKWEPFYHCLKNG  302 (314)
Q Consensus       246 ~i~~~~~~~~~~~~-~~~~~~~~l~~~L-~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~  302 (314)
                      ...+-++..+.... +..   ..+.+.+ ....-+|+||++...+...+..|...+..+
T Consensus       642 ~~~~LiG~~pgy~g~~~~---g~l~~~v~~~p~~vLllDEieka~~~v~~~Ll~ile~g  697 (857)
T PRK10865        642 SVSRLVGAPPGYVGYEEG---GYLTEAVRRRPYSVILLDEVEKAHPDVFNILLQVLDDG  697 (857)
T ss_pred             hHHHHhCCCCcccccchh---HHHHHHHHhCCCCeEEEeehhhCCHHHHHHHHHHHhhC
Confidence            11112222211111 111   1122222 223369999999877667778887777543

>PRK06526 transposase; Provisional

Probab=97.91  E-value=4.7e-05  Score=65.19  Aligned_cols=99  Identities=20%  Similarity=0.239  Sum_probs=53.1

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHccCc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGK  275 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~k  275 (314)
                      ...+.++|++|+|||+||..+....  ...--.+.|+      +..+++..+.....     .....   ..+...  .+
T Consensus        98 ~~nlll~Gp~GtGKThLa~al~~~a--~~~g~~v~f~------t~~~l~~~l~~~~~-----~~~~~---~~l~~l--~~  159 (254)
T PRK06526         98 KENVVFLGPPGTGKTHLAIGLGIRA--CQAGHRVLFA------TAAQWVARLAAAHH-----AGRLQ---AELVKL--GR  159 (254)
T ss_pred             CceEEEEeCCCCchHHHHHHHHHHH--HHCCCchhhh------hHHHHHHHHHHHHh-----cCcHH---HHHHHh--cc
Confidence            3468999999999999999997632  2222223333      33344444433221     11111   223222  23


Q ss_pred             eEEEEEeccccCCccCHH--hHHHhhcc-CCCCceEEEecc
Q 048765          276 SFLLVLDDVWDGNYVKWE--PFYHCLKN-GLHGSKILVTTR  313 (314)
Q Consensus       276 r~LlVlDdv~~~~~~~~~--~l~~~l~~-~~~gs~iivTtR  313 (314)
                      .-||||||+.......+.  .+...+.. ..++| +|+||.
T Consensus       160 ~dlLIIDD~g~~~~~~~~~~~L~~li~~r~~~~s-~IitSn  199 (254)
T PRK06526        160 YPLLIVDEVGYIPFEPEAANLFFQLVSSRYERAS-LIVTSN  199 (254)
T ss_pred             CCEEEEcccccCCCCHHHHHHHHHHHHHHHhcCC-EEEEcC
Confidence            468999999754322232  24444432 23455 888875

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=97.90  E-value=0.00014  Score=67.03  Aligned_cols=100  Identities=24%  Similarity=0.341  Sum_probs=56.2

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcC--ceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHcc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKF--DKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIA  273 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F--~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~  273 (314)
                      ...+.|+|+.|+|||+|++.+++.  .....  ..++|+++      .++...+...+...     ...    .+.+.+.
T Consensus       136 ~n~l~l~G~~G~GKThL~~ai~~~--l~~~~~~~~v~yi~~------~~~~~~~~~~~~~~-----~~~----~~~~~~~  198 (405)
T TIGR00362       136 YNPLFIYGGVGLGKTHLLHAIGNE--ILENNPNAKVVYVSS------EKFTNDFVNALRNN-----KME----EFKEKYR  198 (405)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHH--HHHhCCCCcEEEEEH------HHHHHHHHHHHHcC-----CHH----HHHHHHH
Confidence            456889999999999999999884  33322  34566643      34444555554321     122    2233332


Q ss_pred             CceEEEEEeccccCCccC-H-HhHHHhhccC-CCCceEEEecc
Q 048765          274 GKSFLLVLDDVWDGNYVK-W-EPFYHCLKNG-LHGSKILVTTR  313 (314)
Q Consensus       274 ~kr~LlVlDdv~~~~~~~-~-~~l~~~l~~~-~~gs~iivTtR  313 (314)
                      + .-+|+|||+....... + +.+...+... ..|..||+||.
T Consensus       199 ~-~dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~~~~~iiits~  240 (405)
T TIGR00362       199 S-VDLLLIDDIQFLAGKERTQEEFFHTFNALHENGKQIVLTSD  240 (405)
T ss_pred             h-CCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCCEEEecC
Confidence            2 3489999996532111 1 2344444321 23556888764

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).

>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=97.89  E-value=0.0002  Score=57.04  Aligned_cols=119  Identities=15%  Similarity=0.105  Sum_probs=70.4

Q ss_pred             cchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHh---h----------------hhcCceeEEEE
Q 048765          173 GRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEE---V----------------IRKFDKILWVC  233 (314)
Q Consensus       173 gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~---~----------------~~~F~~~~wv~  233 (314)
                      |.+...+.|...+....     -...+.++|+.|+||+++|..+....-   .                ..|.| ..|+.
T Consensus         1 gq~~~~~~L~~~~~~~~-----l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d-~~~~~   74 (162)
T PF13177_consen    1 GQEEIIELLKNLIKSGR-----LPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPD-FIIIK   74 (162)
T ss_dssp             S-HHHHHHHHHHHHCTC-------SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTT-EEEEE
T ss_pred             CcHHHHHHHHHHHHcCC-----cceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcc-eEEEe
Confidence            44555666666665432     345678999999999999988755210   0                11222 23333


Q ss_pred             cCcc---ccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEE
Q 048765          234 VSET---FEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILV  310 (314)
Q Consensus       234 ~~~~---~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiv  310 (314)
                      -...   ...+++. .+...+...+                ..++.-++|||++...+....+.|+..+...+..+.+|+
T Consensus        75 ~~~~~~~i~i~~ir-~i~~~~~~~~----------------~~~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fiL  137 (162)
T PF13177_consen   75 PDKKKKSIKIDQIR-EIIEFLSLSP----------------SEGKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYFIL  137 (162)
T ss_dssp             TTTSSSSBSHHHHH-HHHHHCTSS-----------------TTSSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEEE
T ss_pred             cccccchhhHHHHH-HHHHHHHHHH----------------hcCCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEEE
Confidence            2221   2222221 3332222111                134677999999999887889999999988888899999


Q ss_pred             eccC
Q 048765          311 TTRK  314 (314)
Q Consensus       311 TtR~  314 (314)
                      +|.+
T Consensus       138 ~t~~  141 (162)
T PF13177_consen  138 ITNN  141 (162)
T ss_dssp             EES-
T ss_pred             EECC
Confidence            8864

...

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=97.88  E-value=5.6e-05  Score=69.03  Aligned_cols=51  Identities=22%  Similarity=0.183  Sum_probs=37.6

Q ss_pred             ccccccchhhHHHHHHHhhccCcC-------CCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          168 EEEICGRVGEKNELLSKLLCESSE-------QQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       168 ~~~~vgr~~~~~~l~~~L~~~~~~-------~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+.+.|++..++.+.+.+...-..       +-...+-+.++|++|+|||++|+.+++
T Consensus       130 ~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~  187 (389)
T PRK03992        130 YEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAH  187 (389)
T ss_pred             HHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHH
Confidence            357889999998888765321100       113356788999999999999999987

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.88  E-value=0.00017  Score=59.75  Aligned_cols=121  Identities=18%  Similarity=0.233  Sum_probs=74.1

Q ss_pred             ccccccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHH
Q 048765          166 IDEEEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAK  245 (314)
Q Consensus       166 ~~~~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~  245 (314)
                      .+-..++|.+.+.+.|++.-..=-  .+....-+.+||..|+|||.|++++.+  ++.+.+-..+  .+...        
T Consensus        57 i~L~~l~Gvd~qk~~L~~NT~~F~--~G~pANnVLLwGaRGtGKSSLVKA~~~--e~~~~glrLV--EV~k~--------  122 (287)
T COG2607          57 IDLADLVGVDRQKEALVRNTEQFA--EGLPANNVLLWGARGTGKSSLVKALLN--EYADEGLRLV--EVDKE--------  122 (287)
T ss_pred             cCHHHHhCchHHHHHHHHHHHHHH--cCCcccceEEecCCCCChHHHHHHHHH--HHHhcCCeEE--EEcHH--------
Confidence            344678998888888776533211  124466889999999999999999988  5444443322  22211        


Q ss_pred             HHHHHhcCCCCCCCcHHHHHHHHHHHccCceEEEEEecccc-CCccCHHhHHHhhccC---CCCceEEEecc
Q 048765          246 AMVEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWD-GNYVKWEPFYHCLKNG---LHGSKILVTTR  313 (314)
Q Consensus       246 ~i~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~-~~~~~~~~l~~~l~~~---~~gs~iivTtR  313 (314)
                                 +..++..+...|+.  ..+||.|+.||+.- .....++.|+..|.-+   .+...++..|.
T Consensus       123 -----------dl~~Lp~l~~~Lr~--~~~kFIlFcDDLSFe~gd~~yK~LKs~LeG~ve~rP~NVl~YATS  181 (287)
T COG2607         123 -----------DLATLPDLVELLRA--RPEKFILFCDDLSFEEGDDAYKALKSALEGGVEGRPANVLFYATS  181 (287)
T ss_pred             -----------HHhhHHHHHHHHhc--CCceEEEEecCCCCCCCchHHHHHHHHhcCCcccCCCeEEEEEec
Confidence                       11122222222222  57899999999952 3335788888888633   44454555443

>PRK06835 DNA replication protein DnaC; Validated

Probab=97.88  E-value=5.7e-05  Score=67.04  Aligned_cols=101  Identities=15%  Similarity=0.301  Sum_probs=56.0

Q ss_pred             EEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHccCce
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGKS  276 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~kr  276 (314)
                      ..+.++|..|+|||+||..+++.  ....--.++|+++.      +++..+......   ...+....   + +.+. .-
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~~--l~~~g~~V~y~t~~------~l~~~l~~~~~~---~~~~~~~~---~-~~l~-~~  247 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAKE--LLDRGKSVIYRTAD------ELIEILREIRFN---NDKELEEV---Y-DLLI-NC  247 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHH--HHHCCCeEEEEEHH------HHHHHHHHHHhc---cchhHHHH---H-HHhc-cC
Confidence            56899999999999999999883  33333356666543      333333332111   01111111   2 2222 23


Q ss_pred             EEEEEeccccCCccCHH--hHHHhhccC-CCCceEEEecc
Q 048765          277 FLLVLDDVWDGNYVKWE--PFYHCLKNG-LHGSKILVTTR  313 (314)
Q Consensus       277 ~LlVlDdv~~~~~~~~~--~l~~~l~~~-~~gs~iivTtR  313 (314)
                      =||||||+.......|.  .|...+... .++-.+||||-
T Consensus       248 DLLIIDDlG~e~~t~~~~~~Lf~iin~R~~~~k~tIiTSN  287 (329)
T PRK06835        248 DLLIIDDLGTEKITEFSKSELFNLINKRLLRQKKMIISTN  287 (329)
T ss_pred             CEEEEeccCCCCCCHHHHHHHHHHHHHHHHCCCCEEEECC
Confidence            58999999665434443  355544422 33456888874

>PRK09183 transposase/IS protein; Provisional

Probab=97.87  E-value=9.4e-05  Score=63.64  Aligned_cols=99  Identities=20%  Similarity=0.275  Sum_probs=52.6

Q ss_pred             EEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHccCce
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGKS  276 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~kr  276 (314)
                      ..+.|+|++|+|||+|+..+.....  ..-..+.+++      ..+++..+......     ...   ...++.. -.+.
T Consensus       103 ~~v~l~Gp~GtGKThLa~al~~~a~--~~G~~v~~~~------~~~l~~~l~~a~~~-----~~~---~~~~~~~-~~~~  165 (259)
T PRK09183        103 ENIVLLGPSGVGKTHLAIALGYEAV--RAGIKVRFTT------AADLLLQLSTAQRQ-----GRY---KTTLQRG-VMAP  165 (259)
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHHHH--HcCCeEEEEe------HHHHHHHHHHHHHC-----CcH---HHHHHHH-hcCC
Confidence            4677999999999999999976322  2222333443      23333333222111     111   1222222 2344


Q ss_pred             EEEEEeccccCCccCHH--hHHHhhccC-CCCceEEEecc
Q 048765          277 FLLVLDDVWDGNYVKWE--PFYHCLKNG-LHGSKILVTTR  313 (314)
Q Consensus       277 ~LlVlDdv~~~~~~~~~--~l~~~l~~~-~~gs~iivTtR  313 (314)
                      -++||||+.......+.  .+...+... ..++ +|+||.
T Consensus       166 dlLiiDdlg~~~~~~~~~~~lf~li~~r~~~~s-~iiTsn  204 (259)
T PRK09183        166 RLLIIDEIGYLPFSQEEANLFFQVIAKRYEKGS-MILTSN  204 (259)
T ss_pred             CEEEEcccccCCCChHHHHHHHHHHHHHHhcCc-EEEecC
Confidence            69999999754323333  355544322 3465 888874

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.87  E-value=0.00017  Score=69.52  Aligned_cols=120  Identities=17%  Similarity=0.210  Sum_probs=73.5

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHh---------------------hhhcCc
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEE---------------------VIRKFD  227 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~---------------------~~~~F~  227 (314)
                      .+++|.+...+.|..++....     -...+.++|+.|+||||+|+.+.....                     ...||+
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            468999999999999886532     245678999999999999988755211                     011333


Q ss_pred             eeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHH-ccCceEEEEEeccccCCccCHHhHHHhhccCCCCc
Q 048765          228 KILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYES-IAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGS  306 (314)
Q Consensus       228 ~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~-L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs  306 (314)
                      . ..++.+.......                  +..++..+... ..+++-++|||++.......++.|..++..-..++
T Consensus        92 ~-~~ld~~~~~~vd~------------------Ir~li~~~~~~P~~~~~KVvIIdea~~Ls~~a~naLLK~LEepp~~t  152 (614)
T PRK14971         92 I-HELDAASNNSVDD------------------IRNLIEQVRIPPQIGKYKIYIIDEVHMLSQAAFNAFLKTLEEPPSYA  152 (614)
T ss_pred             e-EEecccccCCHHH------------------HHHHHHHHhhCcccCCcEEEEEECcccCCHHHHHHHHHHHhCCCCCe
Confidence            2 1222222111111                  12222111111 23456689999998776667888988888766667


Q ss_pred             eEEEec
Q 048765          307 KILVTT  312 (314)
Q Consensus       307 ~iivTt  312 (314)
                      .+|++|
T Consensus       153 ifIL~t  158 (614)
T PRK14971        153 IFILAT  158 (614)
T ss_pred             EEEEEe
Confidence            666655

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.86  E-value=0.0002  Score=67.14  Aligned_cols=121  Identities=16%  Similarity=0.196  Sum_probs=70.4

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHh---hhh----------------cCcee
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEE---VIR----------------KFDKI  229 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~---~~~----------------~F~~~  229 (314)
                      .+++|.+.-...|..++....     -...+.++|+.|+||||+|+.++....   ...                .|.-.
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 KEVIGQEIVVRILKNAVKLQR-----VSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKCENCVEIDKGSFPDL   90 (486)
T ss_pred             HHccChHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCccHHHHHHhcCCCCcE
Confidence            468899998999988886533     234567899999999999998765211   000                01111


Q ss_pred             EEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHH-ccCceEEEEEeccccCCccCHHhHHHhhccCCCCceE
Q 048765          230 LWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYES-IAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKI  308 (314)
Q Consensus       230 ~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~-L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~i  308 (314)
                      ++++.+....                  ..+.+.+.+.+... ..+++-++|+|++........+.|...+...++...+
T Consensus        91 ~eidaas~~g------------------vd~ir~I~~~~~~~P~~~~~KVvIIDEad~Lt~~a~naLLk~LEepp~~~v~  152 (486)
T PRK14953         91 IEIDAASNRG------------------IDDIRALRDAVSYTPIKGKYKVYIIDEAHMLTKEAFNALLKTLEEPPPRTIF  152 (486)
T ss_pred             EEEeCccCCC------------------HHHHHHHHHHHHhCcccCCeeEEEEEChhhcCHHHHHHHHHHHhcCCCCeEE
Confidence            1121111111                  11122232222211 2466779999999766545567787777765555555


Q ss_pred             EEec
Q 048765          309 LVTT  312 (314)
Q Consensus       309 ivTt  312 (314)
                      |++|
T Consensus       153 Il~t  156 (486)
T PRK14953        153 ILCT  156 (486)
T ss_pred             EEEE
Confidence            5554

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=97.85  E-value=0.0001  Score=68.42  Aligned_cols=101  Identities=21%  Similarity=0.294  Sum_probs=58.3

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhc-Cc-eeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHcc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRK-FD-KILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIA  273 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~-F~-~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~  273 (314)
                      ..-+.|+|..|+|||+|++.+++.  .... .. .+.|++.      .+++..+...+...     ...    .+.+.+.
T Consensus       130 ~n~l~lyG~~G~GKTHLl~ai~~~--l~~~~~~~~v~yi~~------~~f~~~~~~~~~~~-----~~~----~f~~~~~  192 (440)
T PRK14088        130 YNPLFIYGGVGLGKTHLLQSIGNY--VVQNEPDLRVMYITS------EKFLNDLVDSMKEG-----KLN----EFREKYR  192 (440)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHHH--HHHhCCCCeEEEEEH------HHHHHHHHHHHhcc-----cHH----HHHHHHH
Confidence            445899999999999999999984  3332 32 4566643      45566666655321     122    2333333


Q ss_pred             CceEEEEEeccccCC-ccCH-HhHHHhhccC-CCCceEEEecc
Q 048765          274 GKSFLLVLDDVWDGN-YVKW-EPFYHCLKNG-LHGSKILVTTR  313 (314)
Q Consensus       274 ~kr~LlVlDdv~~~~-~~~~-~~l~~~l~~~-~~gs~iivTtR  313 (314)
                      .+.-+|+|||+.... ...+ ..+...+... ..|..||+||.
T Consensus       193 ~~~dvLlIDDi~~l~~~~~~q~elf~~~n~l~~~~k~iIitsd  235 (440)
T PRK14088        193 KKVDVLLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSD  235 (440)
T ss_pred             hcCCEEEEechhhhcCcHHHHHHHHHHHHHHHHcCCeEEEECC
Confidence            345689999996431 1112 2344443211 23456888874

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.84  E-value=0.00017  Score=69.08  Aligned_cols=132  Identities=14%  Similarity=0.199  Sum_probs=72.7

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMV  248 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  248 (314)
                      ++++|.+.-...|...+....     -...+.++|+.|+||||+|+.+....--....+.   -.|...    .....|.
T Consensus        16 ~~iiGq~~v~~~L~~~i~~~~-----~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~---~~c~~c----~~c~~i~   83 (576)
T PRK14965         16 SDLTGQEHVSRTLQNAIDTGR-----VAHAFLFTGARGVGKTSTARILAKALNCEQGLTA---EPCNVC----PPCVEIT   83 (576)
T ss_pred             HHccCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCC---CCCCcc----HHHHHHh
Confidence            569999988888888886532     2456679999999999999888653110000000   000000    0000000


Q ss_pred             HH-------hcCC-CCCCCcHHHHHHHHHHH-ccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEec
Q 048765          249 EA-------LDGH-ESHLGEFQSLLRHIYES-IAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTT  312 (314)
Q Consensus       249 ~~-------~~~~-~~~~~~~~~~~~~l~~~-L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTt  312 (314)
                      ..       +.+. .....+++++...+... ..+++-++|||++........+.|...+........+|++|
T Consensus        84 ~g~~~d~~eid~~s~~~v~~ir~l~~~~~~~p~~~~~KVvIIdev~~Lt~~a~naLLk~LEepp~~~~fIl~t  156 (576)
T PRK14965         84 EGRSVDVFEIDGASNTGVDDIRELRENVKYLPSRSRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFAT  156 (576)
T ss_pred             cCCCCCeeeeeccCccCHHHHHHHHHHHHhccccCCceEEEEEChhhCCHHHHHHHHHHHHcCCCCeEEEEEe
Confidence            00       0000 00111233333333211 23566689999998776566788888887666666666655

>PRK08118 topology modulation protein; Reviewed

Probab=97.83  E-value=1e-05  Score=64.82  Aligned_cols=35  Identities=31%  Similarity=0.614  Sum_probs=28.0

Q ss_pred             EEEEEccCCCChHHHHHHhhchHhhh-hcCceeEEE
Q 048765          198 IISIVGMGGIGKTTLAQLACNHEEVI-RKFDKILWV  232 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~~~~~-~~F~~~~wv  232 (314)
                      -|.|+|++|+||||||+.+++..... -+||..+|-
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~~   38 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFWK   38 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCceecchhhcc
Confidence            58899999999999999999854443 457877753

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.82  E-value=0.00016  Score=68.92  Aligned_cols=132  Identities=13%  Similarity=0.139  Sum_probs=69.2

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMV  248 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  248 (314)
                      .+++|.+..+..|...+....     -...+.++|+.|+||||+|+.+....--....+..   .|...    ..-+.|.
T Consensus        16 ~dIiGQe~v~~~L~~ai~~~r-----i~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~~~---pCg~C----~sC~~i~   83 (624)
T PRK14959         16 AEVAGQETVKAILSRAAQENR-----VAPAYLFSGTRGVGKTTIARIFAKALNCETAPTGE---PCNTC----EQCRKVT   83 (624)
T ss_pred             HHhcCCHHHHHHHHHHHHcCC-----CCceEEEECCCCCCHHHHHHHHHHhccccCCCCCC---CCccc----HHHHHHh
Confidence            468898877777777775432     24677889999999999999887632100000000   00000    0001111


Q ss_pred             HHhcCC--------CCCCCcHHHHHHHHHH-HccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEec
Q 048765          249 EALDGH--------ESHLGEFQSLLRHIYE-SIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTT  312 (314)
Q Consensus       249 ~~~~~~--------~~~~~~~~~~~~~l~~-~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTt  312 (314)
                      ......        .....+.+.+.+.+.. -..+++-+||||++........+.|...+........+|++|
T Consensus        84 ~g~hpDv~eId~a~~~~Id~iR~L~~~~~~~p~~g~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifILaT  156 (624)
T PRK14959         84 QGMHVDVVEIDGASNRGIDDAKRLKEAIGYAPMEGRYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLAT  156 (624)
T ss_pred             cCCCCceEEEecccccCHHHHHHHHHHHHhhhhcCCceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEEec
Confidence            000000        0001112222222221 124567799999998776556777888776544455566655

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=97.82  E-value=0.0003  Score=65.67  Aligned_cols=100  Identities=24%  Similarity=0.331  Sum_probs=55.7

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcC--ceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHcc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKF--DKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIA  273 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F--~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~  273 (314)
                      ..-+.|+|+.|+|||+|++.+.+.  ....+  -.++|++..      ++...+...+...     ..    ..+.+.+.
T Consensus       148 ~~~l~l~G~~G~GKThL~~ai~~~--~~~~~~~~~v~yi~~~------~~~~~~~~~~~~~-----~~----~~~~~~~~  210 (450)
T PRK00149        148 YNPLFIYGGVGLGKTHLLHAIGNY--ILEKNPNAKVVYVTSE------KFTNDFVNALRNN-----TM----EEFKEKYR  210 (450)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH--HHHhCCCCeEEEEEHH------HHHHHHHHHHHcC-----cH----HHHHHHHh
Confidence            456889999999999999999884  43333  345566443      3344444444221     11    22333333


Q ss_pred             CceEEEEEeccccCCccC--HHhHHHhhccC-CCCceEEEecc
Q 048765          274 GKSFLLVLDDVWDGNYVK--WEPFYHCLKNG-LHGSKILVTTR  313 (314)
Q Consensus       274 ~kr~LlVlDdv~~~~~~~--~~~l~~~l~~~-~~gs~iivTtR  313 (314)
                       +.-+|+|||+.......  .+.+...+... ..|..||+||.
T Consensus       211 -~~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~~~~~~iiits~  252 (450)
T PRK00149        211 -SVDVLLIDDIQFLAGKERTQEEFFHTFNALHEAGKQIVLTSD  252 (450)
T ss_pred             -cCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCcEEEECC
Confidence             34489999996532111  12344433211 23556888774

>CHL00095 clpC Clp protease ATP binding subunit

Probab=97.81  E-value=0.00011  Score=73.38  Aligned_cols=124  Identities=15%  Similarity=0.216  Sum_probs=71.8

Q ss_pred             cccccchhhHHHHHHHhhccCc---CCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESS---EQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAK  245 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~  245 (314)
                      ..++|.+..++.+...+.....   ........+.++|+.|+|||+||+.+..  ..-..-...+-++++.......+  
T Consensus       509 ~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~--~l~~~~~~~~~~d~s~~~~~~~~--  584 (821)
T CHL00095        509 KRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALAS--YFFGSEDAMIRLDMSEYMEKHTV--  584 (821)
T ss_pred             CcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHH--HhcCCccceEEEEchhccccccH--
Confidence            4688999989988887753211   1113345677899999999999999876  22111123445555543322211  


Q ss_pred             HHHHHhcCCCCCC--CcHHHHHHHHHHHccCc-eEEEEEeccccCCccCHHhHHHhhccC
Q 048765          246 AMVEALDGHESHL--GEFQSLLRHIYESIAGK-SFLLVLDDVWDGNYVKWEPFYHCLKNG  302 (314)
Q Consensus       246 ~i~~~~~~~~~~~--~~~~~~~~~l~~~L~~k-r~LlVlDdv~~~~~~~~~~l~~~l~~~  302 (314)
                        ...++..+...  ....    .+.+.+..+ ..+|+||++...+...++.|...|..+
T Consensus       585 --~~l~g~~~gyvg~~~~~----~l~~~~~~~p~~VvllDeieka~~~v~~~Llq~le~g  638 (821)
T CHL00095        585 --SKLIGSPPGYVGYNEGG----QLTEAVRKKPYTVVLFDEIEKAHPDIFNLLLQILDDG  638 (821)
T ss_pred             --HHhcCCCCcccCcCccc----hHHHHHHhCCCeEEEECChhhCCHHHHHHHHHHhccC
Confidence              11122211111  1112    233344333 369999999988777788888877654

>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=97.80  E-value=0.00021  Score=58.83  Aligned_cols=127  Identities=23%  Similarity=0.249  Sum_probs=63.5

Q ss_pred             cchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcC----ccc-----cHHH-
Q 048765          173 GRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVS----ETF-----EEFR-  242 (314)
Q Consensus       173 gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~----~~~-----~~~~-  242 (314)
                      ++..+-...++.|..        ..++.+.|++|+|||.||....-+.-..++|+.++++.-.    +..     +..+ 
T Consensus         4 p~~~~Q~~~~~al~~--------~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v~~~~~lGflpG~~~eK   75 (205)
T PF02562_consen    4 PKNEEQKFALDALLN--------NDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPVEAGEDLGFLPGDLEEK   75 (205)
T ss_dssp             --SHHHHHHHHHHHH---------SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--TT----SS-------
T ss_pred             CCCHHHHHHHHHHHh--------CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCCCCccccccCCCCHHHH
Confidence            345555666666652        3589999999999999998887665455788888877421    111     1000 


Q ss_pred             ---HHHHHHHHhcCCCCCCCcHHHHHHHH------HHHccCc---eEEEEEeccccCCccCHHhHHHhhccCCCCceEEE
Q 048765          243 ---VAKAMVEALDGHESHLGEFQSLLRHI------YESIAGK---SFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILV  310 (314)
Q Consensus       243 ---~~~~i~~~~~~~~~~~~~~~~~~~~l------~~~L~~k---r~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiv  310 (314)
                         .+.-+...+..-. .....+.+.+.=      ..+++|.   ..+||+|++.+..   -.++...+-....|||||+
T Consensus        76 ~~p~~~p~~d~l~~~~-~~~~~~~~~~~~~Ie~~~~~~iRGrt~~~~~iIvDEaQN~t---~~~~k~ilTR~g~~skii~  151 (205)
T PF02562_consen   76 MEPYLRPIYDALEELF-GKEKLEELIQNGKIEIEPLAFIRGRTFDNAFIIVDEAQNLT---PEELKMILTRIGEGSKIII  151 (205)
T ss_dssp             --TTTHHHHHHHTTTS--TTCHHHHHHTTSEEEEEGGGGTT--B-SEEEEE-SGGG-----HHHHHHHHTTB-TT-EEEE
T ss_pred             HHHHHHHHHHHHHHHh-ChHhHHHHhhcCeEEEEehhhhcCccccceEEEEecccCCC---HHHHHHHHcccCCCcEEEE
Confidence               1111111111100 111222222110      1344554   4699999997754   3556666766678999998


Q ss_pred             e
Q 048765          311 T  311 (314)
Q Consensus       311 T  311 (314)
                      +
T Consensus       152 ~  152 (205)
T PF02562_consen  152 T  152 (205)
T ss_dssp             E
T ss_pred             e
Confidence            6

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

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=97.79  E-value=0.00014  Score=60.44  Aligned_cols=88  Identities=18%  Similarity=0.216  Sum_probs=55.8

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHh-c---CC-----CCCCCcHHHH
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEAL-D---GH-----ESHLGEFQSL  264 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~-~---~~-----~~~~~~~~~~  264 (314)
                      +.-.++.|+|++|+|||+++.+++..  .......++|++... +....+.+. +... .   ..     .....+....
T Consensus        10 ~~g~i~~i~G~~GsGKT~l~~~~~~~--~~~~g~~v~yi~~e~-~~~~rl~~~-~~~~~~~~~~~i~~~~~~~~~~~~~~   85 (209)
T TIGR02237        10 ERGTITQIYGPPGSGKTNICMILAVN--AARQGKKVVYIDTEG-LSPERFKQI-AEDRPERALSNFIVFEVFDFDEQGVA   85 (209)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH--HHhCCCeEEEEECCC-CCHHHHHHH-HHhChHHHhcCEEEEECCCHHHHHHH
Confidence            45689999999999999999988763  333457899999876 555554433 2221 1   00     1111222334


Q ss_pred             HHHHHHHccC-ceEEEEEeccc
Q 048765          265 LRHIYESIAG-KSFLLVLDDVW  285 (314)
Q Consensus       265 ~~~l~~~L~~-kr~LlVlDdv~  285 (314)
                      ...+.+.+.. +.-+||+|.+-
T Consensus        86 ~~~l~~~~~~~~~~lvVIDSis  107 (209)
T TIGR02237        86 IQKTSKFIDRDSASLVVVDSFT  107 (209)
T ss_pred             HHHHHHHHhhcCccEEEEeCcH
Confidence            5555555543 56699999984

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

>CHL00095 clpC Clp protease ATP binding subunit

Probab=97.79  E-value=0.00022  Score=71.38  Aligned_cols=45  Identities=22%  Similarity=0.326  Sum_probs=38.0

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..++||+.+++.+++.|....      ...+.++|++|+|||++|+.++..
T Consensus       179 ~~~igr~~ei~~~~~~L~r~~------~~n~lL~G~pGvGKTal~~~la~~  223 (821)
T CHL00095        179 DPVIGREKEIERVIQILGRRT------KNNPILIGEPGVGKTAIAEGLAQR  223 (821)
T ss_pred             CCCCCcHHHHHHHHHHHcccc------cCCeEEECCCCCCHHHHHHHHHHH
Confidence            458999999999999997643      345579999999999999998774

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

Probab=97.79  E-value=7.9e-05  Score=72.20  Aligned_cols=126  Identities=14%  Similarity=0.268  Sum_probs=77.7

Q ss_pred             cccccchhhHHHHHHHhhccCcC---CCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSE---QQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAK  245 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~---~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~  245 (314)
                      ..++|.+..++.+.+.+.....+   ......+...+|+.|+|||.||+.++.  ..-+.=+..+-+++|+.....    
T Consensus       491 ~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~--~Lfg~e~aliR~DMSEy~EkH----  564 (786)
T COG0542         491 KRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAE--ALFGDEQALIRIDMSEYMEKH----  564 (786)
T ss_pred             cceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHH--HhcCCCccceeechHHHHHHH----
Confidence            46899999999988887643322   234566777899999999999999876  221111455556666543222    


Q ss_pred             HHHHHhcCCCCCCCcHHHHHHHHHHHccCceE-EEEEeccccCCccCHHhHHHhhccC
Q 048765          246 AMVEALDGHESHLGEFQSLLRHIYESIAGKSF-LLVLDDVWDGNYVKWEPFYHCLKNG  302 (314)
Q Consensus       246 ~i~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~-LlVlDdv~~~~~~~~~~l~~~l~~~  302 (314)
                      .+.+-++..+......+  -..|-+.++.++| +|.||+|.+.+++..+-+...|.++
T Consensus       565 sVSrLIGaPPGYVGyee--GG~LTEaVRr~PySViLlDEIEKAHpdV~nilLQVlDdG  620 (786)
T COG0542         565 SVSRLIGAPPGYVGYEE--GGQLTEAVRRKPYSVILLDEIEKAHPDVFNLLLQVLDDG  620 (786)
T ss_pred             HHHHHhCCCCCCceecc--ccchhHhhhcCCCeEEEechhhhcCHHHHHHHHHHhcCC
Confidence            22333443332221111  1223344566666 9999999887766777777777654

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=97.78  E-value=0.00038  Score=62.88  Aligned_cols=136  Identities=18%  Similarity=0.150  Sum_probs=75.7

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeE------EEEcCccccHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKIL------WVCVSETFEEFR  242 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~------wv~~~~~~~~~~  242 (314)
                      ..++|.+.....|.+.+....     -...+.++|+.|+||+++|..+....--........      -..+....   .
T Consensus        19 ~~iiGq~~~~~~L~~~~~~~r-----l~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~~l~~~~~c---~   90 (365)
T PRK07471         19 TALFGHAAAEAALLDAYRSGR-----LHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPTSLAIDPDH---P   90 (365)
T ss_pred             hhccChHHHHHHHHHHHHcCC-----CCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccccccccCCCCC---h
Confidence            568999998888988886532     245688999999999999987765211001000000      00000000   0


Q ss_pred             HHHHHHHHhcCC----CC---CC-----C--cHHHHHHHHHHHc-----cCceEEEEEeccccCCccCHHhHHHhhccCC
Q 048765          243 VAKAMVEALDGH----ES---HL-----G--EFQSLLRHIYESI-----AGKSFLLVLDDVWDGNYVKWEPFYHCLKNGL  303 (314)
Q Consensus       243 ~~~~i~~~~~~~----~~---~~-----~--~~~~~~~~l~~~L-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~  303 (314)
                      ..+.+...-...    .+   ..     .  ..++ +..+.+++     .+.+-++|||++...+....+.|...+....
T Consensus        91 ~c~~i~~~~HPDl~~i~~~~~~~~~~~~~~I~Vdq-iR~l~~~~~~~~~~~~~kVviIDead~m~~~aanaLLK~LEepp  169 (365)
T PRK07471         91 VARRIAAGAHGGLLTLERSWNEKGKRLRTVITVDE-VRELISFFGLTAAEGGWRVVIVDTADEMNANAANALLKVLEEPP  169 (365)
T ss_pred             HHHHHHccCCCCeEEEecccccccccccccccHHH-HHHHHHHhCcCcccCCCEEEEEechHhcCHHHHHHHHHHHhcCC
Confidence            111111111100    00   00     0  1122 23333333     3566799999999887777888888887665


Q ss_pred             CCceEEEecc
Q 048765          304 HGSKILVTTR  313 (314)
Q Consensus       304 ~gs~iivTtR  313 (314)
                      .++.+|++|.
T Consensus       170 ~~~~~IL~t~  179 (365)
T PRK07471        170 ARSLFLLVSH  179 (365)
T ss_pred             CCeEEEEEEC
Confidence            6676777765

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=97.77  E-value=0.00016  Score=66.99  Aligned_cols=100  Identities=23%  Similarity=0.273  Sum_probs=56.5

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHccCc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGK  275 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~k  275 (314)
                      ..-+.|+|+.|+|||+|++.+++.  .......+++++      ...+...+...+...     .    ...++..+. .
T Consensus       141 ~npl~L~G~~G~GKTHLl~Ai~~~--l~~~~~~v~yi~------~~~f~~~~~~~l~~~-----~----~~~f~~~~~-~  202 (445)
T PRK12422        141 FNPIYLFGPEGSGKTHLMQAAVHA--LRESGGKILYVR------SELFTEHLVSAIRSG-----E----MQRFRQFYR-N  202 (445)
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHH--HHHcCCCEEEee------HHHHHHHHHHHHhcc-----h----HHHHHHHcc-c
Confidence            456889999999999999999884  333233455554      334444555554321     1    123333333 3


Q ss_pred             eEEEEEeccccCCccC--HHhHHHhhccC-CCCceEEEecc
Q 048765          276 SFLLVLDDVWDGNYVK--WEPFYHCLKNG-LHGSKILVTTR  313 (314)
Q Consensus       276 r~LlVlDdv~~~~~~~--~~~l~~~l~~~-~~gs~iivTtR  313 (314)
                      .-+|+|||+.......  .+.+...+... ..|..||+||.
T Consensus       203 ~dvLiIDDiq~l~~k~~~qeelf~l~N~l~~~~k~IIlts~  243 (445)
T PRK12422        203 VDALFIEDIEVFSGKGATQEEFFHTFNSLHTEGKLIVISST  243 (445)
T ss_pred             CCEEEEcchhhhcCChhhHHHHHHHHHHHHHCCCcEEEecC
Confidence            4588999986542111  23344443211 23556888874

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=97.76  E-value=0.00012  Score=65.73  Aligned_cols=136  Identities=15%  Similarity=0.111  Sum_probs=76.4

Q ss_pred             ccccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhh--hcCceeEEEEcCccccHHHHHH
Q 048765          168 EEEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVI--RKFDKILWVCVSETFEEFRVAK  245 (314)
Q Consensus       168 ~~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~--~~F~~~~wv~~~~~~~~~~~~~  245 (314)
                      ...++|.+.....|...+....     -...+.|+|+.|+||||+|+.+....--.  ..+...   ....+...-...+
T Consensus        22 ~~~l~Gh~~a~~~L~~a~~~gr-----l~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~---~~~~~~~~c~~c~   93 (351)
T PRK09112         22 NTRLFGHEEAEAFLAQAYREGK-----LHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPE---TLADPDPASPVWR   93 (351)
T ss_pred             hhhccCcHHHHHHHHHHHHcCC-----CCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCcc---ccCCCCCCCHHHH
Confidence            3578999999999999886532     34568899999999999998886632110  001111   0011111111222


Q ss_pred             HHHHHhcCC---------CC-----CCCcHHHHHHHHHHHc-----cCceEEEEEeccccCCccCHHhHHHhhccCCCCc
Q 048765          246 AMVEALDGH---------ES-----HLGEFQSLLRHIYESI-----AGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGS  306 (314)
Q Consensus       246 ~i~~~~~~~---------~~-----~~~~~~~~~~~l~~~L-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs  306 (314)
                      .+...-.+.         ..     ..-..++ +..+.+++     .+++-++|||++...+....+.|...+.......
T Consensus        94 ~i~~~~hPdl~~l~~~~~~~~~~~~~~I~vd~-iR~l~~~l~~~~~~g~~rVviIDeAd~l~~~aanaLLk~LEEpp~~~  172 (351)
T PRK09112         94 QIAQGAHPNLLHITRPFDEKTGKFKTAITVDE-IRRVGHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLEEPPARA  172 (351)
T ss_pred             HHHcCCCCCEEEeecccccccccccccCCHHH-HHHHHHHhhhccccCCceEEEEEchhhcCHHHHHHHHHHHhcCCCCc
Confidence            222221100         00     0001122 22334443     3567799999998887677788888887654455


Q ss_pred             eEEEec
Q 048765          307 KILVTT  312 (314)
Q Consensus       307 ~iivTt  312 (314)
                      .+|++|
T Consensus       173 ~fiLit  178 (351)
T PRK09112        173 LFILIS  178 (351)
T ss_pred             eEEEEE
Confidence            555554

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

Probab=97.75  E-value=0.00014  Score=62.28  Aligned_cols=82  Identities=21%  Similarity=0.266  Sum_probs=50.4

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHccC
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAG  274 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~  274 (314)
                      +..-+.++|.+|+|||.||..+.+..  ...--.+.++      +..+++..+...+...     ..   ...+...+ .
T Consensus       104 ~~~nl~l~G~~G~GKThLa~Ai~~~l--~~~g~sv~f~------~~~el~~~Lk~~~~~~-----~~---~~~l~~~l-~  166 (254)
T COG1484         104 RGENLVLLGPPGVGKTHLAIAIGNEL--LKAGISVLFI------TAPDLLSKLKAAFDEG-----RL---EEKLLREL-K  166 (254)
T ss_pred             cCCcEEEECCCCCcHHHHHHHHHHHH--HHcCCeEEEE------EHHHHHHHHHHHHhcC-----ch---HHHHHHHh-h
Confidence            35678999999999999999998843  3333345555      4445555665555321     11   11222211 2


Q ss_pred             ceEEEEEeccccCCccCHH
Q 048765          275 KSFLLVLDDVWDGNYVKWE  293 (314)
Q Consensus       275 kr~LlVlDdv~~~~~~~~~  293 (314)
                      +-=||||||+.......|.
T Consensus       167 ~~dlLIiDDlG~~~~~~~~  185 (254)
T COG1484         167 KVDLLIIDDIGYEPFSQEE  185 (254)
T ss_pred             cCCEEEEecccCccCCHHH
Confidence            3459999999775555555

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=97.75  E-value=0.00025  Score=59.80  Aligned_cols=88  Identities=18%  Similarity=0.167  Sum_probs=54.0

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHH--------hcCC-CCCCCcHHHH
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEA--------LDGH-ESHLGEFQSL  264 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~--------~~~~-~~~~~~~~~~  264 (314)
                      +.-.++.|+|.+|+|||+++.+++..  .......++|++.. .+....+. ++...        +... .....+..+.
T Consensus        21 ~~g~i~~i~G~~GsGKT~l~~~la~~--~~~~~~~v~yi~~e-~~~~~r~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (225)
T PRK09361         21 ERGTITQIYGPPGSGKTNICLQLAVE--AAKNGKKVIYIDTE-GLSPERFK-QIAGEDFEELLSNIIIFEPSSFEEQSEA   96 (225)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH--HHHCCCeEEEEECC-CCCHHHHH-HHHhhChHhHhhCeEEEeCCCHHHHHHH
Confidence            45679999999999999999998763  33345678999887 55554432 22221        1000 1111122333


Q ss_pred             HHHHHHHccCceEEEEEeccc
Q 048765          265 LRHIYESIAGKSFLLVLDDVW  285 (314)
Q Consensus       265 ~~~l~~~L~~kr~LlVlDdv~  285 (314)
                      ++.+...+..+.-++|+|.+-
T Consensus        97 i~~~~~~~~~~~~lvVIDsi~  117 (225)
T PRK09361         97 IRKAEKLAKENVGLIVLDSAT  117 (225)
T ss_pred             HHHHHHHHHhcccEEEEeCcH
Confidence            444444444677799999983

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=97.74  E-value=0.00043  Score=65.17  Aligned_cols=118  Identities=17%  Similarity=0.173  Sum_probs=72.1

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhh--h------------------hcCce
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEV--I------------------RKFDK  228 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~--~------------------~~F~~  228 (314)
                      .+++|.+.-...|...+....     -.....++|+.|+||||+|+.+....--  .                  .|++ 
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            468998888888888886432     3456689999999999999987652100  0                  0111 


Q ss_pred             eEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHH--H--ccCceEEEEEeccccCCccCHHhHHHhhccCCC
Q 048765          229 ILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYE--S--IAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLH  304 (314)
Q Consensus       229 ~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~--~--L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~  304 (314)
                      ++.++.+...                     ..+++.+.+..  +  ..+++-++|||++........+.|...+...+.
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            1112111111                     12222222211  0  125667999999988766677888888876666


Q ss_pred             CceEEEecc
Q 048765          305 GSKILVTTR  313 (314)
Q Consensus       305 gs~iivTtR  313 (314)
                      .+++|++|.
T Consensus       147 ~t~FIL~tt  155 (535)
T PRK08451        147 YVKFILATT  155 (535)
T ss_pred             ceEEEEEEC
Confidence            777777664

>PRK04296 thymidine kinase; Provisional

Probab=97.73  E-value=0.00011  Score=60.21  Aligned_cols=111  Identities=13%  Similarity=0.014  Sum_probs=59.3

Q ss_pred             EEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCC--CCcHHHHHHHHHHHccC
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESH--LGEFQSLLRHIYESIAG  274 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~--~~~~~~~~~~l~~~L~~  274 (314)
                      .++.|+|+.|.||||++..+...  ...+...++.+.  ..++.......+++.++.....  .....++...+.+ ..+
T Consensus         3 ~i~litG~~GsGKTT~~l~~~~~--~~~~g~~v~i~k--~~~d~~~~~~~i~~~lg~~~~~~~~~~~~~~~~~~~~-~~~   77 (190)
T PRK04296          3 KLEFIYGAMNSGKSTELLQRAYN--YEERGMKVLVFK--PAIDDRYGEGKVVSRIGLSREAIPVSSDTDIFELIEE-EGE   77 (190)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHH--HHHcCCeEEEEe--ccccccccCCcEecCCCCcccceEeCChHHHHHHHHh-hCC
Confidence            46789999999999999888773  333333344342  1112222233345555432111  2334455555554 334


Q ss_pred             ceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEeccC
Q 048765          275 KSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTRK  314 (314)
Q Consensus       275 kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR~  314 (314)
                      +.-+||+|.+.-.+.+...++...+  ...|-.||+|.++
T Consensus        78 ~~dvviIDEaq~l~~~~v~~l~~~l--~~~g~~vi~tgl~  115 (190)
T PRK04296         78 KIDCVLIDEAQFLDKEQVVQLAEVL--DDLGIPVICYGLD  115 (190)
T ss_pred             CCCEEEEEccccCCHHHHHHHHHHH--HHcCCeEEEEecC
Confidence            5569999999443211122233332  2457778888653

>TIGR00763 lon ATP-dependent protease La

Probab=97.72  E-value=0.0014  Score=65.33  Aligned_cols=50  Identities=26%  Similarity=0.346  Sum_probs=37.2

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..++|.+...+.+.+++.........+..++.++|++|+|||++|+.++.
T Consensus       320 ~~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~  369 (775)
T TIGR00763       320 EDHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAK  369 (775)
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHH
Confidence            45889888888888876532211112345789999999999999999987

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.

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=97.71  E-value=0.00022  Score=71.28  Aligned_cols=45  Identities=22%  Similarity=0.333  Sum_probs=38.0

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..++||+.++.+++..|....      ...+.++|++|+|||++|+.++..
T Consensus       187 d~~iGr~~ei~~~i~~l~r~~------~~n~lLvG~pGvGKTal~~~La~~  231 (852)
T TIGR03345       187 DPVLGRDDEIRQMIDILLRRR------QNNPILTGEAGVGKTAVVEGLALR  231 (852)
T ss_pred             CcccCCHHHHHHHHHHHhcCC------cCceeEECCCCCCHHHHHHHHHHH
Confidence            468999999999999987643      345669999999999999999873

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=97.70  E-value=0.00039  Score=61.87  Aligned_cols=124  Identities=16%  Similarity=0.155  Sum_probs=73.2

Q ss_pred             ccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhh-------------------cCceeE
Q 048765          170 EICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIR-------------------KFDKIL  230 (314)
Q Consensus       170 ~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~-------------------~F~~~~  230 (314)
                      .++|.+.....+..+.....    .....+.++|++|+||||+|..+....--..                   .+.-+.
T Consensus         2 ~~~~~~~~~~~l~~~~~~~~----~~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~l   77 (325)
T COG0470           2 ELVPWQEAVKRLLVQALESG----RLPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFL   77 (325)
T ss_pred             CcccchhHHHHHHHHHHhcC----CCCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceE
Confidence            35677777888888877543    1233588999999999999988876321000                   012233


Q ss_pred             EEEcCcccc---HHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHccCceEEEEEeccccCCccCHHhHHHhhccCCCCce
Q 048765          231 WVCVSETFE---EFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSK  307 (314)
Q Consensus       231 wv~~~~~~~---~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~  307 (314)
                      .++.+....   ..+..+.+.+......                ..++.-+++||+++......-..+...+......+.
T Consensus        78 el~~s~~~~~~i~~~~vr~~~~~~~~~~----------------~~~~~kviiidead~mt~~A~nallk~lEep~~~~~  141 (325)
T COG0470          78 ELNPSDLRKIDIIVEQVRELAEFLSESP----------------LEGGYKVVIIDEADKLTEDAANALLKTLEEPPKNTR  141 (325)
T ss_pred             EecccccCCCcchHHHHHHHHHHhccCC----------------CCCCceEEEeCcHHHHhHHHHHHHHHHhccCCCCeE
Confidence            333333222   1222222222221110                035678999999987765556667777766666778


Q ss_pred             EEEecc
Q 048765          308 ILVTTR  313 (314)
Q Consensus       308 iivTtR  313 (314)
                      +|++|.
T Consensus       142 ~il~~n  147 (325)
T COG0470         142 FILITN  147 (325)
T ss_pred             EEEEcC
Confidence            887764

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.69  E-value=0.00043  Score=66.77  Aligned_cols=134  Identities=14%  Similarity=0.191  Sum_probs=72.8

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMV  248 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  248 (314)
                      ..++|.+.....|..++....     -...+.++|+.|+||||+|+.++...--. .+....    ...+..-...+.+.
T Consensus        16 ~~liGq~~i~~~L~~~l~~~r-----l~~a~Lf~Gp~G~GKttlA~~lAk~L~c~-~~~~~~----~~~Cg~C~~C~~i~   85 (620)
T PRK14948         16 DELVGQEAIATTLKNALISNR-----IAPAYLFTGPRGTGKTSSARILAKSLNCL-NSDKPT----PEPCGKCELCRAIA   85 (620)
T ss_pred             hhccChHHHHHHHHHHHHcCC-----CCceEEEECCCCCChHHHHHHHHHHhcCC-CcCCCC----CCCCcccHHHHHHh
Confidence            468899888888888886532     23467899999999999999987632110 000000    00111111111221


Q ss_pred             HHhcCC-----C---CCCCcHHHHHHHHHHH-ccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEec
Q 048765          249 EALDGH-----E---SHLGEFQSLLRHIYES-IAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTT  312 (314)
Q Consensus       249 ~~~~~~-----~---~~~~~~~~~~~~l~~~-L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTt  312 (314)
                      ...+..     .   .....+++++..+... ..+++-++|||++.......++.|...+........+|++|
T Consensus        86 ~g~h~D~~ei~~~~~~~vd~IReii~~a~~~p~~~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~t  158 (620)
T PRK14948         86 AGNALDVIEIDAASNTGVDNIRELIERAQFAPVQARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLAT  158 (620)
T ss_pred             cCCCccEEEEeccccCCHHHHHHHHHHHhhChhcCCceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEEe
Confidence            111110     0   0111223333222211 13566799999998776567788888887655455555554

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=97.69  E-value=0.00039  Score=64.70  Aligned_cols=120  Identities=18%  Similarity=0.222  Sum_probs=70.3

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhh---------------------hcCc
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVI---------------------RKFD  227 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~---------------------~~F~  227 (314)
                      .+++|.+..+..|..++....     -...+.++|+.|+||||+|+.+....--.                     .+++
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            468999998998888886532     24567889999999999998886521100                     0111


Q ss_pred             eeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHH-ccCceEEEEEeccccCCccCHHhHHHhhccCCCCc
Q 048765          228 KILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYES-IAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGS  306 (314)
Q Consensus       228 ~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~-L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs  306 (314)
                       .++++......                  ..+...+.+.+... ..+++-++|+|++........+.|..++.......
T Consensus        92 -~~~i~g~~~~g------------------id~ir~i~~~l~~~~~~~~~kvvIIdead~lt~~~~n~LLk~lEep~~~~  152 (451)
T PRK06305         92 -VLEIDGASHRG------------------IEDIRQINETVLFTPSKSRYKIYIIDEVHMLTKEAFNSLLKTLEEPPQHV  152 (451)
T ss_pred             -eEEeeccccCC------------------HHHHHHHHHHHHhhhhcCCCEEEEEecHHhhCHHHHHHHHHHhhcCCCCc
Confidence             11111111111                  11122222222111 23567789999997665445667888887655566


Q ss_pred             eEEEec
Q 048765          307 KILVTT  312 (314)
Q Consensus       307 ~iivTt  312 (314)
                      .+|++|
T Consensus       153 ~~Il~t  158 (451)
T PRK06305        153 KFFLAT  158 (451)
T ss_pred             eEEEEe
Confidence            666665

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

Probab=97.68  E-value=0.00026  Score=67.34  Aligned_cols=106  Identities=21%  Similarity=0.360  Sum_probs=66.5

Q ss_pred             ccccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHH
Q 048765          168 EEEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAM  247 (314)
Q Consensus       168 ~~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i  247 (314)
                      +.+-+|-++-.++|++.|........-+-.++.+||++|+|||.|++.++.  ...+.|-.   +.++.-.+..+|    
T Consensus       322 d~dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~--al~RkfvR---~sLGGvrDEAEI----  392 (782)
T COG0466         322 DKDHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAK--ALGRKFVR---ISLGGVRDEAEI----  392 (782)
T ss_pred             cccccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHH--HhCCCEEE---EecCccccHHHh----
Confidence            356789999999999998764433345567999999999999999999987  56666632   233332222221    


Q ss_pred             HHHhcCC-CCCCCcH-HHHHHHHHHHccCceEEEEEeccccC
Q 048765          248 VEALDGH-ESHLGEF-QSLLRHIYESIAGKSFLLVLDDVWDG  287 (314)
Q Consensus       248 ~~~~~~~-~~~~~~~-~~~~~~l~~~L~~kr~LlVlDdv~~~  287 (314)
                          .+. ..-.... ..+++.+++. +.+.-|++||.++..
T Consensus       393 ----RGHRRTYIGamPGrIiQ~mkka-~~~NPv~LLDEIDKm  429 (782)
T COG0466         393 ----RGHRRTYIGAMPGKIIQGMKKA-GVKNPVFLLDEIDKM  429 (782)
T ss_pred             ----ccccccccccCChHHHHHHHHh-CCcCCeEEeechhhc
Confidence                111 0111111 1233333332 567889999999764

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=97.68  E-value=0.00042  Score=67.18  Aligned_cols=131  Identities=15%  Similarity=0.186  Sum_probs=72.1

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMV  248 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  248 (314)
                      ..++|.+..+..|...+....     -.+.+.++|+.|+||||+|+.++...- ..+.. ..+-.|...      .....
T Consensus        18 ~dIiGQe~~v~~L~~aI~~~r-----l~HAYLF~GP~GtGKTt~AriLAk~Ln-C~~~~-~~~~pC~~C------~~~~~   84 (725)
T PRK07133         18 DDIVGQDHIVQTLKNIIKSNK-----ISHAYLFSGPRGTGKTSVAKIFANALN-CSHKT-DLLEPCQEC------IENVN   84 (725)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCcHHHHHHHHHHHhc-ccccC-CCCCchhHH------HHhhc
Confidence            468999988888998886532     245677899999999999998865210 00000 000000000      00000


Q ss_pred             HH---hcCCC---CCCCcHHHHHHHHHHH-ccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEec
Q 048765          249 EA---LDGHE---SHLGEFQSLLRHIYES-IAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTT  312 (314)
Q Consensus       249 ~~---~~~~~---~~~~~~~~~~~~l~~~-L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTt  312 (314)
                      ..   +....   ....+.+++.+.+... ..+++-++|||++.......+..|...+...+....+|++|
T Consensus        85 ~~~Dvieidaasn~~vd~IReLie~~~~~P~~g~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~tifILaT  155 (725)
T PRK07133         85 NSLDIIEMDAASNNGVDEIRELIENVKNLPTQSKYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILAT  155 (725)
T ss_pred             CCCcEEEEeccccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhCCHHHHHHHHHHhhcCCCceEEEEEc
Confidence            00   00000   0111233333333221 24667799999998766567888888887655565555554

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=97.68  E-value=0.00048  Score=65.69  Aligned_cols=132  Identities=11%  Similarity=0.107  Sum_probs=73.7

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMV  248 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  248 (314)
                      .+++|.+..+..|..++....     -...+.++|+.|+||||+|+.++...--......   ..|....+...    +.
T Consensus        16 ~diiGqe~iv~~L~~~i~~~~-----i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~---~pC~~C~~C~~----i~   83 (563)
T PRK06647         16 NSLEGQDFVVETLKHSIESNK-----IANAYIFSGPRGVGKTSSARAFARCLNCVNGPTP---MPCGECSSCKS----ID   83 (563)
T ss_pred             HHccCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHhhccccCCCC---CCCccchHHHH----HH
Confidence            468999998999999886532     3457889999999999999988763210000000   00111111111    10


Q ss_pred             HH-------hcCCC-CCCCcHHHHHHHHHHH-ccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEec
Q 048765          249 EA-------LDGHE-SHLGEFQSLLRHIYES-IAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTT  312 (314)
Q Consensus       249 ~~-------~~~~~-~~~~~~~~~~~~l~~~-L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTt  312 (314)
                      ..       +.+.. ....++.++.+.+... ..+++-++|+|++.......++.|...+...+....+|++|
T Consensus        84 ~~~~~dv~~idgas~~~vddIr~l~e~~~~~p~~~~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI~~t  156 (563)
T PRK06647         84 NDNSLDVIEIDGASNTSVQDVRQIKEEIMFPPASSRYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFAT  156 (563)
T ss_pred             cCCCCCeEEecCcccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEEEec
Confidence            00       00000 1111222222222211 24566789999998776566788888887655666666655

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=97.68  E-value=0.00047  Score=59.54  Aligned_cols=95  Identities=14%  Similarity=0.168  Sum_probs=51.1

Q ss_pred             EEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHH--------HHh----cCCCCCC-CcHHHH
Q 048765          198 IISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMV--------EAL----DGHESHL-GEFQSL  264 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~--------~~~----~~~~~~~-~~~~~~  264 (314)
                      -+.+.|++|+|||+||+.+..  ...   .....+++.......+++....        ..+    ....... ..+.  
T Consensus        23 ~vLL~G~~GtGKT~lA~~la~--~lg---~~~~~i~~~~~~~~~dllg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--   95 (262)
T TIGR02640        23 PVHLRGPAGTGKTTLAMHVAR--KRD---RPVMLINGDAELTTSDLVGSYAGYTRKKVHDQFIHNVVKLEDIVRQNWV--   95 (262)
T ss_pred             eEEEEcCCCCCHHHHHHHHHH--HhC---CCEEEEeCCccCCHHHHhhhhcccchhhHHHHHHHHhhhhhcccceeec--
Confidence            456899999999999999975  222   2345667766666555543211        000    0000000 0000  


Q ss_pred             HHHHHHHccCceEEEEEeccccCCccCHHhHHHhhc
Q 048765          265 LRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLK  300 (314)
Q Consensus       265 ~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~  300 (314)
                      -..+.... .+...++||++...+...+..|...+.
T Consensus        96 ~g~l~~A~-~~g~~lllDEi~r~~~~~q~~Ll~~Le  130 (262)
T TIGR02640        96 DNRLTLAV-REGFTLVYDEFTRSKPETNNVLLSVFE  130 (262)
T ss_pred             CchHHHHH-HcCCEEEEcchhhCCHHHHHHHHHHhc
Confidence            00111111 234689999998766556666766664

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).

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=97.67  E-value=0.00044  Score=59.66  Aligned_cols=26  Identities=31%  Similarity=0.357  Sum_probs=22.1

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhch
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      +....+.++|++|+||||+|+.++..
T Consensus        40 ~~~~~vll~GppGtGKTtlA~~ia~~   65 (261)
T TIGR02881        40 KQVLHMIFKGNPGTGKTTVARILGKL   65 (261)
T ss_pred             CCcceEEEEcCCCCCHHHHHHHHHHH
Confidence            44567889999999999999999763

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.

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

Probab=97.66  E-value=0.0016  Score=62.07  Aligned_cols=105  Identities=21%  Similarity=0.348  Sum_probs=68.1

Q ss_pred             ccccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHH
Q 048765          168 EEEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAM  247 (314)
Q Consensus       168 ~~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i  247 (314)
                      +++-+|+++-.+++++++....-..+.+-+++..+|++|+|||.+++.++.  ...+.|   +-++++.-.+..+|    
T Consensus       410 deDHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~--ALnRkF---fRfSvGG~tDvAeI----  480 (906)
T KOG2004|consen  410 DEDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIAR--ALNRKF---FRFSVGGMTDVAEI----  480 (906)
T ss_pred             cccccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHH--HhCCce---EEEeccccccHHhh----
Confidence            457899999999999998764433446678999999999999999999987  555555   23445554444433    


Q ss_pred             HHHhcCCC-CCCCcH-HHHHHHHHHHccCceEEEEEecccc
Q 048765          248 VEALDGHE-SHLGEF-QSLLRHIYESIAGKSFLLVLDDVWD  286 (314)
Q Consensus       248 ~~~~~~~~-~~~~~~-~~~~~~l~~~L~~kr~LlVlDdv~~  286 (314)
                          .+.. ...... ..+++.++.. +-..-|+.||.|++
T Consensus       481 ----kGHRRTYVGAMPGkiIq~LK~v-~t~NPliLiDEvDK  516 (906)
T KOG2004|consen  481 ----KGHRRTYVGAMPGKIIQCLKKV-KTENPLILIDEVDK  516 (906)
T ss_pred             ----cccceeeeccCChHHHHHHHhh-CCCCceEEeehhhh
Confidence                1110 111111 2233334332 55678999999965

>PRK09087 hypothetical protein; Validated

Probab=97.65  E-value=0.00015  Score=61.10  Aligned_cols=24  Identities=29%  Similarity=0.386  Sum_probs=20.8

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      -+.+.|+|+.|+|||+|++.++..
T Consensus        44 ~~~l~l~G~~GsGKThLl~~~~~~   67 (226)
T PRK09087         44 SPVVVLAGPVGSGKTHLASIWREK   67 (226)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHh
Confidence            356899999999999999988763

>smart00763 AAA_PrkA PrkA AAA domain

Probab=97.65  E-value=5.7e-05  Score=67.13  Aligned_cols=51  Identities=14%  Similarity=0.188  Sum_probs=42.9

Q ss_pred             ccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchH
Q 048765          170 EICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHE  220 (314)
Q Consensus       170 ~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~  220 (314)
                      .++|.++.++++++++.....+.....+++.++|++|+||||||+.+....
T Consensus        52 ~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l  102 (361)
T smart00763       52 DFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGL  102 (361)
T ss_pred             hccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            699999999999999977553333557899999999999999999998754

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

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

Probab=97.64  E-value=0.0022  Score=58.13  Aligned_cols=102  Identities=25%  Similarity=0.260  Sum_probs=59.4

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHccC
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAG  274 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~  274 (314)
                      ....+.|+|..|+|||+|++.+.+  ....+......+.+    +.+.+...++..+..         .-.+.+++..  
T Consensus       112 ~~nplfi~G~~GlGKTHLl~Aign--~~~~~~~~a~v~y~----~se~f~~~~v~a~~~---------~~~~~Fk~~y--  174 (408)
T COG0593         112 AYNPLFIYGGVGLGKTHLLQAIGN--EALANGPNARVVYL----TSEDFTNDFVKALRD---------NEMEKFKEKY--  174 (408)
T ss_pred             cCCcEEEECCCCCCHHHHHHHHHH--HHHhhCCCceEEec----cHHHHHHHHHHHHHh---------hhHHHHHHhh--
Confidence            577899999999999999999988  55555542223322    334444444444422         1233444444  


Q ss_pred             ceEEEEEeccccCCc-cCH-HhHHHhhccC-CCCceEEEecc
Q 048765          275 KSFLLVLDDVWDGNY-VKW-EPFYHCLKNG-LHGSKILVTTR  313 (314)
Q Consensus       275 kr~LlVlDdv~~~~~-~~~-~~l~~~l~~~-~~gs~iivTtR  313 (314)
                      .-=++++||++-... +.| +.+...|..- ..|-.||+|++
T Consensus       175 ~~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~kqIvltsd  216 (408)
T COG0593         175 SLDLLLIDDIQFLAGKERTQEEFFHTFNALLENGKQIVLTSD  216 (408)
T ss_pred             ccCeeeechHhHhcCChhHHHHHHHHHHHHHhcCCEEEEEcC
Confidence            444889999965311 122 2344444321 33447888885

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

Probab=97.64  E-value=0.0002  Score=70.87  Aligned_cols=45  Identities=24%  Similarity=0.296  Sum_probs=37.7

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..++||+.+++.++..|....      ..-+.++|++|+|||++|+.++..
T Consensus       182 ~~~igr~~ei~~~~~~L~~~~------~~n~lL~G~pG~GKT~l~~~la~~  226 (731)
T TIGR02639       182 DPLIGREDELERTIQVLCRRK------KNNPLLVGEPGVGKTAIAEGLALR  226 (731)
T ss_pred             CcccCcHHHHHHHHHHHhcCC------CCceEEECCCCCCHHHHHHHHHHH
Confidence            469999999999999886543      345679999999999999999873

>PRK05541 adenylylsulfate kinase; Provisional

Probab=97.63  E-value=0.00034  Score=56.51  Aligned_cols=38  Identities=26%  Similarity=0.451  Sum_probs=29.2

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEE
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVC  233 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~  233 (314)
                      .+..+|.+.|+.|+||||+++.++.  .....+...++++
T Consensus         5 ~~~~~I~i~G~~GsGKst~a~~l~~--~l~~~~~~~~~~~   42 (176)
T PRK05541          5 PNGYVIWITGLAGSGKTTIAKALYE--RLKLKYSNVIYLD   42 (176)
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHHH--HHHHcCCcEEEEe
Confidence            3456999999999999999999987  4445555555553

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

Probab=97.63  E-value=0.00075  Score=64.03  Aligned_cols=139  Identities=19%  Similarity=0.160  Sum_probs=91.0

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHh---hh---hcCceeEEEEcCccccHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEE---VI---RKFDKILWVCVSETFEEFR  242 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~---~~---~~F~~~~wv~~~~~~~~~~  242 (314)
                      ..+-+|+.+..+|..++..--+. ......+.|.|.+|+|||..+..|.....   -+   ..|+ .+.|+.-.-..+..
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            34678999999988887643221 13345899999999999999999987533   11   2343 33455555667889


Q ss_pred             HHHHHHHHhcCCCCCCCcHHHHHHHHHHHc-----cCceEEEEEeccccCCccCHHhHHHhhcc-CCCCceEEEec
Q 048765          243 VAKAMVEALDGHESHLGEFQSLLRHIYESI-----AGKSFLLVLDDVWDGNYVKWEPFYHCLKN-GLHGSKILVTT  312 (314)
Q Consensus       243 ~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~-~~~gs~iivTt  312 (314)
                      +...|...+.+...   ......+.+..++     +.+.++|++|+++..-...-+-+...|.+ ..++||++|.+
T Consensus       474 ~Y~~I~~~lsg~~~---~~~~al~~L~~~f~~~k~~~~~~VvLiDElD~Lvtr~QdVlYn~fdWpt~~~sKLvvi~  546 (767)
T KOG1514|consen  474 IYEKIWEALSGERV---TWDAALEALNFRFTVPKPKRSTTVVLIDELDILVTRSQDVLYNIFDWPTLKNSKLVVIA  546 (767)
T ss_pred             HHHHHHHhcccCcc---cHHHHHHHHHHhhccCCCCCCCEEEEeccHHHHhcccHHHHHHHhcCCcCCCCceEEEE
Confidence            99999999976532   2223334444444     24578999999854311223456666764 37788887754

>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=97.62  E-value=3.2e-05  Score=59.95  Aligned_cols=89  Identities=24%  Similarity=0.223  Sum_probs=49.3

Q ss_pred             EEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHccCceEE
Q 048765          199 ISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGKSFL  278 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~L  278 (314)
                      |.++|++|+|||+||+.++.-  ..   ....-+.++...+..+++...--. ....  ......+...+     .+..+
T Consensus         2 vlL~G~~G~GKt~l~~~la~~--~~---~~~~~i~~~~~~~~~dl~g~~~~~-~~~~--~~~~~~l~~a~-----~~~~i   68 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAAL--LG---RPVIRINCSSDTTEEDLIGSYDPS-NGQF--EFKDGPLVRAM-----RKGGI   68 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHH--HT---CEEEEEE-TTTSTHHHHHCEEET--TTTT--CEEE-CCCTTH-----HEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHH--hh---cceEEEEeccccccccceeeeeec-cccc--ccccccccccc-----cceeE
Confidence            578999999999999999873  21   233446778877777654322211 0000  00000000000     17899


Q ss_pred             EEEeccccCCccCHHhHHHhhc
Q 048765          279 LVLDDVWDGNYVKWEPFYHCLK  300 (314)
Q Consensus       279 lVlDdv~~~~~~~~~~l~~~l~  300 (314)
                      +|||++...+...+..|...+.
T Consensus        69 l~lDEin~a~~~v~~~L~~ll~   90 (139)
T PF07728_consen   69 LVLDEINRAPPEVLESLLSLLE   90 (139)
T ss_dssp             EEESSCGG--HHHHHTTHHHHS
T ss_pred             EEECCcccCCHHHHHHHHHHHh
Confidence            9999998655455555655554

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.

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

Probab=97.62  E-value=0.00031  Score=69.08  Aligned_cols=122  Identities=15%  Similarity=0.180  Sum_probs=70.5

Q ss_pred             ccccchhhHHHHHHHhhccCc---CCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHH
Q 048765          170 EICGRVGEKNELLSKLLCESS---EQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKA  246 (314)
Q Consensus       170 ~~vgr~~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~  246 (314)
                      .++|.+..++.|.+.+.....   ........+.++|+.|+|||+||+.+...  ..   ...+.++++.......    
T Consensus       459 ~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~--l~---~~~i~id~se~~~~~~----  529 (758)
T PRK11034        459 LVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKA--LG---IELLRFDMSEYMERHT----  529 (758)
T ss_pred             eEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHH--hC---CCcEEeechhhccccc----
Confidence            578988888888888763211   01133567889999999999999998763  22   2344556554322111    


Q ss_pred             HHHHhcCCCCCCCcHHHHHHHHHHHc-cCceEEEEEeccccCCccCHHhHHHhhccC
Q 048765          247 MVEALDGHESHLGEFQSLLRHIYESI-AGKSFLLVLDDVWDGNYVKWEPFYHCLKNG  302 (314)
Q Consensus       247 i~~~~~~~~~~~~~~~~~~~~l~~~L-~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~  302 (314)
                      +..-++..+......  ....+.+.+ +....+|+||++...+...++.|...|..+
T Consensus       530 ~~~LiG~~~gyvg~~--~~g~L~~~v~~~p~sVlllDEieka~~~v~~~LLq~ld~G  584 (758)
T PRK11034        530 VSRLIGAPPGYVGFD--QGGLLTDAVIKHPHAVLLLDEIEKAHPDVFNLLLQVMDNG  584 (758)
T ss_pred             HHHHcCCCCCccccc--ccchHHHHHHhCCCcEEEeccHhhhhHHHHHHHHHHHhcC
Confidence            222222221111100  001122223 234579999999887766777787777543

>PRK07261 topology modulation protein; Provisional

Probab=97.61  E-value=0.00017  Score=58.05  Aligned_cols=54  Identities=22%  Similarity=0.281  Sum_probs=32.9

Q ss_pred             EEEEEccCCCChHHHHHHhhchHhhh-hcCceeEEEEcCccccHHHHHHHHHHHh
Q 048765          198 IISIVGMGGIGKTTLAQLACNHEEVI-RKFDKILWVCVSETFEEFRVAKAMVEAL  251 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~~~~~-~~F~~~~wv~~~~~~~~~~~~~~i~~~~  251 (314)
                      .|.|+|++|+||||||+.+....... -+.|...|-......+..++...+...+
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~~~~~i~~D~~~~~~~~~~~~~~~~~~~~~~~~   56 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHYNCPVLHLDTLHFQPNWQERDDDDMIADISNFL   56 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhCCCeEecCCEEeccccccCCHHHHHHHHHHHH
Confidence            47899999999999999987632221 2456666654333333444444443333

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=97.61  E-value=0.0008  Score=53.07  Aligned_cols=40  Identities=35%  Similarity=0.414  Sum_probs=30.1

Q ss_pred             EEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCcccc
Q 048765          198 IISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFE  239 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~  239 (314)
                      ++.|+|.+|+|||+++..+....  ...-..++|++......
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~--~~~~~~v~~~~~e~~~~   40 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNI--ATKGGKVVYVDIEEEIE   40 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHH--HhcCCEEEEEECCcchH
Confidence            36799999999999999997733  33446788888766543

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.

>TIGR00602 rad24 checkpoint protein rad24

Probab=97.60  E-value=0.0002  Score=68.72  Aligned_cols=50  Identities=22%  Similarity=0.262  Sum_probs=39.2

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .+++|.+..+..+..++...... .....++.|+|++|+||||+++.++..
T Consensus        84 del~~~~~ki~~l~~~l~~~~~~-~~~~~illL~GP~GsGKTTl~~~la~~  133 (637)
T TIGR00602        84 HELAVHKKKIEEVETWLKAQVLE-NAPKRILLITGPSGCGKSTTIKILSKE  133 (637)
T ss_pred             HHhcCcHHHHHHHHHHHHhcccc-cCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            57899999999999988654321 123457899999999999999999863

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

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=97.60  E-value=0.00058  Score=57.87  Aligned_cols=92  Identities=20%  Similarity=0.187  Sum_probs=58.0

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhh----cCceeEEEEcCccccHHHHHHHHHHHhcCCC------------CC
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIR----KFDKILWVCVSETFEEFRVAKAMVEALDGHE------------SH  257 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~----~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~------------~~  257 (314)
                      +.-.++.|+|.+|+|||+|+..++-......    ....++|++....++...+. ++++.++...            ..
T Consensus        17 ~~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl~-~~~~~~~~~~~~~~~~i~~~~~~~   95 (235)
T cd01123          17 ETGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERLV-QIAERFGLDPEEVLDNIYVARAYN   95 (235)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHHH-HHHHHhccChHhHhcCEEEEecCC
Confidence            4567999999999999999998864321111    13689999988877765543 3333332211            11


Q ss_pred             CCcHHHHHHHHHHHc-cC-ceEEEEEecccc
Q 048765          258 LGEFQSLLRHIYESI-AG-KSFLLVLDDVWD  286 (314)
Q Consensus       258 ~~~~~~~~~~l~~~L-~~-kr~LlVlDdv~~  286 (314)
                      ..+...+...+...+ +. +--|||||.+..
T Consensus        96 ~~~l~~~l~~l~~~l~~~~~~~liVIDSis~  126 (235)
T cd01123          96 SDHQLQLLEELEAILIESSRIKLVIVDSVTA  126 (235)
T ss_pred             HHHHHHHHHHHHHHHhhcCCeeEEEEeCcHH
Confidence            122334445555555 34 678999999953

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 .

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=97.59  E-value=0.00012  Score=56.75  Aligned_cols=106  Identities=18%  Similarity=0.136  Sum_probs=60.3

Q ss_pred             ccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhh-hhcCceeEEEEcCccccHHHHHHHHHHH
Q 048765          172 CGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEV-IRKFDKILWVCVSETFEEFRVAKAMVEA  250 (314)
Q Consensus       172 vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~-~~~F~~~~wv~~~~~~~~~~~~~~i~~~  250 (314)
                      ||....++++.+.+..-.    ....-|.|.|..|+||+++|+.++..... ...|...   ++... .     .++++ 
T Consensus         1 vG~S~~~~~l~~~l~~~a----~~~~pvli~GE~GtGK~~~A~~lh~~~~~~~~~~~~~---~~~~~-~-----~~~l~-   66 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLERLA----KSSSPVLITGEPGTGKSLLARALHRYSGRANGPFIVI---DCASL-P-----AELLE-   66 (138)
T ss_dssp             --SCHHHHHHHHHHHHHH----CSSS-EEEECCTTSSHHHHHHCCHHTTTTCCS-CCCC---CHHCT-C-----HHHHH-
T ss_pred             CCCCHHHHHHHHHHHHHh----CCCCcEEEEcCCCCCHHHHHHHHHhhcCccCCCeEEe---chhhC-c-----HHHHH-
Confidence            455566666666654432    23456789999999999999999774322 1223221   11110 0     11111 


Q ss_pred             hcCCCCCCCcHHHHHHHHHHHccCceEEEEEeccccCCccCHHhHHHhhccC-CCCceEEEecc
Q 048765          251 LDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNG-LHGSKILVTTR  313 (314)
Q Consensus       251 ~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~-~~gs~iivTtR  313 (314)
                                          .  .+.--|+|+|+...+......|...+... ....|+|.||.
T Consensus        67 --------------------~--a~~gtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~RlI~ss~  108 (138)
T PF14532_consen   67 --------------------Q--AKGGTLYLKNIDRLSPEAQRRLLDLLKRQERSNVRLIASSS  108 (138)
T ss_dssp             --------------------H--CTTSEEEEECGCCS-HHHHHHHHHHHHHCTTTTSEEEEEEC
T ss_pred             --------------------H--cCCCEEEECChHHCCHHHHHHHHHHHHhcCCCCeEEEEEeC
Confidence                                1  14446779999776655566677777643 56779998875

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=97.59  E-value=0.001  Score=63.58  Aligned_cols=132  Identities=16%  Similarity=0.183  Sum_probs=71.5

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMV  248 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  248 (314)
                      ++++|.+...+.|..++....     -.+.+.++|+.|+|||++|+.+....--....+       ..+++.-.....+.
T Consensus        16 ~~viGq~~v~~~L~~~i~~~~-----~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~-------~~pC~~C~~C~~i~   83 (559)
T PRK05563         16 EDVVGQEHITKTLKNAIKQGK-----ISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPD-------GEPCNECEICKAIT   83 (559)
T ss_pred             HhccCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCC-------CCCCCccHHHHHHh
Confidence            569999999999999887643     245677899999999999988865211000000       00000000111111


Q ss_pred             HHhcCC-----C---CCCCcHHHHHHHHHHH-ccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEec
Q 048765          249 EALDGH-----E---SHLGEFQSLLRHIYES-IAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTT  312 (314)
Q Consensus       249 ~~~~~~-----~---~~~~~~~~~~~~l~~~-L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTt  312 (314)
                      ......     .   ....+++++.+.+... ..++.-++|||++.......++.|...+...+....+|++|
T Consensus        84 ~g~~~dv~eidaas~~~vd~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlat  156 (559)
T PRK05563         84 NGSLMDVIEIDAASNNGVDEIRDIRDKVKYAPSEAKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILAT  156 (559)
T ss_pred             cCCCCCeEEeeccccCCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEe
Confidence            100000     0   0111223333333211 24567789999997765556778887776554455555544

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

Probab=97.58  E-value=0.00068  Score=57.06  Aligned_cols=89  Identities=20%  Similarity=0.155  Sum_probs=55.1

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcC------ceeEEEEcCccccHHHHHHHHHHHhcCCC---------CCC
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKF------DKILWVCVSETFEEFRVAKAMVEALDGHE---------SHL  258 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F------~~~~wv~~~~~~~~~~~~~~i~~~~~~~~---------~~~  258 (314)
                      +.-.++.|+|.+|+|||+|+..++...  ....      ..++|++....++...+. .+........         ...
T Consensus        17 ~~g~v~~I~G~~GsGKT~l~~~ia~~~--~~~~~~~g~~~~v~yi~~e~~~~~~rl~-~~~~~~~~~~~~~~~~i~~~~~   93 (226)
T cd01393          17 PTGRITEIFGEFGSGKTQLCLQLAVEA--QLPGELGGLEGKVVYIDTEGAFRPERLV-QLAVRFGLDPEEVLDNIYVARP   93 (226)
T ss_pred             cCCcEEEEeCCCCCChhHHHHHHHHHh--hcccccCCCcceEEEEecCCCCCHHHHH-HHHHHhccchhhhhccEEEEeC
Confidence            456799999999999999999886532  2222      567899988777765543 3333322110         011


Q ss_pred             CcHHHHHHHHHHHc----cCceEEEEEeccc
Q 048765          259 GEFQSLLRHIYESI----AGKSFLLVLDDVW  285 (314)
Q Consensus       259 ~~~~~~~~~l~~~L----~~kr~LlVlDdv~  285 (314)
                      .+..++...+...+    ..+--|||+|.+.
T Consensus        94 ~~~~~~~~~l~~~~~~~~~~~~~lvVIDsis  124 (226)
T cd01393          94 YNGEQQLEIVEELERIMSSGRVDLVVVDSVA  124 (226)
T ss_pred             CCHHHHHHHHHHHHHHhhcCCeeEEEEcCcc
Confidence            23444444444433    2455699999984

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.

>cd01394 radB RadB

Probab=97.58  E-value=0.00066  Score=56.86  Aligned_cols=88  Identities=14%  Similarity=0.087  Sum_probs=52.0

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHh----cCC--CCCCCcH---HHH
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEAL----DGH--ESHLGEF---QSL  264 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~----~~~--~~~~~~~---~~~  264 (314)
                      ..-.++.|.|.+|+||||++.+++..  ....-..++|++....+.  +-+.+++...    ...  .....+.   ...
T Consensus        17 ~~g~i~~i~G~~GsGKT~l~~~~a~~--~~~~g~~v~yi~~e~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (218)
T cd01394          17 ERGTVTQVYGPPGTGKTNIAIQLAVE--TAGQGKKVAYIDTEGLSS--ERFRQIAGDRPERAASSIIVFEPMDFNEQGRA   92 (218)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHH--HHhcCCeEEEEECCCCCH--HHHHHHHhHChHhhhcCEEEEeCCCHHHHHHH
Confidence            45678999999999999999998763  223345678888765543  2233333221    000  0011222   223


Q ss_pred             HHHHHHHccCceEEEEEeccc
Q 048765          265 LRHIYESIAGKSFLLVLDDVW  285 (314)
Q Consensus       265 ~~~l~~~L~~kr~LlVlDdv~  285 (314)
                      ...+...+..+.-+||+|.+-
T Consensus        93 ~~~~~~~~~~~~~lvvIDsi~  113 (218)
T cd01394          93 IQETETFADEKVDLVVVDSAT  113 (218)
T ss_pred             HHHHHHHHhcCCcEEEEechH
Confidence            344555555556799999984

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

>PRK10787 DNA-binding ATP-dependent protease La; Provisional

Probab=97.57  E-value=0.0012  Score=65.44  Aligned_cols=50  Identities=28%  Similarity=0.355  Sum_probs=38.9

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ...+|.+.-.+.++++|.........+..++.++|++|+||||+++.++.
T Consensus       322 ~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~  371 (784)
T PRK10787        322 TDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAK  371 (784)
T ss_pred             hhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999888742221113445789999999999999999986

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=97.57  E-value=0.00019  Score=52.95  Aligned_cols=21  Identities=48%  Similarity=0.575  Sum_probs=18.5

Q ss_pred             EEEEccCCCChHHHHHHhhch
Q 048765          199 ISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~~  219 (314)
                      |-|+|.+|+|||+||+.++.+
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~   21 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKD   21 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHH
Confidence            458999999999999998773

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

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

Probab=97.56  E-value=0.00037  Score=59.85  Aligned_cols=127  Identities=16%  Similarity=0.123  Sum_probs=75.6

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEE-EEcCccccHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILW-VCVSETFEEFRVAKAM  247 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~w-v~~~~~~~~~~~~~~i  247 (314)
                      .+++|.+..+.-|.+.+..      ....+...+|++|.|||+.|+.++...--.+.|.+.+- .++|...... +.+. 
T Consensus        36 de~~gQe~vV~~L~~a~~~------~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSderGis-vvr~-  107 (346)
T KOG0989|consen   36 DELAGQEHVVQVLKNALLR------RILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDERGIS-VVRE-  107 (346)
T ss_pred             HhhcchHHHHHHHHHHHhh------cCCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhccccccccc-chhh-
Confidence            4688888888888888876      24678899999999999999887653211344544432 3344332211 0000 


Q ss_pred             HHHhcCCCCCCCcHHHHHHHHHHHc--cCce-EEEEEeccccCCccCHHhHHHhhccCCCCceEEEec
Q 048765          248 VEALDGHESHLGEFQSLLRHIYESI--AGKS-FLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTT  312 (314)
Q Consensus       248 ~~~~~~~~~~~~~~~~~~~~l~~~L--~~kr-~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTt  312 (314)
                               ...+...+........  .-++ -.||||+++....+.|..|...+.+-...++.|+++
T Consensus       108 ---------Kik~fakl~~~~~~~~~~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s~~trFiLIc  166 (346)
T KOG0989|consen  108 ---------KIKNFAKLTVLLKRSDGYPCPPFKIIILDECDSMTSDAQAALRRTMEDFSRTTRFILIC  166 (346)
T ss_pred             ---------hhcCHHHHhhccccccCCCCCcceEEEEechhhhhHHHHHHHHHHHhccccceEEEEEc
Confidence                     0011111111010000  1122 488999999888889999999887655566655543

>PRK12608 transcription termination factor Rho; Provisional

Probab=97.55  E-value=0.00065  Score=60.79  Aligned_cols=102  Identities=14%  Similarity=0.075  Sum_probs=63.0

Q ss_pred             HHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCce-eEEEEcCc-cccHHHHHHHHHHHhcCCC
Q 048765          178 KNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDK-ILWVCVSE-TFEEFRVAKAMVEALDGHE  255 (314)
Q Consensus       178 ~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~-~~wv~~~~-~~~~~~~~~~i~~~~~~~~  255 (314)
                      ..++++.+..-.     +-.-+.|+|.+|+|||||++.+++.... ++-+. ++|+-+.+ ...+.++.+.+...+....
T Consensus       120 ~~RvID~l~PiG-----kGQR~LIvG~pGtGKTTLl~~la~~i~~-~~~dv~~vv~lIgER~~EV~df~~~i~~~Vvast  193 (380)
T PRK12608        120 SMRVVDLVAPIG-----KGQRGLIVAPPRAGKTVLLQQIAAAVAA-NHPEVHLMVLLIDERPEEVTDMRRSVKGEVYAST  193 (380)
T ss_pred             hHhhhhheeecC-----CCceEEEECCCCCCHHHHHHHHHHHHHh-cCCCceEEEEEecCCCCCHHHHHHHHhhhEEeec
Confidence            345777765432     2345689999999999999998874321 23344 46666654 4466788888877665432


Q ss_pred             CCCCcHH-----HHHHHHHHHc--cCceEEEEEeccc
Q 048765          256 SHLGEFQ-----SLLRHIYESI--AGKSFLLVLDDVW  285 (314)
Q Consensus       256 ~~~~~~~-----~~~~~l~~~L--~~kr~LlVlDdv~  285 (314)
                      .+.....     .....+.+++  +++..+||+|++-
T Consensus       194 ~de~~~~~~~v~~~~~~~Ae~f~~~GkdVVLvlDslt  230 (380)
T PRK12608        194 FDRPPDEHIRVAELVLERAKRLVEQGKDVVILLDSLT  230 (380)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEEeCcH
Confidence            2111111     1222333333  6899999999993

>PRK06620 hypothetical protein; Validated

Probab=97.54  E-value=0.00015  Score=60.46  Aligned_cols=22  Identities=32%  Similarity=0.344  Sum_probs=20.0

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..+.|+|++|+|||+|++.+++
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~   66 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQN   66 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHh
Confidence            6789999999999999998766

>PRK10865 protein disaggregation chaperone; Provisional

Probab=97.53  E-value=0.00029  Score=70.65  Aligned_cols=45  Identities=20%  Similarity=0.306  Sum_probs=37.8

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..++||+.++.++++.|....      ...+.++|++|+|||+||+.+...
T Consensus       178 ~~vigr~~ei~~~i~iL~r~~------~~n~lL~G~pGvGKT~l~~~la~~  222 (857)
T PRK10865        178 DPVIGRDEEIRRTIQVLQRRT------KNNPVLIGEPGVGKTAIVEGLAQR  222 (857)
T ss_pred             CcCCCCHHHHHHHHHHHhcCC------cCceEEECCCCCCHHHHHHHHHHH
Confidence            469999999999999997643      345669999999999999988763

>PHA00729 NTP-binding motif containing protein

Probab=97.49  E-value=0.0017  Score=54.14  Aligned_cols=25  Identities=36%  Similarity=0.413  Sum_probs=21.6

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ....|.|.|.+|+||||||..+.+.
T Consensus        16 ~f~nIlItG~pGvGKT~LA~aLa~~   40 (226)
T PHA00729         16 GFVSAVIFGKQGSGKTTYALKVARD   40 (226)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHHH
Confidence            3457889999999999999999773

>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=97.49  E-value=0.0001  Score=59.24  Aligned_cols=90  Identities=19%  Similarity=0.196  Sum_probs=55.1

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhh-hcCceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHccC
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVI-RKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAG  274 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~-~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~  274 (314)
                      ..++.+.|+.|+|||.||+.+..  ... +.....+-++++......+.-..+...++...   ....          ..
T Consensus         3 ~~~~ll~GpsGvGKT~la~~la~--~l~~~~~~~~~~~d~s~~~~~~~~~~~~~~l~~~~~---~~v~----------~~   67 (171)
T PF07724_consen    3 KSNFLLAGPSGVGKTELAKALAE--LLFVGSERPLIRIDMSEYSEGDDVESSVSKLLGSPP---GYVG----------AE   67 (171)
T ss_dssp             SEEEEEESSTTSSHHHHHHHHHH--HHT-SSCCEEEEEEGGGHCSHHHCSCHCHHHHHHTT---CHHH----------HH
T ss_pred             EEEEEEECCCCCCHHHHHHHHHH--HhccCCccchHHHhhhcccccchHHhhhhhhhhccc---ceee----------cc
Confidence            56888999999999999999987  333 44556777787765542221111111111110   0000          00


Q ss_pred             ceEEEEEeccccCCc-----------cCHHhHHHhhc
Q 048765          275 KSFLLVLDDVWDGNY-----------VKWEPFYHCLK  300 (314)
Q Consensus       275 kr~LlVlDdv~~~~~-----------~~~~~l~~~l~  300 (314)
                      ..-+|+||++.+...           ..|+.|...+.
T Consensus        68 ~~gVVllDEidKa~~~~~~~~~v~~~~V~~~LL~~le  104 (171)
T PF07724_consen   68 EGGVVLLDEIDKAHPSNSGGADVSGEGVQNSLLQLLE  104 (171)
T ss_dssp             HHTEEEEETGGGCSHTTTTCSHHHHHHHHHHHHHHHH
T ss_pred             chhhhhhHHHhhccccccccchhhHHHHHHHHHHHhc
Confidence            112999999998876           66888888775

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 ....

>TIGR02012 tigrfam_recA protein RecA

Probab=97.47  E-value=0.00066  Score=59.87  Aligned_cols=85  Identities=21%  Similarity=0.165  Sum_probs=56.2

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCC-----CCCCcHHHHHHHH
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHE-----SHLGEFQSLLRHI  268 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~-----~~~~~~~~~~~~l  268 (314)
                      +.-+++-|+|++|+|||||+..++..  ....-..++|++..+.++..     .+++++...     ......++....+
T Consensus        53 p~G~iteI~G~~GsGKTtLaL~~~~~--~~~~g~~v~yId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~~~  125 (321)
T TIGR02012        53 PRGRIIEIYGPESSGKTTLALHAIAE--AQKAGGTAAFIDAEHALDPV-----YARKLGVDIDNLLVSQPDTGEQALEIA  125 (321)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEEcccchhHHH-----HHHHcCCCHHHeEEecCCCHHHHHHHH
Confidence            45679999999999999999888763  33344668899887766653     344444321     1223344455555


Q ss_pred             HHHc-cCceEEEEEeccc
Q 048765          269 YESI-AGKSFLLVLDDVW  285 (314)
Q Consensus       269 ~~~L-~~kr~LlVlDdv~  285 (314)
                      ...+ .+.--+||+|.+-
T Consensus       126 ~~li~~~~~~lIVIDSv~  143 (321)
T TIGR02012       126 ETLVRSGAVDIIVVDSVA  143 (321)
T ss_pred             HHHhhccCCcEEEEcchh
Confidence            5544 3567799999984

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.

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=97.45  E-value=0.00081  Score=58.74  Aligned_cols=21  Identities=38%  Similarity=0.446  Sum_probs=18.6

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -+.++|++|+|||++|+.++.
T Consensus        60 ~vll~G~pGTGKT~lA~~ia~   80 (284)
T TIGR02880        60 HMSFTGNPGTGKTTVALRMAQ   80 (284)
T ss_pred             eEEEEcCCCCCHHHHHHHHHH
Confidence            577999999999999988766

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.

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=97.45  E-value=0.0013  Score=58.67  Aligned_cols=121  Identities=11%  Similarity=0.085  Sum_probs=69.1

Q ss_pred             cccc-chhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhh--------------------cCce
Q 048765          170 EICG-RVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIR--------------------KFDK  228 (314)
Q Consensus       170 ~~vg-r~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~--------------------~F~~  228 (314)
                      .++| .+.-.+.|...+...     .-.....++|+.|+|||++|+.+....--..                    |.|.
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 QLTALQPVVVKMLQNSIAKN-----RLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEPCGTCTNCKRIDSGNHPDV   80 (329)
T ss_pred             HHHhhHHHHHHHHHHHHHcC-----CCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCcCHHHHHHhcCCCCCE
Confidence            3566 455566666666542     2355678999999999999988755210000                    1121


Q ss_pred             eEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHH-HccCceEEEEEeccccCCccCHHhHHHhhccCCCCce
Q 048765          229 ILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYE-SIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSK  307 (314)
Q Consensus       229 ~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~-~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~  307 (314)
                      .....-+...                  ..+++.++.+.+.. -..+.+-++|||++...+....+.|...+...+.++.
T Consensus        81 ~~i~~~~~~i------------------~id~ir~l~~~~~~~~~~~~~kvviI~~a~~~~~~a~NaLLK~LEEPp~~~~  142 (329)
T PRK08058         81 HLVAPDGQSI------------------KKDQIRYLKEEFSKSGVESNKKVYIIEHADKMTASAANSLLKFLEEPSGGTT  142 (329)
T ss_pred             EEeccccccC------------------CHHHHHHHHHHHhhCCcccCceEEEeehHhhhCHHHHHHHHHHhcCCCCCce
Confidence            1110000000                  11122222222221 1245667899999987766677788888887777777


Q ss_pred             EEEecc
Q 048765          308 ILVTTR  313 (314)
Q Consensus       308 iivTtR  313 (314)
                      +|++|.
T Consensus       143 ~Il~t~  148 (329)
T PRK08058        143 AILLTE  148 (329)
T ss_pred             EEEEeC
Confidence            887775

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.44  E-value=0.0029  Score=58.34  Aligned_cols=40  Identities=20%  Similarity=0.298  Sum_probs=27.7

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcC
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVS  235 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~  235 (314)
                      .+++.++|++|+||||++..++........-..+..|++.
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D  260 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLD  260 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECC
Confidence            4689999999999999998886633211223456666654

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

Probab=97.44  E-value=0.0017  Score=59.28  Aligned_cols=50  Identities=22%  Similarity=0.187  Sum_probs=35.2

Q ss_pred             cccccchhhHHHHHHHhhcc---Cc----CCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELLSKLLCE---SS----EQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~---~~----~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .++.|.+...+.|.+.+...   ..    .+-...+-+.++|++|+|||+||+.+++
T Consensus       145 ~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~  201 (398)
T PTZ00454        145 SDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAH  201 (398)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHH
Confidence            46788888777776654311   00    0113456788999999999999999987

>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51

Probab=97.43  E-value=0.0012  Score=56.77  Aligned_cols=89  Identities=25%  Similarity=0.301  Sum_probs=56.9

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhh----hcCceeEEEEcCccccHHHHHHHHHHHhcCCC------------CCC
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVI----RKFDKILWVCVSETFEEFRVAKAMVEALDGHE------------SHL  258 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~----~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~------------~~~  258 (314)
                      .-.+.=|+|.+|+|||.|+..++-.....    +.-..++|++....|....+. +|++..+...            .+.
T Consensus        37 ~g~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~~Rl~-~i~~~~~~~~~~~l~~I~v~~~~~~  115 (256)
T PF08423_consen   37 TGSITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSPERLQ-QIAERFGLDPEEILDNIFVIRVFDL  115 (256)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-HHHHH-HHHHHTTS-HHHHHHTEEEEE-SSH
T ss_pred             CCcEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCHHHHH-HHhhccccccchhhhceeeeecCCH
Confidence            34577899999999999998775432221    223579999999999887764 4666543321            112


Q ss_pred             CcHHHHHHHHHHHc-cCceEEEEEecc
Q 048765          259 GEFQSLLRHIYESI-AGKSFLLVLDDV  284 (314)
Q Consensus       259 ~~~~~~~~~l~~~L-~~kr~LlVlDdv  284 (314)
                      .+...++..+...+ +.+--|||+|.+
T Consensus       116 ~~l~~~L~~l~~~l~~~~ikLIVIDSI  142 (256)
T PF08423_consen  116 EELLELLEQLPKLLSESKIKLIVIDSI  142 (256)
T ss_dssp             HHHHHHHHHHHHHHHHSCEEEEEEETS
T ss_pred             HHHHHHHHHHHhhccccceEEEEecch
Confidence            22334444444444 456679999998

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 ....

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=97.43  E-value=0.0014  Score=51.65  Aligned_cols=115  Identities=18%  Similarity=0.155  Sum_probs=64.6

Q ss_pred             EEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCc---cccHHHHHHHHHHHh-----cCC----CCCC-Cc---
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSE---TFEEFRVAKAMVEAL-----DGH----ESHL-GE---  260 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~---~~~~~~~~~~i~~~~-----~~~----~~~~-~~---  260 (314)
                      ..|-|++-.|.||||+|....-  +...+=-.+.++..-+   ......++..+- .+     +..    ..+. .+   
T Consensus         3 G~i~vy~g~G~Gkt~~a~g~~~--ra~~~g~~v~~vQFlKg~~~~gE~~~l~~l~-~v~~~~~g~~~~~~~~~~~~~~~~   79 (159)
T cd00561           3 GLIQVYTGNGKGKTTAALGLAL--RALGHGYRVGVVQFLKGGWKYGELKALERLP-NIEIHRMGRGFFWTTENDEEDIAA   79 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH--HHHHCCCeEEEEEEeCCCCccCHHHHHHhCC-CcEEEECCCCCccCCCChHHHHHH
Confidence            4677888889999999977755  3334433455544322   233333333330 00     000    0000 11   


Q ss_pred             HHHHHHHHHHHcc-CceEEEEEecccc---CCccCHHhHHHhhccCCCCceEEEeccC
Q 048765          261 FQSLLRHIYESIA-GKSFLLVLDDVWD---GNYVKWEPFYHCLKNGLHGSKILVTTRK  314 (314)
Q Consensus       261 ~~~~~~~l~~~L~-~kr~LlVlDdv~~---~~~~~~~~l~~~l~~~~~gs~iivTtR~  314 (314)
                      .....+..++.+. ++-=|||||++-.   ....+.+++...+...+.+.-||+|.|+
T Consensus        80 a~~~~~~a~~~~~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~  137 (159)
T cd00561          80 AAEGWAFAKEAIASGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRN  137 (159)
T ss_pred             HHHHHHHHHHHHhcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCC
Confidence            1223333444553 4556999999833   2224567888888777777789999986

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.

>TIGR03689 pup_AAA proteasome ATPase

Probab=97.42  E-value=0.00056  Score=64.05  Aligned_cols=51  Identities=20%  Similarity=0.186  Sum_probs=35.8

Q ss_pred             cccccchhhHHHHHHHhhccCcC-------CCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          169 EEICGRVGEKNELLSKLLCESSE-------QQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~-------~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..+.|.+..++.+.+.+...-..       .-...+-+.++|++|+|||++|+.+++.
T Consensus       182 ~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~e  239 (512)
T TIGR03689       182 ADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANS  239 (512)
T ss_pred             HHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHh
Confidence            45778888888877765321000       1123456889999999999999999884

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.

>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]

Probab=97.42  E-value=0.0018  Score=57.14  Aligned_cols=131  Identities=24%  Similarity=0.284  Sum_probs=68.8

Q ss_pred             ccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHh-hhhcCceeEE----EEcCccc--------
Q 048765          172 CGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEE-VIRKFDKILW----VCVSETF--------  238 (314)
Q Consensus       172 vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~-~~~~F~~~~w----v~~~~~~--------  238 (314)
                      -+|..+..--++.|+.+      ....|++.|.+|+|||-||-...-..- .+..|..++-    +.++++.        
T Consensus       227 ~prn~eQ~~ALdlLld~------dI~lV~L~G~AGtGKTlLALaAgleqv~e~~~y~KiiVtRp~vpvG~dIGfLPG~eE  300 (436)
T COG1875         227 RPRNAEQRVALDLLLDD------DIDLVSLGGKAGTGKTLLALAAGLEQVLERKRYRKIIVTRPTVPVGEDIGFLPGTEE  300 (436)
T ss_pred             CcccHHHHHHHHHhcCC------CCCeEEeeccCCccHhHHHHHHHHHHHHHHhhhceEEEecCCcCcccccCcCCCchh
Confidence            34566666666777764      488999999999999999966533211 2334433222    2233321        


Q ss_pred             -----cHHHHHHHHHHHhcCCCCCCCcHHHHHHH--H----HHHccCc---eEEEEEeccccCCccCHHhHHHhhccCCC
Q 048765          239 -----EEFRVAKAMVEALDGHESHLGEFQSLLRH--I----YESIAGK---SFLLVLDDVWDGNYVKWEPFYHCLKNGLH  304 (314)
Q Consensus       239 -----~~~~~~~~i~~~~~~~~~~~~~~~~~~~~--l----~~~L~~k---r~LlVlDdv~~~~~~~~~~l~~~l~~~~~  304 (314)
                           -+..+...+---+....+....+..+..+  |    ..+++|+   .-+||+|.+.+..   -.+++..+-..+.
T Consensus       301 eKm~PWmq~i~DnLE~L~~~~~~~~~~l~~~l~~~~iev~alt~IRGRSl~~~FiIIDEaQNLT---pheikTiltR~G~  377 (436)
T COG1875         301 EKMGPWMQAIFDNLEVLFSPNEPGDRALEEILSRGRIEVEALTYIRGRSLPDSFIIIDEAQNLT---PHELKTILTRAGE  377 (436)
T ss_pred             hhccchHHHHHhHHHHHhcccccchHHHHHHHhccceeeeeeeeecccccccceEEEehhhccC---HHHHHHHHHhccC
Confidence                 11112111111111111111111111100  0    0233443   4689999997753   3666666777788


Q ss_pred             CceEEEe
Q 048765          305 GSKILVT  311 (314)
Q Consensus       305 gs~iivT  311 (314)
                      ||||++|
T Consensus       378 GsKIVl~  384 (436)
T COG1875         378 GSKIVLT  384 (436)
T ss_pred             CCEEEEc
Confidence            9999987

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=97.41  E-value=0.0012  Score=57.69  Aligned_cols=88  Identities=16%  Similarity=0.155  Sum_probs=47.9

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCcc-ccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHcc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSET-FEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIA  273 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~-~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~  273 (314)
                      ...++.++|+.|+||||++..++........-..+..|++... ......+....+.++.......+..++...+.. +.
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~D~~r~~a~eql~~~~~~~~~p~~~~~~~~~l~~~l~~-~~  271 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITTDTYRIGAVEQLKTYAKILGVPVKVARDPKELRKALDR-LR  271 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEECCccchhHHHHHHHHHHHhCCceeccCCHHHHHHHHHH-cc
Confidence            4679999999999999999998774433211124555665331 123334444444444322222333344444433 33


Q ss_pred             CceEEEEEecc
Q 048765          274 GKSFLLVLDDV  284 (314)
Q Consensus       274 ~kr~LlVlDdv  284 (314)
                      + .=+|++|..
T Consensus       272 ~-~d~vliDt~  281 (282)
T TIGR03499       272 D-KDLILIDTA  281 (282)
T ss_pred             C-CCEEEEeCC
Confidence            3 347777753

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

Probab=97.41  E-value=0.00089  Score=59.10  Aligned_cols=85  Identities=22%  Similarity=0.182  Sum_probs=56.2

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCC-----CCCCcHHHHHHHH
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHE-----SHLGEFQSLLRHI  268 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~-----~~~~~~~~~~~~l  268 (314)
                      +.-+++-|+|++|+|||||+..++..  ....-..++|++....+++.     .++.++...     ....+.++....+
T Consensus        53 p~G~iteI~Gp~GsGKTtLal~~~~~--~~~~g~~~vyId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~i~  125 (325)
T cd00983          53 PKGRIIEIYGPESSGKTTLALHAIAE--AQKLGGTVAFIDAEHALDPV-----YAKKLGVDLDNLLISQPDTGEQALEIA  125 (325)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHH--HHHcCCCEEEECccccHHHH-----HHHHcCCCHHHheecCCCCHHHHHHHH
Confidence            45678889999999999999988763  33445678899987776653     334443321     1223344455555


Q ss_pred             HHHc-cCceEEEEEeccc
Q 048765          269 YESI-AGKSFLLVLDDVW  285 (314)
Q Consensus       269 ~~~L-~~kr~LlVlDdv~  285 (314)
                      ...+ .+.--+||+|.|-
T Consensus       126 ~~li~s~~~~lIVIDSva  143 (325)
T cd00983         126 DSLVRSGAVDLIVVDSVA  143 (325)
T ss_pred             HHHHhccCCCEEEEcchH
Confidence            5544 4566799999984

RecA couples ATP hydrolysis to DNA strand exchange.

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=97.41  E-value=0.00057  Score=68.69  Aligned_cols=45  Identities=20%  Similarity=0.302  Sum_probs=37.3

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..++||+.++.+++..|....      ...+.++|++|+|||++++.+...
T Consensus       173 ~~~igr~~ei~~~~~~l~r~~------~~n~lL~G~pGvGKT~l~~~la~~  217 (852)
T TIGR03346       173 DPVIGRDEEIRRTIQVLSRRT------KNNPVLIGEPGVGKTAIVEGLAQR  217 (852)
T ss_pred             CcCCCcHHHHHHHHHHHhcCC------CCceEEEcCCCCCHHHHHHHHHHH
Confidence            459999999999999996643      345568999999999999988773

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.

>CHL00181 cbbX CbbX; Provisional

Probab=97.40  E-value=0.0013  Score=57.51  Aligned_cols=23  Identities=35%  Similarity=0.383  Sum_probs=20.0

Q ss_pred             EEEEEEccCCCChHHHHHHhhch
Q 048765          197 HIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..+.++|++|+||||+|+.++..
T Consensus        60 ~~ill~G~pGtGKT~lAr~la~~   82 (287)
T CHL00181         60 LHMSFTGSPGTGKTTVALKMADI   82 (287)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH
Confidence            35788999999999999999763

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

Probab=97.39  E-value=0.00036  Score=59.32  Aligned_cols=50  Identities=28%  Similarity=0.430  Sum_probs=39.1

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .+|+|.+.-.++|.-++.... .....+..+.++|++|.||||||.-+++.
T Consensus        26 ~efiGQ~~vk~~L~ifI~AAk-~r~e~lDHvLl~GPPGlGKTTLA~IIA~E   75 (332)
T COG2255          26 DEFIGQEKVKEQLQIFIKAAK-KRGEALDHVLLFGPPGLGKTTLAHIIANE   75 (332)
T ss_pred             HHhcChHHHHHHHHHHHHHHH-hcCCCcCeEEeeCCCCCcHHHHHHHHHHH
Confidence            579998887777766654322 13367889999999999999999999883

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=97.39  E-value=0.0012  Score=58.24  Aligned_cols=91  Identities=19%  Similarity=0.253  Sum_probs=58.4

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhh----hcCceeEEEEcCccccHHHHHHHHHHHhcCCCC---------CCCc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVI----RKFDKILWVCVSETFEEFRVAKAMVEALDGHES---------HLGE  260 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~----~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~---------~~~~  260 (314)
                      +.-.++-|+|++|+|||+|+..++-.....    ..-..++||+....|+++.+.. +++.++....         ...+
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            456788899999999999998876432221    1224789999999888888754 5666544321         1112


Q ss_pred             HH---HHHHHHHHHc-cCceEEEEEeccc
Q 048765          261 FQ---SLLRHIYESI-AGKSFLLVLDDVW  285 (314)
Q Consensus       261 ~~---~~~~~l~~~L-~~kr~LlVlDdv~  285 (314)
                      .+   +++..+...+ ..+--|||+|.+-
T Consensus       173 ~e~~~~~l~~l~~~i~~~~~~LvVIDSis  201 (313)
T TIGR02238       173 SEHQMELLDYLAAKFSEEPFRLLIVDSIM  201 (313)
T ss_pred             HHHHHHHHHHHHHHhhccCCCEEEEEcch
Confidence            22   3334444444 3456689999984

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.

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

Probab=97.39  E-value=0.0016  Score=59.58  Aligned_cols=91  Identities=21%  Similarity=0.293  Sum_probs=54.9

Q ss_pred             EEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHccCceE
Q 048765          198 IISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGKSF  277 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~  277 (314)
                      ++.|.|+.++||||+++.+...  ..   +..++++.-+......-+.+...                 .+...-..++.
T Consensus        39 i~~i~GpR~~GKTtll~~l~~~--~~---~~~iy~~~~d~~~~~~~l~d~~~-----------------~~~~~~~~~~~   96 (398)
T COG1373          39 IILILGPRQVGKTTLLKLLIKG--LL---EEIIYINFDDLRLDRIELLDLLR-----------------AYIELKEREKS   96 (398)
T ss_pred             EEEEECCccccHHHHHHHHHhh--CC---cceEEEEecchhcchhhHHHHHH-----------------HHHHhhccCCc
Confidence            9999999999999999655442  11   11455543222111111111111                 11111122788


Q ss_pred             EEEEeccccCCccCHHhHHHhhccCCCCceEEEecc
Q 048765          278 LLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTR  313 (314)
Q Consensus       278 LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR  313 (314)
                      +|+||.|...  ..|......+.+..+. +|++|+-
T Consensus        97 yifLDEIq~v--~~W~~~lk~l~d~~~~-~v~itgs  129 (398)
T COG1373          97 YIFLDEIQNV--PDWERALKYLYDRGNL-DVLITGS  129 (398)
T ss_pred             eEEEecccCc--hhHHHHHHHHHccccc-eEEEECC
Confidence            9999999766  6799988888876555 7888864

>PRK09354 recA recombinase A; Provisional

Probab=97.39  E-value=0.001  Score=59.18  Aligned_cols=85  Identities=22%  Similarity=0.182  Sum_probs=57.4

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCC-----CCCCcHHHHHHHH
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHE-----SHLGEFQSLLRHI  268 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~-----~~~~~~~~~~~~l  268 (314)
                      +.-+++-|+|++|+|||||+.+++.  .....-..++||+....++..     .+++++...     ......++....+
T Consensus        58 p~G~IteI~G~~GsGKTtLal~~~~--~~~~~G~~~~yId~E~s~~~~-----~a~~lGvdld~lli~qp~~~Eq~l~i~  130 (349)
T PRK09354         58 PRGRIVEIYGPESSGKTTLALHAIA--EAQKAGGTAAFIDAEHALDPV-----YAKKLGVDIDNLLVSQPDTGEQALEIA  130 (349)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHH--HHHHcCCcEEEECCccchHHH-----HHHHcCCCHHHeEEecCCCHHHHHHHH
Confidence            4567889999999999999998876  333445678999988877753     344444321     1222344455555


Q ss_pred             HHHc-cCceEEEEEeccc
Q 048765          269 YESI-AGKSFLLVLDDVW  285 (314)
Q Consensus       269 ~~~L-~~kr~LlVlDdv~  285 (314)
                      ...+ .++--+||+|.|-
T Consensus       131 ~~li~s~~~~lIVIDSva  148 (349)
T PRK09354        131 DTLVRSGAVDLIVVDSVA  148 (349)
T ss_pred             HHHhhcCCCCEEEEeChh
Confidence            5554 4567799999985

>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=97.38  E-value=0.0013  Score=54.09  Aligned_cols=55  Identities=22%  Similarity=0.277  Sum_probs=33.8

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCc-cccHHHHHHHHHHHhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSE-TFEEFRVAKAMVEALD  252 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~~~  252 (314)
                      ++++.++|+.|+||||.+-+++.....+  -..+..+++.. .....+-++..++.++
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~~~~--~~~v~lis~D~~R~ga~eQL~~~a~~l~   56 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARLKLK--GKKVALISADTYRIGAVEQLKTYAEILG   56 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHHHHT--T--EEEEEESTSSTHHHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHHhhc--cccceeecCCCCCccHHHHHHHHHHHhc
Confidence            3689999999999999998887644333  33455555422 2233444455555443

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 ....

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=97.37  E-value=0.00029  Score=58.02  Aligned_cols=103  Identities=18%  Similarity=0.157  Sum_probs=48.8

Q ss_pred             EEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHH-c---
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYES-I---  272 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~-L---  272 (314)
                      ++..|.|.+|+||||+++.+.......+   ..+.+..........+    .+..+..   ...+.......... .   
T Consensus        19 ~~~~l~G~aGtGKT~~l~~~~~~~~~~g---~~v~~~apT~~Aa~~L----~~~~~~~---a~Ti~~~l~~~~~~~~~~~   88 (196)
T PF13604_consen   19 RVSVLQGPAGTGKTTLLKALAEALEAAG---KRVIGLAPTNKAAKEL----REKTGIE---AQTIHSFLYRIPNGDDEGR   88 (196)
T ss_dssp             SEEEEEESTTSTHHHHHHHHHHHHHHTT-----EEEEESSHHHHHHH----HHHHTS----EEEHHHHTTEECCEECCSS
T ss_pred             eEEEEEECCCCCHHHHHHHHHHHHHhCC---CeEEEECCcHHHHHHH----HHhhCcc---hhhHHHHHhcCCccccccc
Confidence            5788899999999999998876433321   2333333322222222    2222211   01111000000000 0   


Q ss_pred             --cCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEe
Q 048765          273 --AGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVT  311 (314)
Q Consensus       273 --~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivT  311 (314)
                        ..+.-+||+|++.-.+...+..|....+.  .|+|+|+.
T Consensus        89 ~~~~~~~vliVDEasmv~~~~~~~ll~~~~~--~~~klilv  127 (196)
T PF13604_consen   89 PELPKKDVLIVDEASMVDSRQLARLLRLAKK--SGAKLILV  127 (196)
T ss_dssp             CC-TSTSEEEESSGGG-BHHHHHHHHHHS-T---T-EEEEE
T ss_pred             ccCCcccEEEEecccccCHHHHHHHHHHHHh--cCCEEEEE
Confidence              12335999999976544445555554443  47788764

>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=97.37  E-value=0.00014  Score=54.75  Aligned_cols=21  Identities=43%  Similarity=0.553  Sum_probs=19.6

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +|.|.|++|+||||+|+.+..
T Consensus         1 vI~I~G~~gsGKST~a~~La~   21 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAE   21 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999999976

...

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

Probab=97.36  E-value=0.00025  Score=69.73  Aligned_cols=44  Identities=25%  Similarity=0.299  Sum_probs=36.8

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..++||+.+++.+++.|....      ...+.++|++|+|||++|+.++.
T Consensus       186 ~~liGR~~ei~~~i~iL~r~~------~~n~LLvGppGvGKT~lae~la~  229 (758)
T PRK11034        186 DPLIGREKELERAIQVLCRRR------KNNPLLVGESGVGKTAIAEGLAW  229 (758)
T ss_pred             CcCcCCCHHHHHHHHHHhccC------CCCeEEECCCCCCHHHHHHHHHH
Confidence            469999999999999887633      23446899999999999999876

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=97.36  E-value=0.0024  Score=54.10  Aligned_cols=87  Identities=21%  Similarity=0.175  Sum_probs=55.5

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCC------------------
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHE------------------  255 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~------------------  255 (314)
                      +.-.++.|+|.+|+|||+|+.++...  ....=..++|++..+.  +..+.+.+. +++-..                  
T Consensus        23 ~~g~~~~i~G~~GsGKt~l~~~~~~~--~~~~g~~~~y~~~e~~--~~~~~~~~~-~~g~~~~~~~~~g~l~i~~~~~~~   97 (234)
T PRK06067         23 PFPSLILIEGDHGTGKSVLSQQFVYG--ALKQGKKVYVITTENT--SKSYLKQME-SVKIDISDFFLWGYLRIFPLNTEG   97 (234)
T ss_pred             cCCcEEEEECCCCCChHHHHHHHHHH--HHhCCCEEEEEEcCCC--HHHHHHHHH-HCCCChhHHHhCCCceEEeccccc
Confidence            55679999999999999999998642  1123457888988654  445555432 222110                  


Q ss_pred             --CCCCcHHHHHHHHHHHccC-ceEEEEEeccc
Q 048765          256 --SHLGEFQSLLRHIYESIAG-KSFLLVLDDVW  285 (314)
Q Consensus       256 --~~~~~~~~~~~~l~~~L~~-kr~LlVlDdv~  285 (314)
                        ....+...+...+...+.. +.-++|+|.+-
T Consensus        98 ~~~~~~~~~~ll~~l~~~i~~~~~~~iviDs~t  130 (234)
T PRK06067         98 FEWNSTLANKLLELIIEFIKSKREDVIIIDSLT  130 (234)
T ss_pred             cccCcchHHHHHHHHHHHHHhcCCCEEEEecHH
Confidence              0112335566666666643 56689999985

>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=97.34  E-value=0.00052  Score=54.98  Aligned_cols=126  Identities=19%  Similarity=0.148  Sum_probs=66.7

Q ss_pred             cccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHH
Q 048765          171 ICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEA  250 (314)
Q Consensus       171 ~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~  250 (314)
                      ++|....+.++.+.+..-..    ...-|.|+|..|+||+.+|+.+++.  ....-.+-+-|+|+.- +.+.+    -..
T Consensus         1 liG~s~~m~~~~~~~~~~a~----~~~pVlI~GE~GtGK~~lA~~IH~~--s~r~~~pfi~vnc~~~-~~~~~----e~~   69 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAAS----SDLPVLITGETGTGKELLARAIHNN--SPRKNGPFISVNCAAL-PEELL----ESE   69 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHTT----STS-EEEECSTTSSHHHHHHHHHHC--STTTTS-EEEEETTTS--HHHH----HHH
T ss_pred             CEeCCHHHHHHHHHHHHHhC----CCCCEEEEcCCCCcHHHHHHHHHHh--hhcccCCeEEEehhhh-hcchh----hhh
Confidence            46777777777777655332    2345669999999999999999873  2222334456667643 22222    222


Q ss_pred             h-cCCCC---CC-CcHHHHHHHHHHHccCceEEEEEeccccCCccCHHhHHHhhccC---CC--------CceEEEecc
Q 048765          251 L-DGHES---HL-GEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNG---LH--------GSKILVTTR  313 (314)
Q Consensus       251 ~-~~~~~---~~-~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~---~~--------gs~iivTtR  313 (314)
                      + +....   .. .....   .+.   +...=-|+||++.......-..|..++..+   ..        ..|||.||.
T Consensus        70 LFG~~~~~~~~~~~~~~G---~l~---~A~~GtL~Ld~I~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~st~  142 (168)
T PF00158_consen   70 LFGHEKGAFTGARSDKKG---LLE---QANGGTLFLDEIEDLPPELQAKLLRVLEEGKFTRLGSDKPVPVDVRIIASTS  142 (168)
T ss_dssp             HHEBCSSSSTTTSSEBEH---HHH---HTTTSEEEEETGGGS-HHHHHHHHHHHHHSEEECCTSSSEEE--EEEEEEES
T ss_pred             hhccccccccccccccCC---cee---eccceEEeecchhhhHHHHHHHHHHHHhhchhccccccccccccceEEeecC
Confidence            2 22111   00 00001   111   233447889999876544445566666532   11        357888875

These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....

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

Probab=97.29  E-value=0.00072  Score=64.41  Aligned_cols=88  Identities=18%  Similarity=0.262  Sum_probs=58.9

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHcc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIA  273 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~  273 (314)
                      +..+++.++|++|.||||||.-++.+.    -| .++=|++|+..++..+-..|...+........             .
T Consensus       324 P~kKilLL~GppGlGKTTLAHViAkqa----GY-sVvEINASDeRt~~~v~~kI~~avq~~s~l~a-------------d  385 (877)
T KOG1969|consen  324 PPKKILLLCGPPGLGKTTLAHVIAKQA----GY-SVVEINASDERTAPMVKEKIENAVQNHSVLDA-------------D  385 (877)
T ss_pred             CccceEEeecCCCCChhHHHHHHHHhc----Cc-eEEEecccccccHHHHHHHHHHHHhhcccccc-------------C
Confidence            557899999999999999998887632    22 36778899988888877777766643321100             2


Q ss_pred             CceEEEEEeccccCCccCHHhHHHhh
Q 048765          274 GKSFLLVLDDVWDGNYVKWEPFYHCL  299 (314)
Q Consensus       274 ~kr~LlVlDdv~~~~~~~~~~l~~~l  299 (314)
                      ++...||+|.++-......+.|...+
T Consensus       386 srP~CLViDEIDGa~~~~Vdvilslv  411 (877)
T KOG1969|consen  386 SRPVCLVIDEIDGAPRAAVDVILSLV  411 (877)
T ss_pred             CCcceEEEecccCCcHHHHHHHHHHH
Confidence            56778899999643211234444443

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=97.29  E-value=0.002  Score=57.55  Aligned_cols=91  Identities=18%  Similarity=0.165  Sum_probs=57.9

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhh----hcCceeEEEEcCccccHHHHHHHHHHHhcCCCC---------CCCc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVI----RKFDKILWVCVSETFEEFRVAKAMVEALDGHES---------HLGE  260 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~----~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~---------~~~~  260 (314)
                      ..-.++-|+|.+|+|||+|+..++-.....    ..-..++|++....|.++.+ .+|++.++....         ...+
T Consensus       121 ~~g~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~eRl-~qia~~~~~~~~~~l~~i~~~~~~~  199 (342)
T PLN03186        121 ETGSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRL-IQIAERFGLNGADVLENVAYARAYN  199 (342)
T ss_pred             cCceEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHHHH-HHHHHHcCCChhhhccceEEEecCC
Confidence            456788899999999999998776532211    11237999999999988776 455666544321         1122


Q ss_pred             HHHH---HHHHHHHc-cCceEEEEEeccc
Q 048765          261 FQSL---LRHIYESI-AGKSFLLVLDDVW  285 (314)
Q Consensus       261 ~~~~---~~~l~~~L-~~kr~LlVlDdv~  285 (314)
                      ...+   +..+...+ ..+--|||+|.+-
T Consensus       200 ~e~~~~ll~~~~~~~~~~~~~LIVIDSI~  228 (342)
T PLN03186        200 TDHQSELLLEAASMMAETRFALMIVDSAT  228 (342)
T ss_pred             HHHHHHHHHHHHHHhhccCCCEEEEeCcH
Confidence            3332   33333333 4466799999984

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.29  E-value=0.0057  Score=55.24  Aligned_cols=24  Identities=29%  Similarity=0.440  Sum_probs=21.5

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +.++|+++|++|+||||++..++.
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~  263 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAW  263 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHH
Confidence            457999999999999999999876

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.28  E-value=0.0038  Score=56.71  Aligned_cols=90  Identities=17%  Similarity=0.162  Sum_probs=48.1

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhh--hcCceeEEEEcCcc-ccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHH
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVI--RKFDKILWVCVSET-FEEFRVAKAMVEALDGHESHLGEFQSLLRHIYES  271 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~--~~F~~~~wv~~~~~-~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~  271 (314)
                      ...++.++|+.|+||||.+.+++......  .+-..+..+++... .....-+....+.++.......+..++...+...
T Consensus       173 ~~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv~~~~~~~~l~~~L~~~  252 (388)
T PRK12723        173 KKRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIPVKAIESFKDLKEEITQS  252 (388)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCCcceEeeCcHHHHHHHHHHh
Confidence            35799999999999999999887643322  12234555554321 1223335555555544222222333333333322


Q ss_pred             ccCceEEEEEecccc
Q 048765          272 IAGKSFLLVLDDVWD  286 (314)
Q Consensus       272 L~~kr~LlVlDdv~~  286 (314)
                        .+.-+|++|....
T Consensus       253 --~~~DlVLIDTaGr  265 (388)
T PRK12723        253 --KDFDLVLVDTIGK  265 (388)
T ss_pred             --CCCCEEEEcCCCC
Confidence              3345667777643

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=97.26  E-value=0.003  Score=56.00  Aligned_cols=91  Identities=21%  Similarity=0.171  Sum_probs=56.3

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhh----cCceeEEEEcCccccHHHHHHHHHHHhcCCCC---------CCCc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIR----KFDKILWVCVSETFEEFRVAKAMVEALDGHES---------HLGE  260 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~----~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~---------~~~~  260 (314)
                      +.-.++.|+|.+|+|||+|+..++.......    .-..++|++....+....+ .++++.++....         ...+
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            4578999999999999999988865322211    1236799999887777764 344555433211         0112


Q ss_pred             HH---HHHHHHHHHc-cCceEEEEEeccc
Q 048765          261 FQ---SLLRHIYESI-AGKSFLLVLDDVW  285 (314)
Q Consensus       261 ~~---~~~~~l~~~L-~~kr~LlVlDdv~  285 (314)
                      ..   .+...+...+ ..+--|||+|.+-
T Consensus       173 ~~~~~~~l~~~~~~~~~~~~~LvVIDSI~  201 (316)
T TIGR02239       173 TDHQLQLLQQAAAMMSESRFALLIVDSAT  201 (316)
T ss_pred             hHHHHHHHHHHHHhhccCCccEEEEECcH
Confidence            22   2333344444 3456799999984

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).

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=97.25  E-value=0.0025  Score=56.75  Aligned_cols=42  Identities=10%  Similarity=0.123  Sum_probs=32.2

Q ss_pred             cCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEeccC
Q 048765          273 AGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTRK  314 (314)
Q Consensus       273 ~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR~  314 (314)
                      .+++-++|||++...+....+.|...+..-+.++.+|+||.+
T Consensus       104 ~~~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~  145 (328)
T PRK05707        104 LGGRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQ  145 (328)
T ss_pred             cCCCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECC
Confidence            345556678999988877888898888876667778888753

>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]

Probab=97.24  E-value=0.0021  Score=55.52  Aligned_cols=91  Identities=24%  Similarity=0.173  Sum_probs=60.3

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcC---C-CCCCCcHHHHHHHHH
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDG---H-ESHLGEFQSLLRHIY  269 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~---~-~~~~~~~~~~~~~l~  269 (314)
                      +.-.++=|+|+.|+||||+|.+++-  ..+..-..++|++.-..+++..+..-..+.+..   . +.+.....++++.+.
T Consensus        58 ~~g~ItEiyG~~gsGKT~lal~~~~--~aq~~g~~a~fIDtE~~l~p~r~~~l~~~~~d~l~v~~~~~~e~q~~i~~~~~  135 (279)
T COG0468          58 PRGRITEIYGPESSGKTTLALQLVA--NAQKPGGKAAFIDTEHALDPERAKQLGVDLLDNLLVSQPDTGEQQLEIAEKLA  135 (279)
T ss_pred             ccceEEEEecCCCcchhhHHHHHHH--HhhcCCCeEEEEeCCCCCCHHHHHHHHHhhhcceeEecCCCHHHHHHHHHHHH
Confidence            5567888999999999999988866  445555689999999999888754333221211   1 122222334455555


Q ss_pred             HHccCceEEEEEecccc
Q 048765          270 ESIAGKSFLLVLDDVWD  286 (314)
Q Consensus       270 ~~L~~kr~LlVlDdv~~  286 (314)
                      .....+--|||+|.+-.
T Consensus       136 ~~~~~~i~LvVVDSvaa  152 (279)
T COG0468         136 RSGAEKIDLLVVDSVAA  152 (279)
T ss_pred             HhccCCCCEEEEecCcc
Confidence            55444577999999843

>PRK06696 uridine kinase; Validated

Probab=97.23  E-value=0.0012  Score=55.56  Aligned_cols=43  Identities=26%  Similarity=0.233  Sum_probs=34.0

Q ss_pred             chhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          174 RVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       174 r~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      |.+.++.|.+.+.....   ....+|+|.|.+|+||||||+.+...
T Consensus         3 ~~~~~~~la~~~~~~~~---~~~~iI~I~G~sgsGKSTlA~~L~~~   45 (223)
T PRK06696          3 RKQLIKELAEHILTLNL---TRPLRVAIDGITASGKTTFADELAEE   45 (223)
T ss_pred             HHHHHHHHHHHHHHhCC---CCceEEEEECCCCCCHHHHHHHHHHH
Confidence            56667777777765332   46789999999999999999999873

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

Probab=97.23  E-value=0.0021  Score=55.28  Aligned_cols=87  Identities=20%  Similarity=0.171  Sum_probs=52.8

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcC-ceeEEEEcCcccc-HHHHHHHHHHHhcCC--------CCCCCcHH---
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKF-DKILWVCVSETFE-EFRVAKAMVEALDGH--------ESHLGEFQ---  262 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F-~~~~wv~~~~~~~-~~~~~~~i~~~~~~~--------~~~~~~~~---  262 (314)
                      -.-++|+|..|+|||+|++.+++.  ...+| +.++++-+.+... +.++...+...-...        .......+   
T Consensus        69 GQr~~If~~~G~GKTtLa~~i~~~--i~~~~~~~~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~~  146 (274)
T cd01133          69 GGKIGLFGGAGVGKTVLIMELINN--IAKAHGGYSVFAGVGERTREGNDLYHEMKESGVLSKTALVYGQMNEPPGARARV  146 (274)
T ss_pred             CCEEEEecCCCCChhHHHHHHHHH--HHhcCCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHH
Confidence            457889999999999999999984  44445 4566666766443 344555544321111        01111111   


Q ss_pred             -HHHHHHHHHc--c-CceEEEEEecc
Q 048765          263 -SLLRHIYESI--A-GKSFLLVLDDV  284 (314)
Q Consensus       263 -~~~~~l~~~L--~-~kr~LlVlDdv  284 (314)
                       ...-.+.+++  + ++..||++||+
T Consensus       147 ~~~a~~~AEyfr~~~g~~Vl~~~Dsl  172 (274)
T cd01133         147 ALTGLTMAEYFRDEEGQDVLLFIDNI  172 (274)
T ss_pred             HHHHHHHHHHHHHhcCCeEEEEEeCh
Confidence             1223345555  4 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.

>COG3899 Predicted ATPase [General function prediction only]

Probab=97.22  E-value=0.0017  Score=65.02  Aligned_cols=45  Identities=27%  Similarity=0.362  Sum_probs=39.1

Q ss_pred             cccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          171 ICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       171 ~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ++||+.+++.|...+..-..   ....++.+.|..|+|||+|++.|..
T Consensus         2 l~GRe~ev~~Ll~~f~~v~~---g~~~~~lv~G~sGIGKsalv~ev~~   46 (849)
T COG3899           2 LYGRETELAQLLAAFDRVSK---GRGEVVLVAGESGIGKSALVNEVHK   46 (849)
T ss_pred             CCchHhHHHHHHHHHHHHhC---CCeEEEEEeecCCCcHHHHHHHHHH
Confidence            78999999999998876543   4566999999999999999999976

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.21  E-value=0.0029  Score=57.59  Aligned_cols=25  Identities=28%  Similarity=0.299  Sum_probs=21.7

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ...++.++|++|+||||++.+++..
T Consensus       222 ~~~vi~lvGptGvGKTTtaaKLA~~  246 (432)
T PRK12724        222 QRKVVFFVGPTGSGKTTSIAKLAAK  246 (432)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3568999999999999999999763

>CHL00176 ftsH cell division protein; Validated

Probab=97.19  E-value=0.0024  Score=61.84  Aligned_cols=50  Identities=30%  Similarity=0.261  Sum_probs=32.6

Q ss_pred             cccccchhhHHH---HHHHhhccCcC---CCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNE---LLSKLLCESSE---QQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~---l~~~L~~~~~~---~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .++.|.++..+.   ++.+|.....-   .....+-+.++|++|+|||+||+.++.
T Consensus       183 ~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~  238 (638)
T CHL00176        183 RDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAG  238 (638)
T ss_pred             HhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHH
Confidence            457776655444   44444432210   112345688999999999999999987

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=97.19  E-value=0.0032  Score=56.19  Aligned_cols=91  Identities=21%  Similarity=0.236  Sum_probs=58.0

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhh----hhcCceeEEEEcCccccHHHHHHHHHHHhcCCCC---------CCCc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEV----IRKFDKILWVCVSETFEEFRVAKAMVEALDGHES---------HLGE  260 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~----~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~---------~~~~  260 (314)
                      +.-.++-|+|.+|+|||+|+..++-....    ...-..++||+....|+++.+.. +++.++....         ...+
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            44578889999999999999888643222    11225789999999999888654 5555544321         1122


Q ss_pred             HHH---HHHHHHHHc-cCceEEEEEeccc
Q 048765          261 FQS---LLRHIYESI-AGKSFLLVLDDVW  285 (314)
Q Consensus       261 ~~~---~~~~l~~~L-~~kr~LlVlDdv~  285 (314)
                      .++   +...+...+ ..+--|||+|.+-
T Consensus       203 ~e~~~~~l~~l~~~i~~~~~~LvVIDSit  231 (344)
T PLN03187        203 YEHQYNLLLGLAAKMAEEPFRLLIVDSVI  231 (344)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCEEEEeCcH
Confidence            332   333333334 3445689999984

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=97.18  E-value=0.0021  Score=57.39  Aligned_cols=130  Identities=17%  Similarity=0.158  Sum_probs=72.0

Q ss_pred             ccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHH
Q 048765          170 EICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVE  249 (314)
Q Consensus       170 ~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~  249 (314)
                      .++|....+..+.+.+..-.    ..-.-|.|+|..|+||+++|+.++..  ....-...+.|+|.... . ..+..   
T Consensus         7 ~liG~S~~~~~~~~~i~~~a----~~~~pVlI~GE~GtGK~~lA~~iH~~--s~r~~~pfv~v~c~~~~-~-~~~~~---   75 (326)
T PRK11608          7 NLLGEANSFLEVLEQVSRLA----PLDKPVLIIGERGTGKELIASRLHYL--SSRWQGPFISLNCAALN-E-NLLDS---   75 (326)
T ss_pred             ccEECCHHHHHHHHHHHHHh----CCCCCEEEECCCCCcHHHHHHHHHHh--CCccCCCeEEEeCCCCC-H-HHHHH---
Confidence            58899888888888776543    23456789999999999999999752  11112344556666532 2 22221   


Q ss_pred             HhcCCCC-C-CCcHHHHHHHHHHHccCceEEEEEeccccCCccCHHhHHHhhccCC----C-------CceEEEecc
Q 048765          250 ALDGHES-H-LGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGL----H-------GSKILVTTR  313 (314)
Q Consensus       250 ~~~~~~~-~-~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~----~-------gs~iivTtR  313 (314)
                      .+.+... . ..........+   -....=.|+||+|..........|...+..+.    .       ..+||.||.
T Consensus        76 ~lfg~~~~~~~g~~~~~~g~l---~~a~gGtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~g~~~~~~~~~RiI~~s~  149 (326)
T PRK11608         76 ELFGHEAGAFTGAQKRHPGRF---ERADGGTLFLDELATAPMLVQEKLLRVIEYGELERVGGSQPLQVNVRLVCATN  149 (326)
T ss_pred             HHccccccccCCcccccCCch---hccCCCeEEeCChhhCCHHHHHHHHHHHhcCcEEeCCCCceeeccEEEEEeCc
Confidence            1211110 0 00000000111   12233458899998765455666777775431    1       247888763

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]

Probab=97.17  E-value=0.0035  Score=62.00  Aligned_cols=122  Identities=13%  Similarity=0.189  Sum_probs=73.7

Q ss_pred             ccccchhhHHHHHHHhhccCcCCC--CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHH
Q 048765          170 EICGRVGEKNELLSKLLCESSEQQ--KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAM  247 (314)
Q Consensus       170 ~~vgr~~~~~~l~~~L~~~~~~~~--~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i  247 (314)
                      .++|.++.+..+.+.+.....+-.  ....-+.+.|+.|+|||.||+.+..  -+-+..+..+-+++|+...       +
T Consensus       563 ~V~gQ~eAv~aIa~AI~~sr~gl~~~~~~awflflGpdgvGKt~lAkaLA~--~~Fgse~~~IriDmse~~e-------v  633 (898)
T KOG1051|consen  563 RVIGQDEAVAAIAAAIRRSRAGLKDPNPDAWFLFLGPDGVGKTELAKALAE--YVFGSEENFIRLDMSEFQE-------V  633 (898)
T ss_pred             hccchHHHHHHHHHHHHhhhcccCCCCCCeEEEEECCCchhHHHHHHHHHH--HHcCCccceEEechhhhhh-------h
Confidence            577778888888877765432211  2456667899999999999999977  3434444555555554322       2


Q ss_pred             HHHhcCCCCCCCcHHHHHHHHHHHccCce-EEEEEeccccCCccCHHhHHHhhccC
Q 048765          248 VEALDGHESHLGEFQSLLRHIYESIAGKS-FLLVLDDVWDGNYVKWEPFYHCLKNG  302 (314)
Q Consensus       248 ~~~~~~~~~~~~~~~~~~~~l~~~L~~kr-~LlVlDdv~~~~~~~~~~l~~~l~~~  302 (314)
                      .+.++.++.-..  .+....|.+.++.+. .+|.||||...+......+...+.++
T Consensus       634 skligsp~gyvG--~e~gg~LteavrrrP~sVVLfdeIEkAh~~v~n~llq~lD~G  687 (898)
T KOG1051|consen  634 SKLIGSPPGYVG--KEEGGQLTEAVKRRPYSVVLFEEIEKAHPDVLNILLQLLDRG  687 (898)
T ss_pred             hhccCCCccccc--chhHHHHHHHHhcCCceEEEEechhhcCHHHHHHHHHHHhcC
Confidence            333333221111  112235566665555 57889999887666666666666543

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.17  E-value=0.0031  Score=59.04  Aligned_cols=25  Identities=32%  Similarity=0.368  Sum_probs=21.7

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .-.+++|+|+.|+||||++.++...
T Consensus       349 ~G~vIaLVGPtGvGKTTtaakLAa~  373 (559)
T PRK12727        349 RGGVIALVGPTGAGKTTTIAKLAQR  373 (559)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHH
Confidence            4579999999999999999888763

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=97.16  E-value=0.0078  Score=55.59  Aligned_cols=58  Identities=22%  Similarity=0.202  Sum_probs=35.9

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCc-cccHHHHHHHHHHHhcC
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSE-TFEEFRVAKAMVEALDG  253 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~~~~  253 (314)
                      ....++.++|.+|+||||++..++...... .+ .+..|++.. .....+.+..+.++++.
T Consensus        93 ~~p~vI~lvG~~GsGKTTtaakLA~~L~~~-g~-kV~lV~~D~~R~aa~eQL~~la~~~gv  151 (437)
T PRK00771         93 LKPQTIMLVGLQGSGKTTTAAKLARYFKKK-GL-KVGLVAADTYRPAAYDQLKQLAEKIGV  151 (437)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHHHHc-CC-eEEEecCCCCCHHHHHHHHHHHHHcCC
Confidence            357899999999999999999998743322 22 344444422 11234455556665543

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

Probab=97.15  E-value=0.0049  Score=49.54  Aligned_cols=22  Identities=41%  Similarity=0.561  Sum_probs=19.4

Q ss_pred             EEEEEccCCCChHHHHHHhhch
Q 048765          198 IISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ++.++|++|+||||++..++..
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~   23 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALY   23 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6789999999999999988763

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.

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=97.14  E-value=0.0042  Score=55.02  Aligned_cols=92  Identities=20%  Similarity=0.190  Sum_probs=56.6

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhh----hcCceeEEEEcCccccHHHHHHHHHHHhcCCCC------------C
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVI----RKFDKILWVCVSETFEEFRVAKAMVEALDGHES------------H  257 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~----~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~------------~  257 (314)
                      +.-.++-|+|.+|+|||+++.+++......    ..-..++||+....++...+. ++++.++....            .
T Consensus        93 ~~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~-~~~~~~gl~~~~~~~~i~i~~~~~  171 (310)
T TIGR02236        93 ETQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIM-QMAEARGLDPDEVLKNIYVARAYN  171 (310)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHH-HHHHHcCCCHHHHhhceEEEecCC
Confidence            446788999999999999999887542221    011379999999888887654 34444432210            0


Q ss_pred             CCcHHHHHHHHHHHccC---ceEEEEEecccc
Q 048765          258 LGEFQSLLRHIYESIAG---KSFLLVLDDVWD  286 (314)
Q Consensus       258 ~~~~~~~~~~l~~~L~~---kr~LlVlDdv~~  286 (314)
                      ......+.+.+.+.+..   +.-+||+|.+-.
T Consensus       172 ~~~~~~lld~l~~~i~~~~~~~~lVVIDSisa  203 (310)
T TIGR02236       172 SNHQMLLVEKAEDLIKELNNPVKLLIVDSLTS  203 (310)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCceEEEEecchH
Confidence            01111234455555533   245999999843

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.

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=97.14  E-value=0.0054  Score=54.28  Aligned_cols=138  Identities=12%  Similarity=0.115  Sum_probs=75.1

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHh--------------hhhcCceeEEEEc
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEE--------------VIRKFDKILWVCV  234 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~--------------~~~~F~~~~wv~~  234 (314)
                      +.++|.+...+.+...+....     -.....++|+.|+||+++|..+....-              ...|.| ..|+.-
T Consensus         4 ~~iiGq~~~~~~L~~~i~~~r-----l~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~hPD-l~~i~p   77 (314)
T PRK07399          4 ANLIGQPLAIELLTAAIKQNR-----IAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNHPD-LLWVEP   77 (314)
T ss_pred             HHhCCHHHHHHHHHHHHHhCC-----CCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCCCC-EEEEec
Confidence            458899999999998886532     246888999999999999977754210              011222 233321


Q ss_pred             CccccHHHHHHHHHHHhcC--CC-CC--CCcHHHHHHHHHHH-ccCceEEEEEeccccCCccCHHhHHHhhccCCCCceE
Q 048765          235 SETFEEFRVAKAMVEALDG--HE-SH--LGEFQSLLRHIYES-IAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKI  308 (314)
Q Consensus       235 ~~~~~~~~~~~~i~~~~~~--~~-~~--~~~~~~~~~~l~~~-L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~i  308 (314)
                      ........+-...+...+.  .. ..  .+..+++...+... ..+++-++|||++...+....+.|...+...+ .+.+
T Consensus        78 ~~~~~g~~~~~~~~~~~~~~~~~~~~I~id~ir~i~~~l~~~p~~~~~kVvII~~ae~m~~~aaNaLLK~LEEPp-~~~f  156 (314)
T PRK07399         78 TYQHQGKLITASEAEEAGLKRKAPPQIRLEQIREIKRFLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLEEPG-NGTL  156 (314)
T ss_pred             cccccccccchhhhhhccccccccccCcHHHHHHHHHHHccCcccCCceEEEEEchhhcCHHHHHHHHHHHhCCC-CCeE
Confidence            1000000000011111110  00 00  11222222222211 24677899999998877677888988887555 4456


Q ss_pred             EEecc
Q 048765          309 LVTTR  313 (314)
Q Consensus       309 ivTtR  313 (314)
                      |++|.
T Consensus       157 ILi~~  161 (314)
T PRK07399        157 ILIAP  161 (314)
T ss_pred             EEEEC
Confidence            66653

>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=97.14  E-value=0.004  Score=50.48  Aligned_cols=115  Identities=15%  Similarity=0.157  Sum_probs=60.3

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEE---cCccccHHHH------HHHHHHHhcCCC------CCCCc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVC---VSETFEEFRV------AKAMVEALDGHE------SHLGE  260 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~---~~~~~~~~~~------~~~i~~~~~~~~------~~~~~  260 (314)
                      -.+++|+|..|+|||||.+.++...   ......++++   +.. .+....      ..++++.++...      ...+.
T Consensus        25 G~~~~l~G~nGsGKStLl~~i~G~~---~~~~G~v~~~g~~~~~-~~~~~~~~~i~~~~q~l~~~gl~~~~~~~~~~LS~  100 (180)
T cd03214          25 GEIVGILGPNGAGKSTLLKTLAGLL---KPSSGEILLDGKDLAS-LSPKELARKIAYVPQALELLGLAHLADRPFNELSG  100 (180)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC---CCCCcEEEECCEECCc-CCHHHHHHHHhHHHHHHHHcCCHhHhcCCcccCCH
Confidence            4589999999999999999997632   2334444443   221 111111      112344443321      11111


Q ss_pred             HHHHHHHHHHHccCceEEEEEecccc-CCccCHHhHHHhhccC-CC-CceEEEeccC
Q 048765          261 FQSLLRHIYESIAGKSFLLVLDDVWD-GNYVKWEPFYHCLKNG-LH-GSKILVTTRK  314 (314)
Q Consensus       261 ~~~~~~~l~~~L~~kr~LlVlDdv~~-~~~~~~~~l~~~l~~~-~~-gs~iivTtR~  314 (314)
                      -+...-.+...|-..+-++++|+--. .|....+.+...+... .. |..||++|.+
T Consensus       101 G~~qrl~laral~~~p~llllDEP~~~LD~~~~~~~~~~l~~~~~~~~~tiii~sh~  157 (180)
T cd03214         101 GERQRVLLARALAQEPPILLLDEPTSHLDIAHQIELLELLRRLARERGKTVVMVLHD  157 (180)
T ss_pred             HHHHHHHHHHHHhcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHhcCCEEEEEeCC
Confidence            11112223444556778899999632 2323344555555432 22 5678888763

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.

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=97.13  E-value=0.0051  Score=54.66  Aligned_cols=91  Identities=21%  Similarity=0.201  Sum_probs=57.6

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhh----cCceeEEEEcCccccHHHHHHHHHHHhcCCCC------------C
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIR----KFDKILWVCVSETFEEFRVAKAMVEALDGHES------------H  257 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~----~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~------------~  257 (314)
                      +.-.++-|+|++|+|||+++.+++.......    .=..++||+....+++..+.. +++.++....            .
T Consensus       100 ~~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~-~~~~~g~~~~~~l~~i~~~~~~~  178 (317)
T PRK04301        100 ETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQ-MAEALGLDPDEVLDNIHVARAYN  178 (317)
T ss_pred             cCCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHH-HHHHcCCChHhhhccEEEEeCCC
Confidence            4567888999999999999998875322111    114799999998888877644 3444433211            1


Q ss_pred             CCcHHHHHHHHHHHccC--ceEEEEEeccc
Q 048765          258 LGEFQSLLRHIYESIAG--KSFLLVLDDVW  285 (314)
Q Consensus       258 ~~~~~~~~~~l~~~L~~--kr~LlVlDdv~  285 (314)
                      ......+...+...+..  +--|||+|.+-
T Consensus       179 ~~~~~~~~~~l~~~i~~~~~~~lvVIDSis  208 (317)
T PRK04301        179 SDHQMLLAEKAEELIKEGENIKLVIVDSLT  208 (317)
T ss_pred             HHHHHHHHHHHHHHHhccCceeEEEEECch
Confidence            11112334555565543  45599999984

>PRK10867 signal recognition particle protein; Provisional

Probab=97.13  E-value=0.006  Score=56.22  Aligned_cols=25  Identities=40%  Similarity=0.504  Sum_probs=21.3

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ....+|.++|++|+||||++.+++.
T Consensus        98 ~~p~vI~~vG~~GsGKTTtaakLA~  122 (433)
T PRK10867         98 KPPTVIMMVGLQGAGKTTTAGKLAK  122 (433)
T ss_pred             CCCEEEEEECCCCCcHHHHHHHHHH
Confidence            3468999999999999998877765

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=97.13  E-value=0.0043  Score=54.19  Aligned_cols=140  Identities=20%  Similarity=0.195  Sum_probs=77.6

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcC-ceeEEEEcCccccHH-HHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKF-DKILWVCVSETFEEF-RVAKA  246 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F-~~~~wv~~~~~~~~~-~~~~~  246 (314)
                      ..++|-.++..++-.++......  +...-+.|+|+.|+|||+|......+   ...| +-.+-|........+ -.++.
T Consensus        24 ~~l~g~~~~~~~l~~~lkqt~~~--gEsnsviiigprgsgkT~li~~~Ls~---~q~~~E~~l~v~Lng~~~~dk~al~~   98 (408)
T KOG2228|consen   24 INLFGVQDEQKHLSELLKQTILH--GESNSVIIIGPRGSGKTILIDTRLSD---IQENGENFLLVRLNGELQTDKIALKG   98 (408)
T ss_pred             cceeehHHHHHHHHHHHHHHHHh--cCCCceEEEccCCCCceEeeHHHHhh---HHhcCCeEEEEEECccchhhHHHHHH
Confidence            34888888888888887654322  33456789999999999999888775   2223 223334444433222 23455


Q ss_pred             HHHHhcC----CCCCCCcHHHHHHHHHHHcc------CceEEEEEeccccCCcc-CHHhHHHhhc----cCCCCceEEEe
Q 048765          247 MVEALDG----HESHLGEFQSLLRHIYESIA------GKSFLLVLDDVWDGNYV-KWEPFYHCLK----NGLHGSKILVT  311 (314)
Q Consensus       247 i~~~~~~----~~~~~~~~~~~~~~l~~~L~------~kr~LlVlDdv~~~~~~-~~~~l~~~l~----~~~~gs~iivT  311 (314)
                      |.+++..    ......+..+....+.+.|+      +-+.++|+|.++-.... .-..+...|.    ...|-|-|-+|
T Consensus        99 I~rql~~e~~~~~k~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisqs~r~Piciig~T  178 (408)
T KOG2228|consen   99 ITRQLALELNRIVKSFGSFTENLSKLLEALKKGDETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQSARAPICIIGVT  178 (408)
T ss_pred             HHHHHHHHHhhhheeecccchhHHHHHHHHhcCCCCCCceEEEEeehhhccccchhhHHHHHHHHHHhhcCCCeEEEEee
Confidence            5555432    21122233333444444442      23578888887543211 1123444443    12455666777


Q ss_pred             cc
Q 048765          312 TR  313 (314)
Q Consensus       312 tR  313 (314)
                      ||
T Consensus       179 tr  180 (408)
T KOG2228|consen  179 TR  180 (408)
T ss_pred             cc
Confidence            76

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.12  E-value=0.003  Score=56.95  Aligned_cols=58  Identities=14%  Similarity=0.122  Sum_probs=35.8

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCc-cccHHHHHHHHHHHhcC
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSE-TFEEFRVAKAMVEALDG  253 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~~~~  253 (314)
                      -.++.++|+.|+||||++.++............+..++... .....+-++...+.++.
T Consensus       137 g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv  195 (374)
T PRK14722        137 GGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGV  195 (374)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcCC
Confidence            46899999999999999999987432221123455555422 22344455555555543

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=97.12  E-value=0.0023  Score=63.07  Aligned_cols=132  Identities=16%  Similarity=0.162  Sum_probs=73.9

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMV  248 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  248 (314)
                      ..++|....+..+.+.+..-.    ..-.-|.|+|..|+|||++|+.++...  ...-...+.++|.... . ..+...+
T Consensus       376 ~~liG~S~~~~~~~~~~~~~a----~~~~pVLI~GE~GTGK~~lA~~ih~~s--~r~~~~~v~i~c~~~~-~-~~~~~~l  447 (686)
T PRK15429        376 GEIIGRSEAMYSVLKQVEMVA----QSDSTVLILGETGTGKELIARAIHNLS--GRNNRRMVKMNCAAMP-A-GLLESDL  447 (686)
T ss_pred             cceeecCHHHHHHHHHHHHHh----CCCCCEEEECCCCcCHHHHHHHHHHhc--CCCCCCeEEEecccCC-h-hHhhhhh
Confidence            468999888888877665433    234578899999999999999997732  2222345566665432 1 2211111


Q ss_pred             HHhcCCCCC-CCcHHHHHHHHHHHccCceEEEEEeccccCCccCHHhHHHhhccCC-----------CCceEEEecc
Q 048765          249 EALDGHESH-LGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGL-----------HGSKILVTTR  313 (314)
Q Consensus       249 ~~~~~~~~~-~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~iivTtR  313 (314)
                        ++..... ..........+   -....=.|+||+|..........|...+..+.           ...|||.||.
T Consensus       448 --fg~~~~~~~g~~~~~~g~l---e~a~~GtL~Ldei~~L~~~~Q~~L~~~l~~~~~~~~g~~~~~~~~~RiI~~t~  519 (686)
T PRK15429        448 --FGHERGAFTGASAQRIGRF---ELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKIIQTDVRLIAATN  519 (686)
T ss_pred             --cCcccccccccccchhhHH---HhcCCCeEEEechhhCCHHHHHHHHHHHHhCCEEeCCCCCcccceEEEEEeCC
Confidence              1111000 00000011111   12234579999998765455566777775331           2348888874

>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=97.11  E-value=0.0065  Score=54.09  Aligned_cols=43  Identities=16%  Similarity=0.186  Sum_probs=32.1

Q ss_pred             hhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHh
Q 048765          176 GEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEE  221 (314)
Q Consensus       176 ~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~  221 (314)
                      .-.+.|.+.+.....   ....+|+|.|.=|+|||++.+.+....+
T Consensus         3 ~~a~~la~~I~~~~~---~~~~~IgL~G~WGsGKSs~l~~l~~~L~   45 (325)
T PF07693_consen    3 PYAKALAEIIKNPDS---DDPFVIGLYGEWGSGKSSFLNMLKEELK   45 (325)
T ss_pred             HHHHHHHHHHhccCC---CCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            344566666665432   4578999999999999999999977443

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 [].

>cd01131 PilT Pilus retraction ATPase PilT

Probab=97.10  E-value=0.0014  Score=54.00  Aligned_cols=105  Identities=10%  Similarity=0.087  Sum_probs=51.5

Q ss_pred             EEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEE-cCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHccCc
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVC-VSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGK  275 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~-~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~k  275 (314)
                      .++.|+|+.|+||||+++.+...  ...+....++.- -+..+.... ...+..+-.    ...+.....+.++..|...
T Consensus         2 GlilI~GptGSGKTTll~~ll~~--~~~~~~~~i~t~e~~~E~~~~~-~~~~i~q~~----vg~~~~~~~~~i~~aLr~~   74 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDY--INKNKTHHILTIEDPIEFVHES-KRSLINQRE----VGLDTLSFENALKAALRQD   74 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH--hhhcCCcEEEEEcCCccccccC-ccceeeecc----cCCCccCHHHHHHHHhcCC
Confidence            47899999999999999887663  222333333321 111110000 000111100    0011122344566666666


Q ss_pred             eEEEEEeccccCCccCHHhHHHhhccCCCCceEEEecc
Q 048765          276 SFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTR  313 (314)
Q Consensus       276 r~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR  313 (314)
                      .=+|++|++.+.  +....+....   ..|..++.|+.
T Consensus        75 pd~ii~gEird~--e~~~~~l~~a---~~G~~v~~t~H  107 (198)
T cd01131          75 PDVILVGEMRDL--ETIRLALTAA---ETGHLVMSTLH  107 (198)
T ss_pred             cCEEEEcCCCCH--HHHHHHHHHH---HcCCEEEEEec
Confidence            779999999543  2333322222   23555666653

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.

>TIGR00959 ffh signal recognition particle protein

Probab=97.10  E-value=0.0071  Score=55.70  Aligned_cols=26  Identities=35%  Similarity=0.382  Sum_probs=22.0

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhch
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .+..++.++|.+|+||||++..++..
T Consensus        97 ~~p~vi~~vG~~GsGKTTtaakLA~~  122 (428)
T TIGR00959        97 KPPTVILMVGLQGSGKTTTCGKLAYY  122 (428)
T ss_pred             CCCEEEEEECCCCCcHHHHHHHHHHH
Confidence            34679999999999999998887664

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.

>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.10  E-value=0.0021  Score=54.16  Aligned_cols=51  Identities=20%  Similarity=0.229  Sum_probs=39.2

Q ss_pred             cccccchhhHH---HHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          169 EEICGRVGEKN---ELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       169 ~~~vgr~~~~~---~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ++++|.++...   -|++.|...+.=+....+.|..+|++|.|||.+|+.+.+.
T Consensus       121 ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane  174 (368)
T COG1223         121 DDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANE  174 (368)
T ss_pred             hhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhcc
Confidence            56888876654   3667776544334566889999999999999999999983

>PTZ00035 Rad51 protein; Provisional

Probab=97.10  E-value=0.0053  Score=54.90  Aligned_cols=92  Identities=18%  Similarity=0.200  Sum_probs=56.3

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhh----hhcCceeEEEEcCccccHHHHHHHHHHHhcCCCC---------CCCc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEV----IRKFDKILWVCVSETFEEFRVAKAMVEALDGHES---------HLGE  260 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~----~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~---------~~~~  260 (314)
                      +.-.++.|+|.+|+|||+|+..++-....    ...-..++|++....++++.+ .++++.++....         ...+
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            45678999999999999999888653221    012245779998887777764 444555443211         1112


Q ss_pred             HHHH---HHHHHHHc-cCceEEEEEecccc
Q 048765          261 FQSL---LRHIYESI-AGKSFLLVLDDVWD  286 (314)
Q Consensus       261 ~~~~---~~~l~~~L-~~kr~LlVlDdv~~  286 (314)
                      ..++   +..+...+ ..+--|||+|.+-.
T Consensus       195 ~e~~~~~l~~~~~~l~~~~~~lvVIDSita  224 (337)
T PTZ00035        195 HEHQMQLLSQAAAKMAEERFALLIVDSATA  224 (337)
T ss_pred             HHHHHHHHHHHHHHhhccCccEEEEECcHH
Confidence            2222   33333333 34567999999853

>PRK14974 cell division protein FtsY; Provisional

Probab=97.09  E-value=0.0084  Score=53.45  Aligned_cols=25  Identities=32%  Similarity=0.345  Sum_probs=21.8

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      +..++.++|++|+||||++.+++..
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~~  163 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAYY  163 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            4689999999999999988888763

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=97.09  E-value=0.0016  Score=54.29  Aligned_cols=23  Identities=22%  Similarity=0.260  Sum_probs=20.5

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+++.|+|+.|.|||||.+.+..
T Consensus        29 ~~~~~itGpNg~GKStlLk~i~~   51 (213)
T cd03281          29 PSIMVITGPNSSGKSVYLKQVAL   51 (213)
T ss_pred             ceEEEEECCCCCChHHHHHHHHH
Confidence            37888999999999999999864

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

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.08  E-value=0.008  Score=54.06  Aligned_cols=57  Identities=19%  Similarity=0.218  Sum_probs=35.1

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCcc-ccHHHHHHHHHHHhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSET-FEEFRVAKAMVEALD  252 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~-~~~~~~~~~i~~~~~  252 (314)
                      ...+++.++|+.|+||||++..++....  ..-..+.++++... ....+-++...+.++
T Consensus       204 ~~~~ii~lvGptGvGKTTt~akLA~~l~--~~g~~V~lItaDtyR~gAveQLk~yae~lg  261 (407)
T PRK12726        204 SNHRIISLIGQTGVGKTTTLVKLGWQLL--KQNRTVGFITTDTFRSGAVEQFQGYADKLD  261 (407)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHHH--HcCCeEEEEeCCccCccHHHHHHHHhhcCC
Confidence            3468999999999999999998876332  22234556665322 223344444444443

>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=97.08  E-value=0.0032  Score=54.13  Aligned_cols=105  Identities=18%  Similarity=0.235  Sum_probs=74.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHHHHHHHhh-ccCChHHHHHHHHHHHhhhhhhhhHHH
Q 048765            4 AIVSPLLEQLISVSAEELTQQVKLVKGAEQEVEKLTSHLQTIQAVLSDAEQR-QVKEESVRVWLGRLKDVSYDIEDVLDE   82 (314)
Q Consensus         4 ~~v~~~~~kl~~~l~~~l~~e~~~~~~v~~~~~~L~~~l~~i~~~l~~a~~~-~~~~~~~~~wl~~lr~~ayd~eD~ld~   82 (314)
                      +.|..++++|-++.+    .....+.-++.+++-++.+|+.++.||+..... +..-........++-..||++|.++|-
T Consensus       296 GyVdFlL~NLkdfq~----rysdSlaflKnQiqvIQ~elesLqpFLk~V~ee~~nkh~~~ed~a~~ii~kAyevEYVVDa  371 (402)
T PF12061_consen  296 GYVDFLLKNLKDFQG----RYSDSLAFLKNQIQVIQTELESLQPFLKHVVEEPHNKHDTNEDCATQIIRKAYEVEYVVDA  371 (402)
T ss_pred             cHHHHHHhhHHHHhc----cccchHHHHHHHHHHHHHHHHHhhHHHHHHHhccchhhhhhhhHHHHHHHHHhheeeeeeh
Confidence            467788888888743    333445667899999999999999999987433 332234889999999999999999998


Q ss_pred             HHHHHHHHHHhhccccccccccccccCcccchhhhhhHHHHHHHHHHHHHHHH
Q 048765           83 WITARRRLQMKQNADSAQKQVSSCFPASSIGFKKIILRQDIAVKIKGINKKLG  135 (314)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~i~~l~~~l~  135 (314)
                      +...               ..      +  .+.....-..+...|..+++.++
T Consensus       372 Ci~k---------------~~------P--~Wcl~~WL~dIieei~~ik~~i~  401 (402)
T PF12061_consen  372 CISK---------------SV------P--HWCLERWLLDIIEEITCIKAKIQ  401 (402)
T ss_pred             hhcC---------------CC------c--HHHHHHHHHHHHHHHHHHHHHhc
Confidence            7511               00      0  12223334677777887777654

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.

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

Probab=97.07  E-value=0.0018  Score=53.63  Aligned_cols=100  Identities=17%  Similarity=0.190  Sum_probs=61.1

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhh-hcC-ceeEEEEcCccccHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVI-RKF-DKILWVCVSETFEEFRVAKA  246 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~-~~F-~~~~wv~~~~~~~~~~~~~~  246 (314)
                      .++||-++-++++.-....      .+...+.|.||+|+||||-+..++.  +.- ..+ +.+.-.+.|++         
T Consensus        27 ~dIVGNe~tv~rl~via~~------gnmP~liisGpPG~GKTTsi~~LAr--~LLG~~~ke~vLELNASde---------   89 (333)
T KOG0991|consen   27 QDIVGNEDTVERLSVIAKE------GNMPNLIISGPPGTGKTTSILCLAR--ELLGDSYKEAVLELNASDE---------   89 (333)
T ss_pred             HHhhCCHHHHHHHHHHHHc------CCCCceEeeCCCCCchhhHHHHHHH--HHhChhhhhHhhhccCccc---------
Confidence            5799999888887765533      4578899999999999998877765  221 112 33333333333         


Q ss_pred             HHHHhcCCCCCCCcHHHHHHHHHHHc-------cCceEEEEEeccccCCccCHHhHHH
Q 048765          247 MVEALDGHESHLGEFQSLLRHIYESI-------AGKSFLLVLDDVWDGNYVKWEPFYH  297 (314)
Q Consensus       247 i~~~~~~~~~~~~~~~~~~~~l~~~L-------~~kr~LlVlDdv~~~~~~~~~~l~~  297 (314)
                                  ..++.+...|+.+-       .++--.||||..++...-.-..++.
T Consensus        90 ------------RGIDvVRn~IK~FAQ~kv~lp~grhKIiILDEADSMT~gAQQAlRR  135 (333)
T KOG0991|consen   90 ------------RGIDVVRNKIKMFAQKKVTLPPGRHKIIILDEADSMTAGAQQALRR  135 (333)
T ss_pred             ------------cccHHHHHHHHHHHHhhccCCCCceeEEEeeccchhhhHHHHHHHH
Confidence                        33444444444333       2455678999987754333334443

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=97.05  E-value=0.0079  Score=51.09  Aligned_cols=88  Identities=16%  Similarity=0.243  Sum_probs=55.2

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCC----------------C--
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGH----------------E--  255 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~----------------~--  255 (314)
                      +.-.++.|.|.+|+|||+++.++.... . ..-..++|++...  ++.++.+.+.+ ++-.                .  
T Consensus        19 ~~gs~~lI~G~pGsGKT~la~~~l~~~-~-~~ge~~lyvs~ee--~~~~i~~~~~~-~g~~~~~~~~~g~l~~~d~~~~~   93 (237)
T TIGR03877        19 PERNVVLLSGGPGTGKSIFSQQFLWNG-L-QMGEPGIYVALEE--HPVQVRRNMAQ-FGWDVRKYEEEGKFAIVDAFTGG   93 (237)
T ss_pred             cCCeEEEEEcCCCCCHHHHHHHHHHHH-H-HcCCcEEEEEeeC--CHHHHHHHHHH-hCCCHHHHhhcCCEEEEeccccc
Confidence            456899999999999999998875521 1 2346788888765  44455554332 2110                0  


Q ss_pred             ------------CCCCcHHHHHHHHHHHccC-ceEEEEEecccc
Q 048765          256 ------------SHLGEFQSLLRHIYESIAG-KSFLLVLDDVWD  286 (314)
Q Consensus       256 ------------~~~~~~~~~~~~l~~~L~~-kr~LlVlDdv~~  286 (314)
                                  ....+..++...+.+.++. +.-++|+|.+-.
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~vVIDSls~  137 (237)
T TIGR03877        94 IGEAAEREKYVVKDPTDVRELIDVLRQAIRDINAKRVVIDSVTT  137 (237)
T ss_pred             cccccccccccccCcccHHHHHHHHHHHHHHhCCCEEEEcChhH
Confidence                        0123556666667666532 445799999854

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.

>PRK13695 putative NTPase; Provisional

Probab=97.05  E-value=0.00061  Score=54.93  Aligned_cols=22  Identities=41%  Similarity=0.493  Sum_probs=19.6

Q ss_pred             EEEEEccCCCChHHHHHHhhch
Q 048765          198 IISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .+.|+|.+|+|||||++.++..
T Consensus         2 ~i~ltG~~G~GKTTll~~i~~~   23 (174)
T PRK13695          2 KIGITGPPGVGKTTLVLKIAEL   23 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999998774

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=97.04  E-value=0.0005  Score=64.59  Aligned_cols=50  Identities=20%  Similarity=0.242  Sum_probs=40.3

Q ss_pred             ccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          170 EICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       170 ~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      +++|.++.++++++.|......-....+++.++|++|+|||+||+.+...
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            58999999999999984332222345679999999999999999999873

>PRK08233 hypothetical protein; Provisional

Probab=97.04  E-value=0.0024  Score=51.70  Aligned_cols=23  Identities=39%  Similarity=0.521  Sum_probs=21.0

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..+|+|.|.+|+||||||..+..
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~   25 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTH   25 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHh
Confidence            47899999999999999998876

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=96.99  E-value=0.0027  Score=60.05  Aligned_cols=50  Identities=30%  Similarity=0.299  Sum_probs=32.3

Q ss_pred             cccccchhhHHHHH---HHhhccCc---CCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELL---SKLLCESS---EQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~---~~L~~~~~---~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+++|.+...+.+.   .++.....   ......+-+.++|++|+|||+||+.++.
T Consensus        55 ~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~  110 (495)
T TIGR01241        55 KDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAG  110 (495)
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHH
Confidence            46788766555444   43322110   0113345588999999999999999987

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.

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=96.98  E-value=0.0048  Score=49.90  Aligned_cols=24  Identities=38%  Similarity=0.502  Sum_probs=21.0

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      -.+++|+|..|+|||||++.+...
T Consensus        28 Ge~~~i~G~nGsGKStLl~~l~G~   51 (178)
T cd03247          28 GEKIALLGRSGSGKSTLLQLLTGD   51 (178)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcc
Confidence            358999999999999999998763

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.

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=96.97  E-value=0.0023  Score=57.12  Aligned_cols=131  Identities=15%  Similarity=0.115  Sum_probs=67.7

Q ss_pred             cccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHH
Q 048765          171 ICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEA  250 (314)
Q Consensus       171 ~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~  250 (314)
                      ++|....+..+.+.+..-.    ..-.-|.|.|..|+||+++|+.++....  ..-...+-|+|....  ...+...+  
T Consensus         1 liG~S~~m~~~~~~~~~~a----~~~~pVLI~GE~GtGK~~lAr~iH~~s~--r~~~pfv~vnc~~~~--~~~l~~~l--   70 (329)
T TIGR02974         1 LIGESNAFLEVLEQVSRLA----PLDRPVLIIGERGTGKELIAARLHYLSK--RWQGPLVKLNCAALS--ENLLDSEL--   70 (329)
T ss_pred             CCcCCHHHHHHHHHHHHHh----CCCCCEEEECCCCChHHHHHHHHHHhcC--ccCCCeEEEeCCCCC--hHHHHHHH--
Confidence            3566666666666665433    2345678999999999999999976321  112234456665432  12222111  


Q ss_pred             hcCCCCCCCcHHHHHHHHHHHccCceEEEEEeccccCCccCHHhHHHhhccCC-----------CCceEEEecc
Q 048765          251 LDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGL-----------HGSKILVTTR  313 (314)
Q Consensus       251 ~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~iivTtR  313 (314)
                      ++...........  ...-..-....-.|+||+|..........|...+..+.           ...+||.||.
T Consensus        71 fG~~~g~~~ga~~--~~~G~~~~a~gGtL~Ldei~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~at~  142 (329)
T TIGR02974        71 FGHEAGAFTGAQK--RHQGRFERADGGTLFLDELATASLLVQEKLLRVIEYGEFERVGGSQTLQVDVRLVCATN  142 (329)
T ss_pred             hccccccccCccc--ccCCchhhCCCCEEEeCChHhCCHHHHHHHHHHHHcCcEEecCCCceeccceEEEEech
Confidence            1111000000000  00000112344568999998765445556767665331           1237887773

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

>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=96.96  E-value=0.0049  Score=51.71  Aligned_cols=22  Identities=36%  Similarity=0.462  Sum_probs=19.7

Q ss_pred             EEEEEccCCCChHHHHHHhhch
Q 048765          198 IISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      +|+|.|..|+||||||+.+...
T Consensus         1 IigI~G~sGSGKTTla~~L~~~   22 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQAL   22 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHH
Confidence            5899999999999999988763

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>COG3903 Predicted ATPase [General function prediction only]

Probab=96.95  E-value=0.00035  Score=62.39  Aligned_cols=113  Identities=26%  Similarity=0.311  Sum_probs=71.9

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcC-ceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKF-DKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESI  272 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F-~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L  272 (314)
                      ...+.+.++|.||+||||++-.+..   +..-| +.++++.+....+...+.-.+...++.....   -+.....+..++
T Consensus        12 ~~~RlvtL~g~ggvgkttl~~~~a~---~~~~~~~~v~~vdl~pitD~~~v~~~~ag~~gl~~~~---g~~~~~~~~~~~   85 (414)
T COG3903          12 TALRLVTLTGAGGVGKTTLALQAAH---AASEYADGVAFVDLAPITDPALVFPTLAGALGLHVQP---GDSAVDTLVRRI   85 (414)
T ss_pred             hhhheeeeeccCccceehhhhhhHh---HhhhcccceeeeeccccCchhHhHHHHHhhccccccc---chHHHHHHHHHH
Confidence            3478999999999999999988755   45667 5677777777667766666666656543221   123345566677


Q ss_pred             cCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEecc
Q 048765          273 AGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTR  313 (314)
Q Consensus       273 ~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR  313 (314)
                      .++|.++|+||.-+.. ..=..+...+-.+.+.-.|+.|+|
T Consensus        86 ~~rr~llvldncehl~-~~~a~~i~all~~~~~~~~~atsr  125 (414)
T COG3903          86 GDRRALLVLDNCEHLL-DACAALIVALLGACPRLAILATSR  125 (414)
T ss_pred             hhhhHHHHhcCcHHHH-HHHHHHHHHHHccchhhhhHHHhH
Confidence            8899999999984321 011122233333444445666655

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

Probab=96.95  E-value=0.0042  Score=54.71  Aligned_cols=96  Identities=21%  Similarity=0.279  Sum_probs=56.5

Q ss_pred             ccccchhhHHHHHHHhhccCcC-------CCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHH
Q 048765          170 EICGRVGEKNELLSKLLCESSE-------QQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFR  242 (314)
Q Consensus       170 ~~vgr~~~~~~l~~~L~~~~~~-------~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~  242 (314)
                      .+=|-++++++|.+...-.--+       +-..++=|.++|++|.|||-||++|++  +....|     +.+...     
T Consensus       152 dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~--~T~AtF-----IrvvgS-----  219 (406)
T COG1222         152 DIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVAN--QTDATF-----IRVVGS-----  219 (406)
T ss_pred             hccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHh--ccCceE-----EEeccH-----
Confidence            4555677777776654221100       234577888999999999999999998  444444     333221     


Q ss_pred             HHHHHHHHhcCCCCCCCcHHHHHHHHHHHc-cCceEEEEEecccc
Q 048765          243 VAKAMVEALDGHESHLGEFQSLLRHIYESI-AGKSFLLVLDDVWD  286 (314)
Q Consensus       243 ~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L-~~kr~LlVlDdv~~  286 (314)
                         ++.+..      ..+-..++..+.+.- ....+.|++|.++.
T Consensus       220 ---ElVqKY------iGEGaRlVRelF~lArekaPsIIFiDEIDA  255 (406)
T COG1222         220 ---ELVQKY------IGEGARLVRELFELAREKAPSIIFIDEIDA  255 (406)
T ss_pred             ---HHHHHH------hccchHHHHHHHHHHhhcCCeEEEEechhh
Confidence               122221      111223444444444 45689999999843

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

Probab=96.94  E-value=0.003  Score=58.37  Aligned_cols=50  Identities=26%  Similarity=0.219  Sum_probs=37.1

Q ss_pred             ccccch---hhHHHHHHHhhccCcC---CCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          170 EICGRV---GEKNELLSKLLCESSE---QQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       170 ~~vgr~---~~~~~l~~~L~~~~~~---~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ++-|-+   .++++++++|.+...-   ++.=++-|.++|++|.|||.||+.++-.
T Consensus       305 dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGE  360 (752)
T KOG0734|consen  305 DVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGE  360 (752)
T ss_pred             cccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcc
Confidence            455654   4678889998765421   2344677889999999999999999873

>PRK06762 hypothetical protein; Provisional

Probab=96.94  E-value=0.0064  Score=48.48  Aligned_cols=23  Identities=39%  Similarity=0.468  Sum_probs=20.6

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..+|.|.|++|+||||+|+.+..
T Consensus         2 ~~li~i~G~~GsGKST~A~~L~~   24 (166)
T PRK06762          2 TTLIIIRGNSGSGKTTIAKQLQE   24 (166)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            36889999999999999998876

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=96.94  E-value=0.0032  Score=62.49  Aligned_cols=50  Identities=24%  Similarity=0.234  Sum_probs=35.8

Q ss_pred             cccccchhhHHHHHHHhhccCcC-------CCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELLSKLLCESSE-------QQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~-------~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +++.|.+..++.+.+++...-..       .-...+.+.++|++|+|||+||+.+++
T Consensus       178 ~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~  234 (733)
T TIGR01243       178 EDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVAN  234 (733)
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHH
Confidence            45788888888887766421100       012345688999999999999999987

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.

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=96.94  E-value=0.013  Score=49.50  Aligned_cols=42  Identities=21%  Similarity=0.347  Sum_probs=30.8

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCcc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSET  237 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~  237 (314)
                      +.-.++.|.|.+|+|||+|+..+....  ...-..++|++....
T Consensus        18 ~~G~~~~i~G~~G~GKT~l~~~~~~~~--~~~g~~~~~is~e~~   59 (229)
T TIGR03881        18 PRGFFVAVTGEPGTGKTIFCLHFAYKG--LRDGDPVIYVTTEES   59 (229)
T ss_pred             cCCeEEEEECCCCCChHHHHHHHHHHH--HhcCCeEEEEEccCC
Confidence            446799999999999999999876532  123456788887443

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.

>TIGR01817 nifA Nif-specific regulatory protein

Probab=96.94  E-value=0.0048  Score=58.97  Aligned_cols=132  Identities=17%  Similarity=0.230  Sum_probs=74.1

Q ss_pred             cccccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHH
Q 048765          167 DEEEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKA  246 (314)
Q Consensus       167 ~~~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~  246 (314)
                      ....++|....+.++.+.+..-.    ..-.-|.|+|..|+|||++|+.++....  ..-...+.|+|.....  ..+..
T Consensus       194 ~~~~liG~s~~~~~~~~~~~~~a----~~~~pvli~Ge~GtGK~~lA~~ih~~s~--r~~~pfv~i~c~~~~~--~~~~~  265 (534)
T TIGR01817       194 KEDGIIGKSPAMRQVVDQARVVA----RSNSTVLLRGESGTGKELIAKAIHYLSP--RAKRPFVKVNCAALSE--TLLES  265 (534)
T ss_pred             ccCceEECCHHHHHHHHHHHHHh----CcCCCEEEECCCCccHHHHHHHHHHhCC--CCCCCeEEeecCCCCH--HHHHH
Confidence            33578999998888888775433    2334667999999999999999987321  1122345566654322  22221


Q ss_pred             HHHHhcCCCC-CC-CcHHHHHHHHHHHc-cCceEEEEEeccccCCccCHHhHHHhhccCC---CC--------ceEEEec
Q 048765          247 MVEALDGHES-HL-GEFQSLLRHIYESI-AGKSFLLVLDDVWDGNYVKWEPFYHCLKNGL---HG--------SKILVTT  312 (314)
Q Consensus       247 i~~~~~~~~~-~~-~~~~~~~~~l~~~L-~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~---~g--------s~iivTt  312 (314)
                         .+.+... .. .....   . ...+ ....-.|+||+|..........|...+..+.   .|        .+||.||
T Consensus       266 ---~lfg~~~~~~~~~~~~---~-~g~~~~a~~GtL~ldei~~L~~~~Q~~Ll~~l~~~~~~~~~~~~~~~~~~riI~~s  338 (534)
T TIGR01817       266 ---ELFGHEKGAFTGAIAQ---R-KGRFELADGGTLFLDEIGEISPAFQAKLLRVLQEGEFERVGGNRTLKVDVRLVAAT  338 (534)
T ss_pred             ---HHcCCCCCccCCCCcC---C-CCcccccCCCeEEEechhhCCHHHHHHHHHHHhcCcEEECCCCceEeecEEEEEeC
Confidence               2211110 00 00000   0 0011 2334568999998765555666777775431   12        4788876


Q ss_pred             c
Q 048765          313 R  313 (314)
Q Consensus       313 R  313 (314)
                      .
T Consensus       339 ~  339 (534)
T TIGR01817       339 N  339 (534)
T ss_pred             C
Confidence            3

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.

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

Probab=96.93  E-value=0.0067  Score=49.83  Aligned_cols=22  Identities=50%  Similarity=0.610  Sum_probs=20.1

Q ss_pred             EEEEEccCCCChHHHHHHhhch
Q 048765          198 IISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ||+|.|.+|+||||+|+.+...
T Consensus         1 IIgI~G~sgSGKTTla~~L~~~   22 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQI   22 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999999773

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 ....

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=96.91  E-value=0.014  Score=51.73  Aligned_cols=41  Identities=7%  Similarity=0.048  Sum_probs=33.7

Q ss_pred             cCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEecc
Q 048765          273 AGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTR  313 (314)
Q Consensus       273 ~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR  313 (314)
                      .+++-++|||++...+....+.|...|..-+.+..+|++|.
T Consensus       105 ~g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~  145 (325)
T PRK06871        105 QGGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQAD  145 (325)
T ss_pred             cCCceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEEC
Confidence            46777899999998887788899999987777777777775

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=96.91  E-value=0.0089  Score=51.83  Aligned_cols=39  Identities=26%  Similarity=0.333  Sum_probs=27.6

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCV  234 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~  234 (314)
                      .+.+++.++|++|+||||++.+++...  ...-..+..+++
T Consensus        70 ~~~~vi~l~G~~G~GKTTt~akLA~~l--~~~g~~V~li~~  108 (272)
T TIGR00064        70 NKPNVILFVGVNGVGKTTTIAKLANKL--KKQGKSVLLAAG  108 (272)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHH--HhcCCEEEEEeC
Confidence            346899999999999999998887633  222234555554

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.

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

Probab=96.90  E-value=0.0013  Score=60.62  Aligned_cols=50  Identities=24%  Similarity=0.226  Sum_probs=35.4

Q ss_pred             cccccchhhHHHHHHHhhccCcC-------CCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELLSKLLCESSE-------QQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~-------~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .++.|.+.+++.|.+.+...-..       .-...+-+.++|++|+|||+||+.+++
T Consensus       183 ~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~  239 (438)
T PTZ00361        183 ADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVAN  239 (438)
T ss_pred             HHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHH
Confidence            45778888888877766321000       112345678999999999999999988

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=96.90  E-value=0.0056  Score=58.09  Aligned_cols=132  Identities=18%  Similarity=0.224  Sum_probs=75.5

Q ss_pred             ccccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHH
Q 048765          168 EEEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAM  247 (314)
Q Consensus       168 ~~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i  247 (314)
                      ...++|....+..+.+.+..-.    ..-.-|.|+|..|+|||++|+.++..  ....-...+.|+|.....  ..+.  
T Consensus       186 ~~~iig~s~~~~~~~~~i~~~a----~~~~pVlI~Ge~GtGK~~~A~~ih~~--s~r~~~p~v~v~c~~~~~--~~~e--  255 (509)
T PRK05022        186 EGEMIGQSPAMQQLKKEIEVVA----ASDLNVLILGETGVGKELVARAIHAA--SPRADKPLVYLNCAALPE--SLAE--  255 (509)
T ss_pred             CCceeecCHHHHHHHHHHHHHh----CCCCcEEEECCCCccHHHHHHHHHHh--CCcCCCCeEEEEcccCCh--HHHH--
Confidence            3568999999888888876543    33457889999999999999999873  222223456677765432  2211  


Q ss_pred             HHHhcCCC-CCC-CcHHHHHHHHHHHccCceEEEEEeccccCCccCHHhHHHhhccCC-----------CCceEEEecc
Q 048765          248 VEALDGHE-SHL-GEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGL-----------HGSKILVTTR  313 (314)
Q Consensus       248 ~~~~~~~~-~~~-~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~iivTtR  313 (314)
                       ..+.+.. ... .........+ +  ....=.|+||+|..........|...+..+.           ...|||.||.
T Consensus       256 -~~lfG~~~g~~~ga~~~~~g~~-~--~a~gGtL~ldeI~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~~t~  330 (509)
T PRK05022        256 -SELFGHVKGAFTGAISNRSGKF-E--LADGGTLFLDEIGELPLALQAKLLRVLQYGEIQRVGSDRSLRVDVRVIAATN  330 (509)
T ss_pred             -HHhcCccccccCCCcccCCcch-h--hcCCCEEEecChhhCCHHHHHHHHHHHhcCCEeeCCCCcceecceEEEEecC
Confidence             1221111 000 0000000001 1  1223347899998765555667777775431           1348888874

>PF05659 RPW8: Arabidopsis broad-spectrum mildew resistance protein RPW8; InterPro: IPR008808 This entry represents the RPW8 domain found in several broad-spectrum mildew resistance proteins from Arabidopsis thaliana and other dicots

Probab=96.89  E-value=0.048  Score=42.44  Aligned_cols=83  Identities=12%  Similarity=0.203  Sum_probs=63.2

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHHHHHHHhhccC-ChHHHHHHHHHHHhhhhhhhhH
Q 048765            2 VDAIVSPLLEQLISVSAEELTQQVKLVKGAEQEVEKLTSHLQTIQAVLSDAEQRQVK-EESVRVWLGRLKDVSYDIEDVL   80 (314)
Q Consensus         2 a~~~v~~~~~kl~~~l~~~l~~e~~~~~~v~~~~~~L~~~l~~i~~~l~~a~~~~~~-~~~~~~wl~~lr~~ayd~eD~l   80 (314)
                      |+-+.+++++...+-|...+.+..+....++.-+++|...++.|..++.+.+..+.. +..-+.=++++.+...++++++
T Consensus         3 ~eL~~gaalG~~~~eLlk~v~~~~~k~~~fk~~l~~L~sTl~~i~P~i~eI~~~~~eld~~~~ee~e~L~~~L~~g~~LV   82 (147)
T PF05659_consen    3 AELVGGAALGAVFGELLKAVIDASKKSLSFKSILKRLESTLESIIPIIKEIDKLNVELDRPRQEEIERLKELLEKGKELV   82 (147)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHhhhHHHHHHHHhhhcCCchhHHHHHHHHHHHHHHHHH
Confidence            455556666666666666677777777788889999999999999999998875432 2222677888888899999999


Q ss_pred             HHHH
Q 048765           81 DEWI   84 (314)
Q Consensus        81 d~~~   84 (314)
                      ..|.
T Consensus        83 ~k~s   86 (147)
T PF05659_consen   83 EKCS   86 (147)
T ss_pred             HHhc
Confidence            8875

Plant disease resistance (R) genes control the recognition of specific pathogens and activate subsequent defence responses. The R protein-mediated defences typically involve a rapid, localized necrosis, or hypersensitive response (HR), at the site of infection, and the localised formation of antimicrobial chemicals and proteins that restrict growth of the pathogen. The A. thaliana locus Resistance to Powdery Mildew 8 (RPW8) contains two naturally polymorphic, dominant R genes: RPW8.1 and RPW8.2, which individually control resistance to a broad range of powdery mildew pathogens. They induce localised, salicylic acid-dependent defences similar to those induced by R genes that control specific resistance. Apparently, broad-spectrum resistance mediated by RPW8 uses the same mechanisms as specific resistance [, ]. RPW8.1 and RPW8.2 share similarity with an ~150 amino acid module forming the N terminus of a group of disease resistance proteins, which have a nucleotide-binding site (NBS) and leucine-rich repeats (LRRs) [, ]. The RPW8 domain sequences contain a predicted N-terminal transmembrane (TM) region or possibly a signal peptide, and a coiled-coil (CC) motif [].

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

Probab=96.89  E-value=0.0042  Score=58.32  Aligned_cols=98  Identities=17%  Similarity=0.228  Sum_probs=58.2

Q ss_pred             cccccchhhHHHHHHHhhccCcC------CCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSE------QQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFR  242 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~------~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~  242 (314)
                      +.+=|.+..+.+|.+++..-.+.      +-...+-+.+||++|.|||.||+.+++  +..-.|     +.++.+     
T Consensus       190 ~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAg--el~vPf-----~~isAp-----  257 (802)
T KOG0733|consen  190 SDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAG--ELGVPF-----LSISAP-----  257 (802)
T ss_pred             hhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhh--hcCCce-----Eeecch-----
Confidence            45667888888877776542221      123466788999999999999999988  333233     333221     


Q ss_pred             HHHHHHHHhcCCCCCCCcHHHHHHHHHHHccCceEEEEEecccc
Q 048765          243 VAKAMVEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWD  286 (314)
Q Consensus       243 ~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~  286 (314)
                         +|+....+     +....+.+.+.+.-..-.++++||+++-
T Consensus       258 ---eivSGvSG-----ESEkkiRelF~~A~~~aPcivFiDeIDA  293 (802)
T KOG0733|consen  258 ---EIVSGVSG-----ESEKKIRELFDQAKSNAPCIVFIDEIDA  293 (802)
T ss_pred             ---hhhcccCc-----ccHHHHHHHHHHHhccCCeEEEeecccc
Confidence               22222221     1122222223333466789999999954

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=96.88  E-value=0.017  Score=50.01  Aligned_cols=51  Identities=18%  Similarity=0.167  Sum_probs=33.8

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHH
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVE  249 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~  249 (314)
                      -.++.|.|.+|+|||+++.+++.... ..+-..++|+++..+  ..++...+..
T Consensus        30 g~~~~i~g~~G~GKT~l~~~~~~~~~-~~~g~~vl~iS~E~~--~~~~~~r~~~   80 (271)
T cd01122          30 GELIILTAGTGVGKTTFLREYALDLI-TQHGVRVGTISLEEP--VVRTARRLLG   80 (271)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHH-HhcCceEEEEEcccC--HHHHHHHHHH
Confidence            45888999999999999998876432 222356788877542  3444444433

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A

Probab=96.88  E-value=0.0012  Score=57.27  Aligned_cols=95  Identities=23%  Similarity=0.269  Sum_probs=47.5

Q ss_pred             HHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCC
Q 048765          178 KNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESH  257 (314)
Q Consensus       178 ~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~  257 (314)
                      ...+++.+...       -+-+.++|+.|+|||++++.......- ..| ...-++.+...+...+...+-..+..... 
T Consensus        22 ~~~ll~~l~~~-------~~pvLl~G~~GtGKT~li~~~l~~l~~-~~~-~~~~~~~s~~Tts~~~q~~ie~~l~k~~~-   91 (272)
T PF12775_consen   22 YSYLLDLLLSN-------GRPVLLVGPSGTGKTSLIQNFLSSLDS-DKY-LVITINFSAQTTSNQLQKIIESKLEKRRG-   91 (272)
T ss_dssp             HHHHHHHHHHC-------TEEEEEESSTTSSHHHHHHHHHHCSTT-CCE-EEEEEES-TTHHHHHHHHCCCTTECECTT-
T ss_pred             HHHHHHHHHHc-------CCcEEEECCCCCchhHHHHhhhccCCc-ccc-ceeEeeccCCCCHHHHHHHHhhcEEcCCC-
Confidence            34566666542       246689999999999999887652111 111 13345566554444332211111110000 


Q ss_pred             CCcHHHHHHHHHHHccCceEEEEEeccccCCccC
Q 048765          258 LGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVK  291 (314)
Q Consensus       258 ~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~  291 (314)
                       ...        .--.+|+.++++||+--+..+.
T Consensus        92 -~~~--------gP~~~k~lv~fiDDlN~p~~d~  116 (272)
T PF12775_consen   92 -RVY--------GPPGGKKLVLFIDDLNMPQPDK  116 (272)
T ss_dssp             -EEE--------EEESSSEEEEEEETTT-S---T
T ss_pred             -CCC--------CCCCCcEEEEEecccCCCCCCC
Confidence             000        0014689999999995543333

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=96.87  E-value=0.0032  Score=50.16  Aligned_cols=112  Identities=15%  Similarity=0.157  Sum_probs=56.4

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCc--cccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHcc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSE--TFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIA  273 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~--~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~  273 (314)
                      -.+++|+|..|+|||||.+.++...   ......++++-..  ..+.....   .+.++-.. +.+.-+...-.+...+-
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~i~G~~---~~~~G~v~~~g~~~~~~~~~~~~---~~~i~~~~-qLS~G~~qrl~laral~   98 (163)
T cd03216          26 GEVHALLGENGAGKSTLMKILSGLY---KPDSGEILVDGKEVSFASPRDAR---RAGIAMVY-QLSVGERQMVEIARALA   98 (163)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC---CCCCeEEEECCEECCcCCHHHHH---hcCeEEEE-ecCHHHHHHHHHHHHHh
Confidence            4589999999999999999987632   2334455543211  11111110   11111100 01111112222334455


Q ss_pred             CceEEEEEecccc-CCccCHHhHHHhhccC-CCCceEEEeccC
Q 048765          274 GKSFLLVLDDVWD-GNYVKWEPFYHCLKNG-LHGSKILVTTRK  314 (314)
Q Consensus       274 ~kr~LlVlDdv~~-~~~~~~~~l~~~l~~~-~~gs~iivTtR~  314 (314)
                      .++-++++|+--. .|......+...+... ..|..||++|.+
T Consensus        99 ~~p~illlDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~  141 (163)
T cd03216          99 RNARLLILDEPTAALTPAEVERLFKVIRRLRAQGVAVIFISHR  141 (163)
T ss_pred             cCCCEEEEECCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCC
Confidence            5677888898632 2223344555555422 235567887764

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.

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=96.87  E-value=0.011  Score=49.95  Aligned_cols=49  Identities=20%  Similarity=0.115  Sum_probs=32.1

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHH
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAM  247 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i  247 (314)
                      .-.++.|.|..|+|||||+.+++.... +.. ..++|++...  +..++++.+
T Consensus        23 ~g~~~~i~G~~G~GKTtl~~~~~~~~~-~~g-~~~~yi~~e~--~~~~~~~~~   71 (230)
T PRK08533         23 AGSLILIEGDESTGKSILSQRLAYGFL-QNG-YSVSYVSTQL--TTTEFIKQM   71 (230)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHH-hCC-CcEEEEeCCC--CHHHHHHHH
Confidence            345999999999999999866655321 222 4456776433  445666665

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=96.87  E-value=0.0059  Score=51.56  Aligned_cols=26  Identities=35%  Similarity=0.456  Sum_probs=23.1

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhch
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .+..+++|.|+.|+|||||++.+...
T Consensus        31 ~~~~iigi~G~~GsGKTTl~~~L~~~   56 (229)
T PRK09270         31 QRRTIVGIAGPPGAGKSTLAEFLEAL   56 (229)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            56789999999999999999988763

>PF14516 AAA_35: AAA-like domain

Probab=96.87  E-value=0.012  Score=52.58  Aligned_cols=111  Identities=15%  Similarity=0.132  Sum_probs=68.1

Q ss_pred             ccccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCcc-----ccHHH
Q 048765          168 EEEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSET-----FEEFR  242 (314)
Q Consensus       168 ~~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~-----~~~~~  242 (314)
                      .+..+.|....+.+.+.|...       -..+.|.|+..+|||+|...+.+..+.. .+ ..+++++..-     .+...
T Consensus        10 ~~~Yi~R~~~e~~~~~~i~~~-------G~~~~I~apRq~GKTSll~~l~~~l~~~-~~-~~v~id~~~~~~~~~~~~~~   80 (331)
T PF14516_consen   10 SPFYIERPPAEQECYQEIVQP-------GSYIRIKAPRQMGKTSLLLRLLERLQQQ-GY-RCVYIDLQQLGSAIFSDLEQ   80 (331)
T ss_pred             CCcccCchHHHHHHHHHHhcC-------CCEEEEECcccCCHHHHHHHHHHHHHHC-CC-EEEEEEeecCCCcccCCHHH
Confidence            345778886677777777542       3588999999999999999998754332 34 3557876441     24555


Q ss_pred             HHHHHHH----HhcCCCC-------CCCcHHHHHHHHHHHc---cCceEEEEEeccccC
Q 048765          243 VAKAMVE----ALDGHES-------HLGEFQSLLRHIYESI---AGKSFLLVLDDVWDG  287 (314)
Q Consensus       243 ~~~~i~~----~~~~~~~-------~~~~~~~~~~~l~~~L---~~kr~LlVlDdv~~~  287 (314)
                      +++.+..    +++....       ..........-+.+.+   .+++.+|+||+++..
T Consensus        81 f~~~~~~~i~~~L~l~~~l~~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~l  139 (331)
T PF14516_consen   81 FLRWFCEEISRQLKLDEKLDEYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDRL  139 (331)
T ss_pred             HHHHHHHHHHHHcCCChhHHHHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhhh
Confidence            5555554    4433221       1111222233344433   368999999999753

>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=96.87  E-value=0.0043  Score=50.05  Aligned_cols=23  Identities=26%  Similarity=0.433  Sum_probs=20.3

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|+|||||.+.+..
T Consensus        21 G~~~~l~G~nG~GKSTLl~~il~   43 (176)
T cd03238          21 NVLVVVTGVSGSGKSTLVNEGLY   43 (176)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhh
Confidence            45899999999999999998853

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.

>PF00154 RecA: recA bacterial DNA recombination protein; InterPro: IPR013765 The recA gene product is a multifunctional enzyme that plays a role in homologous recombination, DNA repair and induction of the SOS response []

Probab=96.86  E-value=0.0032  Score=55.48  Aligned_cols=86  Identities=23%  Similarity=0.162  Sum_probs=53.0

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCC-----CCCcHHHHHHHH
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHES-----HLGEFQSLLRHI  268 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~-----~~~~~~~~~~~l  268 (314)
                      +.-+++-|+|+.|+|||||+..+..  ..+..-..++||+....+++..     ++.++....     .+...++....+
T Consensus        51 p~G~ivEi~G~~ssGKttLaL~~ia--~~q~~g~~~a~ID~e~~ld~~~-----a~~lGvdl~rllv~~P~~~E~al~~~  123 (322)
T PF00154_consen   51 PRGRIVEIYGPESSGKTTLALHAIA--EAQKQGGICAFIDAEHALDPEY-----AESLGVDLDRLLVVQPDTGEQALWIA  123 (322)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHH--HHHHTT-EEEEEESSS---HHH-----HHHTT--GGGEEEEE-SSHHHHHHHH
T ss_pred             ccCceEEEeCCCCCchhhhHHHHHH--hhhcccceeEEecCcccchhhH-----HHhcCccccceEEecCCcHHHHHHHH
Confidence            4457999999999999999988876  4444567799999988877643     444443311     122334444555


Q ss_pred             HHHc-cCceEEEEEecccc
Q 048765          269 YESI-AGKSFLLVLDDVWD  286 (314)
Q Consensus       269 ~~~L-~~kr~LlVlDdv~~  286 (314)
                      ...+ .+.--++|+|.|-.
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            5555 45566999999843

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 ....

>PRK00889 adenylylsulfate kinase; Provisional

Probab=96.85  E-value=0.0089  Score=48.15  Aligned_cols=25  Identities=28%  Similarity=0.395  Sum_probs=22.0

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ...+|.|+|++|+||||+++.+...
T Consensus         3 ~g~~i~~~G~~GsGKST~a~~la~~   27 (175)
T PRK00889          3 RGVTVWFTGLSGAGKTTIARALAEK   27 (175)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3569999999999999999999874

>PRK07667 uridine kinase; Provisional

Probab=96.85  E-value=0.0036  Score=51.38  Aligned_cols=38  Identities=26%  Similarity=0.334  Sum_probs=28.7

Q ss_pred             HHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          178 KNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       178 ~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .+.+.+.+....    +...+|+|.|.+|+||||+|+.+...
T Consensus         3 ~~~~~~~~~~~~----~~~~iIgI~G~~gsGKStla~~L~~~   40 (193)
T PRK07667          3 TNELINIMKKHK----ENRFILGIDGLSRSGKTTFVANLKEN   40 (193)
T ss_pred             HHHHHHHHHhcC----CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            345565554433    34589999999999999999998763

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=96.85  E-value=0.019  Score=50.79  Aligned_cols=41  Identities=15%  Similarity=0.071  Sum_probs=32.9

Q ss_pred             cCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEecc
Q 048765          273 AGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTR  313 (314)
Q Consensus       273 ~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR  313 (314)
                      .+++-++|||++...+....+.|...+..-+.++.+|++|.
T Consensus       106 ~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~  146 (319)
T PRK06090        106 LNGYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTH  146 (319)
T ss_pred             cCCceEEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEEC
Confidence            35567999999998877788999999987777777777765

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

Probab=96.84  E-value=0.0061  Score=47.79  Aligned_cols=22  Identities=32%  Similarity=0.573  Sum_probs=19.4

Q ss_pred             EEEEEccCCCChHHHHHHhhch
Q 048765          198 IISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ++.|+|.+|+||||||+.+...
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~~   22 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEK   22 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHH
Confidence            4789999999999999998763

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

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=96.84  E-value=0.0071  Score=47.09  Aligned_cols=24  Identities=38%  Similarity=0.527  Sum_probs=21.2

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      -.+++|+|..|.|||||++.+...
T Consensus        26 Ge~~~i~G~nGsGKStLl~~l~G~   49 (144)
T cd03221          26 GDRIGLVGRNGAGKSTLLKLIAGE   49 (144)
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCC
Confidence            458999999999999999998763

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.

>PTZ00301 uridine kinase; Provisional

Probab=96.83  E-value=0.0019  Score=53.70  Aligned_cols=23  Identities=30%  Similarity=0.505  Sum_probs=20.9

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..+|+|.|.+|+||||||+.+..
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~   25 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVS   25 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHH
Confidence            57999999999999999988865

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

Probab=96.82  E-value=0.003  Score=54.80  Aligned_cols=80  Identities=15%  Similarity=0.234  Sum_probs=48.6

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhh--hhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHcc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEV--IRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIA  273 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~--~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~  273 (314)
                      =++|.++|++|.|||+|.+.++....+  .+.|....-+.++    ...++..+...-+      .-...+.+.|++.++
T Consensus       177 NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEin----shsLFSKWFsESg------KlV~kmF~kI~ELv~  246 (423)
T KOG0744|consen  177 NRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEIN----SHSLFSKWFSESG------KLVAKMFQKIQELVE  246 (423)
T ss_pred             eeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEEe----hhHHHHHHHhhhh------hHHHHHHHHHHHHHh
Confidence            367889999999999999999886544  3344433334332    2333333333221      223455666777775


Q ss_pred             Cc--eEEEEEeccc
Q 048765          274 GK--SFLLVLDDVW  285 (314)
Q Consensus       274 ~k--r~LlVlDdv~  285 (314)
                      ++  -.++.+|.|.
T Consensus       247 d~~~lVfvLIDEVE  260 (423)
T KOG0744|consen  247 DRGNLVFVLIDEVE  260 (423)
T ss_pred             CCCcEEEEEeHHHH
Confidence            54  3566788883

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

Probab=96.81  E-value=0.0018  Score=57.71  Aligned_cols=26  Identities=31%  Similarity=0.327  Sum_probs=23.5

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhch
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .....+.|||++|.|||.+|+.++..
T Consensus       146 k~PlgllL~GPPGcGKTllAraiA~e  171 (413)
T PLN00020        146 KVPLILGIWGGKGQGKSFQCELVFKK  171 (413)
T ss_pred             CCCeEEEeeCCCCCCHHHHHHHHHHH
Confidence            55788999999999999999999983

>KOG2170 consensus ATPase of the AAA+ superfamily [General function prediction only]

Probab=96.79  E-value=0.0025  Score=54.69  Aligned_cols=115  Identities=14%  Similarity=0.096  Sum_probs=67.0

Q ss_pred             cccccchhhHHHHHHHhhc-cCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhh---cCc--eeEEEEcCccccHHH
Q 048765          169 EEICGRVGEKNELLSKLLC-ESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIR---KFD--KILWVCVSETFEEFR  242 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~-~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~---~F~--~~~wv~~~~~~~~~~  242 (314)
                      ..++|..-..+.++..+.. ..++.+.++-+++.+|..|+||...++.++++..-.+   .|-  .++-.+.+.....+.
T Consensus        82 ~~lfGQHla~~~Vv~alk~~~~n~~p~KPLvLSfHG~tGTGKN~Va~iiA~n~~~~Gl~S~~V~~fvat~hFP~~~~ie~  161 (344)
T KOG2170|consen   82 RALFGQHLAKQLVVNALKSHWANPNPRKPLVLSFHGWTGTGKNYVAEIIAENLYRGGLRSPFVHHFVATLHFPHASKIED  161 (344)
T ss_pred             HHhhchHHHHHHHHHHHHHHhcCCCCCCCeEEEecCCCCCchhHHHHHHHHHHHhccccchhHHHhhhhccCCChHHHHH
Confidence            3577876666666666543 1222357888999999999999999999887542211   110  011111111111111


Q ss_pred             HHHHHHHHhcCCCCCCCcHHHHHHHHHHHc-cCceEEEEEeccccCCccCHHhHHHhhc
Q 048765          243 VAKAMVEALDGHESHLGEFQSLLRHIYESI-AGKSFLLVLDDVWDGNYVKWEPFYHCLK  300 (314)
Q Consensus       243 ~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L-~~kr~LlVlDdv~~~~~~~~~~l~~~l~  300 (314)
                      -                 ..++...++..+ .-+|.|+|||+++.....-.+.|...|.
T Consensus       162 Y-----------------k~eL~~~v~~~v~~C~rslFIFDE~DKmp~gLld~lkpfLd  203 (344)
T KOG2170|consen  162 Y-----------------KEELKNRVRGTVQACQRSLFIFDEVDKLPPGLLDVLKPFLD  203 (344)
T ss_pred             H-----------------HHHHHHHHHHHHHhcCCceEEechhhhcCHhHHHHHhhhhc
Confidence            1                 122333333333 3479999999998876566666766664

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.79  E-value=0.0094  Score=55.58  Aligned_cols=57  Identities=14%  Similarity=0.155  Sum_probs=34.6

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCc-cccHHHHHHHHHHHhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSE-TFEEFRVAKAMVEALD  252 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~~~  252 (314)
                      ..|++++|+.|+||||++.+++.....+.....+..++... .....+-+..+.+.++
T Consensus       256 g~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~~Dt~RigA~EQLr~~AeilG  313 (484)
T PRK06995        256 GGVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLTTDSYRIGGHEQLRIYGKILG  313 (484)
T ss_pred             CcEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEeCCccchhHHHHHHHHHHHhC
Confidence            36999999999999999999987443222222345555432 2233344444444443

>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=96.78  E-value=0.012  Score=46.91  Aligned_cols=24  Identities=25%  Similarity=0.300  Sum_probs=21.2

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      -.+++|+|..|.|||||++.+...
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~G~   50 (166)
T cd03223          27 GDRLLITGPSGTGKSSLFRALAGL   50 (166)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            458999999999999999998763

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

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=96.77  E-value=0.02  Score=45.80  Aligned_cols=117  Identities=18%  Similarity=0.074  Sum_probs=64.6

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEE---EcCccccHHHHHHHHHHHh---cCC----CCCCC----cH
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWV---CVSETFEEFRVAKAMVEAL---DGH----ESHLG----EF  261 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv---~~~~~~~~~~~~~~i~~~~---~~~----~~~~~----~~  261 (314)
                      ...|-|++-.|.||||.|..+.-  +...+=-.++.+   .-........++..+.-.+   +..    ..+..    ..
T Consensus         5 ~Gli~v~~g~GkGKtt~a~g~a~--ra~~~g~~v~ivQFlKg~~~~GE~~~l~~~~~~~~~~g~g~~~~~~~~~~~~~~~   82 (173)
T TIGR00708         5 RGIIIVHTGNGKGKTTAAFGMAL--RALGHGKKVGVIQFIKGAWPNGERAAFEPHGVEFQVMGTGFTWETQNREADTAIA   82 (173)
T ss_pred             ccEEEEECCCCCChHHHHHHHHH--HHHHCCCeEEEEEEecCCcccChHHHHHhcCcEEEECCCCCeecCCCcHHHHHHH
Confidence            35778888899999999977755  333332233333   2222233334443320000   000    00111    12


Q ss_pred             HHHHHHHHHHcc-CceEEEEEecccc---CCccCHHhHHHhhccCCCCceEEEeccC
Q 048765          262 QSLLRHIYESIA-GKSFLLVLDDVWD---GNYVKWEPFYHCLKNGLHGSKILVTTRK  314 (314)
Q Consensus       262 ~~~~~~l~~~L~-~kr~LlVlDdv~~---~~~~~~~~l~~~l~~~~~gs~iivTtR~  314 (314)
                      ....+..++.+. ++--|||||.+-.   ..--+.+++...+...+.+.-||+|-|+
T Consensus        83 ~~~~~~a~~~l~~~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~rp~~~evVlTGR~  139 (173)
T TIGR00708        83 KAAWQHAKEMLADPELDLVLLDELTYALKYGYLDVEEVVEALQERPGHQHVIITGRG  139 (173)
T ss_pred             HHHHHHHHHHHhcCCCCEEEehhhHHHHHCCCcCHHHHHHHHHhCCCCCEEEEECCC
Confidence            233444555554 4456999999832   1224567888888777778889999885

Alternate name: corrinoid adenosyltransferase.

>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=96.77  E-value=0.001  Score=50.33  Aligned_cols=21  Identities=43%  Similarity=0.623  Sum_probs=18.9

Q ss_pred             EEEEccCCCChHHHHHHhhch
Q 048765          199 ISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~~  219 (314)
                      |.|.|+.|+||||+|+.+...
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            689999999999999998764

...

>PHA02244 ATPase-like protein

Probab=96.77  E-value=0.0075  Score=53.98  Aligned_cols=22  Identities=23%  Similarity=0.339  Sum_probs=19.3

Q ss_pred             EEEEEccCCCChHHHHHHhhch
Q 048765          198 IISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      -|.|+|++|+|||+||+.++..
T Consensus       121 PVLL~GppGtGKTtLA~aLA~~  142 (383)
T PHA02244        121 PVFLKGGAGSGKNHIAEQIAEA  142 (383)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            4678999999999999999873

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=96.76  E-value=0.011  Score=50.19  Aligned_cols=23  Identities=30%  Similarity=0.462  Sum_probs=20.8

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|.|||||.+.+..
T Consensus        30 G~~~~iiGPNGaGKSTLlK~iLG   52 (254)
T COG1121          30 GEITALIGPNGAGKSTLLKAILG   52 (254)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhC
Confidence            36899999999999999999866

>PTZ00494 tuzin-like protein; Provisional

Probab=96.75  E-value=0.034  Score=50.81  Aligned_cols=106  Identities=19%  Similarity=0.149  Sum_probs=68.7

Q ss_pred             ccccccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHH
Q 048765          166 IDEEEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAK  245 (314)
Q Consensus       166 ~~~~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~  245 (314)
                      ...+.++.|+.+-..+-..|.+-..   ..++++.+.|.-|.||++|.+.....+     --..++|++..   .++.++
T Consensus       368 a~~~~~V~R~~eE~~vRqvL~qld~---aHPRIvV~TG~~GcGKSslcRsAvrkE-----~~paV~VDVRg---~EDtLr  436 (664)
T PTZ00494        368 AAEAFEVRREDEEALVRSVLTQMAP---SHPRIVALAGGSGGGRCVPCRRAVRVE-----GVALVHVDVGG---TEDTLR  436 (664)
T ss_pred             cccccccchhhHHHHHHHHHhhccC---CCCcEEEEecCCCCCchHHHHHHHHHc-----CCCeEEEEecC---CcchHH
Confidence            4456788888877766666655332   568999999999999999998776533     23467777764   456788


Q ss_pred             HHHHHhcCCCCC-CCcHHHHH----HHHHHHccCceEEEEEe
Q 048765          246 AMVEALDGHESH-LGEFQSLL----RHIYESIAGKSFLLVLD  282 (314)
Q Consensus       246 ~i~~~~~~~~~~-~~~~~~~~----~~l~~~L~~kr~LlVlD  282 (314)
                      ++.+.++.+..+ ..|.-+.+    ..-+....++.-+||+-
T Consensus       437 sVVKALgV~nve~CGDlLdFI~ea~~~A~~~~~g~~P~lVlk  478 (664)
T PTZ00494        437 SVVRALGVSNVEVCGDLLGFVEEAMRGATVKASDGVPFLVMR  478 (664)
T ss_pred             HHHHHhCCCChhhhccHHHHHHHHHHHHHHhcCCCCCEEEEE
Confidence            899998875432 22322222    22222345666777764

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=96.75  E-value=0.0087  Score=48.05  Aligned_cols=23  Identities=39%  Similarity=0.502  Sum_probs=20.9

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|.|||||.+.++.
T Consensus        28 G~~~~l~G~nGsGKstLl~~i~G   50 (171)
T cd03228          28 GEKVAIVGPSGSGKSTLLKLLLR   50 (171)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHc
Confidence            45899999999999999999976

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.

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=96.74  E-value=0.04  Score=46.80  Aligned_cols=41  Identities=17%  Similarity=0.154  Sum_probs=29.6

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSE  236 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~  236 (314)
                      .-.++.|.|.+|+|||+++..+..+.-.. +=..++|++...
T Consensus        12 ~G~l~lI~G~~G~GKT~~~~~~~~~~~~~-~g~~vly~s~E~   52 (242)
T cd00984          12 PGDLIIIAARPSMGKTAFALNIAENIAKK-QGKPVLFFSLEM   52 (242)
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHHHh-CCCceEEEeCCC
Confidence            34688999999999999999887643322 234677777644

The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.74  E-value=0.0048  Score=58.89  Aligned_cols=73  Identities=21%  Similarity=0.125  Sum_probs=48.3

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCcc--ccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSET--FEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESI  272 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~--~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L  272 (314)
                      ....|.|.|+.|+|||+||+.+++... +++.-.+.+++++.-  ...+.+.+.+.                 .-+.+.+
T Consensus       430 ~~~~Ill~G~~GsGKT~L~kal~~~~~-k~~~~hv~~v~Cs~l~~~~~e~iQk~l~-----------------~vfse~~  491 (952)
T KOG0735|consen  430 RHGNILLNGPKGSGKTNLVKALFDYYS-KDLIAHVEIVSCSTLDGSSLEKIQKFLN-----------------NVFSEAL  491 (952)
T ss_pred             ccccEEEeCCCCCCHhHHHHHHHHHhc-cccceEEEEEechhccchhHHHHHHHHH-----------------HHHHHHH
Confidence            345788999999999999999998655 444455666776542  12222222222                 2233456


Q ss_pred             cCceEEEEEeccc
Q 048765          273 AGKSFLLVLDDVW  285 (314)
Q Consensus       273 ~~kr~LlVlDdv~  285 (314)
                      ...+-+|||||++
T Consensus       492 ~~~PSiIvLDdld  504 (952)
T KOG0735|consen  492 WYAPSIIVLDDLD  504 (952)
T ss_pred             hhCCcEEEEcchh
Confidence            6788999999994

>PRK05973 replicative DNA helicase; Provisional

Probab=96.73  E-value=0.019  Score=48.47  Aligned_cols=49  Identities=16%  Similarity=0.083  Sum_probs=33.2

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHH
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAM  247 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i  247 (314)
                      .-.++.|.|.+|+|||+++.++....-  ..-..++|++....  ..++...+
T Consensus        63 ~Gsl~LIaG~PG~GKT~lalqfa~~~a--~~Ge~vlyfSlEes--~~~i~~R~  111 (237)
T PRK05973         63 PGDLVLLGARPGHGKTLLGLELAVEAM--KSGRTGVFFTLEYT--EQDVRDRL  111 (237)
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHHH--hcCCeEEEEEEeCC--HHHHHHHH
Confidence            346888999999999999998876332  22345777766553  44444444

>PRK05439 pantothenate kinase; Provisional

Probab=96.73  E-value=0.015  Score=51.11  Aligned_cols=25  Identities=40%  Similarity=0.428  Sum_probs=22.5

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ...-+|+|.|.+|+||||+|+.+..
T Consensus        84 ~~~~iIgIaG~~gsGKSTla~~L~~  108 (311)
T PRK05439         84 KVPFIIGIAGSVAVGKSTTARLLQA  108 (311)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            5678999999999999999988865

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=96.72  E-value=0.0077  Score=48.64  Aligned_cols=23  Identities=39%  Similarity=0.569  Sum_probs=20.8

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|+|||||.+.+..
T Consensus        25 Ge~~~l~G~nGsGKSTLl~~l~G   47 (177)
T cd03222          25 GEVIGIVGPNGTGKTTAVKILAG   47 (177)
T ss_pred             CCEEEEECCCCChHHHHHHHHHc
Confidence            45999999999999999998876

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.

>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]

Probab=96.72  E-value=0.014  Score=49.45  Aligned_cols=58  Identities=19%  Similarity=0.123  Sum_probs=37.3

Q ss_pred             cccccchhhHHHHHHHhhccCc--C-----CCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCce
Q 048765          169 EEICGRVGEKNELLSKLLCESS--E-----QQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDK  228 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~--~-----~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~  228 (314)
                      +++=|=.+++++|.+.....--  +     .-...+-|.++|++|.|||-+|+.|+|  +....|-.
T Consensus       177 ~dvggckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravan--rtdacfir  241 (435)
T KOG0729|consen  177 SDVGGCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVAN--RTDACFIR  241 (435)
T ss_pred             ccccchHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhc--ccCceEEe
Confidence            3445556667766554321100  0     123466788999999999999999998  65555533

>PRK04328 hypothetical protein; Provisional

Probab=96.72  E-value=0.013  Score=50.26  Aligned_cols=87  Identities=15%  Similarity=0.225  Sum_probs=53.1

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCC----------------C--
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGH----------------E--  255 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~----------------~--  255 (314)
                      +.-.++.|.|.+|+|||+|+.++....  ...-...+|++..+.  +..+.+. +++++-.                .  
T Consensus        21 p~gs~ili~G~pGsGKT~l~~~fl~~~--~~~ge~~lyis~ee~--~~~i~~~-~~~~g~d~~~~~~~~~l~iid~~~~~   95 (249)
T PRK04328         21 PERNVVLLSGGPGTGKSIFSQQFLWNG--LQMGEPGVYVALEEH--PVQVRRN-MRQFGWDVRKYEEEGKFAIVDAFTGG   95 (249)
T ss_pred             cCCcEEEEEcCCCCCHHHHHHHHHHHH--HhcCCcEEEEEeeCC--HHHHHHH-HHHcCCCHHHHhhcCCEEEEeccccc
Confidence            346789999999999999998876532  233456788887663  3333332 2222211                0  


Q ss_pred             ------------CCCCcHHHHHHHHHHHccC-ceEEEEEeccc
Q 048765          256 ------------SHLGEFQSLLRHIYESIAG-KSFLLVLDDVW  285 (314)
Q Consensus       256 ------------~~~~~~~~~~~~l~~~L~~-kr~LlVlDdv~  285 (314)
                                  .+..+...+...+.+.++. +.-++|+|.+-
T Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~vVIDSlt  138 (249)
T PRK04328         96 IGSAAKREKYVVKDPDDVRELIDVLRQAIKDIGAKRVVIDSVS  138 (249)
T ss_pred             cccccccccccccCcccHHHHHHHHHHHHHhhCCCEEEEeChh
Confidence                        0123455566666666532 44579999983

>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX)

Probab=96.72  E-value=0.013  Score=53.75  Aligned_cols=50  Identities=26%  Similarity=0.288  Sum_probs=33.9

Q ss_pred             cccccchhhHHHHHHHhh-------c--cCcCC---CCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELLSKLL-------C--ESSEQ---QKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~-------~--~~~~~---~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..++|.+...+.+...+.       .  .....   ......+.++|++|+|||+||+.+..
T Consensus        77 ~~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~  138 (413)
T TIGR00382        77 EYVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLAR  138 (413)
T ss_pred             ceecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHH
Confidence            468998888887765441       1  00000   01235788999999999999999975

A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=96.71  E-value=0.021  Score=52.40  Aligned_cols=26  Identities=31%  Similarity=0.364  Sum_probs=22.4

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhch
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ....+|.++|+.|+||||++.+++..
T Consensus        98 ~~~~vi~lvG~~GvGKTTtaaKLA~~  123 (429)
T TIGR01425        98 GKQNVIMFVGLQGSGKTTTCTKLAYY  123 (429)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            34689999999999999999888753

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.

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=96.70  E-value=0.015  Score=49.48  Aligned_cols=22  Identities=27%  Similarity=0.465  Sum_probs=18.9

Q ss_pred             EEEEEccCCCChHHHHHHhhch
Q 048765          198 IISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      +..|+|++|+|||+|+..++-.
T Consensus         3 ~~ll~g~~G~GKS~lal~la~~   24 (239)
T cd01125           3 VSALVAPGGTGKSSLLLVLALA   24 (239)
T ss_pred             eeEEEcCCCCCHHHHHHHHHHH
Confidence            5578999999999999888753

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.

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=96.70  E-value=0.012  Score=51.23  Aligned_cols=25  Identities=40%  Similarity=0.392  Sum_probs=21.5

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ...-+|+|.|..|+||||+|+.+..
T Consensus        60 ~~p~IIGIaG~~GSGKSTlar~L~~   84 (290)
T TIGR00554        60 KIPYIISIAGSVAVGKSTTARILQA   84 (290)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            4568999999999999999987644

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.

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=96.69  E-value=0.0046  Score=51.09  Aligned_cols=25  Identities=40%  Similarity=0.508  Sum_probs=22.5

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+..+|+|.|..|+||||+|+.++.
T Consensus         6 ~~~iiIgIaG~SgSGKTTva~~l~~   30 (218)
T COG0572           6 EKVIIIGIAGGSGSGKTTVAKELSE   30 (218)
T ss_pred             CceEEEEEeCCCCCCHHHHHHHHHH
Confidence            3568999999999999999999977

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=96.69  E-value=0.004  Score=48.62  Aligned_cols=44  Identities=25%  Similarity=0.301  Sum_probs=32.2

Q ss_pred             EEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCC
Q 048765          198 IISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGH  254 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~  254 (314)
                      +|.|-|++|+||||+|+.+.++....    .         .+...++++|++..+..
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~gl~----~---------vsaG~iFR~~A~e~gms   45 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHLGLK----L---------VSAGTIFREMARERGMS   45 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHhCCc----e---------eeccHHHHHHHHHcCCC
Confidence            68999999999999999997743221    1         14557788888876553

>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=96.69  E-value=0.0015  Score=50.67  Aligned_cols=21  Identities=38%  Similarity=0.553  Sum_probs=18.9

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +|.++|++|+||||+|+.+..
T Consensus         1 lii~~G~pgsGKSt~a~~l~~   21 (143)
T PF13671_consen    1 LIILCGPPGSGKSTLAKRLAK   21 (143)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            578999999999999998864

...

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.68  E-value=0.016  Score=53.19  Aligned_cols=24  Identities=25%  Similarity=0.365  Sum_probs=21.2

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .-.+++++|+.|+||||++..+..
T Consensus       190 ~g~vi~lvGpnG~GKTTtlakLA~  213 (420)
T PRK14721        190 QGGVYALIGPTGVGKTTTTAKLAA  213 (420)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            347999999999999999998865

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=96.68  E-value=0.0022  Score=50.06  Aligned_cols=26  Identities=35%  Similarity=0.305  Sum_probs=22.2

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchH
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHE  220 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~  220 (314)
                      ...-|.|.|++|+||||+++++.+..
T Consensus         4 ~~mki~ITG~PGvGKtTl~~ki~e~L   29 (179)
T COG1618           4 MAMKIFITGRPGVGKTTLVLKIAEKL   29 (179)
T ss_pred             cceEEEEeCCCCccHHHHHHHHHHHH
Confidence            35678999999999999999998743

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=96.68  E-value=0.029  Score=49.69  Aligned_cols=41  Identities=12%  Similarity=0.142  Sum_probs=32.1

Q ss_pred             cCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEecc
Q 048765          273 AGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTR  313 (314)
Q Consensus       273 ~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR  313 (314)
                      .+++-++|||++...+...-+.|...|..-..++.+|++|.
T Consensus       111 ~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~  151 (319)
T PRK08769        111 YGIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISA  151 (319)
T ss_pred             cCCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEEC
Confidence            35677999999988776677788888877666777877775

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.67  E-value=0.014  Score=57.26  Aligned_cols=57  Identities=16%  Similarity=0.191  Sum_probs=33.6

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCc-cccHHHHHHHHHHHhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSE-TFEEFRVAKAMVEALD  252 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~~~  252 (314)
                      ..++.++|+.|+||||++.+++...........+..++... .....+.+....+.++
T Consensus       185 g~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~Dt~RigA~eQL~~~a~~~g  242 (767)
T PRK14723        185 GGVLALVGPTGVGKTTTTAKLAARCVAREGADQLALLTTDSFRIGALEQLRIYGRILG  242 (767)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecCcccchHHHHHHHHHHHhCC
Confidence            47999999999999999999886432221112444554322 1123344444444444

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=96.66  E-value=0.018  Score=51.29  Aligned_cols=41  Identities=10%  Similarity=0.084  Sum_probs=28.4

Q ss_pred             CceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEeccC
Q 048765          274 GKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTRK  314 (314)
Q Consensus       274 ~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR~  314 (314)
                      +++-++|+|++...+...-+.+...+.....+..+|++|.+
T Consensus       112 ~~~kV~iiEp~~~Ld~~a~naLLk~LEep~~~~~~Ilvth~  152 (325)
T PRK08699        112 GGLRVILIHPAESMNLQAANSLLKVLEEPPPQVVFLLVSHA  152 (325)
T ss_pred             CCceEEEEechhhCCHHHHHHHHHHHHhCcCCCEEEEEeCC
Confidence            45556677999877666667777777655456667777754

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=96.65  E-value=0.0019  Score=54.65  Aligned_cols=29  Identities=41%  Similarity=0.495  Sum_probs=24.4

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhh
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEV  222 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~  222 (314)
                      ++..+|.++||+|+||||..+.++.+...
T Consensus        17 ~~p~~ilVvGMAGSGKTTF~QrL~~hl~~   45 (366)
T KOG1532|consen   17 QRPVIILVVGMAGSGKTTFMQRLNSHLHA   45 (366)
T ss_pred             cCCcEEEEEecCCCCchhHHHHHHHHHhh
Confidence            56778889999999999999999875443

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=96.65  E-value=0.02  Score=51.93  Aligned_cols=85  Identities=22%  Similarity=0.235  Sum_probs=51.0

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCC-----CCCcHHHHHHHH
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHES-----HLGEFQSLLRHI  268 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~-----~~~~~~~~~~~l  268 (314)
                      ..-.++.|.|.+|+|||||+.+++...  ......++|++..+.  ...+. .-++.++....     ...+++.+.+.+
T Consensus        80 ~~GslvLI~G~pG~GKStLllq~a~~~--a~~g~~VlYvs~EEs--~~qi~-~Ra~rlg~~~~~l~l~~e~~le~I~~~i  154 (372)
T cd01121          80 VPGSVILIGGDPGIGKSTLLLQVAARL--AKRGGKVLYVSGEES--PEQIK-LRADRLGISTENLYLLAETNLEDILASI  154 (372)
T ss_pred             cCCeEEEEEeCCCCCHHHHHHHHHHHH--HhcCCeEEEEECCcC--HHHHH-HHHHHcCCCcccEEEEccCcHHHHHHHH
Confidence            345689999999999999999987633  223356788876543  23322 22344443221     122344444444


Q ss_pred             HHHccCceEEEEEecccc
Q 048765          269 YESIAGKSFLLVLDDVWD  286 (314)
Q Consensus       269 ~~~L~~kr~LlVlDdv~~  286 (314)
                      .   ..+.-+||+|.+..
T Consensus       155 ~---~~~~~lVVIDSIq~  169 (372)
T cd01121         155 E---ELKPDLVIIDSIQT  169 (372)
T ss_pred             H---hcCCcEEEEcchHH
Confidence            3   34667899999843

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.

>PRK05480 uridine/cytidine kinase; Provisional

Probab=96.65  E-value=0.0018  Score=53.90  Aligned_cols=26  Identities=42%  Similarity=0.466  Sum_probs=22.9

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhch
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .+..+|+|.|..|+|||||++.++..
T Consensus         4 ~~~~iI~I~G~sGsGKTTl~~~l~~~   29 (209)
T PRK05480          4 KKPIIIGIAGGSGSGKTTVASTIYEE   29 (209)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            45789999999999999999998763

>TIGR00235 udk uridine kinase

Probab=96.64  E-value=0.0019  Score=53.71  Aligned_cols=26  Identities=38%  Similarity=0.364  Sum_probs=22.8

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhch
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      +...+|+|+|+.|+|||||++.+...
T Consensus         4 ~~g~vi~I~G~sGsGKSTl~~~l~~~   29 (207)
T TIGR00235         4 PKGIIIGIGGGSGSGKTTVARKIYEQ   29 (207)
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHHHH
Confidence            45689999999999999999999763

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

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=96.64  E-value=0.004  Score=52.66  Aligned_cols=63  Identities=30%  Similarity=0.287  Sum_probs=37.5

Q ss_pred             hHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHH
Q 048765          177 EKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRV  243 (314)
Q Consensus       177 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~  243 (314)
                      +...+++.+....    .+..+|+|.|++|+|||||+-.+.....-+++=-.++=|+-|.+++--.+
T Consensus        14 ~~~~ll~~l~~~~----g~a~~iGiTG~PGaGKSTli~~l~~~~~~~g~~VaVlAVDPSSp~tGGAl   76 (266)
T PF03308_consen   14 EARELLKRLYPHT----GRAHVIGITGPPGAGKSTLIDALIRELRERGKRVAVLAVDPSSPFTGGAL   76 (266)
T ss_dssp             HHHHHHHHHGGGT----T-SEEEEEEE-TTSSHHHHHHHHHHHHHHTT--EEEEEE-GGGGCC---S
T ss_pred             HHHHHHHHHHhhc----CCceEEEeeCCCCCcHHHHHHHHHHHHhhcCCceEEEEECCCCCCCCCcc
Confidence            4455666665433    46789999999999999999888764443333344555555666654444

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.

>PRK03846 adenylylsulfate kinase; Provisional

Probab=96.62  E-value=0.0068  Score=49.95  Aligned_cols=25  Identities=24%  Similarity=0.319  Sum_probs=22.5

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ++..++.|+|+.|+|||||++.+..
T Consensus        22 ~~~~~i~i~G~~GsGKSTla~~l~~   46 (198)
T PRK03846         22 HKGVVLWFTGLSGSGKSTVAGALEE   46 (198)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            4567999999999999999999876

>PHA02774 E1; Provisional

Probab=96.61  E-value=0.012  Score=55.47  Aligned_cols=51  Identities=16%  Similarity=-0.009  Sum_probs=34.2

Q ss_pred             hHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCc
Q 048765          177 EKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSE  236 (314)
Q Consensus       177 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~  236 (314)
                      -+..|..+|..     .++...+.|+|++|+|||.+|..+.+-.  .  ...+.|++...
T Consensus       420 fl~~lk~~l~~-----~PKknciv~~GPP~TGKS~fa~sL~~~L--~--G~vi~fvN~~s  470 (613)
T PHA02774        420 FLTALKDFLKG-----IPKKNCLVIYGPPDTGKSMFCMSLIKFL--K--GKVISFVNSKS  470 (613)
T ss_pred             HHHHHHHHHhc-----CCcccEEEEECCCCCCHHHHHHHHHHHh--C--CCEEEEEECcc
Confidence            44555556532     1456789999999999999998887632  1  23456676543

>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=96.60  E-value=0.003  Score=55.91  Aligned_cols=50  Identities=22%  Similarity=0.305  Sum_probs=44.3

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..++|.++.++++++.+.......+...+++.++|+.|.|||||+..+-+
T Consensus        61 ~~~~G~~~~i~~lV~~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~Lk~  110 (358)
T PF08298_consen   61 DEFYGMEETIERLVNYFKSAAQGLEERKRILLLLGPVGGGKSSLAELLKR  110 (358)
T ss_pred             ccccCcHHHHHHHHHHHHHHHhccCccceEEEEECCCCCCHHHHHHHHHH
Confidence            57999999999999999876655567889999999999999999998866

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=96.60  E-value=0.041  Score=47.90  Aligned_cols=113  Identities=10%  Similarity=0.001  Sum_probs=65.1

Q ss_pred             HHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHh------------hhhcCceeEEEEcCcc--ccHHHH
Q 048765          178 KNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEE------------VIRKFDKILWVCVSET--FEEFRV  243 (314)
Q Consensus       178 ~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~------------~~~~F~~~~wv~~~~~--~~~~~~  243 (314)
                      .+.|...+...     .-.....++|+.|+||+++|..+....-            ...|.|..........  ...   
T Consensus         6 ~~~L~~~i~~~-----rl~HAyLf~G~~G~Gk~~lA~~~A~~llC~~~~~~c~~~~~~~HPD~~~i~p~~~~~~I~i---   77 (290)
T PRK05917          6 WEALIQRVRDQ-----KVPSAIILHGQDLSNLSARAYELASLILKETSPEAAYKISQKIHPDIHEFSPQGKGRLHSI---   77 (290)
T ss_pred             HHHHHHHHHcC-----CcCeeEeeECCCCCcHHHHHHHHHHHHhCCCCccHHHHHhcCCCCCEEEEecCCCCCcCcH---
Confidence            44555555443     2345677999999999999977754210            0112232211111100  111   


Q ss_pred             HHHHHHHhcCCCCCCCcHHHHHHHHHHH-ccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEecc
Q 048765          244 AKAMVEALDGHESHLGEFQSLLRHIYES-IAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTR  313 (314)
Q Consensus       244 ~~~i~~~~~~~~~~~~~~~~~~~~l~~~-L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR  313 (314)
                                     +..+++...+... ..++.-++|+|++...+.+.++.|...+..-+.++.+|++|.
T Consensus        78 ---------------dqiR~l~~~~~~~p~e~~~kv~ii~~ad~mt~~AaNaLLK~LEEPp~~~~fiL~~~  133 (290)
T PRK05917         78 ---------------ETPRAIKKQIWIHPYESPYKIYIIHEADRMTLDAISAFLKVLEDPPQHGVIILTSA  133 (290)
T ss_pred             ---------------HHHHHHHHHHhhCccCCCceEEEEechhhcCHHHHHHHHHHhhcCCCCeEEEEEeC
Confidence                           1112222222211 246677999999998887889999999987777777777765

>PTZ00088 adenylate kinase 1; Provisional

Probab=96.59  E-value=0.0025  Score=53.72  Aligned_cols=21  Identities=33%  Similarity=0.597  Sum_probs=19.0

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -|.|+|++|+||||+|+.+..
T Consensus         8 rIvl~G~PGsGK~T~a~~La~   28 (229)
T PTZ00088          8 KIVLFGAPGVGKGTFAEILSK   28 (229)
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            388999999999999998866

>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=96.59  E-value=0.013  Score=47.06  Aligned_cols=113  Identities=19%  Similarity=0.172  Sum_probs=56.2

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhc---CCCC--C---------CCcH
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALD---GHES--H---------LGEF  261 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~---~~~~--~---------~~~~  261 (314)
                      -.+++|+|..|.|||||.+.++...   ......++++-.......   ..+.+.++   ....  .         .+.-
T Consensus        26 Ge~~~i~G~nGsGKStLl~~l~G~~---~~~~G~i~~~g~~~~~~~---~~~~~~i~~~~q~~~~~~~~tv~~~~~LS~G   99 (173)
T cd03230          26 GEIYGLLGPNGAGKTTLIKIILGLL---KPDSGEIKVLGKDIKKEP---EEVKRRIGYLPEEPSLYENLTVRENLKLSGG   99 (173)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCC---CCCCeEEEECCEEcccch---HhhhccEEEEecCCccccCCcHHHHhhcCHH
Confidence            4589999999999999999987632   223444444321100000   01111111   0000  0         0001


Q ss_pred             HHHHHHHHHHccCceEEEEEecccc-CCccCHHhHHHhhccC-CCCceEEEeccC
Q 048765          262 QSLLRHIYESIAGKSFLLVLDDVWD-GNYVKWEPFYHCLKNG-LHGSKILVTTRK  314 (314)
Q Consensus       262 ~~~~~~l~~~L~~kr~LlVlDdv~~-~~~~~~~~l~~~l~~~-~~gs~iivTtR~  314 (314)
                      +...-.+...|..++-++++|+--. .|......+...+... ..|..||++|.+
T Consensus       100 ~~qrv~laral~~~p~illlDEPt~~LD~~~~~~l~~~l~~~~~~g~tiii~th~  154 (173)
T cd03230         100 MKQRLALAQALLHDPELLILDEPTSGLDPESRREFWELLRELKKEGKTILLSSHI  154 (173)
T ss_pred             HHHHHHHHHHHHcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHCCCEEEEECCC
Confidence            1111224445566778999999733 2223334455555422 236678888764

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.

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=96.57  E-value=0.0048  Score=55.17  Aligned_cols=108  Identities=17%  Similarity=0.125  Sum_probs=66.2

Q ss_pred             ccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHH
Q 048765          170 EICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVE  249 (314)
Q Consensus       170 ~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~  249 (314)
                      .++|.+.....+...+...        .-+.+.|.+|+|||+||+.+..  ...   -..++|.+.....+.++.....-
T Consensus        25 ~~~g~~~~~~~~l~a~~~~--------~~vll~G~PG~gKT~la~~lA~--~l~---~~~~~i~~t~~l~p~d~~G~~~~   91 (329)
T COG0714          25 VVVGDEEVIELALLALLAG--------GHVLLEGPPGVGKTLLARALAR--ALG---LPFVRIQCTPDLLPSDLLGTYAY   91 (329)
T ss_pred             eeeccHHHHHHHHHHHHcC--------CCEEEECCCCccHHHHHHHHHH--HhC---CCeEEEecCCCCCHHHhcCchhH
Confidence            3788777777776666543        3578999999999999999977  332   34567777777777765433332


Q ss_pred             HhcCCCCCCCcHHHHHHHHHHHc-----cCceEEEEEeccccCCccCHHhHHHhhc
Q 048765          250 ALDGHESHLGEFQSLLRHIYESI-----AGKSFLLVLDDVWDGNYVKWEPFYHCLK  300 (314)
Q Consensus       250 ~~~~~~~~~~~~~~~~~~l~~~L-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~  300 (314)
                      .......          ....+.     ..-+.++.+|.++......-..|...+.
T Consensus        92 ~~~~~~~----------~~~~~~~gpl~~~~~~ill~DEInra~p~~q~aLl~~l~  137 (329)
T COG0714          92 AALLLEP----------GEFRFVPGPLFAAVRVILLLDEINRAPPEVQNALLEALE  137 (329)
T ss_pred             hhhhccC----------CeEEEecCCcccccceEEEEeccccCCHHHHHHHHHHHh
Confidence            2210000          000000     1111599999998876555555666554

>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2

Probab=96.57  E-value=0.0066  Score=49.19  Aligned_cols=22  Identities=41%  Similarity=0.646  Sum_probs=19.8

Q ss_pred             EEEEEccCCCChHHHHHHhhch
Q 048765          198 IISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      +|+|.|..|+||||||+.+...
T Consensus         1 ii~i~G~sgsGKttla~~l~~~   22 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQ   22 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999998764

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=96.56  E-value=0.013  Score=57.55  Aligned_cols=85  Identities=19%  Similarity=0.121  Sum_probs=57.2

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCC-----CCCcHHHHHHHH
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHES-----HLGEFQSLLRHI  268 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~-----~~~~~~~~~~~l  268 (314)
                      +.-+++-|+|.+|+|||||+..++..  ....-..++|++....+++.     .+++++....     .....+.....+
T Consensus        58 p~GsiteI~G~~GsGKTtLal~~~~~--a~~~G~~v~yId~E~t~~~~-----~A~~lGvDl~~llv~~~~~~E~~l~~i  130 (790)
T PRK09519         58 PRGRVIEIYGPESSGKTTVALHAVAN--AQAAGGVAAFIDAEHALDPD-----YAKKLGVDTDSLLVSQPDTGEQALEIA  130 (790)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEECCccchhHH-----HHHHcCCChhHeEEecCCCHHHHHHHH
Confidence            45678889999999999999877652  22334668999988877743     5666655321     222334455555


Q ss_pred             HHHc-cCceEEEEEeccc
Q 048765          269 YESI-AGKSFLLVLDDVW  285 (314)
Q Consensus       269 ~~~L-~~kr~LlVlDdv~  285 (314)
                      ...+ .++--|||+|.+-
T Consensus       131 ~~lv~~~~~~LVVIDSI~  148 (790)
T PRK09519        131 DMLIRSGALDIVVIDSVA  148 (790)
T ss_pred             HHHhhcCCCeEEEEcchh
Confidence            5555 4567799999985

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=96.55  E-value=0.021  Score=49.19  Aligned_cols=41  Identities=20%  Similarity=0.379  Sum_probs=30.5

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSE  236 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~  236 (314)
                      +.-.++.|.|.+|+|||+++.+++....  ..-..++|++...
T Consensus        34 p~gs~~lI~G~pGtGKT~l~~qf~~~~a--~~Ge~vlyis~Ee   74 (259)
T TIGR03878        34 PAYSVINITGVSDTGKSLMVEQFAVTQA--SRGNPVLFVTVES   74 (259)
T ss_pred             ECCcEEEEEcCCCCCHHHHHHHHHHHHH--hCCCcEEEEEecC
Confidence            4567899999999999999998765321  2234678888764

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=96.55  E-value=0.034  Score=49.69  Aligned_cols=42  Identities=12%  Similarity=0.067  Sum_probs=34.1

Q ss_pred             cCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEeccC
Q 048765          273 AGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTRK  314 (314)
Q Consensus       273 ~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR~  314 (314)
                      .+++-++|||++...+...-+.|...|..-+.++-+|++|.+
T Consensus       106 ~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~  147 (334)
T PRK07993        106 LGGAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACRE  147 (334)
T ss_pred             cCCceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECC
Confidence            467789999999988777888899999877777777777753

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=96.55  E-value=0.014  Score=53.51  Aligned_cols=50  Identities=24%  Similarity=0.231  Sum_probs=33.7

Q ss_pred             cccccchhhHHHHHHHhhc----cCc------CCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELLSKLLC----ESS------EQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~----~~~------~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..++|.+..++.+...+..    -..      ........+.++|++|+|||+||+.++.
T Consensus        71 ~~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~  130 (412)
T PRK05342         71 QYVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLAR  130 (412)
T ss_pred             hHeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHH
Confidence            4589988888776544311    000      0011245688999999999999999975

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=96.54  E-value=0.015  Score=55.41  Aligned_cols=131  Identities=15%  Similarity=0.065  Sum_probs=70.9

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMV  248 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  248 (314)
                      ..++|....+..+++.+..-.    ..-.-|.|+|..|+||+++|+.++..  ....-...+.++|+...  .+.+..  
T Consensus       204 ~~~ig~s~~~~~~~~~~~~~A----~~~~pvlI~GE~GtGK~~lA~aiH~~--s~r~~~pfv~inca~~~--~~~~e~--  273 (520)
T PRK10820        204 SQIVAVSPKMRQVVEQARKLA----MLDAPLLITGDTGTGKDLLAYACHLR--SPRGKKPFLALNCASIP--DDVVES--  273 (520)
T ss_pred             cceeECCHHHHHHHHHHHHHh----CCCCCEEEECCCCccHHHHHHHHHHh--CCCCCCCeEEeccccCC--HHHHHH--
Confidence            468898888887777764322    12234779999999999999998652  22222344567766543  122221  


Q ss_pred             HHhcCCCC-CCCcHHHHHHHHHHHc-cCceEEEEEeccccCCccCHHhHHHhhccCC---C--------CceEEEecc
Q 048765          249 EALDGHES-HLGEFQSLLRHIYESI-AGKSFLLVLDDVWDGNYVKWEPFYHCLKNGL---H--------GSKILVTTR  313 (314)
Q Consensus       249 ~~~~~~~~-~~~~~~~~~~~l~~~L-~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~---~--------gs~iivTtR  313 (314)
                       .+.+... .........   ...+ ....=.|+||+|..........|...+..+.   .        ..|||.||.
T Consensus       274 -elFG~~~~~~~~~~~~~---~g~~e~a~~GtL~LdeI~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~vRiI~st~  347 (520)
T PRK10820        274 -ELFGHAPGAYPNALEGK---KGFFEQANGGSVLLDEIGEMSPRMQAKLLRFLNDGTFRRVGEDHEVHVDVRVICATQ  347 (520)
T ss_pred             -HhcCCCCCCcCCcccCC---CChhhhcCCCEEEEeChhhCCHHHHHHHHHHHhcCCcccCCCCcceeeeeEEEEecC
Confidence             2222111 000000000   0011 1233457899998765455566777775431   1        237888774

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=96.53  E-value=0.027  Score=50.37  Aligned_cols=41  Identities=17%  Similarity=0.154  Sum_probs=33.5

Q ss_pred             cCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEecc
Q 048765          273 AGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTR  313 (314)
Q Consensus       273 ~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR  313 (314)
                      .+++-++|||++...+....+.|...|..-++++.+|++|.
T Consensus       130 ~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~  170 (342)
T PRK06964        130 RGGARVVVLYPAEALNVAAANALLKTLEEPPPGTVFLLVSA  170 (342)
T ss_pred             cCCceEEEEechhhcCHHHHHHHHHHhcCCCcCcEEEEEEC
Confidence            35667999999999888889999999987777887777764

>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=96.53  E-value=0.0019  Score=43.37  Aligned_cols=22  Identities=41%  Similarity=0.610  Sum_probs=19.3

Q ss_pred             EEEEEccCCCChHHHHHHhhch
Q 048765          198 IISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ++.|.|..|+||||+++.+...
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~   22 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQ   22 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999988763

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.

>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated

Probab=96.53  E-value=0.022  Score=46.30  Aligned_cols=117  Identities=15%  Similarity=0.049  Sum_probs=66.1

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCc---cccHHHHHHHHH--HH--hcCC----C-CCCC---c
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSE---TFEEFRVAKAMV--EA--LDGH----E-SHLG---E  260 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~---~~~~~~~~~~i~--~~--~~~~----~-~~~~---~  260 (314)
                      ...|-|+|-.|-||||.|.-+.-  +...+=-.+..+..-+   ......++..+-  ..  .+..    . ....   .
T Consensus        22 ~g~v~v~~g~GkGKtt~a~g~a~--ra~g~G~~V~ivQFlKg~~~~GE~~~l~~l~~v~~~~~g~~~~~~~~~~~e~~~~   99 (191)
T PRK05986         22 KGLLIVHTGNGKGKSTAAFGMAL--RAVGHGKKVGVVQFIKGAWSTGERNLLEFGGGVEFHVMGTGFTWETQDRERDIAA   99 (191)
T ss_pred             CCeEEEECCCCCChHHHHHHHHH--HHHHCCCeEEEEEEecCCCccCHHHHHhcCCCcEEEECCCCCcccCCCcHHHHHH
Confidence            46888999999999999977654  3333333344444322   223333333210  00  0000    0 0001   1


Q ss_pred             HHHHHHHHHHHc-cCceEEEEEecccc---CCccCHHhHHHhhccCCCCceEEEeccC
Q 048765          261 FQSLLRHIYESI-AGKSFLLVLDDVWD---GNYVKWEPFYHCLKNGLHGSKILVTTRK  314 (314)
Q Consensus       261 ~~~~~~~l~~~L-~~kr~LlVlDdv~~---~~~~~~~~l~~~l~~~~~gs~iivTtR~  314 (314)
                      .....+..++.+ .++-=|||||.+-.   ..-.+.+++...|...+.+.-||+|=|+
T Consensus       100 ~~~~~~~a~~~l~~~~ydlvVLDEi~~Al~~gli~~eevi~~L~~rp~~~evVlTGR~  157 (191)
T PRK05986        100 AREGWEEAKRMLADESYDLVVLDELTYALKYGYLDVEEVLEALNARPGMQHVVITGRG  157 (191)
T ss_pred             HHHHHHHHHHHHhCCCCCEEEEehhhHHHHCCCccHHHHHHHHHcCCCCCEEEEECCC
Confidence            123344455555 44556999999832   2224577888888777778899999875

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=96.53  E-value=0.0039  Score=53.63  Aligned_cols=66  Identities=26%  Similarity=0.257  Sum_probs=46.2

Q ss_pred             HHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHH
Q 048765          179 NELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMV  248 (314)
Q Consensus       179 ~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  248 (314)
                      .+|+..+....    ++..+|+|.|.+|+|||||.-.+.....-++|=-.++=|+-|++++.-.++-+=+
T Consensus        38 ~~ll~~l~p~t----G~a~viGITG~PGaGKSTli~~L~~~l~~~G~rVaVlAVDPSSp~TGGsiLGDRi  103 (323)
T COG1703          38 RELLRALYPRT----GNAHVIGITGVPGAGKSTLIEALGRELRERGHRVAVLAVDPSSPFTGGSILGDRI  103 (323)
T ss_pred             HHHHHHHhhcC----CCCcEEEecCCCCCchHHHHHHHHHHHHHCCcEEEEEEECCCCCCCCccccccHh
Confidence            45566665544    6788999999999999999988876544444545566677777776666654433

>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=96.53  E-value=0.01  Score=47.76  Aligned_cols=23  Identities=39%  Similarity=0.557  Sum_probs=20.7

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|+|||||.+.+..
T Consensus        28 Ge~~~i~G~nGsGKStLl~~l~G   50 (173)
T cd03246          28 GESLAIIGPSGSGKSTLARLILG   50 (173)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            35899999999999999999876

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

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=96.50  E-value=0.022  Score=46.56  Aligned_cols=88  Identities=22%  Similarity=0.274  Sum_probs=46.8

Q ss_pred             EEEEEEccCCCChHHHHHHhhchHhhhhcC--------ceeEEEEcCccccHHHHHHHHHHHhcCCC-------------
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHEEVIRKF--------DKILWVCVSETFEEFRVAKAMVEALDGHE-------------  255 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F--------~~~~wv~~~~~~~~~~~~~~i~~~~~~~~-------------  255 (314)
                      .++.|.|++|+|||+++..+.........|        ..++|++...+.  ..+.+.+........             
T Consensus        33 ~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~~--~~~~~rl~~~~~~~~~~~~~~~~~~~~~  110 (193)
T PF13481_consen   33 ELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDSE--SQIARRLRALLQDYDDDANLFFVDLSNW  110 (193)
T ss_dssp             SEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS-H--HHHHHHHHHHHTTS-HHHHHHHHHH--E
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCCH--HHHHHHHHHHhcccCCccceEEeecccc
Confidence            478899999999999998887654432222        368888776653  233333322221110             


Q ss_pred             ---------CCCCcHHHHHHHHHHHccC--ceEEEEEecccc
Q 048765          256 ---------SHLGEFQSLLRHIYESIAG--KSFLLVLDDVWD  286 (314)
Q Consensus       256 ---------~~~~~~~~~~~~l~~~L~~--kr~LlVlDdv~~  286 (314)
                               ..........+.+.+.+..  +.-+||||.+..
T Consensus       111 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~lvviD~l~~  152 (193)
T PF13481_consen  111 GCIRLFEPDSGGPLLDEDLEELEAALKELYGPDLVVIDPLQS  152 (193)
T ss_dssp             -EE---TTS---TTSHHHHHHHHHHHTT----SEEEEE-GGG
T ss_pred             ccceeeecccccccchHHHHHHHHHHhhcCCCcEEEEcCHHH
Confidence                     0001123445566666644  467999998854

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=96.49  E-value=0.0096  Score=50.11  Aligned_cols=88  Identities=25%  Similarity=0.240  Sum_probs=53.7

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCC---------------CCC-
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGH---------------ESH-  257 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~---------------~~~-  257 (314)
                      +.-.++.|.|.+|+|||+|+.++.... .+..=..++|++...+.  +.+.+.+- +++-.               ... 
T Consensus        17 p~gs~~li~G~~GsGKT~l~~q~l~~~-~~~~ge~vlyvs~ee~~--~~l~~~~~-s~g~d~~~~~~~g~l~~~d~~~~~   92 (226)
T PF06745_consen   17 PKGSVVLISGPPGSGKTTLALQFLYNG-LKNFGEKVLYVSFEEPP--EELIENMK-SFGWDLEEYEDSGKLKIIDAFPER   92 (226)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHH-HHHHT--EEEEESSS-H--HHHHHHHH-TTTS-HHHHHHTTSEEEEESSGGG
T ss_pred             CCCcEEEEEeCCCCCcHHHHHHHHHHh-hhhcCCcEEEEEecCCH--HHHHHHHH-HcCCcHHHHhhcCCEEEEeccccc
Confidence            445799999999999999998876522 12213467888876543  44444433 22211               001 


Q ss_pred             ----CCcHHHHHHHHHHHccC-ceEEEEEeccc
Q 048765          258 ----LGEFQSLLRHIYESIAG-KSFLLVLDDVW  285 (314)
Q Consensus       258 ----~~~~~~~~~~l~~~L~~-kr~LlVlDdv~  285 (314)
                          ..+...+...+.+.++. +...+|||.+-
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                34567777777776643 44799999984

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 ....

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=96.48  E-value=0.012  Score=50.90  Aligned_cols=123  Identities=15%  Similarity=0.091  Sum_probs=62.0

Q ss_pred             hHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCC
Q 048765          177 EKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHES  256 (314)
Q Consensus       177 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~  256 (314)
                      ..+.++..|...     .....+.|+|+.|+|||||.+.+.....   .....+++.-. .....+-..++...+..-+.
T Consensus        97 ~~~~~l~~l~~~-----~~~~~~~i~g~~g~GKttl~~~l~~~~~---~~~G~i~~~g~-~v~~~d~~~ei~~~~~~~~q  167 (270)
T TIGR02858        97 AADKLLPYLVRN-----NRVLNTLIISPPQCGKTTLLRDLARILS---TGISQLGLRGK-KVGIVDERSEIAGCVNGVPQ  167 (270)
T ss_pred             cHHHHHHHHHhC-----CCeeEEEEEcCCCCCHHHHHHHHhCccC---CCCceEEECCE-EeecchhHHHHHHHhccccc
Confidence            344455555432     3357899999999999999999986321   22333443211 11100111223222221110


Q ss_pred             -------CCCcHHHHHHHHHHHc-cCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEecc
Q 048765          257 -------HLGEFQSLLRHIYESI-AGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTR  313 (314)
Q Consensus       257 -------~~~~~~~~~~~l~~~L-~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR  313 (314)
                             +..+...-...+...+ ...+-++++|.+-..  +.+..+...+.   .|..||+||.
T Consensus       168 ~~~~~r~~v~~~~~k~~~~~~~i~~~~P~villDE~~~~--e~~~~l~~~~~---~G~~vI~ttH  227 (270)
T TIGR02858       168 HDVGIRTDVLDGCPKAEGMMMLIRSMSPDVIVVDEIGRE--EDVEALLEALH---AGVSIIATAH  227 (270)
T ss_pred             ccccccccccccchHHHHHHHHHHhCCCCEEEEeCCCcH--HHHHHHHHHHh---CCCEEEEEec
Confidence                   0111111122233333 357889999998543  33455545443   4777898886

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.

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=96.47  E-value=0.031  Score=52.73  Aligned_cols=87  Identities=17%  Similarity=0.131  Sum_probs=54.9

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCC---------------CCCC
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGH---------------ESHL  258 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~---------------~~~~  258 (314)
                      ..-.++.|.|++|+|||||+.++....  ...-..++|+...+  +...+...+ +.++-.               .+..
T Consensus       261 ~~gs~~li~G~~G~GKt~l~~~f~~~~--~~~ge~~~y~s~eE--s~~~i~~~~-~~lg~~~~~~~~~g~l~~~~~~p~~  335 (484)
T TIGR02655       261 FKDSIILATGATGTGKTLLVSKFLENA--CANKERAILFAYEE--SRAQLLRNA-YSWGIDFEEMEQQGLLKIICAYPES  335 (484)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHH--HHCCCeEEEEEeeC--CHHHHHHHH-HHcCCChHHHhhCCcEEEEEccccc
Confidence            456789999999999999999987633  23335677776654  344454443 333321               1111


Q ss_pred             CcHHHHHHHHHHHcc-CceEEEEEeccc
Q 048765          259 GEFQSLLRHIYESIA-GKSFLLVLDDVW  285 (314)
Q Consensus       259 ~~~~~~~~~l~~~L~-~kr~LlVlDdv~  285 (314)
                      ...++....+.+.+. .+.-++|+|.+-
T Consensus       336 ~~~~~~~~~i~~~i~~~~~~~vvIDsi~  363 (484)
T TIGR02655       336 AGLEDHLQIIKSEIADFKPARIAIDSLS  363 (484)
T ss_pred             CChHHHHHHHHHHHHHcCCCEEEEcCHH
Confidence            233556666766663 355689999984

Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.47  E-value=0.013  Score=54.15  Aligned_cols=33  Identities=27%  Similarity=0.246  Sum_probs=25.6

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeE
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKIL  230 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~  230 (314)
                      ..+..+.+.|++|+|||+||..++.    ...|..+=
T Consensus       536 s~lvSvLl~Gp~~sGKTaLAA~iA~----~S~FPFvK  568 (744)
T KOG0741|consen  536 SPLVSVLLEGPPGSGKTALAAKIAL----SSDFPFVK  568 (744)
T ss_pred             CcceEEEEecCCCCChHHHHHHHHh----hcCCCeEE
Confidence            4566777899999999999999865    45576543

>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=96.47  E-value=0.0078  Score=54.27  Aligned_cols=102  Identities=18%  Similarity=0.155  Sum_probs=57.6

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhh----hhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHH
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEV----IRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIY  269 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~----~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~  269 (314)
                      ...+=+.|||..|.|||.|+-.+|+...+    +-||.              .++..+-+.+.........+    ..+.
T Consensus        60 ~~~~GlYl~G~vG~GKT~Lmd~f~~~lp~~~k~R~HFh--------------~Fm~~vh~~l~~~~~~~~~l----~~va  121 (362)
T PF03969_consen   60 PPPKGLYLWGPVGRGKTMLMDLFYDSLPIKRKRRVHFH--------------EFMLDVHSRLHQLRGQDDPL----PQVA  121 (362)
T ss_pred             CCCceEEEECCCCCchhHHHHHHHHhCCcccccccccc--------------HHHHHHHHHHHHHhCCCccH----HHHH
Confidence            45788999999999999999999885432    22342              33333333332211112222    3344


Q ss_pred             HHccCceEEEEEeccccCCccCHHhHHHhhccC-CCCceEEEeccC
Q 048765          270 ESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNG-LHGSKILVTTRK  314 (314)
Q Consensus       270 ~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~-~~gs~iivTtR~  314 (314)
                      +.+.++..||.||+..-.|..+---|...|... ..|. |||+|-|
T Consensus       122 ~~l~~~~~lLcfDEF~V~DiaDAmil~rLf~~l~~~gv-vlVaTSN  166 (362)
T PF03969_consen  122 DELAKESRLLCFDEFQVTDIADAMILKRLFEALFKRGV-VLVATSN  166 (362)
T ss_pred             HHHHhcCCEEEEeeeeccchhHHHHHHHHHHHHHHCCC-EEEecCC
Confidence            455667789999998655433322233334322 4465 5555543

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

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=96.46  E-value=0.0084  Score=51.69  Aligned_cols=87  Identities=21%  Similarity=0.219  Sum_probs=58.8

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCC-------------------
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGH-------------------  254 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~-------------------  254 (314)
                      +.-+++.|.|.+|+|||+++.++..  +...+...++||+..+.  ...+.+.+.+ ++-.                   
T Consensus        21 p~g~~~lI~G~pGsGKT~f~~qfl~--~~~~~ge~vlyvs~~e~--~~~l~~~~~~-~g~d~~~~~~~g~l~i~d~~~~~   95 (260)
T COG0467          21 PRGSVVLITGPPGTGKTIFALQFLY--EGAREGEPVLYVSTEES--PEELLENARS-FGWDLEVYIEKGKLAILDAFLSE   95 (260)
T ss_pred             cCCcEEEEEcCCCCcHHHHHHHHHH--HHHhcCCcEEEEEecCC--HHHHHHHHHH-cCCCHHHHhhcCCEEEEEccccc
Confidence            5578999999999999999999877  55556889999998774  4444444432 2111                   


Q ss_pred             CC-------CCCcHHHHHHHHHHHcc-CceEEEEEeccc
Q 048765          255 ES-------HLGEFQSLLRHIYESIA-GKSFLLVLDDVW  285 (314)
Q Consensus       255 ~~-------~~~~~~~~~~~l~~~L~-~kr~LlVlDdv~  285 (314)
                      ..       ...+...+...|.+..+ -+..-+|+|.+-
T Consensus        96 ~~~~~~~~~~~~~~~~l~~~I~~~~~~~~~~~~ViDsi~  134 (260)
T COG0467          96 KGLVSIVVGDPLDLEELLDRIREIVEKEGADRVVIDSIT  134 (260)
T ss_pred             cccccccccCCccHHHHHHHHHHHHHHhCCCEEEEeCCc
Confidence            00       01244556666666653 247789999984

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=96.45  E-value=0.051  Score=43.86  Aligned_cols=26  Identities=31%  Similarity=0.445  Sum_probs=22.7

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchH
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHE  220 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~  220 (314)
                      +-..+.|+|+.|.|||||.+.+|..+
T Consensus        27 ~Gef~fl~GpSGAGKSTllkLi~~~e   52 (223)
T COG2884          27 KGEFVFLTGPSGAGKSTLLKLIYGEE   52 (223)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhhh
Confidence            45688999999999999999998754

>PRK13531 regulatory ATPase RavA; Provisional

Probab=96.43  E-value=0.0037  Score=57.91  Aligned_cols=42  Identities=19%  Similarity=0.157  Sum_probs=36.4

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..++|+++.++.+...+..+.        .+.|.|++|+|||+||+.+..
T Consensus        20 ~~i~gre~vI~lll~aalag~--------hVLL~GpPGTGKT~LAraLa~   61 (498)
T PRK13531         20 KGLYERSHAIRLCLLAALSGE--------SVFLLGPPGIAKSLIARRLKF   61 (498)
T ss_pred             hhccCcHHHHHHHHHHHccCC--------CEEEECCCChhHHHHHHHHHH
Confidence            358999999999998887644        578999999999999999976

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=96.42  E-value=0.0026  Score=51.71  Aligned_cols=24  Identities=38%  Similarity=0.372  Sum_probs=21.4

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +..+|.|+|++|+||||+++.+..
T Consensus         2 ~~~ii~i~G~~GsGKsTl~~~l~~   25 (188)
T TIGR01360         2 KCKIIFIVGGPGSGKGTQCEKIVE   25 (188)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            357999999999999999998875

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.

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=96.40  E-value=0.023  Score=54.31  Aligned_cols=25  Identities=32%  Similarity=0.389  Sum_probs=21.5

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ++-..++|+|+.|+|||||++.+..
T Consensus       359 ~~G~~vaIvG~SGsGKSTLl~lL~g  383 (529)
T TIGR02868       359 PPGERVAILGPSGSGKSTLLMLLTG  383 (529)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhc
Confidence            3456899999999999999998854

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.

>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases

Probab=96.40  E-value=0.007  Score=47.58  Aligned_cols=87  Identities=20%  Similarity=0.231  Sum_probs=48.3

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEc-------Ccc--ccHHH---H---HHHHHHHhcCCC-----
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCV-------SET--FEEFR---V---AKAMVEALDGHE-----  255 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~-------~~~--~~~~~---~---~~~i~~~~~~~~-----  255 (314)
                      ..+|-+.|..|+||||||+.+..  +....-..+.+++.       +.+  ++..+   -   +..++..+....     
T Consensus         2 g~vIwltGlsGsGKtTlA~~L~~--~L~~~g~~~~~LDgD~lR~~l~~dl~fs~~dR~e~~rr~~~~A~ll~~~G~ivIv   79 (156)
T PF01583_consen    2 GFVIWLTGLSGSGKTTLARALER--RLFARGIKVYLLDGDNLRHGLNADLGFSKEDREENIRRIAEVAKLLADQGIIVIV   79 (156)
T ss_dssp             -EEEEEESSTTSSHHHHHHHHHH--HHHHTTS-EEEEEHHHHCTTTTTT--SSHHHHHHHHHHHHHHHHHHHHTTSEEEE
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH--HHHHcCCcEEEecCcchhhccCCCCCCCHHHHHHHHHHHHHHHHHHHhCCCeEEE
Confidence            35888999999999999999987  44444455666652       221  22211   1   122222222211     


Q ss_pred             CCCCcHHHHHHHHHHHccCceEEEEEecc
Q 048765          256 SHLGEFQSLLRHIYESIAGKSFLLVLDDV  284 (314)
Q Consensus       256 ~~~~~~~~~~~~l~~~L~~kr~LlVlDdv  284 (314)
                      .......+..+..++.+...+|+-|.=++
T Consensus        80 a~isp~~~~R~~~R~~~~~~~f~eVyv~~  108 (156)
T PF01583_consen   80 AFISPYREDREWARELIPNERFIEVYVDC  108 (156)
T ss_dssp             E----SHHHHHHHHHHHHTTEEEEEEEES
T ss_pred             eeccCchHHHHHHHHhCCcCceEEEEeCC
Confidence            12233355556666666666888887776

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 ....

>PRK06547 hypothetical protein; Provisional

Probab=96.40  E-value=0.0032  Score=50.59  Aligned_cols=26  Identities=38%  Similarity=0.466  Sum_probs=22.8

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhch
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ....+|.|.|+.|+||||+++.+...
T Consensus        13 ~~~~~i~i~G~~GsGKTt~a~~l~~~   38 (172)
T PRK06547         13 GGMITVLIDGRSGSGKTTLAGALAAR   38 (172)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            45789999999999999999999763

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

Probab=96.40  E-value=0.021  Score=48.63  Aligned_cols=89  Identities=21%  Similarity=0.153  Sum_probs=51.2

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCc-----cccHHHHHHHHHHHhcCCC-------CCCCcHH
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSE-----TFEEFRVAKAMVEALDGHE-------SHLGEFQ  262 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~-----~~~~~~~~~~i~~~~~~~~-------~~~~~~~  262 (314)
                      +-.+++|||..|.|||||++.+..-.   ..-...+++.-.+     .....+-..++++..+...       ...+.-+
T Consensus        38 ~ge~~glVGESG~GKSTlgr~i~~L~---~pt~G~i~f~g~~i~~~~~~~~~~~v~elL~~Vgl~~~~~~ryPhelSGGQ  114 (268)
T COG4608          38 EGETLGLVGESGCGKSTLGRLILGLE---EPTSGEILFEGKDITKLSKEERRERVLELLEKVGLPEEFLYRYPHELSGGQ  114 (268)
T ss_pred             CCCEEEEEecCCCCHHHHHHHHHcCc---CCCCceEEEcCcchhhcchhHHHHHHHHHHHHhCCCHHHhhcCCcccCchh
Confidence            34689999999999999999997632   2233444443211     1122334455555555332       1122222


Q ss_pred             HHHHHHHHHccCceEEEEEecccc
Q 048765          263 SLLRHIYESIAGKSFLLVLDDVWD  286 (314)
Q Consensus       263 ~~~~~l~~~L~~kr~LlVlDdv~~  286 (314)
                      ...-.|...|.-+.-|+|.|..-+
T Consensus       115 rQRi~IARALal~P~liV~DEpvS  138 (268)
T COG4608         115 RQRIGIARALALNPKLIVADEPVS  138 (268)
T ss_pred             hhhHHHHHHHhhCCcEEEecCchh
Confidence            222334566677888999998643

>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family

Probab=96.40  E-value=0.034  Score=46.73  Aligned_cols=49  Identities=24%  Similarity=0.350  Sum_probs=33.9

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHH
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKA  246 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~  246 (314)
                      +.-.++.|.|.+|+|||+++.+++..  ....=..++|++...+  +..+...
T Consensus        14 ~~g~~~li~G~~G~GKt~~~~~~~~~--~~~~g~~~~y~s~e~~--~~~l~~~   62 (224)
T TIGR03880        14 PEGHVIVVIGEYGTGKTTFSLQFLYQ--GLKNGEKAMYISLEER--EERILGY   62 (224)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH--HHhCCCeEEEEECCCC--HHHHHHH
Confidence            34678999999999999999888753  2122356788887663  4444433

This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.

>PRK03839 putative kinase; Provisional

Probab=96.39  E-value=0.0026  Score=51.55  Aligned_cols=22  Identities=45%  Similarity=0.776  Sum_probs=19.6

Q ss_pred             EEEEEccCCCChHHHHHHhhch
Q 048765          198 IISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .|.|+|++|+||||+++.++..
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~   23 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEK   23 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4889999999999999998773

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

Probab=96.39  E-value=0.0097  Score=48.10  Aligned_cols=22  Identities=41%  Similarity=0.516  Sum_probs=19.7

Q ss_pred             EEEEEccCCCChHHHHHHhhch
Q 048765          198 IISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .|.|.|++|+||||+|+.+...
T Consensus         2 riiilG~pGaGK~T~A~~La~~   23 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKK   23 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999999874

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=96.38  E-value=0.0051  Score=46.97  Aligned_cols=39  Identities=21%  Similarity=0.082  Sum_probs=27.9

Q ss_pred             hHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          177 EKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       177 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      +...+.+.|...-    +.-.++.+.|.-|+||||+++.++..
T Consensus         7 ~t~~l~~~l~~~l----~~~~~i~l~G~lGaGKTtl~~~l~~~   45 (133)
T TIGR00150         7 AMDKFGKAFAKPL----DFGTVVLLKGDLGAGKTTLVQGLLQG   45 (133)
T ss_pred             HHHHHHHHHHHhC----CCCCEEEEEcCCCCCHHHHHHHHHHH
Confidence            4445555554321    23458999999999999999999874

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.

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=96.38  E-value=0.0099  Score=58.16  Aligned_cols=117  Identities=17%  Similarity=0.090  Sum_probs=64.1

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMV  248 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  248 (314)
                      +.++|....+.++.+.+..-.    ..-.-|.|+|..|+||+++|+.+++..  ...-...+.|+|..... ..+...  
T Consensus       325 ~~l~g~s~~~~~~~~~~~~~a----~~~~pvli~Ge~GtGK~~~A~~ih~~s--~r~~~pfv~vnc~~~~~-~~~~~e--  395 (638)
T PRK11388        325 DHMPQDSPQMRRLIHFGRQAA----KSSFPVLLCGEEGVGKALLAQAIHNES--ERAAGPYIAVNCQLYPD-EALAEE--  395 (638)
T ss_pred             cceEECCHHHHHHHHHHHHHh----CcCCCEEEECCCCcCHHHHHHHHHHhC--CccCCCeEEEECCCCCh-HHHHHH--
Confidence            357888888877777665433    123347799999999999999997632  11122345566655432 222122  


Q ss_pred             HHhcCCCCCCCcHHHHHHHHHHHc-cCceEEEEEeccccCCccCHHhHHHhhcc
Q 048765          249 EALDGHESHLGEFQSLLRHIYESI-AGKSFLLVLDDVWDGNYVKWEPFYHCLKN  301 (314)
Q Consensus       249 ~~~~~~~~~~~~~~~~~~~l~~~L-~~kr~LlVlDdv~~~~~~~~~~l~~~l~~  301 (314)
                        +.+....... ..    ....+ ....=.|+||++..........|...+..
T Consensus       396 --lfg~~~~~~~-~~----~~g~~~~a~~GtL~ldei~~l~~~~Q~~Ll~~l~~  442 (638)
T PRK11388        396 --FLGSDRTDSE-NG----RLSKFELAHGGTLFLEKVEYLSPELQSALLQVLKT  442 (638)
T ss_pred             --hcCCCCcCcc-CC----CCCceeECCCCEEEEcChhhCCHHHHHHHHHHHhc
Confidence              2221100000 00    00011 22344699999987655555667777753

>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family

Probab=96.37  E-value=0.0041  Score=50.70  Aligned_cols=21  Identities=24%  Similarity=0.202  Sum_probs=18.6

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ++.|.|+.|.||||+.+.+.-
T Consensus         1 ~~~ltG~N~~GKst~l~~i~~   21 (185)
T smart00534        1 VVIITGPNMGGKSTYLRQVGL   21 (185)
T ss_pred             CEEEECCCCCcHHHHHHHHHH
Confidence            467999999999999999874

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=96.37  E-value=0.0092  Score=53.65  Aligned_cols=106  Identities=13%  Similarity=0.112  Sum_probs=54.8

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHccCc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGK  275 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~k  275 (314)
                      ...+.|.|+.|+||||+.+.+..  .+..+....++. +.++.  +.........+..... ..+.......++..|...
T Consensus       122 ~g~ili~G~tGSGKTT~l~al~~--~i~~~~~~~i~t-iEdp~--E~~~~~~~~~i~q~ev-g~~~~~~~~~l~~~lr~~  195 (343)
T TIGR01420       122 RGLILVTGPTGSGKSTTLASMID--YINKNAAGHIIT-IEDPI--EYVHRNKRSLINQREV-GLDTLSFANALRAALRED  195 (343)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH--hhCcCCCCEEEE-EcCCh--hhhccCccceEEcccc-CCCCcCHHHHHHHhhccC
Confidence            46899999999999999998876  333344444443 22211  1000000000000000 111123445566777888


Q ss_pred             eEEEEEeccccCCccCHHhHHHhhccCCCCceEEEec
Q 048765          276 SFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTT  312 (314)
Q Consensus       276 r~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTt  312 (314)
                      .=.|++|++.+.  +.+...   +.....|..|+.|+
T Consensus       196 pd~i~vgEird~--~~~~~~---l~aa~tGh~v~~T~  227 (343)
T TIGR01420       196 PDVILIGEMRDL--ETVELA---LTAAETGHLVFGTL  227 (343)
T ss_pred             CCEEEEeCCCCH--HHHHHH---HHHHHcCCcEEEEE
Confidence            889999999643  333332   22223455455554

This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.

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

Probab=96.36  E-value=0.0074  Score=58.95  Aligned_cols=44  Identities=23%  Similarity=0.304  Sum_probs=34.9

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +.++||+.+++++++.|....      ...-.++|.+|+|||+++.-++.
T Consensus       170 DPvIGRd~EI~r~iqIL~RR~------KNNPvLiGEpGVGKTAIvEGLA~  213 (786)
T COG0542         170 DPVIGRDEEIRRTIQILSRRT------KNNPVLVGEPGVGKTAIVEGLAQ  213 (786)
T ss_pred             CCCcChHHHHHHHHHHHhccC------CCCCeEecCCCCCHHHHHHHHHH
Confidence            458999999999999998754      22334789999999999865554

>cd03282 ABC_MSH4_euk MutS4 homolog in eukaryotes

Probab=96.36  E-value=0.014  Score=48.30  Aligned_cols=23  Identities=22%  Similarity=0.118  Sum_probs=20.3

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.++.|.|+.|.||||+.+.+..
T Consensus        29 ~~~~~l~G~n~~GKstll~~i~~   51 (204)
T cd03282          29 SRFHIITGPNMSGKSTYLKQIAL   51 (204)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            37899999999999999988864

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

>PF08433 KTI12: Chromatin associated protein KTI12 ; InterPro: IPR013641 This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II []

Probab=96.34  E-value=0.0058  Score=52.84  Aligned_cols=23  Identities=30%  Similarity=0.277  Sum_probs=18.1

Q ss_pred             EEEEEEccCCCChHHHHHHhhch
Q 048765          197 HIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..|.|+|.+|+||||+|+.+...
T Consensus         2 pLiil~G~P~SGKTt~a~~L~~~   24 (270)
T PF08433_consen    2 PLIILCGLPCSGKTTRAKELKKY   24 (270)
T ss_dssp             -EEEEE--TTSSHHHHHHHHHHH
T ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Confidence            47889999999999999999774

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

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=96.30  E-value=0.0063  Score=46.85  Aligned_cols=67  Identities=19%  Similarity=0.278  Sum_probs=37.7

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESI  272 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L  272 (314)
                      ..-|.|.|.+|+|||||+..+..  ..     ..-|+++|.-..-..+....-+..   ....-+.+.+.+.|...+
T Consensus         7 ~PNILvtGTPG~GKstl~~~lae--~~-----~~~~i~isd~vkEn~l~~gyDE~y---~c~i~DEdkv~D~Le~~m   73 (176)
T KOG3347|consen    7 RPNILVTGTPGTGKSTLAERLAE--KT-----GLEYIEISDLVKENNLYEGYDEEY---KCHILDEDKVLDELEPLM   73 (176)
T ss_pred             CCCEEEeCCCCCCchhHHHHHHH--Hh-----CCceEehhhHHhhhcchhcccccc---cCccccHHHHHHHHHHHH
Confidence            45788999999999999998875  21     134666665333222221111111   122334555566665555

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=96.30  E-value=0.0078  Score=45.22  Aligned_cols=51  Identities=16%  Similarity=0.300  Sum_probs=35.0

Q ss_pred             cccccchhhHHHHHHHhhcc-CcCCCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          169 EEICGRVGEKNELLSKLLCE-SSEQQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~-~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..++|..-..+.+++.+..- .+..+.++-|++.+|..|+|||.+++.+++.
T Consensus        25 ~~l~GQhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~~   76 (127)
T PF06309_consen   25 RNLFGQHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAEH   76 (127)
T ss_pred             HHccCcHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHHH
Confidence            35677655555554444321 1113477889999999999999999988775

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

>PRK10875 recD exonuclease V subunit alpha; Provisional

Probab=96.29  E-value=0.029  Score=54.16  Aligned_cols=53  Identities=17%  Similarity=0.056  Sum_probs=34.1

Q ss_pred             EEEEEEccCCCChHHHHHHhhchHhh-hhcCceeEEEEcCccccHHHHHHHHHH
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHEEV-IRKFDKILWVCVSETFEEFRVAKAMVE  249 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~~~-~~~F~~~~wv~~~~~~~~~~~~~~i~~  249 (314)
                      ++..|.|.+|+||||++..+...... ...-...+.+..+..-....+...+..
T Consensus       168 ~~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~~  221 (615)
T PRK10875        168 RISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESLGK  221 (615)
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHHh
Confidence            58889999999999999888763211 111124566666665555555555544

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=96.29  E-value=0.017  Score=46.36  Aligned_cols=24  Identities=29%  Similarity=0.451  Sum_probs=21.3

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      -.++.|.|+.|+|||||++.++.+
T Consensus         4 G~l~vlsgPSG~GKsTl~k~L~~~   27 (191)
T COG0194           4 GLLIVLSGPSGVGKSTLVKALLED   27 (191)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhh
Confidence            467889999999999999999874

>PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model

Probab=96.27  E-value=0.0036  Score=47.23  Aligned_cols=40  Identities=23%  Similarity=0.380  Sum_probs=21.9

Q ss_pred             EEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHH
Q 048765          199 ISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRV  243 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~  243 (314)
                      +.|+|.+|+|||++|+.+..  .....|..   |.+..+..+.++
T Consensus         2 vLleg~PG~GKT~la~~lA~--~~~~~f~R---Iq~tpdllPsDi   41 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKALAR--SLGLSFKR---IQFTPDLLPSDI   41 (131)
T ss_dssp             EEEES---HHHHHHHHHHHH--HTT--EEE---EE--TT--HHHH
T ss_pred             EeeECCCccHHHHHHHHHHH--HcCCceeE---EEecCCCCcccc
Confidence            57899999999999999987  55566743   333444444443

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.

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=96.26  E-value=0.044  Score=48.60  Aligned_cols=26  Identities=31%  Similarity=0.441  Sum_probs=22.6

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchH
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHE  220 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~  220 (314)
                      ...++.++|++|+||||++..++...
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~~l  138 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAHKY  138 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            46899999999999999999887643

>TIGR01069 mutS2 MutS2 family protein

Probab=96.25  E-value=0.16  Score=50.55  Aligned_cols=28  Identities=18%  Similarity=0.197  Sum_probs=23.4

Q ss_pred             CChHHHHHHHHHHHhhhhhhhhHHHHHH
Q 048765           58 KEESVRVWLGRLKDVSYDIEDVLDEWIT   85 (314)
Q Consensus        58 ~~~~~~~wl~~lr~~ayd~eD~ld~~~~   85 (314)
                      .++.+..+.++++.+-.++.+.++.+..
T Consensus       144 aS~~L~~ir~~~~~~~~~i~~~l~~~~~  171 (771)
T TIGR01069       144 ASEELDAIRESLKALEEEVVKRLHKIIR  171 (771)
T ss_pred             cCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3578899999999999999888888764

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.

>PRK04040 adenylate kinase; Provisional

Probab=96.24  E-value=0.0038  Score=51.02  Aligned_cols=23  Identities=30%  Similarity=0.635  Sum_probs=20.7

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..+|.|+|++|+||||+++.+..
T Consensus         2 ~~~i~v~G~pG~GKtt~~~~l~~   24 (188)
T PRK04040          2 MKVVVVTGVPGVGKTTVLNKALE   24 (188)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHH
Confidence            36899999999999999998876

>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR

Probab=96.24  E-value=0.015  Score=55.25  Aligned_cols=120  Identities=15%  Similarity=0.109  Sum_probs=64.9

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMV  248 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  248 (314)
                      ..++|....+..+.+.+..-.    ..-.-|.|.|..|+||+++|+.+++..  ...-.+.+-|+|....  +..+.   
T Consensus       212 ~~iiG~S~~m~~~~~~i~~~A----~~~~pVLI~GE~GTGKe~lA~~IH~~S--~r~~~pfv~inC~~l~--e~lle---  280 (526)
T TIGR02329       212 DDLLGASAPMEQVRALVRLYA----RSDATVLILGESGTGKELVAQAIHQLS--GRRDFPFVAINCGAIA--ESLLE---  280 (526)
T ss_pred             hheeeCCHHHHHHHHHHHHHh----CCCCcEEEECCCCcCHHHHHHHHHHhc--CcCCCCEEEeccccCC--hhHHH---
Confidence            358999888888887765322    234578899999999999999998632  1111233455665432  12222   


Q ss_pred             HHhcCCCC-CCCcHH-HHHHHHHHHccCceEEEEEeccccCCccCHHhHHHhhcc
Q 048765          249 EALDGHES-HLGEFQ-SLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKN  301 (314)
Q Consensus       249 ~~~~~~~~-~~~~~~-~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~  301 (314)
                      ..+.+... ...... .-...+.+  ....=.|+||++..........|...+..
T Consensus       281 seLFG~~~gaftga~~~~~~Gl~e--~A~gGTLfLdeI~~Lp~~~Q~~Ll~~L~~  333 (526)
T TIGR02329       281 AELFGYEEGAFTGARRGGRTGLIE--AAHRGTLFLDEIGEMPLPLQTRLLRVLEE  333 (526)
T ss_pred             HHhcCCcccccccccccccccchh--hcCCceEEecChHhCCHHHHHHHHHHHhc
Confidence            12222110 000000 00000000  12344689999987654455567777653

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.

>TIGR00041 DTMP_kinase thymidylate kinase

Probab=96.22  E-value=0.026  Score=46.15  Aligned_cols=24  Identities=42%  Similarity=0.448  Sum_probs=21.3

Q ss_pred             EEEEEEccCCCChHHHHHHhhchH
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHE  220 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~  220 (314)
                      ..|+|.|..|+||||+++.+....
T Consensus         4 ~~IvieG~~GsGKsT~~~~L~~~l   27 (195)
T TIGR00041         4 MFIVIEGIDGAGKTTQANLLKKLL   27 (195)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            579999999999999999998743

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.

>PRK11823 DNA repair protein RadA; Provisional

Probab=96.21  E-value=0.05  Score=50.69  Aligned_cols=85  Identities=25%  Similarity=0.242  Sum_probs=51.2

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCC-----CCCcHHHHHHHH
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHES-----HLGEFQSLLRHI  268 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~-----~~~~~~~~~~~l  268 (314)
                      ..-.++.|.|.+|+|||||+.+++....  ..-..++|++..+..  ..+... ++.++....     ...+...+.+.+
T Consensus        78 ~~Gs~~lI~G~pG~GKTtL~lq~a~~~a--~~g~~vlYvs~Ees~--~qi~~r-a~rlg~~~~~l~~~~e~~l~~i~~~i  152 (446)
T PRK11823         78 VPGSVVLIGGDPGIGKSTLLLQVAARLA--AAGGKVLYVSGEESA--SQIKLR-AERLGLPSDNLYLLAETNLEAILATI  152 (446)
T ss_pred             cCCEEEEEECCCCCCHHHHHHHHHHHHH--hcCCeEEEEEccccH--HHHHHH-HHHcCCChhcEEEeCCCCHHHHHHHH
Confidence            3456899999999999999999977432  223457888765533  333222 344443211     123344444444


Q ss_pred             HHHccCceEEEEEecccc
Q 048765          269 YESIAGKSFLLVLDDVWD  286 (314)
Q Consensus       269 ~~~L~~kr~LlVlDdv~~  286 (314)
                      .+   .+.-+||+|.+..
T Consensus       153 ~~---~~~~lVVIDSIq~  167 (446)
T PRK11823        153 EE---EKPDLVVIDSIQT  167 (446)
T ss_pred             Hh---hCCCEEEEechhh
Confidence            32   3556899999853

>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

Probab=96.20  E-value=0.0041  Score=58.15  Aligned_cols=135  Identities=13%  Similarity=0.235  Sum_probs=75.5

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhh--hcCceeEEEEcCccccHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVI--RKFDKILWVCVSETFEEFRVAKA  246 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~--~~F~~~~wv~~~~~~~~~~~~~~  246 (314)
                      ++++|.+.-...|...+....     -..--...|+.|+||||+|+-++.-.--.  .+.+     .|.+......+...
T Consensus        16 ~evvGQe~v~~~L~nal~~~r-----i~hAYlfsG~RGvGKTt~Ari~AkalNC~~~~~~e-----PC~~C~~Ck~I~~g   85 (515)
T COG2812          16 DDVVGQEHVVKTLSNALENGR-----IAHAYLFSGPRGVGKTTIARILAKALNCENGPTAE-----PCGKCISCKEINEG   85 (515)
T ss_pred             HHhcccHHHHHHHHHHHHhCc-----chhhhhhcCCCCcCchhHHHHHHHHhcCCCCCCCC-----cchhhhhhHhhhcC
Confidence            457999888888888887643     23445678999999999998876521100  1111     11111111111000


Q ss_pred             -HHHHhc---CCCCCCCcHHHHHHHHHHH-ccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEecc
Q 048765          247 -MVEALD---GHESHLGEFQSLLRHIYES-IAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTR  313 (314)
Q Consensus       247 -i~~~~~---~~~~~~~~~~~~~~~l~~~-L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR  313 (314)
                       ...-+.   ......++++++.+.+... .+++--+.|||+|.-.....|+.|...|..-+.+-+.|+.|.
T Consensus        86 ~~~DviEiDaASn~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIlATT  157 (515)
T COG2812          86 SLIDVIEIDAASNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATT  157 (515)
T ss_pred             CcccchhhhhhhccChHHHHHHHHHhccCCccccceEEEEecHHhhhHHHHHHHhcccccCccCeEEEEecC
Confidence             000000   0011233444444444322 245666899999976666788998888876666666666654

>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1)

Probab=96.20  E-value=0.07  Score=44.17  Aligned_cols=23  Identities=39%  Similarity=0.404  Sum_probs=20.4

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|..|+|||||.+.+..
T Consensus        34 G~~~~i~G~nGsGKSTLl~~l~G   56 (207)
T cd03369          34 GEKIGIVGRTGAGKSTLILALFR   56 (207)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            45899999999999999998864

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.

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=96.19  E-value=0.0032  Score=51.88  Aligned_cols=21  Identities=48%  Similarity=0.599  Sum_probs=19.2

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +|+|.|..|+|||||++.+..
T Consensus         1 iigi~G~~GsGKSTl~~~l~~   21 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIE   21 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998866

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.

>PRK00625 shikimate kinase; Provisional

Probab=96.19  E-value=0.004  Score=50.11  Aligned_cols=21  Identities=24%  Similarity=0.455  Sum_probs=19.0

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .|.++||+|+||||+++.+..
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~   22 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAK   22 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999998866

>PRK12597 F0F1 ATP synthase subunit beta; Provisional

Probab=96.19  E-value=0.03  Score=51.99  Aligned_cols=89  Identities=18%  Similarity=0.088  Sum_probs=55.3

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccc-cHHHHHHHHHHHhcCC-------CCCCCcH-----
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETF-EEFRVAKAMVEALDGH-------ESHLGEF-----  261 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~~~~~-------~~~~~~~-----  261 (314)
                      +-.-++|+|.+|+|||||+.++..+... .+-+.++++-+.+.. .+.++...+...-...       ..+....     
T Consensus       142 kGQR~gIfa~~G~GKt~Ll~~~~~~~~~-~~~dv~V~~liGER~rEv~ef~~~~~~~~~l~rsvvv~atsd~~~~~R~~a  220 (461)
T PRK12597        142 KGGKTGLFGGAGVGKTVLMMELIFNISK-QHSGSSVFAGVGERSREGHELYHEMKESGVLDKTVMVYGQMNEPPGARMRV  220 (461)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHHHHh-hCCCEEEEEcCCcchHHHHHHHHHHHhcCCcceeEEEecCCCCCHHHHHHH
Confidence            3457899999999999999888875432 256888888776644 3345555554431111       0011111     


Q ss_pred             HHHHHHHHHHc--c-CceEEEEEecc
Q 048765          262 QSLLRHIYESI--A-GKSFLLVLDDV  284 (314)
Q Consensus       262 ~~~~~~l~~~L--~-~kr~LlVlDdv  284 (314)
                      ....-.+.+++  + ++..||++|++
T Consensus       221 ~~~a~tiAEyfrd~~G~~VLl~~Dsl  246 (461)
T PRK12597        221 VLTGLTIAEYLRDEEKEDVLLFIDNI  246 (461)
T ss_pred             HHHHHHHHHHHHHhcCCceEEEeccc
Confidence            12223355665  3 89999999999

>cd03287 ABC_MSH3_euk MutS3 homolog in eukaryotes

Probab=96.19  E-value=0.032  Score=46.84  Aligned_cols=23  Identities=17%  Similarity=-0.016  Sum_probs=20.3

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.++.|.|+.|.||||+.+.+..
T Consensus        31 g~~~~itG~N~~GKStll~~i~~   53 (222)
T cd03287          31 GYCQIITGPNMGGKSSYIRQVAL   53 (222)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            46788999999999999988865

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

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=96.16  E-value=0.0034  Score=50.95  Aligned_cols=21  Identities=24%  Similarity=0.358  Sum_probs=19.0

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +|.|+|++|+||||+++.+..
T Consensus         1 ~i~i~G~pGsGKst~a~~la~   21 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVE   21 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            578999999999999998866

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.

>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.16  E-value=0.24  Score=42.94  Aligned_cols=97  Identities=22%  Similarity=0.358  Sum_probs=57.2

Q ss_pred             cccccchhhHHHHHHHhhccCc------CCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESS------EQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFR  242 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~------~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~  242 (314)
                      +++.|-+...+.|.+...-.-.      ++....+-|.++|++|.||+.||+.|+..  ...     -|+++|..     
T Consensus       133 sDVAGLE~AKeALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLAKAVATE--AnS-----TFFSvSSS-----  200 (439)
T KOG0739|consen  133 SDVAGLEGAKEALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLAKAVATE--ANS-----TFFSVSSS-----  200 (439)
T ss_pred             hhhccchhHHHHHHhheeecccchhhhcCCCCcceeEEEeCCCCCcHHHHHHHHHhh--cCC-----ceEEeehH-----
Confidence            3466777777766654221100      01244788999999999999999999873  222     23344332     


Q ss_pred             HHHHHHHHhcCCCCCCCcHHHHHHHHHHHc-cCceEEEEEecccc
Q 048765          243 VAKAMVEALDGHESHLGEFQSLLRHIYESI-AGKSFLLVLDDVWD  286 (314)
Q Consensus       243 ~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L-~~kr~LlVlDdv~~  286 (314)
                         .+++.+.+      +.+.++..|.+.- ++|..+|++|.|+.
T Consensus       201 ---DLvSKWmG------ESEkLVknLFemARe~kPSIIFiDEiDs  236 (439)
T KOG0739|consen  201 ---DLVSKWMG------ESEKLVKNLFEMARENKPSIIFIDEIDS  236 (439)
T ss_pred             ---HHHHHHhc------cHHHHHHHHHHHHHhcCCcEEEeehhhh
Confidence               22222221      2233444454443 67889999999854

>PRK00131 aroK shikimate kinase; Reviewed

Probab=96.15  E-value=0.0043  Score=49.72  Aligned_cols=23  Identities=30%  Similarity=0.491  Sum_probs=20.9

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ...|.|+|++|+||||+|+.+..
T Consensus         4 ~~~i~l~G~~GsGKstla~~La~   26 (175)
T PRK00131          4 GPNIVLIGFMGAGKSTIGRLLAK   26 (175)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHH
Confidence            45899999999999999999876

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=96.12  E-value=0.019  Score=52.34  Aligned_cols=51  Identities=22%  Similarity=0.262  Sum_probs=36.1

Q ss_pred             cccccchhhHHHHHHHhhcc--------CcCCCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          169 EEICGRVGEKNELLSKLLCE--------SSEQQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~--------~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..++|.++..+.+.-.+...        .-......+.|.++|++|+|||++|+.+...
T Consensus        12 ~~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~   70 (441)
T TIGR00390        12 KYIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKL   70 (441)
T ss_pred             hhccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHH
Confidence            45888888888776555531        0001123467889999999999999999773

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.

>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=96.12  E-value=0.019  Score=45.30  Aligned_cols=110  Identities=15%  Similarity=0.162  Sum_probs=54.8

Q ss_pred             EEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCcccc--HHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHccC
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFE--EFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAG  274 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~--~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~  274 (314)
                      .+++|+|..|.|||||.+.+....   ......++++-.....  ...    ....+.-...-.......+ .+...+..
T Consensus        26 ~~~~i~G~nGsGKStll~~l~g~~---~~~~G~i~~~~~~~~~~~~~~----~~~~i~~~~qlS~G~~~r~-~l~~~l~~   97 (157)
T cd00267          26 EIVALVGPNGSGKSTLLRAIAGLL---KPTSGEILIDGKDIAKLPLEE----LRRRIGYVPQLSGGQRQRV-ALARALLL   97 (157)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC---CCCccEEEECCEEcccCCHHH----HHhceEEEeeCCHHHHHHH-HHHHHHhc
Confidence            689999999999999999997632   2334455553221110  111    1111111000111112222 23344445


Q ss_pred             ceEEEEEecccc-CCccCHHhHHHhhccC-CCCceEEEeccC
Q 048765          275 KSFLLVLDDVWD-GNYVKWEPFYHCLKNG-LHGSKILVTTRK  314 (314)
Q Consensus       275 kr~LlVlDdv~~-~~~~~~~~l~~~l~~~-~~gs~iivTtR~  314 (314)
                      ..-++++|+.-. .|......+...+... ..+..+|++|.+
T Consensus        98 ~~~i~ilDEp~~~lD~~~~~~l~~~l~~~~~~~~tii~~sh~  139 (157)
T cd00267          98 NPDLLLLDEPTSGLDPASRERLLELLRELAEEGRTVIIVTHD  139 (157)
T ss_pred             CCCEEEEeCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCC
Confidence            577888998743 2222334454444321 224567877753

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.

>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR)

Probab=96.12  E-value=0.044  Score=44.97  Aligned_cols=23  Identities=30%  Similarity=0.452  Sum_probs=20.8

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|.|+.|.|||||.+.+..
T Consensus        35 Ge~~~l~G~nGsGKStLl~~i~G   57 (194)
T cd03213          35 GELTAIMGPSGAGKSTLLNALAG   57 (194)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhC
Confidence            46899999999999999998876

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.

>PRK06002 fliI flagellum-specific ATP synthase; Validated

Probab=96.11  E-value=0.032  Score=51.51  Aligned_cols=86  Identities=19%  Similarity=0.155  Sum_probs=47.0

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCC------CCCCCcH-----HHH
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGH------ESHLGEF-----QSL  264 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~------~~~~~~~-----~~~  264 (314)
                      -..++|+|..|+|||||++.+....   .....++++.-........+....+......      ..+....     ...
T Consensus       165 Gqri~I~G~SGsGKTTLL~~Ia~l~---~pd~gvv~liGergrev~e~~~~~l~~~r~rtI~vV~qsd~~~~~r~~~~~~  241 (450)
T PRK06002        165 GQRIGIFAGSGVGKSTLLAMLARAD---AFDTVVIALVGERGREVREFLEDTLADNLKKAVAVVATSDESPMMRRLAPLT  241 (450)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCC---CCCeeeeeecccCCccHHHHhHHHHHHhhCCeEEEEEcCCCCHHHHHHHHHH
Confidence            4578999999999999998886532   1223444443222334444433333322110      1111111     112


Q ss_pred             HHHHHHHc--cCceEEEEEecc
Q 048765          265 LRHIYESI--AGKSFLLVLDDV  284 (314)
Q Consensus       265 ~~~l~~~L--~~kr~LlVlDdv  284 (314)
                      .-.+.+++  +++..|+++||+
T Consensus       242 a~~iAEyfrd~G~~Vll~~Dsl  263 (450)
T PRK06002        242 ATAIAEYFRDRGENVLLIVDSV  263 (450)
T ss_pred             HHHHHHHHHHcCCCEEEeccch
Confidence            22344555  689999999999

>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=96.10  E-value=0.031  Score=46.57  Aligned_cols=84  Identities=25%  Similarity=0.292  Sum_probs=49.8

Q ss_pred             EEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccc-cHHHHHHHHHHHhcCC-------CCC-CCcHH----H
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETF-EEFRVAKAMVEALDGH-------ESH-LGEFQ----S  263 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~~~~~-------~~~-~~~~~----~  263 (314)
                      .-+.|+|.+|+|||+|+..+.++..    -+..+++-+.+.. ...++.+.+...-...       ..+ ....+    .
T Consensus        16 qr~~I~g~~g~GKt~Ll~~i~~~~~----~d~~V~~~iGer~~Ev~~~~~~~~~~~~~~~t~vv~~t~~~~~~~r~~~~~   91 (215)
T PF00006_consen   16 QRIGIFGGAGVGKTVLLQEIANNQD----ADVVVYALIGERGREVTEFIEELKGEGALERTVVVAATSDEPPAARYRAPY   91 (215)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHCT----TTEEEEEEESECHHHHHHHHHHHHHTTGGGGEEEEEEETTS-HHHHHHHHH
T ss_pred             CEEEEEcCcccccchhhHHHHhccc----ccceeeeeccccchhHHHHHHHHhhcccccccccccccchhhHHHHhhhhc
Confidence            5788999999999999999987432    3445788887653 4445555553321000       011 11111    1


Q ss_pred             HHHHHHHHc--cCceEEEEEecc
Q 048765          264 LLRHIYESI--AGKSFLLVLDDV  284 (314)
Q Consensus       264 ~~~~l~~~L--~~kr~LlVlDdv  284 (314)
                      ..-.+.+++  +++..|+++||+
T Consensus        92 ~a~t~AEyfrd~G~dVlli~Dsl  114 (215)
T PF00006_consen   92 TALTIAEYFRDQGKDVLLIIDSL  114 (215)
T ss_dssp             HHHHHHHHHHHTTSEEEEEEETH
T ss_pred             cchhhhHHHhhcCCceeehhhhh
Confidence            112223333  799999999999

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 ....

>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases

Probab=96.10  E-value=0.0048  Score=45.99  Aligned_cols=22  Identities=41%  Similarity=0.770  Sum_probs=19.5

Q ss_pred             EEEEccCCCChHHHHHHhhchH
Q 048765          199 ISIVGMGGIGKTTLAQLACNHE  220 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~~~  220 (314)
                      |.|+|..|+|||||.+.+....
T Consensus         2 I~V~G~~g~GKTsLi~~l~~~~   23 (119)
T PF08477_consen    2 IVVLGDSGVGKTSLIRRLCGGE   23 (119)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEECcCCCCHHHHHHHHhcCC
Confidence            6899999999999999998643

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.

>TIGR03522 GldA_ABC_ATP gliding motility-associated ABC transporter ATP-binding subunit GldA

Probab=96.09  E-value=0.059  Score=47.50  Aligned_cols=23  Identities=26%  Similarity=0.466  Sum_probs=20.6

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|.|||||.+.+..
T Consensus        28 Gei~~l~G~NGaGKTTLl~~l~G   50 (301)
T TIGR03522        28 GRIVGFLGPNGAGKSTTMKIITG   50 (301)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhC
Confidence            45899999999999999998865

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.

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=96.08  E-value=0.0049  Score=49.82  Aligned_cols=23  Identities=39%  Similarity=0.564  Sum_probs=20.0

Q ss_pred             EEEEEEccCCCChHHHHHHhhch
Q 048765          197 HIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .++.|+|+.|+|||||++.+...
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~   24 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARAR   24 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            37899999999999999988663

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.

>PF13245 AAA_19: Part of AAA domain

Probab=96.07  E-value=0.02  Score=39.22  Aligned_cols=22  Identities=27%  Similarity=0.341  Sum_probs=16.3

Q ss_pred             EEEEEEccCCCChHHHH-HHhhc
Q 048765          197 HIISIVGMGGIGKTTLA-QLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa-~~v~~  218 (314)
                      +++.|.|++|+|||+++ +.+..
T Consensus        11 ~~~vv~g~pGtGKT~~~~~~i~~   33 (76)
T PF13245_consen   11 PLFVVQGPPGTGKTTTLAARIAE   33 (76)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            46778999999999554 44444

>PRK07594 type III secretion system ATPase SsaN; Validated

Probab=96.05  E-value=0.039  Score=50.77  Aligned_cols=86  Identities=22%  Similarity=0.268  Sum_probs=49.1

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCcc-ccHHHHHHHHHHHhcCC-------CCCCCcHH----
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSET-FEEFRVAKAMVEALDGH-------ESHLGEFQ----  262 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~-~~~~~~~~~i~~~~~~~-------~~~~~~~~----  262 (314)
                      .-..++|+|..|+|||||.+.+....    +.+..++.-+.+. ....+++.+....-...       ..+.....    
T Consensus       154 ~GqrigI~G~sG~GKSTLL~~I~~~~----~~d~~vi~~iGeRgrEv~efl~~~~~~~~~~rtv~vv~tsd~p~~~r~~a  229 (433)
T PRK07594        154 EGQRVGIFSAPGVGKSTLLAMLCNAP----DADSNVLVLIGERGREVREFIDFTLSEETRKRCVIVVATSDRPALERVRA  229 (433)
T ss_pred             CCCEEEEECCCCCCccHHHHHhcCCC----CCCEEEEEEECCCchHHHHHHHHhhccCCcceEEEEEECCCCCHHHHHHH
Confidence            34588999999999999999887632    3444555555443 33334444433210000       00111111    


Q ss_pred             -HHHHHHHHHc--cCceEEEEEecc
Q 048765          263 -SLLRHIYESI--AGKSFLLVLDDV  284 (314)
Q Consensus       263 -~~~~~l~~~L--~~kr~LlVlDdv  284 (314)
                       ...-.+.+++  +++..||++||+
T Consensus       230 ~~~a~tiAEyfrd~G~~VLl~~Dsl  254 (433)
T PRK07594        230 LFVATTIAEFFRDNGKRVVLLADSL  254 (433)
T ss_pred             HHHHHHHHHHHHHCCCcEEEEEeCH
Confidence             1122344555  689999999999

>TIGR00416 sms DNA repair protein RadA

Probab=96.05  E-value=0.056  Score=50.45  Aligned_cols=85  Identities=22%  Similarity=0.201  Sum_probs=49.4

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCC-----CCCcHHHHHHHH
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHES-----HLGEFQSLLRHI  268 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~-----~~~~~~~~~~~l  268 (314)
                      ..-.++.|.|.+|+|||||+.++.....  ..-..++|++..+.  ...+... +..++....     ...+...+...+
T Consensus        92 ~~GsvilI~G~pGsGKTTL~lq~a~~~a--~~g~kvlYvs~EEs--~~qi~~r-a~rlg~~~~~l~~~~e~~~~~I~~~i  166 (454)
T TIGR00416        92 VPGSLILIGGDPGIGKSTLLLQVACQLA--KNQMKVLYVSGEES--LQQIKMR-AIRLGLPEPNLYVLSETNWEQICANI  166 (454)
T ss_pred             cCCeEEEEEcCCCCCHHHHHHHHHHHHH--hcCCcEEEEECcCC--HHHHHHH-HHHcCCChHHeEEcCCCCHHHHHHHH
Confidence            4567899999999999999999866332  22235778876543  2333221 223332211     122344444444


Q ss_pred             HHHccCceEEEEEecccc
Q 048765          269 YESIAGKSFLLVLDDVWD  286 (314)
Q Consensus       269 ~~~L~~kr~LlVlDdv~~  286 (314)
                      .+   .+.-++|+|.+..
T Consensus       167 ~~---~~~~~vVIDSIq~  181 (454)
T TIGR00416       167 EE---ENPQACVIDSIQT  181 (454)
T ss_pred             Hh---cCCcEEEEecchh
Confidence            32   3556899999853

The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).

>TIGR01447 recD exodeoxyribonuclease V, alpha subunit

Probab=96.05  E-value=0.041  Score=52.99  Aligned_cols=52  Identities=17%  Similarity=0.036  Sum_probs=30.9

Q ss_pred             EEEEEEccCCCChHHHHHHhhchHhhhhcC--ceeEEEEcCccccHHHHHHHHH
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHEEVIRKF--DKILWVCVSETFEEFRVAKAMV  248 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F--~~~~wv~~~~~~~~~~~~~~i~  248 (314)
                      ++..|.|.+|+||||++..+..-......-  ...+-+.....-....+...+.
T Consensus       161 ~~~vitGgpGTGKTt~v~~ll~~l~~~~~~~~~~~I~l~APTGkAA~rL~e~~~  214 (586)
T TIGR01447       161 NFSLITGGPGTGKTTTVARLLLALVKQSPKQGKLRIALAAPTGKAAARLAESLR  214 (586)
T ss_pred             CeEEEEcCCCCCHHHHHHHHHHHHHHhccccCCCcEEEECCcHHHHHHHHHHHH
Confidence            588899999999999998887632211111  1345555554444444444443

This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. A related family in the Gram-positive bacteria separates in a phylogenetic tree, has an additional N-terminal extension of about 200 residues, and is not supported as a member of a RecBCD complex by neighboring genes. The related family is consequently described by a different model.

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=96.05  E-value=0.0082  Score=48.78  Aligned_cols=37  Identities=32%  Similarity=0.408  Sum_probs=28.2

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCV  234 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~  234 (314)
                      .+++.|+|+.|+|||||++.+..  .....|...++.+.
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~--~~~~~~~~~v~~TT   38 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQ--EFPDKFGRVVSHTT   38 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHH--HSTTTEEEEEEEES
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH--hcccccccceeecc
Confidence            46889999999999999999987  44456755555443

7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....

>PRK08972 fliI flagellum-specific ATP synthase; Validated

Probab=96.05  E-value=0.044  Score=50.43  Aligned_cols=85  Identities=18%  Similarity=0.191  Sum_probs=50.5

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccH-HHHHHHHHHHhcCC-------CCCCCcH-----H
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEE-FRVAKAMVEALDGH-------ESHLGEF-----Q  262 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~-~~~~~~i~~~~~~~-------~~~~~~~-----~  262 (314)
                      -..++|+|..|+|||||++.+...    ...+.++.+-+.+..+. .++...++..-...       ..+....     .
T Consensus       162 GqrigI~G~sG~GKSTLL~~I~~~----~~~dv~Vi~lIGER~rEv~efi~~~l~~~~l~rtvvv~atsd~p~~~R~~a~  237 (444)
T PRK08972        162 GQRMGLFAGSGVGKSVLLGMMTRG----TTADVIVVGLVGERGREVKEFIEEILGEEGRARSVVVAAPADTSPLMRLKGC  237 (444)
T ss_pred             CCEEEEECCCCCChhHHHHHhccC----CCCCEEEEEEEcCChHHHHHHHHHhhccCCcccEEEEEECCCCCHHHHHHHH
Confidence            457899999999999999988762    12355666666654433 44555544331111       0011111     1


Q ss_pred             HHHHHHHHHc--cCceEEEEEecc
Q 048765          263 SLLRHIYESI--AGKSFLLVLDDV  284 (314)
Q Consensus       263 ~~~~~l~~~L--~~kr~LlVlDdv  284 (314)
                      ...-.+.+++  +++..|+++||+
T Consensus       238 ~~A~tiAEyfrd~G~~VLl~~Dsl  261 (444)
T PRK08972        238 ETATTIAEYFRDQGLNVLLLMDSL  261 (444)
T ss_pred             HHHHHHHHHHHHcCCCEEEEEcCh
Confidence            1222344555  689999999999

>TIGR03263 guanyl_kin guanylate kinase

Probab=96.04  E-value=0.0052  Score=49.66  Aligned_cols=22  Identities=36%  Similarity=0.570  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +++.|+|+.|+|||||++.++.
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~   23 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLE   23 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHc
Confidence            4789999999999999999977

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.

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=96.04  E-value=0.007  Score=46.87  Aligned_cols=39  Identities=23%  Similarity=0.280  Sum_probs=27.4

Q ss_pred             EEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCc
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSE  236 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~  236 (314)
                      ++|.|+|..|+|||||++.+.+... +..+...+..+...
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~l~-~~g~~v~~ik~~~~   39 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINELK-RRGYRVAVIKHTDH   39 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHHH-HTT--EEEEEE-ST
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHh-HcCCceEEEEEccC
Confidence            4799999999999999999998432 24455565666554

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=96.03  E-value=0.0051  Score=50.27  Aligned_cols=24  Identities=50%  Similarity=0.636  Sum_probs=21.5

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..+|+|-||-|+||||||+.+.+.
T Consensus         4 ~~~IvI~G~IG~GKSTLa~~La~~   27 (216)
T COG1428           4 AMVIVIEGMIGAGKSTLAQALAEH   27 (216)
T ss_pred             ccEEEEecccccCHHHHHHHHHHH
Confidence            578999999999999999998763

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=96.02  E-value=0.043  Score=49.55  Aligned_cols=23  Identities=35%  Similarity=0.494  Sum_probs=18.6

Q ss_pred             CeEEEEEEccCCCChHHHHHHhh
Q 048765          195 GLHIISIVGMGGIGKTTLAQLAC  217 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~  217 (314)
                      +-+++++||+.|+||||-..+++
T Consensus       202 ~~~vi~LVGPTGVGKTTTlAKLA  224 (407)
T COG1419         202 QKRVIALVGPTGVGKTTTLAKLA  224 (407)
T ss_pred             cCcEEEEECCCCCcHHHHHHHHH
Confidence            47899999999999987654443

>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs

Probab=96.01  E-value=0.018  Score=46.73  Aligned_cols=44  Identities=23%  Similarity=0.180  Sum_probs=30.0

Q ss_pred             EEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHH
Q 048765          199 ISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKA  246 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~  246 (314)
                      +.|.|++|+|||+|+.++....-  ..=..++|++....  ...+...
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~~~--~~g~~v~~~s~e~~--~~~~~~~   45 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGL--ARGEPGLYVTLEES--PEELIEN   45 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHH--HCCCcEEEEECCCC--HHHHHHH
Confidence            57899999999999998866322  22356778877543  4444433

A related protein is found in archaea.

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=96.01  E-value=0.0052  Score=49.54  Aligned_cols=22  Identities=27%  Similarity=0.397  Sum_probs=20.1

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ++|.+.|++|+||||+|+.+..
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~   24 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQS   24 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999999876

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component

Probab=96.00  E-value=0.034  Score=45.82  Aligned_cols=24  Identities=33%  Similarity=0.513  Sum_probs=21.3

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      -.+++|+|..|.|||||.+.+...
T Consensus        26 Ge~~~i~G~nGsGKStLl~~l~G~   49 (200)
T cd03217          26 GEVHALMGPNGSGKSTLAKTIMGH   49 (200)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            469999999999999999988764

Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under stressful conditions. The SUF system is made of six proteins: SufC is an atypical cytoplasmic ABC-ATPase, which forms a complex with SufB and SufD; SufA plays the role of a scaffold protein for assembly of iron-sulfur clusters and delivery to target proteins; SufS is a cysteine desulfurase which mobilizes the sulfur atom from cysteine and provides it to the cluster; SufE has no associated function yet.

>cd01135 V_A-ATPase_B V/A-type ATP synthase (non-catalytic) subunit B

Probab=96.00  E-value=0.042  Score=47.33  Aligned_cols=90  Identities=17%  Similarity=0.117  Sum_probs=54.0

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhh--hhcCceeEEEEcCcccc-HHHHHHHHHHHhcCCC--------CCCCcH---
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEV--IRKFDKILWVCVSETFE-EFRVAKAMVEALDGHE--------SHLGEF---  261 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~--~~~F~~~~wv~~~~~~~-~~~~~~~i~~~~~~~~--------~~~~~~---  261 (314)
                      -.-++|.|-.|+|||+|+..+.++...  +++-+.++++-+.+... ..++...+...-....        ....-.   
T Consensus        69 GQR~gIfgg~GvGKt~L~~~i~~~~~~~~~~~~~v~V~~~IGeR~rev~e~~~~~~~~~~l~~tv~v~~t~~~~~~~r~~  148 (276)
T cd01135          69 GQKIPIFSGSGLPHNELAAQIARQAGVVGEEENFAVVFAAMGITMEDARFFKDDFEETGALERVVLFLNLANDPTIERII  148 (276)
T ss_pred             CCEEEeecCCCCChhHHHHHHHHhhhccccCCCCEEEEEEeccccHHHHHHHHHhhhcCCcceEEEEEecCCCCHHHHHH
Confidence            456799999999999999988775431  12347788888877543 3455555544311110        011101   


Q ss_pred             -HHHHHHHHHHc--c-CceEEEEEeccc
Q 048765          262 -QSLLRHIYESI--A-GKSFLLVLDDVW  285 (314)
Q Consensus       262 -~~~~~~l~~~L--~-~kr~LlVlDdv~  285 (314)
                       .-..-.+.+++  + ++..|+++||+-
T Consensus       149 a~~~a~aiAEyfrd~~g~~VLl~~D~lt  176 (276)
T cd01135         149 TPRMALTTAEYLAYEKGKHVLVILTDMT  176 (276)
T ss_pred             HHHHHHHHHHHHHhccCCeEEEEEcChh
Confidence             11122344555  3 789999999993

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.

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=95.99  E-value=0.0073  Score=48.41  Aligned_cols=25  Identities=28%  Similarity=0.373  Sum_probs=22.2

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ...+++|+|..|+|||||++.+...
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~~   29 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIPA   29 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHHH
Confidence            4679999999999999999999864

>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional

Probab=95.99  E-value=0.023  Score=53.96  Aligned_cols=47  Identities=19%  Similarity=0.266  Sum_probs=36.9

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      +.++|....+..+.+.+..-.    ..-.-|.|.|..|+||+++|+.+++.
T Consensus       219 ~~iiG~S~~m~~~~~~i~~~A----~s~~pVLI~GE~GTGKe~~A~~IH~~  265 (538)
T PRK15424        219 GDLLGQSPQMEQVRQTILLYA----RSSAAVLIQGETGTGKELAAQAIHRE  265 (538)
T ss_pred             hheeeCCHHHHHHHHHHHHHh----CCCCcEEEECCCCCCHHHHHHHHHHh
Confidence            458999888888887765322    23457889999999999999999874

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=95.99  E-value=0.0048  Score=48.28  Aligned_cols=21  Identities=33%  Similarity=0.662  Sum_probs=18.7

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ++.++|++|+||||+|+.+..
T Consensus         1 li~l~G~~GsGKST~a~~l~~   21 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAE   21 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHh
Confidence            367899999999999998866

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=95.97  E-value=0.12  Score=44.78  Aligned_cols=23  Identities=30%  Similarity=0.471  Sum_probs=20.5

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..++.++|..|+||||+++.+..
T Consensus        75 ~~~i~~~G~~g~GKTtl~~~l~~   97 (270)
T PRK06731         75 VQTIALIGPTGVGKTTTLAKMAW   97 (270)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHH
Confidence            46999999999999999988865

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=95.96  E-value=0.015  Score=55.10  Aligned_cols=72  Identities=18%  Similarity=0.218  Sum_probs=43.3

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHH-HHHHHHHHHc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQ-SLLRHIYESI  272 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~-~~~~~l~~~L  272 (314)
                      ...+.+.++|++|.|||.||+.+++  ....+|-.+.+   +      +    ++...      ..+.. .+...+....
T Consensus       274 ~~~~giLl~GpPGtGKT~lAkava~--~~~~~fi~v~~---~------~----l~sk~------vGesek~ir~~F~~A~  332 (494)
T COG0464         274 RPPKGVLLYGPPGTGKTLLAKAVAL--ESRSRFISVKG---S------E----LLSKW------VGESEKNIRELFEKAR  332 (494)
T ss_pred             CCCCeeEEECCCCCCHHHHHHHHHh--hCCCeEEEeeC---H------H----Hhccc------cchHHHHHHHHHHHHH
Confidence            4456889999999999999999988  44445533321   1      1    11111      11112 2222333333


Q ss_pred             cCceEEEEEecccc
Q 048765          273 AGKSFLLVLDDVWD  286 (314)
Q Consensus       273 ~~kr~LlVlDdv~~  286 (314)
                      +...+.|+||++..
T Consensus       333 ~~~p~iiFiDEiDs  346 (494)
T COG0464         333 KLAPSIIFIDEIDS  346 (494)
T ss_pred             cCCCcEEEEEchhh
Confidence            67889999999954

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

Probab=95.95  E-value=0.022  Score=53.63  Aligned_cols=71  Identities=18%  Similarity=0.220  Sum_probs=43.6

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHccCc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGK  275 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~k  275 (314)
                      ..-|.++|++|.|||-||++|+|  +..-.|     +++-.+        ++++..-     .+....+..-+++.-..-
T Consensus       545 PsGvLL~GPPGCGKTLlAKAVAN--Eag~NF-----isVKGP--------ELlNkYV-----GESErAVR~vFqRAR~sa  604 (802)
T KOG0733|consen  545 PSGVLLCGPPGCGKTLLAKAVAN--EAGANF-----ISVKGP--------ELLNKYV-----GESERAVRQVFQRARASA  604 (802)
T ss_pred             CCceEEeCCCCccHHHHHHHHhh--hccCce-----EeecCH--------HHHHHHh-----hhHHHHHHHHHHHhhcCC
Confidence            55678999999999999999999  555555     333221        1222111     111222333333444567


Q ss_pred             eEEEEEecccc
Q 048765          276 SFLLVLDDVWD  286 (314)
Q Consensus       276 r~LlVlDdv~~  286 (314)
                      .++|+||.++.
T Consensus       605 PCVIFFDEiDa  615 (802)
T KOG0733|consen  605 PCVIFFDEIDA  615 (802)
T ss_pred             CeEEEecchhh
Confidence            89999999954

>cd00046 DEXDc DEAD-like helicases superfamily

Probab=95.95  E-value=0.053  Score=40.93  Aligned_cols=36  Identities=22%  Similarity=0.067  Sum_probs=25.2

Q ss_pred             EEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEE
Q 048765          198 IISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVC  233 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~  233 (314)
                      .+.|.|..|+|||+.+...............++|+.
T Consensus         2 ~~~i~~~~G~GKT~~~~~~~~~~~~~~~~~~~lv~~   37 (144)
T cd00046           2 DVLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLA   37 (144)
T ss_pred             CEEEECCCCCchhHHHHHHHHHHHhcccCCCEEEEc
Confidence            467899999999999988766433332345566664

A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.

>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+)

Probab=95.95  E-value=0.0049  Score=50.17  Aligned_cols=22  Identities=45%  Similarity=0.567  Sum_probs=19.6

Q ss_pred             EEEEEccCCCChHHHHHHhhch
Q 048765          198 IISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      +|+|.|.+|+||||||+.+...
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~   22 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRI   22 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5889999999999999998763

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.

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=95.94  E-value=0.034  Score=50.11  Aligned_cols=83  Identities=22%  Similarity=0.303  Sum_probs=53.1

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCC-----CCCcHHHHHHHHH
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHES-----HLGEFQSLLRHIY  269 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~-----~~~~~~~~~~~l~  269 (314)
                      .-.++.|=|-+|+|||||..++.....  ..- .+.||+-.+...-.+   --++.++....     ...+++++.+.+.
T Consensus        92 ~Gs~iLIgGdPGIGKSTLLLQva~~lA--~~~-~vLYVsGEES~~Qik---lRA~RL~~~~~~l~l~aEt~~e~I~~~l~  165 (456)
T COG1066          92 PGSVILIGGDPGIGKSTLLLQVAARLA--KRG-KVLYVSGEESLQQIK---LRADRLGLPTNNLYLLAETNLEDIIAELE  165 (456)
T ss_pred             cccEEEEccCCCCCHHHHHHHHHHHHH--hcC-cEEEEeCCcCHHHHH---HHHHHhCCCccceEEehhcCHHHHHHHHH
Confidence            356889999999999999999988433  222 788887665433322   23444543322     1234455444444


Q ss_pred             HHccCceEEEEEecccc
Q 048765          270 ESIAGKSFLLVLDDVWD  286 (314)
Q Consensus       270 ~~L~~kr~LlVlDdv~~  286 (314)
                      +   .+.-|+|+|.+..
T Consensus       166 ~---~~p~lvVIDSIQT  179 (456)
T COG1066         166 Q---EKPDLVVIDSIQT  179 (456)
T ss_pred             h---cCCCEEEEeccce
Confidence            3   6788999999844

>PRK06217 hypothetical protein; Validated

Probab=95.94  E-value=0.0064  Score=49.41  Aligned_cols=35  Identities=29%  Similarity=0.536  Sum_probs=25.2

Q ss_pred             EEEEEccCCCChHHHHHHhhchHhhhhcC--ceeEEEE
Q 048765          198 IISIVGMGGIGKTTLAQLACNHEEVIRKF--DKILWVC  233 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~~~~~~~F--~~~~wv~  233 (314)
                      .|.|.|.+|+||||+++.+...... .+|  |..+|-.
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l~~-~~~~~D~~~~~~   39 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERLDI-PHLDTDDYFWLP   39 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCC-cEEEcCceeecc
Confidence            5889999999999999999764322 233  4555643

>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=95.93  E-value=0.0052  Score=47.70  Aligned_cols=21  Identities=48%  Similarity=0.687  Sum_probs=19.2

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +|.|.|+.|+||||+|+.+..
T Consensus         1 ~I~i~G~~GsGKst~a~~la~   21 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAK   21 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            578999999999999998876

>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor

Probab=95.93  E-value=0.022  Score=46.58  Aligned_cols=23  Identities=39%  Similarity=0.577  Sum_probs=20.5

Q ss_pred             EEEEEccCCCChHHHHHHhhchH
Q 048765          198 IISIVGMGGIGKTTLAQLACNHE  220 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~~  220 (314)
                      +|.|.|+.|+||||+++.+....
T Consensus         2 ~I~ieG~~GsGKtT~~~~L~~~l   24 (200)
T cd01672           2 FIVFEGIDGAGKTTLIELLAERL   24 (200)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68999999999999999998743

TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).

>smart00487 DEXDc DEAD-like helicases superfamily

Probab=95.91  E-value=0.037  Score=44.70  Aligned_cols=20  Identities=30%  Similarity=0.297  Sum_probs=16.1

Q ss_pred             EEEEEEccCCCChHHHHHHh
Q 048765          197 HIISIVGMGGIGKTTLAQLA  216 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v  216 (314)
                      +.+.|.|..|+|||+.+...
T Consensus        25 ~~~~i~~~~GsGKT~~~~~~   44 (201)
T smart00487       25 RDVILAAPTGSGKTLAALLP   44 (201)
T ss_pred             CcEEEECCCCCchhHHHHHH
Confidence            67889999999999944433

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=95.90  E-value=0.025  Score=51.65  Aligned_cols=51  Identities=22%  Similarity=0.250  Sum_probs=36.9

Q ss_pred             cccccchhhHHHHHHHhhcc--------CcCCCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          169 EEICGRVGEKNELLSKLLCE--------SSEQQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~--------~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..++|.+...+.+..++...        ........+.+.++|++|+|||+||+.+...
T Consensus        15 ~~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~   73 (443)
T PRK05201         15 KYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKL   73 (443)
T ss_pred             cccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHH
Confidence            45889988888888777431        0000112467899999999999999999773

>PF03796 DnaB_C: DnaB-like helicase C terminal domain; InterPro: IPR007694 The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork

Probab=95.89  E-value=0.071  Score=45.87  Aligned_cols=55  Identities=20%  Similarity=0.242  Sum_probs=37.1

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcC
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDG  253 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~  253 (314)
                      -.++.|-|.+|+|||+++..++.+.-... -..++|++...  +..++...++.....
T Consensus        19 g~L~vi~a~pg~GKT~~~l~ia~~~a~~~-~~~vly~SlEm--~~~~l~~R~la~~s~   73 (259)
T PF03796_consen   19 GELTVIAARPGVGKTAFALQIALNAALNG-GYPVLYFSLEM--SEEELAARLLARLSG   73 (259)
T ss_dssp             T-EEEEEESTTSSHHHHHHHHHHHHHHTT-SSEEEEEESSS---HHHHHHHHHHHHHT
T ss_pred             CcEEEEEecccCCchHHHHHHHHHHHHhc-CCeEEEEcCCC--CHHHHHHHHHHHhhc
Confidence            35788899999999999999988654332 25677776543  455666666655533

Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis. ; GO: 0003678 DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1Q57_E 1E0K_D 1E0J_B 1CR2_A 1CR4_A 1CR1_A 1CR0_A 1MI8_A 2R6D_B 2R6C_C ....

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A

Probab=95.89  E-value=0.029  Score=46.94  Aligned_cols=52  Identities=19%  Similarity=0.079  Sum_probs=33.1

Q ss_pred             EEEEEccCCCChHHHHHHhhchHh-----hhhcCceeEEEEcCccccHHHHHHHHHH
Q 048765          198 IISIVGMGGIGKTTLAQLACNHEE-----VIRKFDKILWVCVSETFEEFRVAKAMVE  249 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~~~-----~~~~F~~~~wv~~~~~~~~~~~~~~i~~  249 (314)
                      +..|.|++|+|||+++..+.....     ....-...+-+.......+..++..+.+
T Consensus        19 ~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~   75 (236)
T PF13086_consen   19 ITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKK   75 (236)
T ss_dssp             -EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC
T ss_pred             CEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHh
Confidence            688999999999987776665331     1233455566666666677777777776

>PRK09280 F0F1 ATP synthase subunit beta; Validated

Probab=95.88  E-value=0.063  Score=49.77  Aligned_cols=89  Identities=21%  Similarity=0.121  Sum_probs=53.4

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccc-cHHHHHHHHHHHhcCC-------CCCCCcH-----
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETF-EEFRVAKAMVEALDGH-------ESHLGEF-----  261 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~~~~~-------~~~~~~~-----  261 (314)
                      +-.-++|+|..|+|||||+..+..+.... +=+.++++-+.+.. .+.++...+...-...       ..+....     
T Consensus       143 kGQR~gIfa~~GvGKt~Ll~~i~~~~~~~-~~~v~V~~liGER~rEv~efi~~~~~~~~l~rsvvV~atsd~p~~~r~~a  221 (463)
T PRK09280        143 KGGKIGLFGGAGVGKTVLIQELINNIAKE-HGGYSVFAGVGERTREGNDLYHEMKESGVLDKTALVFGQMNEPPGARLRV  221 (463)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHHHHhc-CCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHH
Confidence            34578999999999999999887643322 22467777776544 3345555555431111       0111111     


Q ss_pred             HHHHHHHHHHc---cCceEEEEEecc
Q 048765          262 QSLLRHIYESI---AGKSFLLVLDDV  284 (314)
Q Consensus       262 ~~~~~~l~~~L---~~kr~LlVlDdv  284 (314)
                      ....-.+.+++   +++..||++|++
T Consensus       222 ~~~a~tiAEyfrd~~G~~VLll~Dsl  247 (463)
T PRK09280        222 ALTGLTMAEYFRDVEGQDVLLFIDNI  247 (463)
T ss_pred             HHHHHHHHHHHHHhcCCceEEEecch
Confidence            11223355665   689999999999

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=95.88  E-value=0.0062  Score=48.17  Aligned_cols=20  Identities=45%  Similarity=0.753  Sum_probs=18.1

Q ss_pred             EEEEEccCCCChHHHHHHhh
Q 048765          198 IISIVGMGGIGKTTLAQLAC  217 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~  217 (314)
                      .|+|.|.+|+||||++..+.
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            58999999999999998874

>PRK12678 transcription termination factor Rho; Provisional

Probab=95.86  E-value=0.019  Score=54.21  Aligned_cols=86  Identities=24%  Similarity=0.178  Sum_probs=48.6

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEE-cCccccHHHHHHHHHHHhcCC-----CCCCCcH----HHH
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVC-VSETFEEFRVAKAMVEALDGH-----ESHLGEF----QSL  264 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~-~~~~~~~~~~~~~i~~~~~~~-----~~~~~~~----~~~  264 (314)
                      +-.-..|+|++|+|||||++.+.+... ..+-++.++|- |.+.....   ..|-+.+...     .......    ..+
T Consensus       415 kGQR~LIvgpp~aGKTtLL~~IAn~i~-~n~~~~~~ivvLIgERpeEV---tdm~rsVkgeVVasT~D~p~~~~~~~a~~  490 (672)
T PRK12678        415 KGQRGLIVSPPKAGKTTILQNIANAIT-TNNPECHLMVVLVDERPEEV---TDMQRSVKGEVIASTFDRPPSDHTTVAEL  490 (672)
T ss_pred             cCCEeEEeCCCCCCHHHHHHHHHHHHh-hcCCCeEEEEEEEeCchhhH---HHHHHhccceEEEECCCCCHHHHHHHHHH
Confidence            345678999999999999999887322 22345544443 44432222   2233333211     1111111    223


Q ss_pred             HHHHHHHc--cCceEEEEEecc
Q 048765          265 LRHIYESI--AGKSFLLVLDDV  284 (314)
Q Consensus       265 ~~~l~~~L--~~kr~LlVlDdv  284 (314)
                      .-.+.++|  .++..||++|++
T Consensus       491 ai~~Ae~fre~G~dVlillDSl  512 (672)
T PRK12678        491 AIERAKRLVELGKDVVVLLDSI  512 (672)
T ss_pred             HHHHHHHHHHcCCCEEEEEeCc
Confidence            33344555  789999999999

>PRK13949 shikimate kinase; Provisional

Probab=95.86  E-value=0.0065  Score=48.74  Aligned_cols=21  Identities=43%  Similarity=0.523  Sum_probs=19.1

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -|.|+|++|+||||+++.++.
T Consensus         3 ~I~liG~~GsGKstl~~~La~   23 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALAR   23 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            588999999999999998876

>PRK08927 fliI flagellum-specific ATP synthase; Validated

Probab=95.86  E-value=0.037  Score=50.98  Aligned_cols=86  Identities=20%  Similarity=0.165  Sum_probs=50.2

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccH-HHHHHHHHHHhcCC-------CCCCCcH-----
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEE-FRVAKAMVEALDGH-------ESHLGEF-----  261 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~-~~~~~~i~~~~~~~-------~~~~~~~-----  261 (314)
                      +-..++|+|..|+|||||++.++...    ..+.++++-+.+.... .++....+..-+..       ..+....     
T Consensus       157 ~Gqri~I~G~sG~GKTtLL~~I~~~~----~~d~~v~~~iGER~rEv~ef~~~~l~~~~l~rsvvv~atsd~~~~~r~~a  232 (442)
T PRK08927        157 RGQRMGIFAGSGVGKSVLLSMLARNA----DADVSVIGLIGERGREVQEFLQDDLGPEGLARSVVVVATSDEPALMRRQA  232 (442)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcc----CCCEEEEEEEecCcHHHHHHHHHHhhccCceeEEEEEECCCCCHHHHHHH
Confidence            35688999999999999999887632    2245555666554433 34443333321111       0111111     


Q ss_pred             HHHHHHHHHHc--cCceEEEEEecc
Q 048765          262 QSLLRHIYESI--AGKSFLLVLDDV  284 (314)
Q Consensus       262 ~~~~~~l~~~L--~~kr~LlVlDdv  284 (314)
                      ....-.+.+++  +++..|+++||+
T Consensus       233 ~~~a~tiAEyfrd~G~~Vll~~Dsl  257 (442)
T PRK08927        233 AYLTLAIAEYFRDQGKDVLCLMDSV  257 (442)
T ss_pred             HHHHHHHHHHHHHCCCcEEEEEeCc
Confidence            11223344555  689999999999

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=95.85  E-value=0.029  Score=44.96  Aligned_cols=80  Identities=16%  Similarity=0.270  Sum_probs=42.5

Q ss_pred             EEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCC---CCcHHHHHHHHHHHccC
Q 048765          198 IISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESH---LGEFQSLLRHIYESIAG  274 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~---~~~~~~~~~~l~~~L~~  274 (314)
                      ++.|.|.+|+|||++|..+....  .   ...+++.....++. +....|.......+..   .+.-.++...+.....+
T Consensus         3 ~ili~G~~~sGKS~~a~~l~~~~--~---~~~~~iat~~~~~~-e~~~ri~~h~~~R~~~w~t~E~~~~l~~~i~~~~~~   76 (170)
T PRK05800          3 LILVTGGARSGKSRFAERLAAQS--G---LQVLYIATAQPFDD-EMAARIAHHRQRRPAHWQTVEEPLDLAELLRADAAP   76 (170)
T ss_pred             EEEEECCCCccHHHHHHHHHHHc--C---CCcEeCcCCCCChH-HHHHHHHHHHhcCCCCCeEecccccHHHHHHhhcCC
Confidence            68899999999999999886521  1   12445554444333 3444443333222111   11111233334433332


Q ss_pred             ceEEEEEecc
Q 048765          275 KSFLLVLDDV  284 (314)
Q Consensus       275 kr~LlVlDdv  284 (314)
                       .-++++|.+
T Consensus        77 -~~~VlID~L   85 (170)
T PRK05800         77 -GRCVLVDCL   85 (170)
T ss_pred             -CCEEEehhH
Confidence             337999997

>PRK00300 gmk guanylate kinase; Provisional

Probab=95.84  E-value=0.0073  Score=49.94  Aligned_cols=25  Identities=28%  Similarity=0.371  Sum_probs=21.8

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .-.+++|+|+.|+|||||++.++..
T Consensus         4 ~g~~i~i~G~sGsGKstl~~~l~~~   28 (205)
T PRK00300          4 RGLLIVLSGPSGAGKSTLVKALLER   28 (205)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhh
Confidence            3468999999999999999998763

>PF00025 Arf: ADP-ribosylation factor family The prints entry specific to Sar1 proteins The Prosite entry specific to Sar1 proteins; InterPro: IPR006689 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=95.84  E-value=0.034  Score=44.79  Aligned_cols=106  Identities=21%  Similarity=0.189  Sum_probs=55.9

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhh--------------hhcCceeEEEEcCccccHHHHHHHHHHHhcC-----C
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEV--------------IRKFDKILWVCVSETFEEFRVAKAMVEALDG-----H  254 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~--------------~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~-----~  254 (314)
                      .+..-|.+.|+.|+||||+.+.+....-.              -..+...+| +++.......+.+........     .
T Consensus        12 ~~~~~ililGl~~sGKTtll~~l~~~~~~~~~pT~g~~~~~i~~~~~~~~~~-d~gG~~~~~~~w~~y~~~~~~iIfVvD   90 (175)
T PF00025_consen   12 KKEIKILILGLDGSGKTTLLNRLKNGEISETIPTIGFNIEEIKYKGYSLTIW-DLGGQESFRPLWKSYFQNADGIIFVVD   90 (175)
T ss_dssp             TSEEEEEEEESTTSSHHHHHHHHHSSSEEEEEEESSEEEEEEEETTEEEEEE-EESSSGGGGGGGGGGHTTESEEEEEEE
T ss_pred             CcEEEEEEECCCccchHHHHHHhhhccccccCcccccccceeeeCcEEEEEE-eccccccccccceeeccccceeEEEEe
Confidence            34567789999999999999998653210              011122223 344443333333333332211     0


Q ss_pred             CCCCCcHHHHHHHHHHHc-----cCceEEEEEeccccCCccCHHhHHHhhc
Q 048765          255 ESHLGEFQSLLRHIYESI-----AGKSFLLVLDDVWDGNYVKWEPFYHCLK  300 (314)
Q Consensus       255 ~~~~~~~~~~~~~l~~~L-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~  300 (314)
                      ..+.....+....+.+.+     ++.++||++=--+.++.....++...+.
T Consensus        91 ssd~~~l~e~~~~L~~ll~~~~~~~~piLIl~NK~D~~~~~~~~~i~~~l~  141 (175)
T PF00025_consen   91 SSDPERLQEAKEELKELLNDPELKDIPILILANKQDLPDAMSEEEIKEYLG  141 (175)
T ss_dssp             TTGGGGHHHHHHHHHHHHTSGGGTTSEEEEEEESTTSTTSSTHHHHHHHTT
T ss_pred             cccceeecccccchhhhcchhhcccceEEEEeccccccCcchhhHHHhhhh
Confidence            112223444555555544     4577887776555444445666766553

This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. This entry represents a branch of the small GTPase superfamily that includes the ADP ribosylation factor Arf, Arl (Arf-like), Arp (Arf-related proteins) and the remotely related Sar (Secretion-associated and Ras-related) proteins. Arf proteins are major regulators of vesicle biogenesis in intracellular traffic []. They cycle between inactive GDP-bound and active GTP-bound forms that bind selectively to effectors. The classical structural GDP/GTP switch is characterised by conformational changes at the so-called switch 1 and switch 2 regions, which bind tightly to the gamma-phosphate of GTP but poorly or not at all to the GDP nucleotide. Structural studies of Arf1 and Arf6 have revealed that although these proteins feature the switch 1 and 2 conformational changes, they depart from other small GTP-binding proteins in that they use an additional, unique switch to propagate structural information from one side of the protein to the other. The GDP/GTP structural cycles of human Arf1 and Arf6 feature a unique conformational change that affects the beta2-beta3 strands connecting switch 1 and switch 2 (interswitch) and also the amphipathic helical N terminus. In GDP-bound Arf1 and Arf6, the interswitch is retracted and forms a pocket to which the N-terminal helix binds, the latter serving as a molecular hasp to maintain the inactive conformation. In the GTP-bound form of these proteins, the interswitch undergoes a two-residue register shift that pulls switch 1 and switch 2 up, restoring an active conformation that can bind GTP. In this conformation, the interswitch projects out of the protein and extrudes the N-terminal hasp by occluding its binding pocket.; GO: 0005525 GTP binding; PDB: 2H57_B 2W83_B 3N5C_B 2J5X_A 3LVR_E 2BAO_A 3LVQ_E 2A5F_A 3PCR_B 1E0S_A ....

>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=95.84  E-value=0.013  Score=46.34  Aligned_cols=36  Identities=25%  Similarity=0.333  Sum_probs=29.6

Q ss_pred             hhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          175 VGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       175 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .+.++.|.+.|.        + +++.++|..|+|||||++.+..+
T Consensus        23 ~~g~~~l~~~l~--------~-k~~vl~G~SGvGKSSLiN~L~~~   58 (161)
T PF03193_consen   23 GEGIEELKELLK--------G-KTSVLLGQSGVGKSSLINALLPE   58 (161)
T ss_dssp             TTTHHHHHHHHT--------T-SEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CcCHHHHHHHhc--------C-CEEEEECCCCCCHHHHHHHHHhh
Confidence            356777888873        3 68999999999999999998764

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.

>PRK13947 shikimate kinase; Provisional

Probab=95.84  E-value=0.0066  Score=48.60  Aligned_cols=21  Identities=33%  Similarity=0.545  Sum_probs=19.2

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .|.|+|++|+||||+++.+..
T Consensus         3 ~I~l~G~~GsGKst~a~~La~   23 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVAT   23 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHH
Confidence            488999999999999999876

>CHL00195 ycf46 Ycf46; Provisional

Probab=95.83  E-value=0.029  Score=52.69  Aligned_cols=25  Identities=28%  Similarity=0.375  Sum_probs=21.9

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ...+-|.++|++|+|||.+|+.+.+
T Consensus       257 ~~pkGILL~GPpGTGKTllAkaiA~  281 (489)
T CHL00195        257 PTPRGLLLVGIQGTGKSLTAKAIAN  281 (489)
T ss_pred             CCCceEEEECCCCCcHHHHHHHHHH
Confidence            3456788999999999999999987

>PRK10923 glnG nitrogen regulation protein NR(I); Provisional

Probab=95.83  E-value=0.027  Score=52.92  Aligned_cols=62  Identities=18%  Similarity=0.203  Sum_probs=40.7

Q ss_pred             ccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCcc
Q 048765          170 EICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSET  237 (314)
Q Consensus       170 ~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~  237 (314)
                      .++|....+..+...+..-.    ..-..+.|.|.+|+|||++|+.++...  ...-...+-++|+..
T Consensus       139 ~lig~s~~~~~l~~~~~~~~----~~~~~vli~Ge~GtGK~~lA~~ih~~s--~~~~~~~i~i~c~~~  200 (469)
T PRK10923        139 DIIGEAPAMQDVFRIIGRLS----RSSISVLINGESGTGKELVAHALHRHS--PRAKAPFIALNMAAI  200 (469)
T ss_pred             cceecCHHHHHHHHHHHHHh----ccCCeEEEEeCCCCcHHHHHHHHHhcC--CCCCCCeEeeeCCCC
Confidence            57888877777776664322    233457899999999999999997732  111223455566543

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=95.83  E-value=0.027  Score=45.10  Aligned_cols=78  Identities=15%  Similarity=0.261  Sum_probs=44.4

Q ss_pred             EEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCC---CCcHHHHHHHHHHHccCc
Q 048765          199 ISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESH---LGEFQSLLRHIYESIAGK  275 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~---~~~~~~~~~~l~~~L~~k  275 (314)
                      +.|.|..|+|||++|.++...     ....++|+.....++.+ ....|.+.....+..   .+....+.+.+.+. . +
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-MAERIARHRKRRPAHWRTIETPRDLVSALKEL-D-P   73 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHh-----cCCCeEEEEccCcCCHH-HHHHHHHHHHhCCCCceEeecHHHHHHHHHhc-C-C
Confidence            678999999999999988652     23467788777766553 334433322222111   11122333333221 2 2


Q ss_pred             eEEEEEecc
Q 048765          276 SFLLVLDDV  284 (314)
Q Consensus       276 r~LlVlDdv  284 (314)
                      .-.|++|.+
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.

>TIGR00455 apsK adenylylsulfate kinase (apsK)

Probab=95.83  E-value=0.06  Score=43.66  Aligned_cols=26  Identities=27%  Similarity=0.387  Sum_probs=22.4

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhch
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ....++.|.|.+|+||||+++.+...
T Consensus        16 ~~~~~i~i~G~~GsGKstla~~l~~~   41 (184)
T TIGR00455        16 HRGVVIWLTGLSGSGKSTIANALEKK   41 (184)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            34579999999999999999998763

Important residue (active site in E.coli) is residue 100 of the seed alignment.

>PTZ00185 ATPase alpha subunit; Provisional

Probab=95.82  E-value=0.071  Score=49.85  Aligned_cols=91  Identities=18%  Similarity=0.168  Sum_probs=52.5

Q ss_pred             eEEEEEEccCCCChHHHH-HHhhchHhhh-----hcCceeEEEEcCccccHHHHHHHHHHHhcC-CC--------CCCCc
Q 048765          196 LHIISIVGMGGIGKTTLA-QLACNHEEVI-----RKFDKILWVCVSETFEEFRVAKAMVEALDG-HE--------SHLGE  260 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa-~~v~~~~~~~-----~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~-~~--------~~~~~  260 (314)
                      -.-+.|.|-.|+|||+|| -.+.+...+.     ++-+.++++-+++..+...-+...++.-+. ..        .+...
T Consensus       189 GQR~lIfGd~GtGKTtLAld~IinQ~~~~~~~~~~~~~v~VyvaIGeR~rEV~ei~~~L~e~GaL~~TvVV~AtAdep~~  268 (574)
T PTZ00185        189 GQRELIVGDRQTGKTSIAVSTIINQVRINQQILSKNAVISIYVSIGQRCSNVARIHRLLRSYGALRYTTVMAATAAEPAG  268 (574)
T ss_pred             CCEEEeecCCCCChHHHHHHHHHhhhhhccccccCCCCEEEEEEeccchHHHHHHHHHHHhcCCccceEEEEECCCCCHH
Confidence            456789999999999997 5556643221     244677888888765443333333433321 10        11111


Q ss_pred             HH----HHHHHHHHHc--cCceEEEEEecccc
Q 048765          261 FQ----SLLRHIYESI--AGKSFLLVLDDVWD  286 (314)
Q Consensus       261 ~~----~~~~~l~~~L--~~kr~LlVlDdv~~  286 (314)
                      .+    -..-.+.+++  +++..|||+||+-+
T Consensus       269 ~r~~Apy~a~tiAEYFrd~GkdVLiv~DDLTr  300 (574)
T PTZ00185        269 LQYLAPYSGVTMGEYFMNRGRHCLCVYDDLSK  300 (574)
T ss_pred             HHHHHHHHHHHHHHHHHHcCCCEEEEEcCchH
Confidence            11    0112233444  68999999999944

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=95.80  E-value=0.087  Score=50.13  Aligned_cols=87  Identities=20%  Similarity=0.158  Sum_probs=54.3

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCC---------------CCCC
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGH---------------ESHL  258 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~---------------~~~~  258 (314)
                      +.-.++.|.|.+|+|||+|+..+....  ...-..++|++....  ...+.+.+ .+++..               .+..
T Consensus       271 ~~g~~~li~G~~G~GKT~l~~~~~~~~--~~~g~~~~yis~e~~--~~~i~~~~-~~~g~~~~~~~~~g~l~i~~~~~~~  345 (509)
T PRK09302        271 FRGSIILVSGATGTGKTLLASKFAEAA--CRRGERCLLFAFEES--RAQLIRNA-RSWGIDLEKMEEKGLLKIICARPES  345 (509)
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHHH--HhCCCcEEEEEecCC--HHHHHHHH-HHcCCChHHHhhcCCceeecCCccc
Confidence            345688899999999999999987632  234467888877653  44444443 333321               1112


Q ss_pred             CcHHHHHHHHHHHcc-CceEEEEEeccc
Q 048765          259 GEFQSLLRHIYESIA-GKSFLLVLDDVW  285 (314)
Q Consensus       259 ~~~~~~~~~l~~~L~-~kr~LlVlDdv~  285 (314)
                      ....+....+.+.+. .+.-++|+|.+-
T Consensus       346 ~~~~~~~~~i~~~i~~~~~~~vVIDslt  373 (509)
T PRK09302        346 YGLEDHLIIIKREIEEFKPSRVAIDPLS  373 (509)
T ss_pred             CCHHHHHHHHHHHHHHcCCCEEEEcCHH
Confidence            234555566666553 345589999983

>PF13479 AAA_24: AAA domain

Probab=95.80  E-value=0.051  Score=45.33  Aligned_cols=20  Identities=50%  Similarity=0.428  Sum_probs=17.5

Q ss_pred             EEEEEEccCCCChHHHHHHh
Q 048765          197 HIISIVGMGGIGKTTLAQLA  216 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v  216 (314)
                      -.+.|+|.+|+||||+|..+
T Consensus         4 ~~~lIyG~~G~GKTt~a~~~   23 (213)
T PF13479_consen    4 IKILIYGPPGSGKTTLAASL   23 (213)
T ss_pred             eEEEEECCCCCCHHHHHHhC
Confidence            46789999999999999766

>PRK11174 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=95.80  E-value=0.053  Score=52.55  Aligned_cols=24  Identities=33%  Similarity=0.423  Sum_probs=21.0

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +-..++|+|..|+|||||++.+..
T Consensus       375 ~G~~vaIvG~SGsGKSTL~~lL~g  398 (588)
T PRK11174        375 AGQRIALVGPSGAGKTSLLNALLG  398 (588)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            456899999999999999998865

>COG4618 ArpD ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]

Probab=95.79  E-value=0.032  Score=51.55  Aligned_cols=23  Identities=39%  Similarity=0.577  Sum_probs=20.0

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -..++|+|+.|+|||||++.+.-
T Consensus       362 G~~lgIIGPSgSGKSTLaR~lvG  384 (580)
T COG4618         362 GEALGIIGPSGSGKSTLARLLVG  384 (580)
T ss_pred             CceEEEECCCCccHHHHHHHHHc
Confidence            45899999999999999998743

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=95.79  E-value=0.0081  Score=48.96  Aligned_cols=22  Identities=27%  Similarity=0.424  Sum_probs=19.9

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .++.|+|+.|+|||||++.+..
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~   24 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQ   24 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhc
Confidence            3788999999999999999966

>TIGR00750 lao LAO/AO transport system ATPase

Probab=95.77  E-value=0.021  Score=50.29  Aligned_cols=26  Identities=31%  Similarity=0.405  Sum_probs=22.8

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhch
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ....++.|+|++|+|||||+..+...
T Consensus        32 ~~~~~i~i~G~~G~GKttl~~~l~~~   57 (300)
T TIGR00750        32 GNAHRVGITGTPGAGKSTLLEALGME   57 (300)
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHH
Confidence            46789999999999999999888764

Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=95.77  E-value=0.028  Score=49.99  Aligned_cols=26  Identities=31%  Similarity=0.445  Sum_probs=22.7

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhch
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .+..+|+|.|.+|+|||||+..+...
T Consensus        54 ~~~~~igi~G~~GaGKSTl~~~l~~~   79 (332)
T PRK09435         54 GNALRIGITGVPGVGKSTFIEALGMH   79 (332)
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHH
Confidence            46789999999999999999887663

>PRK14530 adenylate kinase; Provisional

Probab=95.77  E-value=0.0073  Score=50.47  Aligned_cols=21  Identities=29%  Similarity=0.355  Sum_probs=19.2

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .|.|+|++|+||||+++.+..
T Consensus         5 ~I~i~G~pGsGKsT~~~~La~   25 (215)
T PRK14530          5 RILLLGAPGAGKGTQSSNLAE   25 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            588999999999999998865

>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity

Probab=95.76  E-value=0.0072  Score=51.29  Aligned_cols=21  Identities=33%  Similarity=0.476  Sum_probs=17.4

Q ss_pred             EEccCCCChHHHHHHhhchHh
Q 048765          201 IVGMGGIGKTTLAQLACNHEE  221 (314)
Q Consensus       201 I~G~~G~GKTtLa~~v~~~~~  221 (314)
                      |+||+|+||||+++.+.+...
T Consensus         1 ViGpaGSGKTT~~~~~~~~~~   21 (238)
T PF03029_consen    1 VIGPAGSGKTTFCKGLSEWLE   21 (238)
T ss_dssp             -EESTTSSHHHHHHHHHHHHT
T ss_pred             CCCCCCCCHHHHHHHHHHHHH
Confidence            689999999999999877543

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=95.76  E-value=0.094  Score=49.52  Aligned_cols=87  Identities=17%  Similarity=0.119  Sum_probs=52.6

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCC---------------CC--
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGH---------------ES--  256 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~---------------~~--  256 (314)
                      ..-+++.|.|.+|+|||+||.++.... ..+.=...+||+..+  +..++.+.+. +++-.               .+  
T Consensus        19 p~g~~~Li~G~pGsGKT~la~qfl~~g-~~~~ge~~lyvs~eE--~~~~l~~~~~-~~G~~~~~~~~~g~l~~~~~~~~~   94 (484)
T TIGR02655        19 PIGRSTLVSGTSGTGKTLFSIQFLYNG-IIHFDEPGVFVTFEE--SPQDIIKNAR-SFGWDLQKLVDEGKLFILDASPDP   94 (484)
T ss_pred             CCCeEEEEEcCCCCCHHHHHHHHHHHH-HHhCCCCEEEEEEec--CHHHHHHHHH-HcCCCHHHHhhcCceEEEecCchh
Confidence            456899999999999999999886521 222125688888754  3444444432 22210               00  


Q ss_pred             ------CCCcHHHHHHHHHHHc-cCceEEEEEecc
Q 048765          257 ------HLGEFQSLLRHIYESI-AGKSFLLVLDDV  284 (314)
Q Consensus       257 ------~~~~~~~~~~~l~~~L-~~kr~LlVlDdv  284 (314)
                            ..-+.......+...+ .+++-.+|||.+
T Consensus        95 ~~~~~~~~~~l~~~l~~i~~~ls~g~~qRVvIDSl  129 (484)
T TIGR02655        95 EGQDVVGGFDLSALIERINYAIRKYKAKRVSIDSV  129 (484)
T ss_pred             ccccccccCCHHHHHHHHHHHHHHhCCcEEEEeeh
Confidence                  0124455666666666 456667999954

Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.

>PRK15453 phosphoribulokinase; Provisional

Probab=95.74  E-value=0.073  Score=46.00  Aligned_cols=25  Identities=28%  Similarity=0.375  Sum_probs=22.0

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+..+|+|.|..|+||||+++.+..
T Consensus         3 ~k~piI~ItG~SGsGKTTva~~l~~   27 (290)
T PRK15453          3 AKHPIIAVTGSSGAGTTTVKRAFEK   27 (290)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHH
Confidence            3567999999999999999998875

>PRK08149 ATP synthase SpaL; Validated

Probab=95.73  E-value=0.079  Score=48.73  Aligned_cols=85  Identities=19%  Similarity=0.263  Sum_probs=48.9

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCcc-ccHHHHHHHHHHHhcCC-------CCCCCcH-----H
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSET-FEEFRVAKAMVEALDGH-------ESHLGEF-----Q  262 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~-~~~~~~~~~i~~~~~~~-------~~~~~~~-----~  262 (314)
                      -..++|+|..|+|||||++.++...    +-+.++...+... .....+...........       ..+....     .
T Consensus       151 Gq~i~I~G~sG~GKTTLl~~i~~~~----~~dv~v~g~Ig~rg~ev~e~~~~~l~~~~~~~~~vV~~~sd~p~~~r~~a~  226 (428)
T PRK08149        151 GQRMGIFASAGCGKTSLMNMLIEHS----EADVFVIGLIGERGREVTEFVESLRASSRREKCVLVYATSDFSSVDRCNAA  226 (428)
T ss_pred             CCEEEEECCCCCChhHHHHHHhcCC----CCCeEEEEEEeeCCccHHHHHHHHhhcccccceEEEEECCCCCHHHHHhHH
Confidence            4578999999999999999887632    2233333444332 23445555555432211       0111111     1


Q ss_pred             HHHHHHHHHc--cCceEEEEEecc
Q 048765          263 SLLRHIYESI--AGKSFLLVLDDV  284 (314)
Q Consensus       263 ~~~~~l~~~L--~~kr~LlVlDdv  284 (314)
                      .....+.+++  ++|..||++||+
T Consensus       227 ~~a~tiAE~fr~~G~~Vll~~Dsl  250 (428)
T PRK08149        227 LVATTVAEYFRDQGKRVVLFIDSM  250 (428)
T ss_pred             HHHHHHHHHHHHcCCCEEEEccch
Confidence            1223344555  689999999999

>PRK05922 type III secretion system ATPase; Validated

Probab=95.72  E-value=0.074  Score=48.96  Aligned_cols=85  Identities=18%  Similarity=0.169  Sum_probs=48.4

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCcc-ccHHHHHHHHHHHhcCCCC----CCCc----H----H
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSET-FEEFRVAKAMVEALDGHES----HLGE----F----Q  262 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~-~~~~~~~~~i~~~~~~~~~----~~~~----~----~  262 (314)
                      -..++|+|..|+|||||.+.+....    +.+...++-+++. ......+.+..........    ...+    .    .
T Consensus       157 GqrigI~G~nG~GKSTLL~~Ia~~~----~~d~gvi~liGerg~ev~eyl~q~~~~~~~~rTVlv~atsd~~~~~r~~a~  232 (434)
T PRK05922        157 GQRIGVFSEPGSGKSSLLSTIAKGS----KSTINVIALIGERGREVREYIEQHKEGLAAQRTIIIASPAHETAPTKVIAG  232 (434)
T ss_pred             CcEEEEECCCCCChHHHHHHHhccC----CCCceEEEEeCCCCchHHHHHHHHHhhccccceEEEEECCCCCHHHHHHHH
Confidence            4568999999999999999887632    2333444434332 2233444444433322110    0111    1    1


Q ss_pred             HHHHHHHHHc--cCceEEEEEecc
Q 048765          263 SLLRHIYESI--AGKSFLLVLDDV  284 (314)
Q Consensus       263 ~~~~~l~~~L--~~kr~LlVlDdv  284 (314)
                      ...-.+.+++  +++..|+++|++
T Consensus       233 ~~a~tiAEyfrd~G~~VLl~~Dsl  256 (434)
T PRK05922        233 RAAMTIAEYFRDQGHRVLFIMDSL  256 (434)
T ss_pred             HHHHHHHHHHHHcCCCEEEeccch
Confidence            2223345555  689999999999

>cd01132 F1_ATPase_alpha F1 ATP synthase alpha, central domain

Probab=95.72  E-value=0.081  Score=45.58  Aligned_cols=86  Identities=22%  Similarity=0.194  Sum_probs=48.2

Q ss_pred             eEEEEEEccCCCChHHHH-HHhhchHhhhhcCcee-EEEEcCccc-cHHHHHHHHHHHhcCC--------CCCCCcHH--
Q 048765          196 LHIISIVGMGGIGKTTLA-QLACNHEEVIRKFDKI-LWVCVSETF-EEFRVAKAMVEALDGH--------ESHLGEFQ--  262 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa-~~v~~~~~~~~~F~~~-~wv~~~~~~-~~~~~~~~i~~~~~~~--------~~~~~~~~--  262 (314)
                      -.-++|+|..|+|||+|+ ..+.+.    .+-+.+ +++-+.+.. ...++...+...-...        .......+  
T Consensus        69 GQr~~Ifg~~g~GKt~L~l~~i~~~----~~~~v~~V~~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~  144 (274)
T cd01132          69 GQRELIIGDRQTGKTAIAIDTIINQ----KGKKVYCIYVAIGQKASTVAQVVKTLEEHGAMEYTIVVAATASDPAPLQYL  144 (274)
T ss_pred             CCEEEeeCCCCCCccHHHHHHHHHh----cCCCeEEEEEecccchHHHHHHHHHHHhcCccceeEEEEeCCCCchhHHHH
Confidence            457889999999999995 555542    223444 666676654 3445555554321111        01111111  


Q ss_pred             --HHHHHHHHHc--cCceEEEEEeccc
Q 048765          263 --SLLRHIYESI--AGKSFLLVLDDVW  285 (314)
Q Consensus       263 --~~~~~l~~~L--~~kr~LlVlDdv~  285 (314)
                        ...-.+.+++  +++..||++||+-
T Consensus       145 a~~~a~aiAE~fr~~G~~Vlvl~DslT  171 (274)
T cd01132         145 APYTGCAMGEYFMDNGKHALIIYDDLS  171 (274)
T ss_pred             HHHHHHHHHHHHHHCCCCEEEEEcChH
Confidence              1122233444  6899999999993

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.

>TIGR03498 FliI_clade3 flagellar protein export ATPase FliI

Probab=95.71  E-value=0.058  Score=49.55  Aligned_cols=85  Identities=22%  Similarity=0.237  Sum_probs=46.8

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCc-cccHHHHHHHHHHHhcCCC-------CCCCcH-----H
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSE-TFEEFRVAKAMVEALDGHE-------SHLGEF-----Q  262 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~~~~~~-------~~~~~~-----~  262 (314)
                      -..++|+|..|+|||||++.+.....    .+....+.+.+ ...+.++....+..-+...       .+....     .
T Consensus       140 Gq~i~I~G~sG~GKTtLl~~I~~~~~----~~~gvi~~iGer~~ev~~~~~~~l~~~~~~~tvvv~atsd~~~~~r~~a~  215 (418)
T TIGR03498       140 GQRLGIFAGSGVGKSTLLSMLARNTD----ADVVVIALVGERGREVREFLEDDLGEEGLKRSVVVVATSDESPLMRRQAA  215 (418)
T ss_pred             CcEEEEECCCCCChHHHHHHHhCCCC----CCEEEEEEEeeechHHHHHHHHhhhccccceeEEEEECCCCCHHHHHHHH
Confidence            45789999999999999988876321    12222232332 2234444444433221110       111111     1


Q ss_pred             HHHHHHHHHc--cCceEEEEEecc
Q 048765          263 SLLRHIYESI--AGKSFLLVLDDV  284 (314)
Q Consensus       263 ~~~~~l~~~L--~~kr~LlVlDdv  284 (314)
                      ...-.+.+++  +++..||++||+
T Consensus       216 ~~a~~iAEyfrd~G~~Vll~~Dsl  239 (418)
T TIGR03498       216 YTATAIAEYFRDQGKDVLLLMDSV  239 (418)
T ss_pred             HHHHHHHHHHHHcCCCEEEeccch
Confidence            1223345555  689999999999

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.

>PRK14738 gmk guanylate kinase; Provisional

Probab=95.70  E-value=0.011  Score=49.09  Aligned_cols=25  Identities=20%  Similarity=0.309  Sum_probs=22.0

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ...+.+.|+|+.|+|||||++.+..
T Consensus        11 ~~~~~ivi~GpsG~GK~tl~~~L~~   35 (206)
T PRK14738         11 AKPLLVVISGPSGVGKDAVLARMRE   35 (206)
T ss_pred             CCCeEEEEECcCCCCHHHHHHHHHh
Confidence            5678899999999999999998864

>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=95.69  E-value=0.19  Score=45.71  Aligned_cols=73  Identities=26%  Similarity=0.245  Sum_probs=43.7

Q ss_pred             HHHHHHHhhccCcC---CCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCc--cccHHHHHHHHHHHhc
Q 048765          178 KNELLSKLLCESSE---QQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSE--TFEEFRVAKAMVEALD  252 (314)
Q Consensus       178 ~~~l~~~L~~~~~~---~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~--~~~~~~~~~~i~~~~~  252 (314)
                      .++|++.|......   ....+.+|-.+|.-|+||||.+-+++...+-   ....+-+...+  .+...+-++.+..+++
T Consensus        79 ~eELv~llG~~~~~~~l~~~~P~vImmvGLQGsGKTTt~~KLA~~lkk---~~~kvllVaaD~~RpAA~eQL~~La~q~~  155 (451)
T COG0541          79 YEELVKLLGGENSELNLAKKPPTVILMVGLQGSGKTTTAGKLAKYLKK---KGKKVLLVAADTYRPAAIEQLKQLAEQVG  155 (451)
T ss_pred             HHHHHHHhCCCCcccccCCCCCeEEEEEeccCCChHhHHHHHHHHHHH---cCCceEEEecccCChHHHHHHHHHHHHcC
Confidence            45677777642111   1345789999999999999999888774433   22222222222  2334455666666654


Q ss_pred             C
Q 048765          253 G  253 (314)
Q Consensus       253 ~  253 (314)
                      .
T Consensus       156 v  156 (451)
T COG0541         156 V  156 (451)
T ss_pred             C
Confidence            3

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=95.69  E-value=0.0068  Score=48.16  Aligned_cols=20  Identities=30%  Similarity=0.607  Sum_probs=17.8

Q ss_pred             EEEEccCCCChHHHHHHhhc
Q 048765          199 ISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~  218 (314)
                      |.++|+.|+||||+++.+..
T Consensus         1 i~l~G~~GsGKSTla~~l~~   20 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAH   20 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHH
Confidence            46899999999999998865

This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.

>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants

Probab=95.68  E-value=0.0084  Score=46.99  Aligned_cols=20  Identities=45%  Similarity=0.747  Sum_probs=18.5

Q ss_pred             EEEEccCCCChHHHHHHhhc
Q 048765          199 ISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~  218 (314)
                      |.|+|++|+||||+|+.+..
T Consensus         2 i~l~G~~GsGKstla~~la~   21 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAK   21 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHH
Confidence            68999999999999999976

Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.

>PRK13975 thymidylate kinase; Provisional

Probab=95.67  E-value=0.0095  Score=48.86  Aligned_cols=23  Identities=39%  Similarity=0.575  Sum_probs=20.7

Q ss_pred             EEEEEEccCCCChHHHHHHhhch
Q 048765          197 HIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..|.|.|+.|+||||+++.+...
T Consensus         3 ~~I~ieG~~GsGKtT~~~~L~~~   25 (196)
T PRK13975          3 KFIVFEGIDGSGKTTQAKLLAEK   25 (196)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            57899999999999999998773

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=95.67  E-value=0.026  Score=54.67  Aligned_cols=72  Identities=14%  Similarity=0.184  Sum_probs=45.1

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhh-cCceeEEEEcCccccHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIR-KFDKILWVCVSETFEEFRVAKAM  247 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~-~F~~~~wv~~~~~~~~~~~~~~i  247 (314)
                      +.++|.++..+.+...+...        ..+.++|++|+||||+++.+..  .... .|...+++.-+.. +...+++.+
T Consensus        18 ~~viG~~~a~~~l~~a~~~~--------~~~ll~G~pG~GKT~la~~la~--~l~~~~~~~~~~~~n~~~-~~~~~~~~v   86 (608)
T TIGR00764        18 DQVIGQEEAVEIIKKAAKQK--------RNVLLIGEPGVGKSMLAKAMAE--LLPDEELEDILVYPNPED-PNMPRIVEV   86 (608)
T ss_pred             hhccCHHHHHHHHHHHHHcC--------CCEEEECCCCCCHHHHHHHHHH--HcCchhheeEEEEeCCCC-CchHHHHHH
Confidence            56889888887777666532        2455999999999999999986  3333 3333444433322 333445555


Q ss_pred             HHHh
Q 048765          248 VEAL  251 (314)
Q Consensus       248 ~~~~  251 (314)
                      +..+
T Consensus        87 ~~~~   90 (608)
T TIGR00764        87 PAGE   90 (608)
T ss_pred             HHhh
Confidence            5444

Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []

Probab=95.66  E-value=0.0087  Score=47.89  Aligned_cols=22  Identities=41%  Similarity=0.486  Sum_probs=18.7

Q ss_pred             EEEEccCCCChHHHHHHhhchH
Q 048765          199 ISIVGMGGIGKTTLAQLACNHE  220 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~~~  220 (314)
                      |.|.|.+|+|||||++.++...
T Consensus         2 i~iTG~pG~GKTTll~k~i~~l   23 (168)
T PF03266_consen    2 IFITGPPGVGKTTLLKKVIEEL   23 (168)
T ss_dssp             EEEES-TTSSHHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHHh
Confidence            6799999999999999998754

It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=95.66  E-value=0.0083  Score=46.29  Aligned_cols=21  Identities=33%  Similarity=0.572  Sum_probs=18.9

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+.|+|+.|+|||||++.+..
T Consensus         1 ~i~i~GpsGsGKstl~~~L~~   21 (137)
T cd00071           1 LIVLSGPSGVGKSTLLKRLLE   21 (137)
T ss_pred             CEEEECCCCCCHHHHHHHHHh
Confidence            368999999999999999976

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.

>PRK14527 adenylate kinase; Provisional

Probab=95.64  E-value=0.01  Score=48.53  Aligned_cols=24  Identities=25%  Similarity=0.329  Sum_probs=21.4

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +..+|.|+|++|+||||+|+.+..
T Consensus         5 ~~~~i~i~G~pGsGKsT~a~~La~   28 (191)
T PRK14527          5 KNKVVIFLGPPGAGKGTQAERLAQ   28 (191)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999998875

>cd03227 ABC_Class2 ABC-type Class 2 contains systems involved in cellular processes other than transport

Probab=95.60  E-value=0.098  Score=41.54  Aligned_cols=21  Identities=29%  Similarity=0.412  Sum_probs=18.9

Q ss_pred             EEEEEEccCCCChHHHHHHhh
Q 048765          197 HIISIVGMGGIGKTTLAQLAC  217 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~  217 (314)
                      ++..|+|+.|.|||++.+.+.
T Consensus        22 ~~~~i~G~NgsGKS~~l~~i~   42 (162)
T cd03227          22 SLTIITGPNGSGKSTILDAIG   42 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHH
Confidence            588999999999999998863

These families are characterised by the fact that the ABC subunit is made up of duplicated, fused ABC modules (ABC2). No known transmembrane proteins or domains are associated with these proteins.

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=95.60  E-value=0.0098  Score=47.84  Aligned_cols=23  Identities=30%  Similarity=0.387  Sum_probs=20.4

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ...|.|+|+.|+||||+++.+..
T Consensus         4 ~~~I~liG~~GaGKStl~~~La~   26 (172)
T PRK05057          4 KRNIFLVGPMGAGKSTIGRQLAQ   26 (172)
T ss_pred             CCEEEEECCCCcCHHHHHHHHHH
Confidence            34689999999999999999876

>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX

Probab=95.59  E-value=0.021  Score=46.92  Aligned_cols=41  Identities=29%  Similarity=0.311  Sum_probs=29.3

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhh
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLAC  217 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~  217 (314)
                      ++++|.+.....|.-....        ..-+.++|++|+|||+||+.+.
T Consensus         3 ~dI~GQe~aKrAL~iAAaG--------~h~lLl~GppGtGKTmlA~~l~   43 (206)
T PF01078_consen    3 SDIVGQEEAKRALEIAAAG--------GHHLLLIGPPGTGKTMLARRLP   43 (206)
T ss_dssp             CCSSSTHHHHHHHHHHHHC--------C--EEEES-CCCTHHHHHHHHH
T ss_pred             hhhcCcHHHHHHHHHHHcC--------CCCeEEECCCCCCHHHHHHHHH
Confidence            4678887777766655543        2478899999999999999874

This is the first unique step in the synthesis of (bacterio)chlorophyll. As a result, it is thought that Mg-chelatase has an important role in channeling intermediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weights between 38-42 kDa.; GO: 0016851 magnesium chelatase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process; PDB: 2X31_J 1G8P_A 3K1J_B.

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=95.59  E-value=0.012  Score=48.48  Aligned_cols=23  Identities=30%  Similarity=0.453  Sum_probs=20.9

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..++.|.|++|+||||+|+.+..
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~   25 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIAR   25 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999998876

>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems

Probab=95.59  E-value=0.011  Score=45.26  Aligned_cols=22  Identities=41%  Similarity=0.637  Sum_probs=20.0

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+++|+|..|+|||||.+.++.
T Consensus        12 ~~~~i~G~nGsGKStLl~~l~g   33 (137)
T PF00005_consen   12 EIVAIVGPNGSGKSTLLKALAG   33 (137)
T ss_dssp             SEEEEEESTTSSHHHHHHHHTT
T ss_pred             CEEEEEccCCCccccceeeecc
Confidence            5889999999999999998865

ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=95.59  E-value=0.051  Score=54.11  Aligned_cols=50  Identities=24%  Similarity=0.222  Sum_probs=32.3

Q ss_pred             cccccchhhHHHHHHHhhccCcC-------CCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELLSKLLCESSE-------QQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~-------~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..+.|.+...+.|.+.+.-.-..       .-...+-+.++|++|+|||+||+.+++
T Consensus       453 ~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~  509 (733)
T TIGR01243       453 SDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVAT  509 (733)
T ss_pred             hhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHH
Confidence            34667666666665544311000       112345578999999999999999987

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.

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=95.58  E-value=0.068  Score=46.17  Aligned_cols=82  Identities=17%  Similarity=0.167  Sum_probs=43.9

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHccCc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGK  275 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~k  275 (314)
                      ..++.|.|..|+||||+++.+...  +...-..++.+.-+.++....     ..++.......   ......++..|+..
T Consensus        80 ~GlilisG~tGSGKTT~l~all~~--i~~~~~~iitiEdp~E~~~~~-----~~q~~v~~~~~---~~~~~~l~~~lR~~  149 (264)
T cd01129          80 HGIILVTGPTGSGKTTTLYSALSE--LNTPEKNIITVEDPVEYQIPG-----INQVQVNEKAG---LTFARGLRAILRQD  149 (264)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHhh--hCCCCCeEEEECCCceecCCC-----ceEEEeCCcCC---cCHHHHHHHHhccC
Confidence            358999999999999999887652  221111223332121111110     01111111111   12345566667777


Q ss_pred             eEEEEEeccccC
Q 048765          276 SFLLVLDDVWDG  287 (314)
Q Consensus       276 r~LlVlDdv~~~  287 (314)
                      .=.|+++++.+.
T Consensus       150 PD~i~vgEiR~~  161 (264)
T cd01129         150 PDIIMVGEIRDA  161 (264)
T ss_pred             CCEEEeccCCCH
Confidence            888999999654

It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=95.56  E-value=0.012  Score=48.82  Aligned_cols=26  Identities=31%  Similarity=0.507  Sum_probs=23.3

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhch
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      +..++|+++|+.|+|||||...+...
T Consensus        20 ~~~~~i~~~G~~gsGKTTli~~l~~~   45 (207)
T TIGR00073        20 HGLVVLNFMSSPGSGKTTLIEKLIDN   45 (207)
T ss_pred             cCcEEEEEECCCCCCHHHHHHHHHHH
Confidence            56899999999999999999988763

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=95.55  E-value=0.024  Score=54.95  Aligned_cols=74  Identities=14%  Similarity=0.146  Sum_probs=51.6

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMV  248 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  248 (314)
                      +.++|.+..++.|...+...        +.+.++|++|+||||+++.+.... ...+|+..+|..-+.. +...+++.+.
T Consensus        31 ~~vigq~~a~~~L~~~~~~~--------~~~l~~G~~G~GKttla~~l~~~l-~~~~~~~~~~~~np~~-~~~~~~~~v~  100 (637)
T PRK13765         31 DQVIGQEHAVEVIKKAAKQR--------RHVMMIGSPGTGKSMLAKAMAELL-PKEELQDILVYPNPED-PNNPKIRTVP  100 (637)
T ss_pred             HHcCChHHHHHHHHHHHHhC--------CeEEEECCCCCcHHHHHHHHHHHc-ChHhHHHheEeeCCCc-chHHHHHHHH
Confidence            56889888888887766532        368899999999999999987632 2234577788766433 5556666666


Q ss_pred             HHhc
Q 048765          249 EALD  252 (314)
Q Consensus       249 ~~~~  252 (314)
                      ..++
T Consensus       101 ~~~G  104 (637)
T PRK13765        101 AGKG  104 (637)
T ss_pred             HhcC
Confidence            5443

>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase)

Probab=95.55  E-value=0.16  Score=44.53  Aligned_cols=26  Identities=23%  Similarity=0.403  Sum_probs=22.2

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhch
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .....|.|+|.+|+|||++.+.+...
T Consensus        36 ~~~~rIllvGktGVGKSSliNsIlG~   61 (313)
T TIGR00991        36 VSSLTILVMGKGGVGKSSTVNSIIGE   61 (313)
T ss_pred             ccceEEEEECCCCCCHHHHHHHHhCC
Confidence            45667889999999999999998764

>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11

Probab=95.54  E-value=0.024  Score=50.22  Aligned_cols=23  Identities=35%  Similarity=0.343  Sum_probs=20.7

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -..+.|+|..|+|||||++.+..
T Consensus       144 ~~~ili~G~tGsGKTTll~al~~  166 (308)
T TIGR02788       144 RKNIIISGGTGSGKTTFLKSLVD  166 (308)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHc
Confidence            46899999999999999998875

The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.

>PRK06936 type III secretion system ATPase; Provisional

Probab=95.51  E-value=0.062  Score=49.51  Aligned_cols=86  Identities=20%  Similarity=0.171  Sum_probs=50.8

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCcccc-HHHHHHHHHHHhcCC-------CCCCCcH-H---
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFE-EFRVAKAMVEALDGH-------ESHLGEF-Q---  262 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~-~~~~~~~i~~~~~~~-------~~~~~~~-~---  262 (314)
                      +-..++|+|..|+|||||.+.++...    .-+.++++-+.+..+ ..++....+..-+..       ..+.... +   
T Consensus       161 ~Gq~~~I~G~sG~GKStLl~~Ia~~~----~~dv~V~~liGERgrEv~ef~~~~l~~~~l~rtvvv~atsd~p~~~R~~a  236 (439)
T PRK06936        161 EGQRMGIFAAAGGGKSTLLASLIRSA----EVDVTVLALIGERGREVREFIESDLGEEGLRKAVLVVATSDRPSMERAKA  236 (439)
T ss_pred             CCCEEEEECCCCCChHHHHHHHhcCC----CCCEEEEEEEccCcHHHHHHHHHHhcccccceeEEEEECCCCCHHHHHHH
Confidence            35688999999999999999998742    235677777766543 333333322211111       0011111 1   


Q ss_pred             -HHHHHHHHHc--cCceEEEEEecc
Q 048765          263 -SLLRHIYESI--AGKSFLLVLDDV  284 (314)
Q Consensus       263 -~~~~~l~~~L--~~kr~LlVlDdv  284 (314)
                       -..-.+.+++  +++..|+++|++
T Consensus       237 ~~~a~tiAEyfrd~G~~Vll~~Dsl  261 (439)
T PRK06936        237 GFVATSIAEYFRDQGKRVLLLMDSV  261 (439)
T ss_pred             HHHHHHHHHHHHHcCCCEEEeccch
Confidence             1122244555  689999999999

>TIGR03305 alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit beta

Probab=95.51  E-value=0.069  Score=49.34  Aligned_cols=89  Identities=16%  Similarity=0.109  Sum_probs=54.6

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCcccc-HHHHHHHHHHHhcCC-------CCCCCc-H----
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFE-EFRVAKAMVEALDGH-------ESHLGE-F----  261 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~-~~~~~~~i~~~~~~~-------~~~~~~-~----  261 (314)
                      +-.-++|.|.+|+|||+|+..+..+.. +.+-+.++|+-+.+..+ ..++...+...-...       ..+... .    
T Consensus       137 kGQr~~Ifg~~G~GKt~l~~~~~~~~~-~~~~~v~V~~~iGeR~rEv~e~~~~~~~~~~l~rtvvv~~ts~~~~~~r~~~  215 (449)
T TIGR03305       137 RGGKAGLFGGAGVGKTVLLTEMIHNMV-GQHQGVSIFCGIGERCREGEELYREMKEAGVLDNTVMVFGQMNEPPGARFRV  215 (449)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHHHH-hcCCCEEEEEEeccCcHHHHHHHHHHhhccccceEEEEEeCCCCCHHHHHHH
Confidence            345789999999999999999877532 23447788888866543 345555554421111       011111 1    


Q ss_pred             HHHHHHHHHHc---cCceEEEEEecc
Q 048765          262 QSLLRHIYESI---AGKSFLLVLDDV  284 (314)
Q Consensus       262 ~~~~~~l~~~L---~~kr~LlVlDdv  284 (314)
                      ....-.+.+++   +++..|+++||+
T Consensus       216 ~~~a~tiAEyfrd~~G~~VLl~~Dsl  241 (449)
T TIGR03305       216 GHTALTMAEYFRDDEKQDVLLLIDNI  241 (449)
T ss_pred             HHHHHHHHHHHHHhcCCceEEEecCh
Confidence            11223345565   468999999999

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.

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

Probab=95.50  E-value=0.05  Score=52.70  Aligned_cols=97  Identities=15%  Similarity=0.206  Sum_probs=52.8

Q ss_pred             ccccchhhHHHHHHHhhccCcC------CCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHH
Q 048765          170 EICGRVGEKNELLSKLLCESSE------QQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRV  243 (314)
Q Consensus       170 ~~vgr~~~~~~l~~~L~~~~~~------~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~  243 (314)
                      ++=|-++-...|.+-+.-.-.+      +-.+.+-|.++|++|.|||-||++|+..  ..     ..|+++-.+      
T Consensus       673 DVGGLeevK~eIldTIqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATE--cs-----L~FlSVKGP------  739 (953)
T KOG0736|consen  673 DVGGLEEVKTEILDTIQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATE--CS-----LNFLSVKGP------  739 (953)
T ss_pred             cccCHHHHHHHHHHHhcCcccChhhhhccccccceeEEECCCCCchHHHHHHHHhh--ce-----eeEEeecCH------
Confidence            3445555566666544321100      1133567889999999999999999873  22     233444332      


Q ss_pred             HHHHHHHhcCCCCCCCcHHHHHHHHHHHccCceEEEEEecccc
Q 048765          244 AKAMVEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWD  286 (314)
Q Consensus       244 ~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~  286 (314)
                        ++++..-+     ...+.+.+-+.+.-..+.|+|+||.+++
T Consensus       740 --ELLNMYVG-----qSE~NVR~VFerAR~A~PCVIFFDELDS  775 (953)
T KOG0736|consen  740 --ELLNMYVG-----QSEENVREVFERARSAAPCVIFFDELDS  775 (953)
T ss_pred             --HHHHHHhc-----chHHHHHHHHHHhhccCCeEEEeccccc
Confidence              12222111     1111122223333367899999999965

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=95.49  E-value=0.078  Score=50.45  Aligned_cols=89  Identities=17%  Similarity=0.116  Sum_probs=54.1

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCC----------------C--
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGH----------------E--  255 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~----------------~--  255 (314)
                      +.-+++.|.|.+|+|||+|+.++.... ...+-..++|++...+  .+++.+.+.. ++-.                .  
T Consensus        29 p~Gs~~li~G~pGsGKT~l~~qf~~~~-~~~~ge~~lyis~ee~--~~~i~~~~~~-~g~d~~~~~~~g~l~~~~~~~~~  104 (509)
T PRK09302         29 PKGRPTLVSGTAGTGKTLFALQFLVNG-IKRFDEPGVFVTFEES--PEDIIRNVAS-FGWDLQKLIDEGKLFILDASPDP  104 (509)
T ss_pred             CCCcEEEEEeCCCCCHHHHHHHHHHHH-HHhcCCCEEEEEccCC--HHHHHHHHHH-cCCCHHHHhhCCeEEEEecCccc
Confidence            456799999999999999999886532 2222357889987763  4444444332 2211                0  


Q ss_pred             -----CCCCcHHHHHHHHHHHcc-CceEEEEEecccc
Q 048765          256 -----SHLGEFQSLLRHIYESIA-GKSFLLVLDDVWD  286 (314)
Q Consensus       256 -----~~~~~~~~~~~~l~~~L~-~kr~LlVlDdv~~  286 (314)
                           ....+...+...+.+.+. .+.-.+|||.+-.
T Consensus       105 ~~~~~~~~~~~~~l~~~l~~~i~~~~~~~vVIDSls~  141 (509)
T PRK09302        105 SEQEEAGEYDLEALFIRIEYAIDKIGAKRVVLDSIEA  141 (509)
T ss_pred             ccccccccccHHHHHHHHHHHHHhhCCCEEEECCHHH
Confidence                 001134455566665553 3445799999954

>PRK13948 shikimate kinase; Provisional

Probab=95.49  E-value=0.012  Score=47.76  Aligned_cols=25  Identities=16%  Similarity=0.357  Sum_probs=21.8

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .....|.++|+.|+||||+++.+..
T Consensus         8 ~~~~~I~LiG~~GsGKSTvg~~La~   32 (182)
T PRK13948          8 RPVTWVALAGFMGTGKSRIGWELSR   32 (182)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHH
Confidence            3457889999999999999999876

>PRK14737 gmk guanylate kinase; Provisional

Probab=95.48  E-value=0.014  Score=47.63  Aligned_cols=24  Identities=25%  Similarity=0.332  Sum_probs=21.6

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ...+|.|+|+.|+|||||++.+..
T Consensus         3 ~~~~ivl~GpsG~GK~tl~~~l~~   26 (186)
T PRK14737          3 SPKLFIISSVAGGGKSTIIQALLE   26 (186)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHh
Confidence            457899999999999999999976

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=95.47  E-value=0.015  Score=42.63  Aligned_cols=22  Identities=41%  Similarity=0.348  Sum_probs=19.6

Q ss_pred             eEEEEEEccCCCChHHHHHHhh
Q 048765          196 LHIISIVGMGGIGKTTLAQLAC  217 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~  217 (314)
                      -..++|+|+.|+|||||++.+.
T Consensus        15 ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          15 KVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             CEEEEEEcCCCCCHHHHHHHhh
Confidence            4688999999999999999875

It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural

>PRK09099 type III secretion system ATPase; Provisional

Probab=95.47  E-value=0.057  Score=49.89  Aligned_cols=87  Identities=16%  Similarity=0.142  Sum_probs=47.9

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCC-------CCCCCcH-----H
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGH-------ESHLGEF-----Q  262 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~-------~~~~~~~-----~  262 (314)
                      +-..++|.|..|+|||||++.+......   -..+++..-.......++...+...-...       ..+....     .
T Consensus       162 ~Gq~~~I~G~sG~GKTtLl~~ia~~~~~---d~~vi~~iGer~~ev~ef~~~~~~~~~l~rtvvv~~tsd~p~~~r~~a~  238 (441)
T PRK09099        162 EGQRMGIFAPAGVGKSTLMGMFARGTQC---DVNVIALIGERGREVREFIELILGEDGMARSVVVCATSDRSSIERAKAA  238 (441)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCC---CeEEEEEEccChHHHHHHHHHHhhcCCcceEEEEEECCCCCHHHHHHHH
Confidence            3468899999999999999998763221   12333333223334444444444331111       0011101     1


Q ss_pred             HHHHHHHHHc--cCceEEEEEecc
Q 048765          263 SLLRHIYESI--AGKSFLLVLDDV  284 (314)
Q Consensus       263 ~~~~~l~~~L--~~kr~LlVlDdv  284 (314)
                      -..-.+.+++  +++..|+++|++
T Consensus       239 ~~a~tiAEyfrd~G~~VLl~~Dsl  262 (441)
T PRK09099        239 YVATAIAEYFRDRGLRVLLMMDSL  262 (441)
T ss_pred             HHHHHHHHHHHHcCCCEEEeccch
Confidence            1222344555  689999999999

>TIGR01818 ntrC nitrogen regulation protein NR(I)

Probab=95.45  E-value=0.05  Score=50.99  Aligned_cols=131  Identities=17%  Similarity=0.167  Sum_probs=69.1

Q ss_pred             ccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHH
Q 048765          170 EICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVE  249 (314)
Q Consensus       170 ~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~  249 (314)
                      .++|......++...+..-.    .....+.|.|..|+||+++|+.+....  .......+-+++...  ..+.+...+ 
T Consensus       135 ~lig~s~~~~~v~~~i~~~a----~~~~~vli~Ge~GtGK~~~A~~ih~~~--~~~~~~~~~~~c~~~--~~~~~~~~l-  205 (463)
T TIGR01818       135 ELIGEAPAMQEVFRAIGRLS----RSDITVLINGESGTGKELVARALHRHS--PRANGPFIALNMAAI--PKDLIESEL-  205 (463)
T ss_pred             ceeecCHHHHHHHHHHHHHh----CcCCeEEEECCCCCCHHHHHHHHHHhC--CCCCCCeEEEeCCCC--CHHHHHHHh-
Confidence            46776666666666554322    223456799999999999999997632  222334445565543  223322222 


Q ss_pred             HhcCCCCCC-CcHHHHHHHHHHHccCceEEEEEeccccCCccCHHhHHHhhccCC-----------CCceEEEecc
Q 048765          250 ALDGHESHL-GEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGL-----------HGSKILVTTR  313 (314)
Q Consensus       250 ~~~~~~~~~-~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~iivTtR  313 (314)
                       ++...... ....   ......-....-.|+||++..........|...+..+.           ...+||+||.
T Consensus       206 -fg~~~~~~~~~~~---~~~g~~~~a~~gtl~l~ei~~l~~~~q~~ll~~l~~~~~~~~~~~~~~~~~~rii~~~~  277 (463)
T TIGR01818       206 -FGHEKGAFTGANT---RRQGRFEQADGGTLFLDEIGDMPLDAQTRLLRVLADGEFYRVGGRTPIKVDVRIVAATH  277 (463)
T ss_pred             -cCCCCCCCCCccc---CCCCcEEECCCCeEEEEchhhCCHHHHHHHHHHHhcCcEEECCCCceeeeeeEEEEeCC
Confidence             22111000 0000   00000112234458999998765555566777665431           1347888874

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.

>PLN02200 adenylate kinase family protein

Probab=95.45  E-value=0.014  Score=49.46  Aligned_cols=24  Identities=25%  Similarity=0.253  Sum_probs=21.0

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ...+|.|+|++|+||||+++.+..
T Consensus        42 ~~~ii~I~G~PGSGKsT~a~~La~   65 (234)
T PLN02200         42 TPFITFVLGGPGSGKGTQCEKIVE   65 (234)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            456889999999999999998865

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=95.45  E-value=0.017  Score=51.72  Aligned_cols=48  Identities=21%  Similarity=0.231  Sum_probs=37.5

Q ss_pred             ccccccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          166 IDEEEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       166 ~~~~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ++-+.++|.++....|...+.+      +.+.-+.|.|..|+||||+|+.++..
T Consensus        14 ~pf~~ivGq~~~k~al~~~~~~------p~~~~vli~G~~GtGKs~~ar~~~~~   61 (350)
T CHL00081         14 FPFTAIVGQEEMKLALILNVID------PKIGGVMIMGDRGTGKSTTIRALVDL   61 (350)
T ss_pred             CCHHHHhChHHHHHHHHHhccC------CCCCeEEEEcCCCCCHHHHHHHHHHH
Confidence            3446799998888877776655      33556779999999999999999764

>cd03284 ABC_MutS1 MutS1 homolog in eukaryotes

Probab=95.43  E-value=0.043  Score=45.90  Aligned_cols=22  Identities=27%  Similarity=0.309  Sum_probs=19.9

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .++.|.|+.|.||||+.+.+..
T Consensus        31 ~~~~l~Gpn~sGKstllr~i~~   52 (216)
T cd03284          31 QILLITGPNMAGKSTYLRQVAL   52 (216)
T ss_pred             eEEEEECCCCCChHHHHHHHHH
Confidence            7889999999999999999853

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

>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse

Probab=95.42  E-value=0.014  Score=43.45  Aligned_cols=20  Identities=30%  Similarity=0.556  Sum_probs=18.8

Q ss_pred             EEEEccCCCChHHHHHHhhc
Q 048765          199 ISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~  218 (314)
                      |+|+|+.|+|||||.+.+..
T Consensus         2 V~iiG~~~~GKSTlin~l~~   21 (116)
T PF01926_consen    2 VAIIGRPNVGKSTLINALTG   21 (116)
T ss_dssp             EEEEESTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHhc
Confidence            68999999999999999986

These proteins represent a new subfamily of GTP-binding proteins that has both prokaryote and eukaryote members [].; GO: 0005525 GTP binding, 0005622 intracellular; PDB: 2DWQ_B 2DBY_A 3CNN_A 3CNO_A 3CNL_A 3IBY_A 1PUI_B 1WXQ_A 1LNZ_A 3GEE_A ....

>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA

Probab=95.41  E-value=0.14  Score=50.87  Aligned_cols=23  Identities=35%  Similarity=0.530  Sum_probs=20.1

Q ss_pred             EEEEEEccCCCChHHHHHHhhch
Q 048765          197 HIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ++..|.|.+|+||||+++.+..-
T Consensus       369 ~~~il~G~aGTGKTtll~~i~~~  391 (744)
T TIGR02768       369 DIAVVVGRAGTGKSTMLKAAREA  391 (744)
T ss_pred             CEEEEEecCCCCHHHHHHHHHHH
Confidence            47789999999999999998763

This protein contains domains distinctive of a single strand exonuclease (N-terminus, MobA/MobL, pfam03389) as well as a helicase domain (central region, homologous to the corresponding region of the F-type relaxase TraI, TIGR02760). This protein likely fills the same role as TraI(F), nicking (at the oriT site) and unwinding the coiled plasmid prior to conjugative transfer.

>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional

Probab=95.41  E-value=0.023  Score=49.28  Aligned_cols=35  Identities=29%  Similarity=0.328  Sum_probs=26.5

Q ss_pred             EEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEc
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCV  234 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~  234 (314)
                      ++++|+|..|+|||||+..+...  ..... .+..|..
T Consensus         2 ~~i~i~G~~gSGKTTLi~~Li~~--L~~~G-~V~~IKh   36 (274)
T PRK14493          2 KVLSIVGYKATGKTTLVERLVDR--LSGRG-RVGTVKH   36 (274)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH--HHhCC-CEEEEEE
Confidence            58999999999999999999874  33333 3555554

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=95.41  E-value=0.011  Score=46.66  Aligned_cols=23  Identities=35%  Similarity=0.417  Sum_probs=20.3

Q ss_pred             EEEEEccCCCChHHHHHHhhchH
Q 048765          198 IISIVGMGGIGKTTLAQLACNHE  220 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~~  220 (314)
                      |++|+|+.|+|||||+..+....
T Consensus         1 vi~i~G~~gsGKTtl~~~l~~~l   23 (155)
T TIGR00176         1 VLQIVGPKNSGKTTLIERLVKAL   23 (155)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            57899999999999999998843

This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.

>cd01136 ATPase_flagellum-secretory_path_III Flagellum-specific ATPase/type III secretory pathway virulence-related protein

Probab=95.40  E-value=0.13  Score=45.74  Aligned_cols=85  Identities=20%  Similarity=0.164  Sum_probs=47.7

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCc-cccHHHHHHHHHHHhcCC-------CCCC-CcH----H
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSE-TFEEFRVAKAMVEALDGH-------ESHL-GEF----Q  262 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~~~~~-------~~~~-~~~----~  262 (314)
                      -..++|+|..|+|||||.+.+.....    -++....-+.. ......+....+..-...       ..+. ...    .
T Consensus        69 Gqri~I~G~sG~GKTtLl~~Ia~~~~----~~~~vi~~iGer~~ev~~~~~~~~~~~~l~rtvvv~~t~d~~~~~r~~~~  144 (326)
T cd01136          69 GQRLGIFAGSGVGKSTLLGMIARGTT----ADVNVIALIGERGREVREFIEKDLGEEGLKRSVVVVATSDESPLLRVKAA  144 (326)
T ss_pred             CcEEEEECCCCCChHHHHHHHhCCCC----CCEEEEEEEecCCccHHHHHHHHHhcCccceEEEEEcCCCCCHHHHHHHH
Confidence            35789999999999999998876322    23333343432 234444444444432111       0111 111    1


Q ss_pred             HHHHHHHHHc--cCceEEEEEecc
Q 048765          263 SLLRHIYESI--AGKSFLLVLDDV  284 (314)
Q Consensus       263 ~~~~~l~~~L--~~kr~LlVlDdv  284 (314)
                      ...-.+.+++  ++|..||++||+
T Consensus       145 ~~a~~~AEyfr~~g~~Vll~~Dsl  168 (326)
T cd01136         145 YTATAIAEYFRDQGKDVLLLMDSL  168 (326)
T ss_pred             HHHHHHHHHHHHcCCCeEEEeccc
Confidence            1223344454  689999999998

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.

>PRK04132 replication factor C small subunit; Provisional

Probab=95.39  E-value=0.11  Score=52.00  Aligned_cols=93  Identities=10%  Similarity=-0.000  Sum_probs=58.0

Q ss_pred             cCCCChHHHHHHhhchHhhhhcC-ceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHc-cCceEEEEE
Q 048765          204 MGGIGKTTLAQLACNHEEVIRKF-DKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESI-AGKSFLLVL  281 (314)
Q Consensus       204 ~~G~GKTtLa~~v~~~~~~~~~F-~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L-~~kr~LlVl  281 (314)
                      |.++||||+|..+++..- .+.+ ...+-++.++..+... .+.++..+....+               + ..+.-++||
T Consensus       574 Ph~lGKTT~A~ala~~l~-g~~~~~~~lElNASd~rgid~-IR~iIk~~a~~~~---------------~~~~~~KVvII  636 (846)
T PRK04132        574 PTVLHNTTAALALARELF-GENWRHNFLELNASDERGINV-IREKVKEFARTKP---------------IGGASFKIIFL  636 (846)
T ss_pred             CCcccHHHHHHHHHHhhh-cccccCeEEEEeCCCcccHHH-HHHHHHHHHhcCC---------------cCCCCCEEEEE
Confidence            678999999999987321 1122 2466677776555443 3344433321110               1 124579999


Q ss_pred             eccccCCccCHHhHHHhhccCCCCceEEEecc
Q 048765          282 DDVWDGNYVKWEPFYHCLKNGLHGSKILVTTR  313 (314)
Q Consensus       282 Ddv~~~~~~~~~~l~~~l~~~~~gs~iivTtR  313 (314)
                      |+++..+....+.|...+..-...+++|++|-
T Consensus       637 DEaD~Lt~~AQnALLk~lEep~~~~~FILi~N  668 (846)
T PRK04132        637 DEADALTQDAQQALRRTMEMFSSNVRFILSCN  668 (846)
T ss_pred             ECcccCCHHHHHHHHHHhhCCCCCeEEEEEeC
Confidence            99988876677888888875555667777653

>cd02029 PRK_like Phosphoribulokinase-like (PRK-like) is a family of proteins similar to phosphoribulokinase (PRK), the enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes

Probab=95.38  E-value=0.056  Score=46.34  Aligned_cols=21  Identities=29%  Similarity=0.509  Sum_probs=19.1

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +|+|.|..|+||||+++.+..
T Consensus         1 IIgItG~SGSGKTTv~~~l~~   21 (277)
T cd02029           1 VIAVTGSSGAGTTTVKRAFEH   21 (277)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998876

PRK catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH produced by the primary reactions of photosynthesis.

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=95.38  E-value=0.012  Score=49.14  Aligned_cols=24  Identities=42%  Similarity=0.624  Sum_probs=20.8

Q ss_pred             EEEEEEccCCCChHHHHHHhhchH
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHE  220 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~  220 (314)
                      .-|.|+|++|+|||||+..+..+.
T Consensus         6 ~kivv~G~~g~GKTtl~~~l~~~~   29 (219)
T COG1100           6 FKIVVLGDGGVGKTTLLNRLVGDE   29 (219)
T ss_pred             EEEEEEcCCCccHHHHHHHHhcCc
Confidence            567899999999999999998653

>TIGR03600 phage_DnaB phage replicative helicase, DnaB family, HK022 subfamily

Probab=95.37  E-value=0.17  Score=46.84  Aligned_cols=54  Identities=17%  Similarity=0.195  Sum_probs=35.9

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHh
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEAL  251 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~  251 (314)
                      .-.++.|-|.+|+|||+++..+..+..... -..++|++..  .+...+...++...
T Consensus       193 ~g~liviag~pg~GKT~~al~ia~~~a~~~-g~~v~~fSlE--m~~~~l~~Rl~~~~  246 (421)
T TIGR03600       193 KGDLIVIGARPSMGKTTLALNIAENVALRE-GKPVLFFSLE--MSAEQLGERLLASK  246 (421)
T ss_pred             CCceEEEEeCCCCCHHHHHHHHHHHHHHhC-CCcEEEEECC--CCHHHHHHHHHHHH
Confidence            345888999999999999999986443232 2346666543  35566666655543

Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model.

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

Probab=95.37  E-value=0.19  Score=42.55  Aligned_cols=98  Identities=21%  Similarity=0.301  Sum_probs=60.7

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcC-ccccHHHHHHHHHHHhcCCCCCCCcH----HHHHHHHHH
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVS-ETFEEFRVAKAMVEALDGHESHLGEF----QSLLRHIYE  270 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~-~~~~~~~~~~~i~~~~~~~~~~~~~~----~~~~~~l~~  270 (314)
                      -.++.++|.-|+|||.+.+....  ...+  +.++=+.+. ...+...+...|...+...+  ....    ......+.+
T Consensus        51 qg~~~vtGevGsGKTv~~Ral~~--s~~~--d~~~~v~i~~~~~s~~~~~~ai~~~l~~~p--~~~~~~~~e~~~~~L~a  124 (269)
T COG3267          51 QGILAVTGEVGSGKTVLRRALLA--SLNE--DQVAVVVIDKPTLSDATLLEAIVADLESQP--KVNVNAVLEQIDRELAA  124 (269)
T ss_pred             CceEEEEecCCCchhHHHHHHHH--hcCC--CceEEEEecCcchhHHHHHHHHHHHhccCc--cchhHHHHHHHHHHHHH
Confidence            46899999999999999994432  2111  222223443 34466677778888876632  2222    233344444


Q ss_pred             Hc-cCce-EEEEEeccccCCccCHHhHHHhh
Q 048765          271 SI-AGKS-FLLVLDDVWDGNYVKWEPFYHCL  299 (314)
Q Consensus       271 ~L-~~kr-~LlVlDdv~~~~~~~~~~l~~~l  299 (314)
                      .. +++| ..+++|+....+.+..+.++-..
T Consensus       125 l~~~g~r~v~l~vdEah~L~~~~le~Lrll~  155 (269)
T COG3267         125 LVKKGKRPVVLMVDEAHDLNDSALEALRLLT  155 (269)
T ss_pred             HHHhCCCCeEEeehhHhhhChhHHHHHHHHH
Confidence            44 6777 99999999876656666665544

>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=95.37  E-value=0.057  Score=49.18  Aligned_cols=67  Identities=18%  Similarity=0.162  Sum_probs=45.2

Q ss_pred             chhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHH-HHhhchHhhhhcCceeEEEEcCcc---ccHHHHHHHHHH
Q 048765          174 RVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLA-QLACNHEEVIRKFDKILWVCVSET---FEEFRVAKAMVE  249 (314)
Q Consensus       174 r~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa-~~v~~~~~~~~~F~~~~wv~~~~~---~~~~~~~~~i~~  249 (314)
                      |.+..+.|..||....      -..|.|.||.|+||+.|+ .++..+      ...+..++|.+-   .+-..++..++.
T Consensus         1 R~e~~~~L~~wL~e~~------~TFIvV~GPrGSGK~elV~d~~L~~------r~~vL~IDC~~i~~ar~D~~~I~~lA~   68 (431)
T PF10443_consen    1 RKEAIEQLKSWLNENP------NTFIVVQGPRGSGKRELVMDHVLKD------RKNVLVIDCDQIVKARGDAAFIKNLAS   68 (431)
T ss_pred             CchHHHHHHHHHhcCC------CeEEEEECCCCCCccHHHHHHHHhC------CCCEEEEEChHhhhccChHHHHHHHHH
Confidence            5667889999998654      358899999999999999 666543      223777776432   233445555555


Q ss_pred             Hhc
Q 048765          250 ALD  252 (314)
Q Consensus       250 ~~~  252 (314)
                      ++|
T Consensus        69 qvG   71 (431)
T PF10443_consen   69 QVG   71 (431)
T ss_pred             hcC
Confidence            543

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 [].

>TIGR01448 recD_rel helicase, putative, RecD/TraA family

Probab=95.36  E-value=0.098  Score=51.80  Aligned_cols=40  Identities=18%  Similarity=0.202  Sum_probs=27.3

Q ss_pred             EEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCcc
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSET  237 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~  237 (314)
                      +++.|.|.+|+||||+++.+......... ...+++..+..
T Consensus       339 ~~~iitGgpGTGKTt~l~~i~~~~~~~~~-~~~v~l~ApTg  378 (720)
T TIGR01448       339 KVVILTGGPGTGKTTITRAIIELAEELGG-LLPVGLAAPTG  378 (720)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHcCC-CceEEEEeCch
Confidence            47889999999999999998774332211 13456655544

This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.

>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=95.35  E-value=0.036  Score=49.03  Aligned_cols=23  Identities=39%  Similarity=0.632  Sum_probs=19.8

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+++.+.|.||+||||+|....-
T Consensus         2 ~riv~f~GKGGVGKTT~aaA~A~   24 (322)
T COG0003           2 TRIVFFTGKGGVGKTTIAAATAV   24 (322)
T ss_pred             cEEEEEecCCcccHHHHHHHHHH
Confidence            47899999999999999988543

>PRK08356 hypothetical protein; Provisional

Probab=95.34  E-value=0.018  Score=47.37  Aligned_cols=21  Identities=38%  Similarity=0.496  Sum_probs=19.1

Q ss_pred             eEEEEEEccCCCChHHHHHHh
Q 048765          196 LHIISIVGMGGIGKTTLAQLA  216 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v  216 (314)
                      ..+|.|+|++|+||||+|+.+
T Consensus         5 ~~~i~~~G~~gsGK~t~a~~l   25 (195)
T PRK08356          5 KMIVGVVGKIAAGKTTVAKFF   25 (195)
T ss_pred             cEEEEEECCCCCCHHHHHHHH
Confidence            357899999999999999988

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=95.33  E-value=0.015  Score=48.72  Aligned_cols=24  Identities=42%  Similarity=0.559  Sum_probs=20.8

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .-.+++|+|..|+|||||++.+.-
T Consensus        32 ~Ge~lgivGeSGsGKSTL~r~l~G   55 (252)
T COG1124          32 RGETLGIVGESGSGKSTLARLLAG   55 (252)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhc
Confidence            345899999999999999998854

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=95.32  E-value=0.015  Score=47.83  Aligned_cols=36  Identities=28%  Similarity=0.249  Sum_probs=25.9

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEE
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVC  233 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~  233 (314)
                      +-.|+.|+|+.|+|||||.+.+..-+..   =...+|++
T Consensus        27 ~Gevv~iiGpSGSGKSTlLRclN~LE~~---~~G~I~i~   62 (240)
T COG1126          27 KGEVVVIIGPSGSGKSTLLRCLNGLEEP---DSGSITVD   62 (240)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCCcCC---CCceEEEC
Confidence            3469999999999999999988553322   23455554

>COG2842 Uncharacterized ATPase, putative transposase [General function prediction only]

Probab=95.32  E-value=0.12  Score=44.65  Aligned_cols=96  Identities=16%  Similarity=0.200  Sum_probs=65.4

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHccCc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGK  275 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~k  275 (314)
                      -+...++|..|+|||+-++.+++.      ....+.+..+..++...+...+.......  ......+....+...+.+.
T Consensus        94 g~l~~vyg~~g~gKt~a~~~y~~s------~p~~~l~~~~p~~~a~~~i~~i~~~~~~~--~~~~~~d~~~~~~~~l~~~  165 (297)
T COG2842          94 GSLVVVYGYAGLGKTQAAKNYAPS------NPNALLIEADPSYTALVLILIICAAAFGA--TDGTINDLTERLMIRLRDT  165 (297)
T ss_pred             CceEEEeccccchhHHHHHhhccc------CccceeecCChhhHHHHHHHHHHHHHhcc--cchhHHHHHHHHHHHHccC
Confidence            348889999999999999988772      12233345666667766666666555432  2234556667777777889


Q ss_pred             eEEEEEeccccCCccCHHhHHHhh
Q 048765          276 SFLLVLDDVWDGNYVKWEPFYHCL  299 (314)
Q Consensus       276 r~LlVlDdv~~~~~~~~~~l~~~l  299 (314)
                      .-+|+.|+........++.|....
T Consensus       166 ~~~iivDEA~~L~~~ale~lr~i~  189 (297)
T COG2842         166 VRLIIVDEADRLPYRALEELRRIH  189 (297)
T ss_pred             cceeeeehhhccChHHHHHHHHHH
Confidence            999999998776555666665433

>PRK06761 hypothetical protein; Provisional

Probab=95.31  E-value=0.028  Score=48.74  Aligned_cols=23  Identities=35%  Similarity=0.570  Sum_probs=21.0

Q ss_pred             EEEEEEccCCCChHHHHHHhhch
Q 048765          197 HIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ++|.|.|++|+||||+++.++..
T Consensus         4 ~lIvI~G~~GsGKTTla~~L~~~   26 (282)
T PRK06761          4 KLIIIEGLPGFGKSTTAKMLNDI   26 (282)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHh
Confidence            57899999999999999999874

>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]

Probab=95.31  E-value=0.016  Score=45.51  Aligned_cols=23  Identities=35%  Similarity=0.657  Sum_probs=20.1

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+++.|+|.+|+||||+.+.+..
T Consensus         4 ~kvvvitGVpGvGKTTVl~~~~~   26 (189)
T COG2019           4 RKVVVITGVPGVGKTTVLKIALK   26 (189)
T ss_pred             ceEEEEEcCCCCChHHHHHHHHH
Confidence            68999999999999999877654

>PF05707 Zot: Zonular occludens toxin (Zot); InterPro: IPR008900 This entry consists of bacterial and viral proteins which are very similar to the Zonular occludens toxin (Zot)

Probab=95.30  E-value=0.017  Score=47.44  Aligned_cols=40  Identities=23%  Similarity=0.331  Sum_probs=23.6

Q ss_pred             ceEEEEEeccccC-CccCH-----HhHHHhhc-cCCCCceEEEeccC
Q 048765          275 KSFLLVLDDVWDG-NYVKW-----EPFYHCLK-NGLHGSKILVTTRK  314 (314)
Q Consensus       275 kr~LlVlDdv~~~-~~~~~-----~~l~~~l~-~~~~gs~iivTtR~  314 (314)
                      +..|||||+++.. ....|     ......|. ....|.-|++||++
T Consensus        79 ~~~liviDEa~~~~~~r~~~~~~~~~~~~~l~~hRh~g~diiliTQ~  125 (193)
T PF05707_consen   79 KGSLIVIDEAQNFFPSRSWKGKKVPEIIEFLAQHRHYGWDIILITQS  125 (193)
T ss_dssp             TT-EEEETTGGGTSB---T-T----HHHHGGGGCCCTT-EEEEEES-
T ss_pred             CCcEEEEECChhhcCCCccccccchHHHHHHHHhCcCCcEEEEEeCC
Confidence            6789999999642 11233     23335554 56779999999985

Zot is elaborated by bacteriophage present in toxigenic strains of Vibrio cholerae. Zot is a single polypeptide chain of 44.8 kDa, with the ability to reversibly alter intestinal epithelial tight junctions, allowing the passage of macromolecules through mucosal barriers.; PDB: 2R2A_B.

>PF02374 ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_A 3IBG_B 3SJA_A 3H84_B 3SJD_A 3ZS9_A 3A37_A 2WOJ_A 3SJC_B 3A36_B

Probab=95.29  E-value=0.035  Score=48.96  Aligned_cols=22  Identities=41%  Similarity=0.572  Sum_probs=18.9

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +++.+.|-||+||||+|....-
T Consensus         2 r~~~~~GKGGVGKTT~aaA~A~   23 (305)
T PF02374_consen    2 RILFFGGKGGVGKTTVAAALAL   23 (305)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEecCCCCCcHHHHHHHHH
Confidence            5789999999999999976644

...

>PRK13946 shikimate kinase; Provisional

Probab=95.29  E-value=0.014  Score=47.51  Aligned_cols=23  Identities=26%  Similarity=0.481  Sum_probs=20.7

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+.|.++|+.|+||||+++.+..
T Consensus        10 ~~~I~l~G~~GsGKsti~~~LA~   32 (184)
T PRK13946         10 KRTVVLVGLMGAGKSTVGRRLAT   32 (184)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH
Confidence            45799999999999999999876

>PRK06793 fliI flagellum-specific ATP synthase; Validated

Probab=95.27  E-value=0.057  Score=49.73  Aligned_cols=89  Identities=18%  Similarity=0.133  Sum_probs=50.0

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCC--------CCCCCc----HH
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGH--------ESHLGE----FQ  262 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~--------~~~~~~----~~  262 (314)
                      +-..++|+|..|+|||||.+.++.....   ...++.+.-.......+++...+..-+..        ......    ..
T Consensus       155 ~Gqri~I~G~sG~GKTtLl~~Ia~~~~~---~~gvI~~iGerg~ev~e~~~~~l~~~gl~~tvvv~~tsd~s~~~r~ra~  231 (432)
T PRK06793        155 IGQKIGIFAGSGVGKSTLLGMIAKNAKA---DINVISLVGERGREVKDFIRKELGEEGMRKSVVVVATSDESHLMQLRAA  231 (432)
T ss_pred             CCcEEEEECCCCCChHHHHHHHhccCCC---CeEEEEeCCCCcccHHHHHHHHhhhcccceeEEEEECCCCCHHHHHHHH
Confidence            3457899999999999999988764321   12233222223345556655554432211        011111    11


Q ss_pred             HHHHHHHHHc--cCceEEEEEecccc
Q 048765          263 SLLRHIYESI--AGKSFLLVLDDVWD  286 (314)
Q Consensus       263 ~~~~~l~~~L--~~kr~LlVlDdv~~  286 (314)
                      .....+.+++  +++..||++|++-.
T Consensus       232 ~~a~~iAEyfr~~G~~VLlilDslTr  257 (432)
T PRK06793        232 KLATSIAEYFRDQGNNVLLMMDSVTR  257 (432)
T ss_pred             HHHHHHHHHHHHcCCcEEEEecchHH
Confidence            2223344555  68999999999943

>TIGR03496 FliI_clade1 flagellar protein export ATPase FliI

Probab=95.26  E-value=0.1  Score=47.92  Aligned_cols=85  Identities=19%  Similarity=0.180  Sum_probs=47.3

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccc-cHHHHHHHHHHHhcCC--------CCCCCcH----H
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETF-EEFRVAKAMVEALDGH--------ESHLGEF----Q  262 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~~~~~--------~~~~~~~----~  262 (314)
                      -..++|+|..|+|||||.+.+....    ..+..+...+.+.. ...++...+...-...        .......    .
T Consensus       137 Gq~~~I~G~sG~GKTtLl~~I~~~~----~~~~~vi~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~tsd~~~~~r~~a~  212 (411)
T TIGR03496       137 GQRMGIFAGSGVGKSTLLGMMARYT----EADVVVVGLIGERGREVKEFIEDILGEEGLARSVVVAATADESPLMRLRAA  212 (411)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcCC----CCCEEEEEEEecChHHHHHHHHHHhhCCCcceEEEEEECCCCCHHHHHHHH
Confidence            4578999999999999998887632    12334444454432 3344444433321110        0111111    1


Q ss_pred             HHHHHHHHHc--cCceEEEEEecc
Q 048765          263 SLLRHIYESI--AGKSFLLVLDDV  284 (314)
Q Consensus       263 ~~~~~l~~~L--~~kr~LlVlDdv  284 (314)
                      ...-.+.+++  +++..||++||+
T Consensus       213 ~~a~tiAEyfr~~G~~Vll~~Dsl  236 (411)
T TIGR03496       213 FYATAIAEYFRDQGKDVLLLMDSL  236 (411)
T ss_pred             HHHHHHHHHHHHCCCCEEEEEeCh
Confidence            1222344555  689999999999

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.

>PRK05688 fliI flagellum-specific ATP synthase; Validated

Probab=95.25  E-value=0.11  Score=48.15  Aligned_cols=85  Identities=18%  Similarity=0.193  Sum_probs=48.0

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccc-cHHHHHHHHHHHhcCC-------CCCCCcH-----H
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETF-EEFRVAKAMVEALDGH-------ESHLGEF-----Q  262 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~~~~~-------~~~~~~~-----~  262 (314)
                      -..++|+|..|+|||||++.+....    ..+.++...+.... ....+...+...-...       ..+....     .
T Consensus       168 GqrigI~G~sG~GKSTLl~~I~g~~----~~dv~V~g~Ig~rg~ev~~~~~~~~~~~~l~rsvvv~atsd~~p~~r~~a~  243 (451)
T PRK05688        168 GQRLGLFAGTGVGKSVLLGMMTRFT----EADIIVVGLIGERGREVKEFIEHILGEEGLKRSVVVASPADDAPLMRLRAA  243 (451)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCC----CCCEEEEEEeCcCcHhHHHHHHHHhhcCCccEEEEEEECCCCCHHHHHHHH
Confidence            4578999999999999999887632    23444444444332 3344444443332111       0111111     1


Q ss_pred             HHHHHHHHHc--cCceEEEEEecc
Q 048765          263 SLLRHIYESI--AGKSFLLVLDDV  284 (314)
Q Consensus       263 ~~~~~l~~~L--~~kr~LlVlDdv  284 (314)
                      ...-.+.+++  +++..||++||+
T Consensus       244 ~~a~aiAEyfrd~G~~VLl~~Dsl  267 (451)
T PRK05688        244 MYCTRIAEYFRDKGKNVLLLMDSL  267 (451)
T ss_pred             HHHHHHHHHHHHCCCCEEEEecch
Confidence            1223344555  689999999999

>PRK14532 adenylate kinase; Provisional

Probab=95.25  E-value=0.014  Score=47.56  Aligned_cols=20  Identities=25%  Similarity=0.288  Sum_probs=18.2

Q ss_pred             EEEEccCCCChHHHHHHhhc
Q 048765          199 ISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~  218 (314)
                      |.++|++|+||||+++.+..
T Consensus         3 i~~~G~pGsGKsT~a~~la~   22 (188)
T PRK14532          3 LILFGPPAAGKGTQAKRLVE   22 (188)
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            77899999999999998865

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=95.24  E-value=0.04  Score=45.89  Aligned_cols=42  Identities=31%  Similarity=0.379  Sum_probs=26.7

Q ss_pred             EEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccH
Q 048765          198 IISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEE  240 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~  240 (314)
                      .|+|+|-||+||||++..+....-.++.|+ +.=|+...++++
T Consensus         2 kIaI~GKGG~GKTtiaalll~~l~~~~~~~-VLvVDaDpd~nL   43 (255)
T COG3640           2 KIAITGKGGVGKTTIAALLLKRLLSKGGYN-VLVVDADPDSNL   43 (255)
T ss_pred             eEEEecCCCccHHHHHHHHHHHHHhcCCce-EEEEeCCCCCCh
Confidence            589999999999999988544222222133 444565555544

>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.23  E-value=0.1  Score=47.59  Aligned_cols=23  Identities=22%  Similarity=0.257  Sum_probs=19.6

Q ss_pred             EEEEEEccCCCChHHHHHHhhch
Q 048765          197 HIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      +--.++||+|.|||+++.++++.
T Consensus       236 RGYLLYGPPGTGKSS~IaAmAn~  258 (457)
T KOG0743|consen  236 RGYLLYGPPGTGKSSFIAAMANY  258 (457)
T ss_pred             ccceeeCCCCCCHHHHHHHHHhh
Confidence            34568999999999999999873

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=95.22  E-value=3.6  Score=40.77  Aligned_cols=24  Identities=38%  Similarity=0.470  Sum_probs=20.6

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .-..++|+|..|+|||||++.+..
T Consensus       498 ~Ge~vaIvG~SGsGKSTL~KLL~g  521 (709)
T COG2274         498 PGEKVAIVGRSGSGKSTLLKLLLG  521 (709)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            346899999999999999998743

>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop

Probab=95.22  E-value=0.037  Score=41.68  Aligned_cols=26  Identities=27%  Similarity=0.210  Sum_probs=22.0

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchH
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHE  220 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~  220 (314)
                      .-.+|.+.|.-|+||||+++.++...
T Consensus        14 ~g~vi~L~GdLGaGKTtf~r~l~~~l   39 (123)
T PF02367_consen   14 PGDVILLSGDLGAGKTTFVRGLARAL   39 (123)
T ss_dssp             S-EEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHc
Confidence            45799999999999999999987643

They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.

>PRK04182 cytidylate kinase; Provisional

Probab=95.21  E-value=0.016  Score=46.63  Aligned_cols=21  Identities=52%  Similarity=0.708  Sum_probs=19.6

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +|.|.|+.|+||||+++.+..
T Consensus         2 ~I~i~G~~GsGKstia~~la~   22 (180)
T PRK04182          2 IITISGPPGSGKTTVARLLAE   22 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999999976

>PF12780 AAA_8: P-loop containing dynein motor region D4; InterPro: IPR024317 The 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases

Probab=95.20  E-value=0.15  Score=44.07  Aligned_cols=83  Identities=22%  Similarity=0.276  Sum_probs=43.0

Q ss_pred             EEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHccCce
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGKS  276 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~kr  276 (314)
                      .-..++|.||+||++|++.+..-.    .+ ..+-+.+++.++..++-.++-..+                .+.-+++++
T Consensus        32 Gh~LLvG~~GsGr~sl~rLaa~i~----~~-~~~~i~~~~~y~~~~f~~dLk~~~----------------~~ag~~~~~   90 (268)
T PF12780_consen   32 GHALLVGVGGSGRQSLARLAAFIC----GY-EVFQIEITKGYSIKDFKEDLKKAL----------------QKAGIKGKP   90 (268)
T ss_dssp             EEEEEECTTTSCHHHHHHHHHHHT----TE-EEE-TTTSTTTHHHHHHHHHHHHH----------------HHHHCS-S-
T ss_pred             CCeEEecCCCccHHHHHHHHHHHh----cc-ceEEEEeeCCcCHHHHHHHHHHHH----------------HHHhccCCC
Confidence            455699999999999998765411    11 112233445555444322221111                123346788


Q ss_pred             EEEEEeccccCCccCHHhHHHhhc
Q 048765          277 FLLVLDDVWDGNYVKWEPFYHCLK  300 (314)
Q Consensus       277 ~LlVlDdv~~~~~~~~~~l~~~l~  300 (314)
                      ..+++.|-+-.+..-++.+...+.
T Consensus        91 ~vfll~d~qi~~~~fLe~in~LL~  114 (268)
T PF12780_consen   91 TVFLLTDSQIVDESFLEDINSLLS  114 (268)
T ss_dssp             EEEEEECCCSSSCHHHHHHHHHHH
T ss_pred             eEEEecCcccchHhHHHHHHHHHh
Confidence            888888864433233455555443

The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules, of which four (D1 - D4) correspond to the ATP binding sites with P-loop signatures described previously, and two (D5, D6) are modules in which the P loop has been lost in evolution. This particular entry represents the D4 ATP-binding domain of the motor [].; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.

>cd02040 NifH NifH gene encodes component II (iron protein) of nitrogenase

Probab=95.20  E-value=0.035  Score=48.00  Aligned_cols=39  Identities=31%  Similarity=0.324  Sum_probs=25.9

Q ss_pred             EEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCcc
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSET  237 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~  237 (314)
                      ++|+|.|-||+||||++..+......  .=..++-|++...
T Consensus         2 ~~iav~~KGGvGKTT~~~nLA~~La~--~G~kVlliD~Dpq   40 (270)
T cd02040           2 RQIAIYGKGGIGKSTTTQNLSAALAE--MGKKVMIVGCDPK   40 (270)
T ss_pred             cEEEEEeCCcCCHHHHHHHHHHHHHh--CCCeEEEEEcCCC
Confidence            47888899999999999887663322  1123555655433

Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the mollybdenum-iron (alternatively, vanadium-iron or iron-iron) protein (commonly referred to as component 1), and the iron protein (commonly referred to as component 2). The iron protein is a homodimer, with an Fe4S4 cluster bound between the subunits and two ATP-binding domains. It supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component 1 for the reduction of molecular nitrogen to ammonia.

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

Probab=95.20  E-value=0.015  Score=46.22  Aligned_cols=22  Identities=27%  Similarity=0.498  Sum_probs=19.3

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +-|.++||.|+||||+.+.++.
T Consensus         3 ~~IvLiG~mGaGKSTIGr~LAk   24 (172)
T COG0703           3 MNIVLIGFMGAGKSTIGRALAK   24 (172)
T ss_pred             ccEEEEcCCCCCHhHHHHHHHH
Confidence            3578999999999999999865

>TIGR01287 nifH nitrogenase iron protein

Probab=95.19  E-value=0.024  Score=49.22  Aligned_cols=23  Identities=43%  Similarity=0.588  Sum_probs=19.7

Q ss_pred             EEEEEEccCCCChHHHHHHhhch
Q 048765          197 HIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      +.|+|+|-||+||||++..+...
T Consensus         1 ~~ia~~gKGGVGKTT~a~nLA~~   23 (275)
T TIGR01287         1 RQIAIYGKGGIGKSTTTQNIAAA   23 (275)
T ss_pred             CeeEEeCCCcCcHHHHHHHHHHH
Confidence            36899999999999999887664

This model describes nitrogenase (EC 1.18.6.1) iron protein, also called nitrogenase reductase or nitrogenase component II. This model includes molybdenum-iron nitrogenase reductase (nifH), vanadium-iron nitrogenase reductase (vnfH), and iron-iron nitrogenase reductase (anfH). The model excludes the homologous protein from the light-independent protochlorophyllide reductase.

>COG5635 Predicted NTPase (NACHT family) [Signal transduction mechanisms]

Probab=95.19  E-value=0.014  Score=58.78  Aligned_cols=114  Identities=20%  Similarity=0.209  Sum_probs=60.3

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhhcC---ceeEEEEcCccc-----cHH-HHHHHHHHHhcCCCCCCCcHHHHH
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIRKF---DKILWVCVSETF-----EEF-RVAKAMVEALDGHESHLGEFQSLL  265 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F---~~~~wv~~~~~~-----~~~-~~~~~i~~~~~~~~~~~~~~~~~~  265 (314)
                      ...-+.|+|.+|+||||+.+.+.-... .+.+   +..+++.+....     ... .+...+...+.....    .....
T Consensus       221 ~~~~~~Ilg~pGsGKTtfl~~lA~~~~-~~~~~~~~vpi~~~l~~~~~~~~~~~q~~~~~~l~~~~~~~~~----~~~~~  295 (824)
T COG5635         221 KYAKLLILGAPGSGKTTFLQRLALWLA-QRTLEPEDVPIFLLLNAFALARKFEKQLSLIDYLAEELFSQGI----AKQLI  295 (824)
T ss_pred             hhhheeeecCCCCCceehHHHHHHHhc-cCcCCcccCceeeechhHHHhhhhHhhccHHHHHHHHHhccCC----cchhh
Confidence            345789999999999999988754221 1222   334444332110     011 222222222222211    11112


Q ss_pred             HHHHHHccCceEEEEEeccccCCccC----HHhHHHhhccCCCCceEEEeccC
Q 048765          266 RHIYESIAGKSFLLVLDDVWDGNYVK----WEPFYHCLKNGLHGSKILVTTRK  314 (314)
Q Consensus       266 ~~l~~~L~~kr~LlVlDdv~~~~~~~----~~~l~~~l~~~~~gs~iivTtR~  314 (314)
                      ....+.++..++|+.+|+++......    ...+...+ ...+.+++|+|+|.
T Consensus       296 ~~~~e~l~~g~~llLlDGlDe~~~~~~~~~~~~i~~f~-~~~~~~~~iltcR~  347 (824)
T COG5635         296 EAHQELLKTGKLLLLLDGLDELEPKNQRALIREINKFL-QEYPDAQVLLTCRP  347 (824)
T ss_pred             HHHHHHHhccchhhHhhccchhhhhhHHHHHHHHHHHh-hhccCCeEEEEecc
Confidence            22257788999999999986532111    11222222 23558899999984

>PRK06820 type III secretion system ATPase; Validated

Probab=95.19  E-value=0.18  Score=46.60  Aligned_cols=83  Identities=24%  Similarity=0.341  Sum_probs=46.8

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHh-cCC----------CCCCCcHH--
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEAL-DGH----------ESHLGEFQ--  262 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~-~~~----------~~~~~~~~--  262 (314)
                      -..++|+|..|+|||||++.+....    +.+..+..-+.+...  + ...+.+.. ...          ..+.....  
T Consensus       163 Gqri~I~G~sG~GKStLl~~I~~~~----~~dv~V~~~iGergr--E-v~ef~e~~l~~~~~~rtvvv~atsd~p~~~r~  235 (440)
T PRK06820        163 GQRIGIFAAAGVGKSTLLGMLCADS----AADVMVLALIGERGR--E-VREFLEQVLTPEARARTVVVVATSDRPALERL  235 (440)
T ss_pred             CCEEEEECCCCCChHHHHHHHhccC----CCCEEEEEEEccChH--H-HHHHHHHhhccCCceeEEEEEeCCCCCHHHHH
Confidence            3478999999999999999887632    234445555555422  2 22333322 111          00111111  


Q ss_pred             ---HHHHHHHHHc--cCceEEEEEeccc
Q 048765          263 ---SLLRHIYESI--AGKSFLLVLDDVW  285 (314)
Q Consensus       263 ---~~~~~l~~~L--~~kr~LlVlDdv~  285 (314)
                         .....+.+++  +++..||++||+-
T Consensus       236 ~a~~~a~tiAEyfrd~G~~VLl~~Dslt  263 (440)
T PRK06820        236 KGLSTATTIAEYFRDRGKKVLLMADSLT  263 (440)
T ss_pred             HHHHHHHHHHHHHHHcCCCEEEEccchh
Confidence               1223344555  6899999999993

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=95.18  E-value=0.015  Score=45.79  Aligned_cols=22  Identities=32%  Similarity=0.561  Sum_probs=19.2

Q ss_pred             EEEEEccCCCChHHHHHHhhch
Q 048765          198 IISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      -|.++|.+|+|||||++.+..+
T Consensus         2 ki~~~G~~~~GKTsl~~~l~~~   23 (164)
T cd04139           2 KVIVVGAGGVGKSALTLQFMYD   23 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3789999999999999988754

The Ral (Ras-like) subfamily consists of the highly homologous RalA and RalB. Ral proteins are believed to play a crucial role in tumorigenesis, metastasis, endocytosis, and actin cytoskeleton dynamics. Despite their high sequence similarity (80% sequence identity), nonoverlapping and opposing functions have been assigned to RalA and RalBs in tumor migration. In human bladder and prostate cancer cells, RalB promotes migration while RalA inhibits it. A Ral-specific set of GEFs has been identified that are activated by Ras binding. This RalGEF activity is enhanced by Ras binding to another of its target proteins, phosphatidylinositol 3-kinase (PI3K). Ral effectors include RLIP76/RalBP1, a Rac/cdc42 GAP, and the exocyst (Sec6/8) complex, a heterooctomeric protein complex that is involved in tethering vesicles to specific sites on the plasma membrane prior to exocytosis. In rat kidney cells, RalB is required for functional assembly of the exo

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=95.18  E-value=0.017  Score=49.29  Aligned_cols=24  Identities=33%  Similarity=0.421  Sum_probs=21.2

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .-.+++|+|+.|+|||||.+.++.
T Consensus        27 ~G~i~~iiGpNG~GKSTLLk~l~g   50 (258)
T COG1120          27 KGEITGILGPNGSGKSTLLKCLAG   50 (258)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhc
Confidence            357999999999999999998865

>PRK09825 idnK D-gluconate kinase; Provisional

Probab=95.18  E-value=0.017  Score=46.70  Aligned_cols=22  Identities=18%  Similarity=0.376  Sum_probs=20.1

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .++.|+|+.|+|||||++.++.
T Consensus         4 e~i~l~G~sGsGKSTl~~~la~   25 (176)
T PRK09825          4 ESYILMGVSGSGKSLIGSKIAA   25 (176)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999999876

>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=95.17  E-value=0.015  Score=47.47  Aligned_cols=20  Identities=35%  Similarity=0.426  Sum_probs=18.4

Q ss_pred             EEEEccCCCChHHHHHHhhc
Q 048765          199 ISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~  218 (314)
                      |.|.|++|+||||+++.+..
T Consensus         2 I~i~G~pGsGKst~a~~La~   21 (194)
T cd01428           2 ILLLGPPGSGKGTQAERLAK   21 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            68999999999999998876

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>PLN02924 thymidylate kinase

Probab=95.16  E-value=0.14  Score=42.88  Aligned_cols=28  Identities=18%  Similarity=0.189  Sum_probs=23.6

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHh
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEE  221 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~  221 (314)
                      ..-..|+|-|..|+||||+++.+....+
T Consensus        14 ~~g~~IviEGiDGsGKsTq~~~L~~~l~   41 (220)
T PLN02924         14 SRGALIVLEGLDRSGKSTQCAKLVSFLK   41 (220)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            3456899999999999999999987544

>cd04163 Era Era subfamily

Probab=95.16  E-value=0.021  Score=44.76  Aligned_cols=24  Identities=29%  Similarity=0.451  Sum_probs=20.8

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ...|+++|..|+|||||++.+...
T Consensus         3 ~~~i~~~G~~g~GKttl~~~l~~~   26 (168)
T cd04163           3 SGFVAIVGRPNVGKSTLLNALVGQ   26 (168)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCC
Confidence            467999999999999999988653

Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly by chaperoning the 16S rRNA. It also contacts several assembly elements of the 30S subunit. Era couples cell growth with cytokinesis and plays a role in cell division and energy metabolism. Homologs have also been found in eukaryotes. Era contains two domains: the N-terminal GTPase domain and a C-terminal domain KH domain that is critical for RNA binding. Both domains are important for Era function. Era is functionally able to compensate for deletion of RbfA, a cold-shock adaptation protein that is required for efficient processing of the 16S rRNA.

>TIGR02173 cyt_kin_arch cytidylate kinase, putative

Probab=95.16  E-value=0.017  Score=46.05  Aligned_cols=21  Identities=48%  Similarity=0.689  Sum_probs=19.4

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +|.|.|+.|+||||+|+.+.+
T Consensus         2 iI~i~G~~GSGKstia~~la~   22 (171)
T TIGR02173         2 IITISGPPGSGKTTVAKILAE   22 (171)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999998865

Proteins in this family are believed to be cytidylate kinase. Members of this family are found in the archaea and in spirochaetes, and differ considerably from the common bacterial form of cytidylate kinase described by TIGR00017.

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=95.16  E-value=0.013  Score=46.58  Aligned_cols=20  Identities=40%  Similarity=0.431  Sum_probs=16.5

Q ss_pred             EEEEccCCCChHHHHHHhhc
Q 048765          199 ISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~  218 (314)
                      |+|.|..|+|||||++.+..
T Consensus         2 I~i~G~~stGKTTL~~~L~~   21 (163)
T PF13521_consen    2 IVITGGPSTGKTTLIEALAA   21 (163)
T ss_dssp             EEEE--TTSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999998875

>TIGR03375 type_I_sec_LssB type I secretion system ATPase, LssB family

Probab=95.16  E-value=0.17  Score=50.04  Aligned_cols=24  Identities=33%  Similarity=0.398  Sum_probs=20.7

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +-..++|+|..|+|||||++.+..
T Consensus       490 ~G~~iaIvG~sGsGKSTLlklL~g  513 (694)
T TIGR03375       490 PGEKVAIIGRIGSGKSTLLKLLLG  513 (694)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            346899999999999999998854

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.

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=95.15  E-value=0.029  Score=50.08  Aligned_cols=44  Identities=23%  Similarity=0.281  Sum_probs=34.7

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +.++|.+..+..|+-.+...      ...-+.|.|..|+|||||++.+..
T Consensus         4 ~~ivgq~~~~~al~~~~~~~------~~g~vli~G~~G~gKttl~r~~~~   47 (337)
T TIGR02030         4 TAIVGQDEMKLALLLNVIDP------KIGGVMVMGDRGTGKSTAVRALAA   47 (337)
T ss_pred             cccccHHHHHHHHHHHhcCC------CCCeEEEEcCCCCCHHHHHHHHHH
Confidence            46889888888776666542      245577999999999999999865

This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.

>COG1763 MobB Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]

Probab=95.14  E-value=0.019  Score=45.34  Aligned_cols=23  Identities=39%  Similarity=0.560  Sum_probs=21.1

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .++++|+|+-++|||||...+..
T Consensus         2 ~~Il~ivG~k~SGKTTLie~lv~   24 (161)
T COG1763           2 MKILGIVGYKNSGKTTLIEKLVR   24 (161)
T ss_pred             CcEEEEEecCCCChhhHHHHHHH
Confidence            47999999999999999999876

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

Probab=95.14  E-value=0.014  Score=50.04  Aligned_cols=22  Identities=27%  Similarity=0.631  Sum_probs=19.3

Q ss_pred             EEEEEccCCCChHHHHHHhhch
Q 048765          198 IISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .|.++|++|+||||+|+.+...
T Consensus         1 LIvl~G~pGSGKST~a~~La~~   22 (249)
T TIGR03574         1 LIILTGLPGVGKSTFSKELAKK   22 (249)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHH
Confidence            3679999999999999998764

Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity.

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=95.14  E-value=0.036  Score=54.13  Aligned_cols=22  Identities=36%  Similarity=0.446  Sum_probs=19.8

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +-+.++|++|+|||++++.+..
T Consensus       186 ~gill~G~~G~GKt~~~~~~a~  207 (644)
T PRK10733        186 KGVLMVGPPGTGKTLLAKAIAG  207 (644)
T ss_pred             CcEEEECCCCCCHHHHHHHHHH
Confidence            3488999999999999999976

>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function

Probab=95.13  E-value=0.2  Score=45.25  Aligned_cols=42  Identities=29%  Similarity=0.430  Sum_probs=30.9

Q ss_pred             EEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccc
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETF  238 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~  238 (314)
                      .++.|.|.+|+|||.||-.++.............+++.+..+
T Consensus         2 ~v~~I~G~aGTGKTvla~~l~~~l~~~~~~~~~~~l~~n~~l   43 (352)
T PF09848_consen    2 QVILITGGAGTGKTVLALNLAKELQNSEEGKKVLYLCGNHPL   43 (352)
T ss_pred             eEEEEEecCCcCHHHHHHHHHHHhhccccCCceEEEEecchH
Confidence            578899999999999999998844214455666677665543

It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=95.13  E-value=0.024  Score=54.01  Aligned_cols=45  Identities=29%  Similarity=0.358  Sum_probs=35.9

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ++++|.+..++.+...+...      ...-+.|+|++|+|||++|+.+++.
T Consensus        65 ~~iiGqs~~i~~l~~al~~~------~~~~vLi~Ge~GtGKt~lAr~i~~~  109 (531)
T TIGR02902        65 DEIIGQEEGIKALKAALCGP------NPQHVIIYGPPGVGKTAAARLVLEE  109 (531)
T ss_pred             HHeeCcHHHHHHHHHHHhCC------CCceEEEECCCCCCHHHHHHHHHHH
Confidence            46899999998888776542      2345678999999999999999763

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.

>cd03285 ABC_MSH2_euk MutS2 homolog in eukaryotes

Probab=95.13  E-value=0.021  Score=47.93  Aligned_cols=24  Identities=21%  Similarity=0.112  Sum_probs=20.7

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ...++.|.|+.|.||||+.+.+..
T Consensus        29 ~~~~~~l~G~n~~GKstll~~i~~   52 (222)
T cd03285          29 KSRFLIITGPNMGGKSTYIRQIGV   52 (222)
T ss_pred             CCeEEEEECCCCCChHHHHHHHHH
Confidence            357899999999999999988754

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

>PRK08472 fliI flagellum-specific ATP synthase; Validated

Probab=95.12  E-value=0.12  Score=47.76  Aligned_cols=83  Identities=18%  Similarity=0.177  Sum_probs=46.6

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccH-HHHHHHHHHHhcCC----------CCCCCcHH-
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEE-FRVAKAMVEALDGH----------ESHLGEFQ-  262 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~-~~~~~~i~~~~~~~----------~~~~~~~~-  262 (314)
                      +-..++|+|..|+|||||++.+....    .-+.....-+.+...- .++...   .++..          ..+....+ 
T Consensus       156 ~Gq~~~i~G~sG~GKStLl~~i~~~~----~~~v~vi~~iGergrev~e~~~~---~l~~~l~~tvvV~atsddsp~~R~  228 (434)
T PRK08472        156 KGQKLGIFAGSGVGKSTLMGMIVKGC----LAPIKVVALIGERGREIPEFIEK---NLGGDLENTVIVVATSDDSPLMRK  228 (434)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhhcc----CCCEEEEEeeCccchhHHHHHHH---HhcCcccceEEEEECCCCCHHHhh
Confidence            34588999999999999999987632    1233444444443322 222222   22221          00111111 


Q ss_pred             ---HHHHHHHHHc--cCceEEEEEecc
Q 048765          263 ---SLLRHIYESI--AGKSFLLVLDDV  284 (314)
Q Consensus       263 ---~~~~~l~~~L--~~kr~LlVlDdv  284 (314)
                         .....+.+++  +++..||++||+
T Consensus       229 ~~~~~a~~iAEyFrd~G~~Vll~~Dsl  255 (434)
T PRK08472        229 YGAFCAMSVAEYFKNQGLDVLFIMDSV  255 (434)
T ss_pred             HHHHHHHHHHHHHHHcCCCEEEecccc
Confidence               1123344555  689999999999

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=95.12  E-value=0.22  Score=43.75  Aligned_cols=102  Identities=8%  Similarity=0.035  Sum_probs=58.8

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchH--------hhhhcCceeEEEEc-CccccHHHHHHHHHHHhcCCCCCCCcHHHHHH
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHE--------EVIRKFDKILWVCV-SETFEEFRVAKAMVEALDGHESHLGEFQSLLR  266 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~--------~~~~~F~~~~wv~~-~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~  266 (314)
                      .++..++|..|.||+++|..+..-.        ....|-+-..+++. +.....+++ +++.+.+...+           
T Consensus        18 ~haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~d~~g~~i~vd~I-r~l~~~~~~~~-----------   85 (299)
T PRK07132         18 SHSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILFDIFDKDLSKSEF-LSAINKLYFSS-----------   85 (299)
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEeccCCCcCCHHHH-HHHHHHhccCC-----------
Confidence            4566699999999999998886521        11112212233321 111222222 12222221110           


Q ss_pred             HHHHHccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEecc
Q 048765          267 HIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTR  313 (314)
Q Consensus       267 ~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR  313 (314)
                          +-.+++-++|+|++...+....+.|...+...+..+.+|++|.
T Consensus        86 ----~~~~~~KvvII~~~e~m~~~a~NaLLK~LEEPp~~t~~il~~~  128 (299)
T PRK07132         86 ----FVQSQKKILIIKNIEKTSNSLLNALLKTIEEPPKDTYFLLTTK  128 (299)
T ss_pred             ----cccCCceEEEEecccccCHHHHHHHHHHhhCCCCCeEEEEEeC
Confidence                0025788999999987765677889899987777777777663

>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins

Probab=95.11  E-value=0.051  Score=49.28  Aligned_cols=25  Identities=20%  Similarity=0.146  Sum_probs=21.7

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchH
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHE  220 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~  220 (314)
                      ...+.|.|.||+|||+|.+.+.+..
T Consensus        22 ~~~~fv~G~~GtGKs~l~~~i~~~~   46 (364)
T PF05970_consen   22 GLNFFVTGPAGTGKSFLIKAIIDYL   46 (364)
T ss_pred             CcEEEEEcCCCCChhHHHHHHHHHh
Confidence            4688999999999999999987743

The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	314
3vkh_A	3367	X-Ray Structure Of A Functional Full-Length Dynein		4e-04
3vkg_A	3245	X-Ray Structure Of An Mtbd Truncation Mutant Of Dyn		5e-04

>pdb|3VKH|A Chain A, X-Ray Structure Of A Functional Full-Length Dynein Motor Domain Length = 3367

Iteration: 1
 Score = 42.0 bits (97), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 30/95 (31%), Positives = 43/95 (45%), Gaps = 5/95 (5%)
Query: 23  QQVKLVKGAEQEVEKLTSHLQTIQAVLSDAEQRQVKEESVRVWLGRLKDVSYDIEDVLDE 82
           ++ KLV+G +    KL  HL +I A +  +   +V EE    W  RL  V      +LD 
Sbjct: 187 RKCKLVRGWDDLFNKLAEHLNSISA-MKMSPYYKVFEEEANHWDDRLNKV----RSLLDV 241
Query: 83  WITARRRLQMKQNADSAQKQVSSCFPASSIGFKKI 117
           WI  +RR    +   S    ++   PA S  FK I
Sbjct: 242 WIDVQRRWVYLEGIFSGSGDINQLLPAESTRFKSI 276

>pdb|3VKG|A Chain A, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein Motor Domain Length = 3245

Iteration: 1
 Score = 42.0 bits (97), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 30/95 (31%), Positives = 43/95 (45%), Gaps = 5/95 (5%)
Query: 23  QQVKLVKGAEQEVEKLTSHLQTIQAVLSDAEQRQVKEESVRVWLGRLKDVSYDIEDVLDE 82
           ++ KLV+G +    KL  HL +I A +  +   +V EE    W  RL  V      +LD 
Sbjct: 187 RKCKLVRGWDDLFNKLAEHLNSISA-MKMSPYYKVFEEEANHWDDRLNKV----RSLLDV 241
Query: 83  WITARRRLQMKQNADSAQKQVSSCFPASSIGFKKI 117
           WI  +RR    +   S    ++   PA S  FK I
Sbjct: 242 WIDVQRRWVYLEGIFSGSGDINQLLPAESTRFKSI 276

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	314
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	5e-42
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	1e-39
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-31
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-04
3qfl_A	115	MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-	6e-14
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	1e-12

>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 =  151 bits (384), Expect = 5e-42
 Identities = 51/284 (17%), Positives = 88/284 (30%), Gaps = 38/284 (13%)

Query: 46  QAVLSDAEQRQVKEESVRVWLGRLKD---VSYDIEDVLDEWITARRRLQMKQNADSAQKQ 102
           +  L    +   K+      +  +     ++   E+ +    T ++R      A    K 
Sbjct: 6   RNCLLQHREALEKDIKTSYIMDHMISDGFLTISEEEKVRNEPTQQQR------AAMLIKM 59

Query: 103 VSSCFPASSIGFKKIILRQDIAVKIKGINKKLGVIATQKDMFKFVES-GGASSARPGRVQ 161
           +      S + F   +L +      K +   L             +S  G +S     + 
Sbjct: 60  ILKKDNDSYVSFYNALLHE----GYKDLAALLHDGIPVVSSSSGKDSVSGITSYVRTVLC 115

Query: 162 STSFIDE-EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHE 220
                        R    N +  KL     + +     ++I GM G GK+ LA  A    
Sbjct: 116 EGGVPQRPVVFVTRKKLVNAIQQKLS----KLKGEPGWVTIHGMAGCGKSVLAAEAVRDH 171

Query: 221 EVIRKF--DKILWVCVSETFEEFRVAK--AMVEALDGHESHLGEFQSLLR------HIYE 270
            ++       + WV V +  +   + K   +   LD  ES        +        I  
Sbjct: 172 SLLEGCFPGGVHWVSVGKQDKSGLLMKLQNLCTRLDQDESFSQRLPLNIEEAKDRLRILM 231

Query: 271 SIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTRK 314
                  LL+LDDVWD   +K               +IL+TTR 
Sbjct: 232 LRKHPRSLLILDDVWDSWVLKA---------FDSQCQILLTTRD 266

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A* Length = 549

 Score =  145 bits (366), Expect = 1e-39
 Identities = 45/279 (16%), Positives = 85/279 (30%), Gaps = 25/279 (8%)

Query: 48  VLSDAEQRQVKEESVRVWLGRLKDVSYDIEDVLDEWITARRRLQMKQNADSAQKQVSSCF 107
            LS A  R + +   R  L  L+  +   ED  +       RL+   N     ++ +S  
Sbjct: 9   ALSTAHTRLIHDFEPRDALTYLEGKNIFTEDHSELISKMSTRLERIANFLRIYRRQASEL 68

Query: 108 PASSIGFKKIILRQDIAVKIKGINKKLGVIATQKDMFKFVESGGASSARPGRVQSTSFID 167
                 F               I+  +            +    +      ++   +   
Sbjct: 69  GPLIDFFNYNNQSHLADFLEDYIDFAINEP--DLLRPVVIAPQFSRQMLDRKLLLGNVPK 126

Query: 168 EEEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRK-- 225
           +     R    + ++ KL             + + G  G GK+ +A  A +  + +    
Sbjct: 127 QMTCYIREYHVDRVIKKLD---EMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGIN 183

Query: 226 FDKILWVCVSETFEE-----FRVAKAMVEALDGHES-----HLGEFQSLLRHIYESIAGK 275
           +D I+W+  S T  +     F     M+++ D   +     H+             I   
Sbjct: 184 YDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRP 243

Query: 276 SFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTRK 314
           + L V DDV     ++W              + LVTTR 
Sbjct: 244 NTLFVFDDVVQEETIRWAQ--------ELRLRCLVTTRD 274

>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 =  124 bits (311), Expect = 1e-31
 Identities = 50/276 (18%), Positives = 94/276 (34%), Gaps = 63/276 (22%)

Query: 69  LKDVS-YDIEDVLDEWITAR--RRLQMKQNADSAQKQVSSCF---PASSIG-FKKIILRQ 121
           + +    D++D+    ++      + M ++A S   ++           +  F + +LR 
Sbjct: 30  VDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRI 89

Query: 122 D---IAVKIKGINKKLGVIATQKDMFKFVES-----GGASSARPGRVQSTSFIDEEEICG 173
           +   +   IK   +             ++E                V             
Sbjct: 90  NYKFLMSPIKTEQR-----QPSMMTRMYIEQRDRLYNDNQVFAKYNVS------------ 132

Query: 174 RVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFD-KILWV 232
           R+    +L   LL    E +   +++ I G+ G GKT +A   C   +V  K D KI W+
Sbjct: 133 RLQPYLKLRQALL----ELRPAKNVL-IDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWL 187

Query: 233 CVSETFEE-----------FRVAKAMVEALDGHES---HLGEFQSLLRHIYESIAGKSFL 278
            +                 +++        D   +    +   Q+ LR + +S   ++ L
Sbjct: 188 NLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCL 247

Query: 279 LVLDDVWDGNYVKWEPF-YHCLKNGLHGSKILVTTR 313
           LVL +V +     W  F   C        KIL+TTR
Sbjct: 248 LVLLNVQNAKA--WNAFNLSC--------KILLTTR 273

>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 = 48.3 bits (114), Expect = 2e-06
 Identities = 52/301 (17%), Positives = 100/301 (33%), Gaps = 80/301 (26%)

Query: 6   VSPLLEQLISVSAEELTQQVKLVKGAEQ-EVEKLTSHLQTIQAVLSDAEQRQ------VK 58
            +P     +S+ AE +   +      +    +KLT+ +++   VL  AE R+      V 
Sbjct: 325 TNPRR---LSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVF 381

Query: 59  EESVRV--------WLGRLKDVSYDIEDVLDEWITARRRLQMKQNADSAQKQVSSCFPAS 110
             S  +        W      +  D+  V+++    +  L  KQ  +S            
Sbjct: 382 PPSAHIPTILLSLIW---FDVIKSDVMVVVNK--LHKYSLVEKQPKES----------TI 426

Query: 111 SIGFKKIILRQDIAVKIKGINKKLGVIATQKDMFKFVESGGASSARPGRVQSTSFIDE-- 168
           SI          I +++K   K     A  +     V+                ++D+  
Sbjct: 427 SI--------PSIYLELKV--KLENEYALHR---SIVDHYNIPKTFDSDDLIPPYLDQYF 473

Query: 169 --------EEICGRVGEKNELLSKLLCESS-EQQKGLHIISIVGMGGIGKTTLAQLACNH 219
                   + I     E+  L   +  +    +QK  H  +     G    TL QL    
Sbjct: 474 YSHIGHHLKNI--EHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQL---- 527

Query: 220 EEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHL--GEFQSLLR--------HIY 269
               + +    ++C ++   E R+  A+++ L   E +L   ++  LLR         I+
Sbjct: 528 ----KFYKP--YICDNDPKYE-RLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEAIF 580

Query: 270 E 270
           E
Sbjct: 581 E 581

>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 = 40.6 bits (94), Expect = 5e-04
 Identities = 57/376 (15%), Positives = 101/376 (26%), Gaps = 118/376 (31%)

Query: 32  EQEVEKLTSHLQTIQ--------------------AVLSDAEQRQVKEESVRVWL--GRL 69
            Q   KL   L  ++                     V    + +   +  +  WL     
Sbjct: 134 LQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKI-FWLNLKNC 192

Query: 70  KDVSYDIEDV------LDEWITAR--RRLQMKQNADSAQKQVSSCFPASSIGFKK--IIL 119
                 +E +      +D   T+R      +K    S Q ++       S  ++   ++L
Sbjct: 193 NSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLL--KSKPYENCLLVL 250

Query: 120 R--QDIAVKIKGIN---KKLGVIATQKDMFKFVESGGASSARPGRVQSTSFIDEEEICGR 174
              Q+        N   K L +    K +  F+ S   ++       S +   +E     
Sbjct: 251 LNVQNAKA-WNAFNLSCKIL-LTTRFKQVTDFL-SAATTTHISLDHHSMTLTPDEVK--- 304

Query: 175 VGEKNELLSKLL-CESS---EQQKGLH--IISIVG--------------------MGGIG 208
                 LL K L C       +    +   +SI+                     +  I 
Sbjct: 305 -----SLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTII 359

Query: 209 KTTLAQLACNHEEVIRK-------FDK----------ILWVCVSETFEEFRVAKAMVEAL 251
           +++L  L        RK       F            ++W  V ++     V K    +L
Sbjct: 360 ESSLNVL---EPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSL 416

Query: 252 ---DGHES-------------HLGEFQSLLRHI---YESIAGKSFLLVLDDVWDGNYVKW 292
                 ES              L    +L R I   Y          ++    D  Y   
Sbjct: 417 VEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLD-QYFYS 475

Query: 293 EPFYHCLKNGLHGSKI 308
              +H LKN  H  ++
Sbjct: 476 HIGHH-LKNIEHPERM 490

>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 = 66.4 bits (162), Expect = 6e-14
 Identities = 27/122 (22%), Positives = 57/122 (46%), Gaps = 12/122 (9%)

Query: 6   VSPLLEQLISVSAEELTQQVKLVKGAEQEVEKLTSHLQTIQAVLSDAEQRQVKE--ESVR 63
           +S L+ +L  +    LT++ KL KG ++ +E L   L+++ A L    +   ++     +
Sbjct: 3   ISNLIPKLGEL----LTEEFKLHKGVKKNIEDLGKELESMNAALIKIGEVPREQLDSQDK 58

Query: 64  VWLGRLKDVSYDIEDVLDEWITARRRLQMKQNADSAQKQVSSCFPASSIG-FKKIILRQD 122
           +W   ++++SY IEDV+D+++     +Q+                  +    KK+  +  
Sbjct: 59  LWADEVRELSYVIEDVVDKFL-----VQVDGIKSDDNNNKFKGLMKRTTELLKKVKHKHG 113

Query: 123 IA 124
           IA
Sbjct: 114 IA 115

>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 = 67.5 bits (165), Expect = 1e-12
 Identities = 39/152 (25%), Positives = 61/152 (40%), Gaps = 25/152 (16%)

Query: 173 GRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQ-LACNHEEVIRKF-DKIL 230
            R    + +  KL   + E       ++I GM G GK+ LA     +H  +   F   + 
Sbjct: 128 TRKKLVHAIQQKLWKLNGEPG----WVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVH 183

Query: 231 WVCVSETFEEFRVAK--AMVEALDGHES-------HLGEFQSLLRHIYESIAGKSFLLVL 281
           WV + +  +   + K   +   LD  ES       ++ E +  LR +         LL+L
Sbjct: 184 WVSIGKQDKSGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLR-KHPRSLLIL 242

Query: 282 DDVWDGNYVKWEPFYHCLKNGLHGSKILVTTR 313
           DDVWD            LK   +  +IL+TTR
Sbjct: 243 DDVWDPWV---------LKAFDNQCQILLTTR 265

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	314
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	99.91
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	99.83
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	99.82
3qfl_A	115	MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-	99.8
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.77
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.4
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.29
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.27
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.24
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	99.21
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.18
2fna_A	357	Conserved hypothetical protein; structural genomic	99.14
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.08
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.02
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	98.99
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	98.86
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	98.76
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	98.76
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	98.58
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	98.53
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	98.5
2chq_A	319	Replication factor C small subunit; DNA-binding pr	98.44
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	98.43
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	98.42
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	98.37
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	98.32
3co5_A	143	Putative two-component system transcriptional RES	98.3
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	98.26
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	98.25
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	98.25
3bos_A	242	Putative DNA replication factor; P-loop containing	98.24
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	98.18
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	98.15
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	98.14
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	98.14
3pvs_A	447	Replication-associated recombination protein A; ma	98.12
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	98.12
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	98.11
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	98.1
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	98.09
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	98.06
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	98.06
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	98.05
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	98.04
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	98.02
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	97.99
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	97.97
2cvh_A	220	DNA repair and recombination protein RADB; filamen	97.94
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	97.89
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	97.87
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	97.83
2qgz_A	308	Helicase loader, putative primosome component; str	97.82
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	97.75
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	97.75
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.69
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	97.67
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	97.65
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	97.64
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	97.63
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	97.63
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	97.63
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	97.63
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	97.61
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	97.58
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	97.57
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	97.57
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.55
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	97.5
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	97.48
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	97.45
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	97.43
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	97.4
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	97.4
2r44_A	331	Uncharacterized protein; putative ATPase, structur	97.4
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	97.39
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.38
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	97.3
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	97.27
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	97.26
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	97.26
3io5_A	333	Recombination and repair protein; storage dimer, i	97.25
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	97.25
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	97.24
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	97.23
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.19
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	97.19
2z43_A	324	DNA repair and recombination protein RADA; archaea	97.19
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	97.16
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	97.15
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	97.13
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	97.11
1xp8_A	366	RECA protein, recombinase A; recombination, radior	97.1
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	97.09
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	97.09
1u94_A	356	RECA protein, recombinase A; homologous recombinat	97.06
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	97.04
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	97.01
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.95
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	96.94
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	96.89
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.84
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	96.81
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	96.8
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	96.75
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	96.72
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.7
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	96.68
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	96.64
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	96.59
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	96.59
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	96.59
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	96.55
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	96.55
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	96.55
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	96.55
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	96.54
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.51
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.44
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.43
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.41
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.4
3ice_A	422	Transcription termination factor RHO; transcriptio	96.39
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	96.38
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	96.38
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.37
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	96.36
2xxa_A	433	Signal recognition particle protein; protein trans	96.35
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.31
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	96.31
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	96.28
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	96.27
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	96.27
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	96.26
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	96.25
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	96.23
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	96.23
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	96.23
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.18
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.17
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.17
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	96.17
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	96.16
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	96.16
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	96.15
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.15
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	96.11
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	96.11
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	96.11
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	96.1
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	96.09
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	96.09
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	96.09
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.06
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	96.06
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	96.06
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	96.04
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	96.03
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	96.03
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	96.03
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	96.03
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.02
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.02
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	96.01
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	96.0
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.0
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	96.0
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	95.99
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	95.97
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	95.95
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	95.95
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	95.94
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	95.94
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	95.94
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	95.93
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	95.93
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	95.93
1via_A	175	Shikimate kinase; structural genomics, transferase	95.92
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	95.91
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	95.91
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	95.91
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	95.9
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	95.89
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	95.88
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	95.87
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	95.87
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	95.87
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	95.87
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	95.86
2r6a_A	454	DNAB helicase, replicative helicase; replication,	95.84
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	95.83
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	95.82
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	95.82
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	95.81
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	95.8
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	95.8
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	95.79
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	95.78
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	95.77
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	95.77
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	95.75
2vli_A	183	Antibiotic resistance protein; transferase, tunica	95.75
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	95.74
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	95.71
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	95.71
3fwy_A	314	Light-independent protochlorophyllide reductase I	95.71
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	95.65
2ewv_A	372	Twitching motility protein PILT; pilus retraction	95.65
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	95.64
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	95.61
2hf9_A	226	Probable hydrogenase nickel incorporation protein	95.61
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	95.6
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	95.6
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	95.59
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	95.58
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	95.57
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	95.57
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	95.57
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	95.56
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	95.56
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	95.53
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	95.51
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	95.5
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	95.5
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	95.5
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	95.5
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	95.49
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	95.48
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	95.47
2ged_A	193	SR-beta, signal recognition particle receptor beta	95.47
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	95.47
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	95.46
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	95.45
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	95.44
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	95.44
2og2_A	359	Putative signal recognition particle receptor; nuc	95.43
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	95.41
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	95.39
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	95.38
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	95.37
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	95.36
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	95.35
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	95.35
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	95.34
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	95.34
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	95.33
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	95.32
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	95.27
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	95.27
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	95.26
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	95.24
1b0u_A	262	Histidine permease; ABC transporter, transport pro	95.22
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	95.22
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	95.21
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	95.21
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	95.21
2eyu_A	261	Twitching motility protein PILT; pilus retraction	95.2
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	95.18
1g6h_A	257	High-affinity branched-chain amino acid transport	95.17
1ji0_A	240	ABC transporter; ATP binding protein, structural g	95.15
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	95.13
1tue_A	212	Replication protein E1; helicase, replication, E1E	95.13
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	95.11
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	95.11
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	95.09
2j9r_A	214	Thymidine kinase; TK1, DNK, lasso, transferase, AT	95.08
1sgw_A	214	Putative ABC transporter; structural genomics, P p	95.08
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	95.07
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	95.07
2wji_A	165	Ferrous iron transport protein B homolog; membrane	95.06
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	95.06
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	95.04
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	95.04
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	95.04
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	95.04
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	95.03
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	95.03
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	95.02
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	95.02
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	95.01
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	95.0
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	94.97
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	94.97
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	94.95
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	94.95
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	94.94
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	94.94
2ghi_A	260	Transport protein; multidrug resistance protein, M	94.93
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	94.93
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	94.92
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	94.91
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	94.9
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	94.89
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	94.89
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	94.88
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	94.88
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	94.86
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	94.85
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	94.85
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	94.84
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	94.83
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	94.8
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	94.78
3end_A	307	Light-independent protochlorophyllide reductase ir	94.78
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	94.76
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	94.76
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	94.75
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	94.75
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	94.73
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	94.71
1xx6_A	191	Thymidine kinase; NESG, northeast structural genom	94.71
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	94.7
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	94.61
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	94.58
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	94.56
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	94.56
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	94.55
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	94.53
3l0o_A	427	Transcription termination factor RHO; helicase, RH	94.5
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	94.49
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	94.47
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	94.46
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	94.44
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	94.4
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	94.38
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	94.35
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	94.35
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	94.33
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	94.31
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	94.3
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	94.29
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	94.27
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	94.26
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	94.25
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	94.24
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	94.24
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	94.21
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	94.21
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	94.2
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	94.2
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	94.17
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	94.16
3vkw_A	446	Replicase large subunit; alpha/beta domain, helica	94.16
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	94.15
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	94.14
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	94.14
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	94.12
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	94.1
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	94.1
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	94.09
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	94.08
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	94.06
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	94.06
2xau_A	773	PRE-mRNA-splicing factor ATP-dependent RNA helica;	94.05
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	94.05
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	94.04
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	94.02
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	94.02
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	94.02
3kta_A	182	Chromosome segregation protein SMC; structural mai	94.02
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	94.01
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	94.01
1nrj_B	218	SR-beta, signal recognition particle receptor beta	94.01
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	94.0
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	93.98
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	93.97
1w36_D	608	RECD, exodeoxyribonuclease V alpha chain; recombin	93.96
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	93.94
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	93.93
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	93.93
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	93.92
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	93.92
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	93.91
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	93.9
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	93.9
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	93.85
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	93.84
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	93.84
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	93.84
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	93.83
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	93.82
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	93.82
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	93.81
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	93.81
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	93.81
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	93.78
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	93.77
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	93.77
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	93.77
3vr4_D	465	V-type sodium ATPase subunit D; V-ATPase, rotary m	93.75
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	93.73
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	93.71
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	93.7
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	93.7
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	93.69
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	93.68
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	93.68
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	93.68
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	93.67
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	93.67
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	93.66
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	93.64
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	93.62
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	93.62
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	93.6
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	93.6
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	93.6
3thx_A	934	DNA mismatch repair protein MSH2; ABC family ATPas	93.59
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	93.59
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	93.58
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	93.58
1fx0_A	507	ATP synthase alpha chain; latent ATPase, thermal s	93.58
2orv_A	234	Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2	93.58
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	93.56
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	93.56
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	93.55
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	93.55
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	93.54
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	93.54
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	93.52
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	93.51
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	93.5
3llu_A	196	RAS-related GTP-binding protein C; structural geno	93.5
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	93.49
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	93.49
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	93.48
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	93.46
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	93.45
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	93.43
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	93.42
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	93.41
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	93.39
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	93.37
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	93.36
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	93.34
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	93.34
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	93.33
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	93.32
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	93.31
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	93.31
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	93.28
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	93.28
2fh5_B	214	SR-beta, signal recognition particle receptor beta	93.26
3vr4_A	600	V-type sodium ATPase catalytic subunit A; V-ATPase	93.26
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	93.25
3mfy_A	588	V-type ATP synthase alpha chain; A-type ATP syntha	93.25
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	93.24
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	93.24
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	93.22
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	93.21
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	93.21
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	93.2
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	93.19
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	93.15
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	93.13
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	93.13
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	93.13
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	93.13
3ch4_B	202	Pmkase, phosphomevalonate kinase; parallel beta-sh	93.12
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	93.12
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	93.11
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	93.11
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	93.1
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	93.1
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	93.1
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	93.08
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	93.08
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	93.07
3cwq_A	209	Para family chromosome partitioning protein; alpha	93.05
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	93.05
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	93.03
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	93.03
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	93.02
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	93.02
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	92.99
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	92.98
1p9r_A	418	General secretion pathway protein E; bacterial typ	92.96
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	92.9
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	92.88
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	92.87
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	92.85
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	92.84
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	92.81
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	92.78
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	92.75
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	92.75
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	92.73
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	92.72
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	92.68
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	92.68
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	92.67
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	92.66
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	92.65
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	92.64
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	92.64
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	92.62
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	92.59
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	92.59
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	92.59
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	92.57
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	92.57

>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=99.91  E-value=1.7e-24  Score=204.67  Aligned_cols=132  Identities=22%  Similarity=0.240  Sum_probs=108.7

Q ss_pred             ccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhc--hHhhhhcCceeEEEEcCccc--cHHHHHHHH
Q 048765          172 CGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACN--HEEVIRKFDKILWVCVSETF--EEFRVAKAM  247 (314)
Q Consensus       172 vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~--~~~~~~~F~~~~wv~~~~~~--~~~~~~~~i  247 (314)
                      +||+.++++|.++|.....   ...++|+|+||||+||||||+++|+  +.++..+|++++||++++.+  ++..++..|
T Consensus       131 ~GR~~~~~~l~~~L~~~~~---~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~~~i  207 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEMCD---LDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDI  207 (549)
T ss_dssp             CCCHHHHHHHHHHHHHHTT---SSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHhcccC---CCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCCcEEEEEECCCCCCCHHHHHHHH
Confidence            5999999999999975421   4589999999999999999999998  57889999999999999875  899999999


Q ss_pred             HHHhcCCCC-------CCCcHHHHHHHHHHHccCc-eEEEEEeccccCCccCHHhHHHhhccCCCCceEEEeccC
Q 048765          248 VEALDGHES-------HLGEFQSLLRHIYESIAGK-SFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTRK  314 (314)
Q Consensus       248 ~~~~~~~~~-------~~~~~~~~~~~l~~~L~~k-r~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR~  314 (314)
                      +.+++....       ...+...+...+++.|.++ ||||||||||+.++  +     .++. .+||+||||||+
T Consensus       208 l~~l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~~~--~-----~~~~-~~gs~ilvTTR~  274 (549)
T 2a5y_B          208 LLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEET--I-----RWAQ-ELRLRCLVTTRD  274 (549)
T ss_dssp             HHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHH--H-----HHHH-HTTCEEEEEESB
T ss_pred             HHHHhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCCchh--h-----cccc-cCCCEEEEEcCC
Confidence            999976421       1224566789999999996 99999999998532  2     2221 269999999995

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=99.83  E-value=8.7e-21  Score=185.09  Aligned_cols=130  Identities=25%  Similarity=0.259  Sum_probs=102.7

Q ss_pred             cccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCce-eEEEEcCccccHHHHHHHHHH
Q 048765          171 ICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDK-ILWVCVSETFEEFRVAKAMVE  249 (314)
Q Consensus       171 ~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~-~~wv~~~~~~~~~~~~~~i~~  249 (314)
                      .+||+.+++.|.++|....     ..++|+|+||||+||||||+.+|++.++..+|+. ++|+++++.++...++..|++
T Consensus       130 ~VGRe~eLeeL~elL~~~d-----~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs~~~d~~~IL~~Ll~  204 (1221)
T 1vt4_I          130 NVSRLQPYLKLRQALLELR-----PAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQK  204 (1221)
T ss_dssp             CCCCHHHHHHHHHHHHHCC-----SSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEECCCSSSHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHhccC-----CCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeCCCCCHHHHHHHHHH
Confidence            4999999999999997532     3689999999999999999999998888999986 999999999998888888877


Q ss_pred             HhcCCC------CC-----CCcHHHHHHHHHHHc---cCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEeccC
Q 048765          250 ALDGHE------SH-----LGEFQSLLRHIYESI---AGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTRK  314 (314)
Q Consensus       250 ~~~~~~------~~-----~~~~~~~~~~l~~~L---~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR~  314 (314)
                      .++...      ..     ..+.+.+...++..|   .++|+||||||+|+.  ..|+.    ++   +||+||||||+
T Consensus       205 lL~~i~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd~--eqLe~----f~---pGSRILVTTRd  274 (1221)
T 1vt4_I          205 LLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNA--KAWNA----FN---LSCKILLTTRF  274 (1221)
T ss_dssp             HHHHHCSSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCCH--HHHHH----HH---SSCCEEEECSC
T ss_pred             HHhhcCcccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcChH--HHHHh----hC---CCeEEEEeccC
Confidence            543210      00     113345566777765   789999999999974  34544    33   69999999996

>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=99.82  E-value=6.3e-20  Score=188.65  Aligned_cols=136  Identities=24%  Similarity=0.254  Sum_probs=105.6

Q ss_pred             ccccccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhh-hhcC-ceeEEEEcCcccc--HH
Q 048765          166 IDEEEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEV-IRKF-DKILWVCVSETFE--EF  241 (314)
Q Consensus       166 ~~~~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~-~~~F-~~~~wv~~~~~~~--~~  241 (314)
                      ...+.|+||+.++++|.++|....    ...++|+|+||||+||||||+++|++.+. ..+| +.++|+++++..+  ..
T Consensus       121 ~~~~~~vgR~~~~~~l~~~l~~~~----~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~  196 (1249)
T 3sfz_A          121 QRPVIFVTRKKLVHAIQQKLWKLN----GEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLL  196 (1249)
T ss_dssp             CCCSSCCCCHHHHHHHHHHHHTTT----TSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHHHHH
T ss_pred             CCCceeccHHHHHHHHHHHHhhcc----CCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCchHHH
Confidence            344679999999999999997543    45789999999999999999999997654 4555 7888999988543  44


Q ss_pred             HHHHHHHHHhcCCC----CCCCcHHHHHHHHHHHccCc--eEEEEEeccccCCccCHHhHHHhhccCCCCceEEEeccC
Q 048765          242 RVAKAMVEALDGHE----SHLGEFQSLLRHIYESIAGK--SFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTRK  314 (314)
Q Consensus       242 ~~~~~i~~~~~~~~----~~~~~~~~~~~~l~~~L~~k--r~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR~  314 (314)
                      ..+..++..+....    ....+...+...++..|.++  ||||||||||+.  ..|..       ..+||+||||||+
T Consensus       197 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~~--~~~~~-------~~~~~~ilvTtR~  266 (1249)
T 3sfz_A          197 MKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDP--WVLKA-------FDNQCQILLTTRD  266 (1249)
T ss_dssp             HHHHHHHHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCCH--HHHTT-------TCSSCEEEEEESS
T ss_pred             HHHHHHHHHhhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCCH--HHHHh-------hcCCCEEEEEcCC
Confidence            45677777776542    23356788889999999877  999999999975  22332       2579999999996

>3qfl_A MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-binding domain, L rich repeat containing receptors, protein binding; 2.00A {Hordeum vulgare}

Probab=99.80  E-value=1.8e-20  Score=139.13  Aligned_cols=80  Identities=29%  Similarity=0.535  Sum_probs=73.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHHHHHHHhh--ccCChHHHHHHHHHHHhhhhhhhhHH
Q 048765            4 AIVSPLLEQLISVSAEELTQQVKLVKGAEQEVEKLTSHLQTIQAVLSDAEQR--QVKEESVRVWLGRLKDVSYDIEDVLD   81 (314)
Q Consensus         4 ~~v~~~~~kl~~~l~~~l~~e~~~~~~v~~~~~~L~~~l~~i~~~l~~a~~~--~~~~~~~~~wl~~lr~~ayd~eD~ld   81 (314)
                      |+++++++||++.    +.+|+.++.||+++++.|+++|++|++||.+++.+  +..++.++.|+++||+++||+|||||
T Consensus         1 a~v~~ll~KL~~l----l~~E~~l~~gv~~~i~~Lk~eL~~m~a~L~da~~~~~~~~d~~vk~W~~~vrdlaYD~ED~iD   76 (115)
T 3qfl_A            1 AAISNLIPKLGEL----LTEEFKLHKGVKKNIEDLGKELESMNAALIKIGEVPREQLDSQDKLWADEVRELSYVIEDVVD   76 (115)
T ss_dssp             CTTCSHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSCGGGCCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHH----HHHHHHHHhchHHHHHHHHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            4667788888887    78999999999999999999999999999999987  56799999999999999999999999


Q ss_pred             HHHHHH
Q 048765           82 EWITAR   87 (314)
Q Consensus        82 ~~~~~~   87 (314)
                      +|.++.
T Consensus        77 ~f~~~~   82 (115)
T 3qfl_A           77 KFLVQV   82 (115)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            999654

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=99.77  E-value=1.5e-18  Score=165.56  Aligned_cols=133  Identities=24%  Similarity=0.285  Sum_probs=99.4

Q ss_pred             ccccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhh-hhcC-ceeEEEEcCccccHHHHHH
Q 048765          168 EEEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEV-IRKF-DKILWVCVSETFEEFRVAK  245 (314)
Q Consensus       168 ~~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~-~~~F-~~~~wv~~~~~~~~~~~~~  245 (314)
                      .+.||||+.+++.|.++|....    ...++++|+||||+||||||..++++.++ ..+| +.++|++++.. +...++.
T Consensus       123 ~~~~vGR~~~l~~L~~~L~~~~----~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~~-~~~~~~~  197 (591)
T 1z6t_A          123 PVVFVTRKKLVNAIQQKLSKLK----GEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQ-DKSGLLM  197 (591)
T ss_dssp             CSSCCCCHHHHHHHHHHHTTST----TSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEESC-CHHHHHH
T ss_pred             CCeecccHHHHHHHHHHHhccc----CCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCCC-chHHHHH
Confidence            3569999999999999997543    45789999999999999999999997766 7889 58999998765 3333443


Q ss_pred             HH---HHHhcCC----CCCCCcHHHHHHHHHHHccC--ceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEeccC
Q 048765          246 AM---VEALDGH----ESHLGEFQSLLRHIYESIAG--KSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTRK  314 (314)
Q Consensus       246 ~i---~~~~~~~----~~~~~~~~~~~~~l~~~L~~--kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR~  314 (314)
                      .+   +..++..    .....+...+...+...+.+  +++||||||+|+.     ..+. .+   .+||+||||||+
T Consensus       198 ~l~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~-----~~l~-~l---~~~~~ilvTsR~  266 (591)
T 1z6t_A          198 KLQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDS-----WVLK-AF---DSQCQILLTTRD  266 (591)
T ss_dssp             HHHHHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCH-----HHHH-TT---CSSCEEEEEESC
T ss_pred             HHHHHHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCH-----HHHH-Hh---cCCCeEEEECCC
Confidence            33   3444421    12344567778888888865  7899999999863     2222 23   568999999995

>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=99.40  E-value=1.2e-12  Score=118.92  Aligned_cols=120  Identities=18%  Similarity=0.154  Sum_probs=84.4

Q ss_pred             ccccccchhhHHHHHHHh-hccCcCCCCCeEEEEE--EccCCCChHHHHHHhhchHhhh---hcCc-eeEEEEcCccccH
Q 048765          168 EEEICGRVGEKNELLSKL-LCESSEQQKGLHIISI--VGMGGIGKTTLAQLACNHEEVI---RKFD-KILWVCVSETFEE  240 (314)
Q Consensus       168 ~~~~vgr~~~~~~l~~~L-~~~~~~~~~~~~vi~I--~G~~G~GKTtLa~~v~~~~~~~---~~F~-~~~wv~~~~~~~~  240 (314)
                      +..++||+.+++.|.++| .............+.|  +|++|+|||+|++.+++.....   ..|. .++|+++....+.
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 4321100012345556  9999999999999998743221   1122 4688888777788


Q ss_pred             HHHHHHHHHHhcCCCCC-CCcHHHHHHHHHHHcc--CceEEEEEeccccC
Q 048765          241 FRVAKAMVEALDGHESH-LGEFQSLLRHIYESIA--GKSFLLVLDDVWDG  287 (314)
Q Consensus       241 ~~~~~~i~~~~~~~~~~-~~~~~~~~~~l~~~L~--~kr~LlVlDdv~~~  287 (314)
                      ..++..++.+++...+. ..+...+...+...|.  +++++|||||+|..
T Consensus       101 ~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l  150 (412)
T 1w5s_A          101 YTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSM  150 (412)
T ss_dssp             HHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHH
T ss_pred             HHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHH
Confidence            89999999998654321 2234556666666664  78999999999874

>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=99.29  E-value=1.3e-11  Score=111.08  Aligned_cols=143  Identities=15%  Similarity=0.079  Sum_probs=97.8

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhh----c--CceeEEEEcCccc-cHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIR----K--FDKILWVCVSETF-EEF  241 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~----~--F~~~~wv~~~~~~-~~~  241 (314)
                      ..++||+.+++.+..++.....  ....+.+.|+|++|+|||+||+.+++...-..    .  ....+|++++... +..
T Consensus        20 ~~l~gr~~~~~~l~~~l~~~~~--~~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~   97 (384)
T 2qby_B           20 KEIPFREDILRDAAIAIRYFVK--NEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTPQ   97 (384)
T ss_dssp             SSCTTCHHHHHHHHHHHHHHHT--TCCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHHHHCSCHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHc--CCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECccCCCCHH
Confidence            6799999999999988764221  13356899999999999999999987432211    1  3467888887777 888


Q ss_pred             HHHHHHHHHhcCCCC--CCCcHHHHHHHHHHHccCceEEEEEeccccCCccC-HHhHHHhhccCCCCceEEEecc
Q 048765          242 RVAKAMVEALDGHES--HLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVK-WEPFYHCLKNGLHGSKILVTTR  313 (314)
Q Consensus       242 ~~~~~i~~~~~~~~~--~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~-~~~l~~~l~~~~~gs~iivTtR  313 (314)
                      .++..++..+.+...  .......+...+...+..++.+|||||++...... .+.+...+.....+..||+||+
T Consensus        98 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~iI~~t~  172 (384)
T 2qby_B           98 AVLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVKRRGGDIVLYQLLRSDANISVIMISN  172 (384)
T ss_dssp             HHHHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSSSCEEEEEETTHHHHHSTTSHHHHHHHHTSSSCEEEEEECS
T ss_pred             HHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhccCCCEEEEECHHHhccCCCCceeHHHHhcCCcceEEEEEEC
Confidence            899999988843322  12234566777778887666699999997643222 2330333332225778888886

>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=99.27  E-value=4.4e-11  Score=107.72  Aligned_cols=143  Identities=13%  Similarity=0.039  Sum_probs=99.3

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhc-CceeEEEEcCccccHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRK-FDKILWVCVSETFEEFRVAKAM  247 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~-F~~~~wv~~~~~~~~~~~~~~i  247 (314)
                      +.++||+.+++.+..++........+..+.+.|+|++|+|||||++.++..  .... -...+|++++...+...++..+
T Consensus        17 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~--~~~~~~~~~~~i~~~~~~~~~~~~~~l   94 (389)
T 1fnn_A           17 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWEL--YKDKTTARFVYINGFIYRNFTAIIGEI   94 (389)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHH--HTTSCCCEEEEEETTTCCSHHHHHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHH--HhhhcCeeEEEEeCccCCCHHHHHHHH
Confidence            679999999999999886532111123348999999999999999999873  3332 1357788888888888999999


Q ss_pred             HHHhcCCCCC-CCcHHHHHHHHHHHc--cCceEEEEEeccccCCccCHHhHHHhhccCC----CCceEEEecc
Q 048765          248 VEALDGHESH-LGEFQSLLRHIYESI--AGKSFLLVLDDVWDGNYVKWEPFYHCLKNGL----HGSKILVTTR  313 (314)
Q Consensus       248 ~~~~~~~~~~-~~~~~~~~~~l~~~L--~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~----~gs~iivTtR  313 (314)
                      +..++...+. ......+...+...+  .+++.+||||+++..+......|...+....    .+..||++|+
T Consensus        95 ~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~L~~~~~~~~~~~~~~~~iI~~~~  167 (389)
T 1fnn_A           95 ARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGH  167 (389)
T ss_dssp             HHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEES
T ss_pred             HHHhCccCCCCCCCHHHHHHHHHHHHhhcCCeEEEEEECccccchHHHHHHHHHHHhCCCCCcCCEEEEEEEC
Confidence            9988654322 224555666666665  3668999999998765444555555553211    3556777765

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.24  E-value=6.9e-11  Score=106.26  Aligned_cols=143  Identities=17%  Similarity=0.145  Sum_probs=96.1

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhh----hcCceeEEEEcCccccHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVI----RKFDKILWVCVSETFEEFRVA  244 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~----~~F~~~~wv~~~~~~~~~~~~  244 (314)
                      +.++||+.+++.+..++...-.  ......+.|+|++|+|||+|++.+++...-.    +.--..+|+++....+...++
T Consensus        19 ~~~~gr~~~~~~l~~~l~~~~~--~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~   96 (387)
T 2v1u_A           19 DVLPHREAELRRLAEVLAPALR--GEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYRVA   96 (387)
T ss_dssp             SCCTTCHHHHHHHHHTTGGGTS--SCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTSCSHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHc--CCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcCCCHHHHH
Confidence            6799999999999998854311  1345688999999999999999998743211    112356788988888889999


Q ss_pred             HHHHHHhcCCCCC-CCcHHHHHHHHHHHc--cCceEEEEEeccccCCcc--CHHhHHHhhc--cC---CCCceEEEecc
Q 048765          245 KAMVEALDGHESH-LGEFQSLLRHIYESI--AGKSFLLVLDDVWDGNYV--KWEPFYHCLK--NG---LHGSKILVTTR  313 (314)
Q Consensus       245 ~~i~~~~~~~~~~-~~~~~~~~~~l~~~L--~~kr~LlVlDdv~~~~~~--~~~~l~~~l~--~~---~~gs~iivTtR  313 (314)
                      ..++..++...+. ......+...+...+  .+++.+||||+++.....  ..+.+...+.  ..   ..+..+|.||+
T Consensus        97 ~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~~~~~~~I~~t~  175 (387)
T 2v1u_A           97 SAIAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVSLVGITN  175 (387)
T ss_dssp             HHHHHHHSCCCCSSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC-----CEEEEECS
T ss_pred             HHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhcCCCceEEEEEEEC
Confidence            9999998664332 223556666777666  456899999999764222  1233433332  11   33556777765

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=99.21  E-value=4.8e-11  Score=105.78  Aligned_cols=132  Identities=17%  Similarity=0.227  Sum_probs=87.0

Q ss_pred             ccccccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccc------c
Q 048765          166 IDEEEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETF------E  239 (314)
Q Consensus       166 ~~~~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~------~  239 (314)
                      ..+..++||+.+++.|.+++..      .  +++.|+|++|+|||+|++.+++..      . .+|+++....      +
T Consensus         9 ~~~~~~~gR~~el~~L~~~l~~------~--~~v~i~G~~G~GKT~Ll~~~~~~~------~-~~~~~~~~~~~~~~~~~   73 (350)
T 2qen_A            9 TRREDIFDREEESRKLEESLEN------Y--PLTLLLGIRRVGKSSLLRAFLNER------P-GILIDCRELYAERGHIT   73 (350)
T ss_dssp             CSGGGSCSCHHHHHHHHHHHHH------C--SEEEEECCTTSSHHHHHHHHHHHS------S-EEEEEHHHHHHTTTCBC
T ss_pred             CChHhcCChHHHHHHHHHHHhc------C--CeEEEECCCcCCHHHHHHHHHHHc------C-cEEEEeecccccccCCC
Confidence            3446799999999999998853      1  589999999999999999998632      2 7788875443      5


Q ss_pred             HHHHHHHHHHHhcC-----------------C-CCCCCcHHHHHHHHHHHccC-ceEEEEEeccccCCc-------cCHH
Q 048765          240 EFRVAKAMVEALDG-----------------H-ESHLGEFQSLLRHIYESIAG-KSFLLVLDDVWDGNY-------VKWE  293 (314)
Q Consensus       240 ~~~~~~~i~~~~~~-----------------~-~~~~~~~~~~~~~l~~~L~~-kr~LlVlDdv~~~~~-------~~~~  293 (314)
                      ...++..+.+.+..                 . .....+...+...+.+.+.. ++.+|||||++..+.       ..+.
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            56666666665532                 0 00123456666666665543 389999999976432       1122


Q ss_pred             hHHHhhccCCCCceEEEecc
Q 048765          294 PFYHCLKNGLHGSKILVTTR  313 (314)
Q Consensus       294 ~l~~~l~~~~~gs~iivTtR  313 (314)
                      .|...+.. .++.++|+|++
T Consensus       154 ~L~~~~~~-~~~~~~il~g~  172 (350)
T 2qen_A          154 LFAYAYDS-LPNLKIILTGS  172 (350)
T ss_dssp             HHHHHHHH-CTTEEEEEEES
T ss_pred             HHHHHHHh-cCCeEEEEECC
Confidence            23333222 24677888875

>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=99.18  E-value=8.7e-11  Score=105.48  Aligned_cols=142  Identities=18%  Similarity=0.201  Sum_probs=94.0

Q ss_pred             ccccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcC---ceeEEEEcCccccHHHHH
Q 048765          168 EEEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKF---DKILWVCVSETFEEFRVA  244 (314)
Q Consensus       168 ~~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F---~~~~wv~~~~~~~~~~~~  244 (314)
                      ++.++||+.+++.+.+++.....  ......+.|+|++|+|||||++.++..  ....+   ...+|+++....+...++
T Consensus        19 p~~~~gr~~e~~~l~~~l~~~~~--~~~~~~vli~G~~G~GKTtl~~~l~~~--~~~~~~~~~~~~~i~~~~~~~~~~~~   94 (386)
T 2qby_A           19 PDELPHREDQIRKIASILAPLYR--EEKPNNIFIYGLTGTGKTAVVKFVLSK--LHKKFLGKFKHVYINTRQIDTPYRVL   94 (386)
T ss_dssp             CSCCTTCHHHHHHHHHSSGGGGG--TCCCCCEEEEECTTSSHHHHHHHHHHH--HHHHTCSSCEEEEEEHHHHCSHHHHH
T ss_pred             CCCCCChHHHHHHHHHHHHHHHc--CCCCCeEEEECCCCCCHHHHHHHHHHH--HHHHhcCCceEEEEECCCCCCHHHHH
Confidence            36799999999999998864311  134568899999999999999999874  33332   357788887777778888


Q ss_pred             HHHHHHhcCCCCC-CCcHHHHHHHHHHHcc--CceEEEEEeccccCC----ccCHHhHHHhhcc-CCCCceEEEecc
Q 048765          245 KAMVEALDGHESH-LGEFQSLLRHIYESIA--GKSFLLVLDDVWDGN----YVKWEPFYHCLKN-GLHGSKILVTTR  313 (314)
Q Consensus       245 ~~i~~~~~~~~~~-~~~~~~~~~~l~~~L~--~kr~LlVlDdv~~~~----~~~~~~l~~~l~~-~~~gs~iivTtR  313 (314)
                      ..++..++..... ..+.......+.+.+.  +++.+||||+++...    ...+..+...+.. ...+..+|+||+
T Consensus        95 ~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~~~~~~~I~~~~  171 (386)
T 2qby_A           95 ADLLESLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITN  171 (386)
T ss_dssp             HHHTTTTSCCCCSSSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSCCC--EEEEEEES
T ss_pred             HHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhccCcCHHHHHHhhchhhcCCCeEEEEEEEC
Confidence            8888877543221 2234555666666663  458999999997632    2233444444422 223445677765

>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=99.14  E-value=4.8e-10  Score=99.52  Aligned_cols=132  Identities=14%  Similarity=0.214  Sum_probs=81.8

Q ss_pred             cccccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCcc-----ccHH
Q 048765          167 DEEEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSET-----FEEF  241 (314)
Q Consensus       167 ~~~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~-----~~~~  241 (314)
                      .+..++||+.+++.|.+ +..         +++.|+|++|+|||+|++.+++..  ..   ..+|+++...     .+..
T Consensus        11 ~~~~~~gR~~el~~L~~-l~~---------~~v~i~G~~G~GKT~L~~~~~~~~--~~---~~~~~~~~~~~~~~~~~~~   75 (357)
T 2fna_A           11 NRKDFFDREKEIEKLKG-LRA---------PITLVLGLRRTGKSSIIKIGINEL--NL---PYIYLDLRKFEERNYISYK   75 (357)
T ss_dssp             SGGGSCCCHHHHHHHHH-TCS---------SEEEEEESTTSSHHHHHHHHHHHH--TC---CEEEEEGGGGTTCSCCCHH
T ss_pred             CHHHhcChHHHHHHHHH-hcC---------CcEEEECCCCCCHHHHHHHHHHhc--CC---CEEEEEchhhccccCCCHH
Confidence            44679999999999998 632         489999999999999999998742  22   2588887643     3444


Q ss_pred             HHHHHHHHHhcC-------------C------CC----------CCCcHHHHHHHHHHHccCceEEEEEeccccCCc---
Q 048765          242 RVAKAMVEALDG-------------H------ES----------HLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNY---  289 (314)
Q Consensus       242 ~~~~~i~~~~~~-------------~------~~----------~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~---  289 (314)
                      .++..+.+.+..             .      +.          .......+...+.+.-. ++.+|||||++..+.   
T Consensus        76 ~~~~~l~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~-~~~vlvlDe~~~~~~~~~  154 (357)
T 2fna_A           76 DFLLELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASK-DNVIIVLDEAQELVKLRG  154 (357)
T ss_dssp             HHHHHHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCS-SCEEEEEETGGGGGGCTT
T ss_pred             HHHHHHHHHHHHHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHhcCC-CCeEEEEECHHHhhccCc
Confidence            455444443310             0      00          12344555555554323 489999999976321   


Q ss_pred             cCHHhHHHhhccCCCCceEEEeccC
Q 048765          290 VKWEPFYHCLKNGLHGSKILVTTRK  314 (314)
Q Consensus       290 ~~~~~l~~~l~~~~~gs~iivTtR~  314 (314)
                      ..|..+...+.+..++.++|+|+++
T Consensus       155 ~~~~~~l~~~~~~~~~~~~i~~g~~  179 (357)
T 2fna_A          155 VNLLPALAYAYDNLKRIKFIMSGSE  179 (357)
T ss_dssp             CCCHHHHHHHHHHCTTEEEEEEESS
T ss_pred             hhHHHHHHHHHHcCCCeEEEEEcCc
Confidence            2333332333222246678888863

>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=99.08  E-value=1.8e-09  Score=89.00  Aligned_cols=124  Identities=12%  Similarity=0.010  Sum_probs=78.8

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMV  248 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  248 (314)
                      ..++|++..++.+.+++....      ...+.|+|++|+|||+|++.++........-...+.++.+.......+...+.
T Consensus        17 ~~~~g~~~~~~~l~~~l~~~~------~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (226)
T 2chg_A           17 DEVVGQDEVIQRLKGYVERKN------IPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVVRHKIK   90 (226)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTC------CCCEEEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEEETTCTTCHHHHHHHHH
T ss_pred             HHHcCcHHHHHHHHHHHhCCC------CCeEEEECCCCCCHHHHHHHHHHHHhccccccceEEeccccccChHHHHHHHH
Confidence            468999999999999986532      23489999999999999999987322111112344455554433333222211


Q ss_pred             HHhcCCCCCCCcHHHHHHHHHHHccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEecc
Q 048765          249 EALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTR  313 (314)
Q Consensus       249 ~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR  313 (314)
                      .......               .-.+++.+|||||++.......+.+...+.....+.++|+||+
T Consensus        91 ~~~~~~~---------------~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~  140 (226)
T 2chg_A           91 EFARTAP---------------IGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCN  140 (226)
T ss_dssp             HHHTSCC---------------STTCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEES
T ss_pred             HHhcccC---------------CCccCceEEEEeChhhcCHHHHHHHHHHHHhcCCCCeEEEEeC
Confidence            1111000               0135789999999987654556667777766566778888875

>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=99.02  E-value=2.1e-09  Score=89.76  Aligned_cols=132  Identities=14%  Similarity=0.142  Sum_probs=75.5

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMV  248 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  248 (314)
                      ..++|++..++.+..++....     ....+.|+|++|+|||||++.+++.......+..   ..+.......    .+.
T Consensus        23 ~~~~g~~~~~~~l~~~l~~~~-----~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~---~~~~~~~~~~----~~~   90 (250)
T 1njg_A           23 ADVVGQEHVLTALANGLSLGR-----IHHAYLFSGTRGVGKTSIARLLAKGLNCETGITA---TPCGVCDNCR----EIE   90 (250)
T ss_dssp             GGCCSCHHHHHHHHHHHHHTC-----CCSEEEEECSTTSCHHHHHHHHHHHHHCTTCSCS---SCCSCSHHHH----HHH
T ss_pred             HHHhCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCC---CCCcccHHHH----HHh
Confidence            469999999999999986532     2347889999999999999999874322111100   0000000000    000


Q ss_pred             HHhcC-----CCCCCCcHHHHHHHHHHH-----ccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEecc
Q 048765          249 EALDG-----HESHLGEFQSLLRHIYES-----IAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTR  313 (314)
Q Consensus       249 ~~~~~-----~~~~~~~~~~~~~~l~~~-----L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR  313 (314)
                      .....     .......... ...+.+.     ..+++.+|||||++..+...++.+...+.....+..+|+||+
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~vlviDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~t~  164 (250)
T 1njg_A           91 QGRFVDLIEIDAASRTKVED-TRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATT  164 (250)
T ss_dssp             TTCCSSEEEEETTCGGGHHH-HHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEES
T ss_pred             ccCCcceEEecCcccccHHH-HHHHHHHhhhchhcCCceEEEEECcccccHHHHHHHHHHHhcCCCceEEEEEeC
Confidence            00000     0000011111 1122222     135679999999987655567778777766566778888875

>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=3e-09  Score=92.67  Aligned_cols=126  Identities=8%  Similarity=-0.048  Sum_probs=85.1

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhh------cCceeEEEEcCccccHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIR------KFDKILWVCVSETFEEFR  242 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~------~F~~~~wv~~~~~~~~~~  242 (314)
                      ..+.||+++++.|...|...-.  +.....+.|+|++|+|||++++.++.......      .| ..+++++....+...
T Consensus        20 ~~L~~Re~E~~~i~~~L~~~i~--~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~-~~v~INc~~~~t~~~   96 (318)
T 3te6_A           20 ELLKSQVEDFTRIFLPIYDSLM--SSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIF-DYIHIDALELAGMDA   96 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH--TTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCE-EEEEEETTCCC--HH
T ss_pred             cccCCHHHHHHHHHHHHHHHhc--CCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCce-EEEEEeccccCCHHH
Confidence            3489999999999988765322  24567889999999999999999998543211      12 467888888889999


Q ss_pred             HHHHHHHHhcCCCCCCCcHHHHHHHHHHHc---cCceEEEEEeccccCCccCHHhHHHhh
Q 048765          243 VAKAMVEALDGHESHLGEFQSLLRHIYESI---AGKSFLLVLDDVWDGNYVKWEPFYHCL  299 (314)
Q Consensus       243 ~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L---~~kr~LlVlDdv~~~~~~~~~~l~~~l  299 (314)
                      ++..|++++.+..............+...+   .++.++|+||+++...  .-+.|...+
T Consensus        97 ~~~~I~~~L~g~~~~~~~~~~~L~~~f~~~~~~~~~~~ii~lDE~d~l~--~q~~L~~l~  154 (318)
T 3te6_A           97 LYEKIWFAISKENLCGDISLEALNFYITNVPKAKKRKTLILIQNPENLL--SEKILQYFE  154 (318)
T ss_dssp             HHHHHHHHHSCCC--CCCCHHHHHHHHHHSCGGGSCEEEEEEECCSSSC--CTHHHHHHH
T ss_pred             HHHHHHHHhcCCCCCchHHHHHHHHHHHHhhhccCCceEEEEecHHHhh--cchHHHHHH
Confidence            999999999664322222222333333333   4678999999997764  234455554

>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.86  E-value=8.9e-09  Score=90.11  Aligned_cols=124  Identities=15%  Similarity=0.122  Sum_probs=78.7

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMV  248 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  248 (314)
                      +.++|++..++.+..++....      ...+.++|++|+|||++|+.+++...-.......++++.+....... ++.++
T Consensus        21 ~~~~g~~~~~~~l~~~l~~~~------~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~-i~~~~   93 (323)
T 1sxj_B           21 SDIVGNKETIDRLQQIAKDGN------MPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGIDV-VRNQI   93 (323)
T ss_dssp             GGCCSCTHHHHHHHHHHHSCC------CCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSHHH-HHTHH
T ss_pred             HHHHCCHHHHHHHHHHHHcCC------CCeEEEECcCCCCHHHHHHHHHHHhcCCcccCCEEEecCccccChHH-HHHHH
Confidence            569999999999999986532      23388999999999999999987421111112345555554333222 22222


Q ss_pred             HHhcCCCCCCCcHHHHHHHHHHHc-cCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEecc
Q 048765          249 EALDGHESHLGEFQSLLRHIYESI-AGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTR  313 (314)
Q Consensus       249 ~~~~~~~~~~~~~~~~~~~l~~~L-~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR  313 (314)
                      ..+....              ..+ .+++.+|||||++......++.|...+.....++.+|+||.
T Consensus        94 ~~~~~~~--------------~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~~  145 (323)
T 1sxj_B           94 KHFAQKK--------------LHLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACN  145 (323)
T ss_dssp             HHHHHBC--------------CCCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEES
T ss_pred             HHHHhcc--------------ccCCCCCceEEEEECcccCCHHHHHHHHHHHhccCCCceEEEEeC
Confidence            2221000              012 45689999999987655556777777766666778888875

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20

Probab=98.76  E-value=3.2e-08  Score=86.69  Aligned_cols=123  Identities=13%  Similarity=0.090  Sum_probs=76.4

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcC-ceeEEEEcCccccHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKF-DKILWVCVSETFEEFRVAKAM  247 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F-~~~~wv~~~~~~~~~~~~~~i  247 (314)
                      +.++|++..++.+..++....      ...+.++|++|+|||++|+.+++...- ..+ ...+.++.+.......+ ...
T Consensus        25 ~~~~g~~~~~~~l~~~l~~~~------~~~~ll~G~~G~GKT~la~~l~~~l~~-~~~~~~~~~~~~~~~~~~~~~-~~~   96 (327)
T 1iqp_A           25 DDIVGQEHIVKRLKHYVKTGS------MPHLLFAGPPGVGKTTAALALARELFG-ENWRHNFLELNASDERGINVI-REK   96 (327)
T ss_dssp             TTCCSCHHHHHHHHHHHHHTC------CCEEEEESCTTSSHHHHHHHHHHHHHG-GGHHHHEEEEETTCHHHHHTT-HHH
T ss_pred             HHhhCCHHHHHHHHHHHHcCC------CCeEEEECcCCCCHHHHHHHHHHHhcC-CcccCceEEeeccccCchHHH-HHH
Confidence            458999999999998886532      334889999999999999999874211 111 12344554432221111 111


Q ss_pred             HHHhcCCCCCCCcHHHHHHHHHHHccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEecc
Q 048765          248 VEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTR  313 (314)
Q Consensus       248 ~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR  313 (314)
                      +..+....              ....+++.+||+|+++......++.|...+.....++++|+||.
T Consensus        97 ~~~~~~~~--------------~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~  148 (327)
T 1iqp_A           97 VKEFARTK--------------PIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCN  148 (327)
T ss_dssp             HHHHHHSC--------------CGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEES
T ss_pred             HHHHHhhC--------------CcCCCCCeEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeC
Confidence            11110000              01126788999999987655566778777776666778888875

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=98.76  E-value=7.3e-08  Score=77.30  Aligned_cols=45  Identities=20%  Similarity=0.306  Sum_probs=38.0

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..++||+.+++.+.+.+....      ...+.|+|++|+|||+||+.++..
T Consensus        22 ~~~~g~~~~~~~l~~~l~~~~------~~~~ll~G~~G~GKT~l~~~~~~~   66 (195)
T 1jbk_A           22 DPVIGRDEEIRRTIQVLQRRT------KNNPVLIGEPGVGKTAIVEGLAQR   66 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSS------SCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cccccchHHHHHHHHHHhcCC------CCceEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999986532      356789999999999999999874

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=98.58  E-value=4e-07  Score=72.65  Aligned_cols=45  Identities=20%  Similarity=0.249  Sum_probs=37.8

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..++|++.+++.+.+.+....      ...+.|+|++|+|||+||+.++..
T Consensus        22 ~~~~g~~~~~~~l~~~l~~~~------~~~vll~G~~G~GKT~la~~~~~~   66 (187)
T 2p65_A           22 DPVIGRDTEIRRAIQILSRRT------KNNPILLGDPGVGKTAIVEGLAIK   66 (187)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSS------SCEEEEESCGGGCHHHHHHHHHHH
T ss_pred             chhhcchHHHHHHHHHHhCCC------CCceEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999986532      346689999999999999999874

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=98.53  E-value=7.2e-08  Score=74.37  Aligned_cols=113  Identities=13%  Similarity=0.020  Sum_probs=67.1

Q ss_pred             ccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHH
Q 048765          170 EICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVE  249 (314)
Q Consensus       170 ~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~  249 (314)
                      .++|+...+..+.+.+..-.    ....-|.|+|.+|+|||++|+.+++...  ..-...+ ++++.....         
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a----~~~~~vll~G~~GtGKt~lA~~i~~~~~--~~~~~~v-~~~~~~~~~---------   65 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLS----ETDIAVWLYGAPGTGRMTGARYLHQFGR--NAQGEFV-YRELTPDNA---------   65 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHT----TCCSCEEEESSTTSSHHHHHHHHHHSST--TTTSCCE-EEECCTTTS---------
T ss_pred             CceeCCHHHHHHHHHHHHHh----CCCCCEEEECCCCCCHHHHHHHHHHhCC--ccCCCEE-EECCCCCcc---------
Confidence            47899999988888775432    1223468999999999999999976321  1111223 665543221         


Q ss_pred             HhcCCCCCCCcHHHHHHHHHHHccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEecc
Q 048765          250 ALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTR  313 (314)
Q Consensus       250 ~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR  313 (314)
                               .....   .+..   .+.-.|+||++..........|...+.......+||.||.
T Consensus        66 ---------~~~~~---~~~~---a~~g~l~ldei~~l~~~~q~~Ll~~l~~~~~~~~~I~~t~  114 (145)
T 3n70_A           66 ---------PQLND---FIAL---AQGGTLVLSHPEHLTREQQYHLVQLQSQEHRPFRLIGIGD  114 (145)
T ss_dssp             ---------SCHHH---HHHH---HTTSCEEEECGGGSCHHHHHHHHHHHHSSSCSSCEEEEES
T ss_pred             ---------hhhhc---HHHH---cCCcEEEEcChHHCCHHHHHHHHHHHhhcCCCEEEEEECC
Confidence                     11111   1111   1235789999987654455667776654444557777764

>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=98.50  E-value=4.6e-07  Score=72.37  Aligned_cols=119  Identities=16%  Similarity=0.152  Sum_probs=64.2

Q ss_pred             hhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCC
Q 048765          175 VGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGH  254 (314)
Q Consensus       175 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~  254 (314)
                      ....+.+.+++..-..   .....+.|+|++|+|||||++.++........+ .++++      +..++...+...+...
T Consensus        20 ~~~~~~~~~~~~~~~~---~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~-~~~~~------~~~~~~~~~~~~~~~~   89 (180)
T 3ec2_A           20 NRALLTIRVFVHNFNP---EEGKGLTFVGSPGVGKTHLAVATLKAIYEKKGI-RGYFF------DTKDLIFRLKHLMDEG   89 (180)
T ss_dssp             HHHHHHHHHHHHSCCG---GGCCEEEECCSSSSSHHHHHHHHHHHHHHHSCC-CCCEE------EHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhccc---cCCCEEEEECCCCCCHHHHHHHHHHHHHHHcCC-eEEEE------EHHHHHHHHHHHhcCc
Confidence            3444445544433221   234688999999999999999998843322222 23344      3445555554444322


Q ss_pred             CCCCCcHHHHHHHHHHHccCceEEEEEeccccCCccCHH--hHHHhhccC-CCCceEEEecc
Q 048765          255 ESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWE--PFYHCLKNG-LHGSKILVTTR  313 (314)
Q Consensus       255 ~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~--~l~~~l~~~-~~gs~iivTtR  313 (314)
                      ..  .   .....+    . +.-+|||||++......|.  .+...+... ..|..||+||.
T Consensus        90 ~~--~---~~~~~~----~-~~~llilDE~~~~~~~~~~~~~l~~ll~~~~~~~~~ii~tsn  141 (180)
T 3ec2_A           90 KD--T---KFLKTV----L-NSPVLVLDDLGSERLSDWQRELISYIITYRYNNLKSTIITTN  141 (180)
T ss_dssp             CC--S---HHHHHH----H-TCSEEEEETCSSSCCCHHHHHHHHHHHHHHHHTTCEEEEECC
T ss_pred             hH--H---HHHHHh----c-CCCEEEEeCCCCCcCCHHHHHHHHHHHHHHHHcCCCEEEEcC
Confidence            11  1   122222    2 4568999999743223343  344444322 24667888885

>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=98.44  E-value=3.7e-07  Score=79.54  Aligned_cols=120  Identities=12%  Similarity=0.100  Sum_probs=72.9

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcC-ceeEEEEcCccccHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKF-DKILWVCVSETFEEFRVAKAM  247 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F-~~~~wv~~~~~~~~~~~~~~i  247 (314)
                      +.++|++..++.+.+++....      ...+.++|++|+|||++|+.++.... ...+ ...+.++.+.....       
T Consensus        17 ~~~~g~~~~~~~l~~~l~~~~------~~~~ll~G~~G~GKt~la~~l~~~l~-~~~~~~~~~~~~~~~~~~~-------   82 (319)
T 2chq_A           17 DEVVGQDEVIQRLKGYVERKN------IPHLLFSGPPGTGKTATAIALARDLF-GENWRDNFIEMNASDERGI-------   82 (319)
T ss_dssp             GGSCSCHHHHHHHHTTTTTTC------CCCEEEESSSSSSHHHHHHHHHHHHH-TTCHHHHCEEEETTSTTCT-------
T ss_pred             HHHhCCHHHHHHHHHHHhCCC------CCeEEEECcCCcCHHHHHHHHHHHhc-CCcccCCeEEEeCccccCh-------
Confidence            458999999999888876532      23388999999999999999987321 1111 12334454432111       


Q ss_pred             HHHhcCCCCCCCcHHHHHHHHHHH--c-cCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEecc
Q 048765          248 VEALDGHESHLGEFQSLLRHIYES--I-AGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTR  313 (314)
Q Consensus       248 ~~~~~~~~~~~~~~~~~~~~l~~~--L-~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR  313 (314)
                                 .........+...  + .+++.++|||++........+.|...+.....+..+|+||.
T Consensus        83 -----------~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~  140 (319)
T 2chq_A           83 -----------DVVRHKIKEFARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCN  140 (319)
T ss_dssp             -----------TTSSHHHHHHHHSCCSSSCCCEEEEEETGGGSCHHHHHTTGGGTSSSSSSEEEEEEES
T ss_pred             -----------HHHHHHHHHHHhcCCCCCCCceEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeC
Confidence                       1111111111111  1 35688999999987654445666666655556677777764

>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=98.43  E-value=9.9e-07  Score=78.67  Aligned_cols=133  Identities=16%  Similarity=0.185  Sum_probs=75.5

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMV  248 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  248 (314)
                      ..++|++..++.+...+....     ....+.|+|++|+||||+|+.++........+.   ...+....+.    ..+.
T Consensus        16 ~~~vg~~~~~~~L~~~l~~~~-----~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~---~~~~~~~~~~----~~~~   83 (373)
T 1jr3_A           16 ADVVGQEHVLTALANGLSLGR-----IHHAYLFSGTRGVGKTSIARLLAKGLNCETGIT---ATPCGVCDNC----REIE   83 (373)
T ss_dssp             TTSCSCHHHHHHHHHHHHHTC-----CCSEEEEESCTTSSHHHHHHHHHHHHSCTTCSC---SSCCSSSHHH----HHHH
T ss_pred             hhccCcHHHHHHHHHHHHhCC-----CCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCC---CCCCcccHHH----HHHh
Confidence            459999999999999886532     234778999999999999999876332111110   0001110000    1111


Q ss_pred             HHh-------cCC-CCCCCcHHHHHHHHHHH-ccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEecc
Q 048765          249 EAL-------DGH-ESHLGEFQSLLRHIYES-IAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTR  313 (314)
Q Consensus       249 ~~~-------~~~-~~~~~~~~~~~~~l~~~-L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR  313 (314)
                      ...       ... .....+...+...+... ..+++.+|||||+...+....+.|...+.....+..+|++|.
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~Ll~~le~~~~~~~~Il~~~  157 (373)
T 1jr3_A           84 QGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATT  157 (373)
T ss_dssp             TSCCSSCEEEETTCSCCSSCHHHHHHHTTSCCSSSSSEEEEEECGGGSCHHHHHHHHHHHHSCCSSEEEEEEES
T ss_pred             ccCCCceEEecccccCCHHHHHHHHHHHhhccccCCeEEEEEECcchhcHHHHHHHHHHHhcCCCceEEEEEeC
Confidence            000       000 01122333333332211 145678999999987655567778777766555667777764

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=98.42  E-value=6.4e-07  Score=72.87  Aligned_cols=117  Identities=18%  Similarity=0.190  Sum_probs=61.9

Q ss_pred             hHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCC
Q 048765          177 EKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHES  256 (314)
Q Consensus       177 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~  256 (314)
                      .++.+.+++......  .....+.|+|++|+|||+||+.+++.  .......++|++++      .+...+...+..   
T Consensus        37 ~~~~~~~~~~~~~~~--~~~~~~~l~G~~GtGKT~la~~i~~~--~~~~~~~~~~~~~~------~~~~~~~~~~~~---  103 (202)
T 2w58_A           37 AIRFAERFVAEYEPG--KKMKGLYLHGSFGVGKTYLLAAIANE--LAKRNVSSLIVYVP------ELFRELKHSLQD---  103 (202)
T ss_dssp             HHHHHHHHHHHCCSS--CCCCEEEEECSTTSSHHHHHHHHHHH--HHTTTCCEEEEEHH------HHHHHHHHC------
T ss_pred             HHHHHHHHHHHhhhc--cCCCeEEEECCCCCCHHHHHHHHHHH--HHHcCCeEEEEEhH------HHHHHHHHHhcc---
Confidence            445555665443210  12267889999999999999999874  33334456666553      344444333221   


Q ss_pred             CCCcHHHHHHHHHHHccCceEEEEEeccccCCccCHH--hHHH-hhccC-CCCceEEEecc
Q 048765          257 HLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWE--PFYH-CLKNG-LHGSKILVTTR  313 (314)
Q Consensus       257 ~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~--~l~~-~l~~~-~~gs~iivTtR  313 (314)
                        .........+..     .-+|||||++......|.  .+.. .+... ..+.++|+||.
T Consensus       104 --~~~~~~~~~~~~-----~~~lilDei~~~~~~~~~~~~ll~~~l~~~~~~~~~~i~tsn  157 (202)
T 2w58_A          104 --QTMNEKLDYIKK-----VPVLMLDDLGAEAMSSWVRDDVFGPILQYRMFENLPTFFTSN  157 (202)
T ss_dssp             --CCCHHHHHHHHH-----SSEEEEEEECCC---CCGGGTTHHHHHHHHHHTTCCEEEEES
T ss_pred             --chHHHHHHHhcC-----CCEEEEcCCCCCcCCHHHHHHHHHHHHHHHHhCCCCEEEEcC
Confidence              112222333321     239999999664323332  2332 33221 23557888875

>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=98.37  E-value=2.4e-06  Score=75.55  Aligned_cols=133  Identities=13%  Similarity=0.042  Sum_probs=76.2

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcC-ceeEEEEcCccccHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKF-DKILWVCVSETFEEFRVAKAM  247 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F-~~~~wv~~~~~~~~~~~~~~i  247 (314)
                      ..++|++..++.+..++....      ...+.++|++|+||||+|+.++........+ .....++.+.......+ ...
T Consensus        37 ~~i~g~~~~~~~l~~~l~~~~------~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~  109 (353)
T 1sxj_D           37 DEVTAQDHAVTVLKKTLKSAN------LPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIV-REK  109 (353)
T ss_dssp             TTCCSCCTTHHHHHHHTTCTT------CCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHH-TTH
T ss_pred             HHhhCCHHHHHHHHHHHhcCC------CCEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEccccccchHHH-HHH
Confidence            568999999999999886532      2238899999999999999998743211112 12344555443333222 222


Q ss_pred             HHHhcCC-CCCCCcHHHHHHHHHHHccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEecc
Q 048765          248 VEALDGH-ESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTR  313 (314)
Q Consensus       248 ~~~~~~~-~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR  313 (314)
                      ...+... .......     .....-.++.-+|+||++..........|...+.......++|++|.
T Consensus       110 ~~~~~~~~~~~~~~~-----~~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~~~~~~~il~~~  171 (353)
T 1sxj_D          110 VKNFARLTVSKPSKH-----DLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICN  171 (353)
T ss_dssp             HHHHHHSCCCCCCTT-----HHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEES
T ss_pred             HHHHhhhcccccchh-----hcccCCCCCceEEEEECCCccCHHHHHHHHHHHHhcCCCceEEEEeC
Confidence            2222110 0000000     00011124567999999977654455667777765555667777763

>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=98.32  E-value=1.7e-06  Score=75.72  Aligned_cols=118  Identities=19%  Similarity=0.182  Sum_probs=73.3

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMV  248 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  248 (314)
                      ++++|.+..++.+.+++....     ...++.+.|++|+|||++|+.+++.  ..   ...+.++.+.. ... .++..+
T Consensus        26 ~~ivg~~~~~~~l~~~l~~~~-----~~~~~L~~G~~G~GKT~la~~la~~--l~---~~~~~i~~~~~-~~~-~i~~~~   93 (324)
T 3u61_B           26 DECILPAFDKETFKSITSKGK-----IPHIILHSPSPGTGKTTVAKALCHD--VN---ADMMFVNGSDC-KID-FVRGPL   93 (324)
T ss_dssp             TTSCCCHHHHHHHHHHHHTTC-----CCSEEEECSSTTSSHHHHHHHHHHH--TT---EEEEEEETTTC-CHH-HHHTHH
T ss_pred             HHHhCcHHHHHHHHHHHHcCC-----CCeEEEeeCcCCCCHHHHHHHHHHH--hC---CCEEEEccccc-CHH-HHHHHH
Confidence            568999999999999987432     3457788899999999999999763  22   23455565442 222 222222


Q ss_pred             HHhcCCCCCCCcHHHHHHHHHHHccCceEEEEEeccccCC-ccCHHhHHHhhccCCCCceEEEecc
Q 048765          249 EALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGN-YVKWEPFYHCLKNGLHGSKILVTTR  313 (314)
Q Consensus       249 ~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~-~~~~~~l~~~l~~~~~gs~iivTtR  313 (314)
                      ..+....               .+.+++.+|+||++.... ....+.|...+.....+.++|+||.
T Consensus        94 ~~~~~~~---------------~~~~~~~vliiDEi~~l~~~~~~~~L~~~le~~~~~~~iI~~~n  144 (324)
T 3u61_B           94 TNFASAA---------------SFDGRQKVIVIDEFDRSGLAESQRHLRSFMEAYSSNCSIIITAN  144 (324)
T ss_dssp             HHHHHBC---------------CCSSCEEEEEEESCCCGGGHHHHHHHHHHHHHHGGGCEEEEEES
T ss_pred             HHHHhhc---------------ccCCCCeEEEEECCcccCcHHHHHHHHHHHHhCCCCcEEEEEeC
Confidence            2111000               013478899999997653 3345556666654344567877764

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=98.30  E-value=6.8e-07  Score=68.66  Aligned_cols=109  Identities=8%  Similarity=0.061  Sum_probs=61.8

Q ss_pred             ccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHH
Q 048765          170 EICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVE  249 (314)
Q Consensus       170 ~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~  249 (314)
                      .++|+...+..+.+.+..-..    ...-|.|+|.+|+|||++|+.+++...      ..+.++++...  ....     
T Consensus         5 ~~iG~s~~~~~l~~~~~~~~~----~~~~vll~G~~GtGKt~lA~~i~~~~~------~~~~~~~~~~~--~~~~-----   67 (143)
T 3co5_A            5 DKLGNSAAIQEMNREVEAAAK----RTSPVFLTGEAGSPFETVARYFHKNGT------PWVSPARVEYL--IDMP-----   67 (143)
T ss_dssp             ---CCCHHHHHHHHHHHHHHT----CSSCEEEEEETTCCHHHHHGGGCCTTS------CEECCSSTTHH--HHCH-----
T ss_pred             CceeCCHHHHHHHHHHHHHhC----CCCcEEEECCCCccHHHHHHHHHHhCC------CeEEechhhCC--hHhh-----
Confidence            578888888888877654221    123477999999999999999987321      23333333211  1110     


Q ss_pred             HhcCCCCCCCcHHHHHHHHHHHccCceEEEEEeccccCCccCHHhHHHhhccC-CCCceEEEecc
Q 048765          250 ALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNG-LHGSKILVTTR  313 (314)
Q Consensus       250 ~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~-~~gs~iivTtR  313 (314)
                                      ..+.+.  .+.-.|+||++..........+...+... ....+||.||.
T Consensus        68 ----------------~~~~~~--a~~~~l~lDei~~l~~~~q~~Ll~~l~~~~~~~~~iI~~tn  114 (143)
T 3co5_A           68 ----------------MELLQK--AEGGVLYVGDIAQYSRNIQTGITFIIGKAERCRVRVIASCS  114 (143)
T ss_dssp             ----------------HHHHHH--TTTSEEEEEECTTCCHHHHHHHHHHHHHHTTTTCEEEEEEE
T ss_pred             ----------------hhHHHh--CCCCeEEEeChHHCCHHHHHHHHHHHHhCCCCCEEEEEecC
Confidence                            111111  12347899999776544445566655533 33467777763

>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=98.26  E-value=8.7e-06  Score=74.43  Aligned_cols=102  Identities=20%  Similarity=0.275  Sum_probs=60.7

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcC--ceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHcc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKF--DKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIA  273 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F--~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~  273 (314)
                      ...+.|+|++|+||||||+.+++  .....|  ..++++++.      .+...+...+...     ..    ..+...+.
T Consensus       130 ~~~lll~Gp~G~GKTtLa~aia~--~l~~~~~~~~v~~v~~~------~~~~~~~~~~~~~-----~~----~~~~~~~~  192 (440)
T 2z4s_A          130 YNPLFIYGGVGLGKTHLLQSIGN--YVVQNEPDLRVMYITSE------KFLNDLVDSMKEG-----KL----NEFREKYR  192 (440)
T ss_dssp             SCCEEEECSSSSSHHHHHHHHHH--HHHHHCCSSCEEEEEHH------HHHHHHHHHHHTT-----CH----HHHHHHHT
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH--HHHHhCCCCeEEEeeHH------HHHHHHHHHHHcc-----cH----HHHHHHhc
Confidence            56789999999999999999987  333333  234555443      3344444444321     11    22333334


Q ss_pred             CceEEEEEeccccCCc--cCHHhHHHhhcc-CCCCceEEEeccC
Q 048765          274 GKSFLLVLDDVWDGNY--VKWEPFYHCLKN-GLHGSKILVTTRK  314 (314)
Q Consensus       274 ~kr~LlVlDdv~~~~~--~~~~~l~~~l~~-~~~gs~iivTtR~  314 (314)
                      .+.-+|+|||++....  ...+.+...+.. ...|..||+||.+
T Consensus       193 ~~~~vL~IDEi~~l~~~~~~q~~l~~~l~~l~~~~~~iIitt~~  236 (440)
T 2z4s_A          193 KKVDILLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDR  236 (440)
T ss_dssp             TTCSEEEEECGGGGSSCHHHHHHHHHHHHHHHTTTCEEEEEESS
T ss_pred             CCCCEEEEeCcccccCChHHHHHHHHHHHHHHHCCCeEEEEECC
Confidence            3677999999976532  123345555432 2457788888863

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=98.25  E-value=7.5e-06  Score=71.03  Aligned_cols=124  Identities=15%  Similarity=0.137  Sum_probs=66.7

Q ss_pred             ccccchhhHHHHHHHhhccCc---------CCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCc--eeEEEEcCccc
Q 048765          170 EICGRVGEKNELLSKLLCESS---------EQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFD--KILWVCVSETF  238 (314)
Q Consensus       170 ~~vgr~~~~~~l~~~L~~~~~---------~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~--~~~wv~~~~~~  238 (314)
                      .++|.+..++.|.+.+.....         ........+.|+|++|+|||+||+.+++.........  ..+.++.+.-.
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~l~  111 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDLV  111 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEECGGGTC
T ss_pred             HccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEcHHHhh
Confidence            488888887777765432100         0013455789999999999999998877432222221  23333322110


Q ss_pred             cHHHHHHHHHHHhcCCCCCCCcH-HHHHHHHHHHccCceEEEEEeccccC---------CccCHHhHHHhhccCCCCceE
Q 048765          239 EEFRVAKAMVEALDGHESHLGEF-QSLLRHIYESIAGKSFLLVLDDVWDG---------NYVKWEPFYHCLKNGLHGSKI  308 (314)
Q Consensus       239 ~~~~~~~~i~~~~~~~~~~~~~~-~~~~~~l~~~L~~kr~LlVlDdv~~~---------~~~~~~~l~~~l~~~~~gs~i  308 (314)
                                    .  ...... ..+...+...   +..+|+||++...         .......|...+.....+..|
T Consensus       112 --------------~--~~~g~~~~~~~~~~~~~---~~~vl~iDEid~l~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~~  172 (309)
T 3syl_A          112 --------------G--QYIGHTAPKTKEVLKRA---MGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENNRDDLVV  172 (309)
T ss_dssp             --------------C--SSTTCHHHHHHHHHHHH---TTSEEEEETGGGSCCCC---CCTHHHHHHHHHHHHHCTTTCEE
T ss_pred             --------------h--hcccccHHHHHHHHHhc---CCCEEEEEChhhhccCCCcccccHHHHHHHHHHHhcCCCCEEE
Confidence                          0  001111 1111222221   3459999999743         223345566666655556677


Q ss_pred             EEec
Q 048765          309 LVTT  312 (314)
Q Consensus       309 ivTt  312 (314)
                      |+||
T Consensus       173 i~~~  176 (309)
T 3syl_A          173 ILAG  176 (309)
T ss_dssp             EEEE
T ss_pred             EEeC
Confidence            7776

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=98.25  E-value=2.4e-06  Score=73.37  Aligned_cols=51  Identities=24%  Similarity=0.182  Sum_probs=37.5

Q ss_pred             ccccccchhhHHHHHHHhhccCcC-------CCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          168 EEEICGRVGEKNELLSKLLCESSE-------QQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       168 ~~~~vgr~~~~~~l~~~L~~~~~~-------~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -+.++|.+..++.|.+.+...-..       .......+.|+|++|+|||+||+.+++
T Consensus        16 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~   73 (285)
T 3h4m_A           16 YEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVAT   73 (285)
T ss_dssp             GGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHH
Confidence            356999999999888877432000       002345688999999999999999987

>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=98.24  E-value=1e-06  Score=73.40  Aligned_cols=112  Identities=16%  Similarity=0.112  Sum_probs=61.9

Q ss_pred             cccccc---hhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHH
Q 048765          169 EEICGR---VGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAK  245 (314)
Q Consensus       169 ~~~vgr---~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~  245 (314)
                      +.++|.   ...++.+..++..      .....+.|+|++|+|||+||+.++..  .......+.|++++.....     
T Consensus        28 ~~~~~~~~~~~~~~~l~~~~~~------~~~~~~ll~G~~G~GKT~la~~l~~~--~~~~~~~~~~~~~~~~~~~-----   94 (242)
T 3bos_A           28 TSYYPAAGNDELIGALKSAASG------DGVQAIYLWGPVKSGRTHLIHAACAR--ANELERRSFYIPLGIHASI-----   94 (242)
T ss_dssp             TTSCC--CCHHHHHHHHHHHHT------CSCSEEEEECSTTSSHHHHHHHHHHH--HHHTTCCEEEEEGGGGGGS-----
T ss_pred             hhccCCCCCHHHHHHHHHHHhC------CCCCeEEEECCCCCCHHHHHHHHHHH--HHHcCCeEEEEEHHHHHHH-----
Confidence            346653   2444555555433      13467889999999999999999873  3333445677776542211     


Q ss_pred             HHHHHhcCCCCCCCcHHHHHHHHHHHccCceEEEEEeccccCCccC--HHhHHHhhccC-CCCc-eEEEecc
Q 048765          246 AMVEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVK--WEPFYHCLKNG-LHGS-KILVTTR  313 (314)
Q Consensus       246 ~i~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~--~~~l~~~l~~~-~~gs-~iivTtR  313 (314)
                       +...+                  ..+ .+..+|||||++......  .+.+...+... ..+. ++|+||+
T Consensus        95 -~~~~~------------------~~~-~~~~vliiDe~~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~~~~  146 (242)
T 3bos_A           95 -STALL------------------EGL-EQFDLICIDDVDAVAGHPLWEEAIFDLYNRVAEQKRGSLIVSAS  146 (242)
T ss_dssp             -CGGGG------------------TTG-GGSSEEEEETGGGGTTCHHHHHHHHHHHHHHHHHCSCEEEEEES
T ss_pred             -HHHHH------------------Hhc-cCCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCCeEEEEcC
Confidence             00000                  011 346799999997654322  33454444321 1222 4777765

>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=98.18  E-value=7.9e-06  Score=71.51  Aligned_cols=101  Identities=27%  Similarity=0.280  Sum_probs=55.4

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHccC
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAG  274 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~  274 (314)
                      ....+.|+|++|+||||||+.+++...  ..-...+++++.      .+...+...+...     ....    +...+. 
T Consensus        36 ~~~~lll~G~~GtGKT~la~~i~~~~~--~~~~~~~~i~~~------~~~~~~~~~~~~~-----~~~~----~~~~~~-   97 (324)
T 1l8q_A           36 LYNPIFIYGSVGTGKTHLLQAAGNEAK--KRGYRVIYSSAD------DFAQAMVEHLKKG-----TINE----FRNMYK-   97 (324)
T ss_dssp             SCSSEEEECSSSSSHHHHHHHHHHHHH--HTTCCEEEEEHH------HHHHHHHHHHHHT-----CHHH----HHHHHH-
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHH--HCCCEEEEEEHH------HHHHHHHHHHHcC-----cHHH----HHHHhc-
Confidence            356788999999999999999987432  212234555443      3333333333211     1111    222222 


Q ss_pred             ceEEEEEeccccCCc--cCHHhHHHhhcc-CCCCceEEEecc
Q 048765          275 KSFLLVLDDVWDGNY--VKWEPFYHCLKN-GLHGSKILVTTR  313 (314)
Q Consensus       275 kr~LlVlDdv~~~~~--~~~~~l~~~l~~-~~~gs~iivTtR  313 (314)
                      +..+|+|||+.....  .....+...+.. ...|..||+||.
T Consensus        98 ~~~vL~iDEi~~l~~~~~~~~~l~~~l~~~~~~~~~iii~~~  139 (324)
T 1l8q_A           98 SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASD  139 (324)
T ss_dssp             TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEES
T ss_pred             CCCEEEEcCcccccCChHHHHHHHHHHHHHHHCCCeEEEEec
Confidence            367999999976432  112334444431 134567888774

>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=98.15  E-value=8.3e-06  Score=72.18  Aligned_cols=44  Identities=20%  Similarity=0.095  Sum_probs=34.3

Q ss_pred             cccccchhhHHHHHHHh-hccCcCCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELLSKL-LCESSEQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L-~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..++|.+...+.+..++ ....     ... +.|+|+.|+||||+++.++.
T Consensus        14 ~~~vg~~~~~~~l~~~~~~~~~-----~~~-~ll~Gp~G~GKTtl~~~la~   58 (354)
T 1sxj_E           14 NALSHNEELTNFLKSLSDQPRD-----LPH-LLLYGPNGTGKKTRCMALLE   58 (354)
T ss_dssp             GGCCSCHHHHHHHHTTTTCTTC-----CCC-EEEECSTTSSHHHHHHTHHH
T ss_pred             HHhcCCHHHHHHHHHHHhhCCC-----CCe-EEEECCCCCCHHHHHHHHHH
Confidence            45889988888888777 3321     223 89999999999999998876

>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=98.14  E-value=2.8e-06  Score=74.26  Aligned_cols=104  Identities=19%  Similarity=0.219  Sum_probs=61.7

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMV  248 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  248 (314)
                      ..++|++..+..+...+...... ......+.|+|++|+|||+||+.+++.  ...   ...+++++.......+.    
T Consensus        12 ~~~ig~~~~~~~l~~~l~~~~~~-~~~~~~vll~G~~GtGKT~la~~i~~~--~~~---~~~~~~~~~~~~~~~l~----   81 (324)
T 1hqc_A           12 DEYIGQERLKQKLRVYLEAAKAR-KEPLEHLLLFGPPGLGKTTLAHVIAHE--LGV---NLRVTSGPAIEKPGDLA----   81 (324)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHH-CSCCCCCEEECCTTCCCHHHHHHHHHH--HTC---CEEEECTTTCCSHHHHH----
T ss_pred             HHhhCHHHHHHHHHHHHHHHHcc-CCCCCcEEEECCCCCCHHHHHHHHHHH--hCC---CEEEEeccccCChHHHH----
Confidence            46999999888888777532110 022356889999999999999999873  222   23455554432222211    


Q ss_pred             HHhcCCCCCCCcHHHHHHHHHHHccCceEEEEEeccccCCccCHHhHHHhhc
Q 048765          249 EALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLK  300 (314)
Q Consensus       249 ~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~  300 (314)
                                       ..+...+ .+..+|+||++..........+...+.
T Consensus        82 -----------------~~l~~~~-~~~~~l~lDEi~~l~~~~~~~L~~~l~  115 (324)
T 1hqc_A           82 -----------------AILANSL-EEGDILFIDEIHRLSRQAEEHLYPAME  115 (324)
T ss_dssp             -----------------HHHTTTC-CTTCEEEETTTTSCCHHHHHHHHHHHH
T ss_pred             -----------------HHHHHhc-cCCCEEEEECCcccccchHHHHHHHHH
Confidence                             1111111 345689999997654334444555544

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=98.14  E-value=8.6e-06  Score=70.69  Aligned_cols=123  Identities=11%  Similarity=0.185  Sum_probs=68.8

Q ss_pred             ccccchhhHHHHHHHhhccCc---CCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHH
Q 048765          170 EICGRVGEKNELLSKLLCESS---EQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKA  246 (314)
Q Consensus       170 ~~vgr~~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~  246 (314)
                      .++|.+..++.+...+.....   ........+.++|++|+|||++|+.++..  ....-...+.++++....... .  
T Consensus        18 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~--~~~~~~~~~~~~~~~~~~~~~-~--   92 (311)
T 4fcw_A           18 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAAT--LFDTEEAMIRIDMTEYMEKHA-V--   92 (311)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHH--HHSCGGGEEEEEGGGCCSTTH-H--
T ss_pred             hcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHH--HcCCCcceEEeeccccccccc-H--
Confidence            478888888887777654311   01123468899999999999999999873  322223355666654332211 1  


Q ss_pred             HHHHhcCCCCCC--CcHHHHHHHHHHHccCceEEEEEeccccCCccCHHhHHHhhcc
Q 048765          247 MVEALDGHESHL--GEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKN  301 (314)
Q Consensus       247 i~~~~~~~~~~~--~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~  301 (314)
                       ...++......  .....+...+.   .....+|+||++..........|...+..
T Consensus        93 -~~l~g~~~~~~~~~~~~~~~~~~~---~~~~~vl~lDEi~~l~~~~~~~Ll~~le~  145 (311)
T 4fcw_A           93 -SRLIGAPPGYVGYEEGGQLTEAVR---RRPYSVILFDAIEKAHPDVFNILLQMLDD  145 (311)
T ss_dssp             -HHHHCCCTTSTTTTTCCHHHHHHH---HCSSEEEEEETGGGSCHHHHHHHHHHHHH
T ss_pred             -HHhcCCCCccccccccchHHHHHH---hCCCeEEEEeChhhcCHHHHHHHHHHHhc
Confidence             11122211110  00011222221   23457999999987765556667766643

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=98.12  E-value=9.1e-06  Score=74.32  Aligned_cols=103  Identities=18%  Similarity=0.207  Sum_probs=59.0

Q ss_pred             cccccchhhH---HHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHH
Q 048765          169 EEICGRVGEK---NELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAK  245 (314)
Q Consensus       169 ~~~vgr~~~~---~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~  245 (314)
                      ..++|.+..+   ..|...+...      ....+.|+|++|+||||||+.+++  .....|   ..++... .....   
T Consensus        26 ~~ivGq~~~~~~~~~L~~~i~~~------~~~~vLL~GppGtGKTtlAr~ia~--~~~~~f---~~l~a~~-~~~~~---   90 (447)
T 3pvs_A           26 AQYIGQQHLLAAGKPLPRAIEAG------HLHSMILWGPPGTGKTTLAEVIAR--YANADV---ERISAVT-SGVKE---   90 (447)
T ss_dssp             TTCCSCHHHHSTTSHHHHHHHHT------CCCEEEEECSTTSSHHHHHHHHHH--HTTCEE---EEEETTT-CCHHH---
T ss_pred             HHhCCcHHHHhchHHHHHHHHcC------CCcEEEEECCCCCcHHHHHHHHHH--HhCCCe---EEEEecc-CCHHH---
Confidence            4688887766   5666666543      346789999999999999999987  333333   1222221 11111   


Q ss_pred             HHHHHhcCCCCCCCcHHHHHHHHHH-HccCceEEEEEeccccCCccCHHhHHHhhcc
Q 048765          246 AMVEALDGHESHLGEFQSLLRHIYE-SIAGKSFLLVLDDVWDGNYVKWEPFYHCLKN  301 (314)
Q Consensus       246 ~i~~~~~~~~~~~~~~~~~~~~l~~-~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~  301 (314)
                                     .......... ...+++.+|+||++........+.|...+..
T Consensus        91 ---------------ir~~~~~a~~~~~~~~~~iLfIDEI~~l~~~~q~~LL~~le~  132 (447)
T 3pvs_A           91 ---------------IREAIERARQNRNAGRRTILFVDEVHRFNKSQQDAFLPHIED  132 (447)
T ss_dssp             ---------------HHHHHHHHHHHHHTTCCEEEEEETTTCC------CCHHHHHT
T ss_pred             ---------------HHHHHHHHHHhhhcCCCcEEEEeChhhhCHHHHHHHHHHHhc
Confidence                           1111111111 1246788999999987655556667776764

>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=98.12  E-value=9.3e-06  Score=68.58  Aligned_cols=50  Identities=22%  Similarity=0.165  Sum_probs=33.6

Q ss_pred             cccccchhhHHHHHHHhh---ccCcC---CCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELLSKLL---CESSE---QQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~---~~~~~---~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+++|.+...+.+.+++.   ....-   .......+.|+|++|+|||+||+.+++
T Consensus         6 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~   61 (262)
T 2qz4_A            6 KDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVAT   61 (262)
T ss_dssp             TSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHH
Confidence            468888877766655432   21100   012345678999999999999999987

>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=98.11  E-value=1.3e-05  Score=70.66  Aligned_cols=122  Identities=12%  Similarity=0.095  Sum_probs=69.1

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCc-eeEEEEcCccccHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFD-KILWVCVSETFEEFRVAKAM  247 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~-~~~wv~~~~~~~~~~~~~~i  247 (314)
                      +.++|.+..++.|...+....      ...+.++|+.|+||||+|+.++.... ...+. ....++.+.......+ +.+
T Consensus        25 ~~~~g~~~~~~~L~~~i~~g~------~~~~ll~Gp~G~GKTtla~~la~~l~-~~~~~~~~~~~~~~~~~~~~~i-r~~   96 (340)
T 1sxj_C           25 DEVYGQNEVITTVRKFVDEGK------LPHLLFYGPPGTGKTSTIVALAREIY-GKNYSNMVLELNASDDRGIDVV-RNQ   96 (340)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTC------CCCEEEECSSSSSHHHHHHHHHHHHH-TTSHHHHEEEECTTSCCSHHHH-HTH
T ss_pred             HHhcCcHHHHHHHHHHHhcCC------CceEEEECCCCCCHHHHHHHHHHHHc-CCCccceEEEEcCcccccHHHH-HHH
Confidence            457888888888887776432      22388999999999999999987321 11111 1223333332222211 111


Q ss_pred             HHHhcCCCCCCCcHHHHHHHHHHHccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEec
Q 048765          248 VEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTT  312 (314)
Q Consensus       248 ~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTt  312 (314)
                      +..+....              ..+.+.+-++|+|++........+.|...+.......++|++|
T Consensus        97 i~~~~~~~--------------~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~  147 (340)
T 1sxj_C           97 IKDFASTR--------------QIFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLA  147 (340)
T ss_dssp             HHHHHHBC--------------CSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEE
T ss_pred             HHHHHhhc--------------ccCCCCceEEEEeCCCCCCHHHHHHHHHHHhcCCCCeEEEEEe
Confidence            11111000              0012346789999997665445666777776555566666665

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=98.10  E-value=2.7e-06  Score=65.81  Aligned_cols=86  Identities=15%  Similarity=0.103  Sum_probs=50.4

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHccCc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGK  275 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~k  275 (314)
                      -..+.|+|+.|+|||||++.++...... . ...++++.......                             .. ..+
T Consensus        36 g~~~~l~G~~G~GKTtL~~~i~~~~~~~-g-~~~~~~~~~~~~~~-----------------------------~~-~~~   83 (149)
T 2kjq_A           36 GQFIYVWGEEGAGKSHLLQAWVAQALEA-G-KNAAYIDAASMPLT-----------------------------DA-AFE   83 (149)
T ss_dssp             CSEEEEESSSTTTTCHHHHHHHHHHHTT-T-CCEEEEETTTSCCC-----------------------------GG-GGG
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHhc-C-CcEEEEcHHHhhHH-----------------------------HH-HhC
Confidence            3578999999999999999998743321 1 12566665432211                             11 224


Q ss_pred             eEEEEEeccccCCccCHHhHHHhhccC-CCCc-eEEEecc
Q 048765          276 SFLLVLDDVWDGNYVKWEPFYHCLKNG-LHGS-KILVTTR  313 (314)
Q Consensus       276 r~LlVlDdv~~~~~~~~~~l~~~l~~~-~~gs-~iivTtR  313 (314)
                      .-+|||||+...+...-+.+...+... ..|. .||+||+
T Consensus        84 ~~lLilDE~~~~~~~~~~~l~~li~~~~~~g~~~iiits~  123 (149)
T 2kjq_A           84 AEYLAVDQVEKLGNEEQALLFSIFNRFRNSGKGFLLLGSE  123 (149)
T ss_dssp             CSEEEEESTTCCCSHHHHHHHHHHHHHHHHTCCEEEEEES
T ss_pred             CCEEEEeCccccChHHHHHHHHHHHHHHHcCCcEEEEECC
Confidence            568899998654322233344444321 2233 4888876

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=98.09  E-value=3.7e-05  Score=68.34  Aligned_cols=47  Identities=19%  Similarity=0.282  Sum_probs=34.9

Q ss_pred             cccccchhhHHH---HHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          169 EEICGRVGEKNE---LLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       169 ~~~vgr~~~~~~---l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      +.++|++...+.   +...+....    ...+.+.|+|++|+|||+||+.++..
T Consensus        44 ~~ivG~~~~~~~l~~l~~~~~~~~----~~~~~vLl~GppGtGKT~la~~la~~   93 (368)
T 3uk6_A           44 QGMVGQLAARRAAGVVLEMIREGK----IAGRAVLIAGQPGTGKTAIAMGMAQA   93 (368)
T ss_dssp             TTEESCHHHHHHHHHHHHHHHTTC----CTTCEEEEEESTTSSHHHHHHHHHHH
T ss_pred             hhccChHHHHHHHHHHHHHHHcCC----CCCCEEEEECCCCCCHHHHHHHHHHH
Confidence            569999887665   444444322    22368899999999999999999873

>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=98.06  E-value=2.8e-05  Score=67.46  Aligned_cols=116  Identities=12%  Similarity=-0.036  Sum_probs=72.3

Q ss_pred             chhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHh-hh-hcCceeEEEEcCc-cccHHHHHHHHHHH
Q 048765          174 RVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEE-VI-RKFDKILWVCVSE-TFEEFRVAKAMVEA  250 (314)
Q Consensus       174 r~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~-~~-~~F~~~~wv~~~~-~~~~~~~~~~i~~~  250 (314)
                      .++.++.|...+...      +.....++|++|+|||++|+.+.+... .. .|.+ ..+++.+. ...... .+.+.+.
T Consensus         2 ~~~~~~~L~~~i~~~------~~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d-~~~l~~~~~~~~id~-ir~li~~   73 (305)
T 2gno_A            2 AKDQLETLKRIIEKS------EGISILINGEDLSYPREVSLELPEYVEKFPPKASD-VLEIDPEGENIGIDD-IRTIKDF   73 (305)
T ss_dssp             --CHHHHHHHHHHTC------SSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTT-EEEECCSSSCBCHHH-HHHHHHH
T ss_pred             hHHHHHHHHHHHHCC------CCcEEEEECCCCCCHHHHHHHHHHhCchhhccCCC-EEEEcCCcCCCCHHH-HHHHHHH
Confidence            344556666666542      257888999999999999999976311 11 2333 34555443 233322 2334444


Q ss_pred             hcCCCCCCCcHHHHHHHHHHHccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEecc
Q 048765          251 LDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTR  313 (314)
Q Consensus       251 ~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR  313 (314)
                      +...+                ..+++-++|+|++...+....+.|...+...++.+.+|++|.
T Consensus        74 ~~~~p----------------~~~~~kvviIdead~lt~~a~naLLk~LEep~~~t~fIl~t~  120 (305)
T 2gno_A           74 LNYSP----------------ELYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTR  120 (305)
T ss_dssp             HTSCC----------------SSSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEES
T ss_pred             Hhhcc----------------ccCCceEEEeccHHHhCHHHHHHHHHHHhCCCCCeEEEEEEC
Confidence            32211                135678999999988766677888888877667778887764

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=98.06  E-value=2.2e-05  Score=69.01  Aligned_cols=103  Identities=19%  Similarity=0.202  Sum_probs=62.6

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMV  248 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  248 (314)
                      +.++|++..++.+..++..... .......+.|+|++|+|||+||+.++.  .....   .+.++++.......      
T Consensus        29 ~~iiG~~~~~~~l~~~l~~~~~-~~~~~~~vll~G~~GtGKT~la~~ia~--~~~~~---~~~~~~~~~~~~~~------   96 (338)
T 3pfi_A           29 DGYIGQESIKKNLNVFIAAAKK-RNECLDHILFSGPAGLGKTTLANIISY--EMSAN---IKTTAAPMIEKSGD------   96 (338)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHH-TTSCCCCEEEECSTTSSHHHHHHHHHH--HTTCC---EEEEEGGGCCSHHH------
T ss_pred             HHhCChHHHHHHHHHHHHHHHh-cCCCCCeEEEECcCCCCHHHHHHHHHH--HhCCC---eEEecchhccchhH------
Confidence            5699999999998888864311 012345688999999999999999976  32222   23344432211111      


Q ss_pred             HHhcCCCCCCCcHHHHHHHHHHHccCceEEEEEeccccCCccCHHhHHHhhc
Q 048765          249 EALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLK  300 (314)
Q Consensus       249 ~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~  300 (314)
                                     ....+..  ..+..+|+||++..........|...+.
T Consensus        97 ---------------~~~~~~~--~~~~~vl~lDEi~~l~~~~~~~Ll~~l~  131 (338)
T 3pfi_A           97 ---------------LAAILTN--LSEGDILFIDEIHRLSPAIEEVLYPAME  131 (338)
T ss_dssp             ---------------HHHHHHT--CCTTCEEEEETGGGCCHHHHHHHHHHHH
T ss_pred             ---------------HHHHHHh--ccCCCEEEEechhhcCHHHHHHHHHHHH
Confidence                           1111111  2456799999998765444455655554

>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=98.05  E-value=1.5e-05  Score=67.86  Aligned_cols=47  Identities=19%  Similarity=0.128  Sum_probs=32.6

Q ss_pred             ccccchhhHHHHHH-------HhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          170 EICGRVGEKNELLS-------KLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       170 ~~vgr~~~~~~l~~-------~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .++|....++.++.       .+....   ......+.|+|++|+|||+||+.+++.
T Consensus        34 ~~i~~~~~~~~i~~~~~~l~~~l~~~~---~~~~~~vLl~G~~GtGKT~la~~ia~~   87 (272)
T 1d2n_A           34 GIIKWGDPVTRVLDDGELLVQQTKNSD---RTPLVSVLLEGPPHSGKTALAAKIAEE   87 (272)
T ss_dssp             CCCCCSHHHHHHHHHHHHHHHHHHHCS---SCSEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCCccHHHHHHHHHHHHHHHHHhccC---CCCCeEEEEECCCCCcHHHHHHHHHHH
Confidence            46666666555554       332111   145678899999999999999999873

>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=98.04  E-value=3.6e-05  Score=67.32  Aligned_cols=50  Identities=26%  Similarity=0.363  Sum_probs=36.9

Q ss_pred             cccccchhhHHHHHHHhhcc---C---cCCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELLSKLLCE---S---SEQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~---~---~~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..++|.+..++.|.+.+...   .   .......+.+.++|++|+|||+||+.+++
T Consensus        18 ~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~   73 (322)
T 3eie_A           18 EDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVAT   73 (322)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHH
T ss_pred             HHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHH
Confidence            56899999888888776210   0   00112346788999999999999999987

>2bjv_A PSP operon transcriptional activator; AAA, transcription activation, gene regulation, sigma54 activator, enhancer binding protein, PSPF; 1.7A {Escherichia coli} PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*

Probab=98.02  E-value=7.8e-06  Score=69.40  Aligned_cols=132  Identities=14%  Similarity=0.132  Sum_probs=66.9

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMV  248 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  248 (314)
                      ..++|....+..+.+.+..-.    .....+.|+|.+|+|||+||+.+++..  ...-...+.++++... . ..+...+
T Consensus         6 ~~~ig~~~~~~~~~~~~~~~~----~~~~~vll~G~~GtGKt~la~~i~~~~--~~~~~~~~~v~~~~~~-~-~~~~~~l   77 (265)
T 2bjv_A            6 DNLLGEANSFLEVLEQVSHLA----PLDKPVLIIGERGTGKELIASRLHYLS--SRWQGPFISLNCAALN-E-NLLDSEL   77 (265)
T ss_dssp             ----CCCHHHHHHHHHHHHHT----TSCSCEEEECCTTSCHHHHHHHHHHTS--TTTTSCEEEEEGGGSC-H-HHHHHHH
T ss_pred             ccceeCCHHHHHHHHHHHHHh----CCCCCEEEECCCCCcHHHHHHHHHHhc--CccCCCeEEEecCCCC-h-hHHHHHh
Confidence            357899888888877665422    122457799999999999999998632  1111234566766542 1 2211111


Q ss_pred             HHhcCCCCCCCcHHHHHHHHHHHc-cCceEEEEEeccccCCccCHHhHHHhhccC-----------CCCceEEEecc
Q 048765          249 EALDGHESHLGEFQSLLRHIYESI-AGKSFLLVLDDVWDGNYVKWEPFYHCLKNG-----------LHGSKILVTTR  313 (314)
Q Consensus       249 ~~~~~~~~~~~~~~~~~~~l~~~L-~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~-----------~~gs~iivTtR  313 (314)
                        ++..........   ......+ ....-+|+||++..........|...+..+           ....+||.||.
T Consensus        78 --~g~~~~~~~g~~---~~~~~~l~~a~~~~l~lDEi~~l~~~~q~~Ll~~l~~~~~~~~g~~~~~~~~~~iI~atn  149 (265)
T 2bjv_A           78 --FGHEAGAFTGAQ---KRHPGRFERADGGTLFLDELATAPMMVQEKLLRVIEYGELERVGGSQPLQVNVRLVCATN  149 (265)
T ss_dssp             --HCCC------------CCCCHHHHTTTSEEEEESGGGSCHHHHHHHHHHHHHCEECCCCC--CEECCCEEEEEES
T ss_pred             --cCCccccccccc---ccccchhhhcCCcEEEEechHhcCHHHHHHHHHHHHhCCeecCCCcccccCCeEEEEecC
Confidence              111100000000   0000011 123458999999876544445566555432           12356777764

>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=97.99  E-value=2.7e-05  Score=72.67  Aligned_cols=134  Identities=20%  Similarity=0.244  Sum_probs=73.4

Q ss_pred             cccccchhhHHHHHHHhhccCcC-----------CCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCcc
Q 048765          169 EEICGRVGEKNELLSKLLCESSE-----------QQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSET  237 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~-----------~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~  237 (314)
                      ..++|++..++.|..++......           .....+.+.|+|++|+|||+||+.+++..    .+ ..+.++++..
T Consensus        39 ~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l----~~-~~i~in~s~~  113 (516)
T 1sxj_A           39 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQEL----GY-DILEQNASDV  113 (516)
T ss_dssp             GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHT----TC-EEEEECTTSC
T ss_pred             HHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHc----CC-CEEEEeCCCc
Confidence            56999999999999998752100           00234688999999999999999998732    12 3455666654


Q ss_pred             ccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHccCceEEEEEeccccCCcc---CHHhHHHhhccCCCCceEEEec
Q 048765          238 FEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYV---KWEPFYHCLKNGLHGSKILVTT  312 (314)
Q Consensus       238 ~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~---~~~~l~~~l~~~~~gs~iivTt  312 (314)
                      .... +....+...........-......  .....+++.+|+||++......   .+..|...+...  +..||+++
T Consensus       114 ~~~~-~~~~~i~~~~~~~~~~~~~~~~~~--~~~~~~~~~vliIDEid~l~~~~~~~l~~L~~~l~~~--~~~iIli~  186 (516)
T 1sxj_A          114 RSKT-LLNAGVKNALDNMSVVGYFKHNEE--AQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKT--STPLILIC  186 (516)
T ss_dssp             CCHH-HHHHTGGGGTTBCCSTTTTTC------CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHHC--SSCEEEEE
T ss_pred             chHH-HHHHHHHHHhccccHHHHHhhhhh--hhhccCCCeEEEEECCCccchhhHHHHHHHHHHHHhc--CCCEEEEE
Confidence            4433 222222222111000000000000  0012467889999999764322   235555555432  33455554

>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=97.97  E-value=7.3e-05  Score=65.72  Aligned_cols=116  Identities=15%  Similarity=0.132  Sum_probs=65.2

Q ss_pred             hhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhh--------------------hcCceeEEEEc
Q 048765          175 VGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVI--------------------RKFDKILWVCV  234 (314)
Q Consensus       175 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~--------------------~~F~~~~wv~~  234 (314)
                      ++..+.+...+...     .-...+.++|+.|+|||++|+.+.....-.                    .|++ ..++..
T Consensus         8 ~~~~~~l~~~i~~~-----~~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d-~~~~~~   81 (334)
T 1a5t_A            8 RPDFEKLVASYQAG-----RGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPD-YYTLAP   81 (334)
T ss_dssp             HHHHHHHHHHHHTT-----CCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTT-EEEECC
T ss_pred             HHHHHHHHHHHHcC-----CcceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCC-EEEEec
Confidence            34455666666542     224578899999999999999887632100                    1122 122222


Q ss_pred             C---ccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEe
Q 048765          235 S---ETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVT  311 (314)
Q Consensus       235 ~---~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivT  311 (314)
                      .   ....... .+.+.+.+...+                ..+++-++|||++...+....+.|...+.....+..+|++
T Consensus        82 ~~~~~~~~i~~-ir~l~~~~~~~~----------------~~~~~kvviIdead~l~~~a~naLLk~lEep~~~~~~Il~  144 (334)
T 1a5t_A           82 EKGKNTLGVDA-VREVTEKLNEHA----------------RLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLA  144 (334)
T ss_dssp             CTTCSSBCHHH-HHHHHHHTTSCC----------------TTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEE
T ss_pred             cccCCCCCHHH-HHHHHHHHhhcc----------------ccCCcEEEEECchhhcCHHHHHHHHHHhcCCCCCeEEEEE
Confidence            1   1111111 112222211100                1356789999999887655667788888766666777777


Q ss_pred             cc
Q 048765          312 TR  313 (314)
Q Consensus       312 tR  313 (314)
                      |.
T Consensus       145 t~  146 (334)
T 1a5t_A          145 TR  146 (334)
T ss_dssp             ES
T ss_pred             eC
Confidence            64

>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=97.94  E-value=6.6e-05  Score=61.43  Aligned_cols=86  Identities=21%  Similarity=0.193  Sum_probs=54.4

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcC-----------C-CCCCCcHH
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDG-----------H-ESHLGEFQ  262 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~-----------~-~~~~~~~~  262 (314)
                      .-.++.|+|.+|+|||||+..++.     ..-..++|++....++...+.. +.+.++.           . .....+..
T Consensus        19 ~G~~~~i~G~~GsGKTtl~~~l~~-----~~~~~v~~i~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (220)
T 2cvh_A           19 PGVLTQVYGPYASGKTTLALQTGL-----LSGKKVAYVDTEGGFSPERLVQ-MAETRGLNPEEALSRFILFTPSDFKEQR   92 (220)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHH-----HHCSEEEEEESSCCCCHHHHHH-HHHTTTCCHHHHHHHEEEECCTTTSHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH-----HcCCcEEEEECCCCCCHHHHHH-HHHhcCCChHHHhhcEEEEecCCHHHHH
Confidence            345899999999999999999876     1235688888776555554433 3332211           1 11222334


Q ss_pred             HHHHHHHHHccCceEEEEEecccc
Q 048765          263 SLLRHIYESIAGKSFLLVLDDVWD  286 (314)
Q Consensus       263 ~~~~~l~~~L~~kr~LlVlDdv~~  286 (314)
                      .....+...+..+.-+||||.+-.
T Consensus        93 ~~~~~~~~l~~~~~~lliiD~~~~  116 (220)
T 2cvh_A           93 RVIGSLKKTVDSNFALVVVDSITA  116 (220)
T ss_dssp             HHHHHHHHHCCTTEEEEEEECCCC
T ss_pred             HHHHHHHHHhhcCCCEEEEcCcHH
Confidence            455556566544678999999854

>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=97.89  E-value=4e-05  Score=75.92  Aligned_cols=45  Identities=22%  Similarity=0.367  Sum_probs=37.8

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      +.++||+.++..++..|....      ...+.++|++|+|||+||+.++..
T Consensus       170 d~viGr~~~i~~l~~~l~~~~------~~~vlL~G~pG~GKT~la~~la~~  214 (854)
T 1qvr_A          170 DPVIGRDEEIRRVIQILLRRT------KNNPVLIGEPGVGKTAIVEGLAQR  214 (854)
T ss_dssp             CCCCSCHHHHHHHHHHHHCSS------CCCCEEEECTTSCHHHHHHHHHHH
T ss_pred             cccCCcHHHHHHHHHHHhcCC------CCceEEEcCCCCCHHHHHHHHHHH
Confidence            468999999999999986533      334689999999999999999874

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=97.87  E-value=9.2e-06  Score=70.52  Aligned_cols=63  Identities=16%  Similarity=0.168  Sum_probs=42.0

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCcc
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSET  237 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~  237 (314)
                      +.++|....+..+.+.+..-.    .....+.|+|.+|+|||++|+.+++..  ...-...+.++++..
T Consensus         2 ~~iig~s~~~~~~~~~~~~~a----~~~~~vLi~Ge~GtGKt~lAr~i~~~~--~~~~~~~v~v~~~~~   64 (304)
T 1ojl_A            2 SHMIGSSPAMQHLLNEIAMVA----PSDATVLIHGDSGTGKELVARALHACS--ARSDRPLVTLNCAAL   64 (304)
T ss_dssp             -CCCCCSHHHHHHHHHHHHHC----STTSCEEEESCTTSCHHHHHHHHHHHS--SCSSSCCCEEECSSC
T ss_pred             CCcEECCHHHHHHHHHHHHHh----CCCCcEEEECCCCchHHHHHHHHHHhC--cccCCCeEEEeCCCC
Confidence            358899888888888776533    123457799999999999999997632  111122345666543

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=97.83  E-value=9e-05  Score=64.12  Aligned_cols=50  Identities=28%  Similarity=0.214  Sum_probs=35.9

Q ss_pred             cccccchhhHHHHHHHhhccCc-------CCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELLSKLLCESS-------EQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~-------~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..++|.+..++.|.+.+...-.       ..-...+.+.|+|++|+|||+||+.+++
T Consensus        15 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~   71 (301)
T 3cf0_A           15 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIAN   71 (301)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHH
Confidence            4688988888877776542100       0012346788999999999999999987

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=97.82  E-value=2.2e-05  Score=68.21  Aligned_cols=54  Identities=17%  Similarity=0.054  Sum_probs=33.9

Q ss_pred             hHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEc
Q 048765          177 EKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCV  234 (314)
Q Consensus       177 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~  234 (314)
                      ....+.+++.....   .....+.|+|++|+|||+||+.+++.... .....+.++++
T Consensus       136 ~~~~~~~~i~~~~~---~~~~~lll~G~~GtGKT~La~aia~~~~~-~~g~~v~~~~~  189 (308)
T 2qgz_A          136 AFSAILDFVEQYPS---AEQKGLYLYGDMGIGKSYLLAAMAHELSE-KKGVSTTLLHF  189 (308)
T ss_dssp             HHHHHHHHHHHCSC---SSCCEEEEECSTTSSHHHHHHHHHHHHHH-HSCCCEEEEEH
T ss_pred             HHHHHHHHHHhccc---cCCceEEEECCCCCCHHHHHHHHHHHHHH-hcCCcEEEEEH
Confidence            44455556654221   12467889999999999999999884321 33334555654

>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=97.75  E-value=9e-05  Score=64.00  Aligned_cols=50  Identities=22%  Similarity=0.324  Sum_probs=36.2

Q ss_pred             cccccchhhHHHHHHHhhcc--CcC------CCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELLSKLLCE--SSE------QQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~--~~~------~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +.++|.+..++.+...+...  ...      .......+.++|++|+|||++|+.++.
T Consensus        15 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~   72 (310)
T 1ofh_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAK   72 (310)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHH
Confidence            45899999888888777541  000      002245678999999999999999987

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=97.75  E-value=9.5e-05  Score=65.54  Aligned_cols=51  Identities=25%  Similarity=0.341  Sum_probs=36.4

Q ss_pred             cccccchhhHHHHHHHhhcc----Cc--CCCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          169 EEICGRVGEKNELLSKLLCE----SS--EQQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~----~~--~~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..++|.+..++.|.+.+...    ..  ......+-+.|+|++|+|||+||+.+++.
T Consensus        51 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~  107 (355)
T 2qp9_X           51 EDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATE  107 (355)
T ss_dssp             GGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHH
Confidence            46899998888888776311    00  01122356789999999999999999873

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.69  E-value=4.5e-05  Score=74.59  Aligned_cols=124  Identities=14%  Similarity=0.232  Sum_probs=74.0

Q ss_pred             cccccchhhHHHHHHHhhccCcC---CCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSE---QQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAK  245 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~---~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~  245 (314)
                      ..++|.+..++.+...+......   .......+.++|++|+|||+||+.++..  ....-...+.++++.......   
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~--l~~~~~~~i~i~~s~~~~~~~---  565 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAES--IFGDEESMIRIDMSEYMEKHS---  565 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHH--HHSCTTCEEEEEGGGGCSSCC---
T ss_pred             CcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHH--hcCCCcceEEEechhcccccc---
Confidence            46899999888888777643211   1123447899999999999999999873  322233456677655322100   


Q ss_pred             HHHHHhcCCCCCCCcHHHHHHHHHHHccCceEEEEEeccccCCccCHHhHHHhhccC-----------CCCceEEEecc
Q 048765          246 AMVEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNG-----------LHGSKILVTTR  313 (314)
Q Consensus       246 ~i~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~-----------~~gs~iivTtR  313 (314)
                                   .....+...+.   .....+|+||++..........|...+..+           .....||+||.
T Consensus       566 -------------~~~~~l~~~~~---~~~~~vl~lDEi~~~~~~~~~~Ll~~le~g~~~~~~g~~~~~~~~~iI~ttn  628 (758)
T 3pxi_A          566 -------------TSGGQLTEKVR---RKPYSVVLLDAIEKAHPDVFNILLQVLEDGRLTDSKGRTVDFRNTILIMTSN  628 (758)
T ss_dssp             -------------CC---CHHHHH---HCSSSEEEEECGGGSCHHHHHHHHHHHHHSBCC-----CCBCTTCEEEEEES
T ss_pred             -------------cccchhhHHHH---hCCCeEEEEeCccccCHHHHHHHHHHhccCeEEcCCCCEeccCCeEEEEeCC
Confidence                         00011111111   223459999999877655666677666542           12357777774

>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=97.67  E-value=0.0001  Score=68.12  Aligned_cols=50  Identities=22%  Similarity=0.204  Sum_probs=36.6

Q ss_pred             cccccchhhHHHHHHHhhccCcC-------CCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELLSKLLCESSE-------QQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~-------~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..++|.+..++.|.+++...-..       ......-+.|+|++|+|||+||+.+++
T Consensus       204 ~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~  260 (489)
T 3hu3_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVAN  260 (489)
T ss_dssp             GGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHH
Confidence            46899999998888876532000       012345688999999999999999976

>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=97.65  E-value=0.00022  Score=59.27  Aligned_cols=90  Identities=18%  Similarity=0.142  Sum_probs=54.0

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhh----cCceeEEEEcCccccHHHHHHHHHHHhcCCC------------CCCC
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIR----KFDKILWVCVSETFEEFRVAKAMVEALDGHE------------SHLG  259 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~----~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~------------~~~~  259 (314)
                      -.++.|+|++|+|||||+..++.......    .-..++|++....+....+. .+++.++...            ....
T Consensus        24 G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~~~~~~~~~-~~~~~~g~~~~~~~~~~~~~~~~~~~  102 (243)
T 1n0w_A           24 GSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLL-AVAERYGLSGSDVLDNVAYARAFNTD  102 (243)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHH-HHHHHTTCCHHHHHHTEEEEECCSHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCCCcCHHHHH-HHHHHcCCCHHHHhhCeEEEecCCHH
Confidence            45899999999999999998876321111    13578899887755544432 3344443221            0111


Q ss_pred             cHHHHHHHHHHHc-cCceEEEEEecccc
Q 048765          260 EFQSLLRHIYESI-AGKSFLLVLDDVWD  286 (314)
Q Consensus       260 ~~~~~~~~l~~~L-~~kr~LlVlDdv~~  286 (314)
                      +.......+.+.+ ..+.-+||||++..
T Consensus       103 ~~~~~~~~~~~~~~~~~~~lliiD~~~~  130 (243)
T 1n0w_A          103 HQTQLLYQASAMMVESRYALLIVDSATA  130 (243)
T ss_dssp             HHHHHHHHHHHHHHHSCEEEEEEETSSG
T ss_pred             HHHHHHHHHHHHHhcCCceEEEEeCchH
Confidence            1222334455555 35778999999854

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=97.64  E-value=0.00011  Score=67.59  Aligned_cols=44  Identities=23%  Similarity=0.360  Sum_probs=37.2

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +.++|++.+++.+...|....      ...+.++|++|+|||+||+.++.
T Consensus       180 d~iiGr~~~i~~l~~~l~r~~------~~~~LL~G~pG~GKT~la~~la~  223 (468)
T 3pxg_A          180 DPVIGRSKEIQRVIEVLSRRT------KNNPVLIGEPGVGKTAIAEGLAQ  223 (468)
T ss_dssp             CCCCCCHHHHHHHHHHHHCSS------SCEEEEESCTTTTTHHHHHHHHH
T ss_pred             CCccCcHHHHHHHHHHHhccC------CCCeEEECCCCCCHHHHHHHHHH
Confidence            469999999999999997532      33567999999999999999987

>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=97.63  E-value=3.1e-05  Score=66.99  Aligned_cols=70  Identities=19%  Similarity=0.259  Sum_probs=45.7

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEc--CccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHcc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCV--SETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIA  273 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~--~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~  273 (314)
                      -+++.|+|++|+|||+||..+...     ....++|+++  .+..+.             .   ..+.+.....+.+.+.
T Consensus       123 gsviLI~GpPGsGKTtLAlqlA~~-----~G~~VlyIs~~~eE~v~~-------------~---~~~le~~l~~i~~~l~  181 (331)
T 2vhj_A          123 SGMVIVTGKGNSGKTPLVHALGEA-----LGGKDKYATVRFGEPLSG-------------Y---NTDFNVFVDDIARAML  181 (331)
T ss_dssp             SEEEEEECSCSSSHHHHHHHHHHH-----HHTTSCCEEEEBSCSSTT-------------C---BCCHHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHh-----CCCCEEEEEecchhhhhh-------------h---hcCHHHHHHHHHHHHh
Confidence            356789999999999999999763     1223566766  332110             0   1345555666666665


Q ss_pred             CceEEEEEeccccC
Q 048765          274 GKSFLLVLDDVWDG  287 (314)
Q Consensus       274 ~kr~LlVlDdv~~~  287 (314)
                      ..+ +||||++...
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

>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=97.63  E-value=8.9e-05  Score=73.44  Aligned_cols=124  Identities=15%  Similarity=0.221  Sum_probs=67.3

Q ss_pred             cccccchhhHHHHHHHhhccCcC---CCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSE---QQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAK  245 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~---~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~  245 (314)
                      ..++|.+..++.+...+.....+   .......+.|+|+.|+|||++|+.++..  ....-...+.++++.......   
T Consensus       558 ~~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~--~~~~~~~~i~i~~~~~~~~~~---  632 (854)
T 1qvr_A          558 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAAT--LFDTEEAMIRIDMTEYMEKHA---  632 (854)
T ss_dssp             HHSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHH--HHSSGGGEEEECTTTCCSSGG---
T ss_pred             cccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHH--hcCCCCcEEEEechhccchhH---
Confidence            35789998888887777543210   1123467889999999999999999873  221112345566654332110   


Q ss_pred             HHHHHhcCCCC-C--CCcHHHHHHHHHHHccCceEEEEEeccccCCccCHHhHHHhhccC
Q 048765          246 AMVEALDGHES-H--LGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNG  302 (314)
Q Consensus       246 ~i~~~~~~~~~-~--~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~  302 (314)
                        ...+.+.++ .  ......+...+.   ....-+|+||++........+.|...+..+
T Consensus       633 --~s~l~g~~~~~~G~~~~g~l~~~~~---~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~  687 (854)
T 1qvr_A          633 --VSRLIGAPPGYVGYEEGGQLTEAVR---RRPYSVILFDEIEKAHPDVFNILLQILDDG  687 (854)
T ss_dssp             --GGGC--------------CHHHHHH---HCSSEEEEESSGGGSCHHHHHHHHHHHTTT
T ss_pred             --HHHHcCCCCCCcCccccchHHHHHH---hCCCeEEEEecccccCHHHHHHHHHHhccC
Confidence              011110000 0  000011222222   233469999999877655566677766543

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=97.63  E-value=0.00015  Score=62.49  Aligned_cols=26  Identities=31%  Similarity=0.321  Sum_probs=22.2

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhch
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .....+.++|++|+|||+||+.+++.
T Consensus        34 ~~p~~lLl~GppGtGKT~la~aiA~~   59 (293)
T 3t15_A           34 KVPLILGIWGGKGQGKSFQCELVFRK   59 (293)
T ss_dssp             CCCSEEEEEECTTSCHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            34567889999999999999999883

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=97.63  E-value=0.00034  Score=60.14  Aligned_cols=50  Identities=24%  Similarity=0.260  Sum_probs=36.7

Q ss_pred             cccccchhhHHHHHHHhhccCc------CCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELLSKLLCESS------EQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~------~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +.++|.+..++.|.+.+.....      .-......+.|+|++|+|||+||+.++.
T Consensus        21 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~   76 (297)
T 3b9p_A           21 TDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVAT   76 (297)
T ss_dssp             GGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHH
T ss_pred             HHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHH
Confidence            5689999988888877633100      0012346788999999999999999987

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens}

Probab=97.61  E-value=0.00016  Score=64.07  Aligned_cols=50  Identities=20%  Similarity=0.198  Sum_probs=36.7

Q ss_pred             cccccchhhHHHHHHHhhcc---CcC---CCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELLSKLLCE---SSE---QQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~---~~~---~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..++|.+..++.|.+.+...   ...   .....+.+.|+|++|+|||+||+.++.
T Consensus        84 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~  139 (357)
T 3d8b_A           84 EDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIAS  139 (357)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHH
T ss_pred             HHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHH
Confidence            46899999888888776421   000   012356788999999999999999976

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=97.58  E-value=0.0005  Score=60.03  Aligned_cols=50  Identities=22%  Similarity=0.324  Sum_probs=35.4

Q ss_pred             cccccchhhHHHHHHHhhc----cCc--CCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELLSKLLC----ESS--EQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~----~~~--~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +++.|.+..++.|.+.+..    ..-  ......+.+.++|++|+|||+||+.+++
T Consensus        12 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~   67 (322)
T 1xwi_A           12 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVAT   67 (322)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHH
Confidence            5688888887777765531    100  0012346788999999999999999987

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.57  E-value=0.0008  Score=60.95  Aligned_cols=97  Identities=20%  Similarity=0.258  Sum_probs=55.9

Q ss_pred             cccccchhhHHHHHHHhhc----cCc---CCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHH
Q 048765          169 EEICGRVGEKNELLSKLLC----ESS---EQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEF  241 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~----~~~---~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~  241 (314)
                      +++.|-++..+.|.+.+.-    .+-   .+-...+-+.++|++|+|||+||+.+++  +..-+|   +.++.+.-.+  
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 DGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAA--TIGANF---IFSPASGIVD--  253 (437)
T ss_dssp             GGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHH--HHTCEE---EEEEGGGTCC--
T ss_pred             hHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHH--HhCCCE---EEEehhhhcc--
Confidence            5677888777776655432    100   0124467888999999999999999988  333333   3344433211  


Q ss_pred             HHHHHHHHHhcCCCCCCCcHHHHHHHHHHH-ccCceEEEEEecccc
Q 048765          242 RVAKAMVEALDGHESHLGEFQSLLRHIYES-IAGKSFLLVLDDVWD  286 (314)
Q Consensus       242 ~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~-L~~kr~LlVlDdv~~  286 (314)
                                    ....+....+..+... -...+++|+||+++.
T Consensus       254 --------------k~~Gese~~ir~~F~~A~~~~P~IifiDEiDa  285 (437)
T 4b4t_L          254 --------------KYIGESARIIREMFAYAKEHEPCIIFMDEVDA  285 (437)
T ss_dssp             --------------SSSSHHHHHHHHHHHHHHHSCSEEEEEECCCS
T ss_pred             --------------ccchHHHHHHHHHHHHHHhcCCceeeeecccc
Confidence                          0111112222222222 245789999999964

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=97.57  E-value=0.0004  Score=57.14  Aligned_cols=113  Identities=18%  Similarity=0.100  Sum_probs=62.0

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCC-------------------
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHES-------------------  256 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~-------------------  256 (314)
                      -.++.|+|++|+|||||++.++....  ..-..+.|++...  ....+...+. .++....                   
T Consensus        23 G~~~~i~G~~GsGKTtl~~~l~~~~~--~~~~~v~~~~~~~--~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (235)
T 2w0m_A           23 GFFIALTGEPGTGKTIFSLHFIAKGL--RDGDPCIYVTTEE--SRDSIIRQAK-QFNWDFEEYIEKKLIIIDALMKEKED   97 (235)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHHHH--HHTCCEEEEESSS--CHHHHHHHHH-HTTCCCGGGBTTTEEEEECCC----C
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHH--HCCCeEEEEEccc--CHHHHHHHHH-HhcchHHHHhhCCEEEEeccccccCc
Confidence            35889999999999999999986332  2223566776543  3334433332 3321100                   


Q ss_pred             ----CCCcHHHHHHHHHHHc---cCceEEEEEeccccC---CccCHHhHHHhhcc--CCCCceEEEecc
Q 048765          257 ----HLGEFQSLLRHIYESI---AGKSFLLVLDDVWDG---NYVKWEPFYHCLKN--GLHGSKILVTTR  313 (314)
Q Consensus       257 ----~~~~~~~~~~~l~~~L---~~kr~LlVlDdv~~~---~~~~~~~l~~~l~~--~~~gs~iivTtR  313 (314)
                          ...+..++...+...+   ..+..+||||..-..   +......+...+..  ...|..||++|.
T Consensus        98 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~llilDe~~~~~~~d~~~~~~~~~~l~~~~~~~~~~vi~~~h  166 (235)
T 2w0m_A           98 QWSLVNLTPEELVNKVIEAKQKLGYGKARLVIDSVSALFLDKPAMARKISYYLKRVLNKWNFTIYATSQ  166 (235)
T ss_dssp             TTBCSSCCHHHHHHHHHHHHHHHCSSCEEEEEETGGGGSSSCGGGHHHHHHHHHHHHHHTTEEEEEEEC
T ss_pred             eeeecCCCHHHHHHHHHHHHHhhCCCceEEEEECchHhhcCCHHHHHHHHHHHHHHHHhCCCeEEEEec
Confidence                0113445555554444   223349999998632   22233444444432  134677888875

>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=97.55  E-value=0.00051  Score=67.09  Aligned_cols=45  Identities=24%  Similarity=0.296  Sum_probs=37.9

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..++||+.++..+.+.|....      ...+.|+|++|+|||++|+.++..
T Consensus       186 d~~iGr~~~i~~l~~~l~~~~------~~~vlL~G~~GtGKT~la~~la~~  230 (758)
T 1r6b_X          186 DPLIGREKELERAIQVLCRRR------KNNPLLVGESGVGKTAIAEGLAWR  230 (758)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSS------SCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCccCCHHHHHHHHHHHhccC------CCCeEEEcCCCCCHHHHHHHHHHH
Confidence            468999999999999987532      345689999999999999999873

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=97.50  E-value=0.00044  Score=61.98  Aligned_cols=50  Identities=24%  Similarity=0.266  Sum_probs=37.0

Q ss_pred             cccccchhhHHHHHHHhhccCcC------CCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELLSKLLCESSE------QQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~------~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..++|.+..++.|.+.+......      .......+.|+|++|+|||+||+.++.
T Consensus       115 ~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~  170 (389)
T 3vfd_A          115 DDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAA  170 (389)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHH
Confidence            56999999999888877321100      012246788999999999999999976

>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=97.48  E-value=0.00029  Score=64.39  Aligned_cols=50  Identities=22%  Similarity=0.324  Sum_probs=36.4

Q ss_pred             cccccchhhHHHHHHHhhcc----Cc--CCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELLSKLLCE----SS--EQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~----~~--~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +.++|.+...+.|.+.+...    .-  ......+.+.|+|++|+|||+||+.+++
T Consensus       134 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~  189 (444)
T 2zan_A          134 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVAT  189 (444)
T ss_dssp             GGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHH
Confidence            56899988888888766310    00  0012346788999999999999999987

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=97.45  E-value=0.00055  Score=57.52  Aligned_cols=50  Identities=28%  Similarity=0.226  Sum_probs=32.5

Q ss_pred             cccccchhhHHHHHHH---hhccCcC---CCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELLSK---LLCESSE---QQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~---L~~~~~~---~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ++++|.+..++.+.+.   +.....-   .....+-+.|+|++|+||||||+.++.
T Consensus        12 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~   67 (257)
T 1lv7_A           12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAG   67 (257)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHH
T ss_pred             HHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHH
Confidence            5688887766655443   3321100   001233578999999999999999987

>2b8t_A Thymidine kinase; deoxyribonucleoside kinase, zinc-binding domain, TK1, UU-TK, transferase; HET: THM; 2.00A {Ureaplasma parvum} SCOP: c.37.1.24 g.39.1.14 PDB: 2uz3_A*

Probab=97.43  E-value=0.00018  Score=59.28  Aligned_cols=111  Identities=14%  Similarity=-0.050  Sum_probs=60.5

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCC--CCCcHHHHHHHHHHHc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHES--HLGEFQSLLRHIYESI  272 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~--~~~~~~~~~~~l~~~L  272 (314)
                      .-.++.++|..|+||||++..+....  ..+-..++.+....+..   ....+++.++....  ......++.+.+.+.+
T Consensus        11 ~G~i~litG~mGsGKTT~ll~~~~r~--~~~g~kVli~~~~~d~r---~~~~i~srlG~~~~~~~~~~~~~i~~~i~~~~   85 (223)
T 2b8t_A           11 IGWIEFITGPMFAGKTAELIRRLHRL--EYADVKYLVFKPKIDTR---SIRNIQSRTGTSLPSVEVESAPEILNYIMSNS   85 (223)
T ss_dssp             CCEEEEEECSTTSCHHHHHHHHHHHH--HHTTCCEEEEEECCCGG---GCSSCCCCCCCSSCCEEESSTHHHHHHHHSTT
T ss_pred             CcEEEEEECCCCCcHHHHHHHHHHHH--HhcCCEEEEEEeccCch---HHHHHHHhcCCCccccccCCHHHHHHHHHHHh
Confidence            34688899999999999998887633  33333344443322211   11233333432211  1223345556666555


Q ss_pred             cCce-EEEEEeccccCCccCHHhHHHhhccCCCCceEEEecc
Q 048765          273 AGKS-FLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTR  313 (314)
Q Consensus       273 ~~kr-~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR  313 (314)
                      .+.+ -+||+|.+.....+..+.+ ..+.+  .|-.||+|-+
T Consensus        86 ~~~~~dvViIDEaQ~l~~~~ve~l-~~L~~--~gi~Vil~Gl  124 (223)
T 2b8t_A           86 FNDETKVIGIDEVQFFDDRICEVA-NILAE--NGFVVIISGL  124 (223)
T ss_dssp             SCTTCCEEEECSGGGSCTHHHHHH-HHHHH--TTCEEEEECC
T ss_pred             hCCCCCEEEEecCccCcHHHHHHH-HHHHh--CCCeEEEEec
Confidence            4444 4999999965432222233 33333  2677888765

>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding, cytoplasm, damage, DNA recombination, DNA repair, DNA-binding; 1.95A {Thermotoga maritima}

Probab=97.40  E-value=0.00084  Score=59.22  Aligned_cols=85  Identities=21%  Similarity=0.195  Sum_probs=55.8

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCC-----CCCcHHHHHHHHH
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHES-----HLGEFQSLLRHIY  269 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~-----~~~~~~~~~~~l~  269 (314)
                      .-.++.|+|++|+|||||+..++....  ..-..++|++....++..     .++.++....     ...+..+....+.
T Consensus        60 ~G~i~~I~GppGsGKSTLal~la~~~~--~~gg~VlyId~E~s~~~~-----ra~rlgv~~~~l~i~~~~~~e~~l~~~~  132 (356)
T 3hr8_A           60 RGRIVEIFGQESSGKTTLALHAIAEAQ--KMGGVAAFIDAEHALDPV-----YAKNLGVDLKSLLISQPDHGEQALEIVD  132 (356)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHHH--HTTCCEEEEESSCCCCHH-----HHHHHTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHH--hcCCeEEEEecccccchH-----HHHHcCCchhhhhhhhccCHHHHHHHHH
Confidence            457999999999999999999987432  222457889887766654     4455543311     2234555555555


Q ss_pred             HHcc-CceEEEEEecccc
Q 048765          270 ESIA-GKSFLLVLDDVWD  286 (314)
Q Consensus       270 ~~L~-~kr~LlVlDdv~~  286 (314)
                      ..++ .+.-++|+|.+-.
T Consensus       133 ~l~~~~~~dlvVIDSi~~  150 (356)
T 3hr8_A          133 ELVRSGVVDLIVVDSVAA  150 (356)
T ss_dssp             HHHHTSCCSEEEEECTTT
T ss_pred             HHhhhcCCCeEEehHhhh
Confidence            5543 5566999999843

>1g5t_A COB(I)alamin adenosyltransferase; P-loop protein, cobalamin biosynthesis, RECA fold; HET: ATP; 1.80A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1g5r_A* 1g64_A*

Probab=97.40  E-value=0.0016  Score=52.11  Aligned_cols=116  Identities=17%  Similarity=0.105  Sum_probs=65.9

Q ss_pred             EEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCc---cccHHHHHHHHHHHh---cCC-CCCC-------CcHH
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSE---TFEEFRVAKAMVEAL---DGH-ESHL-------GEFQ  262 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~---~~~~~~~~~~i~~~~---~~~-~~~~-------~~~~  262 (314)
                      ..|-|++-.|.||||+|--..-  +.-.+=-.+.++...+   ......++..+.-.+   +.. .-..       ....
T Consensus        29 g~i~v~tG~GkGKTTaA~Glal--RA~g~G~rV~~vQF~Kg~~~~gE~~~l~~L~v~~~~~g~gf~~~~~~~~~~~~~a~  106 (196)
T 1g5t_A           29 GIIIVFTGNGKGKTTAAFGTAA--RAVGHGKNVGVVQFIKGTWPNGERNLLEPHGVEFQVMATGFTWETQNREADTAACM  106 (196)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHH--HHHHTTCCEEEEESSCCSSCCHHHHHHGGGTCEEEECCTTCCCCGGGHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH--HHHHCCCeEEEEEeeCCCCCccHHHHHHhCCcEEEEcccccccCCCCcHHHHHHHH
Confidence            4566666677999999977655  4444444555664432   233344443331000   000 0000       1123


Q ss_pred             HHHHHHHHHccC-ceEEEEEecccc---CCccCHHhHHHhhccCCCCceEEEeccC
Q 048765          263 SLLRHIYESIAG-KSFLLVLDDVWD---GNYVKWEPFYHCLKNGLHGSKILVTTRK  314 (314)
Q Consensus       263 ~~~~~l~~~L~~-kr~LlVlDdv~~---~~~~~~~~l~~~l~~~~~gs~iivTtR~  314 (314)
                      ......++.+.. +-=|||||++-.   ......+++...+.......-||+|+|+
T Consensus       107 ~~l~~a~~~l~~~~yDlvILDEi~~al~~g~l~~~ev~~~l~~Rp~~~~vIlTGr~  162 (196)
T 1g5t_A          107 AVWQHGKRMLADPLLDMVVLDELTYMVAYDYLPLEEVISALNARPGHQTVIITGRG  162 (196)
T ss_dssp             HHHHHHHHHTTCTTCSEEEEETHHHHHHTTSSCHHHHHHHHHTSCTTCEEEEECSS
T ss_pred             HHHHHHHHHHhcCCCCEEEEeCCCccccCCCCCHHHHHHHHHhCcCCCEEEEECCC
Confidence            344556666644 445999999832   2335677888888766667779999985

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=97.40  E-value=0.00014  Score=63.66  Aligned_cols=42  Identities=21%  Similarity=0.221  Sum_probs=34.6

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +.++|++..++.+...+...        ..+.++|++|+|||+||+.+.+
T Consensus        27 ~~i~g~~~~~~~l~~~l~~~--------~~vll~G~pGtGKT~la~~la~   68 (331)
T 2r44_A           27 KVVVGQKYMINRLLIGICTG--------GHILLEGVPGLAKTLSVNTLAK   68 (331)
T ss_dssp             TTCCSCHHHHHHHHHHHHHT--------CCEEEESCCCHHHHHHHHHHHH
T ss_pred             cceeCcHHHHHHHHHHHHcC--------CeEEEECCCCCcHHHHHHHHHH
Confidence            35889988888888777642        2578999999999999999976

>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=97.39  E-value=0.00079  Score=61.79  Aligned_cols=98  Identities=20%  Similarity=0.153  Sum_probs=53.0

Q ss_pred             cccccchhhHHHHHHH---hhccCc---CCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHH
Q 048765          169 EEICGRVGEKNELLSK---LLCESS---EQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFR  242 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~---L~~~~~---~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~  242 (314)
                      .+++|.++.++.+.+.   +.....   -.....+-+.|+|++|+|||+||+.++.  +....|   +.++++.-...  
T Consensus        16 ~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~--~~~~~f---~~is~~~~~~~--   88 (476)
T 2ce7_A           16 KDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAG--EANVPF---FHISGSDFVEL--   88 (476)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHH--HHTCCE---EEEEGGGTTTC--
T ss_pred             HHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHH--HcCCCe---eeCCHHHHHHH--
Confidence            4588887776665544   322100   0001223478999999999999999987  332222   34444332110  


Q ss_pred             HHHHHHHHhcCCCCCCCcHHHHHHHHHHHccCceEEEEEecccc
Q 048765          243 VAKAMVEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWD  286 (314)
Q Consensus       243 ~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~  286 (314)
                              +     ...........+.......+.+|+||++..
T Consensus        89 --------~-----~g~~~~~~r~lf~~A~~~~p~ILfIDEid~  119 (476)
T 2ce7_A           89 --------F-----VGVGAARVRDLFAQAKAHAPCIVFIDEIDA  119 (476)
T ss_dssp             --------C-----TTHHHHHHHHHHHHHHHTCSEEEEEETGGG
T ss_pred             --------H-----hcccHHHHHHHHHHHHhcCCCEEEEechhh
Confidence                    0     000111122223333356789999999965

>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=97.38  E-value=0.00025  Score=69.37  Aligned_cols=121  Identities=17%  Similarity=0.188  Sum_probs=67.1

Q ss_pred             cccccchhhHHHHHHHhhccCcC---CCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSE---QQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAK  245 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~---~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~  245 (314)
                      ..++|.+..++.+...+.....+   .......+.++|++|+|||++|+.+...  ..   ...+.++++.......   
T Consensus       458 ~~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~--l~---~~~~~i~~s~~~~~~~---  529 (758)
T 1r6b_X          458 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKA--LG---IELLRFDMSEYMERHT---  529 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHH--HT---CEEEEEEGGGCSSSSC---
T ss_pred             hhccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHH--hc---CCEEEEechhhcchhh---
Confidence            35788888888877766532210   1123457899999999999999999873  22   2345566654322100   


Q ss_pred             HHHHHhcCCCCCCCcHH-HHHHHHHHHc-cCceEEEEEeccccCCccCHHhHHHhhcc
Q 048765          246 AMVEALDGHESHLGEFQ-SLLRHIYESI-AGKSFLLVLDDVWDGNYVKWEPFYHCLKN  301 (314)
Q Consensus       246 ~i~~~~~~~~~~~~~~~-~~~~~l~~~L-~~kr~LlVlDdv~~~~~~~~~~l~~~l~~  301 (314)
                        ...+-+.++  .... +....+.+.+ .....+|+||++........+.|...+..
T Consensus       530 --~~~l~g~~~--g~~g~~~~~~l~~~~~~~~~~vl~lDEi~~~~~~~~~~Ll~~le~  583 (758)
T 1r6b_X          530 --VSRLIGAPP--GYVGFDQGGLLTDAVIKHPHAVLLLDEIEKAHPDVFNILLQVMDN  583 (758)
T ss_dssp             --CSSSCCCCS--CSHHHHHTTHHHHHHHHCSSEEEEEETGGGSCHHHHHHHHHHHHH
T ss_pred             --HhhhcCCCC--CCcCccccchHHHHHHhCCCcEEEEeCccccCHHHHHHHHHHhcC
Confidence              000111111  1111 0001122222 24467999999987765556667666653

>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding protein, ring protein, octamer, AAA ATPase; 3.20A {Homo sapiens} SCOP: c.37.1.11 PDB: 2zjb_A

Probab=97.30  E-value=0.0016  Score=57.29  Aligned_cols=91  Identities=20%  Similarity=0.273  Sum_probs=57.8

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhh----cCceeEEEEcCccccHHHHHHHHHHHhcCCC------------CC
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIR----KFDKILWVCVSETFEEFRVAKAMVEALDGHE------------SH  257 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~----~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~------------~~  257 (314)
                      +.-.++.|+|.+|+|||+|+..++.......    .-..++|++....++...+.. ++..++...            .+
T Consensus       120 ~~G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~~~~~~~l~~-~~~~~g~~~~~~l~~l~~~~~~~  198 (343)
T 1v5w_A          120 ESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRD-IADRFNVDHDAVLDNVLYARAYT  198 (343)
T ss_dssp             CSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHHHHH-HHHHTTCCHHHHHHTEEEEECCS
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHH-HHHHcCCCHHHHHhceeEeecCC
Confidence            4457999999999999999998876321111    235789999988777766543 344443321            11


Q ss_pred             CCcHHHHHHHHHHHcc---CceEEEEEeccc
Q 048765          258 LGEFQSLLRHIYESIA---GKSFLLVLDDVW  285 (314)
Q Consensus       258 ~~~~~~~~~~l~~~L~---~kr~LlVlDdv~  285 (314)
                      ......+...+...+.   .+.-+||+|.+-
T Consensus       199 ~e~~~~ll~~l~~~i~~~~~~~~lvVIDsl~  229 (343)
T 1v5w_A          199 SEHQMELLDYVAAKFHEEAGIFKLLIIDSIM  229 (343)
T ss_dssp             TTHHHHHHHHHHHHHHHSCSSEEEEEEETSG
T ss_pred             HHHHHHHHHHHHHHHHhcCCCccEEEEechH
Confidence            2223344444555553   567799999984

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.27  E-value=0.00093  Score=59.70  Aligned_cols=97  Identities=18%  Similarity=0.212  Sum_probs=55.6

Q ss_pred             cccccchhhHHHHHHHhhc----cCc---CCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHH
Q 048765          169 EEICGRVGEKNELLSKLLC----ESS---EQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEF  241 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~----~~~---~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~  241 (314)
                      +++.|.++..+.|.+.+.-    .+-   .+-...+-+.++|++|+|||.||+.+++  +..-+|   +.++.+.-.+  
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 DMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAH--HTDCKF---IRVSGAELVQ--  220 (405)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHH--HHTCEE---EEEEGGGGSC--
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHH--hhCCCc---eEEEhHHhhc--
Confidence            5677888777776655432    100   0123456788999999999999999988  443333   3444433211  


Q ss_pred             HHHHHHHHHhcCCCCCCCcHHHHHHHHHHH-ccCceEEEEEecccc
Q 048765          242 RVAKAMVEALDGHESHLGEFQSLLRHIYES-IAGKSFLLVLDDVWD  286 (314)
Q Consensus       242 ~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~-L~~kr~LlVlDdv~~  286 (314)
                                    ....+....+..+... -...+++|+||+++.
T Consensus       221 --------------k~vGese~~vr~lF~~Ar~~aP~IIFiDEiDa  252 (405)
T 4b4t_J          221 --------------KYIGEGSRMVRELFVMAREHAPSIIFMDEIDS  252 (405)
T ss_dssp             --------------SSTTHHHHHHHHHHHHHHHTCSEEEEEESSSC
T ss_pred             --------------cccchHHHHHHHHHHHHHHhCCceEeeecchh
Confidence                          0111112222222222 245689999999964

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.26  E-value=0.00073  Score=61.13  Aligned_cols=50  Identities=20%  Similarity=0.238  Sum_probs=35.9

Q ss_pred             cccccchhhHHHHHHHhhc----cCc---CCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELLSKLLC----ESS---EQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~----~~~---~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +++.|-+...+.|.+.+..    .+-   .+-...+-+.++|++|+|||.||+.+++
T Consensus       181 ~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~  237 (434)
T 4b4t_M          181 SDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAA  237 (434)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHH
T ss_pred             HhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHH
Confidence            5678888887777665321    110   0124467888999999999999999988

>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=97.26  E-value=0.00091  Score=61.31  Aligned_cols=50  Identities=18%  Similarity=0.185  Sum_probs=34.1

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..++|.+..++.+..++..-... ....+-+.++|++|+|||+||+.++..
T Consensus        37 ~~iiG~~~~~~~l~~~~~~~~~~-~~~~~~iLl~GppGtGKT~la~ala~~   86 (456)
T 2c9o_A           37 SGLVGQENAREACGVIVELIKSK-KMAGRAVLLAGPPGTGKTALALAIAQE   86 (456)
T ss_dssp             TTEESCHHHHHHHHHHHHHHHTT-CCTTCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHHHhC-CCCCCeEEEECCCcCCHHHHHHHHHHH
Confidence            56899988877544433211111 122356889999999999999999873

>3io5_A Recombination and repair protein; storage dimer, inactive conformation, RECA like core domain, binding, DNA damage, DNA recombination; 2.40A {Enterobacteria phage T4}

Probab=97.25  E-value=0.0019  Score=55.77  Aligned_cols=85  Identities=8%  Similarity=0.068  Sum_probs=54.8

Q ss_pred             EEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCC-----CCCcHHHH-HHHHHHH
Q 048765          198 IISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHES-----HLGEFQSL-LRHIYES  271 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~-----~~~~~~~~-~~~l~~~  271 (314)
                      ++-|.|++|+|||||+.+++........-..++|++....++..     .+++++....     ...+.++. ...+...
T Consensus        30 iteI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId~E~s~~~~-----ra~~lGvd~d~llv~~~~~~E~~~l~i~~~l  104 (333)
T 3io5_A           30 LLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYDSEFGITPA-----YLRSMGVDPERVIHTPVQSLEQLRIDMVNQL  104 (333)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEESSCCCCHH-----HHHHTTCCGGGEEEEECSBHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEeccchhhHH-----HHHHhCCCHHHeEEEcCCCHHHHHHHHHHHH
Confidence            68899999999999998887633211113578999988877764     3666665422     12344444 3333222


Q ss_pred             --c-cCceEEEEEeccccC
Q 048765          272 --I-AGKSFLLVLDDVWDG  287 (314)
Q Consensus       272 --L-~~kr~LlVlDdv~~~  287 (314)
                        + .++.-|||+|.|-..
T Consensus       105 ~~i~~~~~~lvVIDSI~aL  123 (333)
T 3io5_A          105 DAIERGEKVVVFIDSLGNL  123 (333)
T ss_dssp             HTCCTTCCEEEEEECSTTC
T ss_pred             HHhhccCceEEEEeccccc
Confidence              3 467889999999543

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.25  E-value=0.00095  Score=60.33  Aligned_cols=50  Identities=20%  Similarity=0.213  Sum_probs=35.7

Q ss_pred             cccccchhhHHHHHHHhhccC--cC-----CCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELLSKLLCES--SE-----QQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~--~~-----~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +++.|.+...+.|.+.+...-  +.     +-...+-+.++|++|+|||+||+.+++
T Consensus       172 ~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~  228 (428)
T 4b4t_K          172 ADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVAN  228 (428)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHH
Confidence            567888888777766543210  00     123456788999999999999999988

>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=97.24  E-value=0.00048  Score=64.57  Aligned_cols=50  Identities=28%  Similarity=0.336  Sum_probs=33.9

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..++|.+.-...+.+.+....-.......++.++|++|+||||||+.++.
T Consensus        81 ~di~G~~~vk~~i~~~~~l~~~~~~~~g~~vll~Gp~GtGKTtlar~ia~  130 (543)
T 3m6a_A           81 EEHHGLEKVKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAK  130 (543)
T ss_dssp             HHCSSCHHHHHHHHHHHHHHHHSSSCCSCEEEEESSSSSSHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHHHHhcccCCCCEEEEECCCCCCHHHHHHHHHH
Confidence            45788777666665443321111112456899999999999999999987

>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=97.23  E-value=0.0011  Score=57.75  Aligned_cols=90  Identities=19%  Similarity=0.231  Sum_probs=56.9

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhh---------cC-----ceeEEEEcCccccHHHHHHHHHHHhcCCC-----
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIR---------KF-----DKILWVCVSETFEEFRVAKAMVEALDGHE-----  255 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~---------~F-----~~~~wv~~~~~~~~~~~~~~i~~~~~~~~-----  255 (314)
                      .-.++.|+|.+|+|||+|+..++.......         ..     ..++|++....++...+.. +++.++...     
T Consensus        97 ~g~i~~i~G~~gsGKT~la~~la~~~~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~~~~~~l~~-~~~~~g~~~~~~~~  175 (322)
T 2i1q_A           97 SQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQ-MAEHAGIDGQTVLD  175 (322)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHHHHHH-HHHHHTCCHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhccccccccccccccCCCCCceEEEEECCCCCCHHHHHH-HHHHcCCCHHHHhc
Confidence            357899999999999999998875321111         11     4789999888777766653 344443321     


Q ss_pred             ----CCCCcHH---HHHHHHHHHcc--CceEEEEEeccc
Q 048765          256 ----SHLGEFQ---SLLRHIYESIA--GKSFLLVLDDVW  285 (314)
Q Consensus       256 ----~~~~~~~---~~~~~l~~~L~--~kr~LlVlDdv~  285 (314)
                          ....+..   ++...+...+.  .+.-+||+|.+-
T Consensus       176 ~l~~~~~~~~~~~~~~l~~l~~~~~~~~~~~lvVIDsl~  214 (322)
T 2i1q_A          176 NTFVARAYNSDMQMLFAEKIEDLIQEGNNIKLVVIDSLT  214 (322)
T ss_dssp             TEEEEECSSHHHHHHHHHTHHHHHHTTCEEEEEEEECSS
T ss_pred             CEEEEeCCCHHHHHHHHHHHHHHHhhccCccEEEEECcH
Confidence                0111222   34455655554  466799999983

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.19  E-value=0.00075  Score=65.94  Aligned_cols=45  Identities=22%  Similarity=0.361  Sum_probs=37.9

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..++|++.+++.+...|....      ..-+.++|++|+|||++|+.++..
T Consensus       180 d~iiG~~~~i~~l~~~l~~~~------~~~vLL~G~pGtGKT~la~~la~~  224 (758)
T 3pxi_A          180 DPVIGRSKEIQRVIEVLSRRT------KNNPVLIGEPGVGKTAIAEGLAQQ  224 (758)
T ss_dssp             CCCCCCHHHHHHHHHHHHCSS------SCEEEEESCTTTTTHHHHHHHHHH
T ss_pred             CCccCchHHHHHHHHHHhCCC------CCCeEEECCCCCCHHHHHHHHHHH
Confidence            469999999999999997633      334789999999999999999873

>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=97.19  E-value=0.0015  Score=57.56  Aligned_cols=85  Identities=18%  Similarity=0.123  Sum_probs=54.8

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCC-----CCCcHHHHHHHHH
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHES-----HLGEFQSLLRHIY  269 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~-----~~~~~~~~~~~l~  269 (314)
                      .-.++.|+|.+|+|||||+..++...  ...-..++|++....++..     .++.++....     ...+..+....+.
T Consensus        60 ~G~iv~I~G~pGsGKTtLal~la~~~--~~~g~~vlyi~~E~~~~~~-----~a~~lG~~~~~l~i~~~~~~e~~l~~~~  132 (349)
T 2zr9_A           60 RGRVIEIYGPESSGKTTVALHAVANA--QAAGGIAAFIDAEHALDPE-----YAKKLGVDTDSLLVSQPDTGEQALEIAD  132 (349)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHH--HHTTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH--HhCCCeEEEEECCCCcCHH-----HHHHcCCCHHHeEEecCCCHHHHHHHHH
Confidence            34689999999999999999987632  2223468899987766543     2444443211     1224455555555


Q ss_pred             HHc-cCceEEEEEecccc
Q 048765          270 ESI-AGKSFLLVLDDVWD  286 (314)
Q Consensus       270 ~~L-~~kr~LlVlDdv~~  286 (314)
                      ... ..+.-+||+|.+-.
T Consensus       133 ~l~~~~~~~lIVIDsl~~  150 (349)
T 2zr9_A          133 MLVRSGALDIIVIDSVAA  150 (349)
T ss_dssp             HHHTTTCCSEEEEECGGG
T ss_pred             HHHhcCCCCEEEEcChHh
Confidence            444 34567999999854

>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=97.19  E-value=0.0011  Score=57.84  Aligned_cols=89  Identities=20%  Similarity=0.195  Sum_probs=56.4

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhh----cCceeEEEEcCccccHHHHHHHHHHHhcCCC---------CCCCcHH
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIR----KFDKILWVCVSETFEEFRVAKAMVEALDGHE---------SHLGEFQ  262 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~----~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~---------~~~~~~~  262 (314)
                      -.++.|+|.+|+|||+|+..++.......    .-..++|++....++...+.. +++.++...         ....+..
T Consensus       107 G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~~~~~~~l~~-~~~~~g~~~~~~~~~l~~~~~~~~~  185 (324)
T 2z43_A          107 RTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGTFRWERIEN-MAKALGLDIDNVMNNIYYIRAINTD  185 (324)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHHHHH-HHHHTTCCHHHHHHTEEEEECCSHH
T ss_pred             CcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHH-HHHHhCCCHHHHhccEEEEeCCCHH
Confidence            45899999999999999998876321111    134789999888777666543 344443321         0111222


Q ss_pred             ---HHHHHHHHHcc--CceEEEEEeccc
Q 048765          263 ---SLLRHIYESIA--GKSFLLVLDDVW  285 (314)
Q Consensus       263 ---~~~~~l~~~L~--~kr~LlVlDdv~  285 (314)
                         .+...+...+.  .+.-+||+|.+-
T Consensus       186 ~~~~~l~~l~~~~~~~~~~~lvVIDsl~  213 (324)
T 2z43_A          186 HQIAIVDDLQELVSKDPSIKLIVVDSVT  213 (324)
T ss_dssp             HHHHHHHHHHHHHHHCTTEEEEEETTTT
T ss_pred             HHHHHHHHHHHHHHhccCCCEEEEeCcH
Confidence               34455555553  567899999984

>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=97.15  E-value=0.0021  Score=57.66  Aligned_cols=91  Identities=18%  Similarity=0.166  Sum_probs=53.4

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhh----hhcCceeEEEEcCccccHHHHHHHHHHHhcCCCC---------CCCcH
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEV----IRKFDKILWVCVSETFEEFRVAKAMVEALDGHES---------HLGEF  261 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~----~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~---------~~~~~  261 (314)
                      .-.++.|+|++|+|||||+..++-....    ...-..++|++....+....+ ..+++.++....         ...+.
T Consensus       177 ~Gei~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~~~~~~rl-~~~a~~~gl~~~~vleni~~~~~~~~  255 (400)
T 3lda_A          177 TGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRL-VSIAQRFGLDPDDALNNVAYARAYNA  255 (400)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHH-HHHHHHTTCCHHHHHHTEEEEECCSH
T ss_pred             CCcEEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCCccCHHHH-HHHHHHcCCChHhHhhcEEEeccCCh
Confidence            3468999999999999999976532111    112356889988776655543 335555543210         01112


Q ss_pred             ---HHHHHHHHHHc-cCceEEEEEecccc
Q 048765          262 ---QSLLRHIYESI-AGKSFLLVLDDVWD  286 (314)
Q Consensus       262 ---~~~~~~l~~~L-~~kr~LlVlDdv~~  286 (314)
                         ......+...+ ..+.-+||+|.+-.
T Consensus       256 ~~~~~~l~~~~~~l~~~~~~llVIDs~t~  284 (400)
T 3lda_A          256 DHQLRLLDAAAQMMSESRFSLIVVDSVMA  284 (400)
T ss_dssp             HHHHHHHHHHHHHHHHSCEEEEEEETGGG
T ss_pred             HHHHHHHHHHHHHHHhcCCceEEecchhh
Confidence               22333344443 35678999999854

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.13  E-value=0.0016  Score=59.12  Aligned_cols=97  Identities=21%  Similarity=0.246  Sum_probs=55.5

Q ss_pred             cccccchhhHHHHHHHhhc----cCc---CCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHH
Q 048765          169 EEICGRVGEKNELLSKLLC----ESS---EQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEF  241 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~----~~~---~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~  241 (314)
                      +++.|.++..+.|.+.+.-    .+-   -+-...+-|.++|++|+|||+||+.+++  +..-+|   +.++.+.-.+  
T Consensus       209 ~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~--e~~~~f---i~vs~s~L~s--  281 (467)
T 4b4t_H          209 SDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVAN--RTDATF---IRVIGSELVQ--  281 (467)
T ss_dssp             SSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHH--HHTCEE---EEEEGGGGCC--
T ss_pred             HHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHh--ccCCCe---EEEEhHHhhc--
Confidence            3577888777777665321    100   0124467788999999999999999988  444333   3344332111  


Q ss_pred             HHHHHHHHHhcCCCCCCCcHHHHHHHHHH-HccCceEEEEEecccc
Q 048765          242 RVAKAMVEALDGHESHLGEFQSLLRHIYE-SIAGKSFLLVLDDVWD  286 (314)
Q Consensus       242 ~~~~~i~~~~~~~~~~~~~~~~~~~~l~~-~L~~kr~LlVlDdv~~  286 (314)
                                    ....+....+..+.. .-...+++|+||++..
T Consensus       282 --------------k~vGesek~ir~lF~~Ar~~aP~IIfiDEiDa  313 (467)
T 4b4t_H          282 --------------KYVGEGARMVRELFEMARTKKACIIFFDEIDA  313 (467)
T ss_dssp             --------------CSSSHHHHHHHHHHHHHHHTCSEEEEEECCTT
T ss_pred             --------------ccCCHHHHHHHHHHHHHHhcCCceEeeccccc
Confidence                          011112222222222 2245789999999964

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.11  E-value=0.0016  Score=58.60  Aligned_cols=50  Identities=24%  Similarity=0.227  Sum_probs=35.3

Q ss_pred             cccccchhhHHHHHHHhhc----cCc---CCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELLSKLLC----ESS---EQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~----~~~---~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +++-|.++..+.|.+.+.-    .+-   ..-...+-|.++|++|+|||.||+.+++
T Consensus       182 ~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~  238 (437)
T 4b4t_I          182 SDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVAN  238 (437)
T ss_dssp             GGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHH
T ss_pred             eecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHH
Confidence            4677888777776655422    110   0123457789999999999999999988

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=97.10  E-value=0.0021  Score=56.93  Aligned_cols=84  Identities=19%  Similarity=0.146  Sum_probs=55.0

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCC-----CCCcHHHHHHHHHH
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHES-----HLGEFQSLLRHIYE  270 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~-----~~~~~~~~~~~l~~  270 (314)
                      -.++.|.|.+|+||||||..++...  ...-..++|++....++..     .++.++....     ...+..++...+..
T Consensus        74 G~li~I~G~pGsGKTtlal~la~~~--~~~g~~vlyi~~E~s~~~~-----~a~~~g~d~~~l~i~~~~~~e~~l~~l~~  146 (366)
T 1xp8_A           74 GRITEIYGPESGGKTTLALAIVAQA--QKAGGTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIMEL  146 (366)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHH--HHTTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCChHHHHHHHHHHH--HHCCCeEEEEECCCChhHH-----HHHHcCCCHHHceeecCCcHHHHHHHHHH
Confidence            4588889999999999999887643  2223478999988766543     2344443211     12345556666655


Q ss_pred             Hcc-CceEEEEEecccc
Q 048765          271 SIA-GKSFLLVLDDVWD  286 (314)
Q Consensus       271 ~L~-~kr~LlVlDdv~~  286 (314)
                      .++ .+--+||+|.+-.
T Consensus       147 l~~~~~~~lVVIDsl~~  163 (366)
T 1xp8_A          147 LVRSGAIDVVVVDSVAA  163 (366)
T ss_dssp             HHTTTCCSEEEEECTTT
T ss_pred             HHhcCCCCEEEEeChHH
Confidence            553 4456999999843

>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=97.09  E-value=0.0027  Score=54.51  Aligned_cols=39  Identities=15%  Similarity=0.138  Sum_probs=27.6

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcC
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVS  235 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~  235 (314)
                      -.++.|+|.+|+|||||++.++...... .-..++|++..
T Consensus        35 G~~~~i~G~~G~GKTTl~~~ia~~~~~~-~G~~v~~~~~e   73 (296)
T 1cr0_A           35 GEVIMVTSGSGMGKSTFVRQQALQWGTA-MGKKVGLAMLE   73 (296)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHHHHHHT-SCCCEEEEESS
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHHH-cCCeEEEEeCc
Confidence            4589999999999999999987743322 11246666643

>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=97.09  E-value=0.0023  Score=62.31  Aligned_cols=97  Identities=21%  Similarity=0.207  Sum_probs=56.0

Q ss_pred             cccccchhhHHHHHHHhh----ccCcC---CCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHH
Q 048765          169 EEICGRVGEKNELLSKLL----CESSE---QQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEF  241 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~----~~~~~---~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~  241 (314)
                      +++.|.+..++.|.+.+.    ..+--   .....+-|.++|++|+|||+||+.+++  +...+|   +.|+++.     
T Consensus       204 ~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~--elg~~~---~~v~~~~-----  273 (806)
T 3cf2_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVAN--ETGAFF---FLINGPE-----  273 (806)
T ss_dssp             GGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHT--TTTCEE---EEEEHHH-----
T ss_pred             hhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHH--HhCCeE---EEEEhHH-----
Confidence            457787777777666542    21110   123467789999999999999999988  333333   3444321     


Q ss_pred             HHHHHHHHHhcCCCCCCCcHHH-HHHHHHHHccCceEEEEEecccc
Q 048765          242 RVAKAMVEALDGHESHLGEFQS-LLRHIYESIAGKSFLLVLDDVWD  286 (314)
Q Consensus       242 ~~~~~i~~~~~~~~~~~~~~~~-~~~~l~~~L~~kr~LlVlDdv~~  286 (314)
                       +    ...      ...+... +...+.......+.+|+||+++.
T Consensus       274 -l----~sk------~~gese~~lr~lF~~A~~~~PsIIfIDEiDa  308 (806)
T 3cf2_A          274 -I----MSK------LAGESESNLRKAFEEAEKNAPAIIFIDELDA  308 (806)
T ss_dssp             -H----HSS------CTTHHHHHHHHHHHHHTTSCSEEEEEESGGG
T ss_pred             -h----hcc------cchHHHHHHHHHHHHHHHcCCeEEEEehhcc
Confidence             1    100      1111222 22223333356789999999965

>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=97.06  E-value=0.0022  Score=56.65  Aligned_cols=85  Identities=18%  Similarity=0.124  Sum_probs=53.6

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCC-----CCCcHHHHHHHHH
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHES-----HLGEFQSLLRHIY  269 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~-----~~~~~~~~~~~l~  269 (314)
                      .-.++.|.|.+|+||||||..++...  ...-..++|++....++..     .+..++....     ...+..++...+.
T Consensus        62 ~G~ii~I~G~pGsGKTtLal~la~~~--~~~g~~vlyid~E~s~~~~-----~a~~~g~~~~~l~i~~~~~~e~~~~~~~  134 (356)
T 1u94_A           62 MGRIVEIYGPESSGKTTLTLQVIAAA--QREGKTCAFIDAEHALDPI-----YARKLGVDIDNLLCSQPDTGEQALEICD  134 (356)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHH--HHTTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH--HHCCCeEEEEeCCCCccHH-----HHHHcCCChhheeeeCCCCHHHHHHHHH
Confidence            34689999999999999999887643  2223468999987766643     2344443211     1123444444444


Q ss_pred             HHc-cCceEEEEEecccc
Q 048765          270 ESI-AGKSFLLVLDDVWD  286 (314)
Q Consensus       270 ~~L-~~kr~LlVlDdv~~  286 (314)
                      ... ..+.-+||+|.+-.
T Consensus       135 ~l~~~~~~~lVVIDsl~~  152 (356)
T 1u94_A          135 ALARSGAVDVIVVDSVAA  152 (356)
T ss_dssp             HHHHHTCCSEEEEECGGG
T ss_pred             HHHhccCCCEEEEcCHHH
Confidence            333 34556999999854

>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=97.04  E-value=0.0017  Score=57.84  Aligned_cols=23  Identities=35%  Similarity=0.411  Sum_probs=20.5

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ...+.++|++|+|||++|+.+++
T Consensus        72 ~~~ill~Gp~GtGKT~la~~la~   94 (376)
T 1um8_A           72 KSNILLIGPTGSGKTLMAQTLAK   94 (376)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCEEEECCCCCCHHHHHHHHHH
Confidence            45688999999999999999987

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.95  E-value=0.00093  Score=53.98  Aligned_cols=42  Identities=26%  Similarity=0.302  Sum_probs=32.5

Q ss_pred             chhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          174 RVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       174 r~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      |...++.|.+.+.....   ....+++|.|..|+|||||++.+..
T Consensus         3 ~~~~~~~l~~~~~~~~~---~~~~~i~i~G~~GsGKstl~~~l~~   44 (201)
T 1rz3_A            3 LRDRIDFLCKTILAIKT---AGRLVLGIDGLSRSGKTTLANQLSQ   44 (201)
T ss_dssp             HHHHHHHHHHHHHTSCC---SSSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcc---CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            45567777777765321   4567999999999999999998876

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=96.94  E-value=0.0062  Score=50.37  Aligned_cols=39  Identities=21%  Similarity=0.246  Sum_probs=28.6

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSE  236 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~  236 (314)
                      -.++.|.|.+|+|||||+..++....  ..-..++|++...
T Consensus        23 G~~~~i~G~~GsGKTtl~~~~~~~~~--~~~~~v~~~~~e~   61 (247)
T 2dr3_A           23 RNVVLLSGGPGTGKTIFSQQFLWNGL--KMGEPGIYVALEE   61 (247)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHHHH--HTTCCEEEEESSS
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHH--hcCCeEEEEEccC
Confidence            45889999999999999988765322  2234677887654

>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=96.89  E-value=0.0045  Score=53.22  Aligned_cols=26  Identities=27%  Similarity=0.248  Sum_probs=22.2

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchH
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHE  220 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~  220 (314)
                      ...+++++|.+|+||||++..+....
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~~l  129 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAAIS  129 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            35699999999999999999987643

>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=96.84  E-value=0.013  Score=50.06  Aligned_cols=54  Identities=17%  Similarity=0.087  Sum_probs=33.5

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhh-cCceeEEEEcCccccHHHHHHHH
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIR-KFDKILWVCVSETFEEFRVAKAM  247 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~-~F~~~~wv~~~~~~~~~~~~~~i  247 (314)
                      ....+|+|+|..|+|||||++.+........ .......|+....+-.......+
T Consensus        29 ~~~~ii~I~G~sGsGKSTla~~L~~~l~~~g~~~~~~~iv~~D~f~~~~~~~~~l   83 (290)
T 1odf_A           29 KCPLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDFYLTHEDQLKL   83 (290)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGGBCCHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhhhcCCCCceEEEeccccccCChHHHHHH
Confidence            5678999999999999999998876433221 12344444554433333444444

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=96.81  E-value=0.01  Score=51.47  Aligned_cols=50  Identities=14%  Similarity=0.108  Sum_probs=34.5

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHH
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMV  248 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  248 (314)
                      .-.++.|.|.+|+|||||+..++.+...++  ..++|++...  +...+...++
T Consensus        67 ~G~l~li~G~pG~GKTtl~l~ia~~~a~~g--~~vl~~slE~--s~~~l~~R~~  116 (315)
T 3bh0_A           67 RRNFVLIAARPSMGKTAFALKQAKNMSDND--DVVNLHSLEM--GKKENIKRLI  116 (315)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHHHHHTTT--CEEEEEESSS--CHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHHcC--CeEEEEECCC--CHHHHHHHHH
Confidence            346889999999999999999876433322  5788887653  3444444444

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=96.80  E-value=0.00051  Score=54.83  Aligned_cols=106  Identities=13%  Similarity=-0.029  Sum_probs=50.1

Q ss_pred             EEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCC--CCCCCcHHHHHHHHHHHccC
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGH--ESHLGEFQSLLRHIYESIAG  274 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~--~~~~~~~~~~~~~l~~~L~~  274 (314)
                      .++.|+|+.|+||||++..++......+ . .+.++....+.  ......+...++..  .....+..    .+.+.+.+
T Consensus         4 ~i~vi~G~~gsGKTT~ll~~~~~~~~~g-~-~v~~~~~~~d~--r~~~~~i~s~~g~~~~~~~~~~~~----~~~~~~~~   75 (184)
T 2orw_A            4 KLTVITGPMYSGKTTELLSFVEIYKLGK-K-KVAVFKPKIDS--RYHSTMIVSHSGNGVEAHVIERPE----EMRKYIEE   75 (184)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHHHTT-C-EEEEEEEC-------CCCEECC----CEECEEESSGG----GGGGGCCT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHCC-C-eEEEEeecccc--ccCcccEEecCCCceeeEEECCHH----HHHHHhcC
Confidence            4778999999999999966655332222 2 23333221110  00000000001100  00011111    12233344


Q ss_pred             ceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEecc
Q 048765          275 KSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTR  313 (314)
Q Consensus       275 kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR  313 (314)
                      +.-+|+||.+...+. .|.+....+.+.  |..|++|.+
T Consensus        76 ~~dvviIDE~Q~~~~-~~~~~l~~l~~~--~~~Vi~~Gl  111 (184)
T 2orw_A           76 DTRGVFIDEVQFFNP-SLFEVVKDLLDR--GIDVFCAGL  111 (184)
T ss_dssp             TEEEEEECCGGGSCT-THHHHHHHHHHT--TCEEEEEEE
T ss_pred             CCCEEEEECcccCCH-HHHHHHHHHHHC--CCCEEEEee
Confidence            567999999976542 355544434332  667888754

>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=96.75  E-value=0.0068  Score=53.37  Aligned_cols=91  Identities=19%  Similarity=0.245  Sum_probs=52.9

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcC----ceeEEEEcCccccHHHHHHHHHHHhcCCC------------CC
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKF----DKILWVCVSETFEEFRVAKAMVEALDGHE------------SH  257 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F----~~~~wv~~~~~~~~~~~~~~i~~~~~~~~------------~~  257 (314)
                      +.-.++.|+|+.|+|||||+..++.........    ..++|++....+....+ ..+.+.++...            ..
T Consensus       129 ~~G~i~~I~G~~GsGKTTL~~~l~~~~~~~~~~Gg~~G~vi~i~~e~~~~~~~i-~~i~q~~~~~~~~v~~ni~~~~~~~  207 (349)
T 1pzn_A          129 ETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERI-REIAQNRGLDPDEVLKHIYVARAFN  207 (349)
T ss_dssp             ESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHH-HHHHHTTTCCHHHHGGGEEEEECCS
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhccchhcCCCCCeEEEEeCCCCCCHHHH-HHHHHHcCCCHHHHhhCEEEEecCC
Confidence            345799999999999999999987632111111    24589987665544333 23444332210            00


Q ss_pred             CCcHHHHHHHHHHHcc------CceEEEEEeccc
Q 048765          258 LGEFQSLLRHIYESIA------GKSFLLVLDDVW  285 (314)
Q Consensus       258 ~~~~~~~~~~l~~~L~------~kr~LlVlDdv~  285 (314)
                      ......+...+...+.      .+.-+||||.+-
T Consensus       208 ~~~~~~~l~~~~~~~~~lS~G~~~~~llIlDs~t  241 (349)
T 1pzn_A          208 SNHQMLLVQQAEDKIKELLNTDRPVKLLIVDSLT  241 (349)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSSSSCEEEEEEETSS
T ss_pred             hHHHHHHHHHHHHHHHHhccccCCCCEEEEeCch
Confidence            1112233444555553      578899999984

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=96.72  E-value=0.0015  Score=53.03  Aligned_cols=39  Identities=26%  Similarity=0.355  Sum_probs=28.6

Q ss_pred             hHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          177 EKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       177 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      -.+.|.+.+...    .....+++|+|+.|+|||||++.+..-
T Consensus         7 ~~~~~~~~~~~~----~~~g~~v~I~G~sGsGKSTl~~~l~~~   45 (208)
T 3c8u_A            7 LCQGVLERLDPR----QPGRQLVALSGAPGSGKSTLSNPLAAA   45 (208)
T ss_dssp             HHHHHHHHSCTT----CCSCEEEEEECCTTSCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHhc----CCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            344555555432    145689999999999999999988763

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=96.70  E-value=0.0067  Score=49.56  Aligned_cols=47  Identities=23%  Similarity=0.295  Sum_probs=31.9

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhh---hh-cCceeEEEEcCccccHH
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEV---IR-KFDKILWVCVSETFEEF  241 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~---~~-~F~~~~wv~~~~~~~~~  241 (314)
                      .-.+++|+|+.|+|||||++.++.....   .. .....+|++....+...
T Consensus        24 ~G~~~~l~G~nGsGKSTll~~l~g~~~~~~~~g~~~~~~i~~~~~~~~~~~   74 (231)
T 4a74_A           24 TQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPE   74 (231)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCEEEEEECCCCCCHH
Confidence            3579999999999999999998652111   11 23457888765544433

>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=96.68  E-value=0.0062  Score=51.74  Aligned_cols=43  Identities=16%  Similarity=0.149  Sum_probs=29.4

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhh--------cCceeEEEEcCccc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIR--------KFDKILWVCVSETF  238 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~--------~F~~~~wv~~~~~~  238 (314)
                      -.++.|+|++|+|||||+..++.......        .-..++|++.....
T Consensus        30 G~i~~i~G~~GsGKTtl~~~l~~~~~~g~~~~g~~~~~~~~v~~~~~e~~~   80 (279)
T 1nlf_A           30 GTVGALVSPGGAGKSMLALQLAAQIAGGPDLLEVGELPTGPVIYLPAEDPP   80 (279)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHTCCCTTCCCCCCCCCEEEEESSSCH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHhcCCCcCCCccCCCccEEEEECCCCH
Confidence            35899999999999999998876322110        02346677765543

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=96.64  E-value=0.01  Score=51.17  Aligned_cols=27  Identities=30%  Similarity=0.359  Sum_probs=23.2

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchH
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHE  220 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~  220 (314)
                      ....++.|+|++|+||||++..++...
T Consensus       102 ~~~~vi~ivG~~GsGKTTl~~~LA~~l  128 (306)
T 1vma_A          102 EPPFVIMVVGVNGTGKTTSCGKLAKMF  128 (306)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEEcCCCChHHHHHHHHHHHH
Confidence            346899999999999999999987643

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=96.59  E-value=0.0013  Score=57.55  Aligned_cols=49  Identities=29%  Similarity=0.397  Sum_probs=34.3

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +.++|.+..++.+...+..... .+.....+.++|++|+|||||++.++.
T Consensus        25 ~~~~g~~~~~~~l~~~i~~~~~-~~~~~~~~ll~Gp~G~GKTTLa~~ia~   73 (334)
T 1in4_A           25 DEFIGQENVKKKLSLALEAAKM-RGEVLDHVLLAGPPGLGKTTLAHIIAS   73 (334)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHH-HTCCCCCEEEESSTTSSHHHHHHHHHH
T ss_pred             HHccCcHHHHHHHHHHHHHHHh-cCCCCCeEEEECCCCCcHHHHHHHHHH
Confidence            4578877666666655543200 012346789999999999999999987

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=96.59  E-value=0.0049  Score=52.32  Aligned_cols=20  Identities=40%  Similarity=0.569  Sum_probs=19.1

Q ss_pred             EEEEccCCCChHHHHHHhhc
Q 048765          199 ISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~  218 (314)
                      +.++|++|+|||||++.++.
T Consensus        47 vlL~Gp~GtGKTtLakala~   66 (274)
T 2x8a_A           47 VLLAGPPGCGKTLLAKAVAN   66 (274)
T ss_dssp             EEEESSTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHH
Confidence            89999999999999999987

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=96.59  E-value=0.021  Score=51.74  Aligned_cols=25  Identities=32%  Similarity=0.381  Sum_probs=22.1

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      +..+|.++|.+|+||||++..++..
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~  123 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARY  123 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHH
Confidence            4789999999999999999888763

>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP: a.69.1.1 b.49.1.1 c.37.1.11

Probab=96.55  E-value=0.011  Score=53.88  Aligned_cols=87  Identities=21%  Similarity=0.188  Sum_probs=49.7

Q ss_pred             EEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccc-cHHHHHHHHHHHhc--------CCCCCCCcHHH----H
Q 048765          198 IISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETF-EEFRVAKAMVEALD--------GHESHLGEFQS----L  264 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~~~--------~~~~~~~~~~~----~  264 (314)
                      .+.|+|..|+|||||++.+..+.... +-+.++++.+.+.. ...++...+...-.        ....+....+.    .
T Consensus       153 ~~~i~G~sGvGKTtL~~~l~~~~~~~-~~~i~V~~~iGerttev~el~~~l~~~~~l~~tvvv~~~~~d~pg~r~~~~~~  231 (473)
T 1sky_E          153 KIGLFGGAGVGKTVLIQELIHNIAQE-HGGISVFAGVGERTREGNDLYHEMKDSGVISKTAMVFGQMNEPPGARMRVALT  231 (473)
T ss_dssp             EEEEECCSSSCHHHHHHHHHHHHHHH-TCCCEEEEEESSCHHHHHHHHHHHHHTSGGGGEEEEEECTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCccHHHHHHHhhhhhc-cCcEEEEeeeccCchHHHHHHHHhhhcCCcceeEEEEEcCCCCHHHHHHHHHH
Confidence            58899999999999999998743322 23455667776654 33344444433200        00111111111    1


Q ss_pred             HHHHHHHc---cCceEEEEEeccc
Q 048765          265 LRHIYESI---AGKSFLLVLDDVW  285 (314)
Q Consensus       265 ~~~l~~~L---~~kr~LlVlDdv~  285 (314)
                      .-.+.+++   +++..||++||+-
T Consensus       232 ~ltiAEyFrd~~G~~VLl~~D~it  255 (473)
T 1sky_E          232 GLTMAEYFRDEQGQDGLLFIDNIF  255 (473)
T ss_dssp             HHHHHHHHHHHSCCEEEEEEECTH
T ss_pred             HHHHHHHHHHhcCCcEEEEeccHH
Confidence            11233333   5899999999993

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=96.55  E-value=0.0098  Score=51.99  Aligned_cols=50  Identities=12%  Similarity=0.021  Sum_probs=34.4

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHH
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVE  249 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~  249 (314)
                      -.++.|.|.+|+|||||+..++.+...  +-..++|++..  .+...+...++.
T Consensus        46 G~LiiIaG~pG~GKTt~al~ia~~~a~--~g~~Vl~fSlE--ms~~ql~~Rlls   95 (338)
T 4a1f_A           46 GSLVIIGARPSMGKTSLMMNMVLSALN--DDRGVAVFSLE--MSAEQLALRALS   95 (338)
T ss_dssp             TCEEEEEECTTSCHHHHHHHHHHHHHH--TTCEEEEEESS--SCHHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHHHH--cCCeEEEEeCC--CCHHHHHHHHHH
Confidence            458899999999999999998875433  23467777653  344555555443

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=96.55  E-value=0.022  Score=51.49  Aligned_cols=25  Identities=40%  Similarity=0.383  Sum_probs=22.2

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ...++.++|.+|+||||++..++..
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~  120 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYF  120 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999999888764

>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain, PIN-tower interface, coupling hydrolysis to DNA unwinding, ssDNA; 3.30A {Enterobacteria phage T4}

Probab=96.55  E-value=0.0049  Score=56.43  Aligned_cols=22  Identities=32%  Similarity=0.492  Sum_probs=20.0

Q ss_pred             EEEEEccCCCChHHHHHHhhch
Q 048765          198 IISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .+.|.|.+|+|||+++..+...
T Consensus        47 ~~li~G~aGTGKT~ll~~~~~~   68 (459)
T 3upu_A           47 HVTINGPAGTGATTLTKFIIEA   68 (459)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHH
Confidence            8899999999999999988774

>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=96.54  E-value=0.0013  Score=51.37  Aligned_cols=20  Identities=45%  Similarity=0.727  Sum_probs=18.6

Q ss_pred             EEEEEEccCCCChHHHHHHh
Q 048765          197 HIISIVGMGGIGKTTLAQLA  216 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v  216 (314)
                      .+|.|.|++|+||||+++.+
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            47899999999999999988

>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=96.51  E-value=0.0016  Score=51.88  Aligned_cols=23  Identities=35%  Similarity=0.499  Sum_probs=20.9

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|+|||||++.+..
T Consensus         9 g~~i~l~G~~GsGKSTl~~~La~   31 (191)
T 1zp6_A            9 GNILLLSGHPGSGKSTIAEALAN   31 (191)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHh
Confidence            46899999999999999999876

>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=96.44  E-value=0.0015  Score=51.39  Aligned_cols=22  Identities=18%  Similarity=0.295  Sum_probs=19.9

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+|.|.|++|+||||+++.+..
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~   25 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQS   25 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999998865

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=96.43  E-value=0.0015  Score=50.91  Aligned_cols=22  Identities=23%  Similarity=0.160  Sum_probs=19.6

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+|.|.|+.|+||||+++.+..
T Consensus         2 ~~i~l~G~~GsGKsT~~~~L~~   23 (173)
T 3kb2_A            2 TLIILEGPDCCFKSTVAAKLSK   23 (173)
T ss_dssp             CEEEEECSSSSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999998865

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.41  E-value=0.0018  Score=50.81  Aligned_cols=22  Identities=36%  Similarity=0.431  Sum_probs=20.0

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+|.|.|++|+||||+++.+..
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            5789999999999999999865

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.40  E-value=0.016  Score=50.29  Aligned_cols=46  Identities=20%  Similarity=0.183  Sum_probs=30.6

Q ss_pred             cccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          171 ICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       171 ~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+|....+..+...+....  ......+++|.|+.|+|||||++.+..
T Consensus        69 ~~~~~~~l~~~~~~~l~~~--~~~~p~iigI~GpsGSGKSTl~~~L~~  114 (321)
T 3tqc_A           69 YVTARQTLQQATYQFLGKP--EPKVPYIIGIAGSVAVGKSTTSRVLKA  114 (321)
T ss_dssp             HHHHHHHHHHHHHHHHTCC--CCCCCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             hhcchHHHHHHHHHHhccC--CCCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3444444444444444332  125677999999999999999998865

>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=96.39  E-value=0.0027  Score=56.23  Aligned_cols=85  Identities=18%  Similarity=0.137  Sum_probs=46.8

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhh-hcCceeEEEEcCccccHHHHHHHHHHHhcCC-----CCCCCcHHH----HH
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVI-RKFDKILWVCVSETFEEFRVAKAMVEALDGH-----ESHLGEFQS----LL  265 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~-~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~-----~~~~~~~~~----~~  265 (314)
                      -..++|+|..|+|||||++.+.+..... ..+. ++++-+.+......   .+.+.+...     .......+.    ..
T Consensus       174 GQr~~IvG~sG~GKTtLl~~Iar~i~~~~~~v~-~I~~lIGER~~Ev~---~~~~~~~~~vV~atadep~~~r~~~a~~a  249 (422)
T 3ice_A          174 GQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCV-LMVLLIDERPEEVT---EMQRLVKGEVVASTFDEPASRHVQVAEMV  249 (422)
T ss_dssp             TCEEEEECCSSSSHHHHHHHHHHHHHHHCTTSE-EEEEEESSCHHHHH---HHHTTCSSEEEEECTTSCHHHHHHHHHHH
T ss_pred             CcEEEEecCCCCChhHHHHHHHHHHhhcCCCee-EEEEEecCChHHHH---HHHHHhCeEEEEeCCCCCHHHHHHHHHHH
Confidence            4588999999999999999887633221 1233 33566665443222   223333110     111111111    11


Q ss_pred             HHHHHHc--cCceEEEEEecc
Q 048765          266 RHIYESI--AGKSFLLVLDDV  284 (314)
Q Consensus       266 ~~l~~~L--~~kr~LlVlDdv  284 (314)
                      -.+.+++  +++..||++||+
T Consensus       250 lt~AEyfrd~G~dVLil~Dsl  270 (422)
T 3ice_A          250 IEKAKRLVEHKKDVIILLDSI  270 (422)
T ss_dssp             HHHHHHHHHTSCEEEEEEECH
T ss_pred             HHHHHHHHhcCCCEEEEEeCc
Confidence            1223344  689999999999

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=96.38  E-value=0.014  Score=47.74  Aligned_cols=102  Identities=15%  Similarity=0.176  Sum_probs=53.0

Q ss_pred             EEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCC----------CCCcHHHHHH
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHES----------HLGEFQSLLR  266 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~----------~~~~~~~~~~  266 (314)
                      -.|.+.|.||+||||++..+...... ..++ +..+.+....+....  .++..+...+.          ...++..   
T Consensus         7 l~I~~~~kgGvGKTt~a~~la~~l~~-~G~~-V~v~d~D~q~~~~~~--al~~gl~~~~~~~~~~~~~~~~e~~l~~---   79 (228)
T 2r8r_A            7 LKVFLGAAPGVGKTYAMLQAAHAQLR-QGVR-VMAGVVETHGRAETE--ALLNGLPQQPLLRTEYRGMTLEEMDLDA---   79 (228)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHH-TTCC-EEEEECCCTTCHHHH--HHHTTSCBCCCEEEEETTEEEEECCHHH---
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHH-CCCC-EEEEEeCCCCChhHH--HHhcCccccCcceeecCCcccccccHHH---
Confidence            44778999999999999888763322 2233 444555443333321  12222221110          0012222   


Q ss_pred             HHHHHccCceEEEEEeccccCC------ccCHHhHHHhhccCCCCceEEEec
Q 048765          267 HIYESIAGKSFLLVLDDVWDGN------YVKWEPFYHCLKNGLHGSKILVTT  312 (314)
Q Consensus       267 ~l~~~L~~kr~LlVlDdv~~~~------~~~~~~l~~~l~~~~~gs~iivTt  312 (314)
                          .+..+.=++|+|++-..+      ...|.++...++   .|-.|+.|+
T Consensus        80 ----~L~~~pdlvIVDElG~~~~~~~r~~~~~qDV~~~l~---sgidVitT~  124 (228)
T 2r8r_A           80 ----LLKAAPSLVLVDELAHTNAPGSRHTKRWQDIQELLA---AGIDVYTTV  124 (228)
T ss_dssp             ----HHHHCCSEEEESCTTCBCCTTCSSSBHHHHHHHHHH---TTCEEEEEE
T ss_pred             ----HHhcCCCEEEEeCCCCCCcccchhHHHHHHHHHHHc---CCCCEEEEc
Confidence                122245699999875321      125677766554   354577665

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=96.38  E-value=0.0094  Score=55.01  Aligned_cols=51  Identities=27%  Similarity=0.298  Sum_probs=32.3

Q ss_pred             cccccchhhHHHHHH---HhhccCcC---CCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          169 EEICGRVGEKNELLS---KLLCESSE---QQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~---~L~~~~~~---~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .+++|.+..+..+.+   .+.....-   .-.-.+-+.|+|++|+|||+||+.++..
T Consensus        31 ~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~   87 (499)
T 2dhr_A           31 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGE   87 (499)
T ss_dssp             TSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHH
T ss_pred             HHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            468888766555444   44321100   0011223889999999999999999873

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.37  E-value=0.0018  Score=52.18  Aligned_cols=23  Identities=35%  Similarity=0.424  Sum_probs=20.7

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..+|.|+|+.|+||||+++.+..
T Consensus        25 ~~~i~l~G~~GsGKsTl~~~La~   47 (199)
T 3vaa_A           25 MVRIFLTGYMGAGKTTLGKAFAR   47 (199)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHH
Confidence            45899999999999999999875

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=96.36  E-value=0.0019  Score=54.50  Aligned_cols=51  Identities=24%  Similarity=0.254  Sum_probs=33.6

Q ss_pred             cccccchhhHHHHHHHhhccCcC------CCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          169 EEICGRVGEKNELLSKLLCESSE------QQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~------~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..++|.+..++.+.+.+..-...      .....+-+.|+|++|+|||+||+.++..
T Consensus        11 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~   67 (268)
T 2r62_A           11 KDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGE   67 (268)
T ss_dssp             TTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHH
T ss_pred             HHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHH
Confidence            46889887777766654310000      0011233779999999999999999873

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=96.35  E-value=0.046  Score=49.47  Aligned_cols=43  Identities=23%  Similarity=0.298  Sum_probs=29.4

Q ss_pred             HHHHHHHhhccCcC---CCCCeEEEEEEccCCCChHHHHHHhhchH
Q 048765          178 KNELLSKLLCESSE---QQKGLHIISIVGMGGIGKTTLAQLACNHE  220 (314)
Q Consensus       178 ~~~l~~~L~~~~~~---~~~~~~vi~I~G~~G~GKTtLa~~v~~~~  220 (314)
                      .+.|.+.|......   .....++|.++|.+|+||||++..++...
T Consensus        79 ~~~l~~~l~~~~~~~~~~~~~~~vI~ivG~~GvGKTT~a~~LA~~l  124 (433)
T 2xxa_A           79 RNELVAAMGEENQTLNLAAQPPAVVLMAGLQGAGKTTSVGKLGKFL  124 (433)
T ss_dssp             HHHHHHHHCSSSCCCCCCSSSSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHhccccccccccCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            44566666432211   12457899999999999999998887643

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=96.31  E-value=0.0027  Score=51.13  Aligned_cols=25  Identities=32%  Similarity=0.371  Sum_probs=22.2

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ...+|.|+|+.|+|||||++.+...
T Consensus        24 ~g~~i~l~G~sGsGKSTl~~~La~~   48 (200)
T 3uie_A           24 KGCVIWVTGLSGSGKSTLACALNQM   48 (200)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4579999999999999999999764

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=96.31  E-value=0.003  Score=55.95  Aligned_cols=49  Identities=24%  Similarity=0.281  Sum_probs=34.7

Q ss_pred             ccccchhhHHHHHHHhhcc----C-----cCCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          170 EICGRVGEKNELLSKLLCE----S-----SEQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       170 ~~vgr~~~~~~l~~~L~~~----~-----~~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .++|.+..++.+...+...    .     .........+.++|++|+|||++|+.++.
T Consensus        16 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~   73 (363)
T 3hws_A           16 YVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLAR   73 (363)
T ss_dssp             HCCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHH
Confidence            4688888888877766210    0     00012345788999999999999999987

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=96.28  E-value=0.0021  Score=50.80  Aligned_cols=23  Identities=13%  Similarity=0.395  Sum_probs=20.7

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|+|||||++.+..
T Consensus         5 g~~i~i~GpsGsGKSTL~~~L~~   27 (180)
T 1kgd_A            5 RKTLVLLGAHGVGRRHIKNTLIT   27 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            35899999999999999999876

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=96.27  E-value=0.0018  Score=50.62  Aligned_cols=22  Identities=32%  Similarity=0.436  Sum_probs=19.9

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+|+|+|+.|+|||||++.+..
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~   26 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQ   26 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999998865

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=96.27  E-value=0.045  Score=47.45  Aligned_cols=26  Identities=38%  Similarity=0.514  Sum_probs=22.7

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhch
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ....++.|+|.+|+||||++..++..
T Consensus       103 ~~~~vI~ivG~~G~GKTT~~~~LA~~  128 (320)
T 1zu4_A          103 NRLNIFMLVGVNGTGKTTSLAKMANY  128 (320)
T ss_dssp             TSCEEEEEESSTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            45789999999999999999988763

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=96.26  E-value=0.0026  Score=50.56  Aligned_cols=24  Identities=33%  Similarity=0.400  Sum_probs=21.2

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ...+|.|.|++|+||||+++.+..
T Consensus         4 ~~~~I~l~G~~GsGKST~~~~L~~   27 (193)
T 2rhm_A            4 TPALIIVTGHPATGKTTLSQALAT   27 (193)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            356899999999999999998865

>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=96.25  E-value=0.023  Score=51.21  Aligned_cols=24  Identities=33%  Similarity=0.339  Sum_probs=21.1

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..++.++|.+|+||||++..++..
T Consensus        98 ~~vi~i~G~~GsGKTT~~~~LA~~  121 (425)
T 2ffh_A           98 RNLWFLVGLQGSGKTTTAAKLALY  121 (425)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            578999999999999999888763

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=96.23  E-value=0.0041  Score=57.47  Aligned_cols=41  Identities=20%  Similarity=0.152  Sum_probs=34.3

Q ss_pred             ccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          170 EICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       170 ~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .++|.+..++.+...+...        .-+.++|++|+|||+||+.++.
T Consensus        23 ~ivGq~~~i~~l~~al~~~--------~~VLL~GpPGtGKT~LAraLa~   63 (500)
T 3nbx_X           23 GLYERSHAIRLCLLAALSG--------ESVFLLGPPGIAKSLIARRLKF   63 (500)
T ss_dssp             TCSSCHHHHHHHHHHHHHT--------CEEEEECCSSSSHHHHHHHGGG
T ss_pred             hhHHHHHHHHHHHHHHhcC--------CeeEeecCchHHHHHHHHHHHH
Confidence            4889888888888777643        3678999999999999999987

>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=96.23  E-value=0.032  Score=47.84  Aligned_cols=24  Identities=38%  Similarity=0.434  Sum_probs=21.3

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..++.++|.+|+||||++..++..
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~  121 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYF  121 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            678999999999999999988763

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=96.23  E-value=0.0027  Score=49.83  Aligned_cols=23  Identities=30%  Similarity=0.606  Sum_probs=20.0

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|+|||||++.++.
T Consensus         9 gei~~l~G~nGsGKSTl~~~~~~   31 (171)
T 4gp7_A            9 LSLVVLIGSSGSGKSTFAKKHFK   31 (171)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHSC
T ss_pred             CEEEEEECCCCCCHHHHHHHHcc
Confidence            46899999999999999996543

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.18  E-value=0.0025  Score=50.48  Aligned_cols=23  Identities=30%  Similarity=0.514  Sum_probs=20.3

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+.|.|+|+.|+||||+++.+..
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~   27 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAK   27 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            45788999999999999998865

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=96.17  E-value=0.0036  Score=49.02  Aligned_cols=24  Identities=29%  Similarity=0.551  Sum_probs=21.2

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ...++.|+|+.|+||||+++.+..
T Consensus         7 ~g~~i~l~G~~GsGKSTl~~~l~~   30 (175)
T 1knq_A            7 DHHIYVLMGVSGSGKSAVASEVAH   30 (175)
T ss_dssp             TSEEEEEECSTTSCHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHH
Confidence            356899999999999999998865

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.17  E-value=0.0028  Score=50.28  Aligned_cols=22  Identities=27%  Similarity=0.439  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+|.|.|+.|+||||+++.+..
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~   23 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKE   23 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999999977

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=96.17  E-value=0.0026  Score=49.55  Aligned_cols=25  Identities=28%  Similarity=0.416  Sum_probs=20.7

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ....+|.|.|+.|+||||+++.+..
T Consensus         5 ~~~~~i~l~G~~GsGKSTva~~La~   29 (168)
T 1zuh_A            5 HHMQHLVLIGFMGSGKSSLAQELGL   29 (168)
T ss_dssp             ---CEEEEESCTTSSHHHHHHHHHH
T ss_pred             cccceEEEECCCCCCHHHHHHHHHH
Confidence            4578999999999999999999866

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=96.16  E-value=0.0028  Score=50.97  Aligned_cols=23  Identities=26%  Similarity=0.394  Sum_probs=20.5

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|+|||||++.+..
T Consensus         7 g~ii~l~Gp~GsGKSTl~~~L~~   29 (205)
T 3tr0_A            7 ANLFIISAPSGAGKTSLVRALVK   29 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CcEEEEECcCCCCHHHHHHHHHh
Confidence            35899999999999999998865

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=96.16  E-value=0.029  Score=48.85  Aligned_cols=26  Identities=35%  Similarity=0.409  Sum_probs=22.8

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhch
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ....+++|+|+.|+||||+++.+...
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag~  152 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLANW  152 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            34689999999999999999998764

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=96.15  E-value=0.0032  Score=50.04  Aligned_cols=22  Identities=27%  Similarity=0.465  Sum_probs=19.8

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .++.|+|+.|+|||||++.+..
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            4789999999999999999864

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.15  E-value=0.0028  Score=50.99  Aligned_cols=23  Identities=30%  Similarity=0.536  Sum_probs=20.9

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..+++|+|+.|+|||||++.+..
T Consensus        29 g~~i~l~G~~GsGKSTl~~~L~~   51 (200)
T 4eun_A           29 TRHVVVMGVSGSGKTTIAHGVAD   51 (200)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999875

>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=96.11  E-value=0.003  Score=55.34  Aligned_cols=44  Identities=23%  Similarity=0.257  Sum_probs=31.3

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +.++|.+.....+...+....      ..-+.|+|++|+|||+||+.+++
T Consensus        24 ~~i~G~~~~~~~l~~~~~~~~------~~~vLl~G~~GtGKT~la~~la~   67 (350)
T 1g8p_A           24 SAIVGQEDMKLALLLTAVDPG------IGGVLVFGDRGTGKSTAVRALAA   67 (350)
T ss_dssp             GGSCSCHHHHHHHHHHHHCGG------GCCEEEECCGGGCTTHHHHHHHH
T ss_pred             hhccChHHHHHHHHHHhhCCC------CceEEEECCCCccHHHHHHHHHH
Confidence            458898776555444443322      12388999999999999999976

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=96.11  E-value=0.0024  Score=51.40  Aligned_cols=23  Identities=22%  Similarity=0.462  Sum_probs=20.7

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..+|.|.|+.|+||||+++.+..
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~   40 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAE   40 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45899999999999999998866

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=96.11  E-value=0.0053  Score=51.40  Aligned_cols=40  Identities=25%  Similarity=0.238  Sum_probs=27.9

Q ss_pred             HHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          178 KNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       178 ~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+.+...+..... ......+|.|+|++|+||||+++.+..
T Consensus        15 ~~~~~~~~~~~~~-~~~~~~~i~l~G~~GsGKSTla~~L~~   54 (253)
T 2p5t_B           15 LARNLRSLTRGKK-SSKQPIAILLGGQSGAGKTTIHRIKQK   54 (253)
T ss_dssp             HHHHHHHHHTTCC-CCSSCEEEEEESCGGGTTHHHHHHHHH
T ss_pred             HHHHHHHHHccCC-cccCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3444444443322 234567899999999999999998865

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=96.10  E-value=0.0035  Score=50.73  Aligned_cols=24  Identities=42%  Similarity=0.433  Sum_probs=21.5

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ...+++|+|+.|+|||||++.+..
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~   28 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALAR   28 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999998876

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=96.09  E-value=0.017  Score=61.47  Aligned_cols=84  Identities=19%  Similarity=0.131  Sum_probs=55.9

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCC-----CCCCcHHHHHHHHH
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHE-----SHLGEFQSLLRHIY  269 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~-----~~~~~~~~~~~~l~  269 (314)
                      ..+++-|+|++|+|||+||.++..  +....=..++|+++...++...     ++.++..-     ......+.....+.
T Consensus      1426 ~g~~vll~GppGtGKT~LA~ala~--ea~~~G~~v~Fi~~e~~~~~l~-----a~~~G~dl~~l~v~~~~~~E~~l~~~~ 1498 (2050)
T 3cmu_A         1426 MGRIVEIYGPESSGKTTLTLQVIA--AAQREGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEICD 1498 (2050)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHH--HHHTTTCCEEEECTTSCCCHHH-----HHHTTCCTTTCEEECCSSHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH--HHHHcCCcEEEEEcccccCHHH-----HHHcCCCchhceeecCChHHHHHHHHH
Confidence            457899999999999999999877  3333445688888887776655     34444211     01223344445555


Q ss_pred             HHc-cCceEEEEEeccc
Q 048765          270 ESI-AGKSFLLVLDDVW  285 (314)
Q Consensus       270 ~~L-~~kr~LlVlDdv~  285 (314)
                      ... +.+.-+||+|.+.
T Consensus      1499 ~lvr~~~~~lVVIDsi~ 1515 (2050)
T 3cmu_A         1499 ALARSGAVDVIVVDSVA 1515 (2050)
T ss_dssp             HHHHHTCCSEEEESCGG
T ss_pred             HHHhcCCCCEEEEcChh
Confidence            444 4677899999994

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=96.09  E-value=0.0031  Score=49.91  Aligned_cols=23  Identities=39%  Similarity=0.479  Sum_probs=20.2

Q ss_pred             EEEEEccCCCChHHHHHHhhchH
Q 048765          198 IISIVGMGGIGKTTLAQLACNHE  220 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~~  220 (314)
                      .++|+|+.|+|||||++.++...
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            57899999999999999987643

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=96.09  E-value=0.0033  Score=50.98  Aligned_cols=24  Identities=25%  Similarity=0.385  Sum_probs=21.1

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ...+++|+|+.|+|||||++.+..
T Consensus         7 ~g~~i~l~GpsGsGKsTl~~~L~~   30 (208)
T 3tau_A            7 RGLLIVLSGPSGVGKGTVREAVFK   30 (208)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHh
Confidence            346899999999999999998875

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.06  E-value=0.0083  Score=47.48  Aligned_cols=26  Identities=27%  Similarity=0.376  Sum_probs=22.4

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhch
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ....+|.|.|++|+||||+++.+...
T Consensus        11 ~~~~~i~l~G~~GsGKsT~~~~L~~~   36 (186)
T 2yvu_A           11 EKGIVVWLTGLPGSGKTTIATRLADL   36 (186)
T ss_dssp             SCCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHH
Confidence            34578999999999999999998774

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=96.06  E-value=0.0036  Score=52.38  Aligned_cols=25  Identities=16%  Similarity=0.247  Sum_probs=21.6

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+..+|+|.|+.|+||||+++.+..
T Consensus        20 ~~~~iI~I~G~~GSGKST~a~~L~~   44 (252)
T 1uj2_A           20 GEPFLIGVSGGTASGKSSVCAKIVQ   44 (252)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHH
Confidence            4567899999999999999998865

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=96.06  E-value=0.0041  Score=49.97  Aligned_cols=25  Identities=24%  Similarity=0.360  Sum_probs=21.9

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ....+|.|.|+.|+||||+++.+..
T Consensus        13 ~~~~~I~l~G~~GsGKsT~~~~L~~   37 (203)
T 1ukz_A           13 DQVSVIFVLGGPGAGKGTQCEKLVK   37 (203)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHH
Confidence            4567899999999999999998865

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=96.04  E-value=0.0035  Score=52.54  Aligned_cols=22  Identities=27%  Similarity=0.202  Sum_probs=20.0

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .++.|+|+.|+||||||+.++.
T Consensus         2 ~li~I~G~~GSGKSTla~~La~   23 (253)
T 2ze6_A            2 LLHLIYGPTCSGKTDMAIQIAQ   23 (253)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHh
Confidence            4789999999999999999875

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=96.03  E-value=0.004  Score=49.93  Aligned_cols=25  Identities=44%  Similarity=0.450  Sum_probs=22.1

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+..+|+|.|+.|+||||+++.+..
T Consensus         6 ~~~~~I~i~G~~GsGKST~~~~La~   30 (203)
T 1uf9_A            6 KHPIIIGITGNIGSGKSTVAALLRS   30 (203)
T ss_dssp             CCCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHH
Confidence            4567999999999999999998865

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=96.03  E-value=0.0045  Score=50.61  Aligned_cols=25  Identities=24%  Similarity=0.303  Sum_probs=22.7

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+.++|.|.|++|+||+|.|+.+..
T Consensus        27 ~k~kiI~llGpPGsGKgTqa~~L~~   51 (217)
T 3umf_A           27 AKAKVIFVLGGPGSGKGTQCEKLVQ   51 (217)
T ss_dssp             TSCEEEEEECCTTCCHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHH
Confidence            5678999999999999999998876

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=96.03  E-value=0.0035  Score=50.43  Aligned_cols=23  Identities=26%  Similarity=0.387  Sum_probs=20.5

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..+++|+|+.|+||||+++.+..
T Consensus         6 g~~i~l~G~~GsGKSTl~~~L~~   28 (207)
T 2j41_A            6 GLLIVLSGPSGVGKGTVRKRIFE   28 (207)
T ss_dssp             CCEEEEECSTTSCHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            35899999999999999998865

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=96.02  E-value=0.0035  Score=49.69  Aligned_cols=22  Identities=36%  Similarity=0.702  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+|.|.|+.|+||||+++.+..
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~   25 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMD   25 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999999976

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.02  E-value=0.0039  Score=49.56  Aligned_cols=23  Identities=22%  Similarity=0.280  Sum_probs=20.4

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..+|.|.|++|+||||+++.+..
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~   25 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVE   25 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            36899999999999999998865

>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=96.01  E-value=0.071  Score=48.89  Aligned_cols=26  Identities=35%  Similarity=0.525  Sum_probs=22.7

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhch
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ....+++|+|..|+|||||++.+...
T Consensus       291 ~~GeVI~LVGpNGSGKTTLl~~LAgl  316 (503)
T 2yhs_A          291 KAPFVILMVGVNGVGKTTTIGKLARQ  316 (503)
T ss_dssp             CTTEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             cCCeEEEEECCCcccHHHHHHHHHHH
Confidence            44679999999999999999998763

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=96.00  E-value=0.0037  Score=49.55  Aligned_cols=24  Identities=33%  Similarity=0.400  Sum_probs=21.1

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +...|.|+|+.|+||||+++.+..
T Consensus         9 ~~~~I~l~G~~GsGKSTv~~~La~   32 (184)
T 1y63_A            9 KGINILITGTPGTGKTSMAEMIAA   32 (184)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
Confidence            456899999999999999998865

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.00  E-value=0.014  Score=47.03  Aligned_cols=23  Identities=30%  Similarity=0.494  Sum_probs=20.8

Q ss_pred             EEEEEEccCCCChHHHHHHhhch
Q 048765          197 HIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .+|.|.|+.|+||||+++.+...
T Consensus         5 ~~I~i~G~~GsGKsT~~~~L~~~   27 (213)
T 2plr_A            5 VLIAFEGIDGSGKSSQATLLKDW   27 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHH
Confidence            58999999999999999999763

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=96.00  E-value=0.09  Score=48.49  Aligned_cols=42  Identities=24%  Similarity=0.223  Sum_probs=27.7

Q ss_pred             HHHHHHHhhccCcC---CCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          178 KNELLSKLLCESSE---QQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       178 ~~~l~~~L~~~~~~---~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .+.|.+.|......   ...+..+|.|+|.+|+||||++..+...
T Consensus        80 ~~eL~~ll~~~~~~~~~~~~~~~vI~ivG~~GvGKTTl~~kLA~~  124 (504)
T 2j37_W           80 FKELVKLVDPGVKAWTPTKGKQNVIMFVGLQGSGKTTTCSKLAYY  124 (504)
T ss_dssp             HHHHHHHHCCCCCCCCCCSS--EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHhccccchhccccCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            34555555442211   1145789999999999999999988753

>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=95.99  E-value=0.0046  Score=49.95  Aligned_cols=25  Identities=40%  Similarity=0.423  Sum_probs=21.8

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ....+|+|+|+.|+||||+++.+..
T Consensus        19 ~~~~~i~i~G~~GsGKSTl~~~L~~   43 (207)
T 2qt1_A           19 SKTFIIGISGVTNSGKTTLAKNLQK   43 (207)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4467899999999999999998865

>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=95.97  E-value=0.003  Score=49.76  Aligned_cols=23  Identities=39%  Similarity=0.538  Sum_probs=20.4

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..+|.|+|+.|+||||+++.+..
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~   33 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELAS   33 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHH
Confidence            45788999999999999998865

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=95.95  E-value=0.0072  Score=53.00  Aligned_cols=45  Identities=22%  Similarity=0.257  Sum_probs=30.2

Q ss_pred             cchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          173 GRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       173 gr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      +.+.-.+.+++.+...-.  ......|.|+|+.|+||||+++.++..
T Consensus         3 ~~~~L~~~il~~l~~~i~--~g~~~~i~l~G~~G~GKTTl~~~la~~   47 (359)
T 2ga8_A            3 DTHKLADDVLQLLDNRIE--DNYRVCVILVGSPGSGKSTIAEELCQI   47 (359)
T ss_dssp             CHHHHHHHHHHHHHHTTT--TCSCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHhc--cCCeeEEEEECCCCCcHHHHHHHHHHH
Confidence            334445556655542211  134567899999999999999988763

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=95.95  E-value=0.0039  Score=49.98  Aligned_cols=21  Identities=33%  Similarity=0.483  Sum_probs=19.3

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .|.|.|+.|+||||+++.+..
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~   22 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISK   22 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHHHH
Confidence            689999999999999998876

>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=95.94  E-value=0.0044  Score=52.19  Aligned_cols=23  Identities=26%  Similarity=0.613  Sum_probs=20.9

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..+|.|.|++|+||||+++.+..
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~   26 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAK   26 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHH
Confidence            46899999999999999999876

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=95.94  E-value=0.049  Score=49.51  Aligned_cols=52  Identities=12%  Similarity=0.010  Sum_probs=35.0

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHH
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVE  249 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~  249 (314)
                      .-.++.|.|.+|+|||+|+..++.+.... .-..++|++...  +...+...++.
T Consensus       199 ~G~l~ii~G~pg~GKT~lal~ia~~~a~~-~g~~vl~~slE~--~~~~l~~R~~~  250 (444)
T 2q6t_A          199 PGSLNIIAARPAMGKTAFALTIAQNAALK-EGVGVGIYSLEM--PAAQLTLRMMC  250 (444)
T ss_dssp             TTCEEEEEECTTSCHHHHHHHHHHHHHHT-TCCCEEEEESSS--CHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHHh-CCCeEEEEECCC--CHHHHHHHHHH
Confidence            34688999999999999999988743322 224678877653  34455555443

>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=95.94  E-value=0.0046  Score=49.87  Aligned_cols=22  Identities=41%  Similarity=0.540  Sum_probs=19.8

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+|+|+|+.|+||||+++.+..
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            4789999999999999998865

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=95.93  E-value=0.0039  Score=49.66  Aligned_cols=23  Identities=35%  Similarity=0.400  Sum_probs=20.7

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..+|.|.|+.|+||||+++.+..
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~La~   31 (196)
T 2c95_A            9 TNIIFVVGGPGSGKGTQCEKIVQ   31 (196)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999998865

>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=95.93  E-value=0.004  Score=51.85  Aligned_cols=23  Identities=35%  Similarity=0.371  Sum_probs=20.7

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..+++|+|+.|+|||||++.+..
T Consensus        27 ~~~i~l~G~~GsGKSTl~k~La~   49 (246)
T 2bbw_A           27 LLRAVILGPPGSGKGTVCQRIAQ   49 (246)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999873

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=95.92  E-value=0.0031  Score=49.50  Aligned_cols=22  Identities=36%  Similarity=0.531  Sum_probs=19.7

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +.|.|.|++|+||||+++.+..
T Consensus         5 ~~i~i~G~~GsGKsTla~~La~   26 (175)
T 1via_A            5 KNIVFIGFMGSGKSTLARALAK   26 (175)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            3688999999999999999875

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=95.91  E-value=0.012  Score=47.27  Aligned_cols=21  Identities=33%  Similarity=0.278  Sum_probs=17.8

Q ss_pred             EEEEEEccCCCChHHHHHHhh
Q 048765          197 HIISIVGMGGIGKTTLAQLAC  217 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~  217 (314)
                      .+..|.|.+|+|||++|....
T Consensus         6 mi~l~tG~pGsGKT~~a~~~~   26 (199)
T 2r2a_A            6 EICLITGTPGSGKTLKMVSMM   26 (199)
T ss_dssp             CEEEEECCTTSSHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHH
Confidence            467799999999999997653

>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=95.91  E-value=0.0047  Score=54.50  Aligned_cols=106  Identities=12%  Similarity=0.063  Sum_probs=53.7

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCce-eEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHccC
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDK-ILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAG  274 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~-~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~  274 (314)
                      -.++.|+|+.|+|||||.+.+....  ...... ++.+.-.-.+..... ..+..+...    ..+.......+...|..
T Consensus       123 ~g~i~I~GptGSGKTTlL~~l~g~~--~~~~~~~i~t~ed~~e~~~~~~-~~~v~q~~~----~~~~~~~~~~La~aL~~  195 (356)
T 3jvv_A          123 RGLVLVTGPTGSGKSTTLAAMLDYL--NNTKYHHILTIEDPIEFVHESK-KCLVNQREV----HRDTLGFSEALRSALRE  195 (356)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHH--HHHCCCEEEEEESSCCSCCCCS-SSEEEEEEB----TTTBSCHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcc--cCCCCcEEEEccCcHHhhhhcc-ccceeeeee----ccccCCHHHHHHHHhhh
Confidence            3599999999999999999887632  221112 222211111100000 000000000    00111233467777777


Q ss_pred             ceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEecc
Q 048765          275 KSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTR  313 (314)
Q Consensus       275 kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR  313 (314)
                      .+=+|++|+..+.  +.++.+....   ..|.-||+||.
T Consensus       196 ~PdvillDEp~d~--e~~~~~~~~~---~~G~~vl~t~H  229 (356)
T 3jvv_A          196 DPDIILVGEMRDL--ETIRLALTAA---ETGHLVFGTLH  229 (356)
T ss_dssp             CCSEEEESCCCSH--HHHHHHHHHH---HTTCEEEEEES
T ss_pred             CcCEEecCCCCCH--HHHHHHHHHH---hcCCEEEEEEc
Confidence            8889999998532  3344433332   23556787775

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=95.91  E-value=0.0051  Score=48.59  Aligned_cols=23  Identities=26%  Similarity=0.270  Sum_probs=20.5

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ...|.|.|+.|+||||+++.+..
T Consensus         4 g~~I~l~G~~GsGKST~~~~La~   26 (186)
T 3cm0_A            4 GQAVIFLGPPGAGKGTQASRLAQ   26 (186)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            35789999999999999999875

>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=95.90  E-value=0.0041  Score=50.06  Aligned_cols=22  Identities=36%  Similarity=0.466  Sum_probs=19.5

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+|+|+|+.|+||||+++.+..
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            3689999999999999998864

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=95.89  E-value=0.0034  Score=50.54  Aligned_cols=22  Identities=27%  Similarity=0.410  Sum_probs=19.9

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ++++|+|+.|+|||||++.+..
T Consensus         5 ~~i~lvGpsGaGKSTLl~~L~~   26 (198)
T 1lvg_A            5 RPVVLSGPSGAGKSTLLKKLFQ   26 (198)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            5789999999999999998865

>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=95.88  E-value=0.0043  Score=50.78  Aligned_cols=22  Identities=36%  Similarity=0.542  Sum_probs=19.8

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+|+|+|+.|+||||+++.+..
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~   27 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAE   27 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4899999999999999988854

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=95.87  E-value=0.0073  Score=50.23  Aligned_cols=24  Identities=21%  Similarity=0.043  Sum_probs=21.4

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ....|.|.|++|+||||+++.+..
T Consensus        28 ~~~~I~l~G~~GsGKsT~a~~L~~   51 (243)
T 3tlx_A           28 PDGRYIFLGAPGSGKGTQSLNLKK   51 (243)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            467899999999999999998865

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=95.87  E-value=0.0088  Score=46.75  Aligned_cols=25  Identities=28%  Similarity=0.369  Sum_probs=21.7

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ...++.|+|..|+|||||+..+...
T Consensus         3 ~~~~i~i~G~sGsGKTTl~~~L~~~   27 (169)
T 1xjc_A            3 AMNVWQVVGYKHSGKTTLMEKWVAA   27 (169)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHh
Confidence            4678999999999999999998773

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=95.87  E-value=0.0034  Score=50.66  Aligned_cols=24  Identities=25%  Similarity=0.426  Sum_probs=21.2

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ...+|.|+|+.|+|||||++.+..
T Consensus        11 ~~~~i~l~G~sGsGKsTl~~~L~~   34 (204)
T 2qor_A           11 RIPPLVVCGPSGVGKGTLIKKVLS   34 (204)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHH
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHH
Confidence            456889999999999999999865

>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=95.87  E-value=0.0049  Score=49.49  Aligned_cols=25  Identities=24%  Similarity=0.219  Sum_probs=21.4

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ....+|.|.|++|+||||+++.+..
T Consensus        18 ~~~~~I~l~G~~GsGKST~a~~La~   42 (201)
T 2cdn_A           18 GSHMRVLLLGPPGAGKGTQAVKLAE   42 (201)
T ss_dssp             CSCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3445899999999999999998866

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=95.86  E-value=0.0089  Score=51.10  Aligned_cols=25  Identities=24%  Similarity=0.280  Sum_probs=21.9

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ....+|.|.|++|+||||+++.+..
T Consensus        31 ~~~~livl~G~sGsGKSTla~~L~~   55 (287)
T 1gvn_B           31 ESPTAFLLGGQPGSGKTSLRSAIFE   55 (287)
T ss_dssp             SSCEEEEEECCTTSCTHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4567899999999999999998865

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=95.84  E-value=0.038  Score=50.45  Aligned_cols=41  Identities=12%  Similarity=0.143  Sum_probs=30.0

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSE  236 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~  236 (314)
                      .-.++.|.|.+|+|||||+..++.+.... .-..++|++...
T Consensus       202 ~G~liiI~G~pG~GKTtl~l~ia~~~~~~-~g~~Vl~~s~E~  242 (454)
T 2r6a_A          202 RSDLIIVAARPSVGKTAFALNIAQNVATK-TNENVAIFSLEM  242 (454)
T ss_dssp             TTCEEEEECCTTSCHHHHHHHHHHHHHHH-SSCCEEEEESSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHHh-CCCcEEEEECCC
Confidence            34689999999999999999998754322 223678887643

>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase, ultrahigh resolution, protein transport; 1.10A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B* 1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B* 2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 2xkv_A 3ng1_A 1ffh_A 2ng1_A*

Probab=95.83  E-value=0.057  Score=46.23  Aligned_cols=24  Identities=33%  Similarity=0.339  Sum_probs=21.2

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..+++++|.+|+||||++..++..
T Consensus        98 ~~~i~i~g~~G~GKTT~~~~la~~  121 (295)
T 1ls1_A           98 RNLWFLVGLQGSGKTTTAAKLALY  121 (295)
T ss_dssp             SEEEEEECCTTTTHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999988764

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=95.82  E-value=0.022  Score=45.07  Aligned_cols=21  Identities=38%  Similarity=0.559  Sum_probs=19.5

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +|.|.|+.|+||||+++.+..
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~   22 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYE   22 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999999976

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=95.82  E-value=0.0059  Score=47.26  Aligned_cols=24  Identities=29%  Similarity=0.272  Sum_probs=21.2

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      -.+++|+|+.|+|||||++.++.-
T Consensus        33 Ge~v~L~G~nGaGKTTLlr~l~g~   56 (158)
T 1htw_A           33 AIMVYLNGDLGAGKTTLTRGMLQG   56 (158)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh
Confidence            469999999999999999988763

>1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET: DNA; 3.45A {Enterobacteria phage T7} SCOP: c.37.1.11 e.13.1.2

Probab=95.81  E-value=0.042  Score=50.82  Aligned_cols=51  Identities=14%  Similarity=0.104  Sum_probs=34.3

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHH
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMV  248 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  248 (314)
                      .-.++.|.|.+|+|||+|+..++.+.... +-..++|++...  +...+...++
T Consensus       241 ~G~l~li~G~pG~GKT~lal~~a~~~a~~-~g~~vl~~s~E~--s~~~l~~r~~  291 (503)
T 1q57_A          241 GGEVIMVTSGSGMVMSTFVRQQALQWGTA-MGKKVGLAMLEE--SVEETAEDLI  291 (503)
T ss_dssp             TTCEEEEEESSCHHHHHHHHHHHHHHTTT-SCCCEEEEESSS--CHHHHHHHHH
T ss_pred             CCeEEEEeecCCCCchHHHHHHHHHHHHh-cCCcEEEEeccC--CHHHHHHHHH
Confidence            34688999999999999999987643222 124678887654  3445544443

>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=95.80  E-value=0.01  Score=55.86  Aligned_cols=23  Identities=22%  Similarity=0.437  Sum_probs=20.4

Q ss_pred             EEEEEEccCCCChHHHHHHhhch
Q 048765          197 HIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      +++.|.|.+|+||||++..+...
T Consensus       205 ~~~~I~G~pGTGKTt~i~~l~~~  227 (574)
T 3e1s_A          205 RLVVLTGGPGTGKSTTTKAVADL  227 (574)
T ss_dssp             SEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHH
Confidence            57889999999999999988764

>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=95.80  E-value=0.0065  Score=48.11  Aligned_cols=23  Identities=22%  Similarity=0.290  Sum_probs=20.8

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..+|.|.|+.|+||||+++.+..
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~   28 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999998865

>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=95.79  E-value=0.0052  Score=49.70  Aligned_cols=23  Identities=17%  Similarity=0.358  Sum_probs=20.6

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|+|||||++.+..
T Consensus        20 Gei~~l~GpnGsGKSTLl~~l~g   42 (207)
T 1znw_A           20 GRVVVLSGPSAVGKSTVVRCLRE   42 (207)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            45899999999999999998865

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=95.78  E-value=0.02  Score=46.21  Aligned_cols=24  Identities=21%  Similarity=0.274  Sum_probs=21.4

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..+|.|.|+.|+||||+++.+...
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~L~~~   32 (215)
T 1nn5_A            9 GALIVLEGVDRAGKSTQSRKLVEA   32 (215)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999999773

>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=95.77  E-value=0.0036  Score=49.50  Aligned_cols=21  Identities=29%  Similarity=0.499  Sum_probs=19.2

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +|.|.|++|+||||+++.+..
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~   24 (184)
T 2iyv_A            4 KAVLVGLPGSGKSTIGRRLAK   24 (184)
T ss_dssp             SEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998865

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=95.77  E-value=0.005  Score=50.26  Aligned_cols=23  Identities=26%  Similarity=0.222  Sum_probs=20.6

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ...|.|.|++|+||||+++.+..
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~   26 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQE   26 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            45789999999999999998866

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=95.75  E-value=0.0062  Score=52.73  Aligned_cols=26  Identities=27%  Similarity=0.299  Sum_probs=22.7

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhch
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ....+++|+|+.|+|||||++.+..-
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~gl  113 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQAL  113 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHhh
Confidence            45679999999999999999988763

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=95.75  E-value=0.0034  Score=49.48  Aligned_cols=23  Identities=39%  Similarity=0.340  Sum_probs=16.5

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..+|.|.|+.|+||||+++.+..
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~   27 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHE   27 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999998865

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=95.74  E-value=0.0065  Score=50.55  Aligned_cols=24  Identities=21%  Similarity=0.300  Sum_probs=21.4

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ...+++|.|+.|+|||||++.+..
T Consensus        24 ~g~iigI~G~~GsGKSTl~k~L~~   47 (245)
T 2jeo_A           24 RPFLIGVSGGTASGKSTVCEKIME   47 (245)
T ss_dssp             CSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            356899999999999999998866

>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=95.71  E-value=0.0043  Score=48.38  Aligned_cols=22  Identities=32%  Similarity=0.397  Sum_probs=19.7

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+|.|.|+.|+||||+++.+..
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~   24 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELAR   24 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999998866

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=95.71  E-value=0.0055  Score=48.93  Aligned_cols=23  Identities=35%  Similarity=0.394  Sum_probs=20.6

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..+|.|.|+.|+||||+++.+..
T Consensus        12 ~~~I~l~G~~GsGKsT~a~~L~~   34 (199)
T 2bwj_A           12 CKIIFIIGGPGSGKGTQCEKLVE   34 (199)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            35899999999999999998876

>3fwy_A Light-independent protochlorophyllide reductase I ATP-binding protein; BCHL, electron donor, DPOR, Fe protein, nitrogenase; HET: ADP; 1.63A {Rhodobacter sphaeroides 2}

Probab=95.71  E-value=0.0064  Score=52.72  Aligned_cols=40  Identities=23%  Similarity=0.352  Sum_probs=27.9

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcC
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVS  235 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~  235 (314)
                      .+.+||+|.|-||+||||.+..+.--  ....-..+.-|++.
T Consensus        46 ~~aKVIAIaGKGGVGKTTtavNLA~a--LA~~GkkVllID~D   85 (314)
T 3fwy_A           46 TGAKVFAVYGKGGIGKSTTSSNLSAA--FSILGKRVLQIGCD   85 (314)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHH--HHHTTCCEEEEEES
T ss_pred             CCceEEEEECCCccCHHHHHHHHHHH--HHHCCCeEEEEecC
Confidence            45799999999999999999877653  22222345556654

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=95.65  E-value=0.0063  Score=47.17  Aligned_cols=21  Identities=29%  Similarity=0.414  Sum_probs=19.2

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .|.|.|+.|+||||+++.+..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSR   22 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            588999999999999998866

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=95.65  E-value=0.025  Score=50.25  Aligned_cols=25  Identities=24%  Similarity=0.316  Sum_probs=21.7

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .-.+++|+|+.|+|||||++.+...
T Consensus       135 ~g~~i~ivG~~GsGKTTll~~l~~~  159 (372)
T 2ewv_A          135 KMGLILVTGPTGSGKSTTIASMIDY  159 (372)
T ss_dssp             SSEEEEEECSSSSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhh
Confidence            3468999999999999999998763

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=95.64  E-value=0.0081  Score=48.07  Aligned_cols=25  Identities=28%  Similarity=0.450  Sum_probs=22.3

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..-.+|+|.|+.|+||||+++.+..
T Consensus        10 ~~~~iIgltG~~GSGKSTva~~L~~   34 (192)
T 2grj_A           10 HHHMVIGVTGKIGTGKSTVCEILKN   34 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHH
Confidence            5578999999999999999998865

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=95.61  E-value=0.005  Score=50.33  Aligned_cols=23  Identities=35%  Similarity=0.479  Sum_probs=20.5

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|+|||||++.+..
T Consensus        23 G~~~~lvGpsGsGKSTLl~~L~g   45 (218)
T 1z6g_A           23 IYPLVICGPSGVGKGTLIKKLLN   45 (218)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            45899999999999999998865

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=95.61  E-value=0.012  Score=48.01  Aligned_cols=25  Identities=28%  Similarity=0.412  Sum_probs=22.0

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ....|.|+|.+|+|||||+..+...
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            4678899999999999999998764

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=95.60  E-value=0.0066  Score=52.35  Aligned_cols=25  Identities=28%  Similarity=0.392  Sum_probs=21.8

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ...+++|+|+.|+|||||++.++..
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lagl  125 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGRY  125 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHH
Confidence            4569999999999999999998753

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=95.60  E-value=0.0077  Score=47.35  Aligned_cols=24  Identities=25%  Similarity=0.322  Sum_probs=21.1

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .-.+|.|.|+.|+||||+++.+..
T Consensus         4 ~g~~i~l~G~~GsGKST~~~~L~~   27 (179)
T 2pez_A            4 RGCTVWLTGLSGAGKTTVSMALEE   27 (179)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            346889999999999999999876

>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=95.59  E-value=0.007  Score=48.61  Aligned_cols=24  Identities=17%  Similarity=0.538  Sum_probs=21.2

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..+++.|+|+.|+|||||++.+..
T Consensus        18 ~g~~ivl~GPSGaGKsTL~~~L~~   41 (197)
T 3ney_A           18 GRKTLVLIGASGVGRSHIKNALLS   41 (197)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECcCCCCHHHHHHHHHh
Confidence            456899999999999999998875

>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=95.58  E-value=0.051  Score=48.96  Aligned_cols=25  Identities=28%  Similarity=0.381  Sum_probs=22.3

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ....+|.|+|++|+||||+++.+..
T Consensus       256 ~~~~lIil~G~pGSGKSTla~~L~~  280 (416)
T 3zvl_A          256 PNPEVVVAVGFPGAGKSTFIQEHLV  280 (416)
T ss_dssp             SSCCEEEEESCTTSSHHHHHHHHTG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            4567999999999999999999876

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=95.57  E-value=0.014  Score=54.31  Aligned_cols=114  Identities=13%  Similarity=-0.008  Sum_probs=57.8

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCC-------------C--CCCC
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGH-------------E--SHLG  259 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~-------------~--~~~~  259 (314)
                      .-.++.|+|..|+|||||++.++......  -..++++...+.  ...+...+ ..++..             .  +..-
T Consensus       280 ~G~i~~i~G~~GsGKSTLl~~l~g~~~~~--G~~vi~~~~ee~--~~~l~~~~-~~~g~~~~~~~~~g~~~~~~~~p~~L  354 (525)
T 1tf7_A          280 KDSIILATGATGTGKTLLVSRFVENACAN--KERAILFAYEES--RAQLLRNA-YSWGMDFEEMERQNLLKIVCAYPESA  354 (525)
T ss_dssp             SSCEEEEEECTTSSHHHHHHHHHHHHHTT--TCCEEEEESSSC--HHHHHHHH-HTTSCCHHHHHHTTSEEECCCCGGGS
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHhC--CCCEEEEEEeCC--HHHHHHHH-HHcCCCHHHHHhCCCEEEEEeccccC
Confidence            34689999999999999999997643221  123455554332  22333222 111110             0  0011


Q ss_pred             cHHHHHHH-HHHHccCceEEEEEeccccCCcc-----CHHhHHHhhcc-CCCCceEEEecc
Q 048765          260 EFQSLLRH-IYESIAGKSFLLVLDDVWDGNYV-----KWEPFYHCLKN-GLHGSKILVTTR  313 (314)
Q Consensus       260 ~~~~~~~~-l~~~L~~kr~LlVlDdv~~~~~~-----~~~~l~~~l~~-~~~gs~iivTtR  313 (314)
                      +..+.+.. +...+..+.-+||||-+...+..     ....+...+.. ...|..||+||.
T Consensus       355 S~g~~q~~~~a~~l~~~p~llilDp~~~Ld~~~~~~~~~~~i~~ll~~l~~~g~tvilvsh  415 (525)
T 1tf7_A          355 GLEDHLQIIKSEINDFKPARIAIDSLSALARGVSNNAFRQFVIGVTGYAKQEEITGLFTNT  415 (525)
T ss_dssp             CHHHHHHHHHHHHHTTCCSEEEEECHHHHTSSSCHHHHHHHHHHHHHHHHHTTCEEEEEEE
T ss_pred             CHHHHHHHHHHHHHhhCCCEEEEcChHHHHhhCChHHHHHHHHHHHHHHHhCCCEEEEEEC
Confidence            22333333 33444667789999966433322     22233332221 123666887774

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=95.57  E-value=0.03  Score=46.14  Aligned_cols=49  Identities=20%  Similarity=0.179  Sum_probs=32.1

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHH
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAM  247 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i  247 (314)
                      -.++.|.|.+|+|||+|+.+++.+. ....-..++|++...  +...+...+
T Consensus        30 G~l~~i~G~pG~GKT~l~l~~~~~~-~~~~~~~v~~~s~E~--~~~~~~~~~   78 (251)
T 2zts_A           30 GTTVLLTGGTGTGKTTFAAQFIYKG-AEEYGEPGVFVTLEE--RARDLRREM   78 (251)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHHHH-HHHHCCCEEEEESSS--CHHHHHHHH
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHH-HHhcCCCceeecccC--CHHHHHHHH
Confidence            4588899999999999998876532 222334566776554  344444443

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=95.57  E-value=0.0069  Score=50.69  Aligned_cols=22  Identities=32%  Similarity=0.489  Sum_probs=20.1

Q ss_pred             eEEEEEEccCCCChHHHHHHhh
Q 048765          196 LHIISIVGMGGIGKTTLAQLAC  217 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~  217 (314)
                      ..+|+|+|+.|+||||+++.+.
T Consensus        27 g~~I~I~G~~GsGKSTl~k~La   48 (252)
T 4e22_A           27 APVITVDGPSGAGKGTLCKALA   48 (252)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHH
Confidence            4589999999999999999887

>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=95.56  E-value=0.0043  Score=49.43  Aligned_cols=21  Identities=38%  Similarity=0.441  Sum_probs=18.7

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .|.|+|+.|+|||||++.+..
T Consensus         3 pIVi~GPSG~GK~Tl~~~L~~   23 (186)
T 1ex7_A            3 PIVISGPSGTGKSTLLKKLFA   23 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999998865

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=95.56  E-value=0.038  Score=58.84  Aligned_cols=86  Identities=17%  Similarity=0.099  Sum_probs=58.0

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCC-----CCCcHHHHHHHHH
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHES-----HLGEFQSLLRHIY  269 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~-----~~~~~~~~~~~l~  269 (314)
                      .-.++.|+|++|+|||||+..++...  ...-..++|++....++...     ++.++....     ...+..++.+.+.
T Consensus       382 ~G~lilI~G~pGsGKTtLaLqia~~~--a~~G~~vlyis~E~s~~~~~-----a~~lGvd~~~L~I~~~~~~e~il~~~~  454 (2050)
T 3cmu_A          382 MGRIVEIYGPESSGKTTLTLQVIAAA--QREGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEICD  454 (2050)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHH--HTTTCCEEEECTTSCCCHHH-----HHHTTCCTTTCEEECCSSHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHH--HhcCCeEEEEEcCCCHHHHH-----HHHcCCCHHHeEEeCCCCHHHHHHHHH
Confidence            45699999999999999999998743  33334789999877766532     455544321     2345566666665


Q ss_pred             HHc-cCceEEEEEeccccC
Q 048765          270 ESI-AGKSFLLVLDDVWDG  287 (314)
Q Consensus       270 ~~L-~~kr~LlVlDdv~~~  287 (314)
                      ... +.+.-+||+|.+...
T Consensus       455 ~lv~~~~~~lIVIDSL~al  473 (2050)
T 3cmu_A          455 ALARSGAVDVIVVDSVAAL  473 (2050)
T ss_dssp             HHHHHTCCSEEEESCGGGC
T ss_pred             HHHHhcCCcEEEECCHHHh
Confidence            444 355679999999643

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=95.53  E-value=0.0064  Score=49.91  Aligned_cols=23  Identities=30%  Similarity=0.348  Sum_probs=20.5

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ...|.|.|+.|+||||+++.+..
T Consensus         7 ~~~I~l~G~~GsGKsT~a~~La~   29 (227)
T 1zd8_A            7 LLRAVIMGAPGSGKGTVSSRITT   29 (227)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            46799999999999999998865

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=95.51  E-value=0.0086  Score=48.65  Aligned_cols=40  Identities=23%  Similarity=0.194  Sum_probs=28.6

Q ss_pred             chhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          174 RVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       174 r~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..+..+.+.+.+..      .+..++.|+|.+|+|||||+..+...
T Consensus        14 ~~~~~~~~~~~~~~------~~~~~i~i~G~~g~GKTTl~~~l~~~   53 (221)
T 2wsm_A           14 NKRLAEKNREALRE------SGTVAVNIMGAIGSGKTLLIERTIER   53 (221)
T ss_dssp             HHHHHHHHHHHHHH------HTCEEEEEEECTTSCHHHHHHHHHHH
T ss_pred             cHHHHHHHHHhhcc------cCceEEEEEcCCCCCHHHHHHHHHHH
Confidence            34444455544432      34689999999999999999988764

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=95.50  E-value=0.0066  Score=50.71  Aligned_cols=21  Identities=38%  Similarity=0.629  Sum_probs=19.5

Q ss_pred             EEEEccCCCChHHHHHHhhch
Q 048765          199 ISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~~  219 (314)
                      +.|+|++|+|||||++.++..
T Consensus        52 ~ll~G~~G~GKTtl~~~i~~~   72 (254)
T 1ixz_A           52 VLLVGPPGVGKTHLARAVAGE   72 (254)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            889999999999999999873

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=95.50  E-value=0.0069  Score=48.91  Aligned_cols=24  Identities=25%  Similarity=0.311  Sum_probs=21.5

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..+|.|.|+.|+||||+++.+...
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~~   33 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVEY   33 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHH
Confidence            468999999999999999999773

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=95.50  E-value=0.04  Score=44.17  Aligned_cols=84  Identities=18%  Similarity=0.191  Sum_probs=44.2

Q ss_pred             EEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCC-----CCCcHHHHHHHHHHHc
Q 048765          198 IISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHES-----HLGEFQSLLRHIYESI  272 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~-----~~~~~~~~~~~l~~~L  272 (314)
                      .|+|=|..|+||||.++.+++.  .......+++..-+.........+.++..-...+.     ...+..+....+...|
T Consensus         2 fI~~EG~DGsGKsTq~~~L~~~--L~~~g~~v~~treP~~t~~~~~ir~~l~~~~~~~~~~~ll~~a~r~~~~~~I~~~L   79 (197)
T 3hjn_A            2 FITFEGIDGSGKSTQIQLLAQY--LEKRGKKVILKREPGGTETGEKIRKILLEEEVTPKAELFLFLASRNLLVTEIKQYL   79 (197)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH--HHHTTCCEEEEESSCSSHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH--HHHCCCcEEEEECCCCCcHHHHHHHHhhcccCChHHHHHHHHHHHHHHHHHHHHHH
Confidence            3678899999999999999874  33333334444434333344444444433211100     0011233445565666


Q ss_pred             cCceEEEEEecc
Q 048765          273 AGKSFLLVLDDV  284 (314)
Q Consensus       273 ~~kr~LlVlDdv  284 (314)
                      .... .||.|--
T Consensus        80 ~~g~-~Vi~DRy   90 (197)
T 3hjn_A           80 SEGY-AVLLDRY   90 (197)
T ss_dssp             TTTC-EEEEESC
T ss_pred             HCCC-eEEeccc
Confidence            5443 4667764

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=95.50  E-value=0.0088  Score=50.94  Aligned_cols=24  Identities=33%  Similarity=0.631  Sum_probs=21.4

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhh
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLAC  217 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~  217 (314)
                      ....+|+|.|+.|+||||+++.+.
T Consensus        73 ~~~~iI~I~G~~GSGKSTva~~La   96 (281)
T 2f6r_A           73 SGLYVLGLTGISGSGKSSVAQRLK   96 (281)
T ss_dssp             TTCEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHH
Confidence            446799999999999999999886

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=95.49  E-value=0.0076  Score=49.33  Aligned_cols=25  Identities=20%  Similarity=0.218  Sum_probs=21.4

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +.-.+++|+|+.|+|||||.+.+..
T Consensus        14 ~~G~ii~l~GpsGsGKSTLlk~L~g   38 (219)
T 1s96_A           14 AQGTLYIVSAPSGAGKSSLIQALLK   38 (219)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhc
Confidence            3456999999999999999999876

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=95.48  E-value=0.0077  Score=50.04  Aligned_cols=24  Identities=21%  Similarity=0.375  Sum_probs=21.1

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .. .+++|+|+.|+|||||.+.+..
T Consensus        23 ~~-e~~~liG~nGsGKSTLl~~l~G   46 (240)
T 2onk_A           23 GR-DYCVLLGPTGAGKSVFLELIAG   46 (240)
T ss_dssp             CS-SEEEEECCTTSSHHHHHHHHHT
T ss_pred             CC-EEEEEECCCCCCHHHHHHHHhC
Confidence            45 7899999999999999998854

>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=95.47  E-value=0.069  Score=46.58  Aligned_cols=95  Identities=8%  Similarity=-0.056  Sum_probs=59.4

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHH-HccC
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYE-SIAG  274 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~-~L~~  274 (314)
                      .++..++|+.|.||++.+..+..... ...|+....+.+....+.                     +++.+.+.. -+.+
T Consensus        18 ~~~yl~~G~e~~~~~~~~~~l~~~~~-~~~~~~~~~~~~~~~~~~---------------------~~l~~~~~~~plf~   75 (343)
T 1jr3_D           18 RAAYLLLGNDPLLLQESQDAVRQVAA-AQGFEEHHTFSIDPNTDW---------------------NAIFSLCQAMSLFA   75 (343)
T ss_dssp             CSEEEEEESCHHHHHHHHHHHHHHHH-HHTCCEEEEEECCTTCCH---------------------HHHHHHHHHHHHCC
T ss_pred             CcEEEEECCcHHHHHHHHHHHHHHHH-hCCCCeeEEEEecCCCCH---------------------HHHHHHhcCcCCcc
Confidence            56888999999999999988876322 223432222222222233                     333333221 1356


Q ss_pred             ceEEEEEecccc-CCccCHHhHHHhhccCCCCceEEEec
Q 048765          275 KSFLLVLDDVWD-GNYVKWEPFYHCLKNGLHGSKILVTT  312 (314)
Q Consensus       275 kr~LlVlDdv~~-~~~~~~~~l~~~l~~~~~gs~iivTt  312 (314)
                      ++-++|+|++.. .....++.|..++...++++.+|++|
T Consensus        76 ~~kvvii~~~~~kl~~~~~~aLl~~le~p~~~~~~il~~  114 (343)
T 1jr3_D           76 SRQTLLLLLPENGPNAAINEQLLTLTGLLHDDLLLIVRG  114 (343)
T ss_dssp             SCEEEEEECCSSCCCTTHHHHHHHHHTTCBTTEEEEEEE
T ss_pred             CCeEEEEECCCCCCChHHHHHHHHHHhcCCCCeEEEEEc
Confidence            677889999876 54456788888887666677777665

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=95.47  E-value=0.012  Score=46.49  Aligned_cols=26  Identities=31%  Similarity=0.252  Sum_probs=21.7

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhch
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .....|.|+|.+|+|||||...+...
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            34567889999999999999988653

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=95.47  E-value=0.0093  Score=48.31  Aligned_cols=25  Identities=28%  Similarity=0.244  Sum_probs=21.8

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ...+|.|.|+.|+||||+++.+...
T Consensus        24 ~~~~i~~~G~~GsGKsT~~~~l~~~   48 (211)
T 1m7g_A           24 RGLTIWLTGLSASGKSTLAVELEHQ   48 (211)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHH
Confidence            3578999999999999999998763

>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=95.46  E-value=0.036  Score=58.14  Aligned_cols=86  Identities=17%  Similarity=0.106  Sum_probs=57.2

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCC-----CCCcHHHHHHHHH
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHES-----HLGEFQSLLRHIY  269 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~-----~~~~~~~~~~~l~  269 (314)
                      .-.++.|.|.+|+||||||.+++...  ...-..++|++....++..     .++.++....     ...+..++.+.+.
T Consensus       382 ~G~lilI~G~pGsGKTtLaLq~a~~~--~~~G~~vlyis~E~s~~~~-----~a~~lGvd~~~L~i~~~~~~e~~l~~l~  454 (1706)
T 3cmw_A          382 MGRIVEIYGPESSGKTTLTLQVIAAA--QREGKTCAFIDAEHALDPI-----YARKLGVDIDNLLCSQPDTGEQALEICD  454 (1706)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHH--HHTTCCEEEECTTSCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHH--HHhCCCeEEEEccCchHHH-----HHHHcCCCHHHeEEcCCCCHHHHHHHHH
Confidence            45689999999999999999987743  2334578999988776653     2455543311     2234555555555


Q ss_pred             HHc-cCceEEEEEeccccC
Q 048765          270 ESI-AGKSFLLVLDDVWDG  287 (314)
Q Consensus       270 ~~L-~~kr~LlVlDdv~~~  287 (314)
                      ... ..+.-+||+|.+...
T Consensus       455 ~lv~~~~~~lVVIDSL~al  473 (1706)
T 3cmw_A          455 ALARSGAVDVIVVDSVAAL  473 (1706)
T ss_dssp             HHHHHTCCSEEEESCSTTC
T ss_pred             HHHHhcCCCEEEECCHHHh
Confidence            444 345669999999543

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=95.45  E-value=0.0094  Score=51.35  Aligned_cols=25  Identities=36%  Similarity=0.389  Sum_probs=22.0

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ...+++|+|+.|+||||+++.++..
T Consensus        99 ~g~vi~lvG~nGsGKTTll~~Lag~  123 (302)
T 3b9q_A           99 KPAVIMIVGVNGGGKTTSLGKLAHR  123 (302)
T ss_dssp             SCEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHH
Confidence            4579999999999999999988764

>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=95.44  E-value=0.071  Score=43.82  Aligned_cols=89  Identities=18%  Similarity=0.199  Sum_probs=46.7

Q ss_pred             EEEEEEccCCCChHHHHHHhhchHhh-hhcC-ceeEEEEcCccccHHHHHHHHHHHhcCCCC---------------CC-
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHEEV-IRKF-DKILWVCVSETFEEFRVAKAMVEALDGHES---------------HL-  258 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~~~-~~~F-~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~---------------~~-  258 (314)
                      ..+.|+|..|+||||+.....-+... ...+ .+.+.+..........+...+...++....               .. 
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            47899999999999877655433221 2222 233333334333344455555544432210               00 


Q ss_pred             ----CcHHHHHHHHHHHccCceEEEEEecccc
Q 048765          259 ----GEFQSLLRHIYESIAGKSFLLVLDDVWD  286 (314)
Q Consensus       259 ----~~~~~~~~~l~~~L~~kr~LlVlDdv~~  286 (314)
                          ..-..+...+...+.+ --+||||++..
T Consensus       157 ~Ivv~Tpg~l~~~l~~~l~~-~~~lVlDEah~  187 (235)
T 3llm_A          157 SIMFCTVGVLLRKLEAGIRG-ISHVIVDEIHE  187 (235)
T ss_dssp             EEEEEEHHHHHHHHHHCCTT-CCEEEECCTTS
T ss_pred             eEEEECHHHHHHHHHhhhcC-CcEEEEECCcc
Confidence                1224445555544433 34789999965

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=95.44  E-value=0.0083  Score=49.69  Aligned_cols=23  Identities=30%  Similarity=0.459  Sum_probs=20.2

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|+|||||.+.+..
T Consensus        31 Ge~~~iiG~nGsGKSTLl~~l~G   53 (235)
T 3tif_A           31 GEFVSIMGPSGSGKSTMLNIIGC   53 (235)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhc
Confidence            45899999999999999998854

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=95.43  E-value=0.018  Score=50.78  Aligned_cols=26  Identities=35%  Similarity=0.409  Sum_probs=22.6

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhch
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ....+++|+|+.|+|||||++.++..
T Consensus       155 ~~g~vi~lvG~nGsGKTTll~~Lag~  180 (359)
T 2og2_A          155 RKPAVIMIVGVNGGGKTTSLGKLAHR  180 (359)
T ss_dssp             SSSEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCeEEEEEcCCCChHHHHHHHHHhh
Confidence            35679999999999999999988764

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=95.41  E-value=0.017  Score=50.87  Aligned_cols=37  Identities=32%  Similarity=0.477  Sum_probs=27.3

Q ss_pred             HHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          178 KNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       178 ~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ...+.+.+....    .+..+|+|+|.+|+|||||+..+..
T Consensus        65 ~~~~~~~~~~~~----~~~~~I~i~G~~G~GKSTl~~~L~~  101 (355)
T 3p32_A           65 AQQLLLRLLPDS----GNAHRVGITGVPGVGKSTAIEALGM  101 (355)
T ss_dssp             HHHHHHHHGGGC----CCSEEEEEECCTTSSHHHHHHHHHH
T ss_pred             HHHHHHHhHhhc----CCceEEEEECCCCCCHHHHHHHHHH
Confidence            444555554322    4578999999999999999988865

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=95.39  E-value=0.0083  Score=48.07  Aligned_cols=23  Identities=26%  Similarity=0.222  Sum_probs=20.5

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ...|.|.|+.|+||||+++.+..
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~   26 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIME   26 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHH
Confidence            35799999999999999998866

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=95.38  E-value=0.0086  Score=49.20  Aligned_cols=22  Identities=36%  Similarity=0.552  Sum_probs=19.7

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+++|+|+.|+|||||.+.++.
T Consensus        31 e~~~iiG~nGsGKSTLl~~l~G   52 (224)
T 2pcj_A           31 EFVSIIGASGSGKSTLLYILGL   52 (224)
T ss_dssp             CEEEEEECTTSCHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            5899999999999999998854

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=95.37  E-value=0.0074  Score=48.19  Aligned_cols=23  Identities=35%  Similarity=0.420  Sum_probs=20.4

Q ss_pred             EEEEEccCCCChHHHHHHhhchH
Q 048765          198 IISIVGMGGIGKTTLAQLACNHE  220 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~~  220 (314)
                      +++|+|+.|+|||||++.++...
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g~~   25 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHHHhhc
Confidence            68999999999999999987644

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=95.36  E-value=0.0069  Score=49.48  Aligned_cols=23  Identities=26%  Similarity=0.206  Sum_probs=20.5

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ...|.|.|+.|+||||+++.+..
T Consensus         5 ~~~I~l~G~~GsGKsT~~~~La~   27 (222)
T 1zak_A            5 PLKVMISGAPASGKGTQCELIKT   27 (222)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45789999999999999999876

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=95.35  E-value=0.0089  Score=48.49  Aligned_cols=21  Identities=33%  Similarity=0.466  Sum_probs=18.8

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .|.|.|+.|+||||+++.+..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIE   22 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999998865

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=95.35  E-value=0.004  Score=50.39  Aligned_cols=22  Identities=36%  Similarity=0.582  Sum_probs=19.8

Q ss_pred             EEEEEccCCCChHHHHHHhhch
Q 048765          198 IISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      +|+|.|+.|+||||+++.+...
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~   23 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGA   23 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            6899999999999999998763

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=95.34  E-value=0.013  Score=48.89  Aligned_cols=27  Identities=33%  Similarity=0.321  Sum_probs=22.7

Q ss_pred             CCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          193 QKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       193 ~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .....++.+.|.||+||||++..+...
T Consensus        11 ~~~~~i~~~~GkgGvGKTTl~~~La~~   37 (262)
T 1yrb_A           11 GMASMIVVFVGTAGSGKTTLTGEFGRY   37 (262)
T ss_dssp             TCCCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CcceEEEEEeCCCCCCHHHHHHHHHHH
Confidence            355778889999999999999998753

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=95.34  E-value=0.011  Score=48.11  Aligned_cols=23  Identities=30%  Similarity=0.405  Sum_probs=20.3

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..+|+|.|+.|+||||+++.+..
T Consensus         4 ~~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            4 RYIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999998853

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=95.33  E-value=0.0081  Score=48.76  Aligned_cols=23  Identities=35%  Similarity=0.356  Sum_probs=20.6

Q ss_pred             EEEEEEccCCCChHHHHHHhhch
Q 048765          197 HIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .+++|+|+.|+|||||.+.+..-
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            48899999999999999998764

>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=95.32  E-value=0.049  Score=53.08  Aligned_cols=50  Identities=28%  Similarity=0.242  Sum_probs=33.2

Q ss_pred             cccccchhhHHHHHHHhhccCcC-------CCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELLSKLLCESSE-------QQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~-------~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..+.|.++..+.|.+.+.-.-..       .-...+-+.++|++|.|||.||+.+++
T Consensus       477 ~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~  533 (806)
T 3cf2_A          477 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIAN  533 (806)
T ss_dssp             TTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHH
Confidence            45667776666666554321100       113345578999999999999999987

>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=95.27  E-value=0.069  Score=48.77  Aligned_cols=88  Identities=18%  Similarity=0.096  Sum_probs=55.0

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCcccc-HHHHHHHHHHHhcCC-------C--------CCCC
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFE-EFRVAKAMVEALDGH-------E--------SHLG  259 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~-~~~~~~~i~~~~~~~-------~--------~~~~  259 (314)
                      -.-++|+|..|+|||+|+..+.++. .+.|-+.++++-+.+..+ ..++...+...-...       .        +...
T Consensus       165 Gqr~gIfgg~GvGKT~L~~~l~~~~-a~~~~~v~V~~~iGER~rEv~e~~~~~~~~~~l~~~~l~~~rtvvV~~t~d~p~  243 (498)
T 1fx0_B          165 GGKIGLFGGAGVGKTVLIMELINNI-AKAHGGVSVFGGVGERTREGNDLYMEMKESGVINEQNIAESKVALVYGQMNEPP  243 (498)
T ss_dssp             TCCEEEEECSSSSHHHHHHHHHHHT-TTTCSSCEEEEEESCCSHHHHHHHHHHHHTTSSCSSTTCCCCEEEEEECTTSCH
T ss_pred             CCeEEeecCCCCCchHHHHHHHHHH-HhhCCCEEEEEEcccCcHHHHHHHHhhhcccccccccccccceEEEEeCCCCCH
Confidence            4568899999999999999887742 123557888888877554 455666665531111       0        0000


Q ss_pred             c----HHHHHHHHHHHc---cCceEEEEEecc
Q 048765          260 E----FQSLLRHIYESI---AGKSFLLVLDDV  284 (314)
Q Consensus       260 ~----~~~~~~~l~~~L---~~kr~LlVlDdv  284 (314)
                      .    .....-.+.+++   +++..||++||+
T Consensus       244 ~~R~~~~~~altiAEyfrd~~G~dVLl~~Dsi  275 (498)
T 1fx0_B          244 GARMRVGLTALTMAEYFRDVNEQDVLLFIDNI  275 (498)
T ss_dssp             HHHTTHHHHHHHTHHHHTTTSCCEEEEEEECS
T ss_pred             HHHHHHHHHHHHHHHHHHHhcCCcEEEEeccH
Confidence            0    111223344555   468999999998

>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=95.27  E-value=0.031  Score=45.98  Aligned_cols=26  Identities=27%  Similarity=0.254  Sum_probs=22.5

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchH
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHE  220 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~  220 (314)
                      ....|.|.|+.|+||||+++.+....
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~~l   50 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYHRL   50 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHH
Confidence            45789999999999999999998743

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=95.26  E-value=0.0099  Score=48.24  Aligned_cols=21  Identities=24%  Similarity=0.425  Sum_probs=18.6

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .|.|.|++|+||||+++.+..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVE   22 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999998865

>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=95.24  E-value=0.012  Score=50.76  Aligned_cols=25  Identities=36%  Similarity=0.372  Sum_probs=21.9

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ....+++|+|+.|+|||||++.+..
T Consensus        78 ~~g~iigI~G~~GsGKSTl~~~L~~  102 (308)
T 1sq5_A           78 RIPYIISIAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3457999999999999999998876

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=95.22  E-value=0.01  Score=49.95  Aligned_cols=23  Identities=35%  Similarity=0.460  Sum_probs=20.3

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|+|||||.+.+..
T Consensus        32 Ge~~~liG~nGsGKSTLlk~l~G   54 (262)
T 1b0u_A           32 GDVISIIGSSGSGKSTFLRCINF   54 (262)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            45899999999999999998854

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=95.22  E-value=0.0066  Score=49.96  Aligned_cols=22  Identities=32%  Similarity=0.305  Sum_probs=16.1

Q ss_pred             eEEEEEEccCCCChHHHHHHhh
Q 048765          196 LHIISIVGMGGIGKTTLAQLAC  217 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~  217 (314)
                      -.+++|+|+.|+|||||++.+.
T Consensus        27 G~ii~l~Gp~GsGKSTl~~~L~   48 (231)
T 3lnc_A           27 GVILVLSSPSGCGKTTVANKLL   48 (231)
T ss_dssp             CCEEEEECSCC----CHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHH
Confidence            3589999999999999999987

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=95.21  E-value=0.011  Score=50.29  Aligned_cols=22  Identities=36%  Similarity=0.523  Sum_probs=19.7

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+++|+|+.|+|||||.+.+..
T Consensus        35 e~~~iiGpnGsGKSTLl~~l~G   56 (275)
T 3gfo_A           35 EVTAILGGNGVGKSTLFQNFNG   56 (275)
T ss_dssp             SEEEEECCTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHc
Confidence            5899999999999999998753

>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=95.21  E-value=0.015  Score=47.80  Aligned_cols=25  Identities=28%  Similarity=0.159  Sum_probs=22.1

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..-.+|+|.|+.|+|||||++.+..
T Consensus        18 ~~g~~i~i~G~~GsGKSTl~~~L~~   42 (230)
T 2vp4_A           18 TQPFTVLIEGNIGSGKTTYLNHFEK   42 (230)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGG
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHh
Confidence            4457999999999999999998876

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=95.21  E-value=0.011  Score=49.05  Aligned_cols=23  Identities=26%  Similarity=0.403  Sum_probs=20.6

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|+|||||.+.+..
T Consensus        31 Ge~~~i~G~nGsGKSTLl~~l~G   53 (237)
T 2cbz_A           31 GALVAVVGQVGCGKSSLLSALLA   53 (237)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            35899999999999999999865

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=95.20  E-value=0.022  Score=47.89  Aligned_cols=24  Identities=25%  Similarity=0.360  Sum_probs=21.4

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .-.+++|+|+.|+|||||.+.+..
T Consensus        24 ~g~~v~i~Gp~GsGKSTll~~l~g   47 (261)
T 2eyu_A           24 KMGLILVTGPTGSGKSTTIASMID   47 (261)
T ss_dssp             SSEEEEEECSTTCSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCccHHHHHHHHHH
Confidence            356999999999999999999876

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=95.18  E-value=0.0096  Score=50.50  Aligned_cols=21  Identities=38%  Similarity=0.629  Sum_probs=19.4

Q ss_pred             EEEEccCCCChHHHHHHhhch
Q 048765          199 ISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~~  219 (314)
                      +.|+|+.|+|||||++.++..
T Consensus        76 vll~Gp~GtGKTtl~~~i~~~   96 (278)
T 1iy2_A           76 VLLVGPPGVGKTHLARAVAGE   96 (278)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCcChHHHHHHHHHHH
Confidence            889999999999999999873

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=95.17  E-value=0.011  Score=49.63  Aligned_cols=23  Identities=30%  Similarity=0.457  Sum_probs=20.1

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|+|||||.+.++.
T Consensus        33 Ge~~~liG~nGsGKSTLlk~l~G   55 (257)
T 1g6h_A           33 GDVTLIIGPNGSGKSTLINVITG   55 (257)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            35899999999999999998754

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=95.15  E-value=0.011  Score=48.99  Aligned_cols=22  Identities=32%  Similarity=0.594  Sum_probs=19.8

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+++|+|+.|+|||||.+.++.
T Consensus        33 e~~~l~G~nGsGKSTLl~~l~G   54 (240)
T 1ji0_A           33 QIVTLIGANGAGKTTTLSAIAG   54 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            5899999999999999998854

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=95.13  E-value=0.013  Score=48.80  Aligned_cols=23  Identities=35%  Similarity=0.411  Sum_probs=20.5

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|+|||||.+.++.
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~l~G   50 (243)
T 1mv5_A           28 NSIIAFAGPSGGGKSTIFSLLER   50 (243)
T ss_dssp             TEEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            46899999999999999998854

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=95.13  E-value=0.016  Score=46.73  Aligned_cols=38  Identities=16%  Similarity=0.061  Sum_probs=27.6

Q ss_pred             hHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          177 EKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       177 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      -+..+..++.. -    ++...+.|+|++|+||||+|..+++.
T Consensus        44 f~~~l~~~~~~-i----Pkkn~ili~GPPGtGKTt~a~ala~~   81 (212)
T 1tue_A           44 FLGALKSFLKG-T----PKKNCLVFCGPANTGKSYFGMSFIHF   81 (212)
T ss_dssp             HHHHHHHHHHT-C----TTCSEEEEESCGGGCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhc-C----CcccEEEEECCCCCCHHHHHHHHHHH
Confidence            35556666643 1    33457899999999999999888773

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=95.11  E-value=0.012  Score=49.76  Aligned_cols=23  Identities=35%  Similarity=0.595  Sum_probs=20.3

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|+|||||++.+..
T Consensus        37 Ge~~~liG~nGsGKSTLl~~l~G   59 (266)
T 4g1u_C           37 GEMVAIIGPNGAGKSTLLRLLTG   59 (266)
T ss_dssp             TCEEEEECCTTSCHHHHHHHHTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhc
Confidence            35899999999999999998854

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=95.11  E-value=0.012  Score=49.62  Aligned_cols=23  Identities=22%  Similarity=0.369  Sum_probs=20.3

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|+|||||.+.++.
T Consensus        50 Gei~~liG~NGsGKSTLlk~l~G   72 (263)
T 2olj_A           50 GEVVVVIGPSGSGKSTFLRCLNL   72 (263)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEEcCCCCcHHHHHHHHHc
Confidence            45899999999999999998854

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=95.09  E-value=0.012  Score=48.42  Aligned_cols=22  Identities=27%  Similarity=0.578  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+++|+|+.|+|||||.+.++.
T Consensus        35 e~~~i~G~nGsGKSTLl~~l~G   56 (229)
T 2pze_A           35 QLLAVAGSTGAGKTSLLMMIMG   56 (229)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            5899999999999999999875

>2j9r_A Thymidine kinase; TK1, DNK, lasso, transferase, ATP-binding, deoxyribonucleoside kinase, DNA synthesis, phosphate accept nucleotide-binding; HET: THM; 2.7A {Bacillus anthracis} PDB: 2ja1_A*

Probab=95.08  E-value=0.055  Score=43.82  Aligned_cols=108  Identities=15%  Similarity=0.048  Sum_probs=49.9

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCC--CCCcHHHHHHHHHHHc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHES--HLGEFQSLLRHIYESI  272 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~--~~~~~~~~~~~l~~~L  272 (314)
                      .-.+..++|..|.||||.+.......... ...+ +.+.-..+  ...-...+.+.++....  ...+..    .+.+.+
T Consensus        27 ~G~l~vitG~MgsGKTT~lL~~a~r~~~~-g~kV-li~k~~~d--~R~ge~~i~s~~g~~~~a~~~~~~~----~~~~~~   98 (214)
T 2j9r_A           27 NGWIEVICGSMFSGKSEELIRRVRRTQFA-KQHA-IVFKPCID--NRYSEEDVVSHNGLKVKAVPVSASK----DIFKHI   98 (214)
T ss_dssp             SCEEEEEECSTTSCHHHHHHHHHHHHHHT-TCCE-EEEECC-------------------CCEEECSSGG----GGGGGC
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHHHC-CCEE-EEEEeccC--CcchHHHHHhhcCCeeEEeecCCHH----HHHHHH
Confidence            34688899999999999997776643322 2333 33332211  11111233333322211  111111    222333


Q ss_pred             cCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEecc
Q 048765          273 AGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTR  313 (314)
Q Consensus       273 ~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR  313 (314)
                      .++--+|+||.+.-.+.+..+.+ ..+.+  .|-.||+|-+
T Consensus        99 ~~~~dvViIDEaQF~~~~~V~~l-~~l~~--~~~~Vi~~Gl  136 (214)
T 2j9r_A           99 TEEMDVIAIDEVQFFDGDIVEVV-QVLAN--RGYRVIVAGL  136 (214)
T ss_dssp             CSSCCEEEECCGGGSCTTHHHHH-HHHHH--TTCEEEEEEC
T ss_pred             hcCCCEEEEECcccCCHHHHHHH-HHHhh--CCCEEEEEec
Confidence            33334999999966543333333 33322  2667888865

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=95.08  E-value=0.01  Score=48.38  Aligned_cols=22  Identities=36%  Similarity=0.608  Sum_probs=19.8

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+++|+|+.|+|||||.+.++.
T Consensus        36 e~~~iiG~NGsGKSTLlk~l~G   57 (214)
T 1sgw_A           36 NVVNFHGPNGIGKTTLLKTIST   57 (214)
T ss_dssp             CCEEEECCTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            4789999999999999999865

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=95.07  E-value=0.009  Score=49.96  Aligned_cols=22  Identities=36%  Similarity=0.596  Sum_probs=20.0

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+|.|+|+.|+||||+++.+..
T Consensus        49 ~~i~l~G~~GsGKSTl~~~La~   70 (250)
T 3nwj_A           49 RSMYLVGMMGSGKTTVGKIMAR   70 (250)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999998865

>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=95.07  E-value=0.061  Score=49.26  Aligned_cols=85  Identities=20%  Similarity=0.184  Sum_probs=49.1

Q ss_pred             EEEEEEccCCCChHHHH-HHhhchHhhhhcCc-eeEEEEcCcccc-HHHHHHHHHHHhcC--------CCCCCCcHHH--
Q 048765          197 HIISIVGMGGIGKTTLA-QLACNHEEVIRKFD-KILWVCVSETFE-EFRVAKAMVEALDG--------HESHLGEFQS--  263 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa-~~v~~~~~~~~~F~-~~~wv~~~~~~~-~~~~~~~i~~~~~~--------~~~~~~~~~~--  263 (314)
                      .-++|+|..|+|||+|+ ..+.+..    .-+ .++++-+.+..+ +.++.+.+...-..        ..+.....+-  
T Consensus       176 QR~~I~g~~g~GKT~Lal~~I~~~~----~~dv~~V~~~IGeR~~Ev~e~~~~~~~~g~m~rtvvV~atad~p~~~r~~a  251 (515)
T 2r9v_A          176 QRELIIGDRQTGKTAIAIDTIINQK----GQGVYCIYVAIGQKKSAIARIIDKLRQYGAMEYTTVVVASASDPASLQYIA  251 (515)
T ss_dssp             CBEEEEEETTSSHHHHHHHHHHTTT----TTTEEEEEEEESCCHHHHHHHHHHHHHTTGGGGEEEEEECTTSCHHHHHHH
T ss_pred             CEEEEEcCCCCCccHHHHHHHHHhh----cCCcEEEEEEcCCCcHHHHHHHHHHHhCCCcceeEEEEECCCCCHHHHHHH
Confidence            46789999999999995 5676632    245 346777776543 44555555442111        0111111111  


Q ss_pred             --HHHHHHHHc--cCceEEEEEeccc
Q 048765          264 --LLRHIYESI--AGKSFLLVLDDVW  285 (314)
Q Consensus       264 --~~~~l~~~L--~~kr~LlVlDdv~  285 (314)
                        ..-.+.+++  +++..||++||+-
T Consensus       252 ~~~a~tiAEyfrd~G~dVLli~DslT  277 (515)
T 2r9v_A          252 PYAGCAMGEYFAYSGRDALVVYDDLS  277 (515)
T ss_dssp             HHHHHHHHHHHHTTTCEEEEEEETHH
T ss_pred             HHHHHHHHHHHHHcCCcEEEEeccHH
Confidence              112334444  6899999999993

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=95.06  E-value=0.017  Score=44.58  Aligned_cols=22  Identities=23%  Similarity=0.379  Sum_probs=19.9

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..++|+|.+|+|||||.+.+..
T Consensus         4 ~~v~lvG~~gvGKStL~~~l~~   25 (165)
T 2wji_A            4 YEIALIGNPNVGKSTIFNALTG   25 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHC
T ss_pred             cEEEEECCCCCCHHHHHHHHhC
Confidence            5689999999999999999875

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=95.06  E-value=0.013  Score=49.26  Aligned_cols=23  Identities=30%  Similarity=0.495  Sum_probs=20.4

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|+|||||.+.++.
T Consensus        41 Gei~~l~G~NGsGKSTLlk~l~G   63 (256)
T 1vpl_A           41 GEIFGLIGPNGAGKTTTLRIIST   63 (256)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CcEEEEECCCCCCHHHHHHHHhc
Confidence            35899999999999999998854

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=95.04  E-value=0.015  Score=50.57  Aligned_cols=24  Identities=21%  Similarity=0.360  Sum_probs=21.3

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +.++|.|+|+.|+|||||+..++.
T Consensus        39 ~~~lIvI~GPTgsGKTtLa~~LA~   62 (339)
T 3a8t_A           39 KEKLLVLMGATGTGKSRLSIDLAA   62 (339)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCceEEEECCCCCCHHHHHHHHHH
Confidence            346899999999999999998876

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=95.04  E-value=0.013  Score=48.99  Aligned_cols=22  Identities=27%  Similarity=0.599  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+++|+|+.|+|||||.+.++.
T Consensus        30 e~~~l~G~nGsGKSTLlk~l~G   51 (250)
T 2d2e_A           30 EVHALMGPNGAGKSTLGKILAG   51 (250)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            5899999999999999998876

>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=95.04  E-value=0.014  Score=47.23  Aligned_cols=21  Identities=33%  Similarity=0.452  Sum_probs=19.0

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +|.|.|++|+||+|.|+.+..
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~   22 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAK   22 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            578999999999999998876

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=95.04  E-value=0.012  Score=46.65  Aligned_cols=24  Identities=25%  Similarity=0.484  Sum_probs=20.8

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .-.++|+|..|+|||||.+.+...
T Consensus        29 ~~kv~lvG~~g~GKSTLl~~l~~~   52 (191)
T 1oix_A           29 LFKVVLIGDSGVGKSNLLSRFTRN   52 (191)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcC
Confidence            457899999999999999988653

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=95.03  E-value=0.013  Score=48.89  Aligned_cols=22  Identities=45%  Similarity=0.703  Sum_probs=19.8

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+++|+|+.|+|||||.+.++.
T Consensus        36 e~~~i~G~nGsGKSTLl~~l~G   57 (247)
T 2ff7_A           36 EVIGIVGRSGSGKSTLTKLIQR   57 (247)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            5899999999999999998854

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=95.03  E-value=0.013  Score=47.06  Aligned_cols=21  Identities=29%  Similarity=0.471  Sum_probs=19.5

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +|+|.|+.|+||||+++.+..
T Consensus         4 ~i~i~G~~GsGKst~~~~la~   24 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAA   24 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            899999999999999998865

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=95.02  E-value=0.0062  Score=47.80  Aligned_cols=24  Identities=42%  Similarity=0.383  Sum_probs=21.1

Q ss_pred             EEEEEEccCCCChHHHHHHhhchH
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHE  220 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~  220 (314)
                      .+++|+|..|+|||||++.+..-.
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~   26 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPIL   26 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            589999999999999999987643

>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=95.02  E-value=0.013  Score=46.18  Aligned_cols=21  Identities=48%  Similarity=0.512  Sum_probs=19.1

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -|.|+|.+|+|||||.+.+..
T Consensus         4 kv~ivG~~gvGKStLl~~l~~   24 (184)
T 2zej_A            4 KLMIVGNTGSGKTTLLQQLMK   24 (184)
T ss_dssp             EEEEESCTTSSHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            478999999999999999876

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=95.01  E-value=0.01  Score=48.29  Aligned_cols=22  Identities=27%  Similarity=0.459  Sum_probs=19.8

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..|.|.|++|+||||+++.+..
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~   27 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKK   27 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5788999999999999998876

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=95.00  E-value=0.013  Score=48.19  Aligned_cols=23  Identities=26%  Similarity=0.179  Sum_probs=20.5

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ...|.|.|+.|+||||+++.+..
T Consensus        16 ~~~I~l~G~~GsGKsT~a~~La~   38 (233)
T 1ak2_A           16 GVRAVLLGPPGAGKGTQAPKLAK   38 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45789999999999999999876

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=94.97  E-value=0.014  Score=49.36  Aligned_cols=23  Identities=30%  Similarity=0.437  Sum_probs=20.7

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|+|||||.+.++.
T Consensus        46 Ge~~~l~G~NGsGKSTLlk~l~G   68 (267)
T 2zu0_C           46 GEVHAIMGPNGSGKSTLSATLAG   68 (267)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            35899999999999999998876

>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=94.97  E-value=0.18  Score=45.92  Aligned_cols=99  Identities=18%  Similarity=0.139  Sum_probs=58.7

Q ss_pred             HHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCcccc-HHHHHHHHHHHhcCC----
Q 048765          180 ELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFE-EFRVAKAMVEALDGH----  254 (314)
Q Consensus       180 ~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~-~~~~~~~i~~~~~~~----  254 (314)
                      +.++.|..-.     +-.-++|+|..|+|||+|+..+.++. .+.+-+.++++-+.+... +.++.+.+...-...    
T Consensus       142 r~ID~l~pig-----kGQr~~Ifgg~G~GKT~L~~~i~~~~-~~~~~~v~V~~~iGER~rEv~e~~~~~~~~~~l~~~~~  215 (482)
T 2ck3_D          142 KVVDLLAPYA-----KGGKIGLFGGAGVGKTVLIMELINNV-AKAHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDA  215 (482)
T ss_dssp             HHHHHHSCEE-----TTCEEEEEECTTSSHHHHHHHHHHHT-TTTCSSEEEEEEESCCHHHHHHHHHHHHHHTSSCSSSS
T ss_pred             EEEecccccc-----cCCeeeeecCCCCChHHHHHHHHHhh-HhhCCCEEEEEECCCcchHHHHHHHHhhhccccccccC
Confidence            3455554322     34578999999999999999887742 123456678887876543 455666666542111    


Q ss_pred             --C--------CCCCcHH----HHHHHHHHHc---cCceEEEEEecc
Q 048765          255 --E--------SHLGEFQ----SLLRHIYESI---AGKSFLLVLDDV  284 (314)
Q Consensus       255 --~--------~~~~~~~----~~~~~l~~~L---~~kr~LlVlDdv  284 (314)
                        .        +.....+    ...-.+.+++   +++..||++||+
T Consensus       216 ~~rtvvV~~t~d~p~~~r~~~~~~a~tiAEyfrd~~G~dVLll~Dsi  262 (482)
T 2ck3_D          216 TSKVALVYGQMNEPPGARARVALTGLTVAEYFRDQEGQDVLLFIDNI  262 (482)
T ss_dssp             CCCEEEEEECTTSCHHHHHHHHHHHHHHHHHHHHTTCSCEEEEEECT
T ss_pred             CceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCcEEEEeccH
Confidence              0        0111111    1122233444   579999999998

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=94.95  E-value=0.014  Score=47.84  Aligned_cols=21  Identities=38%  Similarity=0.428  Sum_probs=19.0

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .|.|.|+.|+||||+++.+..
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~   22 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKD   22 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            578999999999999998866

>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=94.95  E-value=0.013  Score=46.00  Aligned_cols=24  Identities=25%  Similarity=0.396  Sum_probs=21.5

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..++.|+|+.|+|||||+..+...
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~~   29 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIPA   29 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHh
Confidence            578999999999999999998764

>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=94.94  E-value=0.013  Score=47.44  Aligned_cols=21  Identities=33%  Similarity=0.327  Sum_probs=18.9

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .|.|.|+.|+||||+++.+..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIME   22 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999998866

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=94.94  E-value=0.014  Score=48.71  Aligned_cols=22  Identities=36%  Similarity=0.576  Sum_probs=19.8

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+++|+|+.|+|||||.+.++.
T Consensus        27 e~~~liG~NGsGKSTLlk~l~G   48 (249)
T 2qi9_C           27 EILHLVGPNGAGKSTLLARMAG   48 (249)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCcHHHHHHHHhC
Confidence            4899999999999999998864

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=94.93  E-value=0.014  Score=49.04  Aligned_cols=23  Identities=35%  Similarity=0.479  Sum_probs=20.4

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|+|||||.+.+..
T Consensus        46 Ge~~~i~G~nGsGKSTLl~~l~G   68 (260)
T 2ghi_A           46 GTTCALVGHTGSGKSTIAKLLYR   68 (260)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            35899999999999999998864

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=94.93  E-value=0.014  Score=49.37  Aligned_cols=23  Identities=39%  Similarity=0.543  Sum_probs=20.3

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|+|||||.+.++.
T Consensus        45 Ge~~~i~G~nGsGKSTLlk~l~G   67 (271)
T 2ixe_A           45 GKVTALVGPNGSGKSTVAALLQN   67 (271)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            45899999999999999998854

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=94.92  E-value=0.014  Score=48.80  Aligned_cols=22  Identities=36%  Similarity=0.665  Sum_probs=20.1

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+++|+|+.|+|||||.+.++.
T Consensus        32 e~~~l~G~nGsGKSTLl~~l~G   53 (253)
T 2nq2_C           32 DILAVLGQNGCGKSTLLDLLLG   53 (253)
T ss_dssp             CEEEEECCSSSSHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            4899999999999999999865

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=94.91  E-value=0.014  Score=49.18  Aligned_cols=23  Identities=30%  Similarity=0.436  Sum_probs=20.3

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|+|||||.+.++.
T Consensus        33 Ge~~~liG~nGsGKSTLl~~i~G   55 (266)
T 2yz2_A           33 GECLLVAGNTGSGKSTLLQIVAG   55 (266)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            35899999999999999998854

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=94.90  E-value=0.18  Score=45.71  Aligned_cols=39  Identities=15%  Similarity=0.093  Sum_probs=29.4

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcC
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVS  235 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~  235 (314)
                      .-.++.|.|.+|+|||||+..++.+...+  -..++|++..
T Consensus       196 ~G~liiIaG~pG~GKTtlal~ia~~~a~~--g~~vl~fSlE  234 (444)
T 3bgw_A          196 RRNFVLIAARPSMGKTAFALKQAKNMSDN--DDVVNLHSLE  234 (444)
T ss_dssp             SSCEEEEEECSSSSHHHHHHHHHHHHHHT--TCEEEEECSS
T ss_pred             CCcEEEEEeCCCCChHHHHHHHHHHHHHc--CCEEEEEECC
Confidence            34688999999999999999988754333  2367777654

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=94.89  E-value=0.015  Score=50.70  Aligned_cols=22  Identities=36%  Similarity=0.439  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+|.|.|+.|+||||||..++.
T Consensus         8 ~lI~I~GptgSGKTtla~~La~   29 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAK   29 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCcCcHHHHHHHHHH
Confidence            5899999999999999998876

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=94.89  E-value=0.014  Score=46.67  Aligned_cols=24  Identities=25%  Similarity=0.484  Sum_probs=20.7

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .-.++|+|..|+|||||.+.+...
T Consensus         5 ~~kv~lvG~~g~GKSTLl~~l~~~   28 (199)
T 2f9l_A            5 LFKVVLIGDSGVGKSNLLSRFTRN   28 (199)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcC
Confidence            456889999999999999998754

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=94.88  E-value=0.015  Score=49.49  Aligned_cols=23  Identities=30%  Similarity=0.369  Sum_probs=20.2

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|+|||||.+.++.
T Consensus        47 Ge~~~liG~NGsGKSTLlk~l~G   69 (279)
T 2ihy_A           47 GDKWILYGLNGAGKTTLLNILNA   69 (279)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            35899999999999999998854

>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=94.88  E-value=0.026  Score=51.13  Aligned_cols=50  Identities=22%  Similarity=0.315  Sum_probs=34.0

Q ss_pred             cccccchhhHHHHHHHhhcc--------CcCCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELLSKLLCE--------SSEQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~--------~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..++|.+...+.|...+...        ........+-+.++|++|+|||++|+.++.
T Consensus        15 ~~IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~   72 (444)
T 1g41_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAK   72 (444)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHH
Confidence            45788877777776555221        000012345688999999999999999876

>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=94.86  E-value=0.016  Score=47.84  Aligned_cols=23  Identities=17%  Similarity=0.387  Sum_probs=20.6

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..+|.|.|+.|+||||+++.+..
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~   31 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLAR   31 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45899999999999999998865

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=94.85  E-value=0.018  Score=54.64  Aligned_cols=42  Identities=17%  Similarity=0.292  Sum_probs=34.2

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +.++|.+..++.+...+...        ..+.|+|+.|+||||||+.++.
T Consensus        41 ~~i~G~~~~l~~l~~~i~~g--------~~vll~Gp~GtGKTtlar~ia~   82 (604)
T 3k1j_A           41 DQVIGQEHAVEVIKTAANQK--------RHVLLIGEPGTGKSMLGQAMAE   82 (604)
T ss_dssp             HHCCSCHHHHHHHHHHHHTT--------CCEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEECchhhHhhccccccCC--------CEEEEEeCCCCCHHHHHHHHhc
Confidence            56889888787777666532        3789999999999999999976

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=94.85  E-value=0.016  Score=49.67  Aligned_cols=22  Identities=36%  Similarity=0.431  Sum_probs=19.9

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+|.|.|++|+||||+++.+..
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~   24 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIA   24 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5789999999999999998865

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=94.84  E-value=0.025  Score=51.18  Aligned_cols=26  Identities=35%  Similarity=0.397  Sum_probs=22.3

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchH
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHE  220 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~  220 (314)
                      ...+|.|+|.+|+||||++..+....
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            45799999999999999999887643

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=94.83  E-value=0.072  Score=55.95  Aligned_cols=85  Identities=18%  Similarity=0.120  Sum_probs=60.3

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCC-----CCCcHHHHHHHH
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHES-----HLGEFQSLLRHI  268 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~-----~~~~~~~~~~~l  268 (314)
                      ++-++|-|+|+.|+||||||.++..  +.+..=...+|++....+++..     ++.++.+..     .+..-++....+
T Consensus      1429 prg~~iei~g~~~sGkttl~~~~~a--~~~~~g~~~~~i~~e~~~~~~~-----~~~~Gv~~~~l~~~~p~~~e~~l~~~ 1501 (1706)
T 3cmw_A         1429 PMGRIVEIYGPESSGKTTLTLQVIA--AAQREGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEIC 1501 (1706)
T ss_dssp             ETTSEEEEECSTTSSHHHHHHHHHH--HHHHTTCCEEEECTTSCCCHHH-----HHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHHH--HHHhcCCeEEEEecCCCCCHHH-----HHHcCCCHHHeEEeCCCcHHHHHHHH
Confidence            3457999999999999999999876  5556667899999988877764     666665421     222334344444


Q ss_pred             HHHc-cCceEEEEEeccc
Q 048765          269 YESI-AGKSFLLVLDDVW  285 (314)
Q Consensus       269 ~~~L-~~kr~LlVlDdv~  285 (314)
                      ...+ .+.--+||+|-|-
T Consensus      1502 ~~~~~s~~~~~vvvDsv~ 1519 (1706)
T 3cmw_A         1502 DALARSGAVDVIVVDSVA 1519 (1706)
T ss_dssp             HHHHHHTCCSEEEESCST
T ss_pred             HHHHHcCCCCEEEEccHH
Confidence            4444 4667799999983

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=94.80  E-value=0.084  Score=43.16  Aligned_cols=27  Identities=33%  Similarity=0.457  Sum_probs=23.1

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchH
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHE  220 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~  220 (314)
                      .....|.|.|+.|+||||+++.+....
T Consensus        19 ~~~~~i~~~G~~g~GKst~~~~l~~~l   45 (223)
T 3ld9_A           19 PGSMFITFEGIDGSGKTTQSHLLAEYL   45 (223)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            346789999999999999999998743

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=94.78  E-value=0.022  Score=44.76  Aligned_cols=24  Identities=21%  Similarity=0.303  Sum_probs=21.1

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +...|+|+|.+|+|||||.+.+..
T Consensus         6 ~~~~i~lvG~~gvGKStL~~~l~~   29 (188)
T 2wjg_A            6 KSYEIALIGNPNVGKSTIFNALTG   29 (188)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhC
Confidence            346789999999999999999876

>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=94.76  E-value=0.1  Score=43.01  Aligned_cols=91  Identities=21%  Similarity=0.163  Sum_probs=48.7

Q ss_pred             EEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcC---C--------CCC-----CCcHH
Q 048765          199 ISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDG---H--------ESH-----LGEFQ  262 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~---~--------~~~-----~~~~~  262 (314)
                      +.|+|+.|.|||.++..+....    . ..++++. ...    .+..++.+.+..   .        ...     ....+
T Consensus       111 ~ll~~~tG~GKT~~a~~~~~~~----~-~~~liv~-P~~----~L~~q~~~~~~~~~~~~v~~~~g~~~~~~~i~v~T~~  180 (237)
T 2fz4_A          111 GCIVLPTGSGKTHVAMAAINEL----S-TPTLIVV-PTL----ALAEQWKERLGIFGEEYVGEFSGRIKELKPLTVSTYD  180 (237)
T ss_dssp             EEEEESSSTTHHHHHHHHHHHS----C-SCEEEEE-SSH----HHHHHHHHHHGGGCGGGEEEESSSCBCCCSEEEEEHH
T ss_pred             EEEEeCCCCCHHHHHHHHHHHc----C-CCEEEEe-CCH----HHHHHHHHHHHhCCCCeEEEEeCCCCCcCCEEEEeHH
Confidence            6789999999999998776521    1 2233332 221    233333333221   1        000     01123


Q ss_pred             HHHHHHHHHccCceEEEEEeccccCCccCHHhHHHhhc
Q 048765          263 SLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLK  300 (314)
Q Consensus       263 ~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~  300 (314)
                      .+..... .+.++--+||+|++.......+..+...++
T Consensus       181 ~l~~~~~-~~~~~~~llIiDEaH~l~~~~~~~i~~~~~  217 (237)
T 2fz4_A          181 SAYVNAE-KLGNRFMLLIFDEVHHLPAESYVQIAQMSI  217 (237)
T ss_dssp             HHHHTHH-HHTTTCSEEEEECSSCCCTTTHHHHHHTCC
T ss_pred             HHHhhHH-HhcccCCEEEEECCccCCChHHHHHHHhcc
Confidence            3333222 334455699999998765556777666554

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=94.76  E-value=0.017  Score=50.01  Aligned_cols=22  Identities=32%  Similarity=0.372  Sum_probs=20.1

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+|.|+|+.|+|||||++.+..
T Consensus         6 ~~i~i~GptGsGKTtla~~La~   27 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALAD   27 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999998865

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=94.75  E-value=0.019  Score=43.61  Aligned_cols=23  Identities=30%  Similarity=0.463  Sum_probs=19.9

Q ss_pred             EEEEEEccCCCChHHHHHHhhch
Q 048765          197 HIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .-|.|+|.+|+|||||++.+...
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~   24 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKK   24 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            46889999999999999988653

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B

Probab=94.75  E-value=0.097  Score=47.85  Aligned_cols=85  Identities=22%  Similarity=0.180  Sum_probs=49.0

Q ss_pred             eEEEEEEccCCCChHHHH-HHhhchHhhhhcCc-eeEEEEcCcccc-HHHHHHHHHHHhcCC--------CCCCCcHHH-
Q 048765          196 LHIISIVGMGGIGKTTLA-QLACNHEEVIRKFD-KILWVCVSETFE-EFRVAKAMVEALDGH--------ESHLGEFQS-  263 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa-~~v~~~~~~~~~F~-~~~wv~~~~~~~-~~~~~~~i~~~~~~~--------~~~~~~~~~-  263 (314)
                      -.-++|+|..|+|||+|+ ..+.+..    +-+ .++++-+.+..+ +.++.+.+...-...        .+.....+- 
T Consensus       162 GQR~~Ifg~~g~GKT~Lal~~I~~~~----~~dv~~V~~~iGeR~~Ev~~~~~~~~~~g~m~~tvvV~atad~p~~~r~~  237 (502)
T 2qe7_A          162 GQRELIIGDRQTGKTTIAIDTIINQK----GQDVICIYVAIGQKQSTVAGVVETLRQHDALDYTIVVTASASEPAPLLYL  237 (502)
T ss_dssp             TCBCEEEECSSSCHHHHHHHHHHGGG----SCSEEEEEEEESCCHHHHHHHHHHHHHTTCSTTEEEEEECTTSCHHHHHH
T ss_pred             CCEEEEECCCCCCchHHHHHHHHHhh----cCCcEEEEEECCCcchHHHHHHHHHhhCCCcceeEEEEECCCCCHHHHHH
Confidence            346789999999999995 5666632    345 346777776543 345555554421111        111111111 


Q ss_pred             ---HHHHHHHHc--cCceEEEEEecc
Q 048765          264 ---LLRHIYESI--AGKSFLLVLDDV  284 (314)
Q Consensus       264 ---~~~~l~~~L--~~kr~LlVlDdv  284 (314)
                         ..-.+.+++  +++..||++||+
T Consensus       238 a~~~a~tiAEyfrd~G~dVLl~~Dsl  263 (502)
T 2qe7_A          238 APYAGCAMGEYFMYKGKHALVVYDDL  263 (502)
T ss_dssp             HHHHHHHHHHHHHTTTCEEEEEEECH
T ss_pred             HHHHHHHHHHHHHHcCCcEEEEEecH
Confidence               112233444  689999999998

>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=94.73  E-value=0.019  Score=49.48  Aligned_cols=23  Identities=26%  Similarity=0.472  Sum_probs=20.3

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..+|.|+|+.|+|||||+..++.
T Consensus         3 ~~~i~i~GptgsGKt~la~~La~   25 (322)
T 3exa_A            3 EKLVAIVGPTAVGKTKTSVMLAK   25 (322)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CcEEEEECCCcCCHHHHHHHHHH
Confidence            35889999999999999998865

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=94.71  E-value=0.017  Score=48.86  Aligned_cols=22  Identities=36%  Similarity=0.570  Sum_probs=19.6

Q ss_pred             EEEEEccCCCChHHHHHHhhch
Q 048765          198 IISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .++|+|+.|+|||||.+.++.-
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            5789999999999999998763

>1xx6_A Thymidine kinase; NESG, northeast structural genomics consortium, protein STRU initiative, PSI, structural genomics, DNA synthesis; HET: ADP; 2.00A {Clostridium acetobutylicum} SCOP: c.37.1.24 g.39.1.14

Probab=94.71  E-value=0.016  Score=46.22  Aligned_cols=25  Identities=20%  Similarity=-0.013  Sum_probs=21.1

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchH
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHE  220 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~  220 (314)
                      -.+..++|+.|.||||.+.......
T Consensus         8 g~i~v~~G~mgsGKTT~ll~~a~r~   32 (191)
T 1xx6_A            8 GWVEVIVGPMYSGKSEELIRRIRRA   32 (191)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHH
Confidence            4688999999999999998777644

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=94.70  E-value=0.084  Score=42.83  Aligned_cols=24  Identities=21%  Similarity=0.297  Sum_probs=21.3

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      -..|.|.|+.|+||||+++.+...
T Consensus         6 g~~i~~eG~~gsGKsT~~~~l~~~   29 (213)
T 4edh_A            6 GLFVTLEGPEGAGKSTNRDYLAER   29 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHH
Confidence            468899999999999999999774

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=94.61  E-value=0.018  Score=49.47  Aligned_cols=24  Identities=17%  Similarity=0.279  Sum_probs=21.2

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .-.+++|+|+.|+|||||++.+..
T Consensus       125 ~Ge~vaIvGpsGsGKSTLl~lL~g  148 (305)
T 2v9p_A          125 KKNCLAFIGPPNTGKSMLCNSLIH  148 (305)
T ss_dssp             TCSEEEEECSSSSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhh
Confidence            456899999999999999998865

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=94.58  E-value=0.02  Score=48.26  Aligned_cols=22  Identities=36%  Similarity=0.492  Sum_probs=20.0

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+++|+|+.|+|||||.+.++.
T Consensus        31 e~~~i~G~NGsGKSTLlk~l~G   52 (263)
T 2pjz_A           31 EKVIILGPNGSGKTTLLRAISG   52 (263)
T ss_dssp             SEEEEECCTTSSHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHhC
Confidence            4899999999999999999864

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=94.56  E-value=0.024  Score=48.66  Aligned_cols=24  Identities=29%  Similarity=0.176  Sum_probs=21.1

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ...+|.|+|+.|+|||||+..++.
T Consensus         9 ~~~~i~i~GptgsGKt~la~~La~   32 (316)
T 3foz_A            9 LPKAIFLMGPTASGKTALAIELRK   32 (316)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCcEEEEECCCccCHHHHHHHHHH
Confidence            357899999999999999998865

>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=94.56  E-value=0.038  Score=46.44  Aligned_cols=36  Identities=19%  Similarity=0.161  Sum_probs=27.3

Q ss_pred             HHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          179 NELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       179 ~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .-+..||....    ++...+.++|++|+|||.+|..+++
T Consensus        91 ~~l~~~l~~~~----~~~n~~~l~GppgtGKt~~a~ala~  126 (267)
T 1u0j_A           91 SVFLGWATKKF----GKRNTIWLFGPATTGKTNIAEAIAH  126 (267)
T ss_dssp             HHHHHHHTTCS----TTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             HHHHHHHhCCC----CCCcEEEEECCCCCCHHHHHHHHHh
Confidence            34666665432    3456799999999999999998876

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=94.55  E-value=0.018  Score=43.77  Aligned_cols=22  Identities=32%  Similarity=0.622  Sum_probs=19.2

Q ss_pred             EEEEEccCCCChHHHHHHhhch
Q 048765          198 IISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      -|.++|.+|+|||||++.+...
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            4789999999999999988653

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=94.53  E-value=0.022  Score=49.44  Aligned_cols=24  Identities=33%  Similarity=0.444  Sum_probs=21.8

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +..++.|+|+.|+|||||.+.+..
T Consensus         3 ~i~v~~i~G~~GaGKTTll~~l~~   26 (318)
T 1nij_A            3 PIAVTLLTGFLGAGKTTLLRHILN   26 (318)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHH
T ss_pred             cccEEEEEecCCCCHHHHHHHHHh
Confidence            478999999999999999999874

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=94.50  E-value=0.17  Score=44.79  Aligned_cols=53  Identities=19%  Similarity=0.073  Sum_probs=34.0

Q ss_pred             HHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCce-eEEEEcCcc
Q 048765          179 NELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDK-ILWVCVSET  237 (314)
Q Consensus       179 ~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~-~~wv~~~~~  237 (314)
                      -+.++.|..-.     +-.-+.|+|.+|+|||+|+..+.+.... .+-+. ++++-+.+.
T Consensus       163 iraID~l~Pig-----rGQR~lIfg~~g~GKT~Ll~~Ia~~i~~-~~~dv~~V~~lIGER  216 (427)
T 3l0o_A          163 TRLIDLFAPIG-----KGQRGMIVAPPKAGKTTILKEIANGIAE-NHPDTIRIILLIDER  216 (427)
T ss_dssp             HHHHHHHSCCB-----TTCEEEEEECTTCCHHHHHHHHHHHHHH-HCTTSEEEEEECSCC
T ss_pred             chhhhhccccc-----CCceEEEecCCCCChhHHHHHHHHHHhh-cCCCeEEEEEEeccC
Confidence            35666665432     3357789999999999999988874332 22232 345666654

>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=94.49  E-value=0.14  Score=46.90  Aligned_cols=90  Identities=21%  Similarity=0.190  Sum_probs=50.4

Q ss_pred             eEEEEEEccCCCChHHHH-HHhhchHhh----hhcCc-eeEEEEcCcccc-HHHHHHHHHHHhcC--------CCCCCCc
Q 048765          196 LHIISIVGMGGIGKTTLA-QLACNHEEV----IRKFD-KILWVCVSETFE-EFRVAKAMVEALDG--------HESHLGE  260 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa-~~v~~~~~~----~~~F~-~~~wv~~~~~~~-~~~~~~~i~~~~~~--------~~~~~~~  260 (314)
                      -.-++|+|..|+|||+|| ..+.+....    .++-+ .++++-+.+..+ +.++.+.+...-..        ..+....
T Consensus       162 GQR~~I~g~~g~GKT~Lal~~I~~q~~~~~~~~~~~d~~~V~~~IGeR~~Ev~~~~~~~~~~g~m~~tvvV~atad~p~~  241 (510)
T 2ck3_A          162 GQRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAP  241 (510)
T ss_dssp             TCBCEEEESTTSSHHHHHHHHHHHTHHHHTSCCTTTCCEEEEEEESCCHHHHHHHHHHHHHTTCGGGEEEEEECTTSCHH
T ss_pred             CCEEEEecCCCCCchHHHHHHHHHHHhhccccccCCCeEEEEEECCCCcHHHHHHHHHHHhcCCcccceEEEECCCCCHH
Confidence            346789999999999995 566664321    12344 467777776543 34555555442110        0111111


Q ss_pred             HHH----HHHHHHHHc--cCceEEEEEeccc
Q 048765          261 FQS----LLRHIYESI--AGKSFLLVLDDVW  285 (314)
Q Consensus       261 ~~~----~~~~l~~~L--~~kr~LlVlDdv~  285 (314)
                      .+-    ..-.+.+++  +++..||++||+-
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    112234444  6899999999993

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=94.47  E-value=0.03  Score=43.15  Aligned_cols=24  Identities=38%  Similarity=0.575  Sum_probs=20.8

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .--|.|+|.+|+|||||.+.+...
T Consensus         4 ~~ki~i~G~~~vGKSsl~~~l~~~   27 (175)
T 2nzj_A            4 LYRVVLLGDPGVGKTSLASLFAGK   27 (175)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEEEECCCCccHHHHHHHHhcC
Confidence            456889999999999999998764

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=94.46  E-value=0.011  Score=50.49  Aligned_cols=24  Identities=29%  Similarity=0.387  Sum_probs=18.3

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +..+|+|.|..|+||||+++.+..
T Consensus         4 ~~~iIgItG~sGSGKSTva~~L~~   27 (290)
T 1a7j_A            4 KHPIISVTGSSGAGTSTVKHTFDQ   27 (290)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHH
Confidence            356899999999999999998876

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=94.44  E-value=0.028  Score=42.98  Aligned_cols=24  Identities=29%  Similarity=0.571  Sum_probs=20.3

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .--|.|+|.+|+|||||.+.+...
T Consensus         5 ~~~i~v~G~~~~GKssl~~~l~~~   28 (168)
T 1z2a_A            5 AIKMVVVGNGAVGKSSMIQRYCKG   28 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHC
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcC
Confidence            456789999999999999988653

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=94.40  E-value=0.023  Score=46.79  Aligned_cols=25  Identities=28%  Similarity=0.327  Sum_probs=21.6

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ....+|+|.|+.|+||||+++.+..
T Consensus        14 ~~~~~i~i~G~~gsGKst~~~~l~~   38 (236)
T 1q3t_A           14 MKTIQIAIDGPASSGKSTVAKIIAK   38 (236)
T ss_dssp             CCCCEEEEECSSCSSHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHH
Confidence            4566899999999999999988865

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=94.38  E-value=0.037  Score=49.15  Aligned_cols=25  Identities=28%  Similarity=0.102  Sum_probs=21.9

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +...+++|+|+.|+|||||++.+..
T Consensus       167 ~~~~~i~l~G~~GsGKSTl~~~l~~  191 (377)
T 1svm_A          167 PKKRYWLFKGPIDSGKTTLAAALLE  191 (377)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHh
Confidence            3456999999999999999999875

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=94.35  E-value=0.045  Score=47.81  Aligned_cols=25  Identities=24%  Similarity=0.335  Sum_probs=22.0

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ....+++|+|++|+|||||.+.+..
T Consensus        53 ~~g~~v~i~G~~GaGKSTLl~~l~g   77 (337)
T 2qm8_A           53 GRAIRVGITGVPGVGKSTTIDALGS   77 (337)
T ss_dssp             CCSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3467999999999999999999874

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=94.35  E-value=0.022  Score=43.62  Aligned_cols=21  Identities=29%  Similarity=0.575  Sum_probs=18.7

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -|.|+|.+|+|||||.+.+..
T Consensus         4 ki~~vG~~~~GKSsli~~l~~   24 (166)
T 3q72_A            4 KVLLLGAPGVGKSALARIFGG   24 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHcC
Confidence            478999999999999998865

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=94.33  E-value=0.024  Score=43.50  Aligned_cols=22  Identities=27%  Similarity=0.555  Sum_probs=19.3

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      --|.|+|.+|+|||||.+.+..
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~   25 (172)
T 2erx_A            4 YRVAVFGAGGVGKSSLVLRFVK   25 (172)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHc
Confidence            3578999999999999998875

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=94.31  E-value=0.025  Score=43.44  Aligned_cols=22  Identities=36%  Similarity=0.522  Sum_probs=19.0

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      --|.|+|.+|+|||||.+.+..
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            3578999999999999998853

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=94.30  E-value=0.023  Score=44.73  Aligned_cols=23  Identities=30%  Similarity=0.563  Sum_probs=19.8

Q ss_pred             EEEEEEccCCCChHHHHHHhhch
Q 048765          197 HIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      --|.++|.+|+|||||+..+...
T Consensus        22 ~ki~vvG~~~~GKSsli~~l~~~   44 (190)
T 3con_A           22 YKLVVVGAGGVGKSALTIQLIQN   44 (190)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            46789999999999999998653

>2bbs_A Cystic fibrosis transmembrane conductance regulator; ATP binding cassette, transport protein; HET: ATP; 2.05A {Homo sapiens} PDB: 2bbt_A* 1xmi_A* 1xmj_A* 2bbo_A* 3si7_A* 1r0w_A 1q3h_A 1r0x_A* 1r0y_A* 1r0z_A* 1r10_A* 1xf9_A* 1xfa_A*

Probab=94.29  E-value=0.024  Score=48.46  Aligned_cols=23  Identities=26%  Similarity=0.489  Sum_probs=20.7

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|+|||||.+.+..
T Consensus        64 Ge~~~i~G~NGsGKSTLlk~l~G   86 (290)
T 2bbs_A           64 GQLLAVAGSTGAGKTSLLMMIMG   86 (290)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhc
Confidence            45899999999999999999865

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=94.27  E-value=0.03  Score=43.41  Aligned_cols=25  Identities=28%  Similarity=0.341  Sum_probs=21.3

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+...|.|+|.+|+|||||...+..
T Consensus         6 ~~~~~i~v~G~~~~GKssl~~~l~~   30 (178)
T 2lkc_A            6 ERPPVVTIMGHVDHGKTTLLDAIRH   30 (178)
T ss_dssp             CCCCEEEEESCTTTTHHHHHHHHHT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhC
Confidence            3456788999999999999998865

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*

Probab=94.26  E-value=0.032  Score=43.69  Aligned_cols=25  Identities=28%  Similarity=0.341  Sum_probs=21.5

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ....|.|+|.+|+|||||.+.+...
T Consensus        15 ~~~ki~ivG~~~vGKSsL~~~l~~~   39 (181)
T 1fzq_A           15 QEVRILLLGLDNAGKTTLLKQLASE   39 (181)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcC
Confidence            4567889999999999999998764

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=94.25  E-value=0.03  Score=49.23  Aligned_cols=24  Identities=21%  Similarity=0.263  Sum_probs=21.7

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ...+|+|+|.+|+|||||.+.+..
T Consensus        73 ~~~~v~lvG~pgaGKSTLln~L~~   96 (349)
T 2www_A           73 LAFRVGLSGPPGAGKSTFIEYFGK   96 (349)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHH
Confidence            467999999999999999999875

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=94.24  E-value=0.025  Score=43.27  Aligned_cols=23  Identities=26%  Similarity=0.498  Sum_probs=19.6

Q ss_pred             EEEEEEccCCCChHHHHHHhhch
Q 048765          197 HIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      --|.|+|.+|+|||||.+.+...
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            35789999999999999988653

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=94.24  E-value=0.022  Score=47.77  Aligned_cols=24  Identities=29%  Similarity=0.339  Sum_probs=21.4

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +...|.|.|..|+||||+++.+..
T Consensus        23 ~~~~I~ieG~~GsGKST~~~~L~~   46 (263)
T 1p5z_B           23 RIKKISIEGNIAAGKSTFVNILKQ   46 (263)
T ss_dssp             CCEEEEEECSTTSSHHHHHTTTGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999998876

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=94.21  E-value=0.028  Score=46.42  Aligned_cols=24  Identities=29%  Similarity=0.372  Sum_probs=20.9

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ...|.|.|..|+||||+++.+...
T Consensus         2 ~~~i~~~G~~g~GKtt~~~~l~~~   25 (241)
T 2ocp_A            2 PRRLSIEGNIAVGKSTFVKLLTKT   25 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHH
Confidence            367899999999999999988763

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=94.21  E-value=0.028  Score=50.56  Aligned_cols=24  Identities=17%  Similarity=0.328  Sum_probs=21.4

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ...+++|+|..|+|||||.+.+..
T Consensus        68 ~~~~valvG~nGaGKSTLln~L~G   91 (413)
T 1tq4_A           68 SVLNVAVTGETGSGKSSFINTLRG   91 (413)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHhC
Confidence            456999999999999999999876

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=94.20  E-value=0.025  Score=43.09  Aligned_cols=23  Identities=26%  Similarity=0.499  Sum_probs=19.5

Q ss_pred             EEEEEEccCCCChHHHHHHhhch
Q 048765          197 HIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      --|.|+|..|+|||||...+...
T Consensus         4 ~~i~v~G~~~~GKSsli~~l~~~   26 (167)
T 1kao_A            4 YKVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            35789999999999999888643

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=94.20  E-value=0.031  Score=43.44  Aligned_cols=23  Identities=22%  Similarity=0.307  Sum_probs=20.1

Q ss_pred             EEEEEEccCCCChHHHHHHhhch
Q 048765          197 HIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..|+|+|.+|+|||||.+.+...
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            46789999999999999998753

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=94.17  E-value=0.049  Score=42.10  Aligned_cols=25  Identities=28%  Similarity=0.353  Sum_probs=20.9

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..--|.|+|.+|+|||||.+.+...
T Consensus         5 ~~~ki~v~G~~~~GKssl~~~l~~~   29 (178)
T 2hxs_A            5 RQLKIVVLGDGASGKTSLTTCFAQE   29 (178)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHGG
T ss_pred             ceEEEEEECcCCCCHHHHHHHHHhC
Confidence            3456789999999999999988754

>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=94.16  E-value=0.021  Score=45.74  Aligned_cols=25  Identities=16%  Similarity=0.174  Sum_probs=21.4

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ....++|+|..|+|||||.+.+...
T Consensus        25 ~~~~v~lvG~~g~GKSTLl~~l~g~   49 (210)
T 1pui_A           25 TGIEVAFAGRSNAGKSSALNTLTNQ   49 (210)
T ss_dssp             CSEEEEEEECTTSSHHHHHTTTCCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCC
Confidence            3468999999999999999988754

>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase; 1.90A {Tomato mosaic virus}

Probab=94.16  E-value=0.086  Score=47.61  Aligned_cols=26  Identities=23%  Similarity=0.298  Sum_probs=22.9

Q ss_pred             CCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          193 QKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       193 ~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ....++..|.|.+|.||||+.+..++
T Consensus       158 ~~~~~v~~I~G~aGsGKTt~I~~~~~  183 (446)
T 3vkw_A          158 VSSAKVVLVDGVPGCGKTKEILSRVN  183 (446)
T ss_dssp             CCCSEEEEEEECTTSCHHHHHHHHCC
T ss_pred             cccccEEEEEcCCCCCHHHHHHHHhc
Confidence            35788999999999999999988875

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=94.15  E-value=0.019  Score=49.52  Aligned_cols=23  Identities=30%  Similarity=0.521  Sum_probs=20.4

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|+|||||++.+..
T Consensus        80 Ge~vaivG~sGsGKSTLl~ll~g  102 (306)
T 3nh6_A           80 GQTLALVGPSGAGKSTILRLLFR  102 (306)
T ss_dssp             TCEEEEESSSCHHHHHHHHHHTT
T ss_pred             CCEEEEECCCCchHHHHHHHHHc
Confidence            46899999999999999998854

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=94.14  E-value=0.026  Score=43.30  Aligned_cols=24  Identities=29%  Similarity=0.559  Sum_probs=20.4

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .--|.|+|.+|+|||||.+.+...
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            456789999999999999888653

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=94.14  E-value=0.087  Score=43.20  Aligned_cols=25  Identities=36%  Similarity=0.530  Sum_probs=18.7

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchH
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHE  220 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~  220 (314)
                      -..|.|-|+.|+||||+++.+....
T Consensus        25 g~~I~~eG~~GsGKsT~~~~l~~~l   49 (227)
T 3v9p_A           25 GKFITFEGIDGAGKTTHLQWFCDRL   49 (227)
T ss_dssp             CCEEEEECCC---CHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4588999999999999999998743

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=94.12  E-value=0.028  Score=42.90  Aligned_cols=21  Identities=33%  Similarity=0.338  Sum_probs=18.6

Q ss_pred             EEEEccCCCChHHHHHHhhch
Q 048765          199 ISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~~  219 (314)
                      |.++|.+|+|||||.+.+...
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            689999999999999988653

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=94.10  E-value=0.027  Score=49.57  Aligned_cols=23  Identities=39%  Similarity=0.525  Sum_probs=20.4

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|+|||||.+.++.
T Consensus        30 Ge~~~llGpsGsGKSTLLr~iaG   52 (359)
T 3fvq_A           30 GEILFIIGASGCGKTTLLRCLAG   52 (359)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCchHHHHHHHHhc
Confidence            35899999999999999999864

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=94.10  E-value=0.027  Score=43.10  Aligned_cols=22  Identities=14%  Similarity=0.376  Sum_probs=19.0

Q ss_pred             EEEEEccCCCChHHHHHHhhch
Q 048765          198 IISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      -|.++|..|+|||||.+.+...
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1ek0_A            5 KLVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999888653

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=94.09  E-value=0.027  Score=43.15  Aligned_cols=24  Identities=17%  Similarity=0.310  Sum_probs=20.2

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .--|.|+|..|+|||||.+.+...
T Consensus         6 ~~~i~v~G~~~~GKSsli~~l~~~   29 (170)
T 1z0j_A            6 ELKVCLLGDTGVGKSSIMWRFVED   29 (170)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcC
Confidence            346789999999999999988654

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=94.08  E-value=0.042  Score=41.87  Aligned_cols=24  Identities=38%  Similarity=0.635  Sum_probs=20.2

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..-|.++|.+|+|||||.+.+...
T Consensus         4 ~~~i~v~G~~~~GKssl~~~l~~~   27 (168)
T 1u8z_A            4 LHKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhC
Confidence            356789999999999999988653

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=94.06  E-value=0.029  Score=49.50  Aligned_cols=23  Identities=30%  Similarity=0.452  Sum_probs=20.3

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|+|||||.+.+..
T Consensus        54 Gei~~IiGpnGaGKSTLlr~i~G   76 (366)
T 3tui_C           54 GQIYGVIGASGAGKSTLIRCVNL   76 (366)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEEcCCCchHHHHHHHHhc
Confidence            45899999999999999998854

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B*

Probab=94.06  E-value=0.027  Score=44.20  Aligned_cols=25  Identities=28%  Similarity=0.278  Sum_probs=20.8

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..--|.|+|.+|+|||||++.+...
T Consensus         6 ~~~ki~v~G~~~vGKSsli~~l~~~   30 (184)
T 1m7b_A            6 VKCKIVVVGDSQCGKTALLHVFAKD   30 (184)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEEEECCCCCCHHHHHHHHhcC
Confidence            3456789999999999999988653

>2xau_A PRE-mRNA-splicing factor ATP-dependent RNA helica; hydrolase, ribosome biogenesis, ATPase, ATP-binding, OB-fold; HET: ADP; 1.90A {Saccharomyces cerevisiae} PDB: 3kx2_B*

Probab=94.05  E-value=0.37  Score=47.00  Aligned_cols=90  Identities=21%  Similarity=0.198  Sum_probs=45.2

Q ss_pred             EEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCC--------------CC----
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHES--------------HL----  258 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~--------------~~----  258 (314)
                      .++.|+|+.|+||||++..+.............+.+......-...+...+...++....              ..    
T Consensus       110 ~~vii~gpTGSGKTtllp~ll~~~~~~~~~g~~ilvl~P~r~La~q~~~~l~~~~~~~v~~~vG~~i~~~~~~~~~~~I~  189 (773)
T 2xau_A          110 QIMVFVGETGSGKTTQIPQFVLFDEMPHLENTQVACTQPRRVAAMSVAQRVAEEMDVKLGEEVGYSIRFENKTSNKTILK  189 (773)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHHHHCGGGGTCEEEEEESCHHHHHHHHHHHHHHTTCCBTTTEEEEETTEEECCTTCSEE
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhccccCCCceEEecCchHHHHHHHHHHHHHHhCCchhheecceeccccccCCCCCEE
Confidence            478999999999999765554322211111233444333332333444445444432110              00    


Q ss_pred             -CcHHHHHHHHHH-HccCceEEEEEecccc
Q 048765          259 -GEFQSLLRHIYE-SIAGKSFLLVLDDVWD  286 (314)
Q Consensus       259 -~~~~~~~~~l~~-~L~~kr~LlVlDdv~~  286 (314)
                       ..-..+...+.. .+-.+--+||||++..
T Consensus       190 v~T~G~l~r~l~~~~~l~~~~~lIlDEah~  219 (773)
T 2xau_A          190 YMTDGMLLREAMEDHDLSRYSCIILDEAHE  219 (773)
T ss_dssp             EEEHHHHHHHHHHSTTCTTEEEEEECSGGG
T ss_pred             EECHHHHHHHHhhCccccCCCEEEecCccc
Confidence             012333333322 2345667999999964

>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein structure initiative, NEW YORK SGX research for structural genomics; 1.80A {Escherichia coli} SCOP: c.37.1.10

Probab=94.05  E-value=0.098  Score=45.72  Aligned_cols=25  Identities=20%  Similarity=0.252  Sum_probs=21.9

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+..+++|+|.+|+|||||+..+..
T Consensus        54 ~~~~~i~i~G~~g~GKSTl~~~l~~   78 (341)
T 2p67_A           54 GNTLRLGVTGTPGAGKSTFLEAFGM   78 (341)
T ss_dssp             SCSEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHH
Confidence            4568999999999999999998864

>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=94.04  E-value=0.027  Score=44.82  Aligned_cols=23  Identities=39%  Similarity=0.629  Sum_probs=20.1

Q ss_pred             CeEEEEEEccCCCChHHHHHHhh
Q 048765          195 GLHIISIVGMGGIGKTTLAQLAC  217 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~  217 (314)
                      ..--|.|+|.+|+|||||.+.+.
T Consensus        22 ~~~ki~vvG~~~vGKSsLi~~l~   44 (195)
T 3cbq_A           22 GIFKVMLVGESGVGKSTLAGTFG   44 (195)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHTC
T ss_pred             cEEEEEEECCCCCCHHHHHHHHH
Confidence            45678899999999999999985

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=94.02  E-value=0.028  Score=44.25  Aligned_cols=24  Identities=25%  Similarity=0.184  Sum_probs=19.9

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .--|.|+|.+|+|||||+..+...
T Consensus        20 ~~ki~ivG~~~vGKSsL~~~~~~~   43 (184)
T 3ihw_A           20 ELKVGIVGNLSSGKSALVHRYLTG   43 (184)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            456789999999999999877553

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=94.02  E-value=0.062  Score=45.00  Aligned_cols=37  Identities=30%  Similarity=0.325  Sum_probs=26.2

Q ss_pred             EEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcC
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVS  235 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~  235 (314)
                      ++|+|.|-||+||||++..+.....  ..-..+.-|++.
T Consensus         2 ~vI~vs~KGGvGKTT~a~nLA~~la--~~G~~VlliD~D   38 (269)
T 1cp2_A            2 RQVAIYGKGGIGKSTTTQNLTSGLH--AMGKTIMVVGCD   38 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHH--TTTCCEEEEEEC
T ss_pred             cEEEEecCCCCcHHHHHHHHHHHHH--HCCCcEEEEcCC
Confidence            5788889999999999988876332  222345666653

>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP; 1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A* 1svw_A*

Probab=94.02  E-value=0.033  Score=43.91  Aligned_cols=25  Identities=28%  Similarity=0.512  Sum_probs=21.5

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ....|.|+|..|+|||||.+.+...
T Consensus        22 ~~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 1svi_A           22 GLPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             CCCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4567889999999999999998764

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=94.02  E-value=0.032  Score=43.79  Aligned_cols=21  Identities=29%  Similarity=0.468  Sum_probs=18.8

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +..|+|+.|+|||||+..++-
T Consensus        28 ~~~i~G~NGsGKStll~ai~~   48 (182)
T 3kta_A           28 FTAIVGANGSGKSNIGDAILF   48 (182)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            789999999999999988743

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=94.01  E-value=0.04  Score=42.69  Aligned_cols=26  Identities=31%  Similarity=0.510  Sum_probs=21.7

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhch
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ....-|.|+|..|+|||||.+.+...
T Consensus         7 ~~~~~i~v~G~~~~GKssli~~l~~~   32 (181)
T 2fn4_A            7 SETHKLVVVGGGGVGKSALTIQFIQS   32 (181)
T ss_dssp             SCEEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhC
Confidence            34567899999999999999988654

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=94.01  E-value=0.028  Score=43.55  Aligned_cols=26  Identities=27%  Similarity=0.460  Sum_probs=21.7

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhch
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ...--|.|+|..|+|||||.+.+...
T Consensus         7 ~~~~~i~v~G~~~~GKssl~~~l~~~   32 (181)
T 3tw8_B            7 DHLFKLLIIGDSGVGKSSLLLRFADN   32 (181)
T ss_dssp             CEEEEEEEECCTTSCHHHHHHHHCSC
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhcC
Confidence            34567889999999999999998754

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=94.01  E-value=0.031  Score=45.08  Aligned_cols=26  Identities=31%  Similarity=0.252  Sum_probs=21.8

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhch
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .....|.|+|.+|+|||||+..+...
T Consensus        10 ~~~~~i~~~G~~g~GKTsl~~~l~~~   35 (218)
T 1nrj_B           10 SYQPSIIIAGPQNSGKTSLLTLLTTD   35 (218)
T ss_dssp             CCCCEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            34567889999999999999988753

>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=94.00  E-value=0.029  Score=43.98  Aligned_cols=22  Identities=27%  Similarity=0.363  Sum_probs=19.3

Q ss_pred             EEEEEccCCCChHHHHHHhhch
Q 048765          198 IISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      -|.|+|.+|+|||||...+...
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            4789999999999999988764

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=93.98  E-value=0.029  Score=43.38  Aligned_cols=24  Identities=29%  Similarity=0.569  Sum_probs=20.5

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..--|.|+|.+|+|||||.+.+..
T Consensus         6 ~~~~i~v~G~~~~GKSsli~~l~~   29 (177)
T 1wms_A            6 SLFKVILLGDGGVGKSSLMNRYVT   29 (177)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHc
Confidence            345688999999999999998864

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=93.97  E-value=0.031  Score=49.18  Aligned_cols=22  Identities=32%  Similarity=0.643  Sum_probs=19.9

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+++|+|+.|+|||||.+.++.
T Consensus        42 e~~~llGpnGsGKSTLLr~iaG   63 (355)
T 1z47_A           42 EMVGLLGPSGSGKTTILRLIAG   63 (355)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCCcHHHHHHHHhC
Confidence            5899999999999999998864

>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=93.96  E-value=0.1  Score=49.38  Aligned_cols=47  Identities=19%  Similarity=0.061  Sum_probs=29.5

Q ss_pred             EEEEEEccCCCChHHHHHHhhchHhhh-hcCceeEEEEcCccccHHHH
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHEEVI-RKFDKILWVCVSETFEEFRV  243 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~~~~-~~F~~~~wv~~~~~~~~~~~  243 (314)
                      +++.|.|.+|+||||++..+....... ..-...+.+..+.......+
T Consensus       165 ~~~vi~G~pGTGKTt~l~~ll~~l~~~~~~~~~~vll~APTg~AA~~L  212 (608)
T 1w36_D          165 RISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAAPTGKAAARL  212 (608)
T ss_dssp             SEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEBSSHHHHHHH
T ss_pred             CCEEEEeCCCCCHHHHHHHHHHHHHHhhhcCCCeEEEEeCChhHHHHH
Confidence            588899999999999998776532211 11234566666554444433

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A*

Probab=93.94  E-value=0.03  Score=42.81  Aligned_cols=23  Identities=17%  Similarity=0.332  Sum_probs=19.8

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .--|.|+|..|+|||||.+.+..
T Consensus         6 ~~~i~v~G~~~~GKssli~~l~~   28 (170)
T 1r2q_A            6 QFKLVLLGESAVGKSSLVLRFVK   28 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHHc
Confidence            34678999999999999998865

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=93.93  E-value=0.03  Score=42.94  Aligned_cols=22  Identities=27%  Similarity=0.404  Sum_probs=19.3

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      --|.|+|..|+|||||.+.+..
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~   25 (170)
T 1g16_A            4 MKILLIGDSGVGKSCLLVRFVE   25 (170)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECcCCCCHHHHHHHHHh
Confidence            4578999999999999998864

>4dzz_A Plasmid partitioning protein PARF; deviant walker BOX, DNA segregation, unknown function; HET: ADP; 1.80A {Escherichia coli} PDB: 4e03_A* 4e07_A* 4e09_A*

Probab=93.93  E-value=0.091  Score=41.83  Aligned_cols=43  Identities=26%  Similarity=0.169  Sum_probs=29.0

Q ss_pred             EEEEEE-ccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHH
Q 048765          197 HIISIV-GMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEF  241 (314)
Q Consensus       197 ~vi~I~-G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~  241 (314)
                      ++|+|+ +-||+||||++..+.....  ..-..++.+++....+..
T Consensus         2 ~vi~v~s~kgG~GKTt~a~~la~~la--~~g~~vlliD~D~~~~~~   45 (206)
T 4dzz_A            2 KVISFLNPKGGSGKTTAVINIATALS--RSGYNIAVVDTDPQMSLT   45 (206)
T ss_dssp             EEEEECCSSTTSSHHHHHHHHHHHHH--HTTCCEEEEECCTTCHHH
T ss_pred             eEEEEEeCCCCccHHHHHHHHHHHHH--HCCCeEEEEECCCCCCHH
Confidence            578888 6799999999988876332  223356677765444433

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=93.92  E-value=0.03  Score=44.12  Aligned_cols=23  Identities=30%  Similarity=0.170  Sum_probs=19.2

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .--|.|+|.+|+|||||++.+..
T Consensus        14 ~~ki~vvG~~~~GKssL~~~l~~   36 (198)
T 3t1o_A           14 NFKIVYYGPGLSGKTTNLKWIYS   36 (198)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHHh
Confidence            45678999999999999976653

>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=93.92  E-value=0.042  Score=43.33  Aligned_cols=25  Identities=24%  Similarity=0.393  Sum_probs=21.0

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..--|.|+|..|+|||||.+.+...
T Consensus        24 ~~~ki~v~G~~~~GKSsLi~~l~~~   48 (193)
T 2oil_A           24 FVFKVVLIGESGVGKTNLLSRFTRN   48 (193)
T ss_dssp             EEEEEEEESSTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECcCCCCHHHHHHHHhcC
Confidence            3557889999999999999988653

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=93.91  E-value=0.035  Score=43.66  Aligned_cols=25  Identities=24%  Similarity=0.325  Sum_probs=21.2

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ....|.|+|..|+|||||...+...
T Consensus        22 ~~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 3pqc_A           22 LKGEVAFVGRSNVGKSSLLNALFNR   46 (195)
T ss_dssp             TTCEEEEEEBTTSSHHHHHHHHHTS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHcC
Confidence            3457889999999999999998764

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=93.90  E-value=0.041  Score=42.64  Aligned_cols=25  Identities=32%  Similarity=0.509  Sum_probs=21.1

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ...-|.|+|..|+|||||.+.+...
T Consensus         7 ~~~~i~v~G~~~~GKSsli~~l~~~   31 (182)
T 1ky3_A            7 NILKVIILGDSGVGKTSLMHRYVND   31 (182)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhC
Confidence            4567889999999999999888653

>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=93.90  E-value=0.037  Score=44.31  Aligned_cols=22  Identities=27%  Similarity=0.300  Sum_probs=19.8

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +.|.|.|+.|+||||||..+..
T Consensus        35 ~~ilI~GpsGsGKStLA~~La~   56 (205)
T 2qmh_A           35 LGVLITGDSGVGKSETALELVQ   56 (205)
T ss_dssp             EEEEEECCCTTTTHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            5688999999999999998865

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens}

Probab=93.85  E-value=0.032  Score=43.99  Aligned_cols=25  Identities=24%  Similarity=0.236  Sum_probs=20.6

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..--|.|+|.+|+|||||++.+...
T Consensus        20 ~~~ki~vvG~~~vGKTsLi~~l~~~   44 (187)
T 3c5c_A           20 LEVNLAILGRRGAGKSALTVKFLTK   44 (187)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEEECCCCCcHHHHHHHHHhC
Confidence            3456789999999999999888653

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=93.84  E-value=0.13  Score=41.67  Aligned_cols=52  Identities=17%  Similarity=0.211  Sum_probs=32.1

Q ss_pred             EEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHH
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVE  249 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~  249 (314)
                      ..|.+-|..|+||||+++.+...... ..+..+.+..-+......+.++.++.
T Consensus         4 ~~i~~eG~~gsGKsT~~~~l~~~l~~-~~~~~v~~~rep~~t~~g~~ir~~l~   55 (213)
T 4tmk_A            4 KYIVIEGLEGAGKTTARNVVVETLEQ-LGIRDMVFTREPGGTQLAEKLRSLLL   55 (213)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHHH-TTCCCEEEEESSCSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHH-cCCCcceeeeCCCCCHHHHHHHHHHh
Confidence            47889999999999999999874332 23433344433333333444455544

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=93.84  E-value=0.032  Score=43.12  Aligned_cols=25  Identities=24%  Similarity=0.307  Sum_probs=21.1

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..--|.|+|..|+|||||.+.+...
T Consensus        14 ~~~~i~v~G~~~~GKSsli~~l~~~   38 (179)
T 1z0f_A           14 YIFKYIIIGDMGVGKSCLLHQFTEK   38 (179)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECCCCCCHHHHHHHHHcC
Confidence            3567889999999999999998653

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=93.84  E-value=0.071  Score=45.32  Aligned_cols=42  Identities=19%  Similarity=0.224  Sum_probs=28.3

Q ss_pred             HHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          178 KNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       178 ~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .+.+.+.|..-..........|+|+|.+|+|||||...+...
T Consensus         8 ~~~l~~~l~~~~~~~~~~~~~i~vvG~~~~GKSSLln~l~g~   49 (299)
T 2aka_B            8 VNRLQDAFSAIGQNADLDLPQIAVVGGQSAGKSSVLENFVGR   49 (299)
T ss_dssp             HHHHHHHHTTSCCCTTCCCCEEEEEEBTTSCHHHHHHHHHTS
T ss_pred             HHHHHHHHHhcCCCCCCCCCeEEEEeCCCCCHHHHHHHHHCC
Confidence            344555554322112245668999999999999999998753

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A*

Probab=93.83  E-value=0.039  Score=43.94  Aligned_cols=23  Identities=26%  Similarity=0.442  Sum_probs=19.8

Q ss_pred             EEEEEEccCCCChHHHHHHhhch
Q 048765          197 HIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .-|.++|.+|+|||||.+.+..+
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            45789999999999999998753

>2afh_E Nitrogenase iron protein 1; nitrogen fixation, iron-sulfur, metal-binding, molybdenum, oxidoreductase; HET: HCA CFN CLF PGE PG4 P6G 1PE; 2.10A {Azotobacter vinelandii} SCOP: c.37.1.10 PDB: 1g1m_A 1g5p_A 1m1y_E* 1m34_E* 1n2c_E* 1nip_A* 1fp6_A* 2afi_E* 2afk_E* 2nip_A 1de0_A 1xcp_A* 1xdb_A 1xd8_A 1xd9_A* 1g20_E* 1g21_E* 2c8v_A* 1rw4_A

Probab=93.82  E-value=0.073  Score=45.20  Aligned_cols=38  Identities=29%  Similarity=0.335  Sum_probs=26.7

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcC
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVS  235 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~  235 (314)
                      .++|+|.|-||+||||++..+.....  ..-..+.-|++.
T Consensus         2 MkvIavs~KGGvGKTT~a~nLA~~La--~~G~rVlliD~D   39 (289)
T 2afh_E            2 MRQCAIYGKGGIGKSTTTQNLVAALA--EMGKKVMIVGCD   39 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHH--HTTCCEEEEEEC
T ss_pred             ceEEEEeCCCcCcHHHHHHHHHHHHH--HCCCeEEEEecC
Confidence            36888899999999999988876432  222245566653

>3lv8_A DTMP kinase, thymidylate kinase; structural genomics, in diseases, center for structural genomics of infectious DISE ATP-binding; HET: ADP TMP TYD; 1.80A {Vibrio cholerae o1 biovar eltor} PDB: 3n2i_A*

Probab=93.82  E-value=0.13  Score=42.39  Aligned_cols=37  Identities=27%  Similarity=0.350  Sum_probs=26.8

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEE
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVC  233 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~  233 (314)
                      ...|.|.|+.|+||||+++.+...... .++..+....
T Consensus        27 ~~~i~~eG~~GsGKsT~~~~l~~~l~~-~~~~~~~~~r   63 (236)
T 3lv8_A           27 AKFIVIEGLEGAGKSTAIQVVVETLQQ-NGIDHITRTR   63 (236)
T ss_dssp             CCEEEEEESTTSCHHHHHHHHHHHHHH-TTCCCEEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHh-cCCCeeeeec
Confidence            458899999999999999999874332 3455344444

>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=93.81  E-value=0.11  Score=46.33  Aligned_cols=60  Identities=22%  Similarity=0.223  Sum_probs=36.0

Q ss_pred             cccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCc
Q 048765          171 ICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSE  236 (314)
Q Consensus       171 ~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~  236 (314)
                      ++|....+..+.+.+..-..   .... +.|.|..|+|||++|+.++...  ...-...+-++++.
T Consensus       139 ~ig~s~~m~~l~~~i~~~a~---~~~~-vli~Ge~GtGK~~lAr~ih~~s--~r~~~~fv~v~~~~  198 (387)
T 1ny5_A          139 YVFESPKMKEILEKIKKISC---AECP-VLITGESGVGKEVVARLIHKLS--DRSKEPFVALNVAS  198 (387)
T ss_dssp             CCCCSHHHHHHHHHHHHHTT---CCSC-EEEECSTTSSHHHHHHHHHHHS--TTTTSCEEEEETTT
T ss_pred             hhhccHHhhHHHHHHHHhcC---CCCC-eEEecCCCcCHHHHHHHHHHhc--CCCCCCeEEEecCC
Confidence            55555566666555443221   2233 4899999999999999987632  22223334566654

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=93.81  E-value=0.034  Score=49.32  Aligned_cols=23  Identities=30%  Similarity=0.502  Sum_probs=20.4

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|+|||||.+.+..
T Consensus        29 Ge~~~llGpsGsGKSTLLr~iaG   51 (381)
T 3rlf_A           29 GEFVVFVGPSGCGKSTLLRMIAG   51 (381)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEEcCCCchHHHHHHHHHc
Confidence            35899999999999999998864

>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport, alpha and beta proteins (A/B) TM0421, structural genomics, NPPSFA; 2.11A {Thermotoga maritima}

Probab=93.81  E-value=0.034  Score=48.96  Aligned_cols=23  Identities=26%  Similarity=0.423  Sum_probs=20.3

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|+|||||.+.++.
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaG   51 (359)
T 2yyz_A           29 GEFVALLGPSGCGKTTTLLMLAG   51 (359)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCEEEEEcCCCchHHHHHHHHHC
Confidence            35899999999999999998864

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B*

Probab=93.78  E-value=0.032  Score=44.13  Aligned_cols=22  Identities=32%  Similarity=0.463  Sum_probs=19.5

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..|.++|.+|+|||||.+.+..
T Consensus        24 ~ki~~vG~~~vGKSsli~~l~~   45 (190)
T 1m2o_B           24 GKLLFLGLDNAGKTTLLHMLKN   45 (190)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHhc
Confidence            3678999999999999998875

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=93.77  E-value=0.033  Score=43.53  Aligned_cols=24  Identities=25%  Similarity=0.411  Sum_probs=20.2

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .--|.|+|.+|+|||||.+.+...
T Consensus         4 ~~ki~v~G~~~~GKSsli~~l~~~   27 (189)
T 4dsu_A            4 EYKLVVVGADGVGKSALTIQLIQN   27 (189)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEEECCCCCCHHHHHHHHHhC
Confidence            345789999999999999998753

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=93.77  E-value=0.035  Score=48.97  Aligned_cols=23  Identities=26%  Similarity=0.411  Sum_probs=20.3

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|+|||||.+.++.
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaG   51 (362)
T 2it1_A           29 GEFMALLGPSGSGKSTLLYTIAG   51 (362)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCchHHHHHHHHhc
Confidence            35899999999999999998864

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A*

Probab=93.77  E-value=0.035  Score=44.04  Aligned_cols=23  Identities=30%  Similarity=0.566  Sum_probs=19.7

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .--|.|+|.+|+|||||.+.+..
T Consensus         6 ~~kv~lvG~~~vGKSsL~~~~~~   28 (192)
T 2cjw_A            6 YYRVVLIGEQGVGKSTLANIFAG   28 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHhc
Confidence            45688999999999999988863

>3vr4_D V-type sodium ATPase subunit D; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_D* 3vr2_D* 3vr5_D 3vr6_D*

Probab=93.75  E-value=0.11  Score=46.97  Aligned_cols=85  Identities=14%  Similarity=0.187  Sum_probs=49.4

Q ss_pred             EEEEEccCCCChHHHHHHhhchHhhhhcCc----eeEEEEcCccc-cHHHHHHHHHHHh--cCC------CCCCCcHH--
Q 048765          198 IISIVGMGGIGKTTLAQLACNHEEVIRKFD----KILWVCVSETF-EEFRVAKAMVEAL--DGH------ESHLGEFQ--  262 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~----~~~wv~~~~~~-~~~~~~~~i~~~~--~~~------~~~~~~~~--  262 (314)
                      -++|+|..|+|||+|+.++.+....  +.+    .++++-+.+.. .+.++...+...-  ...      .+.....+  
T Consensus       153 r~~Ifgg~G~GKt~L~~~Ia~~~~~--~~d~~~~~~V~~~iGeR~~Ev~e~~~~~~~~g~~~rtvvV~atsd~p~~~r~~  230 (465)
T 3vr4_D          153 KLPVFSGSGLPHKELAAQIARQATV--LDSSDDFAVVFAAIGITFEEAEFFMEDFRQTGAIDRSVMFMNLANDPAIERIA  230 (465)
T ss_dssp             BCCEEECTTSCHHHHHHHHHHHCBC--SSCSSCEEEEEEEEEECHHHHHHHHHHHHHHTGGGGEEEEEEETTSCHHHHHH
T ss_pred             EEEEeCCCCcChHHHHHHHHHHHHh--ccCCCceEEEEEEecCCcHHHHHHHHHHhhcCCccceEEEEECCCCCHHHHHH
Confidence            4678999999999999988874332  223    56667676544 3445555554421  100      11111111  


Q ss_pred             --HHHHHHHHHc---cCceEEEEEecc
Q 048765          263 --SLLRHIYESI---AGKSFLLVLDDV  284 (314)
Q Consensus       263 --~~~~~l~~~L---~~kr~LlVlDdv  284 (314)
                        ...-.+.+++   +++..||++||+
T Consensus       231 a~~~a~tiAEyfrd~~G~~VLl~~Dsl  257 (465)
T 3vr4_D          231 TPRMALTAAEYLAYEKGMHVLVIMTDM  257 (465)
T ss_dssp             HHHHHHHHHHHHHHTTCCEEEEEEECH
T ss_pred             HHHHHHHHHHHHHHhcCCeEEEEEcCh
Confidence              1122344555   378999999999

>3gqb_B V-type ATP synthase beta chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_D* 3a5d_D 3j0j_D*

Probab=93.73  E-value=0.065  Score=48.45  Aligned_cols=88  Identities=13%  Similarity=0.150  Sum_probs=49.7

Q ss_pred             EEEEEEccCCCChHHHHHHhhchHhhh--------hcCc-eeEEEEcCccc-cHHHHHHHHHHH--hcC------CCCCC
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHEEVI--------RKFD-KILWVCVSETF-EEFRVAKAMVEA--LDG------HESHL  258 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~~~~--------~~F~-~~~wv~~~~~~-~~~~~~~~i~~~--~~~------~~~~~  258 (314)
                      .-++|+|..|+|||+|+..+.+.....        ++-+ .++++-+.+.. .+.++...+...  +..      ..+..
T Consensus       148 Qr~~Ifgg~G~GKt~L~~~Ia~~~~a~~~~~~~~~d~~~~~~V~~~iGeR~~Ev~e~~~~l~~~g~~~rtvvv~~t~d~p  227 (464)
T 3gqb_B          148 QKLPIFSGSGLPANEIAAQIARQATVRPDLSGEGEKEEPFAVVFAAMGITQRELSYFIQEFERTGALSRSVLFLNKADDP  227 (464)
T ss_dssp             CBCCEEEETTSCHHHHHHHHHHHCBCCHHHHCCCSTTCCEEEEEEEEEECHHHHHHHHHHHHHTSGGGGEEEEEEETTSC
T ss_pred             CEEEEecCCCCCchHHHHHHHHHHHhcccccccccCCCceEEEEEEecCchHHHHHHHHHhhhcccccceEEEEECCCCC
Confidence            356788999999999999888754331        1222 56666676544 334555554432  100      01111


Q ss_pred             CcHH----HHHHHHHHHc---cCceEEEEEecc
Q 048765          259 GEFQ----SLLRHIYESI---AGKSFLLVLDDV  284 (314)
Q Consensus       259 ~~~~----~~~~~l~~~L---~~kr~LlVlDdv  284 (314)
                      ...+    ...-.+.+++   +++..||++||+
T Consensus       228 ~~~r~~~~~~a~tiAEyfrd~~G~~VLl~~Ddl  260 (464)
T 3gqb_B          228 TIERILTPRMALTVAEYLAFEHDYHVLVILTDM  260 (464)
T ss_dssp             THHHHHHHHHHHHHHHHHHHTTCCEEEEEEETH
T ss_pred             HHHHHHHHHHHHHHHHHHHHhcCCeEEEEEcCh
Confidence            1111    1122344555   378999999999

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=93.71  E-value=0.036  Score=49.08  Aligned_cols=22  Identities=27%  Similarity=0.508  Sum_probs=19.9

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+++|+|+.|+|||||.+.++.
T Consensus        30 e~~~llGpnGsGKSTLLr~iaG   51 (372)
T 1g29_1           30 EFMILLGPSGCGKTTTLRMIAG   51 (372)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCcHHHHHHHHHHc
Confidence            5899999999999999999864

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*

Probab=93.70  E-value=0.047  Score=41.84  Aligned_cols=24  Identities=33%  Similarity=0.310  Sum_probs=20.4

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +...|.|+|.+|+|||||...+..
T Consensus         6 ~~~~i~v~G~~~~GKssl~~~l~~   29 (171)
T 1upt_A            6 REMRILILGLDGAGKTTILYRLQV   29 (171)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CccEEEEECCCCCCHHHHHHHHhc
Confidence            345688999999999999999864

>1ega_A Protein (GTP-binding protein ERA); GTPase, RNA-binding, RAS-like, hydrolase; 2.40A {Escherichia coli} SCOP: c.37.1.8 d.52.3.1 PDB: 1x1l_X 3ieu_A* 1x18_X

Probab=93.70  E-value=0.044  Score=47.06  Aligned_cols=25  Identities=32%  Similarity=0.368  Sum_probs=21.7

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      +...|+|+|.+|+|||||.+.+...
T Consensus         7 r~~~VaIvG~~nvGKSTLln~L~g~   31 (301)
T 1ega_A            7 YCGFIAIVGRPNVGKSTLLNKLLGQ   31 (301)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHCC
Confidence            4568999999999999999998753

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=93.69  E-value=0.046  Score=43.17  Aligned_cols=26  Identities=23%  Similarity=0.263  Sum_probs=22.1

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhch
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .....|.|+|..|+|||||...+...
T Consensus        15 ~~~~ki~v~G~~~~GKSsl~~~l~~~   40 (199)
T 4bas_A           15 KTKLQVVMCGLDNSGKTTIINQVKPA   40 (199)
T ss_dssp             -CEEEEEEECCTTSCHHHHHHHHSCC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhcC
Confidence            45678899999999999999998764

>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=93.68  E-value=0.035  Score=43.53  Aligned_cols=24  Identities=25%  Similarity=0.278  Sum_probs=20.6

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..--|.|+|..|+|||||++.+..
T Consensus        10 ~~~ki~v~G~~~~GKSsli~~l~~   33 (195)
T 3bc1_A           10 YLIKFLALGDSGVGKTSVLYQYTD   33 (195)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             eeEEEEEECCCCCCHHHHHHHHhc
Confidence            355678999999999999998875

>2c61_A A-type ATP synthase non-catalytic subunit B; hydrolase, H+ ATPase, A1AO, ATP synthesis, hydrogen ION transport, ION transport; 1.5A {Methanosarcina mazei GO1} PDB: 3dsr_A* 3b2q_A* 2rkw_A* 3eiu_A*

Probab=93.68  E-value=0.078  Score=48.15  Aligned_cols=88  Identities=13%  Similarity=0.118  Sum_probs=50.6

Q ss_pred             EEEEEEccCCCChHHHHHHhhchHhhhhc--CceeEEEEcCccc-cHHHHHHHHHHHhcCC--------CCCCCcHH---
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHEEVIRK--FDKILWVCVSETF-EEFRVAKAMVEALDGH--------ESHLGEFQ---  262 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~--F~~~~wv~~~~~~-~~~~~~~~i~~~~~~~--------~~~~~~~~---  262 (314)
                      .-++|+|..|+|||+|+..++.+......  =+.++++-+.+.. .+.++...+...-...        .+.....+   
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            35567899999999999998875443221  1356677776644 3455665655431110        11111111   


Q ss_pred             -HHHHHHHHHc---cCceEEEEEecc
Q 048765          263 -SLLRHIYESI---AGKSFLLVLDDV  284 (314)
Q Consensus       263 -~~~~~l~~~L---~~kr~LlVlDdv  284 (314)
                       ...-.+.+++   +++..||++||+
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             1122234444   479999999998

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=93.68  E-value=0.027  Score=43.73  Aligned_cols=24  Identities=17%  Similarity=0.177  Sum_probs=20.2

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .--|.++|.+|+|||+|.+.+...
T Consensus         7 ~~ki~~vG~~~vGKTsli~~l~~~   30 (178)
T 2iwr_A            7 ELRLGVLGDARSGKSSLIHRFLTG   30 (178)
T ss_dssp             EEEEEEECCGGGCHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            446789999999999999988653

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=93.67  E-value=0.038  Score=43.11  Aligned_cols=25  Identities=28%  Similarity=0.430  Sum_probs=21.0

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..--|.|+|.+|+|||||.+.+...
T Consensus        17 ~~~ki~v~G~~~~GKSsl~~~l~~~   41 (183)
T 3kkq_A           17 PTYKLVVVGDGGVGKSALTIQFFQK   41 (183)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhC
Confidence            4556789999999999999998753

>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=93.67  E-value=0.034  Score=43.02  Aligned_cols=22  Identities=23%  Similarity=0.300  Sum_probs=19.3

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      --|.|+|..|+|||||.+.+..
T Consensus        15 ~~i~v~G~~~~GKssli~~l~~   36 (179)
T 2y8e_A           15 FKLVFLGEQSVGKTSLITRFMY   36 (179)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHc
Confidence            4678999999999999998864

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=93.66  E-value=0.035  Score=43.30  Aligned_cols=23  Identities=30%  Similarity=0.307  Sum_probs=19.6

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .--|.|+|.+|+|||||.+.+..
T Consensus         5 ~~~i~~~G~~~~GKssl~~~l~~   27 (186)
T 1mh1_A            5 AIKCVVVGDGAVGKTCLLISYTT   27 (186)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEEECCCCCCHHHHHHHHHc
Confidence            34678999999999999988864

>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active transport, sugar uptake and regulation, transport protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 1vci_A*

Probab=93.64  E-value=0.038  Score=48.94  Aligned_cols=23  Identities=26%  Similarity=0.439  Sum_probs=20.3

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|+|||||.+.++.
T Consensus        37 Ge~~~llGpnGsGKSTLLr~iaG   59 (372)
T 1v43_A           37 GEFLVLLGPSGCGKTTTLRMIAG   59 (372)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCChHHHHHHHHHc
Confidence            35899999999999999998854

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=93.62  E-value=0.058  Score=46.34  Aligned_cols=32  Identities=25%  Similarity=0.343  Sum_probs=25.4

Q ss_pred             hHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhh
Q 048765          177 EKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLAC  217 (314)
Q Consensus       177 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~  217 (314)
                      .++.|.+.+.         -.+++++|+.|+|||||.+.+.
T Consensus       155 gi~~L~~~l~---------G~i~~l~G~sG~GKSTLln~l~  186 (302)
T 2yv5_A          155 GIDELVDYLE---------GFICILAGPSGVGKSSILSRLT  186 (302)
T ss_dssp             THHHHHHHTT---------TCEEEEECSTTSSHHHHHHHHH
T ss_pred             CHHHHHhhcc---------CcEEEEECCCCCCHHHHHHHHH
Confidence            3566666653         2478999999999999999987

>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC, mitosis, GDP, C cycle, cell division, GTP-binding, nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB: 2qa5_A* 3ftq_A*

Probab=93.62  E-value=0.032  Score=47.95  Aligned_cols=22  Identities=32%  Similarity=0.525  Sum_probs=18.9

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..+ +|+|..|+|||||.+.++.
T Consensus        19 ~~I-~lvG~nG~GKSTLl~~L~g   40 (301)
T 2qnr_A           19 FTL-MVVGESGLGKSTLINSLFL   40 (301)
T ss_dssp             EEE-EEEEETTSSHHHHHHHHHC
T ss_pred             EEE-EEECCCCCCHHHHHHHHhC
Confidence            444 8999999999999999765

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=93.60  E-value=0.036  Score=43.29  Aligned_cols=25  Identities=24%  Similarity=0.320  Sum_probs=20.9

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..--|.|+|..|+|||||.+.+...
T Consensus         9 ~~~ki~v~G~~~~GKSsli~~l~~~   33 (186)
T 2bme_A            9 FLFKFLVIGNAGTGKSCLLHQFIEK   33 (186)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECCCCCCHHHHHHHHHcC
Confidence            3456789999999999999988653

>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=93.60  E-value=0.035  Score=49.04  Aligned_cols=23  Identities=22%  Similarity=0.330  Sum_probs=20.4

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ...++|+|..|+|||||++.+..
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~g  192 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAA  192 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHH
T ss_pred             hCeEEEECCCCCCHHHHHHHHHH
Confidence            46889999999999999998865

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=93.60  E-value=0.04  Score=49.18  Aligned_cols=22  Identities=32%  Similarity=0.581  Sum_probs=20.0

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+|.|.|+.|+|||||+..++.
T Consensus         3 ~~i~i~GptgsGKttla~~La~   24 (409)
T 3eph_A            3 KVIVIAGTTGVGKSQLSIQLAQ   24 (409)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHH
T ss_pred             cEEEEECcchhhHHHHHHHHHH
Confidence            5889999999999999998865

>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=93.59  E-value=0.11  Score=51.55  Aligned_cols=22  Identities=23%  Similarity=0.110  Sum_probs=19.9

Q ss_pred             CeEEEEEEccCCCChHHHHHHh
Q 048765          195 GLHIISIVGMGGIGKTTLAQLA  216 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v  216 (314)
                      .-.+++|+|+.|.||||+.+.+
T Consensus       661 ~g~i~~ItGpNGsGKSTlLr~i  682 (934)
T 3thx_A          661 KQMFHIITGPNMGGKSTYIRQT  682 (934)
T ss_dssp             TBCEEEEECCTTSSHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHH
Confidence            3468999999999999999988

>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=93.59  E-value=0.24  Score=45.23  Aligned_cols=85  Identities=24%  Similarity=0.224  Sum_probs=49.1

Q ss_pred             EEEEEEccCCCChHHHH-HHhhchHhhhhcCc-eeEEEEcCcccc-HHHHHHHHHHHhcCC--------CCCCCcHHH--
Q 048765          197 HIISIVGMGGIGKTTLA-QLACNHEEVIRKFD-KILWVCVSETFE-EFRVAKAMVEALDGH--------ESHLGEFQS--  263 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa-~~v~~~~~~~~~F~-~~~wv~~~~~~~-~~~~~~~i~~~~~~~--------~~~~~~~~~--  263 (314)
                      .-++|.|..|+|||+|+ ..+.+.    .+-+ .++++-+.+..+ +.++...+...-...        .+.....+-  
T Consensus       163 QR~~Ifg~~g~GKT~l~l~~I~n~----~~~dv~~V~~~IGeR~~ev~e~~~~l~~~g~m~~tvvV~atad~p~~~r~~a  238 (513)
T 3oaa_A          163 QRELIIGDRQTGKTALAIDAIINQ----RDSGIKCIYVAIGQKASTISNVVRKLEEHGALANTIVVVATASESAALQYLA  238 (513)
T ss_dssp             CBCEEEESSSSSHHHHHHHHHHTT----SSSSCEEEEEEESCCHHHHHHHHHHHHHHSCSTTEEEEEECTTSCHHHHHHH
T ss_pred             CEEEeecCCCCCcchHHHHHHHhh----ccCCceEEEEEecCChHHHHHHHHHHhhcCcccceEEEEECCCCChHHHHHH
Confidence            46789999999999996 566652    2334 357787877543 345555544431111        111111111  


Q ss_pred             --HHHHHHHHc--cCceEEEEEeccc
Q 048765          264 --LLRHIYESI--AGKSFLLVLDDVW  285 (314)
Q Consensus       264 --~~~~l~~~L--~~kr~LlVlDdv~  285 (314)
                        ..-.+.+++  +++..||++||+-
T Consensus       239 ~~~a~tiAEyfrd~G~dVLli~Dslt  264 (513)
T 3oaa_A          239 PYAGCAMGEYFRDRGEDALIIYDDLS  264 (513)
T ss_dssp             HHHHHHHHHHHHHTTCEEEEEEETHH
T ss_pred             HHHHHHHHHHHHhcCCCEEEEecChH
Confidence              112233444  6899999999993

>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=93.58  E-value=0.047  Score=47.02  Aligned_cols=27  Identities=26%  Similarity=0.357  Sum_probs=23.5

Q ss_pred             CCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          193 QKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       193 ~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ++....|+|+|.+|+|||||...+...
T Consensus         7 ~~~~g~v~ivG~~nvGKSTLin~l~g~   33 (308)
T 3iev_A            7 HMKVGYVAIVGKPNVGKSTLLNNLLGT   33 (308)
T ss_dssp             CCEEEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCCCCEEEEECCCCCcHHHHHHHHhCC
Confidence            366889999999999999999988653

>2axn_A 6-phosphofructo-2-kinase/fructose-2,6- biphosphatase 3 (6PF-2-K/FRU- 2,6-P2ASE brain/placenta-type...; bifunctional enzyme, EDTA complex; HET: F6P EDT ADP; 2.10A {Homo sapiens} PDB: 2dwo_A* 2dwp_A* 2i1v_B* 3qpu_A* 3qpv_A* 3qpw_A*

Probab=93.58  E-value=0.043  Score=50.97  Aligned_cols=25  Identities=24%  Similarity=0.345  Sum_probs=21.7

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ...+|.++|++|+||||+++.+...
T Consensus        34 ~~~lIvlvGlpGSGKSTia~~La~~   58 (520)
T 2axn_A           34 SPTVIVMVGLPARGKTYISKKLTRY   58 (520)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3568999999999999999998763

>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=93.58  E-value=0.086  Score=48.26  Aligned_cols=86  Identities=16%  Similarity=0.132  Sum_probs=47.6

Q ss_pred             eEEEEEEccCCCChHHHH-HHhhchHhhhhcCc-eeEEEEcCcccc-HHHHHHHHHHHhcC--------CCCCCCcH---
Q 048765          196 LHIISIVGMGGIGKTTLA-QLACNHEEVIRKFD-KILWVCVSETFE-EFRVAKAMVEALDG--------HESHLGEF---  261 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa-~~v~~~~~~~~~F~-~~~wv~~~~~~~-~~~~~~~i~~~~~~--------~~~~~~~~---  261 (314)
                      -.-++|+|..|+|||+|| ..+.+..    .-+ .++++-+.+..+ +.++.+.+...-..        ..+.....   
T Consensus       163 GQR~~Ifg~~g~GKT~Lal~~I~~~~----~~dv~~V~~~iGeR~~Ev~~~~~~~~~~g~m~rtvvV~atad~p~~~r~~  238 (507)
T 1fx0_A          163 GQRELIIGDRQTGKTAVATDTILNQQ----GQNVICVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYL  238 (507)
T ss_dssp             TCBCBEEESSSSSHHHHHHHHHHTCC----TTTCEEEEEEESCCHHHHHHHHHHTGGGTGGGSEEEEEECTTSCGGGTTH
T ss_pred             CCEEEEecCCCCCccHHHHHHHHHhh----cCCcEEEEEEcCCCchHHHHHHHHHHhcCccccceEEEECCCCCHHHHHH
Confidence            345789999999999995 5676632    234 356677776543 33444444331100        01111111   


Q ss_pred             -HHHHHHHHHHc--cCceEEEEEeccc
Q 048765          262 -QSLLRHIYESI--AGKSFLLVLDDVW  285 (314)
Q Consensus       262 -~~~~~~l~~~L--~~kr~LlVlDdv~  285 (314)
                       ....-.+.+++  +++..||++||+-
T Consensus       239 a~~~a~tiAEyfrd~G~dVLli~Dslt  265 (507)
T 1fx0_A          239 APYTGAALAEYFMYRERHTLIIYDDLS  265 (507)
T ss_dssp             HHHHHHHHHHHHHHTTCEEEEEEECHH
T ss_pred             HHHHHHHHHHHHHHcCCcEEEEEecHH
Confidence             11122233333  6899999999983

>2orv_A Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2'deoxythymidil))tetraphosphate, transferase; HET: 4TA; 2.30A {Homo sapiens} SCOP: c.37.1.24 g.39.1.14

Probab=93.58  E-value=0.2  Score=40.98  Aligned_cols=104  Identities=11%  Similarity=0.049  Sum_probs=50.5

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEE-cCccccHHHHHHHHHHHhcCCCC--CCCcHHHHHHHHHHHc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVC-VSETFEEFRVAKAMVEALDGHES--HLGEFQSLLRHIYESI  272 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~-~~~~~~~~~~~~~i~~~~~~~~~--~~~~~~~~~~~l~~~L  272 (314)
                      -.+..++|.-|.||||-+......... ....+.++-. ...... ..    +.+.++....  ...+..++.+.    .
T Consensus        19 g~l~v~~G~MgsGKTT~lL~~~~r~~~-~g~kvli~kp~~D~Ryg-~~----i~sr~G~~~~a~~i~~~~di~~~----~   88 (234)
T 2orv_A           19 GQIQVILGPMFSGKSTELMRRVRRFQI-AQYKCLVIKYAKDTRYS-SS----FCTHDRNTMEALPACLLRDVAQE----A   88 (234)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHHHT-TTCCEEEEEETTCCCC----------------CEEEEESSGGGGHHH----H
T ss_pred             eEEEEEECCCCCcHHHHHHHHHHHHHH-CCCeEEEEeecCCccch-HH----HHhhcCCeeEEEecCCHHHHHHH----h
Confidence            468889999999999877655543222 2233333322 222222 33    3333322211  01111222222    2


Q ss_pred             cCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEeccC
Q 048765          273 AGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTRK  314 (314)
Q Consensus       273 ~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR~  314 (314)
                       ++--+|+||++.-..  ...++...+.+  .|-.||+|-++
T Consensus        89 -~~~dvViIDEaQF~~--~v~el~~~l~~--~gi~VI~~GL~  125 (234)
T 2orv_A           89 -LGVAVIGIDEGQFFP--DIVEFCEAMAN--AGKTVIVAALD  125 (234)
T ss_dssp             -TTCSEEEESSGGGCT--THHHHHHHHHH--TTCEEEEECCS
T ss_pred             -ccCCEEEEEchhhhh--hHHHHHHHHHh--CCCEEEEEecc
Confidence             233499999996553  25556555554  46688888653

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=93.56  E-value=0.038  Score=43.03  Aligned_cols=24  Identities=38%  Similarity=0.635  Sum_probs=20.4

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..-|.|+|..|+|||||.+.+...
T Consensus        18 ~~ki~v~G~~~~GKSsli~~l~~~   41 (187)
T 2a9k_A           18 LHKVIMVGSGGVGKSALTLQFMYD   41 (187)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHhhC
Confidence            456789999999999999988653

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=93.56  E-value=0.048  Score=43.63  Aligned_cols=23  Identities=35%  Similarity=0.557  Sum_probs=20.0

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .--|.|+|..|+|||||++.+..
T Consensus        26 ~~ki~lvG~~~vGKSsLi~~l~~   48 (201)
T 2ew1_A           26 LFKIVLIGNAGVGKTCLVRRFTQ   48 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHH
T ss_pred             ceEEEEECcCCCCHHHHHHHHHh
Confidence            45678999999999999998764

>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria, structural genomics, structural genomics consortium, SGC, unknown function; HET: GDP; 2.01A {Plasmodium falciparum}

Probab=93.55  E-value=0.053  Score=44.19  Aligned_cols=25  Identities=16%  Similarity=0.343  Sum_probs=21.4

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ....|.|+|.+|+|||||+..+...
T Consensus        28 ~~~kI~vvG~~~vGKSsLin~l~~~   52 (228)
T 2qu8_A           28 HKKTIILSGAPNVGKSSFMNIVSRA   52 (228)
T ss_dssp             TSEEEEEECSTTSSHHHHHHHHTTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3567889999999999999998764

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=93.55  E-value=0.039  Score=42.88  Aligned_cols=23  Identities=30%  Similarity=0.306  Sum_probs=19.6

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .--|.|+|.+|+|||||.+.+..
T Consensus         8 ~~ki~v~G~~~~GKssl~~~~~~   30 (182)
T 3bwd_D            8 FIKCVTVGDGAVGKTCLLISYTS   30 (182)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHhc
Confidence            34578999999999999988865

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=93.54  E-value=0.046  Score=42.53  Aligned_cols=24  Identities=33%  Similarity=0.292  Sum_probs=20.7

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +...|.|+|..|+|||||...+..
T Consensus        17 ~~~~i~v~G~~~~GKssli~~l~~   40 (183)
T 1moz_A           17 KELRILILGLDGAGKTTILYRLQI   40 (183)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTCC
T ss_pred             CccEEEEECCCCCCHHHHHHHHhc
Confidence            356788999999999999999874

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=93.54  E-value=0.039  Score=42.85  Aligned_cols=25  Identities=20%  Similarity=0.190  Sum_probs=20.7

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..--|.|+|.+|+|||||.+.+...
T Consensus        11 ~~~ki~v~G~~~~GKSsli~~l~~~   35 (181)
T 2efe_B           11 INAKLVLLGDVGAGKSSLVLRFVKD   35 (181)
T ss_dssp             EEEEEEEECCTTSCHHHHHHHHHHC
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcC
Confidence            3456789999999999999888653

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=93.52  E-value=0.039  Score=43.50  Aligned_cols=24  Identities=21%  Similarity=0.382  Sum_probs=20.4

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .--|.|+|..|+|||||.+.+...
T Consensus        23 ~~ki~v~G~~~~GKSsli~~l~~~   46 (191)
T 3dz8_A           23 MFKLLIIGNSSVGKTSFLFRYADD   46 (191)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eeEEEEECCCCcCHHHHHHHHhcC
Confidence            346789999999999999988764

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=93.51  E-value=0.039  Score=43.71  Aligned_cols=24  Identities=25%  Similarity=0.360  Sum_probs=20.3

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .--|.|+|.+|+|||||+..+...
T Consensus        28 ~~ki~v~G~~~vGKSsli~~l~~~   51 (196)
T 2atv_A           28 EVKLAIFGRAGVGKSALVVRFLTK   51 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            456789999999999999988653

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=93.50  E-value=0.056  Score=42.95  Aligned_cols=25  Identities=36%  Similarity=0.616  Sum_probs=21.0

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ...-|.|+|..|+|||||...+...
T Consensus        13 ~~~ki~v~G~~~~GKSsli~~l~~~   37 (206)
T 2bov_A           13 ALHKVIMVGSGGVGKSALTLQFMYD   37 (206)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhC
Confidence            4567889999999999999988643

>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=93.50  E-value=0.04  Score=43.70  Aligned_cols=23  Identities=17%  Similarity=0.371  Sum_probs=19.4

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .--|.|+|.+|+|||+|.+.+.+
T Consensus        20 ~~ki~~vG~~~vGKTsLi~~l~~   42 (196)
T 3llu_A           20 KPRILLMGLRRSGKSSIQKVVFH   42 (196)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHh
Confidence            45678999999999999987655

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=93.49  E-value=0.04  Score=42.70  Aligned_cols=25  Identities=28%  Similarity=0.288  Sum_probs=20.8

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..--|.|+|..|+|||||...+...
T Consensus         9 ~~~~i~v~G~~~~GKssli~~l~~~   33 (180)
T 2g6b_A            9 VAFKVMLVGDSGVGKTCLLVRFKDG   33 (180)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECcCCCCHHHHHHHHHhC
Confidence            3456789999999999999988653

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* 3sea_A*

Probab=93.49  E-value=0.041  Score=42.81  Aligned_cols=24  Identities=25%  Similarity=0.385  Sum_probs=20.6

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +..-|.|+|.+|+|||||...+..
T Consensus         5 ~~~ki~~~G~~~~GKSsli~~l~~   28 (181)
T 3t5g_A            5 KSRKIAILGYRSVGKSSLTIQFVE   28 (181)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHH
T ss_pred             ceEEEEEECcCCCCHHHHHHHHHc
Confidence            356788999999999999998874

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=93.48  E-value=0.042  Score=43.72  Aligned_cols=25  Identities=24%  Similarity=0.329  Sum_probs=21.0

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..--|.|+|.+|+|||||+..+...
T Consensus         7 ~~~ki~v~G~~~~GKSsli~~l~~~   31 (203)
T 1zbd_A            7 YMFKILIIGNSSVGKTSFLFRYADD   31 (203)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTC
T ss_pred             eeeEEEEECCCCCCHHHHHHHHhcC
Confidence            3456889999999999999988653

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=93.46  E-value=0.04  Score=43.53  Aligned_cols=24  Identities=13%  Similarity=0.231  Sum_probs=20.5

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .--|.|+|..|+|||||...+...
T Consensus         7 ~~ki~v~G~~~~GKSsli~~l~~~   30 (208)
T 3clv_A            7 SYKTVLLGESSVGKSSIVLRLTKD   30 (208)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            456789999999999999998754

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=93.45  E-value=0.04  Score=43.90  Aligned_cols=25  Identities=36%  Similarity=0.480  Sum_probs=21.2

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ...-|.|+|.+|+|||||.+.+...
T Consensus         7 ~~~ki~v~G~~~~GKSsli~~l~~~   31 (207)
T 1vg8_A            7 VLLKVIILGDSGVGKTSLMNQYVNK   31 (207)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcC
Confidence            4567889999999999999988653

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=93.43  E-value=0.044  Score=43.55  Aligned_cols=24  Identities=29%  Similarity=0.317  Sum_probs=20.1

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .--|.|+|.+|+|||||...+...
T Consensus        20 ~~ki~~~G~~~~GKssl~~~l~~~   43 (201)
T 2q3h_A           20 GVKCVLVGDGAVGKTSLVVSYTTN   43 (201)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHC-
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            456789999999999999988764

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=93.42  E-value=0.04  Score=43.90  Aligned_cols=25  Identities=28%  Similarity=0.387  Sum_probs=21.2

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ...-|.|+|.+|+|||||++.+...
T Consensus        23 ~~~ki~vvG~~~~GKSsli~~l~~~   47 (201)
T 3oes_A           23 RYRKVVILGYRCVGKTSLAHQFVEG   47 (201)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             CcEEEEEECCCCcCHHHHHHHHHhC
Confidence            3567889999999999999998753

>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=93.41  E-value=0.042  Score=43.22  Aligned_cols=25  Identities=20%  Similarity=0.189  Sum_probs=21.2

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchH
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHE  220 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~  220 (314)
                      .--|.|+|..|+|||||.+.+....
T Consensus        21 ~~ki~v~G~~~~GKSsli~~l~~~~   45 (190)
T 2h57_A           21 EVHVLCLGLDNSGKTTIINKLKPSN   45 (190)
T ss_dssp             CEEEEEEECTTSSHHHHHHHTSCGG
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcCC
Confidence            3467899999999999999987654

>3fkq_A NTRC-like two-domain protein; RER070207001320, structural GE joint center for structural genomics, JCSG, protein structu initiative, PSI-2; HET: ATP 2PE; 2.10A {Eubacterium rectale}

Probab=93.39  E-value=0.11  Score=45.87  Aligned_cols=41  Identities=15%  Similarity=0.328  Sum_probs=29.3

Q ss_pred             CCCeEEEEEEc-cCCCChHHHHHHhhchHhhhhcCceeEEEEcC
Q 048765          193 QKGLHIISIVG-MGGIGKTTLAQLACNHEEVIRKFDKILWVCVS  235 (314)
Q Consensus       193 ~~~~~vi~I~G-~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~  235 (314)
                      ..+.++|+|+| -||+||||+|..++....  ..-..++.+++.
T Consensus       140 ~~~~kvIav~s~KGGvGKTT~a~nLA~~La--~~g~rVlliD~D  181 (373)
T 3fkq_A          140 NDKSSVVIFTSPCGGVGTSTVAAACAIAHA--NMGKKVFYLNIE  181 (373)
T ss_dssp             TTSCEEEEEECSSTTSSHHHHHHHHHHHHH--HHTCCEEEEECC
T ss_pred             CCCceEEEEECCCCCChHHHHHHHHHHHHH--hCCCCEEEEECC
Confidence            35689999985 899999999988876322  222356777754

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*

Probab=93.37  E-value=0.043  Score=43.18  Aligned_cols=24  Identities=25%  Similarity=0.347  Sum_probs=20.3

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .--|.|+|..|+|||||.+.+...
T Consensus        22 ~~ki~v~G~~~~GKSsli~~l~~~   45 (188)
T 1zd9_A           22 EMELTLVGLQYSGKTTFVNVIASG   45 (188)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ccEEEEECCCCCCHHHHHHHHHcC
Confidence            456789999999999999988753

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8

Probab=93.36  E-value=0.041  Score=44.18  Aligned_cols=24  Identities=29%  Similarity=0.335  Sum_probs=20.6

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .--|.|+|.+|+|||||++.+...
T Consensus        28 ~~ki~vvG~~~vGKSsLi~~l~~~   51 (205)
T 1gwn_A           28 KCKIVVVGDSQCGKTALLHVFAKD   51 (205)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            456789999999999999988653

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=93.34  E-value=0.043  Score=43.35  Aligned_cols=24  Identities=29%  Similarity=0.457  Sum_probs=20.0

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .--|.|+|..|+|||||.+.+..+
T Consensus        26 ~~ki~vvG~~~~GKSsLi~~l~~~   49 (192)
T 2il1_A           26 KLQVIIIGSRGVGKTSLMERFTDD   49 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHCC-
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcC
Confidence            346789999999999999998764

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8

Probab=93.34  E-value=0.042  Score=43.40  Aligned_cols=24  Identities=17%  Similarity=0.322  Sum_probs=20.5

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .--|.|+|..|+|||||.+.+...
T Consensus        23 ~~ki~vvG~~~~GKSsli~~l~~~   46 (192)
T 2fg5_A           23 ELKVCLLGDTGVGKSSIVCRFVQD   46 (192)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcC
Confidence            456889999999999999988653

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=93.33  E-value=0.031  Score=49.02  Aligned_cols=23  Identities=30%  Similarity=0.401  Sum_probs=20.4

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|+|||||.+.++.
T Consensus        26 Ge~~~llGpnGsGKSTLLr~iaG   48 (348)
T 3d31_A           26 GEYFVILGPTGAGKTLFLELIAG   48 (348)
T ss_dssp             TCEEEEECCCTHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCccHHHHHHHHHc
Confidence            35899999999999999998864

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=93.32  E-value=0.096  Score=44.02  Aligned_cols=25  Identities=24%  Similarity=0.441  Sum_probs=21.5

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ....|.++|..|+|||||...+...
T Consensus        38 ~~~~I~vvG~~g~GKSSLin~l~~~   62 (270)
T 1h65_A           38 NSLTILVMGKGGVGKSSTVNSIIGE   62 (270)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCC
Confidence            4567889999999999999998754

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=93.31  E-value=0.058  Score=42.94  Aligned_cols=25  Identities=24%  Similarity=0.339  Sum_probs=20.6

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..--|.|+|..|+|||||.+.+...
T Consensus        24 ~~~ki~v~G~~~~GKSsLi~~l~~~   48 (200)
T 2o52_A           24 FLFKFLVIGSAGTGKSCLLHQFIEN   48 (200)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHC-
T ss_pred             cceEEEEECcCCCCHHHHHHHHHhC
Confidence            3456789999999999999988754

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* 4dvg_A*

Probab=93.31  E-value=0.044  Score=43.26  Aligned_cols=25  Identities=32%  Similarity=0.348  Sum_probs=21.0

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..--|.|+|.+|+|||||.+.+...
T Consensus        22 ~~~ki~~vG~~~~GKSsl~~~l~~~   46 (194)
T 3reg_A           22 KALKIVVVGDGAVGKTCLLLAFSKG   46 (194)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eeeEEEEECcCCCCHHHHHHHHhcC
Confidence            3456789999999999999988754

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=93.28  E-value=0.043  Score=43.36  Aligned_cols=23  Identities=26%  Similarity=0.443  Sum_probs=20.0

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .--|.|+|.+|+|||||.+.+..
T Consensus         8 ~~ki~vvG~~~~GKSsli~~l~~   30 (199)
T 2gf0_A            8 DYRVVVFGAGGVGKSSLVLRFVK   30 (199)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHH
T ss_pred             eeEEEEECCCCCcHHHHHHHHHc
Confidence            45678999999999999998865

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*

Probab=93.28  E-value=0.045  Score=43.00  Aligned_cols=24  Identities=17%  Similarity=0.365  Sum_probs=20.6

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .--|.|+|..|+|||||.+.+...
T Consensus        22 ~~ki~vvG~~~~GKSsli~~l~~~   45 (189)
T 2gf9_A           22 MFKLLLIGNSSVGKTSFLFRYADD   45 (189)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcC
Confidence            457889999999999999988653

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2

Probab=93.26  E-value=0.045  Score=43.99  Aligned_cols=24  Identities=25%  Similarity=0.206  Sum_probs=20.1

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ...|.|+|.+|+|||||...+...
T Consensus         7 ~~ki~vvG~~~~GKTsli~~l~~~   30 (214)
T 2fh5_B            7 QRAVLFVGLCDSGKTLLFVRLLTG   30 (214)
T ss_dssp             -CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            456789999999999999988653

>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=93.26  E-value=0.32  Score=45.23  Aligned_cols=49  Identities=16%  Similarity=0.194  Sum_probs=35.0

Q ss_pred             HHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccc
Q 048765          181 LLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETF  238 (314)
Q Consensus       181 l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~  238 (314)
                      .++.|..-     .+-.-++|.|..|+|||+|+..+.+.    .+-+.++++-+.+..
T Consensus       222 vID~l~Pi-----grGqr~~Ifgg~g~GKT~L~~~ia~~----~~~~v~V~~~iGER~  270 (600)
T 3vr4_A          222 VIDTFFPV-----TKGGAAAVPGPFGAGKTVVQHQIAKW----SDVDLVVYVGCGERG  270 (600)
T ss_dssp             HHHHHSCC-----BTTCEEEEECCTTSCHHHHHHHHHHH----SSCSEEEEEEEEECH
T ss_pred             hhhccCCc-----cCCCEEeeecCCCccHHHHHHHHHhc----cCCCEEEEEEecccH
Confidence            45555442     23457889999999999999998763    234678888887653

>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC, coiled coil, GTP- binding, nucleotide-binding, immune system; HET: GDP; 2.15A {Homo sapiens}

Probab=93.25  E-value=0.062  Score=44.23  Aligned_cols=25  Identities=24%  Similarity=0.295  Sum_probs=21.5

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ....|+|+|..|+|||||.+.+...
T Consensus        28 ~~~~i~lvG~~g~GKStlin~l~g~   52 (239)
T 3lxx_A           28 SQLRIVLVGKTGAGKSATGNSILGR   52 (239)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CceEEEEECCCCCCHHHHHHHHcCC
Confidence            4567899999999999999988753

>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=93.25  E-value=0.23  Score=45.94  Aligned_cols=47  Identities=19%  Similarity=0.198  Sum_probs=34.3

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccH-HHHHHH
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEE-FRVAKA  246 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~-~~~~~~  246 (314)
                      -.-++|.|..|+|||+|+..+.+.    .+-+.++++-+.+..+. .+++..
T Consensus       227 Gqr~~I~g~~g~GKT~L~~~ia~~----~~~~~~V~~~iGER~~Ev~e~~~~  274 (588)
T 3mfy_A          227 GGTAAIPGPAGSGKTVTQHQLAKW----SDAQVVIYIGCGERGNEMTDVLEE  274 (588)
T ss_dssp             TCEEEECSCCSHHHHHHHHHHHHH----SSCSEEEEEECCSSSSHHHHHHHH
T ss_pred             CCeEEeecCCCCCHHHHHHHHHhc----cCCCEEEEEEecccHHHHHHHHHH
Confidence            457899999999999999988652    23467888888876544 344444

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=93.24  E-value=0.04  Score=44.65  Aligned_cols=22  Identities=27%  Similarity=0.368  Sum_probs=19.3

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+|.|.|+.|+||||+++.+..
T Consensus         4 ~~i~i~G~~gsGkst~~~~l~~   25 (219)
T 2h92_A            4 INIALDGPAAAGKSTIAKRVAS   25 (219)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999988754

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8

Probab=93.24  E-value=0.048  Score=44.19  Aligned_cols=23  Identities=30%  Similarity=0.566  Sum_probs=19.9

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .--|.|+|.+|+|||||.+.+..
T Consensus        37 ~~kVvlvG~~~vGKSSLl~r~~~   59 (211)
T 2g3y_A           37 YYRVVLIGEQGVGKSTLANIFAG   59 (211)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHh
Confidence            45688999999999999998863

>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle, G-protein, prokaryote, GTP-BIND nucleotide-binding, metal transport; 2.70A {Pyrococcus furiosus}

Probab=93.22  E-value=0.056  Score=45.51  Aligned_cols=24  Identities=29%  Similarity=0.450  Sum_probs=20.7

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ...|+++|.+|+|||||.+.+...
T Consensus         3 ~~~i~lvG~~g~GKTTL~n~l~g~   26 (271)
T 3k53_A            3 LKTVALVGNPNVGKTTIFNALTGL   26 (271)
T ss_dssp             CEEEEEEECSSSSHHHHHHHHHTT
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCC
Confidence            457899999999999999988653

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A

Probab=93.21  E-value=0.16  Score=55.84  Aligned_cols=77  Identities=17%  Similarity=0.127  Sum_probs=0.0

Q ss_pred             EEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCC-------CCCCcHHHHHHHHHHH
Q 048765          199 ISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHE-------SHLGEFQSLLRHIYES  271 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~-------~~~~~~~~~~~~l~~~  271 (314)
                      +.++|++|+|||++|+.+..    ...--..+.++++...+...+...+-..+....       ....            
T Consensus      1270 vLL~GPpGtGKT~la~~~l~----~~~~~~~~~infsa~ts~~~~~~~i~~~~~~~~~~~g~~~~P~~------------ 1333 (2695)
T 4akg_A         1270 IILCGPPGSGKTMIMNNALR----NSSLYDVVGINFSKDTTTEHILSALHRHTNYVTTSKGLTLLPKS------------ 1333 (2695)
T ss_dssp             EEEECSTTSSHHHHHHHHHH----SCSSCEEEEEECCTTCCHHHHHHHHHHHBCCEEETTTEEEEEBS------------
T ss_pred             EEEECCCCCCHHHHHHHHHh----cCCCCceEEEEeecCCCHHHHHHHHHHHhhhccccCCccccCCC------------


Q ss_pred             ccCceEEEEEeccccCCccCH
Q 048765          272 IAGKSFLLVLDDVWDGNYVKW  292 (314)
Q Consensus       272 L~~kr~LlVlDdv~~~~~~~~  292 (314)
                       .+++.++++||+.-+..+.|
T Consensus      1334 -~gk~~VlFiDEinmp~~d~y 1353 (2695)
T 4akg_A         1334 -DIKNLVLFCDEINLPKLDKY 1353 (2695)
T ss_dssp             -SSSCEEEEEETTTCSCCCSS
T ss_pred             -CCceEEEEeccccccccccc

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A*

Probab=93.21  E-value=0.062  Score=41.97  Aligned_cols=25  Identities=20%  Similarity=0.298  Sum_probs=21.3

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchH
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHE  220 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~  220 (314)
                      .--|.|+|.+|+|||||.+.+....
T Consensus        18 ~~~i~v~G~~~~GKssl~~~l~~~~   42 (186)
T 1ksh_A           18 ELRLLMLGLDNAGKTTILKKFNGED   42 (186)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHTTCC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcCC
Confidence            4678899999999999999987543

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=93.20  E-value=0.047  Score=42.89  Aligned_cols=24  Identities=29%  Similarity=0.513  Sum_probs=20.5

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..--|.|+|..|+|||||.+.+..
T Consensus        19 ~~~ki~v~G~~~~GKSsli~~l~~   42 (189)
T 1z06_A           19 RIFKIIVIGDSNVGKTCLTYRFCA   42 (189)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHc
Confidence            345788999999999999998864

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=93.19  E-value=0.047  Score=43.00  Aligned_cols=25  Identities=24%  Similarity=0.384  Sum_probs=21.1

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..--|.|+|..|+|||||.+.+..+
T Consensus        15 ~~~ki~v~G~~~~GKSsli~~l~~~   39 (196)
T 3tkl_A           15 YLFKLLLIGDSGVGKSCLLLRFADD   39 (196)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcC
Confidence            3556889999999999999988753

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=93.15  E-value=0.047  Score=47.88  Aligned_cols=24  Identities=38%  Similarity=0.577  Sum_probs=21.5

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      -.+++|+|..|+|||||.+.+...
T Consensus        71 Gq~~gIiG~nGaGKTTLl~~I~g~   94 (347)
T 2obl_A           71 GQRIGIFAGSGVGKSTLLGMICNG   94 (347)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            458999999999999999999874

>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=93.13  E-value=0.049  Score=48.53  Aligned_cols=23  Identities=26%  Similarity=0.338  Sum_probs=20.5

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|+|||||.+.+..
T Consensus        47 Ge~~~llGpsGsGKSTLLr~iaG   69 (390)
T 3gd7_A           47 GQRVGLLGRTGSGKSTLLSAFLR   69 (390)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCChHHHHHHHHhC
Confidence            45899999999999999998864

>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=93.13  E-value=0.049  Score=43.93  Aligned_cols=25  Identities=32%  Similarity=0.444  Sum_probs=20.7

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..--|.|+|.+|+|||||.+.+...
T Consensus        33 ~~~ki~vvG~~~vGKSsli~~l~~~   57 (214)
T 2j1l_A           33 RSVKVVLVGDGGCGKTSLLMVFADG   57 (214)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHC-
T ss_pred             ceEEEEEECcCCCCHHHHHHHHHcC
Confidence            3456889999999999999998764

>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=93.13  E-value=0.066  Score=42.33  Aligned_cols=23  Identities=30%  Similarity=0.252  Sum_probs=20.1

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .--|.|+|.+|+|||||...+..
T Consensus        29 ~~ki~v~G~~~vGKSsLi~~l~~   51 (192)
T 2b6h_A           29 QMRILMVGLDAAGKTTILYKLKL   51 (192)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHCS
T ss_pred             ccEEEEECCCCCCHHHHHHHHHh
Confidence            45689999999999999999865

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=93.13  E-value=0.04  Score=48.63  Aligned_cols=22  Identities=36%  Similarity=0.534  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+++|+|+.|+|||||++.+..
T Consensus       176 ~~i~ivG~sGsGKSTll~~l~~  197 (361)
T 2gza_A          176 RVIVVAGETGSGKTTLMKALMQ  197 (361)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            5899999999999999999876

>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=93.12  E-value=0.069  Score=42.83  Aligned_cols=25  Identities=12%  Similarity=0.093  Sum_probs=21.3

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ....+|+|+|++|+||+|+|..+.+
T Consensus         9 ~~~~II~itGk~~SGKd~va~~l~~   33 (202)
T 3ch4_B            9 APRLVLLFSGKRKSGKDFVTEALQS   33 (202)
T ss_dssp             CCSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCChHHHHHHHHH
Confidence            3467999999999999999987744

>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=93.12  E-value=0.047  Score=42.63  Aligned_cols=24  Identities=33%  Similarity=0.401  Sum_probs=20.4

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .--|.|+|..|+|||||.+.+...
T Consensus        21 ~~~i~v~G~~~~GKSsli~~l~~~   44 (181)
T 2h17_A           21 EHKVIIVGLDNAGKTTILYQFSMN   44 (181)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHHTT
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            456789999999999999998753

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=93.11  E-value=0.049  Score=44.74  Aligned_cols=24  Identities=25%  Similarity=0.289  Sum_probs=19.8

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .-.-++|.|++|+||||+++.+..
T Consensus         7 ~~~~~~~~G~pGsGKsT~a~~L~~   30 (230)
T 3gmt_A            7 HHMRLILLGAPGAGKGTQANFIKE   30 (230)
T ss_dssp             --CEEEEECCTTSCHHHHHHHHHH
T ss_pred             cccceeeECCCCCCHHHHHHHHHH
Confidence            345689999999999999998866

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=93.11  E-value=0.21  Score=47.60  Aligned_cols=63  Identities=19%  Similarity=0.194  Sum_probs=39.6

Q ss_pred             hhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHH
Q 048765          176 GEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVE  249 (314)
Q Consensus       176 ~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~  249 (314)
                      .+.+.+...|...        .+..|+||+|+|||+.+..+.... +..  ...+.++......+..++..+..
T Consensus       193 ~Q~~AV~~al~~~--------~~~lI~GPPGTGKT~ti~~~I~~l-~~~--~~~ILv~a~TN~AvD~i~erL~~  255 (646)
T 4b3f_X          193 SQKEAVLFALSQK--------ELAIIHGPPGTGKTTTVVEIILQA-VKQ--GLKVLCCAPSNIAVDNLVERLAL  255 (646)
T ss_dssp             HHHHHHHHHHHCS--------SEEEEECCTTSCHHHHHHHHHHHH-HHT--TCCEEEEESSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCC--------CceEEECCCCCCHHHHHHHHHHHH-HhC--CCeEEEEcCchHHHHHHHHHHHh
Confidence            3445555555432        266799999999998765544321 222  34677777777777777776653

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=93.10  E-value=0.081  Score=41.63  Aligned_cols=24  Identities=29%  Similarity=0.404  Sum_probs=20.2

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .--|.|+|..|+|||||.+.+...
T Consensus        21 ~~ki~v~G~~~~GKSsli~~l~~~   44 (191)
T 2a5j_A           21 LFKYIIIGDTGVGKSCLLLQFTDK   44 (191)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcC
Confidence            446789999999999999988653

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=93.10  E-value=0.11  Score=43.46  Aligned_cols=25  Identities=20%  Similarity=0.434  Sum_probs=21.5

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      +.-.|.|+|..|+|||||...+...
T Consensus        35 ~~~~I~lvG~~g~GKSSLin~l~~~   59 (262)
T 3def_A           35 NSMTVLVLGKGGVGKSSTVNSLIGE   59 (262)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHTS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCC
Confidence            4567899999999999999998754

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=93.10  E-value=0.044  Score=47.75  Aligned_cols=80  Identities=13%  Similarity=0.036  Sum_probs=42.4

Q ss_pred             EEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHccCce
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGKS  276 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~kr  276 (314)
                      .+++|+|+.|+|||||++.+.....   .-...+.+.-.........    -+.+.....   .-......+...|..++
T Consensus       172 ~~v~i~G~~GsGKTTll~~l~g~~~---~~~g~i~i~~~~e~~~~~~----~~~i~~~~g---gg~~~r~~la~aL~~~p  241 (330)
T 2pt7_A          172 KNVIVCGGTGSGKTTYIKSIMEFIP---KEERIISIEDTEEIVFKHH----KNYTQLFFG---GNITSADCLKSCLRMRP  241 (330)
T ss_dssp             CCEEEEESTTSCHHHHHHHGGGGSC---TTSCEEEEESSCCCCCSSC----SSEEEEECB---TTBCHHHHHHHHTTSCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCc---CCCcEEEECCeeccccccc----hhEEEEEeC---CChhHHHHHHHHhhhCC
Confidence            4899999999999999999876321   1234455542221110000    000000000   01112334555666677


Q ss_pred             EEEEEecccc
Q 048765          277 FLLVLDDVWD  286 (314)
Q Consensus       277 ~LlVlDdv~~  286 (314)
                      -+|++|+.-.
T Consensus       242 ~ilildE~~~  251 (330)
T 2pt7_A          242 DRIILGELRS  251 (330)
T ss_dssp             SEEEECCCCS
T ss_pred             CEEEEcCCCh
Confidence            7889999854

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=93.08  E-value=0.073  Score=41.70  Aligned_cols=24  Identities=33%  Similarity=0.371  Sum_probs=20.9

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +.--|.|+|..|+|||||.+.+..
T Consensus        15 ~~~~i~v~G~~~~GKssl~~~l~~   38 (187)
T 1zj6_A           15 QEHKVIIVGLDNAGKTTILYQFSM   38 (187)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHHT
T ss_pred             CccEEEEECCCCCCHHHHHHHHhc
Confidence            356788999999999999999874

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=93.08  E-value=0.05  Score=43.21  Aligned_cols=24  Identities=21%  Similarity=0.397  Sum_probs=20.2

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..--|.|+|..|+|||||+..+..
T Consensus        27 ~~~ki~v~G~~~~GKSsli~~l~~   50 (199)
T 2p5s_A           27 KAYKIVLAGDAAVGKSSFLMRLCK   50 (199)
T ss_dssp             -CEEEEEESSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHh
Confidence            356788999999999999998864

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=93.07  E-value=0.051  Score=42.74  Aligned_cols=24  Identities=29%  Similarity=0.418  Sum_probs=20.4

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .--|.|+|.+|+|||||.+.+...
T Consensus        15 ~~~i~v~G~~~~GKssli~~l~~~   38 (195)
T 1x3s_A           15 TLKILIIGESGVGKSSLLLRFTDD   38 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcC
Confidence            356789999999999999988653

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=93.05  E-value=0.16  Score=40.86  Aligned_cols=42  Identities=24%  Similarity=0.140  Sum_probs=27.9

Q ss_pred             EEEEE-ccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHH
Q 048765          198 IISIV-GMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFR  242 (314)
Q Consensus       198 vi~I~-G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~  242 (314)
                      +|+|+ +-||+||||++..+.....  ..- .+.-+++....+...
T Consensus         2 vI~v~s~KGGvGKTT~a~~LA~~la--~~g-~VlliD~D~q~~~~~   44 (209)
T 3cwq_A            2 IITVASFKGGVGKTTTAVHLSAYLA--LQG-ETLLIDGDPNRSATG   44 (209)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHH--TTS-CEEEEEECTTCHHHH
T ss_pred             EEEEEcCCCCCcHHHHHHHHHHHHH--hcC-CEEEEECCCCCCHHH
Confidence            56665 6799999999988876332  223 567777655444443

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=93.05  E-value=0.041  Score=52.00  Aligned_cols=21  Identities=29%  Similarity=0.412  Sum_probs=19.3

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -+.++|++|+|||+||+.++.
T Consensus       329 ~vLL~GppGtGKT~LAr~la~  349 (595)
T 3f9v_A          329 HILIIGDPGTAKSQMLQFISR  349 (595)
T ss_dssp             CEEEEESSCCTHHHHHHSSST
T ss_pred             ceEEECCCchHHHHHHHHHHH
Confidence            578999999999999999976

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A*

Probab=93.03  E-value=0.049  Score=43.45  Aligned_cols=25  Identities=24%  Similarity=0.389  Sum_probs=20.9

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..--|.|+|.+|+|||||...+...
T Consensus         7 ~~~ki~v~G~~~~GKSsli~~l~~~   31 (206)
T 2bcg_Y            7 YLFKLLLIGNSGVGKSCLLLRFSDD   31 (206)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHC
T ss_pred             cceEEEEECCCCCCHHHHHHHHhcC
Confidence            3457889999999999999988653

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=93.03  E-value=0.056  Score=49.49  Aligned_cols=24  Identities=25%  Similarity=0.350  Sum_probs=21.2

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..+|.++|++|+||||+++.+...
T Consensus        39 ~~~IvlvGlpGsGKSTia~~La~~   62 (469)
T 1bif_A           39 PTLIVMVGLPARGKTYISKKLTRY   62 (469)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHH
Confidence            468889999999999999998764

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=93.02  E-value=0.049  Score=49.04  Aligned_cols=20  Identities=45%  Similarity=0.594  Sum_probs=18.7

Q ss_pred             EEEEccCCCChHHHHHHhhc
Q 048765          199 ISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~  218 (314)
                      ++|+|..|+|||||.+.++.
T Consensus        45 vaLvG~nGaGKSTLln~L~G   64 (427)
T 2qag_B           45 ILCVGETGLGKSTLMDTLFN   64 (427)
T ss_dssp             EEEECSTTSSSHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            99999999999999998865

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=93.02  E-value=0.029  Score=49.37  Aligned_cols=23  Identities=30%  Similarity=0.460  Sum_probs=20.3

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|+|||||.+.++.
T Consensus        31 Ge~~~llGpnGsGKSTLLr~iaG   53 (353)
T 1oxx_K           31 GERFGILGPSGAGKTTFMRIIAG   53 (353)
T ss_dssp             TCEEEEECSCHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            35899999999999999998864

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=92.99  E-value=0.05  Score=44.25  Aligned_cols=21  Identities=24%  Similarity=0.316  Sum_probs=18.2

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -|.|+|.+|+|||+|+..+.+
T Consensus        15 KivlvGd~~VGKTsLi~r~~~   35 (216)
T 4dkx_A           15 KLVFLGEQSVGKTSLITRFMY   35 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECcCCcCHHHHHHHHHh
Confidence            367899999999999988764

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=92.98  E-value=0.056  Score=47.52  Aligned_cols=22  Identities=27%  Similarity=0.465  Sum_probs=20.0

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+++|+|+.|+|||||.+.+..
T Consensus       216 ~~~~lvG~sG~GKSTLln~L~g  237 (358)
T 2rcn_A          216 RISIFAGQSGVGKSSLLNALLG  237 (358)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHC
T ss_pred             CEEEEECCCCccHHHHHHHHhc
Confidence            4789999999999999999875

>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=92.96  E-value=0.1  Score=46.89  Aligned_cols=23  Identities=30%  Similarity=0.316  Sum_probs=20.8

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.++.|+|+.|+|||||.+.+..
T Consensus       167 ggii~I~GpnGSGKTTlL~allg  189 (418)
T 1p9r_A          167 HGIILVTGPTGSGKSTTLYAGLQ  189 (418)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHh
Confidence            46899999999999999998866

>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=92.90  E-value=0.089  Score=48.58  Aligned_cols=26  Identities=12%  Similarity=-0.024  Sum_probs=22.6

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhch
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ++..+|.+.|+.|+||||+++.+...
T Consensus       393 ~~~~~I~l~GlsGsGKSTIa~~La~~  418 (511)
T 1g8f_A          393 KQGFSIVLGNSLTVSREQLSIALLST  418 (511)
T ss_dssp             GCCEEEEECTTCCSCHHHHHHHHHHH
T ss_pred             ccceEEEecccCCCCHHHHHHHHHHH
Confidence            34578999999999999999999773

>1m8p_A Sulfate adenylyltransferase; rossmann fold, phosphosulfate binding, T-state; HET: PPS; 2.60A {Penicillium chrysogenum} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1i2d_A*

Probab=92.88  E-value=0.11  Score=48.71  Aligned_cols=25  Identities=20%  Similarity=0.130  Sum_probs=22.1

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ++..+|.|.|+.|+||||+|+.+..
T Consensus       394 q~~~~I~l~GlsGSGKSTiA~~La~  418 (573)
T 1m8p_A          394 TQGFTIFLTGYMNSGKDAIARALQV  418 (573)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ccceEEEeecCCCCCHHHHHHHHHH
Confidence            4567899999999999999999876

>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=92.87  E-value=0.054  Score=43.38  Aligned_cols=24  Identities=29%  Similarity=0.386  Sum_probs=20.3

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..-|.|+|..|+|||||...+...
T Consensus        25 ~~ki~vvG~~~~GKSsli~~l~~~   48 (207)
T 2fv8_A           25 RKKLVVVGDGACGKTCLLIVFSKD   48 (207)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             CcEEEEECcCCCCHHHHHHHHhcC
Confidence            346889999999999999988653

>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=92.85  E-value=0.052  Score=43.40  Aligned_cols=23  Identities=30%  Similarity=0.307  Sum_probs=19.6

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .--|.|+|..|+|||||...+..
T Consensus        30 ~~ki~vvG~~~~GKSsLi~~l~~   52 (204)
T 4gzl_A           30 AIKCVVVGDGAVGKTCLLISYTT   52 (204)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEEECcCCCCHHHHHHHHHh
Confidence            45678999999999999988764

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=92.84  E-value=0.035  Score=43.32  Aligned_cols=25  Identities=24%  Similarity=0.332  Sum_probs=10.8

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..--|.|+|..|+|||||...+...
T Consensus         7 ~~~ki~v~G~~~~GKssl~~~l~~~   31 (183)
T 2fu5_C            7 YLFKLLLIGDSGVGKTCVLFRFSED   31 (183)
T ss_dssp             EEEEEEEECCCCC------------
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhC
Confidence            3556889999999999999888653

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=92.81  E-value=0.13  Score=46.63  Aligned_cols=47  Identities=21%  Similarity=0.217  Sum_probs=31.5

Q ss_pred             cchhhHHHHHHHhhccC-c--C--CCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          173 GRVGEKNELLSKLLCES-S--E--QQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       173 gr~~~~~~l~~~L~~~~-~--~--~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      |.++-.+.+.+.+.... .  .  .......++|+|.+|+|||||.+.+...
T Consensus       152 gv~~L~~~i~~~l~~~~~~~~~~~~~~~~~kvaivG~~gvGKSTLln~l~g~  203 (439)
T 1mky_A          152 NLDTMLETIIKKLEEKGLDLESKPEITDAIKVAIVGRPNVGKSTLFNAILNK  203 (439)
T ss_dssp             SHHHHHHHHHHHHHHTTCCSSSCCCCCSCEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CHHHHHHHHHHhcccccccchhccccccCceEEEECCCCCCHHHHHHHHhCC
Confidence            44556666666664221 0  0  0234567899999999999999998764

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii}

Probab=92.78  E-value=0.18  Score=44.19  Aligned_cols=25  Identities=36%  Similarity=0.498  Sum_probs=21.1

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ...+++.+.|.||+||||+|..+..
T Consensus        16 ~~~~i~~~~gkGGvGKTt~a~~lA~   40 (348)
T 3io3_A           16 DSLKWIFVGGKGGVGKTTTSSSVAV   40 (348)
T ss_dssp             TTCSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCcHHHHHHHHHH
Confidence            3467888999999999999988765

>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=92.75  E-value=0.057  Score=42.55  Aligned_cols=24  Identities=33%  Similarity=0.432  Sum_probs=20.6

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .--|.|+|..|+|||+|++.+...
T Consensus        18 ~~ki~v~G~~~~GKssli~~l~~~   41 (194)
T 2atx_A           18 MLKCVVVGDGAVGKTCLLMSYAND   41 (194)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            456789999999999999988754

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=92.75  E-value=0.08  Score=40.26  Aligned_cols=21  Identities=33%  Similarity=0.455  Sum_probs=18.8

Q ss_pred             EEEEEEccCCCChHHHHHHhh
Q 048765          197 HIISIVGMGGIGKTTLAQLAC  217 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~  217 (314)
                      .+..|+|+.|+|||||...++
T Consensus        24 g~~~I~G~NGsGKStil~Ai~   44 (149)
T 1f2t_A           24 GINLIIGQNGSGKSSLLDAIL   44 (149)
T ss_dssp             EEEEEECCTTSSHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHH
Confidence            578899999999999998875

>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=92.73  E-value=0.06  Score=43.08  Aligned_cols=23  Identities=26%  Similarity=0.427  Sum_probs=20.1

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..-|.|+|.+|+|||||...+..
T Consensus        20 ~~~i~v~G~~~~GKSsli~~l~~   42 (213)
T 3cph_A           20 IMKILLIGDSGVGKSCLLVRFVE   42 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHh
Confidence            45788999999999999998864

>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=92.72  E-value=0.12  Score=44.25  Aligned_cols=25  Identities=24%  Similarity=0.308  Sum_probs=22.2

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .....|+|+|..|+|||||...+..
T Consensus        22 ~~~~~I~vvG~~~~GKSTlln~l~g   46 (315)
T 1jwy_B           22 LDLPQIVVVGSQSSGKSSVLENIVG   46 (315)
T ss_dssp             TCCCEEEEEECSSSSHHHHHHHHHT
T ss_pred             CCCCeEEEEcCCCCCHHHHHHHHHC
Confidence            4577899999999999999998865

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=92.68  E-value=0.064  Score=43.14  Aligned_cols=24  Identities=29%  Similarity=0.383  Sum_probs=20.5

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .--|.|+|..|+|||||.+.+...
T Consensus        25 ~~ki~vvG~~~~GKSsLi~~l~~~   48 (217)
T 2f7s_A           25 LIKLLALGDSGVGKTTFLYRYTDN   48 (217)
T ss_dssp             EEEEEEESCTTSSHHHHHHHHHCS
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcC
Confidence            456789999999999999988753

>3iqw_A Tail-anchored protein targeting factor GET3; ATPase, Zn binding, protein transport; HET: ANP; 3.00A {Chaetomium thermophilum} PDB: 3iqx_A* 3ibg_A*

Probab=92.68  E-value=0.2  Score=43.67  Aligned_cols=24  Identities=38%  Similarity=0.450  Sum_probs=20.2

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..+++.+.|-||+||||+|..++.
T Consensus        15 ~~~i~~~sgkGGvGKTt~a~~lA~   38 (334)
T 3iqw_A           15 SLRWIFVGGKGGVGKTTTSCSLAI   38 (334)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEEeCCCCccHHHHHHHHHH
Confidence            357788889999999999988765

>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=92.67  E-value=0.061  Score=43.40  Aligned_cols=24  Identities=25%  Similarity=0.281  Sum_probs=20.1

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .--|.|+|.+|+|||||.+.+...
T Consensus        27 ~~ki~vvG~~~vGKSsL~~~l~~~   50 (214)
T 3q3j_B           27 RCKLVLVGDVQCGKTAMLQVLAKD   50 (214)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcC
Confidence            346779999999999999988653

>2xtp_A GTPase IMAP family member 2; immune system, G protein; HET: MSE; 1.50A {Homo sapiens} PDB: 2xto_A* 2xtm_A* 2xtn_A* 3p1j_A

Probab=92.66  E-value=0.075  Score=44.28  Aligned_cols=25  Identities=24%  Similarity=0.271  Sum_probs=21.2

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ....|+|+|.+|+|||||...+...
T Consensus        21 ~~~~I~lvG~~g~GKStl~n~l~~~   45 (260)
T 2xtp_A           21 SELRIILVGKTGTGKSAAGNSILRK   45 (260)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHTS
T ss_pred             CceEEEEECCCCCCHHHHHHHHhCC
Confidence            3567899999999999999988653

>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=92.65  E-value=0.077  Score=42.26  Aligned_cols=24  Identities=29%  Similarity=0.304  Sum_probs=20.6

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..--|.|+|.+|+|||||++.+..
T Consensus        28 ~~~ki~vvG~~~vGKSsli~~l~~   51 (201)
T 2hup_A           28 FLFKLVLVGDASVGKTCVVQRFKT   51 (201)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHH
T ss_pred             cceEEEEECcCCCCHHHHHHHHhh
Confidence            356788999999999999998864

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=92.64  E-value=0.06  Score=43.16  Aligned_cols=25  Identities=24%  Similarity=0.275  Sum_probs=20.7

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..--|.|+|.+|+|||||+..+...
T Consensus         8 ~~~ki~i~G~~~~GKTsli~~l~~~   32 (212)
T 2j0v_A            8 KFIKCVTVGDGAVGKTCMLICYTSN   32 (212)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcC
Confidence            3456789999999999999888653

>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=92.64  E-value=0.061  Score=42.83  Aligned_cols=24  Identities=33%  Similarity=0.398  Sum_probs=20.2

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..-|.|+|.+|+|||||...+..+
T Consensus        25 ~~ki~vvG~~~~GKSsli~~l~~~   48 (201)
T 2gco_A           25 RKKLVIVGDGACGKTCLLIVFSKD   48 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            346789999999999999988653

>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=92.62  E-value=0.55  Score=48.65  Aligned_cols=24  Identities=29%  Similarity=0.498  Sum_probs=20.9

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .-..++|+|+.|+|||||++.+..
T Consensus       443 ~G~~vaivG~sGsGKSTll~ll~~  466 (1321)
T 4f4c_A          443 AGQTVALVGSSGCGKSTIISLLLR  466 (1321)
T ss_dssp             TTCEEEEEECSSSCHHHHHHHHTT
T ss_pred             CCcEEEEEecCCCcHHHHHHHhcc
Confidence            346899999999999999998864

>1c9k_A COBU, adenosylcobinamide kinase; alpha/beta structure rossmann fold P-loop, transferase; HET: 5GP; 2.20A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1cbu_A

Probab=92.59  E-value=0.11  Score=40.82  Aligned_cols=36  Identities=19%  Similarity=0.375  Sum_probs=25.3

Q ss_pred             EEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccH
Q 048765          199 ISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEE  240 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~  240 (314)
                      +.|+|.+|+|||++|.++...      -..++|+.....++.
T Consensus         2 ilV~Gg~~SGKS~~A~~la~~------~~~~~yiaT~~~~d~   37 (180)
T 1c9k_A            2 ILVTGGARSGKSRHAEALIGD------APQVLYIATSQILDD   37 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS------CSSEEEEECCCC---
T ss_pred             EEEECCCCCcHHHHHHHHHhc------CCCeEEEecCCCCCH
Confidence            679999999999999988762      134667766655543

>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=92.59  E-value=0.043  Score=48.60  Aligned_cols=46  Identities=24%  Similarity=0.227  Sum_probs=30.5

Q ss_pred             ccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          170 EICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       170 ~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .++|....+..+...+..-.    ..-..+.|.|..|+||+++|+.++..
T Consensus       130 ~~ig~s~~~~~~~~~~~~~a----~~~~~vli~GesGtGKe~lAr~ih~~  175 (368)
T 3dzd_A          130 EFVGEHPKILEIKRLIPKIA----KSKAPVLITGESGTGKEIVARLIHRY  175 (368)
T ss_dssp             CCCCCSHHHHHHHHHHHHHH----TSCSCEEEECCTTSSHHHHHHHHHHH
T ss_pred             cccccchHHHHHHhhhhhhh----ccchhheEEeCCCchHHHHHHHHHHh
Confidence            46776666665555443222    11223668999999999999999763

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=92.59  E-value=0.068  Score=42.90  Aligned_cols=22  Identities=27%  Similarity=0.182  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+|+|.|+.|+||||+++.+..
T Consensus         7 ~iI~i~g~~GsGk~ti~~~la~   28 (201)
T 3fdi_A            7 IIIAIGREFGSGGHLVAKKLAE   28 (201)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEeCCCCCCHHHHHHHHHH
Confidence            5899999999999999998866

>4hlc_A DTMP kinase, thymidylate kinase; TMK, MRSA, pipiridine, transfera transferase inhibitor complex; HET: T05; 1.55A {Staphylococcus aureus subsp} PDB: 2cck_A 4gfd_A* 4gsy_A* 4hdc_A* 4hej_A* 2ccj_A* 4hld_A* 2ccg_A*

Probab=92.57  E-value=0.23  Score=39.92  Aligned_cols=23  Identities=30%  Similarity=0.408  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCChHHHHHHhhch
Q 048765          197 HIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      +.|+|-|..|+||||+++.+...
T Consensus         3 kFI~~EG~dGsGKsTq~~~L~~~   25 (205)
T 4hlc_A            3 AFITFEGPEGSGKTTVINEVYHR   25 (205)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCcHHHHHHHHHHH
Confidence            46888999999999999998874

>1wf3_A GTP-binding protein; GTPase, riken structural genomics/prote initiative, RSGI, structural genomics, hydrolase; HET: GNP; 1.88A {Thermus thermophilus} SCOP: c.37.1.8 d.52.3.1

Probab=92.57  E-value=0.074  Score=45.64  Aligned_cols=25  Identities=28%  Similarity=0.297  Sum_probs=21.5

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      +...|+|+|.+|+|||||.+.+...
T Consensus         6 ~~g~V~ivG~~nvGKSTLln~l~g~   30 (301)
T 1wf3_A            6 YSGFVAIVGKPNVGKSTLLNNLLGV   30 (301)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4567999999999999999998753

---

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	314
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	2e-21

>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 = 89.9 bits (222), Expect = 2e-21
 Identities = 28/159 (17%), Positives = 48/159 (30%), Gaps = 23/159 (14%)

Query: 167 DEEEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRK- 225
            +     R    + ++ KL             + + G  G GK+ +A  A +  + +   
Sbjct: 18  KQMTCYIREYHVDRVIKKLDEMCDLD---SFFLFLHGRAGSGKSVIASQALSKSDQLIGI 74

Query: 226 -FDKILWVCVSETFEEFRVAKAMVEALD----------GHESHLGEFQSLLRHIYESIAG 274
            +D I+W+  S T  +          L               H+             I  
Sbjct: 75  NYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDR 134

Query: 275 KSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTR 313
            + L V DDV     ++W              + LVTTR
Sbjct: 135 PNTLFVFDDVVQEETIRWAQEL--------RLRCLVTTR 165

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	314
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	99.92
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	98.96
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	98.71
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	98.68
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	98.67
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	98.65
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	98.64
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.63
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	98.6
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	98.45
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	98.38
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.35
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	98.28
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	98.28
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	98.19
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	98.16
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	98.04
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	98.03
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	97.94
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.9
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	97.88
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.85
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	97.65
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	97.55
d2qy9a2	211	GTPase domain of the signal recognition particle r	97.54
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	97.54
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	97.52
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	97.47
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	97.42
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	97.39
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.35
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.35
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	97.29
d1ls1a2	207	GTPase domain of the signal sequence recognition p	97.26
d1vmaa2	213	GTPase domain of the signal recognition particle r	97.24
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.24
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.22
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.21
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.21
d1okkd2	207	GTPase domain of the signal recognition particle r	97.2
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.19
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	97.17
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.16
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.13
d1j8yf2	211	GTPase domain of the signal sequence recognition p	97.13
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.09
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	97.01
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.0
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	96.99
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	96.99
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	96.97
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	96.96
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	96.86
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	96.85
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	96.84
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	96.84
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	96.82
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	96.82
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.81
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	96.77
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	96.77
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	96.73
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.71
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	96.7
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	96.66
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	96.65
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.61
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.59
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	96.53
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	96.49
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	96.41
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.4
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.38
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	96.24
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.23
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.2
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	96.19
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.18
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	96.16
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	96.15
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.15
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	96.14
d1xpua3	289	Transcription termination factor Rho, ATPase domai	96.13
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.13
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	96.09
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	96.03
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	96.01
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	95.97
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	95.96
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	95.93
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	95.86
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	95.83
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	95.81
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	95.79
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	95.79
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	95.78
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	95.73
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	95.69
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	95.68
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	95.67
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	95.58
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	95.53
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	95.53
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	95.51
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	95.51
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	95.49
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	95.44
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	95.33
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	95.33
d1g2912	240	Maltose transport protein MalK, N-terminal domain	95.32
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	95.31
d2awna2	232	Maltose transport protein MalK, N-terminal domain	95.29
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.25
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	95.23
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	95.22
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	95.22
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	95.15
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	95.13
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	95.12
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	95.12
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	95.12
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	95.08
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	95.06
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	95.03
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	95.01
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	95.01
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	95.0
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	94.98
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	94.98
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	94.95
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	94.93
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	94.93
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	94.91
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	94.91
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	94.87
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	94.87
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	94.84
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	94.83
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	94.8
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	94.79
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	94.79
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	94.78
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	94.75
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	94.75
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	94.75
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	94.74
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	94.74
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	94.74
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	94.7
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	94.67
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	94.66
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	94.65
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	94.64
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	94.57
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	94.57
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	94.56
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	94.55
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	94.54
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	94.53
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	94.53
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	94.51
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	94.47
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	94.46
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	94.43
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	94.43
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	94.42
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	94.41
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	94.4
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	94.4
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	94.39
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	94.39
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	94.38
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	94.38
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	94.36
d2fh5b1	207	Signal recognition particle receptor beta-subunit	94.36
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	94.33
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	94.32
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	94.3
d1nrjb_	209	Signal recognition particle receptor beta-subunit	94.27
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	94.25
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	94.25
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.19
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	94.17
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	94.14
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	94.12
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	94.06
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	94.05
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	94.03
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	94.03
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	94.01
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	93.95
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	93.9
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	93.9
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	93.89
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	93.85
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	93.83
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	93.8
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	93.77
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	93.77
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	93.71
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	93.7
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	93.68
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	93.65
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	93.64
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	93.63
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	93.62
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	93.53
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	93.49
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	93.46
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	93.37
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	93.32
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	93.26
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	93.23
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	93.2
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	93.15
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	92.92
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	92.79
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	91.78
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	91.76
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	91.71
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	91.64
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	91.38
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	91.08
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	90.71
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	90.57
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	90.57
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	90.35
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	90.34
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	90.12
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	90.12
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	90.05
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	89.75
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	89.6
d1tuea_	205	Replication protein E1 helicase domain {Human papi	89.38
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	89.27
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	89.11
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	88.63
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	88.56
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	87.97
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	87.59
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	87.14
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	86.46
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	86.43
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	86.23
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	85.28
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	84.2
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	83.92
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	83.86
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	83.6
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	80.59

>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=99.92  E-value=4.2e-25  Score=188.92  Aligned_cols=137  Identities=20%  Similarity=0.142  Sum_probs=103.0

Q ss_pred             cccccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHh--hhhcCceeEEEEcCccccHHHHH
Q 048765          167 DEEEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEE--VIRKFDKILWVCVSETFEEFRVA  244 (314)
Q Consensus       167 ~~~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~--~~~~F~~~~wv~~~~~~~~~~~~  244 (314)
                      .++.++||+.++++|+++|....+   ....+|+|+||||+||||||+++|++..  ...+|++++|+++++.++...+.
T Consensus        18 ~~~~~~gR~~~~~~i~~~L~~~~~---~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~~l~   94 (277)
T d2a5yb3          18 KQMTCYIREYHVDRVIKKLDEMCD---LDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFD   94 (277)
T ss_dssp             CCCCSCCCHHHHHHHHHHHHHHTT---SSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHH
T ss_pred             CCCceeCcHHHHHHHHHHHHhccC---CCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCCHHHHH
Confidence            345688999999999999975332   4578999999999999999999998643  66789999999999988887776


Q ss_pred             HHHHHHh---cCCC-----C--CCCcHHHHHHHHHHHccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEeccC
Q 048765          245 KAMVEAL---DGHE-----S--HLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTRK  314 (314)
Q Consensus       245 ~~i~~~~---~~~~-----~--~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR~  314 (314)
                      ..+...+   +...     .  ...+.......+.+.|.++|+|+||||+|+.  ..|..+.      ..|||||||||+
T Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlVLDDv~~~--~~~~~~~------~~~srilvTTR~  166 (277)
T d2a5yb3          95 LFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQE--ETIRWAQ------ELRLRCLVTTRD  166 (277)
T ss_dssp             HHHHHHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCH--HHHHHHH------HTTCEEEEEESB
T ss_pred             HHHHHHHHHhcchhhcCCccchhhhhHHHHHHHHHHHhccCCeeEecchhhHH--hhhhhhc------ccCceEEEEeeh
Confidence            6665543   2211     1  1122233445677889999999999999976  3344331      248999999995

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=98.96  E-value=9e-09  Score=85.62  Aligned_cols=120  Identities=14%  Similarity=0.049  Sum_probs=84.4

Q ss_pred             cccccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcC-ceeEEEEcCccccHHHHHH
Q 048765          167 DEEEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKF-DKILWVCVSETFEEFRVAK  245 (314)
Q Consensus       167 ~~~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F-~~~~wv~~~~~~~~~~~~~  245 (314)
                      .+..++||+.+++.+.++|...-...+.....+.|+|++|+|||++++.+++.  ....+ ...+|+.+........+..
T Consensus        14 ~p~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~--l~~~~~~~~~~~~~~~~~~~~~~~~   91 (276)
T d1fnna2          14 VPKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWEL--YKDKTTARFVYINGFIYRNFTAIIG   91 (276)
T ss_dssp             CCSCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHH--HTTSCCCEEEEEETTTCCSHHHHHH
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHH--HhcccCCcEEEecchhhhhhhhhhh
Confidence            34568999999999999886431111245678899999999999999999884  33333 2456778888888888888


Q ss_pred             HHHHHhcCCCC-CCCcHHHHHHHHHHHc--cCceEEEEEeccccCC
Q 048765          246 AMVEALDGHES-HLGEFQSLLRHIYESI--AGKSFLLVLDDVWDGN  288 (314)
Q Consensus       246 ~i~~~~~~~~~-~~~~~~~~~~~l~~~L--~~kr~LlVlDdv~~~~  288 (314)
                      .+...++.... .......+...+.+.+  .....++++|+++...
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~  137 (276)
T d1fnna2          92 EIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLA  137 (276)
T ss_dssp             HHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSC
T ss_pred             hhHHhhhhhhhhhccchhHHHHHHHHHHhhcccccccchhHHHHhh
Confidence            88888766533 2334455555555554  3467788888887654

>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=98.71  E-value=2.9e-08  Score=80.52  Aligned_cols=124  Identities=12%  Similarity=0.040  Sum_probs=76.1

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMV  248 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  248 (314)
                      .+++|.++.++.|..|+....      ...+.++|++|+||||+|+.+++............-.+.+...+.......+.
T Consensus        14 ~divg~~~~~~~L~~~i~~~~------~~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~~~~~~~~~~~~~~~~   87 (227)
T d1sxjc2          14 DEVYGQNEVITTVRKFVDEGK------LPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGIDVVRNQIK   87 (227)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTC------CCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCSHHHHHTHHH
T ss_pred             HHccCcHHHHHHHHHHHHcCC------CCeEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEecccccCCeeeeecchh
Confidence            569999999999999997643      33467999999999999999987322111112233334444433332211111


Q ss_pred             HHhcCCCCCCCcHHHHHHHHHHHccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEecc
Q 048765          249 EALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTR  313 (314)
Q Consensus       249 ~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR  313 (314)
                      ......               ....++.-++|+|++.......-..+...+......++++++|.
T Consensus        88 ~~~~~~---------------~~~~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~  137 (227)
T d1sxjc2          88 DFASTR---------------QIFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLAN  137 (227)
T ss_dssp             HHHHBC---------------CSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEES
T ss_pred             hccccc---------------cccCCCeEEEEEeccccchhhHHHHHHHHhhhcccceeeccccC
Confidence            111100               01134456899999987655555667777776666777777764

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.68  E-value=5.4e-08  Score=78.77  Aligned_cols=125  Identities=16%  Similarity=0.086  Sum_probs=77.1

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMV  248 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~  248 (314)
                      .+++|.+..++.|..|+..+.      ...+.++|++|+||||+|+.+++.......-....-++.+...+...+...+.
T Consensus        15 ~d~ig~~~~~~~L~~~~~~~~------~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n~~~~~~~~~i~~~~~   88 (224)
T d1sxjb2          15 SDIVGNKETIDRLQQIAKDGN------MPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGIDVVRNQIK   88 (224)
T ss_dssp             GGCCSCTHHHHHHHHHHHSCC------CCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSHHHHHTHHH
T ss_pred             HHhcCCHHHHHHHHHHHHcCC------CCeEEEECCCCCCchhhHHHHHHHHhccccccccccccccccCCceehhhHHH
Confidence            569999999999999997643      33477999999999999998877322111111234455555544444333322


Q ss_pred             HHhcCCCCCCCcHHHHHHHHHHHccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEecc
Q 048765          249 EALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTR  313 (314)
Q Consensus       249 ~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR  313 (314)
                      ........              .-.++.-++|+|++..........+...+......++++++|.
T Consensus        89 ~~~~~~~~--------------~~~~~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~  139 (224)
T d1sxjb2          89 HFAQKKLH--------------LPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACN  139 (224)
T ss_dssp             HHHHBCCC--------------CCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEES
T ss_pred             HHHHhhcc--------------CCCcceEEEEEecccccchhHHHHHhhhccccccceeeeeccC
Confidence            22211100              0124566899999987765555566666666566667777664

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=98.67  E-value=4.8e-08  Score=81.21  Aligned_cols=42  Identities=19%  Similarity=0.353  Sum_probs=35.3

Q ss_pred             cccccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          167 DEEEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       167 ~~~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ....|+||+++++.|.+.          ..+++.|+|++|+|||+|++++..
T Consensus        10 ~~~~f~GR~~el~~l~~~----------~~~~i~i~G~~G~GKTsLl~~~~~   51 (283)
T d2fnaa2          10 NRKDFFDREKEIEKLKGL----------RAPITLVLGLRRTGKSSIIKIGIN   51 (283)
T ss_dssp             SGGGSCCCHHHHHHHHHT----------CSSEEEEEESTTSSHHHHHHHHHH
T ss_pred             ChhhCCChHHHHHHHHhc----------cCCEEEEEcCCCCcHHHHHHHHHH
Confidence            347899999999998763          135788999999999999999876

>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=98.65  E-value=4.2e-08  Score=79.79  Aligned_cols=122  Identities=12%  Similarity=0.058  Sum_probs=74.2

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCc-eeEEEEcCccccHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFD-KILWVCVSETFEEFRVAKAM  247 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~-~~~wv~~~~~~~~~~~~~~i  247 (314)
                      .+++|.+...+.|..|+...      +.+.+.++|++|+||||+|+.+++... ...+. ..+-++.+...+...+...+
T Consensus        24 ~diig~~~~~~~l~~~i~~~------~~~~lll~Gp~G~GKTtla~~iak~l~-~~~~~~~~~e~n~s~~~~~~~~~~~~   96 (231)
T d1iqpa2          24 DDIVGQEHIVKRLKHYVKTG------SMPHLLFAGPPGVGKTTAALALARELF-GENWRHNFLELNASDERGINVIREKV   96 (231)
T ss_dssp             TTCCSCHHHHHHHHHHHHHT------CCCEEEEESCTTSSHHHHHHHHHHHHH-GGGHHHHEEEEETTCHHHHHTTHHHH
T ss_pred             HHccCcHHHHHHHHHHHHcC------CCCeEEEECCCCCcHHHHHHHHHHHHH-hcccCCCeeEEecCcccchhHHHHHH
Confidence            56999999999999999754      345578999999999999999987321 11221 23334555433222221111


Q ss_pred             HHHhcCCCCCCCcHHHHHHHHHHHccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEec
Q 048765          248 VEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTT  312 (314)
Q Consensus       248 ~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTt  312 (314)
                      .......               .....+..++++|++.......+..+...+........+|+||
T Consensus        97 ~~~~~~~---------------~~~~~~~~iilide~d~~~~~~~~~ll~~l~~~~~~~~~i~~~  146 (231)
T d1iqpa2          97 KEFARTK---------------PIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSC  146 (231)
T ss_dssp             HHHHHSC---------------CGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEE
T ss_pred             HHHHhhh---------------hccCCCceEEeehhhhhcchhHHHHHhhhcccCCcceEEEecc
Confidence            1111100               0113467899999998766556667777766544444556655

>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=98.64  E-value=1.2e-07  Score=77.22  Aligned_cols=134  Identities=12%  Similarity=-0.008  Sum_probs=80.2

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhh-cCceeEEEEcCccccHHHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIR-KFDKILWVCVSETFEEFRVAKAM  247 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~-~F~~~~wv~~~~~~~~~~~~~~i  247 (314)
                      ++++|.+...+.|..++....      ...+.++|++|+||||+++.+++...-.. .......++.+.......+...+
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            458999999999999986543      34478999999999999999987432111 12334455555555554433333


Q ss_pred             HHHhcCCCCCCCcHHHHHHHHHHHccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEecc
Q 048765          248 VEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTR  313 (314)
Q Consensus       248 ~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR  313 (314)
                      -........... .    ..+......+.-++|||++.......+..+...+......+++|+||.
T Consensus        86 ~~~~~~~~~~~~-~----~~~~~~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~~~~~~~i~~~~  146 (237)
T d1sxjd2          86 KNFARLTVSKPS-K----HDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICN  146 (237)
T ss_dssp             HHHHHSCCCCCC-T----THHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEES
T ss_pred             HHHhhhhhhhhh-H----HHHhhccccCceEEEEecccccCHHHHHHHhhcccccccccccccccc
Confidence            222211111111 1    112223344555799999987655556666666665555666776653

>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=98.63  E-value=1.5e-07  Score=78.47  Aligned_cols=120  Identities=19%  Similarity=0.156  Sum_probs=78.7

Q ss_pred             ccccccccchhhHHHHHHHhhccCc---CCCCCeEEEEEEccCCCChHHHHHHhhchHhh----hhcCceeEEEEcCccc
Q 048765          166 IDEEEICGRVGEKNELLSKLLCESS---EQQKGLHIISIVGMGGIGKTTLAQLACNHEEV----IRKFDKILWVCVSETF  238 (314)
Q Consensus       166 ~~~~~~vgr~~~~~~l~~~L~~~~~---~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~----~~~F~~~~wv~~~~~~  238 (314)
                      +.++.++||+.+++.|.+.+...-.   .......++.++|++|+|||++++.+++...-    ........++++....
T Consensus        13 ~~P~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~   92 (287)
T d1w5sa2          13 YIPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAP   92 (287)
T ss_dssp             CCCSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCC
T ss_pred             cCCCCCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeecccccc
Confidence            3456799999999999887632111   11122345667899999999999999875321    1112456678888888


Q ss_pred             cHHHHHHHHHHHhcCCCCC-CCcHHHHHHHHHHHc--cCceEEEEEeccc
Q 048765          239 EEFRVAKAMVEALDGHESH-LGEFQSLLRHIYESI--AGKSFLLVLDDVW  285 (314)
Q Consensus       239 ~~~~~~~~i~~~~~~~~~~-~~~~~~~~~~l~~~L--~~kr~LlVlDdv~  285 (314)
                      +....+..+...+...... ..........+.+.+  .+...++++|.+.
T Consensus        93 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iide~d  142 (287)
T d1w5sa2          93 NLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQ  142 (287)
T ss_dssp             SHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTH
T ss_pred             chhhHHHHHhhhcccccccccchHHHHHHHHHHHHHhccCccccceeEEE
Confidence            8888888888877654332 233444455555444  4567788888874

>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=98.60  E-value=2.5e-07  Score=75.54  Aligned_cols=123  Identities=15%  Similarity=0.194  Sum_probs=74.6

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhh--------------------cCce
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIR--------------------KFDK  228 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~--------------------~F~~  228 (314)
                      .+++|.+...+.|..++....     -...+.++|++|+||||+|+.+++......                    ||+ 
T Consensus        12 ~dlig~~~~~~~L~~~i~~~~-----~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~-   85 (239)
T d1njfa_          12 ADVVGQEHVLTALANGLSLGR-----IHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVD-   85 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHTTC-----CCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHHTCCTT-
T ss_pred             HHccChHHHHHHHHHHHHcCC-----CCeeEEEECCCCCcHHHHHHHHHHHhcCccccccCccccchHHHHHHcCCCCe-
Confidence            469999999999999987643     234678999999999999998865321110                    111 


Q ss_pred             eEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHccCceEEEEEeccccCCccCHHhHHHhhccCCCCceE
Q 048765          229 ILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKI  308 (314)
Q Consensus       229 ~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~i  308 (314)
                      ...++.+....... .+.+.+.+....                ..++..++|||++...+...-..|...+......+++
T Consensus        86 ~~~~~~~~~~~i~~-ir~~~~~~~~~~----------------~~~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~  148 (239)
T d1njfa_          86 LIEIDAASRTKVED-TRDLLDNVQYAP----------------ARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKF  148 (239)
T ss_dssp             EEEEETTCSSSHHH-HHHHHHSCCCSC----------------SSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEE
T ss_pred             EEEecchhcCCHHH-HHHHHHHHHhcc----------------ccCCCEEEEEECcccCCHHHHHHHHHHHhcCCCCeEE
Confidence            22333222222211 112222211100                1345669999999887655556677777766667788


Q ss_pred             EEeccC
Q 048765          309 LVTTRK  314 (314)
Q Consensus       309 ivTtR~  314 (314)
                      |++|.+
T Consensus       149 il~tn~  154 (239)
T d1njfa_         149 LLATTD  154 (239)
T ss_dssp             EEEESC
T ss_pred             EEEcCC
Confidence            888753

>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=98.45  E-value=1.6e-07  Score=77.14  Aligned_cols=46  Identities=20%  Similarity=0.077  Sum_probs=35.9

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .+++|.+...+.|..++....     ....+.++|++|+||||+|+.+++.
T Consensus        11 ~diig~~~~~~~L~~~~~~~~-----~~~~lll~Gp~G~GKTt~~~~la~~   56 (252)
T d1sxje2          11 NALSHNEELTNFLKSLSDQPR-----DLPHLLLYGPNGTGKKTRCMALLES   56 (252)
T ss_dssp             GGCCSCHHHHHHHHTTTTCTT-----CCCCEEEECSTTSSHHHHHHTHHHH
T ss_pred             HHccCcHHHHHHHHHHHHcCC-----CCCeEEEECCCCCCHHHHHHHHHHh
Confidence            469999888888877775432     2344779999999999999998773

>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=98.38  E-value=9.3e-07  Score=72.86  Aligned_cols=97  Identities=19%  Similarity=0.276  Sum_probs=62.7

Q ss_pred             ccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhh---h-cCceeEEE-EcCccccHHHHH
Q 048765          170 EICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVI---R-KFDKILWV-CVSETFEEFRVA  244 (314)
Q Consensus       170 ~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~---~-~F~~~~wv-~~~~~~~~~~~~  244 (314)
                      .++||++++++++..|....      ...+.+||++|+|||+|+..++......   . .....+|. +++.-       
T Consensus        19 ~~igRd~Ei~~l~~iL~r~~------k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~l-------   85 (268)
T d1r6bx2          19 PLIGREKELERAIQVLCRRR------KNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSL-------   85 (268)
T ss_dssp             CCCSCHHHHHHHHHHHTSSS------SCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---------
T ss_pred             cccChHHHHHHHHHHHhcCc------cCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechH-------
Confidence            48999999999999997643      3466799999999999998887632211   1 12344443 33221       


Q ss_pred             HHHHHHhcCCCCCCCcHHHHHHHHHHHc-cCceEEEEEecccc
Q 048765          245 KAMVEALDGHESHLGEFQSLLRHIYESI-AGKSFLLVLDDVWD  286 (314)
Q Consensus       245 ~~i~~~~~~~~~~~~~~~~~~~~l~~~L-~~kr~LlVlDdv~~  286 (314)
                            +.+ .....++++....+...+ +.+..++++|++..
T Consensus        86 ------iag-~~~~g~~e~r~~~i~~~~~~~~~iIlfiDeih~  121 (268)
T d1r6bx2          86 ------LAG-TKYRGDFEKRFKALLKQLEQDTNSILFIDEIHT  121 (268)
T ss_dssp             -------CC-CCCSSCHHHHHHHHHHHHSSSSCEEEEETTTTT
T ss_pred             ------hcc-CccchhHHHHHHHHHHHhhccCCceEEecchHH
Confidence                  111 123455666555555555 55679999999854

>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=98.35  E-value=2.2e-06  Score=66.81  Aligned_cols=44  Identities=20%  Similarity=0.292  Sum_probs=37.4

Q ss_pred             ccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          170 EICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       170 ~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .++||++++++++..|....      ...+.++|.+|+|||+++..++..
T Consensus        23 ~~igRd~Ei~~l~~iL~r~~------k~n~lLvG~pGVGKTalv~~LA~r   66 (195)
T d1jbka_          23 PVIGRDEEIRRTIQVLQRRT------KNNPVLIGEPGVGKTAIVEGLAQR   66 (195)
T ss_dssp             CCCSCHHHHHHHHHHHTSSS------SCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCcCcHHHHHHHHHHHhccC------CCCeEEEecCCcccHHHHHHHHHH
Confidence            48999999999999997643      346789999999999999888763

>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=98.28  E-value=5.1e-06  Score=65.98  Aligned_cols=127  Identities=12%  Similarity=0.083  Sum_probs=69.5

Q ss_pred             hhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCC
Q 048765          175 VGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGH  254 (314)
Q Consensus       175 ~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~  254 (314)
                      +...+++.+.+....     -...+.++|+.|+||||+|+.++...--.....   +-.+....+..    .+.......
T Consensus         8 ~~~~~~l~~~~~~~~-----l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~---~~~~~~~~~~~----~i~~~~~~~   75 (207)
T d1a5ta2           8 RPDFEKLVASYQAGR-----GHHALLIQALPGMGDDALIYALSRYLLCQQPQG---HKSCGHCRGCQ----LMQAGTHPD   75 (207)
T ss_dssp             HHHHHHHHHHHHTTC-----CCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBT---TBCCSCSHHHH----HHHHTCCTT
T ss_pred             HHHHHHHHHHHHcCC-----cCeEEEEECCCCCcHHHHHHHHHHhcccccccc---cccccccchhh----hhhhccccc
Confidence            445677777776532     245688999999999999998765210000000   00000011111    111111000


Q ss_pred             -------C-CCCCcHHHHHHHHHHHc-----cCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEeccC
Q 048765          255 -------E-SHLGEFQSLLRHIYESI-----AGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTRK  314 (314)
Q Consensus       255 -------~-~~~~~~~~~~~~l~~~L-----~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR~  314 (314)
                             . ...-..++ +..+.+.+     .+++-++|||++..........|+..+........+|+||.+
T Consensus        76 ~~~~~~~~~~~~i~~~~-ir~l~~~~~~~~~~~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~  147 (207)
T d1a5ta2          76 YYTLAPEKGKNTLGVDA-VREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATRE  147 (207)
T ss_dssp             EEEECCCTTCSSBCHHH-HHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESC
T ss_pred             cchhhhhhcccccccch-hhHHhhhhhhccccCccceEEechhhhhhhhhhHHHHHHHHhhcccceeeeeecC
Confidence                   0 00011122 22222222     356779999999988767788888888877778888888764

>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=98.28  E-value=2e-06  Score=68.73  Aligned_cols=99  Identities=27%  Similarity=0.294  Sum_probs=60.0

Q ss_pred             EEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHccCce
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGKS  276 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~kr  276 (314)
                      ..+.|+|+.|+|||+|++.+++.  .......+++++      ..++...+...+...     ...    .+.+.+. .-
T Consensus        37 n~l~l~G~~G~GKTHLl~A~~~~--~~~~~~~~~~~~------~~~~~~~~~~~~~~~-----~~~----~~~~~~~-~~   98 (213)
T d1l8qa2          37 NPIFIYGSVGTGKTHLLQAAGNE--AKKRGYRVIYSS------ADDFAQAMVEHLKKG-----TIN----EFRNMYK-SV   98 (213)
T ss_dssp             SSEEEECSSSSSHHHHHHHHHHH--HHHTTCCEEEEE------HHHHHHHHHHHHHHT-----CHH----HHHHHHH-TC
T ss_pred             CcEEEECCCCCcHHHHHHHHHHH--hccCccceEEec------hHHHHHHHHHHHHcc-----chh----hHHHHHh-hc
Confidence            34789999999999999999984  444445566664      444444555544321     111    2222222 35


Q ss_pred             EEEEEeccccCC-ccCHHh-HHHhhcc-CCCCceEEEecc
Q 048765          277 FLLVLDDVWDGN-YVKWEP-FYHCLKN-GLHGSKILVTTR  313 (314)
Q Consensus       277 ~LlVlDdv~~~~-~~~~~~-l~~~l~~-~~~gs~iivTtR  313 (314)
                      -+|+|||+.... ...|+. +...+.. ...|..||+||+
T Consensus        99 dll~iDDi~~i~~~~~~~~~lf~lin~~~~~~~~iiits~  138 (213)
T d1l8qa2          99 DLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASD  138 (213)
T ss_dssp             SEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEES
T ss_pred             cchhhhhhhhhcCchHHHHHHHHHHHHHhhccceEEEecC
Confidence            689999996532 134554 4444432 245778999986

>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=98.19  E-value=2.6e-06  Score=69.69  Aligned_cols=111  Identities=23%  Similarity=0.265  Sum_probs=64.3

Q ss_pred             cccccchhhHHHHHHHhhccC-----------cCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCcc
Q 048765          169 EEICGRVGEKNELLSKLLCES-----------SEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSET  237 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~-----------~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~  237 (314)
                      .+++|.+..++.|.+||....           .......+.+.++|++|+||||+|+.+++..     .-...+++.+..
T Consensus        14 ~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~-----~~~~~~~~~~~~   88 (253)
T d1sxja2          14 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQEL-----GYDILEQNASDV   88 (253)
T ss_dssp             GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHT-----TCEEEEECTTSC
T ss_pred             HHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHH-----Hhhhhccccccc
Confidence            579999999999999885411           0112445688999999999999999998732     223556777665


Q ss_pred             ccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHccCceEEEEEeccccC
Q 048765          238 FEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDG  287 (314)
Q Consensus       238 ~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~  287 (314)
                      .+...+-. .................  ........++..++++|++...
T Consensus        89 ~~~~~~~~-~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~vi~ide~~~~  135 (253)
T d1sxja2          89 RSKTLLNA-GVKNALDNMSVVGYFKH--NEEAQNLNGKHFVIIMDEVDGM  135 (253)
T ss_dssp             CCHHHHHH-TGGGGTTBCCSTTTTTC------CCSSTTSEEEEECSGGGC
T ss_pred             hhhHHHHH-HHHHHhhcchhhhhhhh--hhhcccccccceEEEeeecccc
Confidence            54443322 22222111100000000  0011123567789999998754

>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=98.16  E-value=4.4e-06  Score=72.56  Aligned_cols=97  Identities=19%  Similarity=0.280  Sum_probs=55.5

Q ss_pred             ccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHh---h-hhcCceeEE-EEcCccccHHHHH
Q 048765          170 EICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEE---V-IRKFDKILW-VCVSETFEEFRVA  244 (314)
Q Consensus       170 ~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~---~-~~~F~~~~w-v~~~~~~~~~~~~  244 (314)
                      .++||+.++++++..|....      ...+.+||.+|+|||+|+..++....   + ..-.+..+| ++++.-...    
T Consensus        23 ~~~gr~~ei~~~~~~L~r~~------k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag----   92 (387)
T d1qvra2          23 PVIGRDEEIRRVIQILLRRT------KNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAG----   92 (387)
T ss_dssp             CCCSCHHHHHHHHHHHHCSS------CCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC----------
T ss_pred             CCcCcHHHHHHHHHHHhcCC------CCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhhhcc----
Confidence            48999999999999998643      34457889999999999876655211   1 112244454 444321110    


Q ss_pred             HHHHHHhcCCCCCCCcHHHHHHHHHHHc-c-CceEEEEEecccc
Q 048765          245 KAMVEALDGHESHLGEFQSLLRHIYESI-A-GKSFLLVLDDVWD  286 (314)
Q Consensus       245 ~~i~~~~~~~~~~~~~~~~~~~~l~~~L-~-~kr~LlVlDdv~~  286 (314)
                                .....++.+....+...+ . ...++|+||++..
T Consensus        93 ----------~~~~g~~e~r~~~i~~~~~~~~~~~ilfide~h~  126 (387)
T d1qvra2          93 ----------AKYRGEFEERLKAVIQEVVQSQGEVILFIDELHT  126 (387)
T ss_dssp             ---------------CHHHHHHHHHHHHHTTCSSEEEEECCC--
T ss_pred             ----------cCcchhHHHHHHHHHHHhccCCCceEEEeccHHH
Confidence                      011233444444443334 3 3479999999954

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=98.04  E-value=2.5e-05  Score=61.36  Aligned_cols=113  Identities=13%  Similarity=-0.009  Sum_probs=71.2

Q ss_pred             HHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhh--hhcCceeEEEEcC-ccccHHHHHHHHHHHhcCC
Q 048765          178 KNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEV--IRKFDKILWVCVS-ETFEEFRVAKAMVEALDGH  254 (314)
Q Consensus       178 ~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~--~~~F~~~~wv~~~-~~~~~~~~~~~i~~~~~~~  254 (314)
                      ++.+..++..      .....+.++|.+|+|||++|..+.+....  ..|.| ..++... .....+.+ +.+.+.+...
T Consensus         3 ~~~l~~~i~~------~~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D-~~~i~~~~~~I~Id~I-R~i~~~~~~~   74 (198)
T d2gnoa2           3 LETLKRIIEK------SEGISILINGEDLSYPREVSLELPEYVEKFPPKASD-VLEIDPEGENIGIDDI-RTIKDFLNYS   74 (198)
T ss_dssp             HHHHHHHHHT------CSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTT-EEEECCSSSCBCHHHH-HHHHHHHTSC
T ss_pred             HHHHHHHHhc------CCCceEEEECCCCCCHHHHHHHHHHHHhccccCCCC-EEEEeCCcCCCCHHHH-HHHHHHHhhC
Confidence            4445555543      34678999999999999999988763221  12333 3334322 12223332 2333333222


Q ss_pred             CCCCCcHHHHHHHHHHHccCceEEEEEeccccCCccCHHhHHHhhccCCCCceEEEeccC
Q 048765          255 ESHLGEFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKNGLHGSKILVTTRK  314 (314)
Q Consensus       255 ~~~~~~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iivTtR~  314 (314)
                      +                ..+++-++|+|++...+...++.|+..+..-+..+.+|++|.+
T Consensus        75 ~----------------~~~~~KviIId~ad~l~~~aqNaLLK~LEEPp~~t~fiLit~~  118 (198)
T d2gnoa2          75 P----------------ELYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRR  118 (198)
T ss_dssp             C----------------SSSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESC
T ss_pred             c----------------ccCCCEEEEEeCccccchhhhhHHHHHHhCCCCCceeeeccCC
Confidence            1                1355669999999998888889999999877778888887753

>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=98.03  E-value=1.3e-05  Score=64.75  Aligned_cols=49  Identities=29%  Similarity=0.397  Sum_probs=37.5

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+++|.+..++.|..++..... .+...+.+.++|++|+||||+|+.+++
T Consensus         9 ~divGqe~~~~~l~~~i~~~~~-~~~~~~~~L~~GPpGtGKT~lA~~la~   57 (238)
T d1in4a2           9 DEFIGQENVKKKLSLALEAAKM-RGEVLDHVLLAGPPGLGKTTLAHIIAS   57 (238)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHH-HTCCCCCEEEESSTTSSHHHHHHHHHH
T ss_pred             HHcCChHHHHHHHHHHHHHHHh-cCCCCCeEEEECCCCCcHHHHHHHHHh
Confidence            5699999999998888753211 113345677999999999999999987

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=97.94  E-value=3.4e-05  Score=62.74  Aligned_cols=47  Identities=19%  Similarity=0.102  Sum_probs=32.8

Q ss_pred             cccccchhhHHHHHHHh-------hccCcCCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELLSKL-------LCESSEQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L-------~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..++|....++.+++.+       ....   ....+-|.++|++|+|||++|+.+++
T Consensus         9 ~~~i~~~~~i~~i~~~~~~~~~~~~~~~---~~p~~~vLL~GppGtGKT~la~alA~   62 (246)
T d1d2na_           9 NGIIKWGDPVTRVLDDGELLVQQTKNSD---RTPLVSVLLEGPPHSGKTALAAKIAE   62 (246)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCS---SCSEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             cCCcCcCHHHHHHHHHHHHHHHHHhccC---CCCCeEEEEECcCCCCHHHHHHHHhh
Confidence            34777766665544433       2222   23467788999999999999999987

>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=97.90  E-value=1.5e-05  Score=67.37  Aligned_cols=120  Identities=16%  Similarity=0.166  Sum_probs=70.3

Q ss_pred             cccccchhhHHHHHHHhhcc---CcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCE---SSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAK  245 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~---~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~  245 (314)
                      ..++|.+..++.+...+...   -........++.++|+.|+|||.||+.+..-  .   +...+-++++.-.....   
T Consensus        22 ~~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~--l---~~~~i~~d~s~~~~~~~---   93 (315)
T d1r6bx3          22 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKA--L---GIELLRFDMSEYMERHT---   93 (315)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHH--H---TCEEEEEEGGGCSSSSC---
T ss_pred             CeecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhh--c---cCCeeEeccccccchhh---
Confidence            35889888888887665311   1111244668889999999999999999762  2   34455566654322111   


Q ss_pred             HHHHHhcCCCCCCCcHH-HHHHHHHHHc-cCceEEEEEeccccCCccCHHhHHHhhc
Q 048765          246 AMVEALDGHESHLGEFQ-SLLRHIYESI-AGKSFLLVLDDVWDGNYVKWEPFYHCLK  300 (314)
Q Consensus       246 ~i~~~~~~~~~~~~~~~-~~~~~l~~~L-~~kr~LlVlDdv~~~~~~~~~~l~~~l~  300 (314)
                        ...+-+..  ..... .....+...+ +....+++||++.....+.|+.+...+.
T Consensus        94 --~~~l~g~~--~gy~g~~~~~~l~~~~~~~~~~vvl~DeieKa~~~V~~~lLqild  146 (315)
T d1r6bx3          94 --VSRLIGAP--PGYVGFDQGGLLTDAVIKHPHAVLLLDEIEKAHPDVFNILLQVMD  146 (315)
T ss_dssp             --CSSSCCCC--SCSHHHHHTTHHHHHHHHCSSEEEEEETGGGSCHHHHHHHHHHHH
T ss_pred             --hhhhcccC--CCccccccCChhhHHHHhCccchhhhcccccccchHhhhhHHhhc
Confidence              00111111  11111 0011122222 4567899999999887778888887774

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=97.88  E-value=2e-05  Score=63.65  Aligned_cols=49  Identities=29%  Similarity=0.403  Sum_probs=37.0

Q ss_pred             cccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ++++|.+..++.|..++..... .....+-+.++|++|+||||+|+.+++
T Consensus         9 ddivGq~~~~~~L~~~i~~~~~-~~~~~~~~Ll~GPpG~GKTtla~~la~   57 (239)
T d1ixsb2           9 DEYIGQERLKQKLRVYLEAAKA-RKEPLEHLLLFGPPGLGKTTLAHVIAH   57 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHTT-SSSCCCCEEEECCTTSCHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHh-cCCCCCeEEEECCCCCCHHHHHHHHHH
Confidence            4689998888888877754221 112355677999999999999999987

>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=97.85  E-value=2e-05  Score=66.55  Aligned_cols=124  Identities=13%  Similarity=0.226  Sum_probs=69.3

Q ss_pred             cccccchhhHHHHHHHhhccC---cCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHH
Q 048765          169 EEICGRVGEKNELLSKLLCES---SEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAK  245 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~~~---~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~  245 (314)
                      ..++|.+..++.+...+....   ........++.++|+.|+|||.||+.+...  .-..-...+-++++...+...+. 
T Consensus        23 ~~v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~--l~~~~~~~~~~~~~~~~~~~~~~-   99 (315)
T d1qvra3          23 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAAT--LFDTEEAMIRIDMTEYMEKHAVS-   99 (315)
T ss_dssp             HHSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHH--HHSSGGGEEEECTTTCCSSGGGG-
T ss_pred             CeEeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHHH--hcCCCcceEEEeccccccchhhh-
Confidence            357888888887766554211   111234557889999999999999998773  22222334455655443322210 


Q ss_pred             HHHHHhcCCCCCCC--cHHHHHHHHHHHccCceEEEEEeccccCCccCHHhHHHhhcc
Q 048765          246 AMVEALDGHESHLG--EFQSLLRHIYESIAGKSFLLVLDDVWDGNYVKWEPFYHCLKN  301 (314)
Q Consensus       246 ~i~~~~~~~~~~~~--~~~~~~~~l~~~L~~kr~LlVlDdv~~~~~~~~~~l~~~l~~  301 (314)
                         .-++..+....  ....+...++   +....+|+||++.+.....++.|...+..
T Consensus       100 ---~L~g~~~gyvG~~~~~~l~~~~~---~~p~~Vvl~DEieK~~~~v~~~ll~~l~~  151 (315)
T d1qvra3         100 ---RLIGAPPGYVGYEEGGQLTEAVR---RRPYSVILFDEIEKAHPDVFNILLQILDD  151 (315)
T ss_dssp             ---GC--------------CHHHHHH---HCSSEEEEESSGGGSCHHHHHHHHHHHTT
T ss_pred             ---hhcCCCCCCcCcccCChHHHHHH---hCCCcEEEEehHhhcCHHHHHHHHHHhcc
Confidence               00111111000  1112223332   35678999999998877777878777753

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.65  E-value=7.7e-05  Score=61.02  Aligned_cols=50  Identities=20%  Similarity=0.183  Sum_probs=34.8

Q ss_pred             cccccchhhHHHHHHHh----hccCcC---CCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELLSKL----LCESSE---QQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L----~~~~~~---~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .++.|.+...+.|.+.+    ...+.-   +....+-+.++|++|+|||+|++.++.
T Consensus         4 ~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~   60 (258)
T d1e32a2           4 DDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVAN   60 (258)
T ss_dssp             GGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             hhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHH
Confidence            35788888877777653    221100   113345688999999999999999987

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=97.55  E-value=0.00011  Score=59.92  Aligned_cols=50  Identities=28%  Similarity=0.226  Sum_probs=33.8

Q ss_pred             cccccchhhHHHHH---HHhhccCcC---CCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELL---SKLLCESSE---QQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~---~~L~~~~~~---~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ++++|.+...+.|.   .++.....-   +....+.+.++|++|+|||+||+.+++
T Consensus        12 ~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~   67 (256)
T d1lv7a_          12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAG   67 (256)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHH
T ss_pred             HHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHH
Confidence            56888877666654   444322110   123356678999999999999999987

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=97.54  E-value=0.00027  Score=55.49  Aligned_cols=58  Identities=22%  Similarity=0.272  Sum_probs=37.5

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccH--HHHHHHHHHHhcCC
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEE--FRVAKAMVEALDGH  254 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~--~~~~~~i~~~~~~~  254 (314)
                      ....||.++|+.|+||||.+-+++....   +....+.+-..+.+..  .+-++...+.++..
T Consensus         7 ~~p~vi~lvGptGvGKTTTiAKLA~~~~---~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~   66 (211)
T d2qy9a2           7 KAPFVILMVGVNGVGKTTTIGKLARQFE---QQGKSVMLAAGDTFRAAAVEQLQVWGQRNNIP   66 (211)
T ss_dssp             CTTEEEEEECCTTSCHHHHHHHHHHHHH---TTTCCEEEECCCTTCHHHHHHHHHHHHHTTCC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH---HCCCcEEEEecccccccchhhhhhhhhhcCCc
Confidence            4578999999999999999988876432   2223344443344433  45566666666543

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=97.54  E-value=0.00013  Score=59.11  Aligned_cols=50  Identities=28%  Similarity=0.314  Sum_probs=33.2

Q ss_pred             cccccchhhHHHHHH---HhhccCc---CCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELLS---KLLCESS---EQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~---~L~~~~~---~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+++|-+...+.|.+   .+.....   .+....+-+.++|++|+|||+||+.+++
T Consensus         9 ~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~   64 (247)
T d1ixza_           9 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAG   64 (247)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHH
T ss_pred             HHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHH
Confidence            468888776655443   3332110   0113345688999999999999999987

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.52  E-value=0.00033  Score=57.27  Aligned_cols=86  Identities=19%  Similarity=0.112  Sum_probs=61.0

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCC-----CCCcHHHHHHHH
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHES-----HLGEFQSLLRHI  268 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~-----~~~~~~~~~~~l  268 (314)
                      +.-+++-|+|..|+|||+|+..++..  .+..-..++|++....++.+.     +++++....     .....++..+.+
T Consensus        58 ~~g~i~e~~G~~~~GKT~l~l~~~~~--~q~~g~~~vyIDtE~~~~~e~-----a~~~GvD~d~il~~~~~~~E~~~~~~  130 (269)
T d1mo6a1          58 PRGRVIEIYGPESSGKTTVALHAVAN--AQAAGGVAAFIDAEHALDPDY-----AKKLGVDTDSLLVSQPDTGEQALEIA  130 (269)
T ss_dssp             CSSSEEEEECSSSSSHHHHHHHHHHH--HHHTTCEEEEEESSCCCCHHH-----HHHHTCCGGGCEEECCSSHHHHHHHH
T ss_pred             ccceeEEEecCCCcHHHHHHHHHHHH--HhcCCCEEEEEECCccCCHHH-----HHHhCCCHHHeEEecCCCHHHHHHHH
Confidence            55678999999999999999888763  334445789999999888754     555655432     233455555555


Q ss_pred             HHHc-cCceEEEEEecccc
Q 048765          269 YESI-AGKSFLLVLDDVWD  286 (314)
Q Consensus       269 ~~~L-~~kr~LlVlDdv~~  286 (314)
                      ...+ .++.-|||+|.+-.
T Consensus       131 ~~l~~~~~~~liIiDSi~a  149 (269)
T d1mo6a1         131 DMLIRSGALDIVVIDSVAA  149 (269)
T ss_dssp             HHHHHTTCEEEEEEECSTT
T ss_pred             HHHHhcCCCCEEEEecccc
Confidence            5444 45678999999944

>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=97.47  E-value=5.5e-05  Score=63.64  Aligned_cols=63  Identities=19%  Similarity=0.226  Sum_probs=39.4

Q ss_pred             cccccchhhHHHHHHHhhc----c----CcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCc
Q 048765          169 EEICGRVGEKNELLSKLLC----E----SSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSE  236 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~~----~----~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~  236 (314)
                      ..++|.++.++.+...+..    .    ........+.+.++|++|+|||.||+.+++.  .   +...+-++++.
T Consensus        14 ~~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~--~---~~~~~~i~~s~   84 (309)
T d1ofha_          14 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKL--A---NAPFIKVEATK   84 (309)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHH--H---TCCEEEEEGGG
T ss_pred             CcccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhc--c---ccchhcccccc
Confidence            3578888888777654411    0    0000123466778999999999999999873  2   33344455544

>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=97.42  E-value=0.00032  Score=57.33  Aligned_cols=86  Identities=19%  Similarity=0.143  Sum_probs=61.0

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCC-----CCCcHHHHHHHH
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHES-----HLGEFQSLLRHI  268 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~-----~~~~~~~~~~~l  268 (314)
                      +.-+++-|+|+.|+|||+|+..++...  +..=..++|++....++++     +++.++....     ...+.++..+.+
T Consensus        55 p~g~itei~G~~~sGKT~l~l~~~~~a--qk~g~~v~yiDtE~~~~~~-----~a~~~Gvd~d~i~~~~~~~~E~~~~~~  127 (268)
T d1xp8a1          55 PRGRITEIYGPESGGKTTLALAIVAQA--QKAGGTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIM  127 (268)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHH--HHTTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             cCceEEEEecCCccchHHHHHHHHHHH--HhCCCEEEEEECCccCCHH-----HHHHhCCCchhEEEEcCCCHHHHHHHH
Confidence            345688999999999999998887743  3333568999999888874     5677766532     234455556666


Q ss_pred             HHHc-cCceEEEEEecccc
Q 048765          269 YESI-AGKSFLLVLDDVWD  286 (314)
Q Consensus       269 ~~~L-~~kr~LlVlDdv~~  286 (314)
                      ...+ .++.-|||+|-+-.
T Consensus       128 ~~l~~~~~~~liIiDSi~a  146 (268)
T d1xp8a1         128 ELLVRSGAIDVVVVDSVAA  146 (268)
T ss_dssp             HHHHTTTCCSEEEEECTTT
T ss_pred             HHHHhcCCCcEEEEecccc
Confidence            5555 34567999999944

>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=97.39  E-value=0.00013  Score=59.82  Aligned_cols=50  Identities=28%  Similarity=0.218  Sum_probs=33.3

Q ss_pred             cccccchhhHHHHHHHhh----ccCc---CCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELLSKLL----CESS---EQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~----~~~~---~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +++.|.+...+.|.+.+.    ..+.   .+-...+.|.++|++|+|||+||+.++.
T Consensus         7 ~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~   63 (265)
T d1r7ra3           7 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIAN   63 (265)
T ss_dssp             SSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHH
Confidence            347777776666655542    1100   0123455688999999999999999987

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.35  E-value=0.00019  Score=55.42  Aligned_cols=53  Identities=21%  Similarity=0.193  Sum_probs=34.5

Q ss_pred             hhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEE
Q 048765          176 GEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVC  233 (314)
Q Consensus       176 ~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~  233 (314)
                      +.++.|++....-.   ..+.-+|+|.|..|+||||||+.+...  ....+.....++
T Consensus         5 ~~~~~~~~~~~~~~---~~~~~iIgI~G~~GSGKSTla~~L~~~--l~~~~~~~~~~~   57 (198)
T d1rz3a_           5 DRIDFLCKTILAIK---TAGRLVLGIDGLSRSGKTTLANQLSQT--LREQGISVCVFH   57 (198)
T ss_dssp             HHHHHHHHHHHTSC---CSSSEEEEEEECTTSSHHHHHHHHHHH--HHHTTCCEEEEE
T ss_pred             HHHHHHHHHHHhcc---CCCCEEEEEECCCCCCHHHHHHHHHHH--hccccccceecc
Confidence            34555555554332   255779999999999999999999763  333333344443

>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=97.35  E-value=0.00011  Score=55.91  Aligned_cols=38  Identities=13%  Similarity=0.038  Sum_probs=28.4

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhh-cCceeEEEE
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIR-KFDKILWVC  233 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~-~F~~~~wv~  233 (314)
                      .+-.+|.|+|++|+||||+|+.+..  +... +++...++.
T Consensus         4 ~~g~~I~l~G~~GsGKTTia~~La~--~L~~~~~~~~~~~~   42 (183)
T d1m8pa3           4 TQGFTIFLTGYMNSGKDAIARALQV--TLNQQGGRSVSLLL   42 (183)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHH--HHHHHCSSCEEEEE
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH--HHhhcCCCchhhhh
Confidence            4567899999999999999999987  4333 345555554

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=97.29  E-value=0.00051  Score=55.98  Aligned_cols=85  Identities=18%  Similarity=0.117  Sum_probs=58.5

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCC-----CCCcHHHHHHHHH
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHES-----HLGEFQSLLRHIY  269 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~-----~~~~~~~~~~~l~  269 (314)
                      .-+++-|+|++|+|||||+.+++...  +..-..++|++....++..     .++.++....     .....++..+.+.
T Consensus        53 ~g~itei~G~~gsGKTtl~l~~~~~~--q~~g~~~vyidtE~~~~~~-----~a~~~Gvd~d~v~~~~~~~~E~~~~~i~  125 (263)
T d1u94a1          53 MGRIVEIYGPESSGKTTLTLQVIAAA--QREGKTCAFIDAEHALDPI-----YARKLGVDIDNLLCSQPDTGEQALEICD  125 (263)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHH--HHTTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             CceEEEEecCCCcHHHHHHHHHHHHH--HcCCCEEEEEccccccCHH-----HHHHhCCCHHHEEEecCCCHHHHHHHHH
Confidence            44688999999999999999888743  3444568999998888764     3556655422     2334555555555


Q ss_pred             HHcc-CceEEEEEecccc
Q 048765          270 ESIA-GKSFLLVLDDVWD  286 (314)
Q Consensus       270 ~~L~-~kr~LlVlDdv~~  286 (314)
                      ..++ ++.-|||+|.+-.
T Consensus       126 ~l~~~~~~~liViDSi~a  143 (263)
T d1u94a1         126 ALARSGAVDVIVVDSVAA  143 (263)
T ss_dssp             HHHHHTCCSEEEEECGGG
T ss_pred             HHHhcCCCCEEEEECccc
Confidence            5443 4456999999943

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=97.26  E-value=0.00099  Score=52.12  Aligned_cols=58  Identities=22%  Similarity=0.139  Sum_probs=35.5

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCc-cccHHHHHHHHHHHhcC
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSE-TFEEFRVAKAMVEALDG  253 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~~~~  253 (314)
                      .+.+|+.++|+.|+||||.+.+++....  ..-..+..+++.. .....+.++...+.++.
T Consensus         8 ~~~~vi~lvGp~GvGKTTTiaKLA~~~~--~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v   66 (207)
T d1ls1a2           8 KDRNLWFLVGLQGSGKTTTAAKLALYYK--GKGRRPLLVAADTQRPAAREQLRLLGEKVGV   66 (207)
T ss_dssp             CSSEEEEEECCTTTTHHHHHHHHHHHHH--HTTCCEEEEECCSSCHHHHHHHHHHHHHHTC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHH--HCCCcEEEEecccccchHHHHHHHHHHhcCC
Confidence            3468999999999999999988876433  2223455555422 22333445555555443

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=97.24  E-value=0.00098  Score=52.33  Aligned_cols=58  Identities=17%  Similarity=0.143  Sum_probs=39.3

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcC-ccccHHHHHHHHHHHhcC
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVS-ETFEEFRVAKAMVEALDG  253 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~-~~~~~~~~~~~i~~~~~~  253 (314)
                      .++.||.++|+.|+||||.+-+++....  .+-..+..+++. ......+-++...+.++.
T Consensus         9 ~~p~vi~lvGptGvGKTTTiAKLAa~~~--~~~~kV~lit~Dt~R~gA~eQL~~~a~~l~i   67 (213)
T d1vmaa2           9 EPPFVIMVVGVNGTGKTTSCGKLAKMFV--DEGKSVVLAAADTFRAAAIEQLKIWGERVGA   67 (213)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHHH--HTTCCEEEEEECTTCHHHHHHHHHHHHHHTC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH--HCCCceEEEeecccccchhHHHHHHhhhcCc
Confidence            5678999999999999999888876432  222456666653 233445566666666654

>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=97.24  E-value=6.3e-05  Score=57.63  Aligned_cols=24  Identities=21%  Similarity=0.245  Sum_probs=21.8

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+.|.|.|+.|+||||||+.+..
T Consensus         6 ~~K~I~i~G~~GsGKTTla~~La~   29 (192)
T d1lw7a2           6 FAKTVAILGGESSGKSVLVNKLAA   29 (192)
T ss_dssp             TCEEEEEECCTTSHHHHHHHHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHHH
Confidence            468999999999999999998866

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=97.22  E-value=8.7e-05  Score=56.04  Aligned_cols=24  Identities=25%  Similarity=0.396  Sum_probs=21.5

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .+|+.|+|+.|+|||||++.+...
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~~   25 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIPA   25 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHH
Confidence            468999999999999999999863

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.21  E-value=0.00011  Score=56.15  Aligned_cols=24  Identities=33%  Similarity=0.411  Sum_probs=21.1

Q ss_pred             EEEEEEccCCCChHHHHHHhhchH
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHE  220 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~  220 (314)
                      +.|.|+|++|+|||||++.++...
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            468999999999999999998743

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Polynucleotide kinase, kinase domain
species: Bacteriophage T4 [TaxId: 10665]

Probab=97.21  E-value=9.3e-05  Score=54.92  Aligned_cols=22  Identities=36%  Similarity=0.431  Sum_probs=19.3

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ++|.|+|++|+||||||+.+..
T Consensus         3 klIii~G~pGsGKTTla~~L~~   24 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIA   24 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            5788999999999999998754

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=97.20  E-value=0.0005  Score=53.86  Aligned_cols=58  Identities=16%  Similarity=0.075  Sum_probs=38.9

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcC-ccccHHHHHHHHHHHhcC
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVS-ETFEEFRVAKAMVEALDG  253 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~-~~~~~~~~~~~i~~~~~~  253 (314)
                      .+.+++.++|+.|+||||.+-+++....  .+=..+..+++. ......+-++...+.++.
T Consensus         4 ~~~~vi~lvGptGvGKTTTiaKLA~~~~--~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~i   62 (207)
T d1okkd2           4 PKGRVVLVVGVNGVGKTTTIAKLGRYYQ--NLGKKVMFCAGDTFRAAGGTQLSEWGKRLSI   62 (207)
T ss_dssp             CSSSEEEEECSTTSSHHHHHHHHHHHHH--TTTCCEEEECCCCSSTTHHHHHHHHHHHHTC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH--HCCCcEEEEEeccccccchhhHhhcccccCc
Confidence            3567999999999999999988876433  222456666653 234555566666666544

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=97.19  E-value=5.9e-05  Score=56.51  Aligned_cols=22  Identities=32%  Similarity=0.436  Sum_probs=19.6

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +.|.++|++|+||||+|+.+..
T Consensus         3 k~I~l~G~~GsGKSTvak~La~   24 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQ   24 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            4688889999999999999976

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=97.17  E-value=0.00022  Score=58.14  Aligned_cols=41  Identities=22%  Similarity=0.247  Sum_probs=28.6

Q ss_pred             hHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          177 EKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       177 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+...++.+..... ....++.|.++|++|+||||||+.+++
T Consensus        14 ~~~~~~~~~~~~~~-~~~~P~~ilL~GpPGtGKT~la~~la~   54 (273)
T d1gvnb_          14 RLNDNLEELIQGKK-AVESPTAFLLGGQPGSGKTSLRSAIFE   54 (273)
T ss_dssp             HHHHHHHHHHTTCC-CCSSCEEEEEECCTTSCTHHHHHHHHH
T ss_pred             HHHHHHHHHHhccc-CCCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            34444444433222 235577889999999999999999987

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=97.16  E-value=0.0001  Score=55.66  Aligned_cols=22  Identities=27%  Similarity=0.465  Sum_probs=19.9

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ++|.|.|++|+||||+|+.+..
T Consensus         3 klI~i~G~~GsGKTTva~~L~~   24 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAA   24 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999998864

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.13  E-value=0.00012  Score=56.57  Aligned_cols=37  Identities=16%  Similarity=0.074  Sum_probs=26.8

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEE
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWV  232 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv  232 (314)
                      .+-.+|.++|++|+||||+|+.+..  +....+....++
T Consensus        17 ~~g~vI~L~G~pGSGKTTiAk~La~--~l~~~~~~~~~~   53 (195)
T d1x6va3          17 FRGCTVWLTGLSGAGKTTVSMALEE--YLVCHGIPCYTL   53 (195)
T ss_dssp             CCCEEEEEESSCHHHHHHHHHHHHH--HHHHTTCCEEEE
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH--HHHhcCCCccch
Confidence            3467889999999999999999976  343444333443

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=97.13  E-value=0.00062  Score=53.41  Aligned_cols=58  Identities=19%  Similarity=0.094  Sum_probs=32.4

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCc-cccHHHHHHHHHHHhcC
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSE-TFEEFRVAKAMVEALDG  253 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~-~~~~~~~~~~i~~~~~~  253 (314)
                      +...||.++|+.|+||||.+-+++...+.+ . ..+..|++.. .....+-++...+.++.
T Consensus        10 k~p~vi~lvGptGvGKTTTiAKLA~~~~~~-g-~kV~lit~Dt~R~ga~eQL~~~a~~l~v   68 (211)
T d1j8yf2          10 KIPYVIMLVGVQGTGKATTAGKLAYFYKKK-G-FKVGLVGADVYRPAALEQLQQLGQQIGV   68 (211)
T ss_dssp             SSSEEEEEECSCCC----HHHHHHHHHHHT-T-CCEEEEECCCSSHHHHHHHHHHHHHHTC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHC-C-CceEEEEeeccccchhHHHHHhccccCc
Confidence            567899999999999999988887643322 2 2456666532 22334444555555443

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=97.09  E-value=0.00016  Score=56.13  Aligned_cols=25  Identities=20%  Similarity=0.254  Sum_probs=22.6

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .++.+|.|+|++|+||||+|+.++.
T Consensus         4 ~kp~iI~i~G~pGSGKsT~a~~La~   28 (194)
T d1qf9a_           4 SKPNVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHH
Confidence            4678999999999999999998876

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=97.01  E-value=0.00051  Score=55.53  Aligned_cols=45  Identities=27%  Similarity=0.290  Sum_probs=34.0

Q ss_pred             ccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          170 EICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       170 ~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ++||....++++.+.+..-..    .-.-|.|.|..|+|||++|+.++.
T Consensus         1 ~~v~~S~~~~~~~~~~~~~a~----~~~pvlI~Ge~GtGK~~~A~~ih~   45 (247)
T d1ny5a2           1 EYVFESPKMKEILEKIKKISC----AECPVLITGESGVGKEVVARLIHK   45 (247)
T ss_dssp             CCCCCSHHHHHHHHHHHHHTT----CCSCEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEecCHHHHHHHHHHHHHhC----CCCCEEEECCCCcCHHHHHHHHHH
Confidence            378888888888877765331    223468899999999999999975

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

Probab=97.00  E-value=0.00012  Score=55.33  Aligned_cols=22  Identities=36%  Similarity=0.502  Sum_probs=19.3

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..|.|.|++|+||||+|+.+..
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~   26 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELAS   26 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4577999999999999998865

>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=96.99  E-value=0.00021  Score=53.91  Aligned_cols=25  Identities=28%  Similarity=0.537  Sum_probs=22.4

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +..+++.|.|++|+||||+|+.+..
T Consensus         4 ~~~~iivl~G~~GsGKsT~a~~La~   28 (171)
T d1knqa_           4 HDHHIYVLMGVSGSGKSAVASEVAH   28 (171)
T ss_dssp             TTSEEEEEECSTTSCHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4678999999999999999999865

>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=96.99  E-value=0.00066  Score=54.32  Aligned_cols=87  Identities=16%  Similarity=0.138  Sum_probs=54.9

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCC---------------CCCC
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGH---------------ESHL  258 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~---------------~~~~  258 (314)
                      +.-.++.|+|.+|+|||+|+.+++.+  ...+...++|++....  ...+.+. +..++..               ....
T Consensus        24 ~~gsl~li~G~pGsGKT~l~~qia~~--~~~~~~~~~~is~e~~--~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (242)
T d1tf7a2          24 FKDSIILATGATGTGKTLLVSRFVEN--ACANKERAILFAYEES--RAQLLRN-AYSWGMDFEEMERQNLLKIVCAYPES   98 (242)
T ss_dssp             ESSCEEEEEECTTSSHHHHHHHHHHH--HHTTTCCEEEEESSSC--HHHHHHH-HHTTSCCHHHHHHTTSEEECCCCGGG
T ss_pred             cCCeEEEEEeCCCCCHHHHHHHHHHH--HHHhccccceeeccCC--HHHHHHH-HHHcCCChHHHhhcCceEEEEeecch
Confidence            34678999999999999999999874  4456677888887543  2333222 2222111               0112


Q ss_pred             CcHHHHHHHHHHHc-cCceEEEEEeccc
Q 048765          259 GEFQSLLRHIYESI-AGKSFLLVLDDVW  285 (314)
Q Consensus       259 ~~~~~~~~~l~~~L-~~kr~LlVlDdv~  285 (314)
                      .........+...+ +.+.-++|+|.+.
T Consensus        99 ~~~~~~~~~i~~~i~~~~~~~vviDs~~  126 (242)
T d1tf7a2          99 AGLEDHLQIIKSEINDFKPARIAIDSLS  126 (242)
T ss_dssp             SCHHHHHHHHHHHHHTTCCSEEEEECHH
T ss_pred             hhHHHHHHHHHHHHHhcCCceeeeecch
Confidence            33455556666555 4566788999873

>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=96.97  E-value=0.00021  Score=54.12  Aligned_cols=25  Identities=32%  Similarity=0.376  Sum_probs=21.7

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ++...|.|.|++|+||||+++.+..
T Consensus         3 pk~~~I~i~G~~GsGKTT~~~~La~   27 (174)
T d1y63a_           3 PKGINILITGTPGTGKTSMAEMIAA   27 (174)
T ss_dssp             CSSCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCEEEEEeCCCCCHHHHHHHHHH
Confidence            4566789999999999999998865

>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=96.96  E-value=0.00025  Score=55.08  Aligned_cols=25  Identities=24%  Similarity=0.360  Sum_probs=22.8

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ++.++|.|.|++|+||||+|+.++.
T Consensus         6 ~~~~iI~i~GppGSGKsT~a~~La~   30 (196)
T d1ukza_           6 DQVSVIFVLGGPGAGKGTQCEKLVK   30 (196)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHH
Confidence            5688999999999999999998866

>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=96.86  E-value=0.00034  Score=54.69  Aligned_cols=24  Identities=25%  Similarity=0.350  Sum_probs=21.3

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      +.+|.++|.+|+||||||++++..
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~~   25 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTRY   25 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH
Confidence            468899999999999999999863

>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=96.85  E-value=0.00039  Score=52.39  Aligned_cols=23  Identities=30%  Similarity=0.354  Sum_probs=21.0

Q ss_pred             EEEEEEccCCCChHHHHHHhhch
Q 048765          197 HIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ++++|+|..|+|||||+.++...
T Consensus         2 kii~I~G~~gSGKTTli~~l~~~   24 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVAA   24 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHH
Confidence            58999999999999999999773

>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=96.84  E-value=0.0032  Score=48.90  Aligned_cols=23  Identities=35%  Similarity=0.518  Sum_probs=20.4

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|+|||||.+.++.
T Consensus        27 Gei~~l~G~NGsGKSTLl~~i~g   49 (200)
T d1sgwa_          27 GNVVNFHGPNGIGKTTLLKTIST   49 (200)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCChHHHHHHHHhc
Confidence            35899999999999999999865

>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=96.84  E-value=0.00032  Score=53.45  Aligned_cols=25  Identities=28%  Similarity=0.381  Sum_probs=22.2

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +...+|.++|++|+||||+|+.+..
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~   36 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLV   36 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            5678999999999999999998865

>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=96.82  E-value=0.00032  Score=53.07  Aligned_cols=23  Identities=35%  Similarity=0.499  Sum_probs=20.6

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -++|.|.|++|+||||+|+.+..
T Consensus         4 g~iI~l~G~~GsGKSTia~~La~   26 (176)
T d1zp6a1           4 GNILLLSGHPGSGKSTIAEALAN   26 (176)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999998865

>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=96.82  E-value=0.00028  Score=53.33  Aligned_cols=23  Identities=17%  Similarity=0.264  Sum_probs=20.7

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .++|.|.|+.|+||||+|+.+..
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~   25 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQS   25 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999998866

>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=96.81  E-value=0.00027  Score=53.96  Aligned_cols=22  Identities=36%  Similarity=0.702  Sum_probs=20.5

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ++|.|.|+.|+||||+++.+..
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~   23 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMD   23 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5899999999999999999976

>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=96.77  E-value=0.00031  Score=52.94  Aligned_cols=20  Identities=30%  Similarity=0.559  Sum_probs=17.3

Q ss_pred             EEEEccCCCChHHHHHHhhc
Q 048765          199 ISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~  218 (314)
                      |.++|++|+||||+++.++.
T Consensus         4 IvliG~~G~GKSTig~~La~   23 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAK   23 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            44569999999999999976

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=96.77  E-value=0.0011  Score=55.63  Aligned_cols=65  Identities=14%  Similarity=0.019  Sum_probs=34.4

Q ss_pred             HHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHH
Q 048765          179 NELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAM  247 (314)
Q Consensus       179 ~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i  247 (314)
                      .+++..+....    .+..+|+|.|++|+|||||...+.....-+++=-+++=++.+.+++...++.+-
T Consensus        41 ~~ll~~~~~~~----~~~~~IgitG~pGaGKSTLi~~l~~~~~~~g~~vavlavDpss~~~ggailgdr  105 (327)
T d2p67a1          41 TQLLDAIMPYC----GNTLRLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIAVDPSSPVTGGSILGDK  105 (327)
T ss_dssp             HHHHHHHGGGC----SCSEEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC------------
T ss_pred             HHHHHHhhhcc----CCceEEEeeCCCCCCHHHHHHHHHHHHHhcCCceeeecCCCceeeeccccccch
Confidence            44555554333    568999999999999999999887643322221234445555555544454443

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=96.73  E-value=0.0014  Score=55.02  Aligned_cols=57  Identities=21%  Similarity=0.179  Sum_probs=36.0

Q ss_pred             HHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccc
Q 048765          178 KNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETF  238 (314)
Q Consensus       178 ~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~  238 (314)
                      ...+.+.+....    .+..+|+|.|++|+|||||...+.....-.++=-.++=++.+.++
T Consensus        37 ~~~~~~~~~~~~----~~~~~igitG~pGaGKSTli~~l~~~~~~~g~~vaViavDpss~~   93 (323)
T d2qm8a1          37 VRDLIDAVLPQT----GRAIRVGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPSSTR   93 (323)
T ss_dssp             HHHHHHHHGGGC----CCSEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECGGGGS
T ss_pred             HHHHHHHhhhcc----CCceEEeeeCCCCCCHHHHHHHHHHHHhhcCCceeeeecccccHH
Confidence            444555554433    568999999999999999998887643222222344444544444

>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=96.71  E-value=0.00036  Score=52.47  Aligned_cols=21  Identities=38%  Similarity=0.597  Sum_probs=18.7

Q ss_pred             EEEEccCCCChHHHHHHhhch
Q 048765          199 ISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~~  219 (314)
                      |.|+||+|+||||+++.++..
T Consensus         3 I~liG~~GsGKsTi~k~La~~   23 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAKD   23 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            678899999999999999773

>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=96.70  E-value=0.0024  Score=53.17  Aligned_cols=70  Identities=19%  Similarity=0.254  Sum_probs=39.7

Q ss_pred             EEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHccCce
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGKS  276 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~kr  276 (314)
                      .++.++|++|+|||.||+.++.  +....+.. +-++.++-.+                ....+....+..+.+..+ +.
T Consensus       124 g~~l~~G~pG~GKT~la~ala~--~~~~~~~~-~~~~~~~~~~----------------~~~G~~e~~~~~~f~~a~-~~  183 (321)
T d1w44a_         124 GMVIVTGKGNSGKTPLVHALGE--ALGGKDKY-ATVRFGEPLS----------------GYNTDFNVFVDDIARAML-QH  183 (321)
T ss_dssp             EEEEEECSSSSCHHHHHHHHHH--HHHTTSCC-EEEEBSCSST----------------TCBCCHHHHHHHHHHHHH-HC
T ss_pred             ceEEEECCCCccHHHHHHHHHH--HhcCCCCe-EEEEhhHhhh----------------cccchHHHHHHHHHHHHh-hc
Confidence            4566689999999999999987  44433221 2244443221                112223322333333222 35


Q ss_pred             EEEEEecccc
Q 048765          277 FLLVLDDVWD  286 (314)
Q Consensus       277 ~LlVlDdv~~  286 (314)
                      .+|+||++..
T Consensus       184 ~ilf~DEid~  193 (321)
T d1w44a_         184 RVIVIDSLKN  193 (321)
T ss_dssp             SEEEEECCTT
T ss_pred             cEEEeehhhh
Confidence            6999999954

>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=96.66  E-value=0.0048  Score=51.12  Aligned_cols=25  Identities=36%  Similarity=0.372  Sum_probs=22.6

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ...-+|+|.|..|+||||+|+.+..
T Consensus        78 k~P~iIGIaG~sgSGKSTla~~L~~  102 (308)
T d1sq5a_          78 RIPYIISIAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCCCcHHHHHHHH
Confidence            5678999999999999999998865

>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=96.65  E-value=0.00043  Score=52.51  Aligned_cols=21  Identities=43%  Similarity=0.602  Sum_probs=19.3

Q ss_pred             EEEEccCCCChHHHHHHhhch
Q 048765          199 ISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~~  219 (314)
                      |.|+|+.|+|||||++.+...
T Consensus         3 i~I~G~~G~GKSTLl~~i~~~   23 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVER   23 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCcHHHHHHHHHHhc
Confidence            789999999999999999864

>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=96.61  E-value=0.001  Score=50.71  Aligned_cols=22  Identities=27%  Similarity=0.439  Sum_probs=20.4

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ++|.|.|+.|+||||+++.+..
T Consensus         2 kiivi~G~~GsGKTT~~~~La~   23 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKE   23 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            6888999999999999999976

>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=96.59  E-value=0.00039  Score=52.66  Aligned_cols=21  Identities=33%  Similarity=0.409  Sum_probs=18.7

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .|.++|++|+||||+++.++.
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~   24 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELAR   24 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            466889999999999999976

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.53  E-value=0.00065  Score=52.45  Aligned_cols=22  Identities=23%  Similarity=0.327  Sum_probs=20.4

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+|.|.|++|+||||+|+.++.
T Consensus         2 ~iI~i~GppGSGKsT~a~~La~   23 (194)
T d1teva_           2 LVVFVLGGPGAGKGTQCARIVE   23 (194)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5889999999999999999876

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.49  E-value=0.011  Score=48.23  Aligned_cols=80  Identities=14%  Similarity=0.058  Sum_probs=45.6

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcC-ceeEEEEcCccccHHHHHHHHHHHhcC-------CCCCCCcHHHHH
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKF-DKILWVCVSETFEEFRVAKAMVEALDG-------HESHLGEFQSLL  265 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F-~~~~wv~~~~~~~~~~~~~~i~~~~~~-------~~~~~~~~~~~~  265 (314)
                      ..+-+|+|.|..|+|||||+..+.........+ ..++-+++..-+-...=...+.+....       ..+...|..-+.
T Consensus        25 ~~P~iIGi~G~qGSGKSTl~~~l~~~L~~~~~~~~~v~~iS~DdfY~t~~~r~~L~~~~~~~pl~~~RG~PgThD~~ll~  104 (286)
T d1odfa_          25 KCPLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDFYLTHEDQLKLNEQFKNNKLLQGRGLPGTHDMKLLQ  104 (286)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGGBCCHHHHHHHHHHTTTCGGGSSSCSTTSBCHHHHH
T ss_pred             CCCEEEEeECCCCCCHHHHHHHHHHHHHHHhCCCcceEeeccCCCCCCHHHHHHHhhhccccccceecCCCcchhHHHHH
Confidence            556799999999999999999886632222222 245556655433222222334443321       224455666666


Q ss_pred             HHHHHHcc
Q 048765          266 RHIYESIA  273 (314)
Q Consensus       266 ~~l~~~L~  273 (314)
                      +.+....+
T Consensus       105 ~~l~~l~~  112 (286)
T d1odfa_         105 EVLNTIFN  112 (286)
T ss_dssp             HHHHHHTC
T ss_pred             HHHHHHHh
Confidence            66665543

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.41  E-value=0.0055  Score=48.50  Aligned_cols=91  Identities=18%  Similarity=0.193  Sum_probs=51.2

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhh----hcCceeEEEEcCccccHHHHHHHHHHHhcCC------------CCC
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVI----RKFDKILWVCVSETFEEFRVAKAMVEALDGH------------ESH  257 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~----~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~------------~~~  257 (314)
                      +.-+++-|.|.+|+|||+|+.++.......    ..-...+|++....+...... .....++..            ...
T Consensus        32 ~~G~~~li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~  110 (251)
T d1szpa2          32 ETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRLV-SIAQRFGLDPDDALNNVAYARAYN  110 (251)
T ss_dssp             ESSSEEEEEESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSSCCCGGGGH-HHHHHTCCCHHHHGGGEEEEECCS
T ss_pred             cCCeEEEEEcCCCCCHHHHHHHHHHHhhhhhhhccCCceEEEEeecchHHHHHHH-HHHHhcCCchhhhhcceEEEeccc
Confidence            345699999999999999998876532211    123468888877665543332 222222221            111


Q ss_pred             CCcHHHHHHHHHHHc-cCceEEEEEeccc
Q 048765          258 LGEFQSLLRHIYESI-AGKSFLLVLDDVW  285 (314)
Q Consensus       258 ~~~~~~~~~~l~~~L-~~kr~LlVlDdv~  285 (314)
                      ..........+...+ .....++++|.+-
T Consensus       111 ~~~~~~~~~~~~~~~~~~~~~~~~~ds~~  139 (251)
T d1szpa2         111 ADHQLRLLDAAAQMMSESRFSLIVVDSVM  139 (251)
T ss_dssp             TTTHHHHHHHTHHHHHHSCEEEEEEETGG
T ss_pred             hhHHHHHHHHHHHHhhccccceeeehhhh
Confidence            122222233333333 4567888888873

>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=96.40  E-value=0.00094  Score=51.37  Aligned_cols=24  Identities=33%  Similarity=0.519  Sum_probs=20.0

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +..++| |+|++|+||||+|+.++.
T Consensus         2 ~~~rii-l~G~pGSGKsT~a~~La~   25 (190)
T d1ak2a1           2 KGVRAV-LLGPPGAGKGTQAPKLAK   25 (190)
T ss_dssp             CCCEEE-EECCTTSSHHHHHHHHHH
T ss_pred             CccEEE-EECCCCCCHHHHHHHHHH
Confidence            345666 789999999999998876

>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=96.38  E-value=0.00081  Score=52.90  Aligned_cols=24  Identities=33%  Similarity=0.469  Sum_probs=21.2

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .+||+|.|++|+||||+|+.+.+.
T Consensus         3 ~piI~I~GppGSGKgT~ak~La~~   26 (225)
T d1ckea_           3 APVITIDGPSGAGKGTLCKAMAEA   26 (225)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
Confidence            359999999999999999998773

>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=96.24  E-value=0.00087  Score=51.55  Aligned_cols=22  Identities=27%  Similarity=0.250  Sum_probs=19.3

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..|.|.|++|+||||+|+.+.+
T Consensus         4 m~I~i~GppGsGKsT~a~~La~   25 (189)
T d1zaka1           4 LKVMISGAPASGKGTQCELIKT   25 (189)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4577999999999999998866

>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=96.23  E-value=0.001  Score=51.35  Aligned_cols=24  Identities=33%  Similarity=0.349  Sum_probs=21.6

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +.++|.|.|++|+||||+|+.+..
T Consensus         7 ~~~iI~l~G~pGSGKsT~a~~La~   30 (194)
T d3adka_           7 KSKIIFVVGGPGSGKGTQCEKIVQ   30 (194)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            467999999999999999998866

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=96.20  E-value=0.0014  Score=50.53  Aligned_cols=24  Identities=29%  Similarity=0.353  Sum_probs=19.8

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +..-|.|.|++|+||||+|+.+..
T Consensus         5 r~mrIiliG~PGSGKtT~a~~La~   28 (189)
T d2ak3a1           5 RLLRAAIMGAPGSGKGTVSSRITK   28 (189)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             cceeEEEECCCCCCHHHHHHHHHH
Confidence            344566889999999999998876

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.19  E-value=0.0011  Score=50.36  Aligned_cols=20  Identities=30%  Similarity=0.506  Sum_probs=18.2

Q ss_pred             EEEEccCCCChHHHHHHhhc
Q 048765          199 ISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~  218 (314)
                      |.|.|++|+||||+|+.++.
T Consensus         3 I~i~G~pGSGKsT~a~~La~   22 (182)
T d1zina1           3 LVLMGLPGAGKGTQAEKIVA   22 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67999999999999998866

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=96.18  E-value=0.0027  Score=49.68  Aligned_cols=25  Identities=28%  Similarity=0.248  Sum_probs=22.5

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+..+|-+.|++|+||||||+.+..
T Consensus        22 ~kg~vIwltGlsGsGKTTia~~L~~   46 (208)
T d1m7ga_          22 QRGLTIWLTGLSASGKSTLAVELEH   46 (208)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4578999999999999999999876

>d1ihua2 c.37.1.10 (A:308-586) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=96.16  E-value=0.0052  Score=50.01  Aligned_cols=36  Identities=28%  Similarity=0.457  Sum_probs=27.6

Q ss_pred             hHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          177 EKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       177 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ++..+.+.+..      ...++|.+.|-||+||||++-.+..
T Consensus         7 ~~~~~~~~~~~------~~~~iii~sGKGGVGKTT~a~nLA~   42 (279)
T d1ihua2           7 SLSALVDDIAR------NEHGLIMLMGKGGVGKTTMAAAIAV   42 (279)
T ss_dssp             CHHHHHHHHHT------TSCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             cHHHHHHHhhc------CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            34556666653      4578999999999999999877755

>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=96.15  E-value=0.0015  Score=50.12  Aligned_cols=22  Identities=45%  Similarity=0.483  Sum_probs=19.6

Q ss_pred             CeEEEEEEccCCCChHHHHHHh
Q 048765          195 GLHIISIVGMGGIGKTTLAQLA  216 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v  216 (314)
                      .+-+|+|.|..|+||||+|..+
T Consensus         2 ~p~IIgitG~~gSGKstva~~l   23 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAALL   23 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHH
Confidence            3678999999999999999876

>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=96.15  E-value=0.0015  Score=51.17  Aligned_cols=24  Identities=17%  Similarity=0.257  Sum_probs=21.0

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      +-+|+|.|..|+||||+|+.+...
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~~   25 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQL   25 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH
Confidence            458999999999999999988663

>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=96.14  E-value=0.018  Score=46.60  Aligned_cols=100  Identities=19%  Similarity=0.153  Sum_probs=59.8

Q ss_pred             HHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccc-cHHHHHHHHHHHhcC--C--
Q 048765          180 ELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETF-EEFRVAKAMVEALDG--H--  254 (314)
Q Consensus       180 ~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~-~~~~~~~~i~~~~~~--~--  254 (314)
                      +.++.|..-.     +-.-++|+|..|+|||+|+..+.++. .+.+=+.++++-+.+.. ...++.+.+.+.--.  .  
T Consensus        57 raID~l~pig-----kGQr~~If~~~g~GKt~l~~~i~~~~-~~~~~~v~V~~~iGer~~ev~~~~~~~~~~~~~~~~~~  130 (276)
T d2jdid3          57 KVVDLLAPYA-----KGGKIGLFGGAGVGKTVLIMELINNV-AKAHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDA  130 (276)
T ss_dssp             HHHHHHSCEE-----TTCEEEEEECTTSSHHHHHHHHHHHH-TTTCSSEEEEEEESCCHHHHHHHHHHHHHHTSSCSSSS
T ss_pred             eeeeeecccc-----CCCEEEeeCCCCCCHHHHHHHHHHHH-HhhCCCeEEEEEeccChHHHHHHHHHHHhcCccccccc
Confidence            4555555432     22358999999999999999987642 22344667888887654 345666666654211  0  


Q ss_pred             ---------CCCCC-cHH----HHHHHHHHHc---cCceEEEEEeccc
Q 048765          255 ---------ESHLG-EFQ----SLLRHIYESI---AGKSFLLVLDDVW  285 (314)
Q Consensus       255 ---------~~~~~-~~~----~~~~~l~~~L---~~kr~LlVlDdv~  285 (314)
                               ..+.. ..+    ...-.+.+++   +++..|+++||+-
T Consensus       131 ~~~tvvv~~~s~~~~~~r~~~~~~a~~iAEyf~~~~G~~VLv~~Dslt  178 (276)
T d2jdid3         131 TSKVALVYGQMNEPPGARARVALTGLTVAEYFRDQEGQDVLLFIDNIF  178 (276)
T ss_dssp             CCCEEEEEECTTSCHHHHHHHHHHHHHHHHHHHHTTCSCEEEEEECTH
T ss_pred             cceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHhcCCCeEEEEEcchh
Confidence                     00111 111    1222344555   3899999999993

>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=96.13  E-value=0.0042  Score=50.75  Aligned_cols=96  Identities=19%  Similarity=0.113  Sum_probs=53.5

Q ss_pred             HHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEc-CccccHHHHHHHHHHHhcCC----
Q 048765          180 ELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCV-SETFEEFRVAKAMVEALDGH----  254 (314)
Q Consensus       180 ~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~-~~~~~~~~~~~~i~~~~~~~----  254 (314)
                      ++++.|..-.     +-.-++|+|..|+|||+|+..+.++.. .++-++++.+.+ .+..  +.+ ..+.+.....    
T Consensus        32 r~ID~l~Pig-----rGQr~~I~g~~g~GKT~l~~~i~~~~~-~~~~~~v~~~~~iger~--~ev-~~~~~~~~~~vv~~  102 (289)
T d1xpua3          32 RVLDLASPIG-----RGQRGLIVAPPKAGKTMLLQNIAQSIA-YNHPDCVLMVLLIDERP--EEV-TEMQRLVKGEVVAS  102 (289)
T ss_dssp             HHHHHHSCCB-----TTCEEEEEECSSSSHHHHHHHHHHHHH-HHCTTSEEEEEEEEECH--HHH-HHHHHHCSSEEEEE
T ss_pred             eeeeeccccc-----CCCeeeEeCCCCCCHHHHHHHHHHHHh-hcCCCeEEEEEeeceeH--HHH-HhHHhhcceEEEec
Confidence            5677776533     345788999999999999999987543 234444554433 3222  221 2222222111    


Q ss_pred             -CCCCCcH----HHHHHHHHHHc--cCceEEEEEecc
Q 048765          255 -ESHLGEF----QSLLRHIYESI--AGKSFLLVLDDV  284 (314)
Q Consensus       255 -~~~~~~~----~~~~~~l~~~L--~~kr~LlVlDdv  284 (314)
                       .......    ....-.+.+++  +++..||++||+
T Consensus       103 t~d~~~~~r~~~~~~a~~iAEyfrd~G~dVLli~Dsl  139 (289)
T d1xpua3         103 TFDEPASRHVQVAEMVIEKAKRLVEHKKDVIILLDSI  139 (289)
T ss_dssp             ETTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEESCH
T ss_pred             cCCCchhHHHHHHHHHHHHHHHHHHhccCceeecCcH
Confidence             1111111    12223344555  689999999999

>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=96.13  E-value=0.0014  Score=51.56  Aligned_cols=23  Identities=30%  Similarity=0.416  Sum_probs=20.1

Q ss_pred             EEEEEEccCCCChHHHHHHhhch
Q 048765          197 HIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      -+|+|-|++|+||||+|+.+...
T Consensus         4 i~IaIdGp~GsGKgT~ak~La~~   26 (223)
T d1q3ta_           4 IQIAIDGPASSGKSTVAKIIAKD   26 (223)
T ss_dssp             CEEEEECSSCSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            46889999999999999998763

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=96.09  E-value=0.0014  Score=50.06  Aligned_cols=21  Identities=33%  Similarity=0.461  Sum_probs=18.8

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .|.|.|++|+||||+|+.++.
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~   22 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVE   22 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            367899999999999999876

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.03  E-value=0.0015  Score=49.74  Aligned_cols=22  Identities=27%  Similarity=0.317  Sum_probs=19.1

Q ss_pred             EEEEEccCCCChHHHHHHhhch
Q 048765          198 IISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .|.|.|++|+||||+|+.++..
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~   23 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEK   23 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3678899999999999998763

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=96.01  E-value=0.0022  Score=49.36  Aligned_cols=25  Identities=28%  Similarity=0.159  Sum_probs=22.2

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+..+|+|-|..|+||||+++.+..
T Consensus         7 ~kp~~I~ieG~~GsGKTTl~~~L~~   31 (197)
T d2vp4a1           7 TQPFTVLIEGNIGSGKTTYLNHFEK   31 (197)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGG
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHH
Confidence            5667999999999999999998865

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Clostridium pasteurianum [TaxId: 1501]

Probab=95.97  E-value=0.0036  Score=50.79  Aligned_cols=36  Identities=31%  Similarity=0.329  Sum_probs=26.1

Q ss_pred             EEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEc
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCV  234 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~  234 (314)
                      +.|+|+|-||+||||+|..+..-..  ..-..+.-|++
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA~~LA--~~G~rVllID~   37 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLTSGLH--AMGKTIMVVGC   37 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHH--TTTCCEEEEEE
T ss_pred             CEEEEECCCcCCHHHHHHHHHHHHH--hCCCcEEEEec
Confidence            6899999999999999988866332  22234555665

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=95.96  E-value=0.0043  Score=50.84  Aligned_cols=24  Identities=25%  Similarity=0.367  Sum_probs=20.8

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..++|.+.|-||+||||++..+..
T Consensus         7 ~p~~i~~sGKGGVGKTTvaa~lA~   30 (296)
T d1ihua1           7 IPPYLFFTGKGGVGKTSISCATAI   30 (296)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCcChHHHHHHHHHH
Confidence            467889999999999999887765

>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=95.93  E-value=0.012  Score=49.87  Aligned_cols=53  Identities=17%  Similarity=0.103  Sum_probs=33.7

Q ss_pred             EEEEEEccCCCChHHHHHHhhchH-hhhhcCceeEEEEcCccccHHHHHHHHHH
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHE-EVIRKFDKILWVCVSETFEEFRVAKAMVE  249 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~-~~~~~F~~~~wv~~~~~~~~~~~~~~i~~  249 (314)
                      ++..|.|.+|+||||++..+.... +....-...+.+..+.......+...+..
T Consensus       164 ~~~vI~G~pGTGKTt~i~~~l~~l~~~~~~~~~~I~l~ApTgkAA~~L~e~~~~  217 (359)
T d1w36d1         164 RISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAAPTGKAAARLTESLGK  217 (359)
T ss_dssp             SEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEBSSHHHHHHHHHHHTH
T ss_pred             CeEEEEcCCCCCceehHHHHHHHHHHHHhccCCeEEEecCcHHHHHHHHHHHHH
Confidence            578899999999999986654421 11112235677777766555555554443

>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=95.86  E-value=0.002  Score=49.06  Aligned_cols=20  Identities=30%  Similarity=0.366  Sum_probs=17.6

Q ss_pred             EEEEccCCCChHHHHHHhhc
Q 048765          199 ISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~  218 (314)
                      |.|.|++|+||||+++.++.
T Consensus         5 Ivl~G~pGSGKtT~a~~La~   24 (180)
T d1akya1           5 MVLIGPPGAGKGTQAPNLQE   24 (180)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            44779999999999999976

>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=95.83  E-value=0.0022  Score=48.91  Aligned_cols=22  Identities=18%  Similarity=0.440  Sum_probs=19.5

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ++|.|+|+.|+|||||++.+..
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~   24 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRE   24 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHh
Confidence            4788999999999999988865

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=95.81  E-value=0.023  Score=44.71  Aligned_cols=57  Identities=19%  Similarity=0.250  Sum_probs=36.0

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhh--------------cCceeEEEEcCccccHHHHHHHHHHHh
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIR--------------KFDKILWVCVSETFEEFRVAKAMVEAL  251 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~--------------~F~~~~wv~~~~~~~~~~~~~~i~~~~  251 (314)
                      +.-.++.|.|.+|+|||+++..++.+.....              ....+.|++........ ....+...+
T Consensus        32 ~~G~l~~i~G~~G~GKT~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~e~~~~~~-~~~~~~~~~  102 (258)
T d2i1qa2          32 ESQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPE-RIMQMAEHA  102 (258)
T ss_dssp             ETTEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHH-HHHHHHHHH
T ss_pred             cCCeEEEEEeCCCCCHHHHHHHHHHHHHhcCCCceEEeecccchhcCceEEEEEecCCcCHH-HHHHHHhhc
Confidence            3457999999999999999999875432211              12246788776555433 333444443

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=95.79  E-value=0.0023  Score=50.86  Aligned_cols=22  Identities=41%  Similarity=0.474  Sum_probs=19.8

Q ss_pred             EEEEEccCCCChHHHHHHhhch
Q 048765          198 IISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ||.|+|+.|+|||||...+..+
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            7899999999999999988653

>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=95.79  E-value=0.0023  Score=48.51  Aligned_cols=21  Identities=33%  Similarity=0.327  Sum_probs=18.4

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .|.|.|++|+||||+++.++.
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~   22 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIME   22 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            366899999999999998876

>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=95.78  E-value=0.019  Score=44.59  Aligned_cols=23  Identities=22%  Similarity=0.349  Sum_probs=20.5

Q ss_pred             EEEEEEccCCCChHHHHHHhhch
Q 048765          197 HIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..|+|-|+.|+||||+++.+.+.
T Consensus         4 ~lI~ieG~dGsGKsT~~~~L~~~   26 (209)
T d1nn5a_           4 ALIVLEGVDRAGKSTQSRKLVEA   26 (209)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            57889999999999999999773

>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=95.73  E-value=0.061  Score=42.29  Aligned_cols=48  Identities=23%  Similarity=0.247  Sum_probs=35.8

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHh----hhhcCceeEEEEcCccccHH
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEE----VIRKFDKILWVCVSETFEEF  241 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~----~~~~F~~~~wv~~~~~~~~~  241 (314)
                      +.-.++.|.|.+|+|||+++.+++.+..    ....+..+.|+.....+...
T Consensus        35 p~G~~~~i~G~~GsGKT~lalq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (258)
T d1v5wa_          35 ESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPD   86 (258)
T ss_dssp             CSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHH
T ss_pred             cCCEEEEEECCCCCCHHHHHHHHHHHHHhhhhcccccceEEEechHHHHHHH
Confidence            5567999999999999999998875321    22345678888877766544

>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=95.69  E-value=0.0022  Score=49.36  Aligned_cols=20  Identities=30%  Similarity=0.484  Sum_probs=18.2

Q ss_pred             EEEEccCCCChHHHHHHhhc
Q 048765          199 ISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~  218 (314)
                      |.|+|+.|+|||||++.+..
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~   22 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQ   22 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67999999999999998866

>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=95.68  E-value=0.0027  Score=48.57  Aligned_cols=21  Identities=38%  Similarity=0.441  Sum_probs=18.7

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -|.|+|+.|+|||||++.+..
T Consensus         3 pIvl~GpsG~GK~tl~~~L~~   23 (186)
T d1gkya_           3 PIVISGPSGTGKSTLLKKLFA   23 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            377999999999999998866

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=95.67  E-value=0.0025  Score=53.57  Aligned_cols=45  Identities=22%  Similarity=0.220  Sum_probs=31.7

Q ss_pred             cccccccchhhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhh
Q 048765          167 DEEEICGRVGEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLAC  217 (314)
Q Consensus       167 ~~~~~vgr~~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~  217 (314)
                      +-+.++|.+..+..|.-.+....      ..-+.+.|.+|+||||||+.+.
T Consensus         5 ~f~~I~Gq~~~kral~laa~~~~------~h~vLl~G~pG~GKT~lar~~~   49 (333)
T d1g8pa_           5 PFSAIVGQEDMKLALLLTAVDPG------IGGVLVFGDRGTGKSTAVRALA   49 (333)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHCGG------GCCEEEECCGGGCTTHHHHHHH
T ss_pred             ChhhccCcHHHHHHHHHHHhccC------CCeEEEECCCCccHHHHHHHHH
Confidence            44679999876665543333211      2357899999999999999875

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=95.58  E-value=0.0043  Score=50.77  Aligned_cols=24  Identities=29%  Similarity=0.387  Sum_probs=18.2

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +..+|+|.|..|+||||+++.+.+
T Consensus         3 k~pIIgIaG~SGSGKTTva~~l~~   26 (288)
T d1a7ja_           3 KHPIISVTGSSGAGTSTVKHTFDQ   26 (288)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHH
Confidence            455999999999999999998865

>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=95.53  E-value=0.0025  Score=48.51  Aligned_cols=22  Identities=14%  Similarity=0.446  Sum_probs=19.6

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +.|.|+|+.|+|||||++.+..
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~   25 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLIT   25 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHH
Confidence            5688999999999999998875

>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=95.53  E-value=0.014  Score=47.39  Aligned_cols=86  Identities=15%  Similarity=0.112  Sum_probs=48.4

Q ss_pred             EEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccH-HHHHHHHHHH--hcCC------CCCCC--c--HHHH
Q 048765          198 IISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEE-FRVAKAMVEA--LDGH------ESHLG--E--FQSL  264 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~-~~~~~~i~~~--~~~~------~~~~~--~--~~~~  264 (314)
                      -++|+|..|+|||+|+......  ...+-..++++-+.+.... .++...+...  +...      .....  .  ....
T Consensus        69 r~~Ifg~~g~GKt~l~~~~~~~--~~~~~~v~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~tsd~p~~~r~~a~~~  146 (276)
T d1fx0a3          69 RELIIGDRQTGKTAVATDTILN--QQGQNVICVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYLAPYT  146 (276)
T ss_dssp             BCBEEESSSSSHHHHHHHHHHT--CCTTTCEEEEEEESCCHHHHHHHHHHTGGGTGGGSEEEEEECTTSCGGGTTHHHHH
T ss_pred             eEeeccCCCCChHHHHHHHHhh--hcccCceeeeeeecchhHHHHHHHHhhccCCcceeeeecccccCccHHHHHHHHHH
Confidence            4778999999999999875432  2234456777777665433 2333333321  0000      01111  1  1123


Q ss_pred             HHHHHHHc--cCceEEEEEeccc
Q 048765          265 LRHIYESI--AGKSFLLVLDDVW  285 (314)
Q Consensus       265 ~~~l~~~L--~~kr~LlVlDdv~  285 (314)
                      .-.+.+++  +++..|+++||+-
T Consensus       147 a~tiAEyfrd~G~~Vlll~Dslt  169 (276)
T d1fx0a3         147 GAALAEYFMYRERHTLIIYDDLS  169 (276)
T ss_dssp             HHHHHHHHHHTTCEEEEEEECHH
T ss_pred             HHHHHHHHHHcCCceeEEeeccH
Confidence            33444555  6899999999993

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Gene 4 protein (g4p, DNA primase), helicase domain
species: Bacteriophage T7 [TaxId: 10760]

Probab=95.51  E-value=0.051  Score=43.72  Aligned_cols=38  Identities=16%  Similarity=0.180  Sum_probs=26.5

Q ss_pred             EEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcC
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVS  235 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~  235 (314)
                      .++.|.|.+|+|||+++..+..+.-....+ .+.+++..
T Consensus        36 ~l~vi~G~~G~GKT~~~~~la~~~a~~~g~-~v~~~s~E   73 (277)
T d1cr2a_          36 EVIMVTSGSGMGKSTFVRQQALQWGTAMGK-KVGLAMLE   73 (277)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHHHTSCC-CEEEEESS
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHhhhhhccc-ceeEeeec
Confidence            478899999999999998887643332223 45566543

>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=95.51  E-value=0.005  Score=52.30  Aligned_cols=25  Identities=28%  Similarity=0.102  Sum_probs=22.6

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ++.+.+.++|++|+|||++|..+++
T Consensus       152 ~~~~~~~~~g~~~~gk~~~~~~~~~  176 (362)
T d1svma_         152 PKKRYWLFKGPIDSGKTTLAAALLE  176 (362)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCcCeEEEECCCCCCHHHHHHHHHH
Confidence            4567899999999999999999987

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=95.49  E-value=0.0077  Score=47.34  Aligned_cols=37  Identities=24%  Similarity=0.250  Sum_probs=28.4

Q ss_pred             EEEEEE-ccCCCChHHHHHHhhchHhhhhcCceeEEEEcC
Q 048765          197 HIISIV-GMGGIGKTTLAQLACNHEEVIRKFDKILWVCVS  235 (314)
Q Consensus       197 ~vi~I~-G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~  235 (314)
                      ++|+|+ |-||+||||+|..++...  ...-..+..|++.
T Consensus         2 kvIav~s~KGGvGKTtia~nlA~~l--a~~g~~VlliD~D   39 (232)
T d1hyqa_           2 RTITVASGKGGTGKTTITANLGVAL--AQLGHDVTIVDAD   39 (232)
T ss_dssp             EEEEEEESSSCSCHHHHHHHHHHHH--HHTTCCEEEEECC
T ss_pred             EEEEEECCCCCChHHHHHHHHHHHH--HhCCCCEEEEeCC
Confidence            788888 789999999999887743  3344567888764

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=95.44  E-value=0.0038  Score=45.89  Aligned_cols=21  Identities=33%  Similarity=0.338  Sum_probs=18.5

Q ss_pred             EEEEccCCCChHHHHHHhhch
Q 048765          199 ISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~~  219 (314)
                      |.|+|.+|+|||||.+.+..+
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~   23 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLG   23 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            569999999999999998754

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Azotobacter vinelandii [TaxId: 354]

Probab=95.33  E-value=0.0086  Score=49.03  Aligned_cols=38  Identities=29%  Similarity=0.335  Sum_probs=26.7

Q ss_pred             eEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcC
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVS  235 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~  235 (314)
                      .+.|+|.|-||+||||++..+.....  ..-..+.-|++.
T Consensus         2 Mr~IaisgKGGVGKTT~a~NLA~~LA--~~G~rVLlID~D   39 (289)
T d2afhe1           2 MRQCAIYGKGGIGKSTTTQNLVAALA--EMGKKVMIVGCD   39 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHH--HTTCCEEEEEEC
T ss_pred             ccEEEEECCCCCCHHHHHHHHHHHHH--HCCCCEEEEecC
Confidence            46788999999999999988765332  222346667764

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=95.33  E-value=0.015  Score=46.09  Aligned_cols=50  Identities=24%  Similarity=0.325  Sum_probs=35.5

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhh----hhcCceeEEEEcCccccHHHH
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEV----IRKFDKILWVCVSETFEEFRV  243 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~----~~~F~~~~wv~~~~~~~~~~~  243 (314)
                      +.-+++.|.|.+|+|||+++.++..+...    .......+|+..........+
T Consensus        34 p~G~~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (254)
T d1pzna2          34 ETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERI   87 (254)
T ss_dssp             ESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHH
T ss_pred             cCCEEEEEEcCCCCCHHHHHHHHHHHhhchHHhcCCCceEEEEeccchhHHHHH
Confidence            44679999999999999999888653221    122456888888776665443

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=95.32  E-value=0.0046  Score=49.24  Aligned_cols=23  Identities=26%  Similarity=0.423  Sum_probs=20.3

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|+|||||++.++.
T Consensus        29 Ge~~~liG~sGaGKSTll~~i~g   51 (240)
T d1g2912          29 GEFMILLGPSGCGKTTTLRMIAG   51 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCChHHHHHHHHhc
Confidence            35899999999999999998854

>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=95.31  E-value=0.0046  Score=48.92  Aligned_cols=23  Identities=30%  Similarity=0.459  Sum_probs=20.1

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|+|||||.+.+..
T Consensus        31 Ge~~~iiG~sGsGKSTLl~~i~g   53 (230)
T d1l2ta_          31 GEFVSIMGPSGSGKSTMLNIIGC   53 (230)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCcchhhHhccC
Confidence            45899999999999999988744

>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=95.29  E-value=0.0047  Score=48.89  Aligned_cols=23  Identities=30%  Similarity=0.502  Sum_probs=20.1

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|+|||||.+.++.
T Consensus        26 Gei~~liGpsGsGKSTLl~~i~G   48 (232)
T d2awna2          26 GEFVVFVGPSGCGKSTLLRMIAG   48 (232)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCChHHHHHHHHhc
Confidence            45899999999999999998843

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=95.25  E-value=0.0043  Score=45.91  Aligned_cols=21  Identities=38%  Similarity=0.450  Sum_probs=18.8

Q ss_pred             EEEEccCCCChHHHHHHhhch
Q 048765          199 ISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~~  219 (314)
                      |.|+|.+|+|||||.+++..+
T Consensus         8 I~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           8 ILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            679999999999999988664

>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=95.23  E-value=0.0053  Score=47.07  Aligned_cols=25  Identities=28%  Similarity=0.489  Sum_probs=21.9

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .....|+|+|.+|+|||||.+.+.+
T Consensus        21 ~~~~~I~lvG~~n~GKSTLin~L~g   45 (195)
T d1svia_          21 GGLPEIALAGRSNVGKSSFINSLIN   45 (195)
T ss_dssp             SCCCEEEEEEBTTSSHHHHHHHHHT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHhcC
Confidence            4566799999999999999999975

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=95.22  E-value=0.0049  Score=49.07  Aligned_cols=23  Identities=30%  Similarity=0.452  Sum_probs=20.2

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|+|||||++.++-
T Consensus        31 Ge~~~iiG~sGsGKSTLl~~i~G   53 (240)
T d3dhwc1          31 GQIYGVIGASGAGKSTLIRCVNL   53 (240)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHcC
Confidence            35899999999999999998843

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.22  E-value=0.0043  Score=49.18  Aligned_cols=23  Identities=30%  Similarity=0.368  Sum_probs=21.0

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+.|+|-|+.|+||||+++.+..
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L~~   24 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNILKQ   24 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGG
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            57899999999999999998866

>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=95.15  E-value=0.051  Score=43.55  Aligned_cols=23  Identities=30%  Similarity=0.437  Sum_probs=19.5

Q ss_pred             EEEEEEccCCCChHHHHHHhhch
Q 048765          197 HIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .+..|+|.+|+|||||+..++-.
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            46779999999999999887653

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=95.13  E-value=0.0055  Score=49.43  Aligned_cols=23  Identities=35%  Similarity=0.460  Sum_probs=20.5

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|+|||||++.+..
T Consensus        28 GEi~~iiG~sGsGKSTLl~~i~G   50 (258)
T d1b0ua_          28 GDVISIIGSSGSGKSTFLRCINF   50 (258)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHHc
Confidence            45999999999999999999864

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=95.12  E-value=0.0056  Score=48.84  Aligned_cols=23  Identities=43%  Similarity=0.609  Sum_probs=20.2

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -..++|+|..|+|||||++.+..
T Consensus        29 Ge~vaIvG~sGsGKSTLl~ll~g   51 (241)
T d2pmka1          29 GEVIGIVGRSGSGKSTLTKLIQR   51 (241)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            35899999999999999998854

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=95.12  E-value=0.0061  Score=48.68  Aligned_cols=24  Identities=33%  Similarity=0.372  Sum_probs=20.7

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .-..++|+|+.|+|||||++.+..
T Consensus        27 ~Ge~vaivG~sGsGKSTLl~ll~g   50 (242)
T d1mv5a_          27 PNSIIAFAGPSGGGKSTIFSLLER   50 (242)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
Confidence            346899999999999999998853

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=95.12  E-value=0.0058  Score=48.59  Aligned_cols=23  Identities=26%  Similarity=0.439  Sum_probs=20.1

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|.|||||.+.+..
T Consensus        32 Ge~~~liGpsGaGKSTLl~~i~G   54 (239)
T d1v43a3          32 GEFLVLLGPSGCGKTTTLRMIAG   54 (239)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCChHHHHHHHHHc
Confidence            35899999999999999998743

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=95.08  E-value=0.025  Score=44.17  Aligned_cols=41  Identities=17%  Similarity=0.086  Sum_probs=27.8

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSE  236 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~  236 (314)
                      .-.++.|.|.+|+|||+|+..++..... ..-..++|++...
T Consensus        25 ~G~~~~I~G~~G~GKT~la~~~~~~~~~-~~~~~~~~~s~e~   65 (242)
T d1tf7a1          25 IGRSTLVSGTSGTGKTLFSIQFLYNGII-EFDEPGVFVTFEE   65 (242)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHH-HHCCCEEEEESSS
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHHH-hcCCCcccccccC
Confidence            4568889999999999999776543222 2223466776644

>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=95.06  E-value=0.056  Score=38.35  Aligned_cols=53  Identities=15%  Similarity=0.114  Sum_probs=34.5

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALD  252 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~  252 (314)
                      +..++..|+++.|+|||+++-.++.      ....++.+.+....-.......+.+.+.
T Consensus         6 ~~~~~~ll~apTGsGKT~~~~~~~~------~~~~~vli~~P~~~l~~q~~~~~~~~~~   58 (136)
T d1a1va1           6 QSFQVAHLHAPTGSGKSTKVPAAYA------AQGYKVLVLNPSVAATLGFGAYMSKAHG   58 (136)
T ss_dssp             SSCEEEEEECCTTSCTTTHHHHHHH------TTTCCEEEEESCHHHHHHHHHHHHHHHS
T ss_pred             cCCCEEEEEeCCCCCHHHHHHHHHH------HcCCcEEEEcChHHHHHHHHHHHHHHhh
Confidence            3467888999999999998865543      2344566666655445555555555443

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=95.03  E-value=0.0063  Score=48.34  Aligned_cols=22  Identities=23%  Similarity=0.440  Sum_probs=19.4

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+++|+|+.|+|||||.+.++.
T Consensus        25 e~~~liGpnGaGKSTll~~i~G   46 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAG   46 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHT
T ss_pred             EEEEEECCCCChHHHHHHHHHc
Confidence            3778999999999999999854

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.01  E-value=0.0063  Score=48.90  Aligned_cols=23  Identities=39%  Similarity=0.540  Sum_probs=20.3

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -..++|+|+.|+|||||++.+..
T Consensus        40 Ge~vaivG~sGsGKSTLl~li~g   62 (251)
T d1jj7a_          40 GEVTALVGPNGSGKSTVAALLQN   62 (251)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhc
Confidence            46899999999999999998753

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.01  E-value=0.0056  Score=45.47  Aligned_cols=21  Identities=33%  Similarity=0.570  Sum_probs=18.6

Q ss_pred             EEEEccCCCChHHHHHHhhch
Q 048765          199 ISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~~  219 (314)
                      |.++|.+|+|||+|+..+.++
T Consensus         5 v~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999988754

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=95.00  E-value=0.0061  Score=49.03  Aligned_cols=23  Identities=35%  Similarity=0.556  Sum_probs=20.2

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -..++|+|+.|+|||||++.+..
T Consensus        41 Ge~iaivG~sGsGKSTLl~ll~g   63 (253)
T d3b60a1          41 GKTVALVGRSGSGKSTIASLITR   63 (253)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCChHHHHHHHHhc
Confidence            45899999999999999998854

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=94.98  E-value=0.01  Score=44.44  Aligned_cols=23  Identities=30%  Similarity=0.426  Sum_probs=19.5

Q ss_pred             EEEEEEccCCCChHHHHHHhhch
Q 048765          197 HIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      --|.++|.+|+|||||.+.+...
T Consensus        17 ~kI~vvG~~~vGKSsLi~~l~~~   39 (176)
T d1fzqa_          17 VRILLLGLDNAGKTTLLKQLASE   39 (176)
T ss_dssp             EEEEEEESTTSSHHHHHHHHCCS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            44679999999999999988653

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=94.98  E-value=0.015  Score=44.76  Aligned_cols=21  Identities=38%  Similarity=0.623  Sum_probs=19.2

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .|+|-|..|+||||+++.+..
T Consensus         2 lI~ieG~dGsGKST~~~~L~~   22 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSG   22 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            588999999999999998876

>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=94.95  E-value=0.011  Score=51.56  Aligned_cols=50  Identities=24%  Similarity=0.332  Sum_probs=33.6

Q ss_pred             cccccchhhHHHHHHHhh--------ccCcCCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          169 EEICGRVGEKNELLSKLL--------CESSEQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       169 ~~~vgr~~~~~~l~~~L~--------~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..+||.++....|.-.+-        .......-..+-|.++|+.|+|||.||+.++.
T Consensus        14 ~yVvGQ~~AKk~lsvav~nhyrR~~~~~~~~~ei~ksNILliGPTGvGKTlLAr~LAk   71 (443)
T d1g41a_          14 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAK   71 (443)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CcccCcHHHHHHHHHHHHHHHHHhhcccccccccccccEEEECCCCCCHHHHHHHHHH
Confidence            357787777665554331        11111123356899999999999999999976

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.93  E-value=0.0065  Score=49.68  Aligned_cols=24  Identities=33%  Similarity=0.444  Sum_probs=21.0

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +-.+++|+|+.|+|||||++.++.
T Consensus        61 ~Ge~vaivG~nGsGKSTLl~~i~G   84 (281)
T d1r0wa_          61 KGEMLAITGSTGSGKTSLLMLILG   84 (281)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCChHHHHHHHHhC
Confidence            346899999999999999999865

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=94.93  E-value=0.0064  Score=47.27  Aligned_cols=22  Identities=23%  Similarity=0.335  Sum_probs=19.6

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .++.|+|+.|+|||||.+.+..
T Consensus         3 ~livi~GPSG~GK~tl~~~L~~   24 (205)
T d1s96a_           3 TLYIVSAPSGAGKSSLIQALLK   24 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHh
Confidence            5788999999999999988865

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=94.91  E-value=0.0067  Score=45.00  Aligned_cols=20  Identities=25%  Similarity=0.438  Sum_probs=18.0

Q ss_pred             EEEEccCCCChHHHHHHhhc
Q 048765          199 ISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~  218 (314)
                      |.|+|.+|+|||||.+.+..
T Consensus         5 i~ivG~~~~GKTsLi~~l~~   24 (165)
T d1ksha_           5 LLMLGLDNAGKTTILKKFNG   24 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHcC
Confidence            66999999999999999865

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=94.91  E-value=0.007  Score=48.26  Aligned_cols=23  Identities=30%  Similarity=0.505  Sum_probs=20.2

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|.|||||.+.+..
T Consensus        32 Gei~~liGpnGaGKSTl~~~i~G   54 (240)
T d1ji0a_          32 GQIVTLIGANGAGKTTTLSAIAG   54 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            35899999999999999998854

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

Probab=94.87  E-value=0.077  Score=43.01  Aligned_cols=88  Identities=19%  Similarity=0.185  Sum_probs=47.5

Q ss_pred             EEEEEEccCCCChHHHHHHhhchHhhhhc-C-----ceeEEEEcCccccH-HHHHHHHHHHhcCC--------CCCCCcH
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHEEVIRK-F-----DKILWVCVSETFEE-FRVAKAMVEALDGH--------ESHLGEF  261 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~-F-----~~~~wv~~~~~~~~-~~~~~~i~~~~~~~--------~~~~~~~  261 (314)
                      .-++|+|.+|+|||+|+..+......... .     ..++++-+.+.... .++...+...-...        .......
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            46788999999999999877654322211 1     13456666654433 34444433321110        0111111


Q ss_pred             H----HHHHHHHHHc--cCceEEEEEecc
Q 048765          262 Q----SLLRHIYESI--AGKSFLLVLDDV  284 (314)
Q Consensus       262 ~----~~~~~l~~~L--~~kr~LlVlDdv  284 (314)
                      .    ...-.+.+++  ++|..|+++||+
T Consensus       149 r~~~~~~a~tiAEyfrd~G~~VLll~Dsl  177 (285)
T d2jdia3         149 QYLAPYSGCSMGEYFRDNGKHALIIYDDL  177 (285)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCEEEEEEETH
T ss_pred             HHHHHHHHHHHHHHHHHcCCcEEEEEcCh
Confidence            1    1112234444  789999999999

>d1vpla_ c.37.1.12 (A:) Putative ABC transporter TM0544 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter TM0544
species: Thermotoga maritima [TaxId: 2336]

Probab=94.87  E-value=0.0073  Score=48.08  Aligned_cols=23  Identities=30%  Similarity=0.495  Sum_probs=20.2

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|+|||||.+.+..
T Consensus        28 Gei~glvG~nGaGKSTLl~~l~G   50 (238)
T d1vpla_          28 GEIFGLIGPNGAGKTTTLRIIST   50 (238)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            45999999999999999998754

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.84  E-value=0.0066  Score=45.58  Aligned_cols=21  Identities=29%  Similarity=0.433  Sum_probs=18.4

Q ss_pred             EEEEccCCCChHHHHHHhhch
Q 048765          199 ISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~~  219 (314)
                      |.|+|.+|+|||+|+..+.++
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            668999999999999987654

>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=94.83  E-value=0.082  Score=40.56  Aligned_cols=22  Identities=36%  Similarity=0.545  Sum_probs=19.7

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +.|+|-|+.|+||||+++.+..
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~   24 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVE   24 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4688899999999999999876

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.80  E-value=0.0071  Score=45.18  Aligned_cols=21  Identities=29%  Similarity=0.632  Sum_probs=18.1

Q ss_pred             EEEEccCCCChHHHHHHhhch
Q 048765          199 ISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~~  219 (314)
                      |.++|.+|+|||||...+..+
T Consensus         5 i~viG~~~vGKTsLi~r~~~~   25 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKG   25 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            568999999999999887653

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.79  E-value=0.0072  Score=44.87  Aligned_cols=20  Identities=35%  Similarity=0.800  Sum_probs=17.7

Q ss_pred             EEEEccCCCChHHHHHHhhc
Q 048765          199 ISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~  218 (314)
                      |.++|.+|+|||||++.+.+
T Consensus         5 v~liG~~~vGKSsLi~rl~~   24 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCK   24 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            56999999999999988765

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.79  E-value=0.007  Score=45.07  Aligned_cols=21  Identities=29%  Similarity=0.419  Sum_probs=18.2

Q ss_pred             EEEEccCCCChHHHHHHhhch
Q 048765          199 ISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~~  219 (314)
                      |.|+|.+|+|||+|++.+.++
T Consensus         7 ivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           7 YIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999887643

>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=94.78  E-value=0.012  Score=44.43  Aligned_cols=25  Identities=40%  Similarity=0.464  Sum_probs=19.9

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhch
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ...+ |.++|.+|+|||||.+.+...
T Consensus        16 k~~K-I~lvG~~~vGKTsLi~~l~~~   40 (182)
T d1moza_          16 KELR-ILILGLDGAGKTTILYRLQIG   40 (182)
T ss_dssp             SCEE-EEEEEETTSSHHHHHHHTCCS
T ss_pred             ceEE-EEEECCCCCCHHHHHHHHhcC
Confidence            3454 559999999999999988543

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=94.75  E-value=0.0087  Score=44.72  Aligned_cols=21  Identities=33%  Similarity=0.450  Sum_probs=19.1

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .|+|+|.+|+|||||.+.+..
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~   22 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVK   22 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            589999999999999998864

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=94.75  E-value=0.008  Score=46.73  Aligned_cols=19  Identities=37%  Similarity=0.520  Sum_probs=17.6

Q ss_pred             EEEEEccCCCChHHHHHHh
Q 048765          198 IISIVGMGGIGKTTLAQLA  216 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v  216 (314)
                      +|+|+|..|+||||.++.+
T Consensus         5 iIgitG~igSGKStv~~~l   23 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAF   23 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHH
Confidence            8999999999999999765

>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=94.75  E-value=0.0085  Score=47.48  Aligned_cols=23  Identities=30%  Similarity=0.393  Sum_probs=20.9

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ++.|+|-|+-|+||||+++.+..
T Consensus         2 pk~IviEG~~GsGKST~~~~L~~   24 (241)
T d2ocpa1           2 PRRLSIEGNIAVGKSTFVKLLTK   24 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHH
Confidence            57899999999999999998865

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=94.74  E-value=0.011  Score=44.54  Aligned_cols=25  Identities=28%  Similarity=0.297  Sum_probs=21.6

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ....|+|+|..|+|||||.+.+...
T Consensus         4 ~~~~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           4 YSGFVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             cCcEEEEECCCCCCHHHHHHHHhCC
Confidence            3568999999999999999998753

>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=94.74  E-value=0.061  Score=42.37  Aligned_cols=23  Identities=22%  Similarity=0.199  Sum_probs=20.3

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+++.|.|+...||||+.+.+.-
T Consensus        41 ~~~~iiTGpN~~GKSt~lk~i~l   63 (234)
T d1wb9a2          41 RRMLIITGPNMGGKSTYMRQTAL   63 (234)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEeccCchhhHHHHHHHHH
Confidence            46889999999999999998854

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=94.74  E-value=0.01  Score=44.53  Aligned_cols=24  Identities=33%  Similarity=0.367  Sum_probs=21.4

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -...|+|+|.+|+|||||.+++.+
T Consensus         4 ~~~~I~iiG~~nvGKSSLin~L~~   27 (179)
T d1egaa1           4 YCGFIAIVGRPNVGKSTLLNKLLG   27 (179)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHT
T ss_pred             cccEEEEECCCCCCHHHHHHHHhC
Confidence            467799999999999999999975

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=94.70  E-value=0.0084  Score=48.22  Aligned_cols=23  Identities=30%  Similarity=0.457  Sum_probs=20.3

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|+|||||++.+..
T Consensus        30 Gei~~liG~nGaGKSTLl~~i~G   52 (254)
T d1g6ha_          30 GDVTLIIGPNGSGKSTLINVITG   52 (254)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHHC
Confidence            35899999999999999999854

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=94.67  E-value=0.0059  Score=48.19  Aligned_cols=23  Identities=30%  Similarity=0.401  Sum_probs=20.3

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|+|||||.+.+..
T Consensus        26 Ge~~~liGpsGaGKSTll~~l~G   48 (229)
T d3d31a2          26 GEYFVILGPTGAGKTLFLELIAG   48 (229)
T ss_dssp             TCEEEEECCCTHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhc
Confidence            35899999999999999998854

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.66  E-value=0.0076  Score=44.68  Aligned_cols=21  Identities=24%  Similarity=0.355  Sum_probs=18.3

Q ss_pred             EEEEccCCCChHHHHHHhhch
Q 048765          199 ISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~~  219 (314)
                      |.|+|.+|+|||+|++.+.++
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~   23 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYD   23 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999988653

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=94.65  E-value=0.0079  Score=44.93  Aligned_cols=21  Identities=29%  Similarity=0.446  Sum_probs=18.4

Q ss_pred             EEEEccCCCChHHHHHHhhch
Q 048765          199 ISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~~  219 (314)
                      |.++|.+|+|||||...+..+
T Consensus         8 i~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           8 ILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHcC
Confidence            679999999999999987653

>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=94.64  E-value=0.01  Score=44.53  Aligned_cols=24  Identities=25%  Similarity=0.405  Sum_probs=19.9

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..-|.++|.+|+|||||...+...
T Consensus        13 ~~kI~lvG~~~vGKTsLl~~l~~~   36 (186)
T d1f6ba_          13 TGKLVFLGLDNAGKTTLLHMLKDD   36 (186)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHSCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            345679999999999999988654

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.57  E-value=0.0081  Score=44.92  Aligned_cols=22  Identities=32%  Similarity=0.502  Sum_probs=18.8

Q ss_pred             EEEEEccCCCChHHHHHHhhch
Q 048765          198 IISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      -|.|+|.+|+|||+|.+.+.++
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3679999999999999988653

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.57  E-value=0.0085  Score=44.62  Aligned_cols=21  Identities=19%  Similarity=0.461  Sum_probs=18.1

Q ss_pred             EEEEccCCCChHHHHHHhhch
Q 048765          199 ISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~~  219 (314)
                      |.|+|.+|+|||+|.+.+.++
T Consensus         7 i~lvG~~~vGKTsli~rl~~~   27 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVED   27 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            568899999999999988653

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.56  E-value=0.0089  Score=45.33  Aligned_cols=22  Identities=27%  Similarity=0.391  Sum_probs=18.8

Q ss_pred             EEEEEccCCCChHHHHHHhhch
Q 048765          198 IISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      -|.|+|.+|+|||||++.+.++
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~~   28 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTDN   28 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            3679999999999999988753

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.55  E-value=0.0084  Score=44.63  Aligned_cols=20  Identities=35%  Similarity=0.722  Sum_probs=17.8

Q ss_pred             EEEEccCCCChHHHHHHhhc
Q 048765          199 ISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~  218 (314)
                      |.|+|.+|+|||+|++.+..
T Consensus         6 ivlvG~~~vGKTsLi~r~~~   25 (167)
T d1z08a1           6 VVLLGEGCVGKTSLVLRYCE   25 (167)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            57999999999999998764

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.54  E-value=0.0086  Score=44.54  Aligned_cols=21  Identities=29%  Similarity=0.615  Sum_probs=18.4

Q ss_pred             EEEEccCCCChHHHHHHhhch
Q 048765          199 ISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~~  219 (314)
                      |.++|.+|+|||+|+..+.++
T Consensus         6 i~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           6 VVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999888654

>d1g3qa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=94.53  E-value=0.02  Score=44.83  Aligned_cols=37  Identities=41%  Similarity=0.358  Sum_probs=27.6

Q ss_pred             EEEEEE-ccCCCChHHHHHHhhchHhhhhcCceeEEEEcC
Q 048765          197 HIISIV-GMGGIGKTTLAQLACNHEEVIRKFDKILWVCVS  235 (314)
Q Consensus       197 ~vi~I~-G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~  235 (314)
                      ++|+|+ +-||+||||++..+....  ...-..++.+++.
T Consensus         3 ~vIav~~~kGGvGKTtia~nLA~~l--a~~g~~VlliD~D   40 (237)
T d1g3qa_           3 RIISIVSGKGGTGKTTVTANLSVAL--GDRGRKVLAVDGD   40 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHH--HHTTCCEEEEECC
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHHH--HhCCCCEEEEeCC
Confidence            689999 669999999999987643  3344457777753

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=94.53  E-value=0.018  Score=42.42  Aligned_cols=26  Identities=27%  Similarity=0.203  Sum_probs=22.5

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchH
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHE  220 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~  220 (314)
                      .-.+|.+.|.=|+||||+++.++...
T Consensus        32 ~g~ii~L~G~LGaGKTtfvr~~~~~l   57 (158)
T d1htwa_          32 KAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCeEEEEecCCCccHHHHHHHHHhhc
Confidence            35689999999999999999998754

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.51  E-value=0.0098  Score=44.35  Aligned_cols=21  Identities=29%  Similarity=0.577  Sum_probs=18.2

Q ss_pred             EEEEccCCCChHHHHHHhhch
Q 048765          199 ISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~~  219 (314)
                      |.++|..|+|||+|++.+.+.
T Consensus         4 i~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCcCHHHHHHHHhCC
Confidence            678999999999999988653

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=94.47  E-value=0.013  Score=49.71  Aligned_cols=25  Identities=32%  Similarity=0.356  Sum_probs=21.3

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .....+..+|+.|+|||.||+.++.
T Consensus        66 ~p~~niLfiGPTGvGKTElAk~LA~   90 (364)
T d1um8a_          66 LSKSNILLIGPTGSGKTLMAQTLAK   90 (364)
T ss_dssp             CCCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCcceeeeCCCCccHHHHHHHHHh
Confidence            3466788899999999999999865

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.46  E-value=0.0097  Score=43.55  Aligned_cols=21  Identities=33%  Similarity=0.507  Sum_probs=18.5

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -|.++|.+|+|||||+..+..
T Consensus         2 KI~liG~~nvGKSSLln~l~~   22 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKN   22 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            367999999999999998765

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.43  E-value=0.0095  Score=44.48  Aligned_cols=21  Identities=19%  Similarity=0.401  Sum_probs=18.2

Q ss_pred             EEEEccCCCChHHHHHHhhch
Q 048765          199 ISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~~  219 (314)
                      |.++|.+|+|||+|++.+.++
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~   29 (170)
T d1r2qa_           9 LVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            578999999999999988643

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.43  E-value=0.0095  Score=44.43  Aligned_cols=21  Identities=29%  Similarity=0.520  Sum_probs=18.4

Q ss_pred             EEEEccCCCChHHHHHHhhch
Q 048765          199 ISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~~  219 (314)
                      |.++|.+|+|||+|.+.+.++
T Consensus         5 i~lvG~~~vGKTsli~r~~~~   25 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTK   25 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            568999999999999988754

>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=94.42  E-value=0.0074  Score=45.56  Aligned_cols=20  Identities=25%  Similarity=0.458  Sum_probs=18.3

Q ss_pred             EEEEccCCCChHHHHHHhhc
Q 048765          199 ISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~  218 (314)
                      |+|+|.+|+|||||.+.+..
T Consensus         4 VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCS
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            89999999999999998854

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=94.41  E-value=0.011  Score=44.91  Aligned_cols=21  Identities=24%  Similarity=0.371  Sum_probs=18.2

Q ss_pred             EEEEccCCCChHHHHHHhhch
Q 048765          199 ISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~~  219 (314)
                      |.++|.+|+|||+|++.+..+
T Consensus         5 ivllG~~~vGKTsl~~r~~~~   25 (195)
T d1svsa1           5 LLLLGAGESGKSTIVKQMKII   25 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhhC
Confidence            579999999999999987554

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.40  E-value=0.0093  Score=44.57  Aligned_cols=21  Identities=33%  Similarity=0.601  Sum_probs=18.3

Q ss_pred             EEEEccCCCChHHHHHHhhch
Q 048765          199 ISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~~  219 (314)
                      |.|+|.+|+|||+|.+.+..+
T Consensus         8 i~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           8 LVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            678999999999999887653

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.40  E-value=0.0093  Score=44.72  Aligned_cols=23  Identities=35%  Similarity=0.605  Sum_probs=19.2

Q ss_pred             EEEEEEccCCCChHHHHHHhhch
Q 048765          197 HIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      --|.|+|.+|+|||+|++.+.++
T Consensus         7 ~Kv~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           7 HKLVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCcCHHHHHHHHHhC
Confidence            34669999999999999887653

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.39  E-value=0.0094  Score=44.28  Aligned_cols=22  Identities=27%  Similarity=0.430  Sum_probs=18.8

Q ss_pred             EEEEEccCCCChHHHHHHhhch
Q 048765          198 IISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      -|.++|.+|+|||||+..+.++
T Consensus         4 Ki~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           4 KILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3679999999999999988653

>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=94.39  E-value=0.0089  Score=45.27  Aligned_cols=21  Identities=29%  Similarity=0.567  Sum_probs=18.7

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -|+|+|.+++|||||.+.+..
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEE
T ss_pred             eEEEECCCCCCHHHHHHHHhC
Confidence            489999999999999998854

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=94.38  E-value=0.011  Score=45.75  Aligned_cols=20  Identities=45%  Similarity=0.566  Sum_probs=18.1

Q ss_pred             EEEEEEccCCCChHHHHHHh
Q 048765          197 HIISIVGMGGIGKTTLAQLA  216 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v  216 (314)
                      -+|+|.|..|+||||+++.+
T Consensus         3 ~iIgITG~igSGKStv~~~l   22 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLF   22 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHH
Confidence            47999999999999999866

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.38  E-value=0.0098  Score=44.53  Aligned_cols=21  Identities=38%  Similarity=0.578  Sum_probs=18.4

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -|.|+|.+|+|||||...+.+
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~~   24 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYVN   24 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHc
Confidence            367999999999999998764

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.36  E-value=0.01  Score=44.60  Aligned_cols=22  Identities=23%  Similarity=0.469  Sum_probs=18.8

Q ss_pred             EEEEEccCCCChHHHHHHhhch
Q 048765          198 IISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      -|.|+|..|+|||||+..+.++
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3779999999999999987553

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.36  E-value=0.01  Score=45.83  Aligned_cols=23  Identities=26%  Similarity=0.238  Sum_probs=19.8

Q ss_pred             EEEEEEccCCCChHHHHHHhhch
Q 048765          197 HIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      +.|.|+|.+|+|||||...+...
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            35899999999999999988653

>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=94.33  E-value=0.035  Score=42.50  Aligned_cols=47  Identities=17%  Similarity=0.111  Sum_probs=30.3

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhchHhhhh----cCceeEEEEcCccccHH
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNHEEVIR----KFDKILWVCVSETFEEF  241 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~~~~~~----~F~~~~wv~~~~~~~~~  241 (314)
                      .-.++.|.|++|+|||+|+.+++.+.....    .+....++.........
T Consensus        22 ~G~v~~i~G~~GsGKT~l~l~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~   72 (242)
T d1n0wa_          22 TGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPE   72 (242)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHH
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHHHHHhhccccccceehhhhhhhhhHHH
Confidence            346899999999999999988865432221    22345555555444443

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.32  E-value=0.01  Score=44.50  Aligned_cols=20  Identities=25%  Similarity=0.446  Sum_probs=18.0

Q ss_pred             EEEEccCCCChHHHHHHhhc
Q 048765          199 ISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~  218 (314)
                      |.++|.+|+|||+|+..+..
T Consensus         8 I~lvG~~~vGKTsll~~~~~   27 (174)
T d2bmea1           8 FLVIGNAGTGKSCLLHQFIE   27 (174)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            77999999999999998764

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=94.30  E-value=0.013  Score=46.14  Aligned_cols=25  Identities=32%  Similarity=0.432  Sum_probs=21.8

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ...|..|.|+-|+|||||.+.+...
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhc
Confidence            4788999999999999999988653

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.27  E-value=0.011  Score=45.53  Aligned_cols=22  Identities=36%  Similarity=0.374  Sum_probs=19.6

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..|.|+|.+|+|||||...+.+
T Consensus         4 p~V~lvG~~n~GKTSLln~l~~   25 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLLTT   25 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            3789999999999999998864

>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=94.25  E-value=0.011  Score=44.46  Aligned_cols=21  Identities=29%  Similarity=0.371  Sum_probs=19.0

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -|+|+|.+|+|||||.+.+..
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~   22 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTG   22 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            478999999999999999875

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.25  E-value=0.011  Score=43.99  Aligned_cols=21  Identities=29%  Similarity=0.613  Sum_probs=18.2

Q ss_pred             EEEEccCCCChHHHHHHhhch
Q 048765          199 ISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~~  219 (314)
                      |.++|..|+|||+|.+.+..+
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            578999999999999988654

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=94.19  E-value=0.017  Score=43.04  Aligned_cols=23  Identities=35%  Similarity=0.459  Sum_probs=19.3

Q ss_pred             EEEEEEccCCCChHHHHHHhhch
Q 048765          197 HIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      --|.|+|.+|+|||||...+..+
T Consensus        16 ~kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1          16 HKVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            34669999999999999987654

>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=94.17  E-value=0.0097  Score=44.51  Aligned_cols=21  Identities=38%  Similarity=0.591  Sum_probs=17.2

Q ss_pred             EEEEccCCCChHHHHHHhhch
Q 048765          199 ISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~~  219 (314)
                      |.++|.+|+|||+|...+.++
T Consensus         6 i~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC--
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678899999999999988654

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.14  E-value=0.011  Score=43.83  Aligned_cols=21  Identities=33%  Similarity=0.684  Sum_probs=18.5

Q ss_pred             EEEEccCCCChHHHHHHhhch
Q 048765          199 ISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~~  219 (314)
                      |.++|.+|+|||+|...+.++
T Consensus         6 i~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            678999999999999988654

>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=94.12  E-value=0.0098  Score=47.10  Aligned_cols=23  Identities=35%  Similarity=0.488  Sum_probs=20.0

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|.|||||.+.+..
T Consensus        25 Gei~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          25 GEILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             TCEEECBCCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            35899999999999999988754

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=94.06  E-value=0.0099  Score=47.75  Aligned_cols=22  Identities=41%  Similarity=0.534  Sum_probs=19.5

Q ss_pred             eEEEEEEccCCCChHHHHHHhh
Q 048765          196 LHIISIVGMGGIGKTTLAQLAC  217 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~  217 (314)
                      -..++|+|..|+|||||++.+.
T Consensus        44 Ge~vaivG~sGsGKSTLl~ll~   65 (255)
T d2hyda1          44 GETVAFVGMSGGGKSTLINLIP   65 (255)
T ss_dssp             TCEEEEECSTTSSHHHHHTTTT
T ss_pred             CCEEEEECCCCCcHHHHHHHHH
Confidence            4589999999999999998874

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=94.05  E-value=0.0074  Score=48.01  Aligned_cols=23  Identities=30%  Similarity=0.460  Sum_probs=20.3

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -.+++|+|+.|+|||||.+.+..
T Consensus        31 Ge~~~iiG~sGsGKSTll~~i~g   53 (242)
T d1oxxk2          31 GERFGILGPSGAGKTTFMRIIAG   53 (242)
T ss_dssp             TCEEEEECSCHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHHHHHc
Confidence            35999999999999999998854

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.03  E-value=0.012  Score=45.01  Aligned_cols=21  Identities=24%  Similarity=0.498  Sum_probs=18.5

Q ss_pred             EEEEccCCCChHHHHHHhhch
Q 048765          199 ISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~~  219 (314)
                      |.|+|.+|+|||||+..+..+
T Consensus         9 ivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           9 LLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhhC
Confidence            679999999999999988654

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.03  E-value=0.016  Score=42.93  Aligned_cols=23  Identities=26%  Similarity=0.427  Sum_probs=19.2

Q ss_pred             EEEEEEccCCCChHHHHHHhhch
Q 048765          197 HIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .-|.|+|..|+|||+|...+.++
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            45778999999999999987653

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.01  E-value=0.013  Score=43.64  Aligned_cols=21  Identities=14%  Similarity=0.427  Sum_probs=17.9

Q ss_pred             EEEEccCCCChHHHHHHhhch
Q 048765          199 ISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~~  219 (314)
                      |.++|..|+|||+|...+..+
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            568999999999999987653

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.95  E-value=0.013  Score=43.99  Aligned_cols=22  Identities=36%  Similarity=0.489  Sum_probs=18.3

Q ss_pred             EEEEEccCCCChHHHHHHhhch
Q 048765          198 IISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      -|.|+|..|+|||+|+..+.++
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3568899999999999887654

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.90  E-value=0.013  Score=44.36  Aligned_cols=22  Identities=36%  Similarity=0.457  Sum_probs=18.9

Q ss_pred             EEEEEccCCCChHHHHHHhhch
Q 048765          198 IISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      -|.|+|.+|+|||+|.+.+.++
T Consensus        11 Ki~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1          11 KCVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhhC
Confidence            3789999999999999887654

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

Probab=93.90  E-value=0.012  Score=43.94  Aligned_cols=24  Identities=25%  Similarity=0.310  Sum_probs=20.0

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..+ |.++|.+|+|||||.+.+.++
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            455 559999999999999998754

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.89  E-value=0.015  Score=44.42  Aligned_cols=19  Identities=32%  Similarity=0.494  Sum_probs=17.1

Q ss_pred             EEEEEccCCCChHHHHHHh
Q 048765          198 IISIVGMGGIGKTTLAQLA  216 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v  216 (314)
                      -|.++|.+|+|||+|+..+
T Consensus         4 KivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            3669999999999999888

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.85  E-value=0.016  Score=43.31  Aligned_cols=20  Identities=35%  Similarity=0.727  Sum_probs=17.6

Q ss_pred             EEEEccCCCChHHHHHHhhc
Q 048765          199 ISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~  218 (314)
                      |.++|.+|+|||+|++.+..
T Consensus         6 v~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           6 VVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEECCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67899999999999988754

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=93.83  E-value=0.017  Score=45.63  Aligned_cols=22  Identities=27%  Similarity=0.398  Sum_probs=19.8

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ++|+|.|..|+||||+|+.+.+
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e   23 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999988754

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.80  E-value=0.016  Score=43.20  Aligned_cols=21  Identities=33%  Similarity=0.438  Sum_probs=18.4

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -|.|+|.+|+|||+|++.+.+
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~   28 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKD   28 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            378999999999999998755

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=93.77  E-value=0.015  Score=43.23  Aligned_cols=23  Identities=39%  Similarity=0.657  Sum_probs=19.4

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +--|.|+|.+|+|||+|++.+..
T Consensus         4 ~~KivlvG~~~vGKTsli~~~~~   26 (168)
T d1u8za_           4 LHKVIMVGSGGVGKSALTLQFMY   26 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             eeEEEEECCCCcCHHHHHHHHHh
Confidence            34577999999999999998764

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=93.77  E-value=0.016  Score=42.79  Aligned_cols=20  Identities=30%  Similarity=0.552  Sum_probs=17.4

Q ss_pred             EEEEccCCCChHHHHHHhhc
Q 048765          199 ISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~  218 (314)
                      |.++|.+|+|||||...+..
T Consensus         5 i~i~G~~~~GKTsLl~~l~~   24 (164)
T d1zd9a1           5 LTLVGLQYSGKTTFVNVIAS   24 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHc
Confidence            56889999999999988755

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=93.71  E-value=0.016  Score=43.72  Aligned_cols=20  Identities=40%  Similarity=0.644  Sum_probs=17.9

Q ss_pred             EEEEccCCCChHHHHHHhhc
Q 048765          199 ISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~  218 (314)
                      |.++|..|+|||||+..+.+
T Consensus         5 v~vvG~~~vGKSSLi~~l~~   24 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVN   24 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67999999999999998765

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.70  E-value=0.016  Score=43.49  Aligned_cols=20  Identities=35%  Similarity=0.582  Sum_probs=17.9

Q ss_pred             EEEEccCCCChHHHHHHhhc
Q 048765          199 ISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~  218 (314)
                      |.++|.+|+|||+|.+.+.+
T Consensus        10 i~vvG~~~vGKTsli~~l~~   29 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTD   29 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67999999999999998754

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.68  E-value=0.016  Score=43.99  Aligned_cols=21  Identities=24%  Similarity=0.355  Sum_probs=18.1

Q ss_pred             EEEEccCCCChHHHHHHhhch
Q 048765          199 ISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~~  219 (314)
                      |.++|.+|+|||+|.+.+..+
T Consensus         5 iv~lG~~~vGKTsll~r~~~~   25 (200)
T d2bcjq2           5 LLLLGTGESGKSTFIKQMRII   25 (200)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            579999999999999988553

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.65  E-value=0.022  Score=42.90  Aligned_cols=24  Identities=29%  Similarity=0.311  Sum_probs=19.7

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .--|.|+|.+|+|||+|.+.+..+
T Consensus         5 ~iKivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           5 AIKCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhC
Confidence            335789999999999999887653

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.64  E-value=0.017  Score=43.23  Aligned_cols=20  Identities=30%  Similarity=0.645  Sum_probs=17.8

Q ss_pred             EEEEccCCCChHHHHHHhhc
Q 048765          199 ISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~  218 (314)
                      |.++|.+|+|||+|+..+.+
T Consensus         9 I~vvG~~~vGKSSli~~~~~   28 (174)
T d1wmsa_           9 VILLGDGGVGKSSLMNRYVT   28 (174)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            77999999999999987754

>d1tmka_ c.37.1.1 (A:) Thymidylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.63  E-value=0.018  Score=44.80  Aligned_cols=23  Identities=30%  Similarity=0.395  Sum_probs=20.6

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -+.|+|-|+-|+||||+++.+..
T Consensus         3 Gk~I~iEG~DGsGKST~~~~L~~   25 (214)
T d1tmka_           3 GKLILIEGLDRTGKTTQCNILYK   25 (214)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEEECCCCCcHHHHHHHHHH
Confidence            46789999999999999998876

>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=93.62  E-value=0.018  Score=42.22  Aligned_cols=20  Identities=25%  Similarity=0.400  Sum_probs=17.8

Q ss_pred             EEEEccCCCChHHHHHHhhc
Q 048765          199 ISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~  218 (314)
                      |+++|.+|+|||||.+.+..
T Consensus         4 I~lvG~~nvGKSsLin~l~~   23 (161)
T d2gj8a1           4 VVIAGRPNAGKSSLLNALAG   23 (161)
T ss_dssp             EEEEESTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            67999999999999988863

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.53  E-value=0.018  Score=42.89  Aligned_cols=21  Identities=33%  Similarity=0.626  Sum_probs=18.0

Q ss_pred             EEEEccCCCChHHHHHHhhch
Q 048765          199 ISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~~  219 (314)
                      |.++|..|+|||+|+..+.++
T Consensus         7 i~lvG~~~vGKTsll~~~~~~   27 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQK   27 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            557899999999999988754

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=93.49  E-value=0.042  Score=44.01  Aligned_cols=40  Identities=28%  Similarity=0.357  Sum_probs=28.1

Q ss_pred             hhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          176 GEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       176 ~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..+.++...+....    ...-.|.|+|..|+|||||.+.++..
T Consensus        16 ~~l~e~~~~l~~~~----~~~l~I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          16 TKLLELLGNLKQED----VNSLTILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             HHHHHHHHHHHHTT----CCEEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             HHHHHHHHHHhhcC----CCCcEEEEECCCCCcHHHHHHHHhCC
Confidence            34445555554432    34556789999999999999999763

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=93.46  E-value=0.02  Score=43.11  Aligned_cols=21  Identities=38%  Similarity=0.521  Sum_probs=18.6

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -|+|+|..|+|||||...+..
T Consensus        10 kV~iiG~~~~GKSTLin~l~~   30 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILN   30 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHC
Confidence            478999999999999988865

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.37  E-value=0.019  Score=43.26  Aligned_cols=21  Identities=33%  Similarity=0.469  Sum_probs=18.1

Q ss_pred             EEEEccCCCChHHHHHHhhch
Q 048765          199 ISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~~  219 (314)
                      |.++|..|+|||+|++.+.++
T Consensus         5 ivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            568999999999999888653

>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=93.32  E-value=0.019  Score=43.64  Aligned_cols=21  Identities=33%  Similarity=0.442  Sum_probs=17.7

Q ss_pred             EEEEccCCCChHHHHHHhhch
Q 048765          199 ISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~~  219 (314)
                      |.++|..|+|||+|+..+..+
T Consensus         6 vvllG~~~vGKTSli~r~~~~   26 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTN   26 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            568899999999999887543

>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=93.26  E-value=0.036  Score=43.30  Aligned_cols=35  Identities=26%  Similarity=0.331  Sum_probs=26.8

Q ss_pred             hhHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhch
Q 048765          176 GEKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       176 ~~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..++.|.++|..         +...++|..|+|||||.+.+..+
T Consensus        84 ~g~~~L~~~l~~---------kt~~~~G~SGVGKSTLiN~L~~~  118 (225)
T d1u0la2          84 MGIEELKEYLKG---------KISTMAGLSGVGKSSLLNAINPG  118 (225)
T ss_dssp             TTHHHHHHHHSS---------SEEEEECSTTSSHHHHHHHHSTT
T ss_pred             hhHhhHHHHhcC---------CeEEEECCCCCCHHHHHHhhcch
Confidence            346777777732         36678999999999999988653

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.23  E-value=0.021  Score=42.91  Aligned_cols=23  Identities=17%  Similarity=0.225  Sum_probs=19.1

Q ss_pred             EEEEEEccCCCChHHHHHHhhch
Q 048765          197 HIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      --|.++|..|+|||+|...+.++
T Consensus         6 ~ki~vlG~~~vGKTsLi~~~~~~   28 (175)
T d2bmja1           6 LRLGVLGDARSGKSSLIHRFLTG   28 (175)
T ss_dssp             EEEEEECCTTTTHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            34679999999999999987553

>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=93.20  E-value=0.021  Score=42.81  Aligned_cols=25  Identities=16%  Similarity=0.165  Sum_probs=21.3

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+..-|+|+|.+++|||||.+.+..
T Consensus        14 ~~~~~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          14 DTGIEVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             SCSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHhC
Confidence            3456789999999999999988855

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=93.15  E-value=0.032  Score=43.01  Aligned_cols=23  Identities=17%  Similarity=0.176  Sum_probs=19.9

Q ss_pred             EEEEEEccC-CCChHHHHHHhhch
Q 048765          197 HIISIVGMG-GIGKTTLAQLACNH  219 (314)
Q Consensus       197 ~vi~I~G~~-G~GKTtLa~~v~~~  219 (314)
                      +.+.|.|.+ |+||||++..++.-
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~a   25 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQA   25 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHH
T ss_pred             ceEEEEECCCCccHHHHHHHHHHH
Confidence            568899998 99999999888763

>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=92.92  E-value=0.028  Score=43.94  Aligned_cols=22  Identities=27%  Similarity=0.451  Sum_probs=18.6

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .-|.++|.+|+|||||++.+..
T Consensus         7 ~KilllG~~~vGKTsll~~~~~   28 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMRI   28 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            3467999999999999988754

>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=92.79  E-value=0.017  Score=43.20  Aligned_cols=21  Identities=24%  Similarity=0.430  Sum_probs=8.2

Q ss_pred             EEEEccCCCChHHHHHHhhch
Q 048765          199 ISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~~  219 (314)
                      |.|+|.+|+|||||...+..+
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEECCCCC------------
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999877653

>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=91.78  E-value=0.095  Score=42.34  Aligned_cols=25  Identities=24%  Similarity=0.404  Sum_probs=23.0

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +.+.||+|+|+-++|||+|+..++.
T Consensus        30 ~~v~vvsi~G~~~sGKS~llN~l~~   54 (277)
T d1f5na2          30 QPMVVVAIVGLYRTGKSYLMNKLAG   54 (277)
T ss_dssp             SBEEEEEEEEBTTSSHHHHHHHHTT
T ss_pred             CCEEEEEEECCCCCCHHHHHHHHcC
Confidence            4699999999999999999999875

>d1ewqa2 c.37.1.12 (A:542-765) DNA repair protein MutS, the C-terminal domain {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Thermus aquaticus [TaxId: 271]

Probab=91.76  E-value=0.21  Score=38.83  Aligned_cols=21  Identities=24%  Similarity=0.330  Sum_probs=18.7

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ++.|.|+...||||+.+.+.-
T Consensus        37 ~~iiTGpN~~GKSt~lk~i~l   57 (224)
T d1ewqa2          37 LVLITGPNMAGKSTFLRQTAL   57 (224)
T ss_dssp             EEEEESCSSSSHHHHHHHHHH
T ss_pred             EEEEECCCccccchhhhhhHH
Confidence            678999999999999998854

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=91.71  E-value=0.014  Score=42.89  Aligned_cols=20  Identities=40%  Similarity=0.537  Sum_probs=18.2

Q ss_pred             EEEEccCCCChHHHHHHhhc
Q 048765          199 ISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~  218 (314)
                      |+++|.+|+|||||.+.+..
T Consensus         3 I~liG~~n~GKSSLin~l~g   22 (160)
T d1xzpa2           3 MVIVGKPNVGKSTLLNRLLN   22 (160)
T ss_dssp             EEEECCHHHHTCHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            78999999999999999865

>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=91.64  E-value=0.051  Score=43.93  Aligned_cols=25  Identities=32%  Similarity=0.220  Sum_probs=21.9

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhhc
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+.+.|+|+|-.|.|||||+-.+..
T Consensus         4 ~~iRni~i~gh~~~GKTtL~e~ll~   28 (276)
T d2bv3a2           4 KRLRNIGIAAHIDAGKTTTTERILY   28 (276)
T ss_dssp             GGEEEEEEEECTTSCHHHHHHHHHH
T ss_pred             hhceEEEEEeCCCCCHHHHHHHHHH
Confidence            4688999999999999999987754

>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=91.08  E-value=0.057  Score=44.77  Aligned_cols=97  Identities=16%  Similarity=0.207  Sum_probs=49.1

Q ss_pred             EEEEEEccCCCChHHHHHHhhchHhhhhcCceeEEEEcCccccHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHccCce
Q 048765          197 HIISIVGMGGIGKTTLAQLACNHEEVIRKFDKILWVCVSETFEEFRVAKAMVEALDGHESHLGEFQSLLRHIYESIAGKS  276 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~~~~~~~~F~~~~wv~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~L~~kr  276 (314)
                      +.|.|.|..|+||||+.+.++..  +... ..++-+.-...+....- ..+. ++.  ....-   ...+.++..|+...
T Consensus       167 ~nili~G~tgSGKTT~l~al~~~--i~~~-~rivtiEd~~El~l~~~-~~~~-~~~--~~~~~---~~~~ll~~~lR~~p  236 (323)
T d1g6oa_         167 KNVIVCGGTGSGKTTYIKSIMEF--IPKE-ERIISIEDTEEIVFKHH-KNYT-QLF--FGGNI---TSADCLKSCLRMRP  236 (323)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGGG--SCTT-CCEEEEESSCCCCCSSC-SSEE-EEE--CBTTB---CHHHHHHHHTTSCC
T ss_pred             CCEEEEeeccccchHHHHHHhhh--cccc-cceeeccchhhhhcccc-cccc-eec--cccch---hHHHHHHHHhccCC
Confidence            34789999999999999988762  2111 12222211111110000 0000 000  00011   12344566676677


Q ss_pred             EEEEEeccccCCccCHHhHHHhhccCCCCc
Q 048765          277 FLLVLDDVWDGNYVKWEPFYHCLKNGLHGS  306 (314)
Q Consensus       277 ~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs  306 (314)
                      =.||+..+...  +.|. +..++..+..|+
T Consensus       237 d~iivgEiR~~--ea~~-~l~a~~tGh~g~  263 (323)
T d1g6oa_         237 DRIILGELRSS--EAYD-FYNVLCSGHKGT  263 (323)
T ss_dssp             SEEEESCCCST--HHHH-HHHHHHTTCSCE
T ss_pred             CcccCCccCch--hHHH-HHHHHHhcCCcE
Confidence            77999999765  5565 445565555564

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Equine herpesvirus type 4 [TaxId: 10331]

Probab=90.71  E-value=0.12  Score=42.80  Aligned_cols=25  Identities=28%  Similarity=0.405  Sum_probs=21.2

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .+..|.|=|.-|+||||+++.+.+.
T Consensus         5 ~~~rI~iEG~iGsGKSTl~~~L~~~   29 (333)
T d1p6xa_           5 TIVRIYLDGVYGIGKSTTGRVMASA   29 (333)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHSG
T ss_pred             ceEEEEEECCccCCHHHHHHHHHHH
Confidence            3566788899999999999999873

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=90.57  E-value=0.084  Score=39.45  Aligned_cols=22  Identities=27%  Similarity=0.300  Sum_probs=18.7

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      +-|.|.|..|+||||||..+..
T Consensus        15 ~gvl~~G~sG~GKStlal~l~~   36 (176)
T d1kkma_          15 LGVLITGDSGVGKSETALELVQ   36 (176)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEEeCCCCCHHHHHHHHHH
Confidence            4678899999999999988654

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=90.57  E-value=0.087  Score=39.39  Aligned_cols=22  Identities=32%  Similarity=0.323  Sum_probs=18.7

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .-+.|.|..|+||||||..+..
T Consensus        16 ~gvli~G~sG~GKS~lal~l~~   37 (177)
T d1knxa2          16 VGVLLTGRSGIGKSECALDLIN   37 (177)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHT
T ss_pred             EEEEEEcCCCCCHHHHHHHHHH
Confidence            4577899999999999988754

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=90.35  E-value=0.089  Score=42.24  Aligned_cols=22  Identities=36%  Similarity=0.622  Sum_probs=19.6

Q ss_pred             eEEEEEEccCCCChHHHHHHhh
Q 048765          196 LHIISIVGMGGIGKTTLAQLAC  217 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~  217 (314)
                      .+.|+|+|-.|.|||||+..+.
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            5789999999999999998773

>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=90.34  E-value=0.23  Score=42.27  Aligned_cols=24  Identities=29%  Similarity=0.281  Sum_probs=21.3

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ...+|.|.|+.|+||||....+.+
T Consensus       157 ~~GliLvtGpTGSGKSTTl~~~l~  180 (401)
T d1p9ra_         157 PHGIILVTGPTGSGKSTTLYAGLQ  180 (401)
T ss_dssp             SSEEEEEECSTTSCHHHHHHHHHH
T ss_pred             hhceEEEEcCCCCCccHHHHHHhh
Confidence            357999999999999999988876

>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=90.12  E-value=0.2  Score=40.80  Aligned_cols=16  Identities=31%  Similarity=0.445  Sum_probs=13.4

Q ss_pred             EEEEccCCCChHHHHH
Q 048765          199 ISIVGMGGIGKTTLAQ  214 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~  214 (314)
                      +.|.|.+|+||||.+.
T Consensus        27 ~lV~g~aGSGKTt~l~   42 (318)
T d1pjra1          27 LLIMAGAGSGKTRVLT   42 (318)
T ss_dssp             EEEEECTTSCHHHHHH
T ss_pred             EEEEecCCccHHHHHH
Confidence            6688999999998663

>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=90.12  E-value=0.2  Score=40.39  Aligned_cols=15  Identities=27%  Similarity=0.381  Sum_probs=12.9

Q ss_pred             EEEEccCCCChHHHH
Q 048765          199 ISIVGMGGIGKTTLA  213 (314)
Q Consensus       199 i~I~G~~G~GKTtLa  213 (314)
                      +.|.|.+|+||||.+
T Consensus        17 ~lI~g~aGTGKTt~l   31 (306)
T d1uaaa1          17 CLVLAGAGSGKTRVI   31 (306)
T ss_dssp             EEECCCTTSCHHHHH
T ss_pred             EEEEeeCCccHHHHH
Confidence            568899999999765

>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=90.05  E-value=0.079  Score=39.59  Aligned_cols=21  Identities=33%  Similarity=0.408  Sum_probs=19.0

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .|+|+|...+|||||...+..
T Consensus         7 nIaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            689999999999999998863

>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=89.75  E-value=0.088  Score=39.09  Aligned_cols=22  Identities=32%  Similarity=0.297  Sum_probs=18.6

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .-+.|.|..|+||||||..+..
T Consensus        16 ~gvli~G~sg~GKS~la~~l~~   37 (169)
T d1ko7a2          16 VGVLITGDSGIGKSETALELIK   37 (169)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEEeCCCCCHHHHHHHHHH
Confidence            4678999999999999977654

>d1e2ka_ c.37.1.1 (A:) Thymidine kinase {Herpes simplex virus type 1, different strains [TaxId: 10298]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Herpes simplex virus type 1, different strains [TaxId: 10298]

Probab=89.60  E-value=0.092  Score=43.46  Aligned_cols=24  Identities=42%  Similarity=0.447  Sum_probs=20.7

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhc
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+..|+|=|.-|+||||+++.+.+
T Consensus         3 ~~lrI~IEG~iGsGKTTl~~~La~   26 (329)
T d1e2ka_           3 TLLRVYIDGPHGMGKTTTTQLLVA   26 (329)
T ss_dssp             EEEEEEECSCTTSSHHHHHHHHTC
T ss_pred             CceEEEEECCcCCCHHHHHHHHHH
Confidence            355688999999999999998876

>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=89.38  E-value=0.14  Score=38.92  Aligned_cols=37  Identities=16%  Similarity=0.049  Sum_probs=28.0

Q ss_pred             hHHHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          177 EKNELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       177 ~~~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -+..+..+|...     ++...+.++|+++.|||+++..+..
T Consensus        39 Fl~~l~~~l~~~-----PKkn~i~~~GP~~TGKS~f~~sl~~   75 (205)
T d1tuea_          39 FLGALKSFLKGT-----PKKNCLVFCGPANTGKSYFGMSFIH   75 (205)
T ss_dssp             HHHHHHHHHHTC-----TTCSEEEEESCGGGCHHHHHHHHHH
T ss_pred             HHHHHHHHHcCC-----CCceEEEEECCCCccHHHHHHHHHH
Confidence            445566666432     5678999999999999999987755

>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=89.27  E-value=0.2  Score=40.12  Aligned_cols=36  Identities=19%  Similarity=0.161  Sum_probs=26.8

Q ss_pred             HHHHHHhhccCcCCCCCeEEEEEEccCCCChHHHHHHhhc
Q 048765          179 NELLSKLLCESSEQQKGLHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       179 ~~l~~~L~~~~~~~~~~~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      ..+..+|....    ++...+.++|+|+.|||+++..+..
T Consensus        91 ~~l~~~L~~~~----~k~n~~~l~G~~~tGKS~f~~~i~~  126 (267)
T d1u0ja_          91 SVFLGWATKKF----GKRNTIWLFGPATTGKTNIAEAIAH  126 (267)
T ss_dssp             HHHHHHHTTCS----TTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             HHHHHHHcCCC----CccEEEEEEcCCCCCHHHHHHHHHH
Confidence            34555564433    5677889999999999999987754

>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=89.11  E-value=0.1  Score=40.63  Aligned_cols=22  Identities=36%  Similarity=0.410  Sum_probs=19.3

Q ss_pred             EEEEEEccCCCChHHHHHHhhc
Q 048765          197 HIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       197 ~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .+|+|+|-..+|||||+..+..
T Consensus         6 p~IaIiGh~d~GKSTL~~~L~~   27 (227)
T d1g7sa4           6 PIVSVLGHVDHGKTTLLDHIRG   27 (227)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEEeCCCccHHHHHHHHHh
Confidence            4699999999999999988754

>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=88.63  E-value=2.6  Score=31.53  Aligned_cols=19  Identities=47%  Similarity=0.413  Sum_probs=15.1

Q ss_pred             EEEccCCCChHHHHHHhhc
Q 048765          200 SIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       200 ~I~G~~G~GKTtLa~~v~~  218 (314)
                      .|+++.|.|||.++..+..
T Consensus        89 ll~~~tG~GKT~~a~~~~~  107 (206)
T d2fz4a1          89 CIVLPTGSGKTHVAMAAIN  107 (206)
T ss_dssp             EEEESSSTTHHHHHHHHHH
T ss_pred             EEEeCCCCCceehHHhHHH
Confidence            3678899999998876654

>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=87.97  E-value=0.05  Score=42.63  Aligned_cols=22  Identities=23%  Similarity=0.433  Sum_probs=18.2

Q ss_pred             EEEEEccCCCChHHHHHHhhch
Q 048765          198 IISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ...++|..|+|||||.+.+..+
T Consensus        99 ~~vl~G~SGVGKSSLiN~L~~~  120 (231)
T d1t9ha2          99 TTVFAGQSGVGKSSLLNAISPE  120 (231)
T ss_dssp             EEEEEESHHHHHHHHHHHHCC-
T ss_pred             eEEEECCCCccHHHHHHhhccH
Confidence            3458899999999999998764

>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=87.59  E-value=0.19  Score=41.60  Aligned_cols=24  Identities=42%  Similarity=0.422  Sum_probs=20.0

Q ss_pred             eEEEEEEccCCCChHHHHHHhhch
Q 048765          196 LHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      .-.|+|=|.-|+||||+++.+.+.
T Consensus         5 ~lrI~IEG~iGsGKSTl~~~L~~~   28 (331)
T d1osna_           5 VLRIYLDGAYGIGKTTAAEEFLHH   28 (331)
T ss_dssp             EEEEEEEESSSSCTTHHHHHHHHT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHH
Confidence            345788899999999999998763

>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=87.14  E-value=0.047  Score=41.23  Aligned_cols=20  Identities=25%  Similarity=0.388  Sum_probs=17.0

Q ss_pred             EEEEEccCCCChHHHHHHhh
Q 048765          198 IISIVGMGGIGKTTLAQLAC  217 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~  217 (314)
                      +..|+|+.|+||||+..++.
T Consensus        26 ~tvi~G~NGsGKStil~Ai~   45 (222)
T d1qhla_          26 VTTLSGGNGAGKSTTMAAFV   45 (222)
T ss_dssp             HHHHHSCCSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHH
Confidence            44578999999999998875

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=86.46  E-value=0.29  Score=40.53  Aligned_cols=24  Identities=21%  Similarity=0.290  Sum_probs=21.4

Q ss_pred             CCeEEEEEEccCCCChHHHHHHhh
Q 048765          194 KGLHIISIVGMGGIGKTTLAQLAC  217 (314)
Q Consensus       194 ~~~~vi~I~G~~G~GKTtLa~~v~  217 (314)
                      .+.+-|+|+|-.|.|||||+-.+.
T Consensus        15 ~~IRNI~iiGhvd~GKTTL~d~Ll   38 (341)
T d1n0ua2          15 TNVRNMSVIAHVDHGKSTLTDSLV   38 (341)
T ss_dssp             GGEEEEEEECCGGGTHHHHHHHHH
T ss_pred             ccCcEEEEEeCCCCcHHHHHHHHH
Confidence            468999999999999999997764

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=86.43  E-value=0.21  Score=42.50  Aligned_cols=23  Identities=17%  Similarity=0.336  Sum_probs=19.8

Q ss_pred             eEEEEEEccCCCChHHHHHHhhc
Q 048765          196 LHIISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       196 ~~vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      .--|+|+|.+|+|||||.+.+..
T Consensus        56 ~l~Iai~G~~n~GKSSLiNaL~G   78 (400)
T d1tq4a_          56 VLNVAVTGETGSGKSSFINTLRG   78 (400)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHT
T ss_pred             CcEEEEECCCCCCHHHHHHHHhC
Confidence            34689999999999999998863

>d1jala1 c.37.1.8 (A:1-278) YchF GTP-binding protein N-terminal domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Haemophilus influenzae [TaxId: 727]

Probab=85.28  E-value=0.22  Score=39.96  Aligned_cols=20  Identities=35%  Similarity=0.488  Sum_probs=17.9

Q ss_pred             EEEEEccCCCChHHHHHHhh
Q 048765          198 IISIVGMGGIGKTTLAQLAC  217 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~  217 (314)
                      -++|+|++.+|||||-..+-
T Consensus         4 ~~GivG~Pn~GKSTlf~~lt   23 (278)
T d1jala1           4 KCGIVGLPNVGKSTLFNALT   23 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHH
Confidence            58999999999999998774

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=84.20  E-value=0.28  Score=37.38  Aligned_cols=20  Identities=30%  Similarity=0.325  Sum_probs=17.8

Q ss_pred             EEEEEccCCCChHHHHHHhh
Q 048765          198 IISIVGMGGIGKTTLAQLAC  217 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~  217 (314)
                      .|+|+|-.+.|||||+.++.
T Consensus         5 ni~iiGhvd~GKSTL~~~Ll   24 (204)
T d2c78a3           5 NVGTIGHVDHGKTTLTAALT   24 (204)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEEeCCCCcHHHHHHHHH
Confidence            58899999999999998874

>d1ni3a1 c.37.1.8 (A:11-306) YchF GTP-binding protein N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=83.92  E-value=0.27  Score=39.89  Aligned_cols=21  Identities=33%  Similarity=0.496  Sum_probs=18.8

Q ss_pred             EEEEEccCCCChHHHHHHhhc
Q 048765          198 IISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       198 vi~I~G~~G~GKTtLa~~v~~  218 (314)
                      -++|+|.+.+|||||-..+-.
T Consensus        12 kiGivG~Pn~GKSTlfnalT~   32 (296)
T d1ni3a1          12 KTGIVGMPNVGKSTFFRAITK   32 (296)
T ss_dssp             EEEEEECSSSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHC
Confidence            489999999999999988864

>d1wxqa1 c.37.1.8 (A:1-319) GTP-binding protein PH0525 {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 PH0525
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=83.86  E-value=0.27  Score=40.26  Aligned_cols=20  Identities=35%  Similarity=0.491  Sum_probs=18.1

Q ss_pred             EEEEccCCCChHHHHHHhhc
Q 048765          199 ISIVGMGGIGKTTLAQLACN  218 (314)
Q Consensus       199 i~I~G~~G~GKTtLa~~v~~  218 (314)
                      |+|+|.+.+|||||-+.+-.
T Consensus         3 v~lvG~pn~GKStlfn~lt~   22 (319)
T d1wxqa1           3 IGVVGKPNVGKSTFFSAATL   22 (319)
T ss_dssp             EEEEECTTSSHHHHHHHHHC
T ss_pred             EeEECCCCCCHHHHHHHHHC
Confidence            79999999999999988843

>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=83.60  E-value=0.3  Score=39.11  Aligned_cols=25  Identities=24%  Similarity=0.329  Sum_probs=21.2

Q ss_pred             CeEEEEEEccCCCChHHHHHHhhch
Q 048765          195 GLHIISIVGMGGIGKTTLAQLACNH  219 (314)
Q Consensus       195 ~~~vi~I~G~~G~GKTtLa~~v~~~  219 (314)
                      ..-.++|+|++.+|||||+..+...
T Consensus       111 ~~~~v~vvG~PNvGKSsliN~L~~~  135 (273)
T d1puja_         111 RAIRALIIGIPNVGKSTLINRLAKK  135 (273)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CceEEEEEecCccchhhhhhhhhcc
Confidence            4456899999999999999988763

>d1e69a_ c.37.1.12 (A:) Smc head domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Thermotoga maritima [TaxId: 2336]

Probab=80.59  E-value=0.38  Score=38.76  Aligned_cols=42  Identities=26%  Similarity=0.170  Sum_probs=27.0

Q ss_pred             cCceEEEEEeccccCCccCH-HhHHHhhccCCCCceEEEeccC
Q 048765          273 AGKSFLLVLDDVWDGNYVKW-EPFYHCLKNGLHGSKILVTTRK  314 (314)
Q Consensus       273 ~~kr~LlVlDdv~~~~~~~~-~~l~~~l~~~~~gs~iivTtR~  314 (314)
                      ..+.-++++|+++..-...| ..+...+....+.+.|||||.+
T Consensus       239 ~~~~~~~~iDEpe~~Lhp~~~~~l~~~l~~~~~~~QviitTHs  281 (308)
T d1e69a_         239 IKPSPFYVLDEVDSPLDDYNAERFKRLLKENSKHTQFIVITHN  281 (308)
T ss_dssp             TSCCSEEEEESCCSSCCHHHHHHHHHHHHHHTTTSEEEEECCC
T ss_pred             hccCchhhhhhccccCCHHHHHHHHHHHHHhccCCEEEEEECC
Confidence            34456888899875422223 3456666655567889999975