Citrus Sinensis ID: 037337

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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-------
Protein Sequence
MVEIIVSVVIEVGKCLAPSTERQFSYVRDYTSNFENLNTQVEKLEGEIIRHRLSKEAVRQLDAIVKLRKDGRFERISHSIIPEDTLLMSNKGYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTARSLDVLSRKMDSQQNFLV
Secondary Structure (PSIPRED)
cHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccHHHHHHHHHHHccccccEEEEEccccccHHHHHHHHHHHHcccccccEEEEEEEcccccHHHHHHHHHHHHccccccccHHHHHHHHHHHHHccccEEEEEcccccccccccccccccccccccEEEEEEccHHHHcccccccccccc
Secondary Structure Prediction (SSPRO)
cccHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHcccccEEEcccccccccccccccccccccHHHHHHHHHHHHcccccEEEEEEccccccHHHHHHHHHHHHHHHccccEEEEEEEcccccHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHcccEEEEEccHHHHccHHHccccccccccccEEEEEEccHHHHHHHcccccEccc
Coil and Loop (DISEMBL)
MVEIIVSVVIEVgkclapsterqfsyVRDYTSNFENLNTQVEKLEGEIIRHRLSKEAVRQLDAIVKLRKdgrferishsiipedtllmsnKGYEAFESRMSTLNDILGalrnpdismlgicgmggigKTMLEKEVARKAKNHKLFDLVVFsemsqspdirKVQGEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEHLdlqvvgiphgddhkgcKVLFTARSLDVLSRKMdsqqnflv
Flexible Loop (DISEMBL)
MVEIIVSVVievgkclapsterqFSYVRDYTSNFENLNTQVEKLEGEiirhrlskeavRQLDAIVklrkdgrferishsiipedtllmsNKGYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFsemsqspdirkVQGEIADKLgltfreesesgrarslfsrlnreKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTARSLDvlsrkmdsqqnflv
Low Complexity Region (SEG)
MveiivsvvievGKCLAPSTERQFSYVRDYTSNFENLNTQVEKLEGEIIRHRLSKEAVRQLDAIVKLRKDGRFERISHSIIPEDTLLMSNKGYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTARSLDVLSRKMDSQQNFLV
Disordered region (IsUnstruct)
**EIIVSVVIEVGKCLAPSTERQFSYVRDYTSNFENLNTQVEKLEGEIIRHRLSKEAVRQLDAIVKLRKDGRFERISHSIIPEDTLLMSNKGYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFS***********************************FSRLNREKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTARSLDVL************
Disordered Region (DISOPRED)
MVEIIVSVVIEVGKCL****ERQFSYVRDYTSNFENLNTQVEKLEGEIIRHRLSKEAVRQL**I***********************************MSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFR***E**RARSLFSRLNREKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTARSLDVLSRKMDSQQNFLV
Disordered Region (DISEMBL)
MVEIIVSVVIEVGKCLAPSTERQFSYVRDYTSNFENLNTQVEKLEGEIIRHRLSKEAVRQLDAIVKLRKDGRFERISHSIIPEDTLLMSNKGYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFR**********LFSRLNREKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTARSLDVLSR**********
Disordered Region (DISPRO)
MVEIIVSVVIEVGKCLAPSTERQFSYVRDYTSNFENLNTQVEKLEGEIIRHRLSKEAVRQLDAIVKLRKDGRFERISHSI**************AFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTARSLDVLSRKMDSQQ****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MVEIIVSVVIEVGKCLAPSTERQFSYxxxxxxxxxxxxxxxxxxxxxxxxxxxxKEAVRQLDAIVKLRKDGRFERISHSIIPEDTLLMSNKGYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTARSLDVLSRKMDSQQNFLV
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	247	2.2.26 [Sep-21-2011]
Q9T048	985	Disease resistance protei	yes	no	0.728	0.182	0.338	1e-20
O22727	967	Probable disease resistan	no	no	0.761	0.194	0.295	1e-18
P60838	894	Probable disease resistan	no	no	0.485	0.134	0.392	1e-18
O64973	889	Disease resistance protei	no	no	0.489	0.136	0.403	5e-18
Q8L3R3	885	Disease resistance protei	no	no	0.550	0.153	0.354	6e-18
Q9LVT3	948	Probable disease resistan	no	no	0.744	0.194	0.304	6e-18
O64789	925	Probable disease resistan	no	no	0.753	0.201	0.298	9e-18
Q940K0	889	Probable disease resistan	no	no	0.761	0.211	0.301	1e-17
O23317	719	Probable disease resistan	no	no	0.550	0.189	0.347	1e-16
O64790	762	Probable disease resistan	no	no	0.465	0.150	0.375	2e-16

>sp|Q9T048|DRL27_ARATH Disease resistance protein At4g27190 OS=Arabidopsis thaliana GN=At4g27190 PE=2 SV=1

 Score =  100 bits (249), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 69/204 (33%), Positives = 116/204 (56%), Gaps = 24/204 (11%)

Query: 46  GEIIRHRLSKEAVRQLDAIVKLRKDG-----------RFERISHSIIPEDTLLMSNKGYE 94
           G  +R R+S++ V+ LD +  L KDG             ER+ H  +P  +++     ++
Sbjct: 93  GMSLRPRMSRKLVKILDEVKMLEKDGIEFVDMLSVESTPERVEH--VPGVSVV-----HQ 145

Query: 95  AFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNH---KLFDLVVFS 151
              S M  L  I   L +     +G+ GMGG+GKT L + +  K +     + F LV+F 
Sbjct: 146 TMASNM--LAKIRDGLTSEKAQKIGVWGMGGVGKTTLVRTLNNKLREEGATQPFGLVIFV 203

Query: 152 EMSQSPDIRKVQGEIADKLGL-TFREESESGRARSLFSRLNREKRILVILDNIWEHLDLQ 210
            +S+  D R+VQ +IA++L + T  EESE   AR ++  L +E++ L+ILD++W+ +DL 
Sbjct: 204 IVSKEFDPREVQKQIAERLDIDTQMEESEEKLARRIYVGLMKERKFLLILDDVWKPIDLD 263

Query: 211 VVGIPHGDDHKGCKVLFTARSLDV 234
           ++GIP  +++KG KV+ T+R L+V
Sbjct: 264 LLGIPRTEENKGSKVILTSRFLEV 287

Disease resistance protein.
Arabidopsis thaliana (taxid: 3702)

>sp|O22727|DRL16_ARATH Probable disease resistance protein At1g61190 OS=Arabidopsis thaliana GN=At1g61190 PE=3 SV=1

 Score = 93.6 bits (231), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 58/196 (29%), Positives = 105/196 (53%), Gaps = 8/196 (4%)

Query: 51  HRLSKEAVRQLDAIVKLRKDGRFERISHSIIPEDTLLMSNKGYEAFESRMSTLNDILGAL 110
           ++  K     L+ + KL+ +G F+ +S    P     +  +  +    +   L      L
Sbjct: 112 YKYGKRVFLLLEEVTKLKSEGNFDEVSQ---PPPRSEVEERPTQPTIGQEEMLKKAWNRL 168

Query: 111 RNPDISMLGICGMGGIGKTMLEKEVARK-AKNHKLFDLVVFSEMSQSPDIRKVQGEIADK 169
               + ++G+ GMGG+GKT L K++  K A+    FD+V++  +SQ   + K+Q +IA+K
Sbjct: 169 MEDGVGIMGLHGMGGVGKTTLFKKIHNKFAETGGTFDIVIWIVVSQGAKLSKLQEDIAEK 228

Query: 170 LGLT---FREESESGRARSLFSRLNREKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVL 226
           L L    ++ ++ES +A  +  R+ + KR +++LD+IWE +DL+ +GIP+  +   CKV 
Sbjct: 229 LHLCDDLWKNKNESDKATDI-HRVLKGKRFVLMLDDIWEKVDLEAIGIPYPSEVNKCKVA 287

Query: 227 FTARSLDVLSRKMDSQ 242
           FT R   V  +  D +
Sbjct: 288 FTTRDQKVCGQMGDHK 303

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score = 93.6 bits (231), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 49/125 (39%), Positives = 82/125 (65%), Gaps = 5/125 (4%)

Query: 117 MLGICGMGGIGKTMLEKEVARK-AKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFR 175
           ++G+ GMGG+GKT L   +  K ++    F +V++  +S+SPDI ++QG+I  +L L   
Sbjct: 178 IVGLYGMGGVGKTTLLTRINNKFSEKCSGFGVVIWVVVSKSPDIHRIQGDIGKRLDLGGE 237

Query: 176 EE---SESGRARSLFSRLNREKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTARSL 232
           E    +E+ RA  +++ L ++K +L +LD+IWE ++L+V+G+P+     GCKV+FT RS 
Sbjct: 238 EWDNVNENQRALDIYNVLGKQKFVL-LLDDIWEKVNLEVLGVPYPSRQNGCKVVFTTRSR 296

Query: 233 DVLSR 237
           DV  R
Sbjct: 297 DVCGR 301

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score = 91.3 bits (225), Expect = 5e-18,   Method: Compositional matrix adjust.
 Identities = 50/124 (40%), Positives = 78/124 (62%), Gaps = 3/124 (2%)

Query: 117 MLGICGMGGIGKTMLEKEVARK-AKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFR 175
           +LG+ GMGG+GKT L  ++  K +K    FD+V++  +S+S  +RK+Q +IA+K+GL   
Sbjct: 178 ILGLYGMGGVGKTTLLTKINNKFSKIDDRFDVVIWVVVSRSSTVRKIQRDIAEKVGLGGM 237

Query: 176 EESESGRARSLFSRLN--REKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTARSLD 233
           E SE    +      N  R ++ +++LD+IWE ++L+ VG+P+     GCKV FT RS D
Sbjct: 238 EWSEKNDNQIAVDIHNVLRRRKFVLLLDDIWEKVNLKAVGVPYPSKDNGCKVAFTTRSRD 297

Query: 234 VLSR 237
           V  R
Sbjct: 298 VCGR 301

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

Arabidopsis thaliana (taxid: 3702)

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

 Score = 91.3 bits (225), Expect = 6e-18,   Method: Compositional matrix adjust.
 Identities = 50/141 (35%), Positives = 87/141 (61%), Gaps = 5/141 (3%)

Query: 101 STLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARK-AKNHKLFDLVVFSEMSQSPDI 159
           S L+ +   L    + ++G+ GMGG+GKT L  ++  K +K    FD+V++  +S++  +
Sbjct: 162 SMLDKVWNCLMEDKVWIVGLYGMGGVGKTTLLTQINNKFSKLGGGFDVVIWVVVSKNATV 221

Query: 160 RKVQGEIADKLGLT---FREESESGRARSLFSRLNREKRILVILDNIWEHLDLQVVGIPH 216
            K+Q  I +KLGL    + E++++ RA  + + L R+K +L +LD+IWE ++L+V+G+P+
Sbjct: 222 HKIQKSIGEKLGLVGKNWDEKNKNQRALDIHNVLRRKKFVL-LLDDIWEKVELKVIGVPY 280

Query: 217 GDDHKGCKVLFTARSLDVLSR 237
                GCKV FT  S +V  R
Sbjct: 281 PSGENGCKVAFTTHSKEVCGR 301

Disease resistance (R) protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LVT3|DRL38_ARATH Probable disease resistance protein At5g47260 OS=Arabidopsis thaliana GN=At5g47260 PE=3 SV=2

 Score = 91.3 bits (225), Expect = 6e-18,   Method: Compositional matrix adjust.
 Identities = 60/197 (30%), Positives = 106/197 (53%), Gaps = 13/197 (6%)

Query: 51  HRLSKEAVRQLDAIVKLRKDGRFERISHSIIPEDTLLMSNKGYEAFESRMSTLNDILGAL 110
           +R S++ +  ++ +  LR  G FE + H  +P   L++     +   S+   L+     L
Sbjct: 107 YRYSEKVLTTMEGVETLRSKGVFEAVVHRALP--PLVIKMPPIQLTVSQAKLLDTAWARL 164

Query: 111 RNPDISMLGICGMGGIGKTMLEKEVARKAKNHKL---FDLVVFSEMSQSPDIRKVQGEIA 167
            + ++  LGI G GG+GKT L      K +N  L   F LV+F  +    ++  +Q EI 
Sbjct: 165 MDINVGTLGIYGRGGVGKTTL----LTKLRNKLLVDAFGLVIFVVVGFE-EVESIQDEIG 219

Query: 168 DKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVLF 227
            +LGL +R E++  +A  + + L +EKR +++LD I   LDL+ +G+P      GCK++F
Sbjct: 220 KRLGLQWRRETKERKAAEILAVL-KEKRFVLLLDGIQRELDLEEIGVPFPSRDNGCKIVF 278

Query: 228 TARSLDVL--SRKMDSQ 242
           T +SL+    S+ +D++
Sbjct: 279 TTQSLEACDESKWVDAK 295

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O64789|DRL18_ARATH Probable disease resistance protein At1g61310 OS=Arabidopsis thaliana GN=At1g61310 PE=2 SV=1

 Score = 90.5 bits (223), Expect = 9e-18,   Method: Compositional matrix adjust.
 Identities = 58/194 (29%), Positives = 105/194 (54%), Gaps = 8/194 (4%)

Query: 51  HRLSKEAVRQLDAIVKLRKDGRFERISHSIIPEDTLLMSNKGYEAFESRMSTLNDILGAL 110
           ++  K+    L+ +  L+ +G F+ +S    P     +  +  +    +   L      L
Sbjct: 113 YKYGKKVFLLLEEVKILKSEGNFDEVSQ---PPPRSEVEERPTQPTIGQEEMLEKAWNRL 169

Query: 111 RNPDISMLGICGMGGIGKTMLEKEVARK-AKNHKLFDLVVFSEMSQSPDIRKVQGEIADK 169
               + ++G+ GMGG+GKT L K++  K A+    FD+V++  +SQ   + K+Q +IA+K
Sbjct: 170 MEDGVGIMGLHGMGGVGKTTLFKKIHNKFAEIGGTFDIVIWIVVSQGAKLSKLQEDIAEK 229

Query: 170 LGLT---FREESESGRARSLFSRLNREKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVL 226
           L L    ++ ++ES +A  +  R+ + KR +++LD+IWE +DL+ +GIP+  +   CKV 
Sbjct: 230 LHLCDDLWKNKNESDKATDI-HRVLKGKRFVLMLDDIWEKVDLEAIGIPYPSEVNKCKVA 288

Query: 227 FTARSLDVLSRKMD 240
           FT RS +V     D
Sbjct: 289 FTTRSREVCGEMGD 302

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q940K0|DRL15_ARATH Probable disease resistance protein At1g61180 OS=Arabidopsis thaliana GN=At1g61180 PE=2 SV=2

 Score = 90.5 bits (223), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 59/196 (30%), Positives = 106/196 (54%), Gaps = 8/196 (4%)

Query: 51  HRLSKEAVRQLDAIVKLRKDGRFERISHSIIPEDTLLMSNKGYEAFESRMSTLNDILGAL 110
           ++  K+    L+ + KL  +G F+ +S    P     +  +  +    +   L      L
Sbjct: 111 YKYGKKVFLLLEEVKKLNSEGNFDEVSQ---PPPRSEVEERPTQPTIGQEDMLEKAWNRL 167

Query: 111 RNPDISMLGICGMGGIGKTMLEKEVARK-AKNHKLFDLVVFSEMSQSPDIRKVQGEIADK 169
               + ++G+ GMGG+GKT L K++  K A+    FD+V++  +S+   I K+Q +IA+K
Sbjct: 168 MEDGVGIMGLHGMGGVGKTTLFKKIHNKFAEIGGTFDIVIWIVVSKGVMISKLQEDIAEK 227

Query: 170 LGLT---FREESESGRARSLFSRLNREKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVL 226
           L L    ++ ++ES +A  +  R+ + KR +++LD+IWE +DL+ +GIP+  +   CKV 
Sbjct: 228 LHLCDDLWKNKNESDKATDI-HRVLKGKRFVLMLDDIWEKVDLEAIGIPYPSEVNKCKVA 286

Query: 227 FTARSLDVLSRKMDSQ 242
           FT RS +V     D +
Sbjct: 287 FTTRSREVCGEMGDHK 302

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O23317|DRL24_ARATH Probable disease resistance protein At4g14610 OS=Arabidopsis thaliana GN=At4g14610 PE=3 SV=1

 Score = 87.0 bits (214), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 49/141 (34%), Positives = 87/141 (61%), Gaps = 5/141 (3%)

Query: 101 STLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARK-AKNHKLFDLVVFSEMSQSPDI 159
           + L  +   L      ++G+ GMGG+GKT L  ++ +K ++    FD+V++  +S++ +I
Sbjct: 135 TMLERVWNTLMKDGFKIMGLYGMGGVGKTTLLTQINKKFSETDGGFDIVMWVVVSKTSEI 194

Query: 160 RKVQGEIADKLGLT---FREESESGRARSLFSRLNREKRILVILDNIWEHLDLQVVGIPH 216
            ++Q +IA +LGLT   + +++E+ RA  + + L R K +L +LD+IWE ++L++VG+P+
Sbjct: 195 YRIQEDIAKRLGLTGEEWDKKNENKRAVDIHNVLRRHKFVL-LLDDIWEKVNLELVGVPY 253

Query: 217 GDDHKGCKVLFTARSLDVLSR 237
                G  V FT RS DV  R
Sbjct: 254 PSRENGSIVAFTTRSRDVCGR 274

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O64790|DRL17_ARATH Probable disease resistance protein At1g61300 OS=Arabidopsis thaliana GN=At1g61300 PE=2 SV=2

 Score = 85.9 bits (211), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 45/120 (37%), Positives = 79/120 (65%), Gaps = 5/120 (4%)

Query: 115 ISMLGICGMGGIGKTMLEKEVARK-AKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLT 173
           + ++G+ GMGG+GKT L K++  K AK    FD+V++  +S+   + K+Q +IA+KL L 
Sbjct: 61  VGIMGLHGMGGVGKTTLFKKIHNKFAKMSSRFDIVIWIVVSKGAKLSKLQEDIAEKLHLC 120

Query: 174 ---FREESESGRARSLFSRLNREKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTAR 230
              ++ ++ES +A  +  R+ + KR +++LD+IWE +DL+ +G+P+  +   CKV FT R
Sbjct: 121 DDLWKNKNESDKATDI-HRVLKGKRFVLMLDDIWEKVDLEAIGVPYPSEVNKCKVAFTTR 179

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	247
224147195	554	cc-nbs resistance protein [Populus trich	0.979	0.436	0.39	4e-50
359487988	1297	PREDICTED: disease resistance protein RP	1.0	0.190	0.395	4e-50
296087869	1711	unnamed protein product [Vitis vinifera]	0.987	0.142	0.381	2e-49
359488025	1781	PREDICTED: uncharacterized protein LOC10	0.987	0.137	0.381	2e-49
359488027	1520	PREDICTED: disease resistance protein At	0.781	0.126	0.479	3e-49
147802546	1409	hypothetical protein VITISV_007222 [Viti	0.781	0.136	0.479	6e-49
224111296	1315	cc-nbs-lrr resistance protein [Populus t	0.979	0.184	0.38	2e-48
255574526	1232	Disease resistance protein RFL1, putativ	0.793	0.159	0.492	5e-48
359488288	1340	PREDICTED: LOW QUALITY PROTEIN: probable	0.793	0.146	0.484	2e-47
296085275	979	unnamed protein product [Vitis vinifera]	0.983	0.248	0.394	2e-46

>gi|224147195|ref|XP_002336426.1| cc-nbs resistance protein [Populus trichocarpa] gi|222834979|gb|EEE73428.1| cc-nbs resistance protein [Populus trichocarpa]

 Score =  204 bits (518), Expect = 4e-50,   Method: Compositional matrix adjust.
 Identities = 117/300 (39%), Positives = 168/300 (56%), Gaps = 58/300 (19%)

Query: 2   VEIIVSVVIEVGKCLAPSTERQFSYVRDYTSNFENLNTQV-------------------- 41
           +EI++S+V +V + L    +RQ  YV D  SN +NL  +V                    
Sbjct: 1   MEIVISIVAKVAELLVVPIKRQIGYVLDCNSNIQNLKNEVEKLTDAKTRVIHSIEEAQWN 60

Query: 42  -EKLEGEI-----------------------------------IRHRLSKEAVRQLDAIV 65
            E++E E+                                   IR+RL K A ++L  +V
Sbjct: 61  GEEIEVEVLNWLGSVDGVIEGAGGVVADESSKKCFMGLCPDLKIRYRLGKAAKKELTVVV 120

Query: 66  KLRKDGRFERISHSIIPEDTLLMSNKGYEAFESRMSTLNDILGALRNPDISMLGICGMGG 125
            L+  G+F+R+S+   P    +   K YEAFESR S LNDI+GAL++ D +M+G+ GM G
Sbjct: 121 DLQGKGKFDRVSYRAAPSG--IGPVKDYEAFESRNSVLNDIVGALKDGDENMVGVFGMAG 178

Query: 126 IGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARS 185
           +GKT L K+VA + K  +LF+ VV + +SQ+PDIR++QGEIAD LGL    E++ GRA  
Sbjct: 179 VGKTTLVKKVAEQVKEGRLFNEVVLAVVSQTPDIRRIQGEIADGLGLKLDAETDKGRASQ 238

Query: 186 LFSRLNREKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTARSLDVLSRKMDSQQNF 245
           L   L +  R+LVILD+IW+ L L+ VGIP G DH GCK+L T+R  +VLS +M + +NF
Sbjct: 239 LCKGLKKVTRVLVILDDIWKELKLEDVGIPSGSDHDGCKILMTSRDKNVLSCEMGANKNF 298

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359487988|ref|XP_002262896.2| PREDICTED: disease resistance protein RPS2-like [Vitis vinifera]

 Score =  203 bits (517), Expect = 4e-50,   Method: Compositional matrix adjust.
 Identities = 119/301 (39%), Positives = 168/301 (55%), Gaps = 54/301 (17%)

Query: 1   MVEIIVSVVIEVGKCLAPSTERQFSYVRDYTSNFENLNTQVEKL---------------- 44
           M EI++S+  +V + L     R   Y+ +Y SN +NL  QV+KL                
Sbjct: 1   MAEILISIAAKVAEYLVAPIVRPLGYLFNYRSNLDNLEEQVDKLGDARERRQRDVDDANR 60

Query: 45  ----------------EGEI---------------------IRHRLSKEAVRQLDAIVKL 67
                           EG I                     +R++ S++A +Q   I K+
Sbjct: 61  QGDEIEPDVQKWLTRTEGIIQTAKELIEDEKAASTSCFNLKLRYQRSRQAKKQSGDIGKI 120

Query: 68  RKDGRFERISHSIIPEDTLLMSNKGYEAFESRMSTLNDILGALRNPDISMLGICGMGGIG 127
           +++ +F R+S+ + P+       +   A ESR S LN+I+ ALRN DI M+G+ GMGG+G
Sbjct: 121 QEENKFNRVSYGLPPQGIWSPRLRDCGALESRASILNEIMEALRNDDIRMIGVWGMGGVG 180

Query: 128 KTMLEKEVARKAKNHKLFDLVVFS-EMSQSPDIRKVQGEIADKLGLTFREESESGRARSL 186
           KT L  +VA+KA+  KLF+ VV +  +S+ P++ K+QGEIA  LGL F EE ESGRA  L
Sbjct: 181 KTTLANQVAKKAEEDKLFEKVVMALNISRVPNVTKIQGEIASMLGLKFEEEEESGRAARL 240

Query: 187 FSRLNREKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTARSLDVLSRKMDSQQNFL 246
              L + K +LVILD+IWE L L+ +GIPHGD H+GCKVL T+R   VLSRKM +Q+NF 
Sbjct: 241 SKSLQKNKTVLVILDDIWEELSLENIGIPHGDAHRGCKVLLTSRKQGVLSRKMATQKNFR 300

Query: 247 V 247
           V
Sbjct: 301 V 301

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296087869|emb|CBI35152.3| unnamed protein product [Vitis vinifera]

 Score =  201 bits (512), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 116/304 (38%), Positives = 174/304 (57%), Gaps = 60/304 (19%)

Query: 1   MVEIIVSVVIEVGKCLAPSTERQFSYVRDYTSNFENLNTQVEKLEG----------EIIR 50
           MVEI+VSV  +V + L     RQ  Y+ +Y +N E+L+ +VEKL G          E IR
Sbjct: 1   MVEIVVSVAAKVSEYLVGPVVRQLGYLFNYRTNIEDLSQKVEKLRGARARLQHSVDEAIR 60

Query: 51  H-----------------------------------------------RLSKEAVRQLDA 63
           +                                               +LS+EA ++   
Sbjct: 61  NGHKIEDDVCKWMTRADGFIQKDCKFLEDEEARKSCFNGLCPNLKSRYQLSREARKKAGV 120

Query: 64  IVKLRKDGRFERISHSIIPEDTLLMSNKGYEAFESRMSTLNDILGALRNPDISMLGICGM 123
            V++ + G+FER S+    ++   + +   EA ESRM TLN+++ ALR+  I+ +G+ G+
Sbjct: 121 AVEIHEAGQFERASYRAPLQE---IRSAPSEALESRMLTLNEVMKALRDAKINKIGVWGL 177

Query: 124 GGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRA 183
           GG+GKT L K+VA +A   KLFD VV + + ++PD++K+QGE+AD LG+ F EESE GRA
Sbjct: 178 GGVGKTTLVKQVAEQAAQEKLFDKVVTAAVLETPDLKKIQGELADLLGMKFEEESEQGRA 237

Query: 184 RSLFSRLNREKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTARSLDVLSRKMDSQQ 243
             L+ R+N EK IL+ILD+IW  LDL+ +GIP  D HKGCK++ T+R+  +LS +MD+Q+
Sbjct: 238 ARLYQRMNEEKTILIILDDIWAKLDLEKIGIPSPDHHKGCKLVLTSRNEHILSNEMDTQK 297

Query: 244 NFLV 247
           +F V
Sbjct: 298 DFRV 301

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359488025|ref|XP_003633688.1| PREDICTED: uncharacterized protein LOC100852821 [Vitis vinifera]

 Score =  201 bits (512), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 116/304 (38%), Positives = 174/304 (57%), Gaps = 60/304 (19%)

Query: 1   MVEIIVSVVIEVGKCLAPSTERQFSYVRDYTSNFENLNTQVEKLEG----------EIIR 50
           MVEI+VSV  +V + L     RQ  Y+ +Y +N E+L+ +VEKL G          E IR
Sbjct: 1   MVEIVVSVAAKVSEYLVGPVVRQLGYLFNYRTNIEDLSQKVEKLRGARARLQHSVDEAIR 60

Query: 51  H-----------------------------------------------RLSKEAVRQLDA 63
           +                                               +LS+EA ++   
Sbjct: 61  NGHKIEDDVCKWMTRADGFIQKDCKFLEDEEARKSCFNGLCPNLKSRYQLSREARKKAGV 120

Query: 64  IVKLRKDGRFERISHSIIPEDTLLMSNKGYEAFESRMSTLNDILGALRNPDISMLGICGM 123
            V++ + G+FER S+    ++   + +   EA ESRM TLN+++ ALR+  I+ +G+ G+
Sbjct: 121 AVEIHEAGQFERASYRAPLQE---IRSAPSEALESRMLTLNEVMKALRDAKINKIGVWGL 177

Query: 124 GGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRA 183
           GG+GKT L K+VA +A   KLFD VV + + ++PD++K+QGE+AD LG+ F EESE GRA
Sbjct: 178 GGVGKTTLVKQVAEQAAQEKLFDKVVTAAVLETPDLKKIQGELADLLGMKFEEESEQGRA 237

Query: 184 RSLFSRLNREKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTARSLDVLSRKMDSQQ 243
             L+ R+N EK IL+ILD+IW  LDL+ +GIP  D HKGCK++ T+R+  +LS +MD+Q+
Sbjct: 238 ARLYQRMNEEKTILIILDDIWAKLDLEKIGIPSPDHHKGCKLVLTSRNEHILSNEMDTQK 297

Query: 244 NFLV 247
           +F V
Sbjct: 298 DFRV 301

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359488027|ref|XP_002269288.2| PREDICTED: disease resistance protein At4g27190-like [Vitis vinifera]

 Score =  201 bits (511), Expect = 3e-49,   Method: Compositional matrix adjust.
 Identities = 95/198 (47%), Positives = 146/198 (73%)

Query: 50  RHRLSKEAVRQLDAIVKLRKDGRFERISHSIIPEDTLLMSNKGYEAFESRMSTLNDILGA 109
           +++LS+EA ++   + +++ DG+FER+S+            KG+EA ESRM+TL++I+ A
Sbjct: 108 QYQLSREAKKRARVVAEIQGDGKFERVSYRAPLPGIGSAPFKGHEALESRMTTLDEIMEA 167

Query: 110 LRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADK 169
           LR+  ++++G+ GM G+GKT L K+VA++A+  KLFD VV + +S +P+++K+QGE+AD 
Sbjct: 168 LRDAHVNIIGVWGMAGVGKTTLMKQVAKQAEEEKLFDKVVMAYISSTPELKKIQGELADM 227

Query: 170 LGLTFREESESGRARSLFSRLNREKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTA 229
           LGL F EESE GRA  L  RL + K+IL+ILD+IW  LDL+ VGIP GDDHKGCK++ T+
Sbjct: 228 LGLKFEEESEMGRAARLCERLKKVKKILIILDDIWTELDLEKVGIPFGDDHKGCKMVLTS 287

Query: 230 RSLDVLSRKMDSQQNFLV 247
           R+  +LS +M +Q++F V
Sbjct: 288 RNKHILSNEMGTQKDFPV 305

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147802546|emb|CAN77665.1| hypothetical protein VITISV_007222 [Vitis vinifera]

 Score =  199 bits (507), Expect = 6e-49,   Method: Compositional matrix adjust.
 Identities = 95/198 (47%), Positives = 145/198 (73%)

Query: 50  RHRLSKEAVRQLDAIVKLRKDGRFERISHSIIPEDTLLMSNKGYEAFESRMSTLNDILGA 109
           +++LS+EA ++   + +++ DG+FER+S+            KG+EA ESRM+TL++I+ A
Sbjct: 108 QYQLSREAKKRARVVAEIQGDGKFERVSYRAPLPGIGSAPFKGHEALESRMTTLDEIMEA 167

Query: 110 LRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADK 169
           LR+  ++++G+ GM G+GKT L K+VA++ +  KLFD VV + +S +P+++K+QGE+AD 
Sbjct: 168 LRDAHVNIIGVWGMAGVGKTTLMKQVAKQVEEEKLFDKVVMAYISSTPELKKIQGELADM 227

Query: 170 LGLTFREESESGRARSLFSRLNREKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTA 229
           LGL F EESE GRA  L  RL + K+IL+ILD+IW  LDL+ VGIP GDDHKGCK++ T+
Sbjct: 228 LGLKFEEESEMGRAARLCERLKKVKKILIILDDIWTELDLEKVGIPFGDDHKGCKMVLTS 287

Query: 230 RSLDVLSRKMDSQQNFLV 247
           R+  VLS +M +Q++F V
Sbjct: 288 RNKHVLSNEMGTQKDFPV 305

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224111296|ref|XP_002332952.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222834264|gb|EEE72741.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  198 bits (503), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 114/300 (38%), Positives = 169/300 (56%), Gaps = 58/300 (19%)

Query: 2   VEIIVSVVIEVGKCLAPSTERQFSYVRDYTSNFENLNTQV-------------------- 41
           +EI++S+V +V + L    +RQ  YV +  +N +NL  +V                    
Sbjct: 1   MEIVISIVAKVAELLVVPIKRQIGYVLNCNTNIQNLKNEVEKLTDARTRVNHSIEEARRN 60

Query: 42  -EKLEGEI-----------------------------------IRHRLSKEAVRQLDAIV 65
            E++E E+                                   IR+RL K A ++L  +V
Sbjct: 61  GEEIEVEVFNWLGSVDGVIDGGGGGVADESSKKCFMGLCPDLKIRYRLGKAAKKELTVVV 120

Query: 66  KLRKDGRFERISHSIIPEDTLLMSNKGYEAFESRMSTLNDILGALRNPDISMLGICGMGG 125
            L++ GRF+R+S+   P    +   K YEAFESR S LN I+ AL++  ++M+G+ GM G
Sbjct: 121 DLQEKGRFDRVSYRAAPSG--IGPVKDYEAFESRDSVLNAIVDALKDGGVNMVGVYGMPG 178

Query: 126 IGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARS 185
           +GKT L K+VA + K  +LFD  V + +S +PDIR++QGEIAD LGL    E++ GRA  
Sbjct: 179 VGKTTLVKKVAEQVKEGRLFDKEVLAVVSHTPDIRRIQGEIADGLGLKLDAETDKGRASQ 238

Query: 186 LFSRLNREKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTARSLDVLSRKMDSQQNF 245
           L+ RL +  R+LVILD+IW+ L L+ VGIP G DH+GCK+L ++R+  VLSR+M S +NF
Sbjct: 239 LYERLKKVTRVLVILDDIWKELKLEDVGIPSGSDHEGCKILMSSRNEYVLSREMGSNRNF 298

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255574526|ref|XP_002528174.1| Disease resistance protein RFL1, putative [Ricinus communis] gi|223532386|gb|EEF34181.1| Disease resistance protein RFL1, putative [Ricinus communis]

 Score =  197 bits (500), Expect = 5e-48,   Method: Compositional matrix adjust.
 Identities = 97/197 (49%), Positives = 140/197 (71%), Gaps = 1/197 (0%)

Query: 50  RHRLSKEAVRQLDAIVKLRKDGRFERISHSIIPEDTLLMS-NKGYEAFESRMSTLNDILG 108
           R+ LS++A +++  I +L+ DG FER+S+ + P      S   G  AFESR S L  +  
Sbjct: 98  RYVLSRKARKKVPVIAELQSDGIFERVSYVMYPPKFSPSSFPDGNYAFESRQSILMQVWD 157

Query: 109 ALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIAD 168
           A+++P++SM+G+ GMGG+GKT L KEV+R+A    LFD+ V + +S SPD+ K+Q EIA+
Sbjct: 158 AIKDPNVSMIGVYGMGGVGKTTLVKEVSRRATESMLFDVSVMATLSYSPDLLKIQAEIAE 217

Query: 169 KLGLTFREESESGRARSLFSRLNREKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFT 228
           +LGL F EES + RAR L  RL  E++ILV+LD+IW  LDL+ +GIP G+DH GCK+L  
Sbjct: 218 QLGLQFVEESLAVRARRLHQRLKMEEKILVVLDDIWGRLDLEALGIPFGNDHLGCKILLA 277

Query: 229 ARSLDVLSRKMDSQQNF 245
           +RSLDVLS +M +++NF
Sbjct: 278 SRSLDVLSHQMGAERNF 294

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359488288|ref|XP_003633735.1| PREDICTED: LOW QUALITY PROTEIN: probable disease resistance protein At1g61310-like [Vitis vinifera]

 Score =  195 bits (495), Expect = 2e-47,   Method: Compositional matrix adjust.
 Identities = 95/196 (48%), Positives = 137/196 (69%)

Query: 50  RHRLSKEAVRQLDAIVKLRKDGRFERISHSIIPEDTLLMSNKGYEAFESRMSTLNDILGA 109
           R++LSKEA ++    V++  DG+FER+S+     +      K  +  ESRM TLN+++ A
Sbjct: 108 RYQLSKEARKKAGVAVEIHGDGQFERVSYRPPLLEIGSAPPKASKVLESRMLTLNEVMKA 167

Query: 110 LRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADK 169
           LR+ DI+ +GI GMGG+GK  L K+VA +A   KLFD VV + + Q+PD R++QGEIAD 
Sbjct: 168 LRDADINTIGIWGMGGVGKNTLVKQVAEQAAQEKLFDKVVMTSVFQTPDFRRIQGEIADM 227

Query: 170 LGLTFREESESGRARSLFSRLNREKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTA 229
           LG+ F EESE GRA  L  ++N EK IL+ILD+IW  L+L+ +GIP  D+HKGCK++ T+
Sbjct: 228 LGMKFEEESEQGRAARLHRKINEEKTILIILDDIWAELELEKIGIPSPDNHKGCKLVLTS 287

Query: 230 RSLDVLSRKMDSQQNF 245
           R+  VLS +M +Q++F
Sbjct: 288 RNKHVLSNEMSTQKDF 303

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296085275|emb|CBI29007.3| unnamed protein product [Vitis vinifera]

 Score =  191 bits (485), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 120/304 (39%), Positives = 175/304 (57%), Gaps = 61/304 (20%)

Query: 1   MVEIIVSVVIEVGKCLAPSTERQFSYVRDYTSNFENLNTQV------------------- 41
           MV+I++SV  +V +CL     RQ  Y+ +Y  N+ +L  Q+                   
Sbjct: 1   MVDIVISVAAKVAECLVDPIARQLGYLFNYRRNYVDLTEQIEMLDHARVRLQQSVEEANR 60

Query: 42  ----------EKLEGE--II----------------------RHRLSKEAVRQL-DAIVK 66
                     E L+G+  II                      R++LSK+A +Q  D ++K
Sbjct: 61  QGDEIFPDVQEWLKGDERIIQKKEDFIEDEKKASKSCFYLKSRYQLSKQAKKQAGDIVLK 120

Query: 67  LRKDGRF-ERISHSIIPEDTLLMSN---KGYEAFESRMSTLNDILGALRNPDISMLGICG 122
           +++   F +R+S+   P     +S+   K YEAF+SR ST N I+ ALRN ++ M+G+ G
Sbjct: 121 IQQAHNFGDRVSYRPSPPPLPFISSASFKDYEAFQSRESTFNQIMQALRNENMRMIGVWG 180

Query: 123 MGGIGKTMLEKEVARKAKNHKLFDLVVFS-EMSQSPDIRKVQGEIADKLGLTFREESESG 181
           MGG+GKT L K+VA++A+ +KLF  VV +  +SQ+P+I ++QG+IA  LGL F  E+E  
Sbjct: 181 MGGVGKTTLVKQVAQQAEENKLFHKVVMALNISQTPNIAEIQGKIARMLGLKF--EAEED 238

Query: 182 RARSLFSRLNREKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTARSLDVLSRKMDS 241
           RA  L  RL RE++ILVILD+IW  LDL+ +GIP GDDHKGCKVL T+R  +VLS  M +
Sbjct: 239 RAGRLRQRLKREEKILVILDDIWGKLDLRDIGIPDGDDHKGCKVLLTSREQEVLSEDMRT 298

Query: 242 QQNF 245
           Q+ F
Sbjct: 299 QKKF 302

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	247
TAIR|locus:2136447	985	AT4G27190 [Arabidopsis thalian	0.781	0.195	0.352	2e-22
TAIR|locus:2008440	899	AT1G61180 [Arabidopsis thalian	0.753	0.206	0.304	4.4e-21
TAIR|locus:2008510	967	AT1G61190 "AT1G61190" [Arabido	0.753	0.192	0.298	9.4e-20
TAIR|locus:2171589	948	AT5G47260 [Arabidopsis thalian	0.720	0.187	0.306	6.5e-19
TAIR|locus:2201996	889	RPS5 "AT1G12220" [Arabidopsis	0.753	0.209	0.321	7.5e-19
TAIR|locus:2034770	894	SUMM2 "AT1G12280" [Arabidopsis	0.712	0.196	0.329	2e-18
TAIR|locus:2201986	885	RFL1 "AT1G12210" [Arabidopsis	0.550	0.153	0.354	5.4e-18
TAIR|locus:2203881	893	AT1G62630 [Arabidopsis thalian	0.506	0.139	0.353	2.8e-17
TAIR|locus:2197739	762	AT1G61300 [Arabidopsis thalian	0.506	0.164	0.361	3.9e-17
TAIR|locus:2166320	888	AT5G63020 [Arabidopsis thalian	0.757	0.210	0.270	6.3e-17

TAIR|locus:2136447 AT4G27190 [Arabidopsis thaliana (taxid:3702)]

 Score = 272 (100.8 bits), Expect = 2.0e-22, P = 2.0e-22
 Identities = 72/204 (35%), Positives = 117/204 (57%)

Query:    46 GEIIRHRLSKEAVRQLDAIVKLRKDG-RF-ERISHSIIPEDTLLMSNKG--YEAFESRMS 101
             G  +R R+S++ V+ LD +  L KDG  F + +S    PE    +      ++   S M 
Sbjct:    93 GMSLRPRMSRKLVKILDEVKMLEKDGIEFVDMLSVESTPERVEHVPGVSVVHQTMASNM- 151

Query:   102 TLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNH---KLFDLVVFSEMSQSPD 158
              L  I   L +     +G+ GMGG+GKT L + +  K +     + F LV+F  +S+  D
Sbjct:   152 -LAKIRDGLTSEKAQKIGVWGMGGVGKTTLVRTLNNKLREEGATQPFGLVIFVIVSKEFD 210

Query:   159 IRKVQGEIADKLGL-TFREESESGRARSLFSRLNREKRILVILDNIWEHLDLQVVGIPHG 217
              R+VQ +IA++L + T  EESE   AR ++  L +E++ L+ILD++W+ +DL ++GIP  
Sbjct:   211 PREVQKQIAERLDIDTQMEESEEKLARRIYVGLMKERKFLLILDDVWKPIDLDLLGIPRT 270

Query:   218 DDHKGCKVLFTARSLDVL-SRKMD 240
             +++KG KV+ T+R L+V  S K D
Sbjct:   271 EENKGSKVILTSRFLEVCRSMKTD 294

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

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

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2008440 AT1G61180 [Arabidopsis thaliana (taxid:3702)]

 Score = 242 (90.2 bits), Expect = 4.4e-21, Sum P(2) = 4.4e-21
 Identities = 59/194 (30%), Positives = 105/194 (54%)

Query:    51 HRLSKEAVRQLDAIVKLRKDGRFERISHSIIPEDTLLMSNKGYEAFESRMSTLNDILGAL 110
             ++  K+    L+ + KL  +G F+ +S    P     +  +  +    +   L      L
Sbjct:   111 YKYGKKVFLLLEEVKKLNSEGNFDEVSQ---PPPRSEVEERPTQPTIGQEDMLEKAWNRL 167

Query:   111 RNPDISMLGICGMGGIGKTMLEKEVARK-AKNHKLFDLVVFSEMSQSPDIRKVQGEIADK 169
                 + ++G+ GMGG+GKT L K++  K A+    FD+V++  +S+   I K+Q +IA+K
Sbjct:   168 MEDGVGIMGLHGMGGVGKTTLFKKIHNKFAEIGGTFDIVIWIVVSKGVMISKLQEDIAEK 227

Query:   170 LGLT---FREESESGRARSLFSRLNREKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVL 226
             L L    ++ ++ES +A  +  R+ + KR +++LD+IWE +DL+ +GIP+  +   CKV 
Sbjct:   228 LHLCDDLWKNKNESDKATDIH-RVLKGKRFVLMLDDIWEKVDLEAIGIPYPSEVNKCKVA 286

Query:   227 FTARSLDVLSRKMD 240
             FT RS +V     D
Sbjct:   287 FTTRSREVCGEMGD 300

GO:0005886 "plasma membrane" evidence=ISM;IDA

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2008510 AT1G61190 "AT1G61190" [Arabidopsis thaliana (taxid:3702)]

 Score = 247 (92.0 bits), Expect = 9.4e-20, P = 9.4e-20
 Identities = 58/194 (29%), Positives = 104/194 (53%)

Query:    51 HRLSKEAVRQLDAIVKLRKDGRFERISHSIIPEDTLLMSNKGYEAFESRMSTLNDILGAL 110
             ++  K     L+ + KL+ +G F+ +S    P     +  +  +    +   L      L
Sbjct:   112 YKYGKRVFLLLEEVTKLKSEGNFDEVSQ---PPPRSEVEERPTQPTIGQEEMLKKAWNRL 168

Query:   111 RNPDISMLGICGMGGIGKTMLEKEVARK-AKNHKLFDLVVFSEMSQSPDIRKVQGEIADK 169
                 + ++G+ GMGG+GKT L K++  K A+    FD+V++  +SQ   + K+Q +IA+K
Sbjct:   169 MEDGVGIMGLHGMGGVGKTTLFKKIHNKFAETGGTFDIVIWIVVSQGAKLSKLQEDIAEK 228

Query:   170 LGLT---FREESESGRARSLFSRLNREKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVL 226
             L L    ++ ++ES +A  +  R+ + KR +++LD+IWE +DL+ +GIP+  +   CKV 
Sbjct:   229 LHLCDDLWKNKNESDKATDIH-RVLKGKRFVLMLDDIWEKVDLEAIGIPYPSEVNKCKVA 287

Query:   227 FTARSLDVLSRKMD 240
             FT R   V  +  D
Sbjct:   288 FTTRDQKVCGQMGD 301

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 239 (89.2 bits), Expect = 6.5e-19, P = 6.5e-19
 Identities = 56/183 (30%), Positives = 99/183 (54%)

Query:    51 HRLSKEAVRQLDAIVKLRKDGRFERISHSIIPEDTLLMSNKGYEAFESRMSTLNDILGAL 110
             +R S++ +  ++ +  LR  G FE + H  +P   L++     +   S+   L+     L
Sbjct:   107 YRYSEKVLTTMEGVETLRSKGVFEAVVHRALPP--LVIKMPPIQLTVSQAKLLDTAWARL 164

Query:   111 RNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKL 170
              + ++  LGI G GG+GKT L  ++  K      F LV+F  +    ++  +Q EI  +L
Sbjct:   165 MDINVGTLGIYGRGGVGKTTLLTKLRNKLLVDA-FGLVIFVVVGFE-EVESIQDEIGKRL 222

Query:   171 GLTFREESESGRARSLFSRLNREKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTAR 230
             GL +R E++  +A  + + L +EKR +++LD I   LDL+ +G+P      GCK++FT +
Sbjct:   223 GLQWRRETKERKAAEILAVL-KEKRFVLLLDGIQRELDLEEIGVPFPSRDNGCKIVFTTQ 281

Query:   231 SLD 233
             SL+
Sbjct:   282 SLE 284

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

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

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

GO:0043531 "ADP binding" evidence=IEA

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

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

 Score = 238 (88.8 bits), Expect = 7.5e-19, P = 7.5e-19
 Identities = 62/193 (32%), Positives = 103/193 (53%)

Query:    49 IRHRLSKEAVRQLDAIVKLRKDGRFERISHSIIPEDTLLMSNKGYEAFESRMSTLNDILG 108
             + +R  K  +  L  +  L   G F+ +S +    D   +  +     +  M  L     
Sbjct:   112 LSYRYGKRVIMMLKEVESLSSQGFFDVVSEATPFADVDEIPFQPTIVGQEIM--LEKAWN 169

Query:   109 ALRNPDISMLGICGMGGIGKTMLEKEVARK-AKNHKLFDLVVFSEMSQSPDIRKVQGEIA 167
              L      +LG+ GMGG+GKT L  ++  K +K    FD+V++  +S+S  +RK+Q +IA
Sbjct:   170 RLMEDGSGILGLYGMGGVGKTTLLTKINNKFSKIDDRFDVVIWVVVSRSSTVRKIQRDIA 229

Query:   168 DKLGL---TFREESESGRARSLFSRLNREKRILVILDNIWEHLDLQVVGIPHGDDHKGCK 224
             +K+GL    + E++++  A  + + L R K +L +LD+IWE ++L+ VG+P+     GCK
Sbjct:   230 EKVGLGGMEWSEKNDNQIAVDIHNVLRRRKFVL-LLDDIWEKVNLKAVGVPYPSKDNGCK 288

Query:   225 VLFTARSLDVLSR 237
             V FT RS DV  R
Sbjct:   289 VAFTTRSRDVCGR 301

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

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

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

GO:0005886 "plasma membrane" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0008219 "cell death" evidence=IMP

GO:0038023 "signaling receptor activity" evidence=IMP

GO:0000166 "nucleotide binding" evidence=IMP

GO:0005622 "intracellular" evidence=ISS

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

 Score = 234 (87.4 bits), Expect = 2.0e-18, P = 2.0e-18
 Identities = 63/191 (32%), Positives = 103/191 (53%)

Query:    55 KEAVRQLDAIVKLRKDGRFERISHSI----IPEDTLLMSNKGYEAFESRMSTLNDILGAL 110
             K  V  L  I  L   G F+ ++ +     I E  +  +  G E    R+ T       L
Sbjct:   118 KRVVLMLKEIESLSSQGDFDTVTLATPIARIEEMPIQPTIVGQETMLERVWT------RL 171

Query:   111 RNPDISMLGICGMGGIGKTMLEKEVARK-AKNHKLFDLVVFSEMSQSPDIRKVQGEIADK 169
                   ++G+ GMGG+GKT L   +  K ++    F +V++  +S+SPDI ++QG+I  +
Sbjct:   172 TEDGDEIVGLYGMGGVGKTTLLTRINNKFSEKCSGFGVVIWVVVSKSPDIHRIQGDIGKR 231

Query:   170 LGLTFRE---ESESGRARSLFSRLNREKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVL 226
             L L   E    +E+ RA  +++ L ++K +L +LD+IWE ++L+V+G+P+     GCKV+
Sbjct:   232 LDLGGEEWDNVNENQRALDIYNVLGKQKFVL-LLDDIWEKVNLEVLGVPYPSRQNGCKVV 290

Query:   227 FTARSLDVLSR 237
             FT RS DV  R
Sbjct:   291 FTTRSRDVCGR 301

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 230 (86.0 bits), Expect = 5.4e-18, P = 5.4e-18
 Identities = 50/141 (35%), Positives = 87/141 (61%)

Query:   101 STLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARK-AKNHKLFDLVVFSEMSQSPDI 159
             S L+ +   L    + ++G+ GMGG+GKT L  ++  K +K    FD+V++  +S++  +
Sbjct:   162 SMLDKVWNCLMEDKVWIVGLYGMGGVGKTTLLTQINNKFSKLGGGFDVVIWVVVSKNATV 221

Query:   160 RKVQGEIADKLGLTFR---EESESGRARSLFSRLNREKRILVILDNIWEHLDLQVVGIPH 216
              K+Q  I +KLGL  +   E++++ RA  + + L R+K +L +LD+IWE ++L+V+G+P+
Sbjct:   222 HKIQKSIGEKLGLVGKNWDEKNKNQRALDIHNVLRRKKFVL-LLDDIWEKVELKVIGVPY 280

Query:   217 GDDHKGCKVLFTARSLDVLSR 237
                  GCKV FT  S +V  R
Sbjct:   281 PSGENGCKVAFTTHSKEVCGR 301

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

GO:0009617 "response to bacterium" evidence=ISS

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

TAIR|locus:2203881 AT1G62630 [Arabidopsis thaliana (taxid:3702)]

 Score = 208 (78.3 bits), Expect = 2.8e-17, Sum P(2) = 2.8e-17
 Identities = 46/130 (35%), Positives = 79/130 (60%)

Query:   117 MLGICGMGGIGKTMLEKEVARKAKNHKL-FDLVVFSEMSQSPDIRKVQGEIADKLGLTFR 175
             ++G+ GMGG+GKT L  ++       K  FD+ ++  +SQ  ++ K+Q EIA KLGL   
Sbjct:   174 IMGMYGMGGVGKTTLLTQLFNMFNKDKCGFDIGIWVVVSQEVNVEKIQDEIAQKLGLGGH 233

Query:   176 EESE---SGRARSLFSRLNREKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTARSL 232
             E ++   S +   LF+ L + K+ ++ LD++W+ ++L  +G+P     KGCK+ FT+RSL
Sbjct:   234 EWTQRDISQKGVHLFNFL-KNKKFVLFLDDLWDKVELANIGVPDPRTQKGCKLAFTSRSL 292

Query:   233 DVLSRKMDSQ 242
             +V +   D +
Sbjct:   293 NVCTSMGDEE 302

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2197739 AT1G61300 [Arabidopsis thaliana (taxid:3702)]

 Score = 221 (82.9 bits), Expect = 3.9e-17, P = 3.9e-17
 Identities = 47/130 (36%), Positives = 81/130 (62%)

Query:   115 ISMLGICGMGGIGKTMLEKEVARK-AKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLT 173
             + ++G+ GMGG+GKT L K++  K AK    FD+V++  +S+   + K+Q +IA+KL L 
Sbjct:    61 VGIMGLHGMGGVGKTTLFKKIHNKFAKMSSRFDIVIWIVVSKGAKLSKLQEDIAEKLHLC 120

Query:   174 ---FREESESGRARSLFSRLNREKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTAR 230
                ++ ++ES +A  +  R+ + KR +++LD+IWE +DL+ +G+P+  +   CKV FT R
Sbjct:   121 DDLWKNKNESDKATDIH-RVLKGKRFVLMLDDIWEKVDLEAIGVPYPSEVNKCKVAFTTR 179

Query:   231 SLDVLSRKMD 240
                V     D
Sbjct:   180 DQKVCGEMGD 189

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005829 "cytosol" evidence=IDA

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

 Score = 220 (82.5 bits), Expect = 6.3e-17, P = 6.3e-17
 Identities = 53/196 (27%), Positives = 104/196 (53%)

Query:    51 HRLSKEAVRQLDAIVKLRKDGRFERISHSIIPEDTLLMSNKGYEAFESRMSTLNDILGAL 110
             +R  K  ++ ++ +  LR  G F  ++  +   D   +  +      +    L      L
Sbjct:   113 YRYGKRVMKMIEEVEVLRYQGDFAVVAERV---DAARVEERPTRPMVAMDPMLESAWNRL 169

Query:   111 RNPDISMLGICGMGGIGKTMLEKEVARK-AKNHKLFDLVVFSEMSQSPDIRKVQGEIADK 169
                +I +LG+ GMGG+GKT L   +  + ++    FD+V++  +S+   I+++Q EI +K
Sbjct:   170 MEDEIGILGLHGMGGVGKTTLLSHINNRFSRVGGEFDIVIWIVVSKELQIQRIQDEIWEK 229

Query:   170 L---GLTFREESESGRARSLFSRLNREKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVL 226
             L      +++++E  +A ++++ L + KR +++LD+IW  +DL  VG+P      GCK++
Sbjct:   230 LRSDNEKWKQKTEDIKASNIYNVL-KHKRFVLLLDDIWSKVDLTEVGVPFPSRENGCKIV 288

Query:   227 FTARSLDVLSRK-MDS 241
             FT R  ++  R  +DS
Sbjct:   289 FTTRLKEICGRMGVDS 304

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: eugene3.39080001 cc-nbs resistance protein (554 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	247
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	9e-22
pfam13401	124	pfam13401, AAA_22, AAA domain	4e-05

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

 Score = 90.9 bits (226), Expect = 9e-22
 Identities = 46/147 (31%), Positives = 76/147 (51%), Gaps = 6/147 (4%)

Query: 99  RMSTLNDILGAL--RNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQS 156
           R   +  ++  L   + ++ ++GI GMGG+GKT L K++         FD V +  +S++
Sbjct: 1   REDMIEALIEKLLEMSDNLGVVGIVGMGGVGKTTLAKQIYNDDSVGGHFDSVAWVVVSKT 60

Query: 157 PDIRKVQGEIADKLGLTFR---EESESGRARSLFSRLNREKRILVILDNIWEHLDLQVVG 213
               ++Q +I  +LGL      E++ES  A  +   L R KR L++LD++WE  D   +G
Sbjct: 61  YTEFRLQKDILQELGLDDSDWVEKNESELAVKIKEALLR-KRFLLVLDDVWEKNDWDKIG 119

Query: 214 IPHGDDHKGCKVLFTARSLDVLSRKMD 240
           +P  D   G +V+ T RS  V  R   
Sbjct: 120 VPFPDGENGSRVIVTTRSESVAGRMGG 146

Length = 285

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

 Score = 41.9 bits (99), Expect = 4e-05
 Identities = 25/92 (27%), Positives = 42/92 (45%), Gaps = 5/92 (5%)

Query: 120 ICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESE 179
           + G  G GKT L + +AR+  N +    VV+ E       + +  +I   LGL     + 
Sbjct: 9   LTGESGSGKTTLLRRLARQLPNRR----VVYVEAPSLGTPKDLLRKILRALGLPLSGGTT 64

Query: 180 SGRARSLFSRLNREKRILVILDNIWEHLDLQV 211
           +    ++   L R  R L+I+D   +HL L+ 
Sbjct: 65  AELLEAILDALKRRGRPLLIIDEA-QHLSLEA 95

Length = 124

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	247
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	99.97
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	99.94
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.83
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.39
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.34
PF05729	166	NACHT: NACHT domain	99.27
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	99.23
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	99.19
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	99.14
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	99.12
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	99.08
PTZ00202	550	tuzin; Provisional	99.06
PRK04841	903	transcriptional regulator MalT; Provisional	99.0
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.99
PF13173	128	AAA_14: AAA domain	98.97
cd01128	249	rho_factor Transcription termination factor rho is	98.9
PRK12402	337	replication factor C small subunit 2; Reviewed	98.88
PTZ00112	1164	origin recognition complex 1 protein; Provisional	98.87
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	98.86
COG2256	436	MGS1 ATPase related to the helicase subunit of the	98.83
PLN03025	319	replication factor C subunit; Provisional	98.82
PRK13342	413	recombination factor protein RarA; Reviewed	98.79
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	98.76
PRK00440	319	rfc replication factor C small subunit; Reviewed	98.76
PRK09376	416	rho transcription termination factor Rho; Provisio	98.74
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	98.73
KOG2028	554	consensus ATPase related to the helicase subunit o	98.72
PRK04195	482	replication factor C large subunit; Provisional	98.71
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	98.71
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	98.7
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	98.69
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	98.68
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	98.68
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	98.66
PRK06893	229	DNA replication initiation factor; Validated	98.66
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	98.65
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	98.64
TIGR00767	415	rho transcription termination factor Rho. Members	98.64
PHA02544	316	44 clamp loader, small subunit; Provisional	98.63
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	98.62
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	98.62
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	98.62
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	98.6
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	98.6
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	98.59
PF00004	132	AAA: ATPase family associated with various cellula	98.59
PRK05564	313	DNA polymerase III subunit delta'; Validated	98.58
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	98.58
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	98.57
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	98.57
smart00382	148	AAA ATPases associated with a variety of cellular	98.57
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	98.56
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	98.56
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	98.56
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	98.56
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	98.56
CHL00095	821	clpC Clp protease ATP binding subunit	98.56
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	98.53
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	98.53
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	98.52
PRK08727	233	hypothetical protein; Validated	98.52
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	98.51
PRK10865	857	protein disaggregation chaperone; Provisional	98.5
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	98.5
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	98.49
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	98.48
PRK03992	389	proteasome-activating nucleotidase; Provisional	98.48
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	98.46
PRK13341	725	recombination factor protein RarA/unknown domain f	98.46
PRK07940	394	DNA polymerase III subunit delta'; Validated	98.46
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	98.44
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	98.43
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	98.42
PRK08084	235	DNA replication initiation factor; Provisional	98.4
PRK08181	269	transposase; Validated	98.39
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	98.38
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	98.37
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	98.37
PRK08116	268	hypothetical protein; Validated	98.37
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	98.36
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	98.36
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	98.36
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	98.35
PRK10536	262	hypothetical protein; Provisional	98.35
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	98.34
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	98.34
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	98.3
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	98.28
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	98.26
PRK07471	365	DNA polymerase III subunit delta'; Validated	98.26
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	98.26
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	98.25
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	98.25
PRK05642	234	DNA replication initiation factor; Validated	98.25
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	98.25
PRK09112	351	DNA polymerase III subunit delta'; Validated	98.24
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	98.24
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	98.24
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	98.23
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	98.23
PRK06526	254	transposase; Provisional	98.22
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	98.22
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	98.22
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	98.19
PRK08903	227	DnaA regulatory inactivator Hda; Validated	98.19
CHL00181	287	cbbX CbbX; Provisional	98.18
PRK12608	380	transcription termination factor Rho; Provisional	98.18
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	98.17
COG1484	254	DnaC DNA replication protein [DNA replication, rec	98.16
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	98.15
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	98.15
PRK09087	226	hypothetical protein; Validated	98.15
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	98.14
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	98.13
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	98.12
PRK06835	329	DNA replication protein DnaC; Validated	98.12
TIGR02237	209	recomb_radB DNA repair and recombination protein R	98.1
PRK09183	259	transposase/IS protein; Provisional	98.09
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	98.08
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	98.08
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	98.08
PHA00729	226	NTP-binding motif containing protein	98.06
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	98.05
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	98.05
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	98.05
PRK14087	450	dnaA chromosomal replication initiation protein; P	98.04
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	98.04
PRK08118	167	topology modulation protein; Reviewed	98.03
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	98.02
PRK10865	857	protein disaggregation chaperone; Provisional	98.02
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	98.02
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	98.02
PRK04296	190	thymidine kinase; Provisional	98.01
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	98.01
PRK14088	440	dnaA chromosomal replication initiation protein; P	98.0
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	98.0
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	98.0
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	97.99
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	97.99
CHL00176	638	ftsH cell division protein; Validated	97.99
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.99
PRK06921	266	hypothetical protein; Provisional	97.98
CHL00095	821	clpC Clp protease ATP binding subunit	97.98
PRK07952	244	DNA replication protein DnaC; Validated	97.97
PRK07261	171	topology modulation protein; Provisional	97.96
PRK08058	329	DNA polymerase III subunit delta'; Validated	97.96
PRK12377	248	putative replication protein; Provisional	97.95
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	97.94
PRK00149	450	dnaA chromosomal replication initiation protein; R	97.93
COG3903	414	Predicted ATPase [General function prediction only	97.93
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	97.92
PRK08939	306	primosomal protein DnaI; Reviewed	97.92
cd00983	325	recA RecA is a bacterial enzyme which has roles in	97.91
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	97.9
KOG1969	877	consensus DNA replication checkpoint protein CHL12	97.89
PHA02244	383	ATPase-like protein	97.89
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	97.89
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	97.88
PRK09354	349	recA recombinase A; Provisional	97.88
PF14516	331	AAA_35: AAA-like domain	97.88
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	97.87
KOG1514	767	consensus Origin recognition complex, subunit 1, a	97.87
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	97.87
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	97.84
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.82
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	97.82
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.81
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	97.81
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	97.81
CHL00195	489	ycf46 Ycf46; Provisional	97.8
PRK14086	617	dnaA chromosomal replication initiation protein; P	97.8
PRK07399	314	DNA polymerase III subunit delta'; Validated	97.79
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	97.79
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	97.76
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	97.76
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.76
cd01394	218	radB RadB. The archaeal protein radB shares simila	97.75
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	97.74
COG0593	408	DnaA ATPase involved in DNA replication initiation	97.74
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	97.74
PRK12422	445	chromosomal replication initiation protein; Provis	97.73
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	97.73
PRK06696	223	uridine kinase; Validated	97.72
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	97.72
cd03115	173	SRP The signal recognition particle (SRP) mediates	97.72
PRK08533	230	flagellar accessory protein FlaH; Reviewed	97.72
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	97.71
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.71
TIGR02236	310	recomb_radA DNA repair and recombination protein R	97.71
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	97.71
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	97.7
PRK04301	317	radA DNA repair and recombination protein RadA; Va	97.7
PRK04328	249	hypothetical protein; Provisional	97.7
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	97.69
PF00154	322	RecA: recA bacterial DNA recombination protein; In	97.68
PRK05707	328	DNA polymerase III subunit delta'; Validated	97.67
PRK06067	234	flagellar accessory protein FlaH; Validated	97.67
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	97.66
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	97.65
PTZ00035	337	Rad51 protein; Provisional	97.64
PRK00771	437	signal recognition particle protein Srp54; Provisi	97.62
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	97.62
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	97.62
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	97.61
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	97.6
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	97.6
PRK05541	176	adenylylsulfate kinase; Provisional	97.6
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	97.6
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	97.59
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	97.59
KOG0736	953	consensus Peroxisome assembly factor 2 containing	97.58
PRK13531	498	regulatory ATPase RavA; Provisional	97.56
PRK08233	182	hypothetical protein; Provisional	97.56
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	97.54
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	97.54
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	97.53
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	97.53
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	97.53
COG2884	223	FtsE Predicted ATPase involved in cell division [C	97.53
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	97.53
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	97.52
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	97.52
TIGR00959	428	ffh signal recognition particle protein. This mode	97.51
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	97.5
PRK14974	336	cell division protein FtsY; Provisional	97.49
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	97.48
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	97.48
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	97.47
PRK10867	433	signal recognition particle protein; Provisional	97.47
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	97.47
PRK11823	446	DNA repair protein RadA; Provisional	97.47
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.46
PRK06871	325	DNA polymerase III subunit delta'; Validated	97.46
PRK08769	319	DNA polymerase III subunit delta'; Validated	97.45
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	97.45
TIGR00064	272	ftsY signal recognition particle-docking protein F	97.45
PRK06547	172	hypothetical protein; Provisional	97.45
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	97.43
COG3899	849	Predicted ATPase [General function prediction only	97.43
COG1875	436	NYN ribonuclease and ATPase of PhoH family domains	97.42
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	97.42
PRK13765	637	ATP-dependent protease Lon; Provisional	97.42
PRK11608	326	pspF phage shock protein operon transcriptional ac	97.41
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	97.41
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	97.39
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	97.39
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	97.39
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	97.39
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	97.39
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	97.39
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	97.39
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	97.38
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	97.37
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	97.36
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	97.36
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	97.36
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	97.36
PRK09519	790	recA DNA recombination protein RecA; Reviewed	97.36
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	97.36
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	97.35
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	97.35
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	97.34
COG0488	530	Uup ATPase components of ABC transporters with dup	97.34
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	97.34
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	97.34
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	97.33
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	97.33
PRK07667	193	uridine kinase; Provisional	97.33
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	97.33
COG0714	329	MoxR-like ATPases [General function prediction onl	97.33
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	97.32
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	97.32
PRK15455	644	PrkA family serine protein kinase; Provisional	97.32
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	97.31
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	97.31
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	97.31
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	97.3
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	97.3
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	97.3
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	97.3
PF13245	76	AAA_19: Part of AAA domain	97.29
PRK06851	367	hypothetical protein; Provisional	97.29
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	97.29
PRK14531	183	adenylate kinase; Provisional	97.28
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	97.28
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	97.28
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	97.27
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	97.26
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	97.26
PRK06762	166	hypothetical protein; Provisional	97.26
PF05970	364	PIF1: PIF1-like helicase; InterPro: IPR010285 This	97.25
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	97.25
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	97.24
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	97.24
PRK07993	334	DNA polymerase III subunit delta'; Validated	97.23
PRK05022	509	anaerobic nitric oxide reductase transcription reg	97.23
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	97.23
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	97.23
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	97.23
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	97.23
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	97.22
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	97.22
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	97.22
PTZ00301	210	uridine kinase; Provisional	97.22
PRK05480	209	uridine/cytidine kinase; Provisional	97.21
PRK05917	290	DNA polymerase III subunit delta'; Validated	97.2
PRK06090	319	DNA polymerase III subunit delta'; Validated	97.2
PRK06964	342	DNA polymerase III subunit delta'; Validated	97.19
PRK03839	180	putative kinase; Provisional	97.18
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	97.18
cd03216	163	ABC_Carb_Monos_I This family represents the domain	97.17
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	97.17
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	97.17
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	97.17
cd03287	222	ABC_MSH3_euk MutS3 homolog in eukaryotes. The MutS	97.16
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	97.16
KOG0726	440	consensus 26S proteasome regulatory complex, ATPas	97.15
KOG0651	388	consensus 26S proteasome regulatory complex, ATPas	97.15
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	97.15
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	97.15
TIGR00235	207	udk uridine kinase. Model contains a number of lon	97.15
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	97.14
) 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	97.14
cd03283	199	ABC_MutS-like MutS-like homolog in eukaryotes. The	97.14
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	97.14
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	97.14
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	97.13
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	97.12
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	97.12
PRK08699	325	DNA polymerase III subunit delta'; Validated	97.11
PLN02200	234	adenylate kinase family protein	97.11
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	97.11
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	97.11
PTZ00088	229	adenylate kinase 1; Provisional	97.11
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	97.11
PRK00279	215	adk adenylate kinase; Reviewed	97.1
PRK14529	223	adenylate kinase; Provisional	97.1
PRK04040	188	adenylate kinase; Provisional	97.09
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	97.09
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	97.09
PRK09435	332	membrane ATPase/protein kinase; Provisional	97.08
PRK05439	311	pantothenate kinase; Provisional	97.08
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	97.08
PTZ00494	664	tuzin-like protein; Provisional	97.08
cd03246	173	ABCC_Protease_Secretion This family represents the	97.07
PRK01184	184	hypothetical protein; Provisional	97.07
PRK13768	253	GTPase; Provisional	97.07
PRK00131	175	aroK shikimate kinase; Reviewed	97.07
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	97.06
cd03243	202	ABC_MutS_homologs The MutS protein initiates DNA m	97.06
cd01135	276	V_A-ATPase_B V/A-type ATP synthase (non-catalytic)	97.04
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	97.04
PRK09302	509	circadian clock protein KaiC; Reviewed	97.04
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	97.04
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	97.03
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	97.03
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	97.02
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	97.02
PRK00889	175	adenylylsulfate kinase; Provisional	97.02
PRK00625	173	shikimate kinase; Provisional	97.02
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	97.01
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	96.99
PHA02774	613	E1; Provisional	96.99
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	96.99
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	96.97
smart00534	185	MUTSac ATPase domain of DNA mismatch repair MUTS f	96.97
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	96.97
TIGR01287	275	nifH nitrogenase iron protein. This model describe	96.96
cd00046	144	DEXDc DEAD-like helicases superfamily. A diverse f	96.96
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	96.95
PF07726	131	AAA_3: ATPase family associated with various cellu	96.95
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	96.95
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	96.94
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	96.93
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	96.93
PRK06217	183	hypothetical protein; Validated	96.93
PRK10875	615	recD exonuclease V subunit alpha; Provisional	96.93
PRK12597	461	F0F1 ATP synthase subunit beta; Provisional	96.92
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	96.92
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	96.92
PF02374	305	ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_	96.91
PRK14527	191	adenylate kinase; Provisional	96.91
TIGR03880	224	KaiC_arch_3 KaiC domain protein, AF_0351 family. T	96.91
TIGR03305	449	alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit	96.9
PRK13947	171	shikimate kinase; Provisional	96.9
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	96.9
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	96.9
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	96.9
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	96.89
KOG0927	614	consensus Predicted transporter (ABC superfamily)	96.89
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	96.88
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	96.88
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	96.88
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	96.88
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	96.88
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	96.88
PRK10416	318	signal recognition particle-docking protein FtsY;	96.87
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	96.86
PLN02165	334	adenylate isopentenyltransferase	96.86
TIGR00041	195	DTMP_kinase thymidylate kinase. Function: phosphor	96.86
PRK14530	215	adenylate kinase; Provisional	96.86
COG0003	322	ArsA Predicted ATPase involved in chromosome parti	96.86
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	96.85
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	96.84
PRK06620	214	hypothetical protein; Validated	96.84
PRK09280	463	F0F1 ATP synthase subunit beta; Validated	96.83
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	96.82
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	96.82
PRK05748	448	replicative DNA helicase; Provisional	96.82
PRK05986	191	cob(I)alamin adenolsyltransferase/cobinamide ATP-d	96.82
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	96.82
cd02040	270	NifH NifH gene encodes component II (iron protein)	96.81
PRK13949	169	shikimate kinase; Provisional	96.81
PLN02924	220	thymidylate kinase	96.81
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	96.81
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	96.8
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	96.8
cd02034	116	CooC The accessory protein CooC, which contains a	96.8
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	96.78
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	96.78
TIGR01448	720	recD_rel helicase, putative, RecD/TraA family. Thi	96.77
PRK03846	198	adenylylsulfate kinase; Provisional	96.77
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	96.77
PRK13230	279	nitrogenase reductase-like protein; Reviewed	96.76
PRK13975	196	thymidylate kinase; Provisional	96.76
PRK00300	205	gmk guanylate kinase; Provisional	96.75
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	96.75
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	96.75
PRK12678	672	transcription termination factor Rho; Provisional	96.75
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	96.75
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	96.75
PRK05973	237	replicative DNA helicase; Provisional	96.73
COG0541	451	Ffh Signal recognition particle GTPase [Intracellu	96.73
cd02117	212	NifH_like This family contains the NifH (iron prot	96.73
PRK08972	444	fliI flagellum-specific ATP synthase; Validated	96.73
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	96.73
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	96.73
PRK08927	442	fliI flagellum-specific ATP synthase; Validated	96.73
TIGR01967	1283	DEAH_box_HrpA ATP-dependent helicase HrpA. This mo	96.72
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	96.72
cd03284	216	ABC_MutS1 MutS1 homolog in eukaryotes. The MutS pr	96.71
TIGR01039	461	atpD ATP synthase, F1 beta subunit. The sequences	96.71
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	96.71
PRK06002	450	fliI flagellum-specific ATP synthase; Validated	96.71
PRK12339	197	2-phosphoglycerate kinase; Provisional	96.7
TIGR00665	434	DnaB replicative DNA helicase. This model describe	96.7
TIGR02788	308	VirB11 P-type DNA transfer ATPase VirB11. The VirB	96.69
PRK14737	186	gmk guanylate kinase; Provisional	96.68
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	96.68
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	96.66
PRK14532	188	adenylate kinase; Provisional	96.66
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	96.65
PRK09302	509	circadian clock protein KaiC; Reviewed	96.65
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	96.65
PRK05922	434	type III secretion system ATPase; Validated	96.64
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	96.64
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	96.64
cd03280	200	ABC_MutS2 MutS2 homologs in bacteria and eukaryote	96.63
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	96.63
PRK00698	205	tmk thymidylate kinase; Validated	96.63
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	96.62
cd01132	274	F1_ATPase_alpha F1 ATP synthase alpha, central dom	96.62
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	96.62
PRK08149	428	ATP synthase SpaL; Validated	96.61
PF06414	199	Zeta_toxin: Zeta toxin; InterPro: IPR010488 This e	96.61
PRK05057	172	aroK shikimate kinase I; Reviewed	96.6
cd02029	277	PRK_like Phosphoribulokinase-like (PRK-like) is a	96.6
TIGR02524	358	dot_icm_DotB Dot/Icm secretion system ATPase DotB.	96.6
TIGR03498	418	FliI_clade3 flagellar protein export ATPase FliI.	96.6
PRK13946	184	shikimate kinase; Provisional	96.6
TIGR01447	586	recD exodeoxyribonuclease V, alpha subunit. This f	96.6
PRK13948	182	shikimate kinase; Provisional	96.59
COG3598	402	RepA RecA-family ATPase [DNA replication, recombin	96.59
cd03282	204	ABC_MSH4_euk MutS4 homolog in eukaryotes. The MutS	96.59
PF09848	352	DUF2075: Uncharacterized conserved protein (DUF207	96.58
PRK13236	296	nitrogenase reductase; Reviewed	96.57
cd03114	148	ArgK-like The function of this protein family is u	96.57
cd02032	267	Bchl_like This family of proteins contains bchL an	96.57
PRK06936	439	type III secretion system ATPase; Provisional	96.56
cd01134	369	V_A-ATPase_A V/A-type ATP synthase catalytic subun	96.56
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	96.56
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	96.56
PF02463	220	SMC_N: RecF/RecN/SMC N terminal domain; InterPro:	96.56
COG0396	251	sufC Cysteine desulfurase activator ATPase [Posttr	96.55
COG4778	235	PhnL ABC-type phosphonate transport system, ATPase	96.55
COG2842	297	Uncharacterized ATPase, putative transposase [Gene	96.54
PRK13833	323	conjugal transfer protein TrbB; Provisional	96.54
TIGR02688	449	conserved hypothetical protein TIGR02688. Members	96.53
PF00142	273	Fer4_NifH: 4Fe-4S iron sulfur cluster binding prot	96.53
PRK14738	206	gmk guanylate kinase; Provisional	96.52
PRK05537	568	bifunctional sulfate adenylyltransferase subunit 1	96.52
PLN02674	244	adenylate kinase	96.51
PRK08760	476	replicative DNA helicase; Provisional	96.51
PLN02459	261	probable adenylate kinase	96.51
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	96.5
PRK04132	846	replication factor C small subunit; Provisional	96.5
cd01136	326	ATPase_flagellum-secretory_path_III Flagellum-spec	96.5
TIGR01281	268	DPOR_bchL light-independent protochlorophyllide re	96.49
PHA02530	300	pseT polynucleotide kinase; Provisional	96.49
PRK03731	171	aroL shikimate kinase II; Reviewed	96.48

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=99.97  E-value=5.5e-30  Score=239.51  Aligned_cols=150  Identities=34%  Similarity=0.540  Sum_probs=135.7

Q ss_pred             ccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhc-ccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCC
Q 037337           97 ESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAK-NHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFR  175 (247)
Q Consensus        97 ~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~-~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~  175 (247)
                      +|.+..++.+.+.|.+++..+++|+||||+||||||++++++.. ...+|+.++||.+|++++...++.+|+..++....
T Consensus       161 VG~e~~~~kl~~~L~~d~~~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~f~~~~iq~~Il~~l~~~~~  240 (889)
T KOG4658|consen  161 VGLETMLEKLWNRLMEDDVGIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKEFTTRKIQQTILERLGLLDE  240 (889)
T ss_pred             ccHHHHHHHHHHHhccCCCCEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEEEcccccHHhHHHHHHHHhccCCc
Confidence            99999999999999988779999999999999999999999988 88899999999999999999999999999987544


Q ss_pred             CC---ChHHHHHHHHHHHcCCCcEEEEEeCCCCccchhhhcccCCCCCCCeEEEEeeCchhhhhccCCCccceeC
Q 037337          176 EE---SESGRARSLFSRLNREKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTARSLDVLSRKMDSQQNFLV  247 (247)
Q Consensus       176 ~~---~~~~~~~~l~~~l~~~kr~LlvlDdv~~~~~~~~l~~~~~~~~~~s~iiiTtR~~~va~~~~~~~~~~~~  247 (247)
                      ..   ........+.+.|.. +|++|||||||+..+|+.+..++|...+||+|++|||+++|+...|++..++++
T Consensus       241 ~~~~~~~~~~~~~i~~~L~~-krfllvLDDIW~~~dw~~I~~~~p~~~~g~KvvlTTRs~~V~~~~m~~~~~~~v  314 (889)
T KOG4658|consen  241 EWEDKEEDELASKLLNLLEG-KRFLLVLDDIWEEVDWDKIGVPFPSRENGSKVVLTTRSEEVCGRAMGVDYPIEV  314 (889)
T ss_pred             ccchhhHHHHHHHHHHHhcc-CceEEEEecccccccHHhcCCCCCCccCCeEEEEEeccHhhhhccccCCccccc
Confidence            33   335677788888887 789999999999999999999999999999999999999999876888777654

>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=99.94  E-value=3.6e-26  Score=191.52  Aligned_cols=147  Identities=27%  Similarity=0.438  Sum_probs=116.2

Q ss_pred             chHHHHHHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCC--
Q 037337           99 RMSTLNDILGALRN--PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTF--  174 (247)
Q Consensus        99 R~~~~~~L~~~L~~--~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~--  174 (247)
                      |+.++++|.++|.+  ++.++|+|+|+||+||||||..++++...+.+|++++|++++...+...++..|+..++...  
T Consensus         1 re~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~~   80 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEPDSS   80 (287)
T ss_dssp             -HHHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC-ST
T ss_pred             CHHHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeecccccccccccccccccccccccccccccccccccccccccc
Confidence            78999999999987  67899999999999999999999999666677999999999999999999999999998773  


Q ss_pred             --CCCChHHHHHHHHHHHcCCCcEEEEEeCCCCccchhhhcccCCCCCCCeEEEEeeCchhhhhccCCCcccee
Q 037337          175 --REESESGRARSLFSRLNREKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTARSLDVLSRKMDSQQNFL  246 (247)
Q Consensus       175 --~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~~~~~~l~~~~~~~~~~s~iiiTtR~~~va~~~~~~~~~~~  246 (247)
                        ...+.......+.+.|.+ +++||||||+|+...|+.+...++....|++||+|||+.+++....+....|+
T Consensus        81 ~~~~~~~~~~~~~l~~~L~~-~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~~~~~~  153 (287)
T PF00931_consen   81 ISDPKDIEELQDQLRELLKD-KRCLLVLDDVWDEEDLEELREPLPSFSSGSKILVTTRDRSVAGSLGGTDKVIE  153 (287)
T ss_dssp             SSCCSSHHHHHHHHHHHHCC-TSEEEEEEEE-SHHHH-------HCHHSS-EEEEEESCGGGGTTHHSCEEEEE
T ss_pred             cccccccccccccchhhhcc-ccceeeeeeeccccccccccccccccccccccccccccccccccccccccccc
Confidence              334667788899999988 48999999999999998887777777789999999999999864333344443

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=99.83  E-value=4e-19  Score=173.28  Aligned_cols=149  Identities=17%  Similarity=0.265  Sum_probs=106.8

Q ss_pred             CCcccccchHHHHHHHHHhc--CCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEe---CCC----------
Q 037337           92 GYEAFESRMSTLNDILGALR--NPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEM---SQS----------  156 (247)
Q Consensus        92 ~~~~~~gR~~~~~~L~~~L~--~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~---~~~----------  156 (247)
                      ...+++||+..++++..+|.  .++.++++||||||+||||||+.+|++...+  |++.+|+..   +..          
T Consensus       182 ~~~~~vG~~~~l~~l~~lL~l~~~~~~vvgI~G~gGiGKTTLA~~l~~~l~~~--F~g~vfv~~~~v~~~~~~~~~~~~~  259 (1153)
T PLN03210        182 DFEDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFSRLSRQ--FQSSVFIDRAFISKSMEIYSSANPD  259 (1153)
T ss_pred             ccccccchHHHHHHHHHHHccccCceEEEEEEcCCCCchHHHHHHHHHHHhhc--CCeEEEeeccccccchhhccccccc
Confidence            45679999999999998875  4468999999999999999999999988765  888877642   111          


Q ss_pred             -CC-HHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCccchhhhcccCCCCCCCeEEEEeeCchhh
Q 037337          157 -PD-IRKVQGEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTARSLDV  234 (247)
Q Consensus       157 -~~-~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~~~~~~l~~~~~~~~~~s~iiiTtR~~~v  234 (247)
                       .+ ...+..+++..+-.......  .....+++.|.+ +|+||||||+|+..+|+.+.....+.++||+||||||+..+
T Consensus       260 ~~~~~~~l~~~~l~~il~~~~~~~--~~~~~~~~~L~~-krvLLVLDdv~~~~~l~~L~~~~~~~~~GsrIIiTTrd~~v  336 (1153)
T PLN03210        260 DYNMKLHLQRAFLSEILDKKDIKI--YHLGAMEERLKH-RKVLIFIDDLDDQDVLDALAGQTQWFGSGSRIIVITKDKHF  336 (1153)
T ss_pred             ccchhHHHHHHHHHHHhCCCCccc--CCHHHHHHHHhC-CeEEEEEeCCCCHHHHHHHHhhCccCCCCcEEEEEeCcHHH
Confidence             00 12333444444322111100  012456677776 68999999999998898886655566789999999999999


Q ss_pred             hhccCCCcccee
Q 037337          235 LSRKMDSQQNFL  246 (247)
Q Consensus       235 a~~~~~~~~~~~  246 (247)
                      +. .++..+.|+
T Consensus       337 l~-~~~~~~~~~  347 (1153)
T PLN03210        337 LR-AHGIDHIYE  347 (1153)
T ss_pred             HH-hcCCCeEEE
Confidence            86 355656554

syringae 6; Provisional

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.39  E-value=1.2e-11  Score=108.16  Aligned_cols=115  Identities=21%  Similarity=0.131  Sum_probs=88.7

Q ss_pred             CCcccccchHHHHHHHHHhc----CCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHH
Q 037337           92 GYEAFESRMSTLNDILGALR----NPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIA  167 (247)
Q Consensus        92 ~~~~~~gR~~~~~~L~~~L~----~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~  167 (247)
                      .|..++||+++++.|...+.    ......+.|+|++|+|||++++.+++........-.++|+++....+...++..++
T Consensus        28 ~P~~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~~~~~~i~  107 (394)
T PRK00411         28 VPENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRYAIFSEIA  107 (394)
T ss_pred             cCCCCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHHHHHHHHH
Confidence            56779999999999988873    33456788999999999999999999886653223578888888888889999999


Q ss_pred             HHhCC-CC--CCCChHHHHHHHHHHHcC-CCcEEEEEeCCCCc
Q 037337          168 DKLGL-TF--REESESGRARSLFSRLNR-EKRILVILDNIWEH  206 (247)
Q Consensus       168 ~~l~~-~~--~~~~~~~~~~~l~~~l~~-~kr~LlvlDdv~~~  206 (247)
                      .++.. ..  ...+..+....+.+.+.. ++..+||||+++..
T Consensus       108 ~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l  150 (394)
T PRK00411        108 RQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYL  150 (394)
T ss_pred             HHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHh
Confidence            99864 22  223456667777777753 35688999999875

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.34  E-value=4.9e-11  Score=103.33  Aligned_cols=116  Identities=25%  Similarity=0.278  Sum_probs=86.7

Q ss_pred             CCCcccccchHHHHHHHHHhc----CCCccEEEEEcCCCCcHHHHHHHHHHHhcccC-C--C-CEEEEEEeCCCCCHHHH
Q 037337           91 KGYEAFESRMSTLNDILGALR----NPDISMLGICGMGGIGKTMLEKEVARKAKNHK-L--F-DLVVFSEMSQSPDIRKV  162 (247)
Q Consensus        91 ~~~~~~~gR~~~~~~L~~~L~----~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~-~--f-~~~~wv~~~~~~~~~~l  162 (247)
                      ..|..++||+++++.|..++.    +.....+.|+|++|+|||++++.+++.+.... .  . -..+|+++....+...+
T Consensus        12 ~~p~~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~~   91 (365)
T TIGR02928        12 YVPDRIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQV   91 (365)
T ss_pred             CCCCCCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHHH
Confidence            345689999999999998875    33456899999999999999999999865321 0  1 24688999888888899


Q ss_pred             HHHHHHHh---CCCCC--CCChHHHHHHHHHHHc-CCCcEEEEEeCCCCc
Q 037337          163 QGEIADKL---GLTFR--EESESGRARSLFSRLN-REKRILVILDNIWEH  206 (247)
Q Consensus       163 ~~~i~~~l---~~~~~--~~~~~~~~~~l~~~l~-~~kr~LlvlDdv~~~  206 (247)
                      +..|+.++   +...+  ..+..+....+.+.+. .+++++||||+++..
T Consensus        92 ~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L  141 (365)
T TIGR02928        92 LVELANQLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYL  141 (365)
T ss_pred             HHHHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhh
Confidence            99999988   33222  2244555666777664 345689999999977

Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.

>PF05729 NACHT: NACHT domain

Probab=99.27  E-value=3e-11  Score=92.53  Aligned_cols=114  Identities=24%  Similarity=0.293  Sum_probs=71.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCC----CCEEEEEEeCCCCCHH---HHHHHHHHHhCCCCCCCChHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKL----FDLVVFSEMSQSPDIR---KVQGEIADKLGLTFREESESGRARSLFS  188 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~----f~~~~wv~~~~~~~~~---~l~~~i~~~l~~~~~~~~~~~~~~~l~~  188 (247)
                      +++.|+|.+|+||||+++.++..+.....    +...+|++.+......   .+...|..........     ....+..
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~-----~~~~~~~   75 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESIAP-----IEELLQE   75 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccchhh-----hHHHHHH
Confidence            57899999999999999999999876543    3456677666544332   3444444444322111     1113333


Q ss_pred             HHcCCCcEEEEEeCCCCccc---------hhh-hcccCCC-CCCCeEEEEeeCchhh
Q 037337          189 RLNREKRILVILDNIWEHLD---------LQV-VGIPHGD-DHKGCKVLFTARSLDV  234 (247)
Q Consensus       189 ~l~~~kr~LlvlDdv~~~~~---------~~~-l~~~~~~-~~~~s~iiiTtR~~~v  234 (247)
                      .+...++++||||+++....         +.. +...+.. ..+++++++|+|....
T Consensus        76 ~~~~~~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~  132 (166)
T PF05729_consen   76 LLEKNKRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAF  132 (166)
T ss_pred             HHHcCCceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChH
Confidence            44455789999999987633         111 2112222 3568999999998877

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

Probab=99.23  E-value=4.7e-11  Score=88.13  Aligned_cols=115  Identities=24%  Similarity=0.326  Sum_probs=83.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhccc---CCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCC-CChHHHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNH---KLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFRE-ESESGRARSLFSRL  190 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~---~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~-~~~~~~~~~l~~~l  190 (247)
                      .+.+.|+|++|+|||+++..+++.....   ..-..++|+++....+...+...|+..++..... .+..+..+.+.+.+
T Consensus         4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~l~~~~~~~l   83 (131)
T PF13401_consen    4 QRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKSRQTSDELRSLLIDAL   83 (131)
T ss_dssp             ---EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSSTS-HHHHHHHHHHHH
T ss_pred             CcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccccCCHHHHHHHHHHHH
Confidence            4789999999999999999999987531   0123477999998889999999999999987766 56777778888888


Q ss_pred             cCCCcEEEEEeCCCCc-c--chhhhcccCCCCCCCeEEEEeeCc
Q 037337          191 NREKRILVILDNIWEH-L--DLQVVGIPHGDDHKGCKVLFTARS  231 (247)
Q Consensus       191 ~~~kr~LlvlDdv~~~-~--~~~~l~~~~~~~~~~s~iiiTtR~  231 (247)
                      ...+..+||+||++.. .  .++.+....  ...+.++|+..+.
T Consensus        84 ~~~~~~~lviDe~~~l~~~~~l~~l~~l~--~~~~~~vvl~G~~  125 (131)
T PF13401_consen   84 DRRRVVLLVIDEADHLFSDEFLEFLRSLL--NESNIKVVLVGTP  125 (131)
T ss_dssp             HHCTEEEEEEETTHHHHTHHHHHHHHHHT--CSCBEEEEEEESS
T ss_pred             HhcCCeEEEEeChHhcCCHHHHHHHHHHH--hCCCCeEEEEECh
Confidence            7756579999999875 2  233332222  2677888888776

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

Probab=99.19  E-value=5.1e-10  Score=96.40  Aligned_cols=117  Identities=25%  Similarity=0.265  Sum_probs=93.1

Q ss_pred             CCcccccchHHHHHHHHHhc----CCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHH
Q 037337           92 GYEAFESRMSTLNDILGALR----NPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIA  167 (247)
Q Consensus        92 ~~~~~~gR~~~~~~L~~~L~----~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~  167 (247)
                      -|..+.+|++++.++...|.    +..+.-+.|+|++|+|||+.++.+++.++....-..++||+|....+..+++..|+
T Consensus        15 iP~~l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~i~   94 (366)
T COG1474          15 IPEELPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKIL   94 (366)
T ss_pred             CcccccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHHHHH
Confidence            34558999999999887764    34455599999999999999999999987753222389999999999999999999


Q ss_pred             HHhCC-CCCCCChHHHHHHHHHHHcC-CCcEEEEEeCCCCccc
Q 037337          168 DKLGL-TFREESESGRARSLFSRLNR-EKRILVILDNIWEHLD  208 (247)
Q Consensus       168 ~~l~~-~~~~~~~~~~~~~l~~~l~~-~kr~LlvlDdv~~~~~  208 (247)
                      +.++. +....+..+....+.+.+.. ++.+++|||+++....
T Consensus        95 ~~~~~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~  137 (366)
T COG1474          95 NKLGKVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVD  137 (366)
T ss_pred             HHcCCCCCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhcc
Confidence            99963 33346677778888888843 5678888999987643

>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=99.14  E-value=8.8e-10  Score=82.12  Aligned_cols=123  Identities=20%  Similarity=0.135  Sum_probs=74.9

Q ss_pred             ccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCC
Q 037337           97 ESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFRE  176 (247)
Q Consensus        97 ~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~  176 (247)
                      .|++..+..+...+.......+.|+|++|+|||++++.+++.....  ...++++++............+...       
T Consensus         1 ~~~~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l~~~i~~~~~~~--~~~v~~~~~~~~~~~~~~~~~~~~~-------   71 (151)
T cd00009           1 VGQEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELFRP--GAPFLYLNASDLLEGLVVAELFGHF-------   71 (151)
T ss_pred             CchHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHhhcC--CCCeEEEehhhhhhhhHHHHHhhhh-------
Confidence            3788899999998887667889999999999999999999988532  2346677665544322221111100       


Q ss_pred             CChHHHHHHHHHHHcCCCcEEEEEeCCCCc-----cchhhhcccCCC---CCCCeEEEEeeCchh
Q 037337          177 ESESGRARSLFSRLNREKRILVILDNIWEH-----LDLQVVGIPHGD---DHKGCKVLFTARSLD  233 (247)
Q Consensus       177 ~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~-----~~~~~l~~~~~~---~~~~s~iiiTtR~~~  233 (247)
                           ............+..+|++||++..     ..+......+..   ...++++|+||....
T Consensus        72 -----~~~~~~~~~~~~~~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~~  131 (151)
T cd00009          72 -----LVRLLFELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRPL  131 (151)
T ss_pred             -----hHhHHHHhhccCCCeEEEEeChhhhhHHHHHHHHHHHHhcCceeccCCCeEEEEecCccc
Confidence                 0001111112235689999999964     112222122211   136788988888654

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.

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

Probab=99.12  E-value=3.6e-09  Score=87.75  Aligned_cols=91  Identities=19%  Similarity=0.258  Sum_probs=63.9

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHH---
Q 037337          113 PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSR---  189 (247)
Q Consensus       113 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~---  189 (247)
                      .+...++|+|++|+|||||++.+++...... + ...|+ +....+..+++..|+..++.+....+.......+.+.   
T Consensus        41 ~~~~~~~l~G~~G~GKTtl~~~l~~~l~~~~-~-~~~~~-~~~~~~~~~~l~~i~~~lG~~~~~~~~~~~~~~l~~~l~~  117 (269)
T TIGR03015        41 QREGFILITGEVGAGKTTLIRNLLKRLDQER-V-VAAKL-VNTRVDAEDLLRMVAADFGLETEGRDKAALLRELEDFLIE  117 (269)
T ss_pred             cCCCEEEEEcCCCCCHHHHHHHHHHhcCCCC-e-EEeee-eCCCCCHHHHHHHHHHHcCCCCCCCCHHHHHHHHHHHHHH
Confidence            3456899999999999999999998876331 1 22233 3344577889999999998765554444444444433   


Q ss_pred             -HcCCCcEEEEEeCCCCc
Q 037337          190 -LNREKRILVILDNIWEH  206 (247)
Q Consensus       190 -l~~~kr~LlvlDdv~~~  206 (247)
                       +..+++.+||+||++..
T Consensus       118 ~~~~~~~~vliiDe~~~l  135 (269)
T TIGR03015       118 QFAAGKRALLVVDEAQNL  135 (269)
T ss_pred             HHhCCCCeEEEEECcccC
Confidence             33456799999999986

Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.

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

Probab=99.08  E-value=1.2e-10  Score=94.05  Aligned_cols=139  Identities=17%  Similarity=0.284  Sum_probs=76.4

Q ss_pred             cccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHH---------H
Q 037337           96 FESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGE---------I  166 (247)
Q Consensus        96 ~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~---------i  166 (247)
                      |+||+++++.|.+++..+....+.|+|+.|+|||+|++.+.+..+... + .++|+......+...+...         +
T Consensus         1 F~gR~~el~~l~~~l~~~~~~~~~l~G~rg~GKTsLl~~~~~~~~~~~-~-~~~y~~~~~~~~~~~~~~~~~~~~~~~~l   78 (234)
T PF01637_consen    1 FFGREKELEKLKELLESGPSQHILLYGPRGSGKTSLLKEFINELKEKG-Y-KVVYIDFLEESNESSLRSFIEETSLADEL   78 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH--SSEEEEEESTTSSHHHHHHHHHHHCT--E-E-CCCHHCCTTBSHHHHHHHHHHHHHHHCHC
T ss_pred             CCCHHHHHHHHHHHHHhhcCcEEEEEcCCcCCHHHHHHHHHHHhhhcC-C-cEEEEecccchhhhHHHHHHHHHHHHHHH
Confidence            789999999999999876678999999999999999999999885431 1 3445554444332221111         1


Q ss_pred             HHHhCC---CC--------CCCChHHHHHHHHHHHc-CCCcEEEEEeCCCCcc-ch-------hhhcccCC--CCCCCeE
Q 037337          167 ADKLGL---TF--------REESESGRARSLFSRLN-REKRILVILDNIWEHL-DL-------QVVGIPHG--DDHKGCK  224 (247)
Q Consensus       167 ~~~l~~---~~--------~~~~~~~~~~~l~~~l~-~~kr~LlvlDdv~~~~-~~-------~~l~~~~~--~~~~~s~  224 (247)
                      ...+..   ..        ...........+.+.+. .+++++||+||++... ..       ..+...+.  .......
T Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~  158 (234)
T PF01637_consen   79 SEALGISIPSITLEKISKDLSEDSFSALERLLEKLKKKGKKVIIVIDEFQYLAIASEEDKDFLKSLRSLLDSLLSQQNVS  158 (234)
T ss_dssp             HHHHHHHCCTSTTEEEECTS-GG-G--HHHHHHHHHHCHCCEEEEEETGGGGGBCTTTTHHHHHHHHHHHHH----TTEE
T ss_pred             HHHHhhhcccccchhhhhcchhhHHHHHHHHHHHHHhcCCcEEEEEecHHHHhhcccchHHHHHHHHHHHhhccccCCce
Confidence            111211   10        11122344555666663 3345999999998765 11       11211111  1234455


Q ss_pred             EEEeeCchhhhh
Q 037337          225 VLFTARSLDVLS  236 (247)
Q Consensus       225 iiiTtR~~~va~  236 (247)
                      +++++...++..
T Consensus       159 ~v~~~S~~~~~~  170 (234)
T PF01637_consen  159 IVITGSSDSLME  170 (234)
T ss_dssp             EEEEESSHHHHH
T ss_pred             EEEECCchHHHH
Confidence            666666666654

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

>PTZ00202 tuzin; Provisional

Probab=99.06  E-value=2.3e-08  Score=86.52  Aligned_cols=137  Identities=19%  Similarity=0.196  Sum_probs=87.9

Q ss_pred             cccCCCcccccchHHHHHHHHHhcCC---CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHH
Q 037337           88 MSNKGYEAFESRMSTLNDILGALRNP---DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQG  164 (247)
Q Consensus        88 ~~~~~~~~~~gR~~~~~~L~~~L~~~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~  164 (247)
                      ..|+.+..|+||+.++..|...|.+.   ..++++|.|++|+|||||++.+.....    + ...+++..   +..+++.
T Consensus       256 ~lPa~~~~FVGReaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~l~----~-~qL~vNpr---g~eElLr  327 (550)
T PTZ00202        256 SAPAVIRQFVSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRKEG----M-PAVFVDVR---GTEDTLR  327 (550)
T ss_pred             CCCCCccCCCCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhcCC----c-eEEEECCC---CHHHHHH
Confidence            45667889999999999999988632   246899999999999999999996654    1 24444444   6799999


Q ss_pred             HHHHHhCCCCCCCChHHHHHHHHHHH----cC-CCcEEEEEeCCCCccchhhhc---ccCCCCCCCeEEEEeeCchhh
Q 037337          165 EIADKLGLTFREESESGRARSLFSRL----NR-EKRILVILDNIWEHLDLQVVG---IPHGDDHKGCKVLFTARSLDV  234 (247)
Q Consensus       165 ~i~~~l~~~~~~~~~~~~~~~l~~~l----~~-~kr~LlvlDdv~~~~~~~~l~---~~~~~~~~~s~iiiTtR~~~v  234 (247)
                      .++.+||.+.. ....++...+.+.|    .. +++.+||+-=- ....+...+   ..+-+...-|+|++----+++
T Consensus       328 ~LL~ALGV~p~-~~k~dLLrqIqeaLl~~~~e~GrtPVLII~lr-eg~~l~rvyne~v~la~drr~ch~v~evplesl  403 (550)
T PTZ00202        328 SVVKALGVPNV-EACGDLLDFISEACRRAKKMNGETPLLVLKLR-EGSSLQRVYNEVVALACDRRLCHVVIEVPLESL  403 (550)
T ss_pred             HHHHHcCCCCc-ccHHHHHHHHHHHHHHHHHhCCCCEEEEEEec-CCCcHHHHHHHHHHHHccchhheeeeeehHhhc
Confidence            99999997433 33344555555544    22 45666665322 222221110   112233456777776555444

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.00  E-value=5.7e-09  Score=100.54  Aligned_cols=135  Identities=13%  Similarity=0.148  Sum_probs=88.3

Q ss_pred             ccCCCcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeC-CCCCHHHHHHHHH
Q 037337           89 SNKGYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMS-QSPDIRKVQGEIA  167 (247)
Q Consensus        89 ~~~~~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~-~~~~~~~l~~~i~  167 (247)
                      +|..+..++-|...++.|-.   ....+++.|+|++|.||||++..+.+.      ++.++|+++. .+.+...+...++
T Consensus         9 ~p~~~~~~~~R~rl~~~l~~---~~~~~~~~v~apaG~GKTtl~~~~~~~------~~~~~w~~l~~~d~~~~~f~~~l~   79 (903)
T PRK04841          9 RPVRLHNTVVRERLLAKLSG---ANNYRLVLVTSPAGYGKTTLISQWAAG------KNNLGWYSLDESDNQPERFASYLI   79 (903)
T ss_pred             CCCCccccCcchHHHHHHhc---ccCCCeEEEECCCCCCHHHHHHHHHHh------CCCeEEEecCcccCCHHHHHHHHH
Confidence            34456678888877776643   234689999999999999999999853      2258899996 4456667777777


Q ss_pred             HHhCCCCCC--------------CChHHHHHHHHHHHcC-CCcEEEEEeCCCCccc--h-hhhcccCCCCCCCeEEEEee
Q 037337          168 DKLGLTFRE--------------ESESGRARSLFSRLNR-EKRILVILDNIWEHLD--L-QVVGIPHGDDHKGCKVLFTA  229 (247)
Q Consensus       168 ~~l~~~~~~--------------~~~~~~~~~l~~~l~~-~kr~LlvlDdv~~~~~--~-~~l~~~~~~~~~~s~iiiTt  229 (247)
                      ..++.....              .+.......+...+.. +.+++|||||+....+  . +.+...+.....+.++|+||
T Consensus        80 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~lv~~s  159 (903)
T PRK04841         80 AALQQATNGHCSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTLVVLS  159 (903)
T ss_pred             HHHHHhcCcccchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEEEEEe
Confidence            777421111              1222334445555533 4689999999987532  1 22322223346678899999


Q ss_pred             Cch
Q 037337          230 RSL  232 (247)
Q Consensus       230 R~~  232 (247)
                      |..
T Consensus       160 R~~  162 (903)
T PRK04841        160 RNL  162 (903)
T ss_pred             CCC
Confidence            974

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

Probab=98.99  E-value=2.3e-09  Score=83.70  Aligned_cols=60  Identities=20%  Similarity=0.246  Sum_probs=39.2

Q ss_pred             ccccchHHHHHHHHHhc---CCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCC
Q 037337           95 AFESRMSTLNDILGALR---NPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQS  156 (247)
Q Consensus        95 ~~~gR~~~~~~L~~~L~---~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~  156 (247)
                      .|+||+++++.|...+.   ....+.+.|+|++|+|||+|.+.++........+  .+.+.+...
T Consensus         1 ~fvgR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~~~~--~~~~~~~~~   63 (185)
T PF13191_consen    1 QFVGREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRLAERGGY--VISINCDDS   63 (185)
T ss_dssp             --TT-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHHHHHT----EEEEEEETT
T ss_pred             CCCCHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCE--EEEEEEecc
Confidence            48999999999999882   3456899999999999999999999998876333  444444444

>PF13173 AAA_14: AAA domain

Probab=98.97  E-value=1.7e-09  Score=79.66  Aligned_cols=102  Identities=19%  Similarity=0.224  Sum_probs=70.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNREK  194 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  194 (247)
                      .+++.|.|+.|+|||||+++++.+..   ....++|+++...........+                ..+.+.+.... +
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~~---~~~~~~yi~~~~~~~~~~~~~~----------------~~~~~~~~~~~-~   61 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDLL---PPENILYINFDDPRDRRLADPD----------------LLEYFLELIKP-G   61 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhc---ccccceeeccCCHHHHHHhhhh----------------hHHHHHHhhcc-C
Confidence            36899999999999999999998877   1345778876654432110000                12223333223 4


Q ss_pred             cEEEEEeCCCCccchhhhcccCCCCCCCeEEEEeeCchhhhh
Q 037337          195 RILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTARSLDVLS  236 (247)
Q Consensus       195 r~LlvlDdv~~~~~~~~l~~~~~~~~~~s~iiiTtR~~~va~  236 (247)
                      ..+|+||+++...+|......+.+.....+|++|+.+.....
T Consensus        62 ~~~i~iDEiq~~~~~~~~lk~l~d~~~~~~ii~tgS~~~~l~  103 (128)
T PF13173_consen   62 KKYIFIDEIQYLPDWEDALKFLVDNGPNIKIILTGSSSSLLS  103 (128)
T ss_pred             CcEEEEehhhhhccHHHHHHHHHHhccCceEEEEccchHHHh
Confidence            589999999998888776566655556789999999887764

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

Probab=98.90  E-value=4.7e-09  Score=85.79  Aligned_cols=91  Identities=13%  Similarity=0.100  Sum_probs=63.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCC--CCHHHHHHHH-----HHHhCCCCCCC--ChHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQS--PDIRKVQGEI-----ADKLGLTFREE--SESGRARS  185 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~--~~~~~l~~~i-----~~~l~~~~~~~--~~~~~~~~  185 (247)
                      ...++|.|++|+|||||++.+++..... +|+...|+.+..+  .++.+++..+     +..++.+....  ........
T Consensus        16 Gqr~~I~G~~G~GKTTLlr~I~n~l~~~-~fdv~~~v~vI~er~~ev~el~~~I~~~~v~~~~~~~~~~~~~~~~~~~~~   94 (249)
T cd01128          16 GQRGLIVAPPKAGKTTLLQSIANAITKN-HPEVYLIVLLIDERPEEVTDMQRSVKGEVIASTFDEPPERHVQVAEMVLEK   94 (249)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhccccc-cCCeEEEEEEccCCCccHHHHHHHhccEEEEecCCCCHHHHHHHHHHHHHH
Confidence            4678999999999999999999988765 7999999987776  7889999988     33333211000  00111222


Q ss_pred             HHHHHcCCCcEEEEEeCCCCc
Q 037337          186 LFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       186 l~~~l~~~kr~LlvlDdv~~~  206 (247)
                      ...+...+++.+|++|++...
T Consensus        95 a~~~~~~G~~vll~iDei~r~  115 (249)
T cd01128          95 AKRLVEHGKDVVILLDSITRL  115 (249)
T ss_pred             HHHHHHCCCCEEEEEECHHHh
Confidence            323334467899999998754

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.

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=98.88  E-value=1.5e-08  Score=86.70  Aligned_cols=65  Identities=17%  Similarity=0.161  Sum_probs=49.7

Q ss_pred             cCCCcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeC
Q 037337           90 NKGYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMS  154 (247)
Q Consensus        90 ~~~~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~  154 (247)
                      |.....++|++..++.|.+++..+..+.+.++|++|+|||++|+.+++.......-...++++++
T Consensus        11 P~~~~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l~~~~~~~~~~~i~~~   75 (337)
T PRK12402         11 PALLEDILGQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELYGDPWENNFTEFNVA   75 (337)
T ss_pred             CCcHHHhcCCHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhcCcccccceEEechh
Confidence            33456789999999999999887766678999999999999999999987643211224555554

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=98.87  E-value=3.7e-08  Score=91.51  Aligned_cols=114  Identities=18%  Similarity=0.134  Sum_probs=82.2

Q ss_pred             CcccccchHHHHHHHHHhcC----CC-ccEEEEEcCCCCcHHHHHHHHHHHhccc---CCCC--EEEEEEeCCCCCHHHH
Q 037337           93 YEAFESRMSTLNDILGALRN----PD-ISMLGICGMGGIGKTMLEKEVARKAKNH---KLFD--LVVFSEMSQSPDIRKV  162 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L~~----~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~---~~f~--~~~wv~~~~~~~~~~l  162 (247)
                      |..+.||++|++.|...|..    .. ..++.|+|++|+|||++++.+.+.++..   ....  .+++|++....+...+
T Consensus       754 PD~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp~sI  833 (1164)
T PTZ00112        754 PKYLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHPNAA  833 (1164)
T ss_pred             CCcCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCHHHH
Confidence            67799999999999887752    22 3567899999999999999999887432   1122  3788999888888999


Q ss_pred             HHHHHHHhCCCCC--CCChHHHHHHHHHHHcC--CCcEEEEEeCCCCc
Q 037337          163 QGEIADKLGLTFR--EESESGRARSLFSRLNR--EKRILVILDNIWEH  206 (247)
Q Consensus       163 ~~~i~~~l~~~~~--~~~~~~~~~~l~~~l~~--~kr~LlvlDdv~~~  206 (247)
                      +..|..++....+  ..+..+....+++.+..  ....+||||+++..
T Consensus       834 YqvI~qqL~g~~P~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L  881 (1164)
T PTZ00112        834 YQVLYKQLFNKKPPNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYL  881 (1164)
T ss_pred             HHHHHHHHcCCCCCccccHHHHHHHHHhhhhcccccceEEEeehHhhh
Confidence            9999988843222  22334455666666522  22358999999865

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=98.86  E-value=6.8e-08  Score=88.87  Aligned_cols=140  Identities=18%  Similarity=0.167  Sum_probs=96.3

Q ss_pred             cccCCCcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCC-CCHHHHHHHH
Q 037337           88 MSNKGYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQS-PDIRKVQGEI  166 (247)
Q Consensus        88 ~~~~~~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~-~~~~~l~~~i  166 (247)
                      .+|.++...+-|...++.|.+   ..+.+.+.|..|+|.|||||+..++.....   -..+.|.+++.. .+...+++.+
T Consensus        13 ~~P~~~~~~v~R~rL~~~L~~---~~~~RL~li~APAGfGKttl~aq~~~~~~~---~~~v~Wlslde~dndp~rF~~yL   86 (894)
T COG2909          13 VRPVRPDNYVVRPRLLDRLRR---ANDYRLILISAPAGFGKTTLLAQWRELAAD---GAAVAWLSLDESDNDPARFLSYL   86 (894)
T ss_pred             CCCCCcccccccHHHHHHHhc---CCCceEEEEeCCCCCcHHHHHHHHHHhcCc---ccceeEeecCCccCCHHHHHHHH
Confidence            445557778888777766554   236799999999999999999999984333   246899988754 5688888888


Q ss_pred             HHHhCCCCCC--------------CChHHHHHHHHHHHcC-CCcEEEEEeCCCCccc---hhhhcccCCCCCCCeEEEEe
Q 037337          167 ADKLGLTFRE--------------ESESGRARSLFSRLNR-EKRILVILDNIWEHLD---LQVVGIPHGDDHKGCKVLFT  228 (247)
Q Consensus       167 ~~~l~~~~~~--------------~~~~~~~~~l~~~l~~-~kr~LlvlDdv~~~~~---~~~l~~~~~~~~~~s~iiiT  228 (247)
                      +..++...+.              .+.....+.+..-+.+ .+++.+||||..-..+   ...+.-.+...+.+...++|
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            8888743332              1223345555555533 3568999999875532   12232233456779999999


Q ss_pred             eCchh
Q 037337          229 ARSLD  233 (247)
Q Consensus       229 tR~~~  233 (247)
                      ||+..
T Consensus       167 SR~rP  171 (894)
T COG2909         167 SRSRP  171 (894)
T ss_pred             eccCC
Confidence            99864

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

Probab=98.83  E-value=3.1e-08  Score=84.24  Aligned_cols=119  Identities=17%  Similarity=0.233  Sum_probs=74.9

Q ss_pred             ccCCCcccccchHHH---HHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCC-CHHHHHH
Q 037337           89 SNKGYEAFESRMSTL---NDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSP-DIRKVQG  164 (247)
Q Consensus        89 ~~~~~~~~~gR~~~~---~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~l~~  164 (247)
                      .|....+++|.+..+   .-|.+++..+......+|||+|+||||||+.++......  |     ..++... ++.++ +
T Consensus        19 RP~~lde~vGQ~HLlg~~~~lrr~v~~~~l~SmIl~GPPG~GKTTlA~liA~~~~~~--f-----~~~sAv~~gvkdl-r   90 (436)
T COG2256          19 RPKSLDEVVGQEHLLGEGKPLRRAVEAGHLHSMILWGPPGTGKTTLARLIAGTTNAA--F-----EALSAVTSGVKDL-R   90 (436)
T ss_pred             CCCCHHHhcChHhhhCCCchHHHHHhcCCCceeEEECCCCCCHHHHHHHHHHhhCCc--e-----EEeccccccHHHH-H
Confidence            345567788887766   336677777888888899999999999999999876654  3     2222222 22221 1


Q ss_pred             HHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc--cchhhhcccCCCCCCCeEEEE--eeCchhh
Q 037337          165 EIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH--LDLQVVGIPHGDDHKGCKVLF--TARSLDV  234 (247)
Q Consensus       165 ~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~--~~~~~l~~~~~~~~~~s~iii--TtR~~~v  234 (247)
                      .                .++.-.+....+++.+|++|+|...  .+-+.+   +|.-..|.-|+|  ||-|++.
T Consensus        91 ~----------------i~e~a~~~~~~gr~tiLflDEIHRfnK~QQD~l---Lp~vE~G~iilIGATTENPsF  145 (436)
T COG2256          91 E----------------IIEEARKNRLLGRRTILFLDEIHRFNKAQQDAL---LPHVENGTIILIGATTENPSF  145 (436)
T ss_pred             H----------------HHHHHHHHHhcCCceEEEEehhhhcChhhhhhh---hhhhcCCeEEEEeccCCCCCe
Confidence            1                2233333333457899999999865  334444   233456776665  5555443

>PLN03025 replication factor C subunit; Provisional

Probab=98.82  E-value=4.3e-08  Score=83.48  Aligned_cols=127  Identities=14%  Similarity=0.103  Sum_probs=74.8

Q ss_pred             cCCCcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCC-EEEEEEeCCCCCHHHHHHHHHH
Q 037337           90 NKGYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFD-LVVFSEMSQSPDIRKVQGEIAD  168 (247)
Q Consensus        90 ~~~~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~-~~~wv~~~~~~~~~~l~~~i~~  168 (247)
                      |....+++|.++.++.|..++..+..+.+.++|++|+||||+|..+++...... |. .++-++.+...... ..+.+..
T Consensus         9 P~~l~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l~~~~-~~~~~~eln~sd~~~~~-~vr~~i~   86 (319)
T PLN03025          9 PTKLDDIVGNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELLGPN-YKEAVLELNASDDRGID-VVRNKIK   86 (319)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhccc-CccceeeecccccccHH-HHHHHHH
Confidence            445577899999999898888777666788999999999999999999875432 22 23333433333322 2222222


Q ss_pred             HhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCcc--chhhhcccCCCCCCCeEEEEeeCc
Q 037337          169 KLGLTFREESESGRARSLFSRLNREKRILVILDNIWEHL--DLQVVGIPHGDDHKGCKVLFTARS  231 (247)
Q Consensus       169 ~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~~--~~~~l~~~~~~~~~~s~iiiTtR~  231 (247)
                      .+.....             .+..++.-+++||+++...  ....+...+......+++++++..
T Consensus        87 ~~~~~~~-------------~~~~~~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~  138 (319)
T PLN03025         87 MFAQKKV-------------TLPPGRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNT  138 (319)
T ss_pred             HHHhccc-------------cCCCCCeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCC
Confidence            2110000             0011245789999998762  223332333223455777776643

>PRK13342 recombination factor protein RarA; Reviewed

Probab=98.79  E-value=3.3e-08  Score=87.14  Aligned_cols=52  Identities=19%  Similarity=0.239  Sum_probs=43.5

Q ss_pred             cCCCcccccchHHHHH---HHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           90 NKGYEAFESRMSTLND---ILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        90 ~~~~~~~~gR~~~~~~---L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      |....+++|++..+..   |.+++.......+.++|++|+||||||+.+++....
T Consensus         8 P~~l~d~vGq~~~v~~~~~L~~~i~~~~~~~ilL~GppGtGKTtLA~~ia~~~~~   62 (413)
T PRK13342          8 PKTLDEVVGQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLARIIAGATDA   62 (413)
T ss_pred             CCCHHHhcCcHHHhCcchHHHHHHHcCCCceEEEECCCCCCHHHHHHHHHHHhCC
Confidence            4456789999988766   888887777778899999999999999999987653

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=98.76  E-value=7.3e-08  Score=88.69  Aligned_cols=124  Identities=13%  Similarity=0.154  Sum_probs=78.6

Q ss_pred             ccCCCcccccchHHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHHHhcccCC-------------------CCEE
Q 037337           89 SNKGYEAFESRMSTLNDILGALRNPD-ISMLGICGMGGIGKTMLEKEVARKAKNHKL-------------------FDLV  148 (247)
Q Consensus        89 ~~~~~~~~~gR~~~~~~L~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~-------------------f~~~  148 (247)
                      .|....+++|.+..++.|.+++..++ ...+.++|+.|+||||+|+.+++.+.....                   |..+
T Consensus        11 RPqtFdEVIGQe~Vv~~L~~aL~~gRL~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C~sCr~I~~G~h~Dv   90 (830)
T PRK07003         11 RPKDFASLVGQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRACREIDEGRFVDY   90 (830)
T ss_pred             CCCcHHHHcCcHHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCcccHHHHHHhcCCCceE
Confidence            34456789999999999999998765 456679999999999999999998754311                   1112


Q ss_pred             EEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHH----cCCCcEEEEEeCCCCcc--chhhhcccCCCCCCC
Q 037337          149 VFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRL----NREKRILVILDNIWEHL--DLQVVGIPHGDDHKG  222 (247)
Q Consensus       149 ~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l----~~~kr~LlvlDdv~~~~--~~~~l~~~~~~~~~~  222 (247)
                      ++++......+++                     +..+.+.+    ..++.-++|||+++...  .+..+...+.....+
T Consensus        91 iEIDAas~rgVDd---------------------IReLIe~a~~~P~~gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~  149 (830)
T PRK07003         91 VEMDAASNRGVDE---------------------MAALLERAVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPH  149 (830)
T ss_pred             EEecccccccHHH---------------------HHHHHHHHHhccccCCceEEEEeChhhCCHHHHHHHHHHHHhcCCC
Confidence            2332222222211                     12222221    12345688899999773  356665555444567


Q ss_pred             eEEEEeeCchh
Q 037337          223 CKVLFTARSLD  233 (247)
Q Consensus       223 s~iiiTtR~~~  233 (247)
                      +++|++|.+.+
T Consensus       150 v~FILaTtd~~  160 (830)
T PRK07003        150 VKFILATTDPQ  160 (830)
T ss_pred             eEEEEEECChh
Confidence            78787777654

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=98.76  E-value=1.4e-07  Score=80.16  Aligned_cols=53  Identities=15%  Similarity=0.238  Sum_probs=44.9

Q ss_pred             cCCCcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337           90 NKGYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus        90 ~~~~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      |....+++|+++.++.|..++.....+.+.++|++|+|||++|+.+++.....
T Consensus        13 P~~~~~~~g~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l~~~   65 (319)
T PRK00440         13 PRTLDEIVGQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELYGE   65 (319)
T ss_pred             CCcHHHhcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHcCC
Confidence            34456789999999999999987666678999999999999999999987544

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=98.74  E-value=4.7e-08  Score=83.84  Aligned_cols=91  Identities=13%  Similarity=0.126  Sum_probs=62.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCC--CHHHHHHHHHHHhCCCCCCCChHH-------HHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSP--DIRKVQGEIADKLGLTFREESESG-------RARS  185 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~--~~~~l~~~i~~~l~~~~~~~~~~~-------~~~~  185 (247)
                      -....|+|++|+|||||++.+++..... +|+..+|+.+....  .+.++++.+...+-.+....+...       .++.
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            3577899999999999999999998775 79999999988886  677777777632211111222211       1122


Q ss_pred             HHHHHcCCCcEEEEEeCCCCc
Q 037337          186 LFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       186 l~~~l~~~kr~LlvlDdv~~~  206 (247)
                      .......+++++|++|++...
T Consensus       248 Ae~~~e~G~dVlL~iDsItR~  268 (416)
T PRK09376        248 AKRLVEHGKDVVILLDSITRL  268 (416)
T ss_pred             HHHHHHcCCCEEEEEEChHHH
Confidence            222224567899999999743

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.73  E-value=1.6e-07  Score=81.33  Aligned_cols=52  Identities=15%  Similarity=0.208  Sum_probs=43.5

Q ss_pred             cCCCcccccchHHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           90 NKGYEAFESRMSTLNDILGALRNPD-ISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        90 ~~~~~~~~gR~~~~~~L~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      |....+++|.+..++.|.+.+..++ ...+.++|++|+||||+|+.+++....
T Consensus        12 P~~~~~iiGq~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla~~la~~l~c   64 (363)
T PRK14961         12 PQYFRDIIGQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKSLNC   64 (363)
T ss_pred             CCchhhccChHHHHHHHHHHHHcCCCCeEEEEecCCCCCHHHHHHHHHHHhcC
Confidence            4455789999999999999887665 356789999999999999999998753

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

Probab=98.72  E-value=6.3e-08  Score=81.43  Aligned_cols=123  Identities=16%  Similarity=0.237  Sum_probs=76.7

Q ss_pred             cCCCcccccchHHHHH---HHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHH
Q 037337           90 NKGYEAFESRMSTLND---ILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEI  166 (247)
Q Consensus        90 ~~~~~~~~gR~~~~~~---L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i  166 (247)
                      |....+++|.+..+..   |.+.++.+....+.+||++|+||||||+.++..-+...    ..||..+....-..-.+.|
T Consensus       134 PktL~dyvGQ~hlv~q~gllrs~ieq~~ipSmIlWGppG~GKTtlArlia~tsk~~S----yrfvelSAt~a~t~dvR~i  209 (554)
T KOG2028|consen  134 PKTLDDYVGQSHLVGQDGLLRSLIEQNRIPSMILWGPPGTGKTTLARLIASTSKKHS----YRFVELSATNAKTNDVRDI  209 (554)
T ss_pred             cchHHHhcchhhhcCcchHHHHHHHcCCCCceEEecCCCCchHHHHHHHHhhcCCCc----eEEEEEeccccchHHHHHH
Confidence            3345667776665532   45555667788899999999999999999998877653    5677777655433334444


Q ss_pred             HHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc--cchhhhcccCCCCCCCeEEEE--eeCchhh
Q 037337          167 ADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH--LDLQVVGIPHGDDHKGCKVLF--TARSLDV  234 (247)
Q Consensus       167 ~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~--~~~~~l~~~~~~~~~~s~iii--TtR~~~v  234 (247)
                      +++-.               .+....++|.+|.+|++..-  .+-+.+   +|.-.+|+-++|  ||-+++.
T Consensus       210 fe~aq---------------~~~~l~krkTilFiDEiHRFNksQQD~f---LP~VE~G~I~lIGATTENPSF  263 (554)
T KOG2028|consen  210 FEQAQ---------------NEKSLTKRKTILFIDEIHRFNKSQQDTF---LPHVENGDITLIGATTENPSF  263 (554)
T ss_pred             HHHHH---------------HHHhhhcceeEEEeHHhhhhhhhhhhcc---cceeccCceEEEecccCCCcc
Confidence            43321               11112346899999999754  233333   334456665554  5555543

>PRK04195 replication factor C large subunit; Provisional

Probab=98.71  E-value=7.3e-08  Score=86.57  Aligned_cols=97  Identities=18%  Similarity=0.177  Sum_probs=63.5

Q ss_pred             cCCCcccccchHHHHHHHHHhcC----CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHH
Q 037337           90 NKGYEAFESRMSTLNDILGALRN----PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGE  165 (247)
Q Consensus        90 ~~~~~~~~gR~~~~~~L~~~L~~----~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~  165 (247)
                      |....+++|+++.++.|..|+..    ...+.+.|+|++|+||||+|+.+++...    |+ ++.++++...+... +..
T Consensus        10 P~~l~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el~----~~-~ielnasd~r~~~~-i~~   83 (482)
T PRK04195         10 PKTLSDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDYG----WE-VIELNASDQRTADV-IER   83 (482)
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHcC----CC-EEEEcccccccHHH-HHH
Confidence            44567799999999999988863    2268899999999999999999999874    32 34455554433332 233


Q ss_pred             HHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          166 IADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       166 i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                      ++........              +.+.++-+||||+++..
T Consensus        84 ~i~~~~~~~s--------------l~~~~~kvIiIDEaD~L  110 (482)
T PRK04195         84 VAGEAATSGS--------------LFGARRKLILLDEVDGI  110 (482)
T ss_pred             HHHHhhccCc--------------ccCCCCeEEEEecCccc
Confidence            3222211100              00124689999999875

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.71  E-value=1e-07  Score=89.32  Aligned_cols=53  Identities=21%  Similarity=0.307  Sum_probs=44.4

Q ss_pred             ccCCCcccccchHHHHHHHHHhcCCCcc-EEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           89 SNKGYEAFESRMSTLNDILGALRNPDIS-MLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        89 ~~~~~~~~~gR~~~~~~L~~~L~~~~~~-~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      .|....+++|.+..++.|.+++..++.. ...++|++|+||||+|+.+++.+..
T Consensus        11 RP~tFddIIGQe~Iv~~LknaI~~~rl~HAyLFtGPpGtGKTTLARiLAk~Lnc   64 (944)
T PRK14949         11 RPATFEQMVGQSHVLHALTNALTQQRLHHAYLFTGTRGVGKTSLARLFAKGLNC   64 (944)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHhccC
Confidence            3445678999999999999998876654 4589999999999999999998754

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.70  E-value=1.3e-07  Score=86.10  Aligned_cols=53  Identities=15%  Similarity=0.228  Sum_probs=44.8

Q ss_pred             ccCCCcccccchHHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           89 SNKGYEAFESRMSTLNDILGALRNPD-ISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        89 ~~~~~~~~~gR~~~~~~L~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      .|....+++|.+...+.|.+++..++ ...+.++|++|+||||+|+.+++.+-.
T Consensus        10 RPktFddVIGQe~vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlAriLAK~LnC   63 (702)
T PRK14960         10 RPRNFNELVGQNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCLNC   63 (702)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            34556789999999999999998765 457789999999999999999988654

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.69  E-value=1.8e-07  Score=84.97  Aligned_cols=53  Identities=17%  Similarity=0.312  Sum_probs=44.6

Q ss_pred             ccCCCcccccchHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           89 SNKGYEAFESRMSTLNDILGALRNPDI-SMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        89 ~~~~~~~~~gR~~~~~~L~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      .|....+++|.+..++.|.+++..++. ..+.++|+.|+||||+|+.+++.+-.
T Consensus        11 RPqtFddVIGQe~vv~~L~~al~~gRLpHA~LFtGP~GvGKTTLAriLAkaLnC   64 (700)
T PRK12323         11 RPRDFTTLVGQEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRILAKSLNC   64 (700)
T ss_pred             CCCcHHHHcCcHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcC
Confidence            344557899999999999999987764 55688999999999999999998754

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=98.68  E-value=2.3e-07  Score=78.46  Aligned_cols=48  Identities=19%  Similarity=0.239  Sum_probs=40.8

Q ss_pred             cccccchHHHHHHHHHhc-----CCCccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           94 EAFESRMSTLNDILGALR-----NPDISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        94 ~~~~gR~~~~~~L~~~L~-----~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      .+|+|+++.++.|..++.     ......+.++|++|+|||+||+.+++....
T Consensus         4 ~~~iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~~~   56 (305)
T TIGR00635         4 AEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEMGV   56 (305)
T ss_pred             HHHcCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCC
Confidence            579999999999988886     233566889999999999999999998764

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.

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

Probab=98.68  E-value=1.4e-07  Score=82.47  Aligned_cols=110  Identities=20%  Similarity=0.191  Sum_probs=73.8

Q ss_pred             CcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCC
Q 037337           93 YEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGL  172 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~  172 (247)
                      ..+.++.+..++.+...|...  ..+.++|++|+|||++|+.+++.......++.+.|+.+++..+..+++....-. +.
T Consensus       174 l~d~~i~e~~le~l~~~L~~~--~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySYeDFI~G~rP~-~v  250 (459)
T PRK11331        174 LNDLFIPETTIETILKRLTIK--KNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSYEDFIQGYRPN-GV  250 (459)
T ss_pred             hhcccCCHHHHHHHHHHHhcC--CCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccHHHHhcccCCC-CC
Confidence            345777889999999988755  677889999999999999999998766567888999999988877765432110 00


Q ss_pred             CCCCCChHHHHHHHHHHHc-CCCcEEEEEeCCCCc
Q 037337          173 TFREESESGRARSLFSRLN-REKRILVILDNIWEH  206 (247)
Q Consensus       173 ~~~~~~~~~~~~~l~~~l~-~~kr~LlvlDdv~~~  206 (247)
                      ... .......+.+..... ..++++||+|++...
T Consensus       251 gy~-~~~G~f~~~~~~A~~~p~~~~vliIDEINRa  284 (459)
T PRK11331        251 GFR-RKDGIFYNFCQQAKEQPEKKYVFIIDEINRA  284 (459)
T ss_pred             CeE-ecCchHHHHHHHHHhcccCCcEEEEehhhcc
Confidence            000 001111112222221 235799999999865

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=98.66  E-value=7.7e-08  Score=77.71  Aligned_cols=106  Identities=15%  Similarity=0.173  Sum_probs=64.9

Q ss_pred             chHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCC
Q 037337           99 RMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREES  178 (247)
Q Consensus        99 R~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~  178 (247)
                      ....++.+.+++.......+.|+|++|+|||+||+.+++.....  ....+|++++.....      .            
T Consensus        22 ~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la~~~~~~~~~~--~~~~~~i~~~~~~~~------~------------   81 (226)
T TIGR03420        22 NAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAAEER--GKSAIYLPLAELAQA------D------------   81 (226)
T ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHHHhc--CCcEEEEeHHHHHHh------H------------
Confidence            45577778877666667889999999999999999999887543  334567765432210      0            


Q ss_pred             hHHHHHHHHHHHcCCCcEEEEEeCCCCcc---c-hhhhcccCCC-CCCCeEEEEeeCc
Q 037337          179 ESGRARSLFSRLNREKRILVILDNIWEHL---D-LQVVGIPHGD-DHKGCKVLFTARS  231 (247)
Q Consensus       179 ~~~~~~~l~~~l~~~kr~LlvlDdv~~~~---~-~~~l~~~~~~-~~~~s~iiiTtR~  231 (247)
                           ..+.+.+..  .-+|+|||++...   . ...+...+.. ...+.++|+||+.
T Consensus        82 -----~~~~~~~~~--~~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~  132 (226)
T TIGR03420        82 -----PEVLEGLEQ--ADLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRA  132 (226)
T ss_pred             -----HHHHhhccc--CCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCC
Confidence                 111122222  2489999998653   2 2223222211 1234578888874

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.

>PRK06893 DNA replication initiation factor; Validated

Probab=98.66  E-value=8e-08  Score=77.96  Aligned_cols=39  Identities=21%  Similarity=0.199  Sum_probs=30.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeC
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMS  154 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~  154 (247)
                      ..+.+.+||++|+|||+|++.+++....+  ...+.|+++.
T Consensus        38 ~~~~l~l~G~~G~GKThL~~ai~~~~~~~--~~~~~y~~~~   76 (229)
T PRK06893         38 QQPFFYIWGGKSSGKSHLLKAVSNHYLLN--QRTAIYIPLS   76 (229)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHHHc--CCCeEEeeHH
Confidence            44678999999999999999999987654  2345677653

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.65  E-value=2.9e-07  Score=82.07  Aligned_cols=53  Identities=21%  Similarity=0.267  Sum_probs=43.4

Q ss_pred             ccCCCcccccchHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           89 SNKGYEAFESRMSTLNDILGALRNPDI-SMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        89 ~~~~~~~~~gR~~~~~~L~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      .|....+++|.+.....|...+..+.. ..+.++|++|+||||+|+.+++.+..
T Consensus         9 RP~~~~divGq~~i~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~   62 (472)
T PRK14962          9 RPKTFSEVVGQDHVKKLIINALKKNSISHAYIFAGPRGTGKTTVARILAKSLNC   62 (472)
T ss_pred             CCCCHHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcc
Confidence            344567899999988888888877655 45789999999999999999988653

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.64  E-value=3e-07  Score=82.75  Aligned_cols=127  Identities=11%  Similarity=0.180  Sum_probs=78.9

Q ss_pred             cccCCCcccccchHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHHHhcccCC-------------------CCE
Q 037337           88 MSNKGYEAFESRMSTLNDILGALRNPDI-SMLGICGMGGIGKTMLEKEVARKAKNHKL-------------------FDL  147 (247)
Q Consensus        88 ~~~~~~~~~~gR~~~~~~L~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~~~~-------------------f~~  147 (247)
                      +.|....+++|.+..++.|.+++..+.. ....++|++|+||||+|+.+++.+-....                   +..
T Consensus        10 yRP~~f~divGq~~v~~~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~g~~~d   89 (509)
T PRK14958         10 WRPRCFQEVIGQAPVVRALSNALDQQYLHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENCREIDEGRFPD   89 (509)
T ss_pred             HCCCCHHHhcCCHHHHHHHHHHHHhCCCCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHHHHhcCCCce
Confidence            3455567899999999999999987654 45689999999999999999998754321                   112


Q ss_pred             EEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc--cchhhhcccCCCCCCCeEE
Q 037337          148 VVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH--LDLQVVGIPHGDDHKGCKV  225 (247)
Q Consensus       148 ~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~--~~~~~l~~~~~~~~~~s~i  225 (247)
                      ++.++......++++ +.+...+....                ..++.-++|+|+++..  .....+...+......+++
T Consensus        90 ~~eidaas~~~v~~i-R~l~~~~~~~p----------------~~~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~f  152 (509)
T PRK14958         90 LFEVDAASRTKVEDT-RELLDNIPYAP----------------TKGRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKF  152 (509)
T ss_pred             EEEEcccccCCHHHH-HHHHHHHhhcc----------------ccCCcEEEEEEChHhcCHHHHHHHHHHHhccCCCeEE
Confidence            333443333333332 22222221110                1234568889999875  3455555555444556777


Q ss_pred             EEeeCc
Q 037337          226 LFTARS  231 (247)
Q Consensus       226 iiTtR~  231 (247)
                      |++|-+
T Consensus       153 Ilattd  158 (509)
T PRK14958        153 ILATTD  158 (509)
T ss_pred             EEEECC
Confidence            766543

>TIGR00767 rho transcription termination factor Rho

Probab=98.64  E-value=2.3e-07  Score=79.95  Aligned_cols=91  Identities=13%  Similarity=0.133  Sum_probs=63.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCC--CCHHHHHHHHHHHhCCCCCCCCh---HHH----HHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQS--PDIRKVQGEIADKLGLTFREESE---SGR----ARS  185 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~--~~~~~l~~~i~~~l~~~~~~~~~---~~~----~~~  185 (247)
                      -..++|+|++|+|||||++.+++.+... +|+..+|+.+..+  .++.++++.+...+-...-..+.   ...    .+.
T Consensus       168 Gq~~~IvG~~g~GKTtL~~~i~~~I~~n-hfdv~v~VlLIgER~~EVtDLqrsIlg~Vvast~d~p~~~~~~va~~v~e~  246 (415)
T TIGR00767       168 GQRGLIVAPPKAGKTVLLQKIAQAITRN-HPEVELIVLLIDERPEEVTDMQRSVKGEVVASTFDEPASRHVQVAEMVIEK  246 (415)
T ss_pred             CCEEEEECCCCCChhHHHHHHHHhhccc-CCceEEEEEEcCCCCccHHHHHHHhhceEEEecCCCChHHHHHHHHHHHHH
Confidence            4678999999999999999999988765 7998889988866  78889999885433211111111   111    122


Q ss_pred             HHHHHcCCCcEEEEEeCCCCc
Q 037337          186 LFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       186 l~~~l~~~kr~LlvlDdv~~~  206 (247)
                      .......+++++|++|++...
T Consensus       247 Ae~~~~~GkdVVLlIDEitR~  267 (415)
T TIGR00767       247 AKRLVEHKKDVVILLDSITRL  267 (415)
T ss_pred             HHHHHHcCCCeEEEEEChhHH
Confidence            222334568899999999743

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

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=98.63  E-value=2.5e-07  Score=78.64  Aligned_cols=121  Identities=15%  Similarity=0.098  Sum_probs=73.4

Q ss_pred             ccCCCcccccchHHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHH
Q 037337           89 SNKGYEAFESRMSTLNDILGALRNPD-ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIA  167 (247)
Q Consensus        89 ~~~~~~~~~gR~~~~~~L~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~  167 (247)
                      .|....+++|.+...+.+..++..+. ...+.++|++|+|||++|+.+++.....     ..+++++. ..... .+..+
T Consensus        16 rP~~~~~~~~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~~~~~-----~~~i~~~~-~~~~~-i~~~l   88 (316)
T PHA02544         16 RPSTIDECILPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEVGAE-----VLFVNGSD-CRIDF-VRNRL   88 (316)
T ss_pred             CCCcHHHhcCcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHHhCcc-----ceEeccCc-ccHHH-HHHHH
Confidence            34556789999999999999887665 4566669999999999999999876322     34555554 22222 11111


Q ss_pred             HHhCCCCCCCChHHHHHHHHHHH-cCCCcEEEEEeCCCCcc---chhhhcccCCCCCCCeEEEEeeCch
Q 037337          168 DKLGLTFREESESGRARSLFSRL-NREKRILVILDNIWEHL---DLQVVGIPHGDDHKGCKVLFTARSL  232 (247)
Q Consensus       168 ~~l~~~~~~~~~~~~~~~l~~~l-~~~kr~LlvlDdv~~~~---~~~~l~~~~~~~~~~s~iiiTtR~~  232 (247)
                      ..+                .... ....+-+||+|+++...   ....+...+.....++++|+||...
T Consensus        89 ~~~----------------~~~~~~~~~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~  141 (316)
T PHA02544         89 TRF----------------ASTVSLTGGGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNK  141 (316)
T ss_pred             HHH----------------HHhhcccCCCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCCh
Confidence            111                0011 01134688999998651   1222322233335677888888654

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

Probab=98.62  E-value=4.2e-07  Score=76.91  Aligned_cols=113  Identities=23%  Similarity=0.281  Sum_probs=81.4

Q ss_pred             CcccccchHHHHHHHHHhcCCC---ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHH
Q 037337           93 YEAFESRMSTLNDILGALRNPD---ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADK  169 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L~~~~---~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~  169 (247)
                      ...+.+|+.++..|...+.+..   +..+.|+|-.|+|||.+.+.+.+....+     .+|+++-..++.+.++..|+..
T Consensus         5 ~~~v~~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~n~~-----~vw~n~~ecft~~~lle~IL~~   79 (438)
T KOG2543|consen    5 EPNVPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKLNLE-----NVWLNCVECFTYAILLEKILNK   79 (438)
T ss_pred             ccCccchHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhcCCc-----ceeeehHHhccHHHHHHHHHHH
Confidence            3457799999999999886543   4566899999999999999999988433     5899999999999999999999


Q ss_pred             hCCCCC-CCChH---HHHHHHHHHH-------cCCCcEEEEEeCCCCccchh
Q 037337          170 LGLTFR-EESES---GRARSLFSRL-------NREKRILVILDNIWEHLDLQ  210 (247)
Q Consensus       170 l~~~~~-~~~~~---~~~~~l~~~l-------~~~kr~LlvlDdv~~~~~~~  210 (247)
                      .+.... +....   +........+       +.++.++|||||++...+.+
T Consensus        80 ~~~~d~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~lrD~~  131 (438)
T KOG2543|consen   80 SQLADKDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADALRDMD  131 (438)
T ss_pred             hccCCCchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHhhhccc
Confidence            963322 21111   1122122222       12246999999999775543

>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=98.62  E-value=2.6e-07  Score=73.50  Aligned_cols=54  Identities=19%  Similarity=0.266  Sum_probs=37.9

Q ss_pred             ccCCCcccccchHHHHHHHHHhc-----CCCccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337           89 SNKGYEAFESRMSTLNDILGALR-----NPDISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus        89 ~~~~~~~~~gR~~~~~~L~~~L~-----~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      .|....+|+|.++.+..+.-++.     ++...-+.+|||+|+||||||.-+++.....
T Consensus        19 RP~~L~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~~~~   77 (233)
T PF05496_consen   19 RPKSLDEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANELGVN   77 (233)
T ss_dssp             S-SSCCCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHHCT--
T ss_pred             CCCCHHHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhccCCC
Confidence            45567899999998888654443     2346778999999999999999999998765

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.

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.62  E-value=5e-07  Score=81.56  Aligned_cols=53  Identities=21%  Similarity=0.354  Sum_probs=43.6

Q ss_pred             ccCCCcccccchHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           89 SNKGYEAFESRMSTLNDILGALRNPDI-SMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        89 ~~~~~~~~~gR~~~~~~L~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      .|....+++|.+..+..|..++..++. ..+.++|+.|+||||+|+.+++.+..
T Consensus        11 RP~~f~diiGq~~~v~~L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c   64 (546)
T PRK14957         11 RPQSFAEVAGQQHALNSLVHALETQKVHHAYLFTGTRGVGKTTLGRLLAKCLNC   64 (546)
T ss_pred             CcCcHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            344557899999999999999987643 55789999999999999999987653

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.60  E-value=6.2e-07  Score=81.19  Aligned_cols=53  Identities=19%  Similarity=0.325  Sum_probs=44.0

Q ss_pred             ccCCCcccccchHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           89 SNKGYEAFESRMSTLNDILGALRNPDI-SMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        89 ~~~~~~~~~gR~~~~~~L~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      .|....+++|.+..++.|.+++..++. ....++|++|+||||+|+.+++.+-.
T Consensus        11 rP~~f~divGq~~v~~~L~~~i~~~~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c   64 (527)
T PRK14969         11 RPKSFSELVGQEHVVRALTNALEQQRLHHAYLFTGTRGVGKTTLARILAKSLNC   64 (527)
T ss_pred             CCCcHHHhcCcHHHHHHHHHHHHcCCCCEEEEEECCCCCCHHHHHHHHHHHhcC
Confidence            344557899999999999999987654 45689999999999999999988743

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

Probab=98.60  E-value=9.4e-07  Score=76.60  Aligned_cols=138  Identities=12%  Similarity=0.106  Sum_probs=95.3

Q ss_pred             CCCcccccchHHHHHHHHHhcC----CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHH
Q 037337           91 KGYEAFESRMSTLNDILGALRN----PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEI  166 (247)
Q Consensus        91 ~~~~~~~gR~~~~~~L~~~L~~----~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i  166 (247)
                      .++....||+.+++.+.+|+..    +....+.|.|-+|.|||.+...++.+......-.+++|+++..-.....++..|
T Consensus       147 ~~p~~l~gRe~e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~~~~aiF~kI  226 (529)
T KOG2227|consen  147 APPGTLKGRELEMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLTEASAIFKKI  226 (529)
T ss_pred             CCCCCccchHHHHHHHHHHHHhhhhcccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeeccccchHHHHHHH
Confidence            4578899999999999998863    456889999999999999999999988765333467999998878888888888


Q ss_pred             HHHhCCC-CCCCChHHHHHHHHHHHcCCC-cEEEEEeCCCCccc--hhhhcccCCC-CCCCeEEEEe
Q 037337          167 ADKLGLT-FREESESGRARSLFSRLNREK-RILVILDNIWEHLD--LQVVGIPHGD-DHKGCKVLFT  228 (247)
Q Consensus       167 ~~~l~~~-~~~~~~~~~~~~l~~~l~~~k-r~LlvlDdv~~~~~--~~~l~~~~~~-~~~~s~iiiT  228 (247)
                      +..+-.. ............+..+....+ -+|+|+|+.+....  -..+...|.| .-+++|+|+.
T Consensus       227 ~~~~~q~~~s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~~~vLy~lFewp~lp~sr~iLi  293 (529)
T KOG2227|consen  227 FSSLLQDLVSPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHLITRSQTVLYTLFEWPKLPNSRIILI  293 (529)
T ss_pred             HHHHHHHhcCCchhHHHHHHHHHHHhcccceEEEEechhhHHhhcccceeeeehhcccCCcceeeee
Confidence            8887211 111222344555666664433 68999999986521  2223333322 2356666654

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.59  E-value=5.2e-07  Score=81.06  Aligned_cols=52  Identities=19%  Similarity=0.252  Sum_probs=43.3

Q ss_pred             cCCCcccccchHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           90 NKGYEAFESRMSTLNDILGALRNPDI-SMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        90 ~~~~~~~~gR~~~~~~L~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      |....+++|.+...+.|..++..+.. ..+.++|++|+||||+|+.+++.+..
T Consensus        10 P~~~~dvvGq~~v~~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~~lA~~l~c   62 (504)
T PRK14963         10 PITFDEVVGQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARLIAMAVNC   62 (504)
T ss_pred             CCCHHHhcChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHhc
Confidence            44457789999999999998887654 45689999999999999999998754

>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=98.59  E-value=2e-07  Score=68.46  Aligned_cols=69  Identities=19%  Similarity=0.241  Sum_probs=41.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCC-CcE
Q 037337          118 LGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNRE-KRI  196 (247)
Q Consensus       118 v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~-kr~  196 (247)
                      |.|+|++|+|||++|+.+++.....     .+.++.+...+.               ...+....+..+.+..... ++.
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~~~-----~~~i~~~~~~~~---------------~~~~~~~~i~~~~~~~~~~~~~~   60 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLGFP-----FIEIDGSELISS---------------YAGDSEQKIRDFFKKAKKSAKPC   60 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTTSE-----EEEEETTHHHTS---------------STTHHHHHHHHHHHHHHHTSTSE
T ss_pred             CEEECcCCCCeeHHHHHHHhhcccc-----cccccccccccc---------------cccccccccccccccccccccce
Confidence            5799999999999999999997532     344543322100               1111222233333333222 369


Q ss_pred             EEEEeCCCCc
Q 037337          197 LVILDNIWEH  206 (247)
Q Consensus       197 LlvlDdv~~~  206 (247)
                      +|+|||++..
T Consensus        61 vl~iDe~d~l   70 (132)
T PF00004_consen   61 VLFIDEIDKL   70 (132)
T ss_dssp             EEEEETGGGT
T ss_pred             eeeeccchhc
Confidence            9999999865

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 ....

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=98.58  E-value=8.2e-07  Score=75.46  Aligned_cols=124  Identities=18%  Similarity=0.212  Sum_probs=80.9

Q ss_pred             cccccchHHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHHHhcc----cCCCCEEEEEE-eCCCCCHHHHHHHHH
Q 037337           94 EAFESRMSTLNDILGALRNPD-ISMLGICGMGGIGKTMLEKEVARKAKN----HKLFDLVVFSE-MSQSPDIRKVQGEIA  167 (247)
Q Consensus        94 ~~~~gR~~~~~~L~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~----~~~f~~~~wv~-~~~~~~~~~l~~~i~  167 (247)
                      .+++|.+...+.|..++..+. .....++|+.|+|||++|..++..+-.    ..|+|...|.. -+.....++ .+.+.
T Consensus         4 ~~i~g~~~~~~~l~~~~~~~~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~-ir~~~   82 (313)
T PRK05564          4 HTIIGHENIKNRIKNSIIKNRFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDD-IRNII   82 (313)
T ss_pred             hhccCcHHHHHHHHHHHHcCCCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHH-HHHHH
Confidence            457898888999999987665 456689999999999999999997632    23456555543 222233333 22333


Q ss_pred             HHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc--cchhhhcccCCCCCCCeEEEEeeCchhh
Q 037337          168 DKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH--LDLQVVGIPHGDDHKGCKVLFTARSLDV  234 (247)
Q Consensus       168 ~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~--~~~~~l~~~~~~~~~~s~iiiTtR~~~v  234 (247)
                      ..+...+.                .+++-++|+|+++..  ..+..+...+.....++.+|++|.+.+.
T Consensus        83 ~~~~~~p~----------------~~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~  135 (313)
T PRK05564         83 EEVNKKPY----------------EGDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQ  135 (313)
T ss_pred             HHHhcCcc----------------cCCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHh
Confidence            33322111                124567777877654  4566776777666778999988876653

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.58  E-value=6.8e-07  Score=79.65  Aligned_cols=125  Identities=10%  Similarity=0.099  Sum_probs=77.0

Q ss_pred             ccCCCcccccchHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHHHhcccC-------------------CCCEE
Q 037337           89 SNKGYEAFESRMSTLNDILGALRNPDI-SMLGICGMGGIGKTMLEKEVARKAKNHK-------------------LFDLV  148 (247)
Q Consensus        89 ~~~~~~~~~gR~~~~~~L~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~~~-------------------~f~~~  148 (247)
                      .|....+++|.+...+.|.+.+..++. ....++|+.|+||||+|+.+++.+-...                   .+..+
T Consensus         8 RP~~f~dliGQe~vv~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~Dv   87 (491)
T PRK14964          8 RPSSFKDLVGQDVLVRILRNAFTLNKIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHPDV   87 (491)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCCCE
Confidence            344567899999999999888876654 4788999999999999999998653210                   11223


Q ss_pred             EEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc--cchhhhcccCCCCCCCeEEE
Q 037337          149 VFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH--LDLQVVGIPHGDDHKGCKVL  226 (247)
Q Consensus       149 ~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~--~~~~~l~~~~~~~~~~s~ii  226 (247)
                      +.++.++...++++ +.+.......+                ..+++-++|+|+++..  ..++.+...+......+.+|
T Consensus        88 ~eidaas~~~vddI-R~Iie~~~~~P----------------~~~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~fI  150 (491)
T PRK14964         88 IEIDAASNTSVDDI-KVILENSCYLP----------------ISSKFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFI  150 (491)
T ss_pred             EEEecccCCCHHHH-HHHHHHHHhcc----------------ccCCceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEEE
Confidence            44555444443332 22222221100                0124578999999865  33555555554445567666


Q ss_pred             EeeC
Q 037337          227 FTAR  230 (247)
Q Consensus       227 iTtR  230 (247)
                      ++|.
T Consensus       151 latt  154 (491)
T PRK14964        151 LATT  154 (491)
T ss_pred             EEeC
Confidence            6653

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.57  E-value=2.8e-07  Score=81.42  Aligned_cols=143  Identities=10%  Similarity=0.122  Sum_probs=78.3

Q ss_pred             ccCCCcccccchHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHH
Q 037337           89 SNKGYEAFESRMSTLNDILGALRNPDI-SMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIA  167 (247)
Q Consensus        89 ~~~~~~~~~gR~~~~~~L~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~  167 (247)
                      .|....+++|.+..+..|..++..++. ..+.++|++|+||||+|+.+++.+........   ..|....+...+.....
T Consensus        13 RP~~f~dvVGQe~iv~~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~---~pCg~C~sC~~i~~g~~   89 (484)
T PRK14956         13 RPQFFRDVIHQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRLNCENPIGN---EPCNECTSCLEITKGIS   89 (484)
T ss_pred             CCCCHHHHhChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhcCcccccCc---cccCCCcHHHHHHccCC
Confidence            445567899999999999999987764 45789999999999999999998754321110   11111111111111111


Q ss_pred             HHhC-CCCCCCChHHHHHHHHHHH----cCCCcEEEEEeCCCCc--cchhhhcccCCCCCCCeEEEEee-Cchhh
Q 037337          168 DKLG-LTFREESESGRARSLFSRL----NREKRILVILDNIWEH--LDLQVVGIPHGDDHKGCKVLFTA-RSLDV  234 (247)
Q Consensus       168 ~~l~-~~~~~~~~~~~~~~l~~~l----~~~kr~LlvlDdv~~~--~~~~~l~~~~~~~~~~s~iiiTt-R~~~v  234 (247)
                      ..+. .+.......+.+..+.+.+    ..++.-++|+|+++..  ..+..+...+......+.+|++| ....+
T Consensus        90 ~dviEIdaas~~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~kI  164 (484)
T PRK14956         90 SDVLEIDAASNRGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHKI  164 (484)
T ss_pred             ccceeechhhcccHHHHHHHHHHHHhhhhcCCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChhhc
Confidence            0000 0000001111223333322    2335578999999976  34666655554434455555444 43444

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=98.57  E-value=4.7e-07  Score=83.06  Aligned_cols=53  Identities=17%  Similarity=0.275  Sum_probs=44.7

Q ss_pred             ccCCCcccccchHHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           89 SNKGYEAFESRMSTLNDILGALRNPD-ISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        89 ~~~~~~~~~gR~~~~~~L~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      .|....+++|.+..++.|.+++..++ ...+.++|+.|+||||+|+.+++.+-.
T Consensus        11 RP~tFddIIGQe~vv~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAriLAk~LnC   64 (709)
T PRK08691         11 RPKTFADLVGQEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSLNC   64 (709)
T ss_pred             CCCCHHHHcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcc
Confidence            44556789999999999999998765 456789999999999999999987643

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=98.57  E-value=5.2e-07  Score=66.34  Aligned_cols=90  Identities=24%  Similarity=0.160  Sum_probs=54.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNREKR  195 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr  195 (247)
                      ..+.|+|++|+||||+++.++.......  ..+++++.+........... ...................+.+.....+.
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~~--~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   79 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELGPPG--GGVIYIDGEDILEEVLDQLL-LIIVGGKKASGSGELRLRLALALARKLKP   79 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccCCCC--CCEEEECCEEccccCHHHHH-hhhhhccCCCCCHHHHHHHHHHHHHhcCC
Confidence            5789999999999999999999877652  34666655544332221111 11112222223334444455555554334


Q ss_pred             EEEEEeCCCCccc
Q 037337          196 ILVILDNIWEHLD  208 (247)
Q Consensus       196 ~LlvlDdv~~~~~  208 (247)
                      .+|++|+++....
T Consensus        80 ~viiiDei~~~~~   92 (148)
T smart00382       80 DVLILDEITSLLD   92 (148)
T ss_pred             CEEEEECCcccCC
Confidence            8999999987743

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.

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.56  E-value=7.1e-07  Score=81.67  Aligned_cols=53  Identities=15%  Similarity=0.306  Sum_probs=44.0

Q ss_pred             ccCCCcccccchHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           89 SNKGYEAFESRMSTLNDILGALRNPDI-SMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        89 ~~~~~~~~~gR~~~~~~L~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      .|....+++|.+..++.|.+++..++. ....++|+.|+||||+|+.+++.+-.
T Consensus        11 RP~~f~dviGQe~vv~~L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC   64 (618)
T PRK14951         11 RPRSFSEMVGQEHVVQALTNALTQQRLHHAYLFTGTRGVGKTTVSRILAKSLNC   64 (618)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence            344567899999999999999887654 56689999999999999999887653

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=98.56  E-value=6e-06  Score=76.19  Aligned_cols=52  Identities=17%  Similarity=0.315  Sum_probs=43.2

Q ss_pred             cCCCcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           90 NKGYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        90 ~~~~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      |.....++|++..+..+...+.......+.|+|++|+||||||+.+++....
T Consensus       150 p~~~~~iiGqs~~~~~l~~~ia~~~~~~vlL~Gp~GtGKTTLAr~i~~~~~~  201 (615)
T TIGR02903       150 PRAFSEIVGQERAIKALLAKVASPFPQHIILYGPPGVGKTTAARLALEEAKK  201 (615)
T ss_pred             cCcHHhceeCcHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHhhhh
Confidence            3445678999999999888887666678999999999999999999887643

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.

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=98.56  E-value=3.9e-07  Score=83.55  Aligned_cols=53  Identities=17%  Similarity=0.260  Sum_probs=44.3

Q ss_pred             ccCCCcccccchHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           89 SNKGYEAFESRMSTLNDILGALRNPDI-SMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        89 ~~~~~~~~~gR~~~~~~L~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      .|....+++|.+..++.|.+.+..++. ....++|+.|+||||+|+.+++.+-.
T Consensus        11 RP~~f~divGQe~vv~~L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c   64 (647)
T PRK07994         11 RPQTFAEVVGQEHVLTALANALDLGRLHHAYLFSGTRGVGKTTIARLLAKGLNC   64 (647)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhhh
Confidence            445567899999999999999887654 44689999999999999999988654

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

Probab=98.56  E-value=1.1e-06  Score=72.89  Aligned_cols=106  Identities=23%  Similarity=0.287  Sum_probs=76.7

Q ss_pred             HHHHHHHHHhcC---CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCC----CEEEEEEeCCCCCHHHHHHHHHHHhCCC
Q 037337          101 STLNDILGALRN---PDISMLGICGMGGIGKTMLEKEVARKAKNHKLF----DLVVFSEMSQSPDIRKVQGEIADKLGLT  173 (247)
Q Consensus       101 ~~~~~L~~~L~~---~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f----~~~~wv~~~~~~~~~~l~~~i~~~l~~~  173 (247)
                      +.++.|.+.+..   .....+.|+|.+|.|||++++++++..-....-    -.++++.+...++...++..|+.+++.+
T Consensus        44 ~~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~IL~~lgaP  123 (302)
T PF05621_consen   44 EALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYSAILEALGAP  123 (302)
T ss_pred             HHHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHHHHHHHhCcc
Confidence            344555555543   245779999999999999999999876432111    1478889999999999999999999987


Q ss_pred             CCCC-ChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          174 FREE-SESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       174 ~~~~-~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                      .... +...........++.-+--+||+|++.+.
T Consensus       124 ~~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~l  157 (302)
T PF05621_consen  124 YRPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNL  157 (302)
T ss_pred             cCCCCCHHHHHHHHHHHHHHcCCcEEEeechHHH
Confidence            6543 44444444555665445579999999875

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

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=98.56  E-value=1.1e-06  Score=75.24  Aligned_cols=52  Identities=17%  Similarity=0.245  Sum_probs=42.8

Q ss_pred             cCCCcccccchHHHHHHHHHhc-----CCCccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           90 NKGYEAFESRMSTLNDILGALR-----NPDISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        90 ~~~~~~~~gR~~~~~~L~~~L~-----~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      |....+|+|+++.++.|..++.     ......+.++|++|+|||+||+.+++....
T Consensus        21 P~~~~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l~~   77 (328)
T PRK00080         21 PKSLDEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEMGV   77 (328)
T ss_pred             cCCHHHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHhCC
Confidence            4456789999999999877664     234567899999999999999999998764

>CHL00095 clpC Clp protease ATP binding subunit

Probab=98.56  E-value=5.9e-07  Score=85.61  Aligned_cols=101  Identities=19%  Similarity=0.402  Sum_probs=65.4

Q ss_pred             CcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCC---C-CEEEEEEeCCCCCHHHHHHHHHH
Q 037337           93 YEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKL---F-DLVVFSEMSQSPDIRKVQGEIAD  168 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~---f-~~~~wv~~~~~~~~~~l~~~i~~  168 (247)
                      ..+++||+++++.+++.|......-+.++|++|+|||++|..++........   . ...+|. +    +...++.    
T Consensus       178 ~~~~igr~~ei~~~~~~L~r~~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~-l----~~~~l~a----  248 (821)
T CHL00095        178 LDPVIGREKEIERVIQILGRRTKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVIT-L----DIGLLLA----  248 (821)
T ss_pred             CCCCCCcHHHHHHHHHHHcccccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEE-e----eHHHHhc----
Confidence            4578999999999999998776667789999999999999999998753211   1 234442 1    1111111    


Q ss_pred             HhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCC
Q 037337          169 KLGLTFREESESGRARSLFSRLNREKRILVILDNIWE  205 (247)
Q Consensus       169 ~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~  205 (247)
                        +.... ..-++.+..+.+.+...++.+|++|+++.
T Consensus       249 --g~~~~-ge~e~rl~~i~~~~~~~~~~ILfiDEih~  282 (821)
T CHL00095        249 --GTKYR-GEFEERLKRIFDEIQENNNIILVIDEVHT  282 (821)
T ss_pred             --cCCCc-cHHHHHHHHHHHHHHhcCCeEEEEecHHH
Confidence              11111 12233444455554444579999999964

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.53  E-value=9.7e-07  Score=77.42  Aligned_cols=53  Identities=19%  Similarity=0.283  Sum_probs=43.9

Q ss_pred             cCCCcccccchHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337           90 NKGYEAFESRMSTLNDILGALRNPDI-SMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus        90 ~~~~~~~~gR~~~~~~L~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      |....+++|.+...+.|.+++.++.. ..+.++|++|+||||+|+.+++.+...
T Consensus        12 P~~~~eiiGq~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~   65 (397)
T PRK14955         12 PKKFADITAQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAVNCQ   65 (397)
T ss_pred             CCcHhhccChHHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHHHHHHHHhcCC
Confidence            34457799999999999998887654 458899999999999999999987653

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=98.53  E-value=1.3e-06  Score=78.29  Aligned_cols=52  Identities=13%  Similarity=0.224  Sum_probs=43.2

Q ss_pred             cCCCcccccchHHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           90 NKGYEAFESRMSTLNDILGALRNPD-ISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        90 ~~~~~~~~gR~~~~~~L~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      |....+++|.+..+..|...+..++ ...+.++|++|+||||+|+.+++.+-.
T Consensus        17 P~~f~dliGq~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc   69 (507)
T PRK06645         17 PSNFAELQGQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARIIAKAVNC   69 (507)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcC
Confidence            3445778999999999988777654 467889999999999999999998754

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=98.52  E-value=1.7e-06  Score=74.61  Aligned_cols=51  Identities=20%  Similarity=0.295  Sum_probs=42.8

Q ss_pred             cCCCcccccchHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337           90 NKGYEAFESRMSTLNDILGALRNPDI-SMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus        90 ~~~~~~~~gR~~~~~~L~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      |....+++|.+..++.|.+++..+.. ....++|++|+|||++|+.++..+.
T Consensus        10 p~~~~~iig~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~l~   61 (355)
T TIGR02397        10 PQTFEDVIGQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALN   61 (355)
T ss_pred             CCcHhhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            34456789999999999999876653 4678899999999999999998864

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.

>PRK08727 hypothetical protein; Validated

Probab=98.52  E-value=4.5e-07  Score=73.75  Aligned_cols=111  Identities=21%  Similarity=0.262  Sum_probs=62.7

Q ss_pred             cccccch-HHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCC
Q 037337           94 EAFESRM-STLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGL  172 (247)
Q Consensus        94 ~~~~gR~-~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~  172 (247)
                      ..|++.. ..+..+.....+.....+.|+|++|+|||+|++.+++....+  ...+.|+++..      ....+      
T Consensus        19 ~~f~~~~~n~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~a~~~~~~~~--~~~~~y~~~~~------~~~~~------   84 (233)
T PRK08727         19 DSYIAAPDGLLAQLQALAAGQSSDWLYLSGPAGTGKTHLALALCAAAEQA--GRSSAYLPLQA------AAGRL------   84 (233)
T ss_pred             hhccCCcHHHHHHHHHHHhccCCCeEEEECCCCCCHHHHHHHHHHHHHHc--CCcEEEEeHHH------hhhhH------
Confidence            4455433 344444443334445679999999999999999999987655  23466765322      11111      


Q ss_pred             CCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCcc---chh-hhcccCCC-CCCCeEEEEeeCc
Q 037337          173 TFREESESGRARSLFSRLNREKRILVILDNIWEHL---DLQ-VVGIPHGD-DHKGCKVLFTARS  231 (247)
Q Consensus       173 ~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~~---~~~-~l~~~~~~-~~~~s~iiiTtR~  231 (247)
                                 ....+.+.+  .-+|||||++...   .+. .+...+.. ...+..+|+||+.
T Consensus        85 -----------~~~~~~l~~--~dlLiIDDi~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~~  135 (233)
T PRK08727         85 -----------RDALEALEG--RSLVALDGLESIAGQREDEVALFDFHNRARAAGITLLYTARQ  135 (233)
T ss_pred             -----------HHHHHHHhc--CCEEEEeCcccccCChHHHHHHHHHHHHHHHcCCeEEEECCC
Confidence                       112223333  3699999998542   121 22222211 1345669999974

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=98.51  E-value=7.9e-07  Score=84.71  Aligned_cols=51  Identities=16%  Similarity=0.208  Sum_probs=44.7

Q ss_pred             CCCcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           91 KGYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        91 ~~~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ....+++||++++.+++..|......-+.++|++|+|||++|..++++...
T Consensus       184 ~~ld~~iGr~~ei~~~i~~l~r~~~~n~lLvG~pGvGKTal~~~La~~i~~  234 (852)
T TIGR03345       184 GKIDPVLGRDDEIRQMIDILLRRRQNNPILTGEAGVGKTAVVEGLALRIAA  234 (852)
T ss_pred             CCCCcccCCHHHHHHHHHHHhcCCcCceeEECCCCCCHHHHHHHHHHHHhh
Confidence            345789999999999999988777677789999999999999999998753

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.

>PRK10865 protein disaggregation chaperone; Provisional

Probab=98.50  E-value=1e-06  Score=84.19  Aligned_cols=50  Identities=18%  Similarity=0.256  Sum_probs=44.1

Q ss_pred             CCcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           92 GYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        92 ~~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ...+++||+.++.++++.|.......+.++|++|+|||++|..++.....
T Consensus       176 ~l~~vigr~~ei~~~i~iL~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~  225 (857)
T PRK10865        176 KLDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIIN  225 (857)
T ss_pred             CCCcCCCCHHHHHHHHHHHhcCCcCceEEECCCCCCHHHHHHHHHHHhhc
Confidence            35679999999999999998777777889999999999999999998753

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=98.50  E-value=9.9e-07  Score=80.04  Aligned_cols=53  Identities=19%  Similarity=0.215  Sum_probs=44.4

Q ss_pred             ccCCCcccccchHHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           89 SNKGYEAFESRMSTLNDILGALRNPD-ISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        89 ~~~~~~~~~gR~~~~~~L~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      .|....+++|++..++.|.+++..+. ...+.++|++|+||||+|+.+++.+..
T Consensus        11 RP~~F~dIIGQe~iv~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C   64 (605)
T PRK05896         11 RPHNFKQIIGQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAINC   64 (605)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcC
Confidence            34456789999999999999987654 457889999999999999999998754

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

Probab=98.49  E-value=1e-06  Score=82.95  Aligned_cols=103  Identities=17%  Similarity=0.281  Sum_probs=65.6

Q ss_pred             CCcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCC---C-CEEEEEEeCCCCCHHHHHHHHH
Q 037337           92 GYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKL---F-DLVVFSEMSQSPDIRKVQGEIA  167 (247)
Q Consensus        92 ~~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~---f-~~~~wv~~~~~~~~~~l~~~i~  167 (247)
                      ...+++||++++..++..|......-+.++|++|+|||++|..+++.......   + ...+|. +    +...+.    
T Consensus       180 ~l~~~igr~~ei~~~~~~L~~~~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~-~----~~~~l~----  250 (731)
T TIGR02639       180 KIDPLIGREDELERTIQVLCRRKKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYS-L----DMGSLL----  250 (731)
T ss_pred             CCCcccCcHHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEE-e----cHHHHh----
Confidence            34679999999999999888776677889999999999999999998744321   1 233442 1    111111    


Q ss_pred             HHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          168 DKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       168 ~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                      ....   .....++.+..+.+.+...++.+|++|+++..
T Consensus       251 a~~~---~~g~~e~~l~~i~~~~~~~~~~ILfiDEih~l  286 (731)
T TIGR02639       251 AGTK---YRGDFEERLKAVVSEIEKEPNAILFIDEIHTI  286 (731)
T ss_pred             hhcc---ccchHHHHHHHHHHHHhccCCeEEEEecHHHH
Confidence            1000   00122333444555544335689999998743

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=98.48  E-value=6.4e-07  Score=77.72  Aligned_cols=50  Identities=26%  Similarity=0.349  Sum_probs=39.7

Q ss_pred             CcccccchHHHHHHHHHhc----C---------CCccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337           93 YEAFESRMSTLNDILGALR----N---------PDISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L~----~---------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      ..++.|++..++.|.+.+.    .         ...+.+.++|++|+|||++|+.+++.....
T Consensus       121 ~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~~~  183 (364)
T TIGR01242       121 YEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNAT  183 (364)
T ss_pred             HHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCCCC
Confidence            4568899999999887663    1         124568999999999999999999977643

Many proteins may score above the trusted cutoff because an internal

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=98.48  E-value=9.5e-07  Score=77.22  Aligned_cols=49  Identities=24%  Similarity=0.323  Sum_probs=39.1

Q ss_pred             CcccccchHHHHHHHHHhcC-------------CCccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           93 YEAFESRMSTLNDILGALRN-------------PDISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L~~-------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      +.++.|++.++++|.+.+.-             ...+.+.++|++|+|||++|+.+++....
T Consensus       130 ~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~~  191 (389)
T PRK03992        130 YEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNA  191 (389)
T ss_pred             HHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhCC
Confidence            34577999999998876531             23567899999999999999999987653

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.46  E-value=2.1e-06  Score=78.25  Aligned_cols=53  Identities=19%  Similarity=0.187  Sum_probs=44.4

Q ss_pred             ccCCCcccccchHHHHHHHHHhcCCCcc-EEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           89 SNKGYEAFESRMSTLNDILGALRNPDIS-MLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        89 ~~~~~~~~~gR~~~~~~L~~~L~~~~~~-~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      .|....+++|.+..++.|.+++.+++.. ...++|+.|+||||+|+.+++.+-.
T Consensus         8 RP~~f~eivGq~~i~~~L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c   61 (584)
T PRK14952          8 RPATFAEVVGQEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARILARSLNC   61 (584)
T ss_pred             CCCcHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcc
Confidence            3455678999999999999999877644 4689999999999999999988653

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

Probab=98.46  E-value=5.4e-07  Score=84.07  Aligned_cols=52  Identities=23%  Similarity=0.356  Sum_probs=42.2

Q ss_pred             cCCCcccccchHHHH---HHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           90 NKGYEAFESRMSTLN---DILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        90 ~~~~~~~~gR~~~~~---~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      |....+|+|++..+.   .|.+.+..+....+.++|++|+||||||+.+++....
T Consensus        24 P~tldd~vGQe~ii~~~~~L~~~i~~~~~~slLL~GPpGtGKTTLA~aIA~~~~~   78 (725)
T PRK13341         24 PRTLEEFVGQDHILGEGRLLRRAIKADRVGSLILYGPPGVGKTTLARIIANHTRA   78 (725)
T ss_pred             CCcHHHhcCcHHHhhhhHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHhcC
Confidence            445577999998874   5667777777778899999999999999999987653

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=98.46  E-value=2.1e-06  Score=74.88  Aligned_cols=48  Identities=13%  Similarity=0.207  Sum_probs=40.0

Q ss_pred             cccccchHHHHHHHHHhcCCC----------ccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           94 EAFESRMSTLNDILGALRNPD----------ISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        94 ~~~~gR~~~~~~L~~~L~~~~----------~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      .+++|.+..++.|.+++..+.          ...+.++|++|+|||++|+.++..+-.
T Consensus         5 ~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c   62 (394)
T PRK07940          5 DDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQC   62 (394)
T ss_pred             hhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCC
Confidence            457899999999999887653          466889999999999999999987644

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=98.44  E-value=1.8e-06  Score=81.63  Aligned_cols=51  Identities=20%  Similarity=0.188  Sum_probs=43.2

Q ss_pred             CCCcccccchHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           91 KGYEAFESRMSTLNDILGALRNPDI-SMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        91 ~~~~~~~gR~~~~~~L~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ....+++|.+..++.|.+++..++. ..+.++|+.|+||||+|+.+++.+..
T Consensus        12 ~~f~eiiGqe~v~~~L~~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C   63 (824)
T PRK07764         12 ATFAEVIGQEHVTEPLSTALDSGRINHAYLFSGPRGCGKTSSARILARSLNC   63 (824)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhCc
Confidence            3456799999999999999987654 45789999999999999999998754

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=98.43  E-value=2.2e-06  Score=78.50  Aligned_cols=53  Identities=15%  Similarity=0.303  Sum_probs=44.5

Q ss_pred             cCCCcccccchHHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337           90 NKGYEAFESRMSTLNDILGALRNPD-ISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus        90 ~~~~~~~~gR~~~~~~L~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      |....+++|.+..++.|.+++..++ ...+.++|+.|+||||+|+.+++.+-..
T Consensus        20 P~~f~dliGq~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~   73 (598)
T PRK09111         20 PQTFDDLIGQEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARILARALNYE   73 (598)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhhCcC
Confidence            3445789999999999999988765 4578899999999999999999987543

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.42  E-value=3.5e-06  Score=73.23  Aligned_cols=52  Identities=27%  Similarity=0.451  Sum_probs=43.6

Q ss_pred             cCCCcccccchHHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           90 NKGYEAFESRMSTLNDILGALRNPD-ISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        90 ~~~~~~~~gR~~~~~~L~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      |....+++|.+...+.+.+++.++. ...+.++|++|+|||++|..+++....
T Consensus        13 P~~~~~iig~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~la~~l~~   65 (367)
T PRK14970         13 PQTFDDVVGQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKINQ   65 (367)
T ss_pred             CCcHHhcCCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence            3445778999999999999998765 457889999999999999999888654

>PRK08084 DNA replication initiation factor; Provisional

Probab=98.40  E-value=1.9e-06  Score=70.20  Aligned_cols=52  Identities=17%  Similarity=0.215  Sum_probs=37.2

Q ss_pred             HHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeC
Q 037337          101 STLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMS  154 (247)
Q Consensus       101 ~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~  154 (247)
                      ..+..+.++........+.|+|++|+|||+|++.+++.....  ...+.|+++.
T Consensus        31 ~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~--~~~v~y~~~~   82 (235)
T PRK08084         31 SLLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAELSQR--GRAVGYVPLD   82 (235)
T ss_pred             HHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHhC--CCeEEEEEHH
Confidence            344555555544455789999999999999999999987644  2346676653

>PRK08181 transposase; Validated

Probab=98.39  E-value=4.9e-06  Score=68.89  Aligned_cols=80  Identities=20%  Similarity=0.147  Sum_probs=49.8

Q ss_pred             HHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHH
Q 037337          107 LGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSL  186 (247)
Q Consensus       107 ~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l  186 (247)
                      .+|+...  ..+.++|++|+|||.||..+++.....  .-.+.|++      ..+++..+.....    ..+    ...+
T Consensus       100 ~~~~~~~--~nlll~Gp~GtGKTHLa~Aia~~a~~~--g~~v~f~~------~~~L~~~l~~a~~----~~~----~~~~  161 (269)
T PRK08181        100 DSWLAKG--ANLLLFGPPGGGKSHLAAAIGLALIEN--GWRVLFTR------TTDLVQKLQVARR----ELQ----LESA  161 (269)
T ss_pred             HHHHhcC--ceEEEEecCCCcHHHHHHHHHHHHHHc--CCceeeee------HHHHHHHHHHHHh----CCc----HHHH
Confidence            3566533  568999999999999999999887554  22345553      3555555543321    111    2233


Q ss_pred             HHHHcCCCcEEEEEeCCCCc
Q 037337          187 FSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       187 ~~~l~~~kr~LlvlDdv~~~  206 (247)
                      .+.+..  .-||||||+...
T Consensus       162 l~~l~~--~dLLIIDDlg~~  179 (269)
T PRK08181        162 IAKLDK--FDLLILDDLAYV  179 (269)
T ss_pred             HHHHhc--CCEEEEeccccc
Confidence            344433  359999999643

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

Probab=98.38  E-value=1.7e-06  Score=71.27  Aligned_cols=132  Identities=18%  Similarity=0.150  Sum_probs=83.7

Q ss_pred             ccCCCcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEE-EEeCCCCCHHHHHHHH-
Q 037337           89 SNKGYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVF-SEMSQSPDIRKVQGEI-  166 (247)
Q Consensus        89 ~~~~~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~w-v~~~~~~~~~~l~~~i-  166 (247)
                      .|+...+++|.+..+.-|.+.+.....+....|||+|+|||+.|+.+++.+-..+.|.+.+. .++|......-+-..+ 
T Consensus        31 rPkt~de~~gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSderGisvvr~Kik  110 (346)
T KOG0989|consen   31 RPKTFDELAGQEHVVQVLKNALLRRILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDERGISVVREKIK  110 (346)
T ss_pred             CCCcHHhhcchHHHHHHHHHHHhhcCCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhcccccccccchhhhhc
Confidence            34556789999999999999998877889999999999999999999999877666766443 4444432211000000 


Q ss_pred             -HHHhCCCCCCCChHHHHHHHHHHH-cCCCc-EEEEEeCCCCc--cchhhhcccCCCCCCCeEEEEeeCch
Q 037337          167 -ADKLGLTFREESESGRARSLFSRL-NREKR-ILVILDNIWEH--LDLQVVGIPHGDDHKGCKVLFTARSL  232 (247)
Q Consensus       167 -~~~l~~~~~~~~~~~~~~~l~~~l-~~~kr-~LlvlDdv~~~--~~~~~l~~~~~~~~~~s~iiiTtR~~  232 (247)
                       +..+....            .... ..-++ -++|||+++..  +.|..+..........++.++.+..-
T Consensus       111 ~fakl~~~~------------~~~~~~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s~~trFiLIcnyl  169 (346)
T KOG0989|consen  111 NFAKLTVLL------------KRSDGYPCPPFKIIILDECDSMTSDAQAALRRTMEDFSRTTRFILICNYL  169 (346)
T ss_pred             CHHHHhhcc------------ccccCCCCCcceEEEEechhhhhHHHHHHHHHHHhccccceEEEEEcCCh
Confidence             00000000            0000 00122 57789999987  56777766665556677766655443

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=98.37  E-value=7.1e-06  Score=64.42  Aligned_cols=37  Identities=22%  Similarity=0.310  Sum_probs=28.8

Q ss_pred             HHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          105 DILGALRNPDI-SMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       105 ~L~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      .|.+.+..++. ..+.++|+.|+|||++|+.+++.+..
T Consensus         3 ~l~~~i~~~~~~~~~L~~G~~G~gkt~~a~~~~~~l~~   40 (188)
T TIGR00678         3 QLKRALEKGRLAHAYLFAGPEGVGKELLALALAKALLC   40 (188)
T ss_pred             HHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHcC
Confidence            34555555544 67889999999999999999998754

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.

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

Probab=98.37  E-value=4e-06  Score=70.62  Aligned_cols=124  Identities=20%  Similarity=0.253  Sum_probs=80.6

Q ss_pred             CCcccccchHHHHHHHHHhcC-------------CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCC
Q 037337           92 GYEAFESRMSTLNDILGALRN-------------PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPD  158 (247)
Q Consensus        92 ~~~~~~gR~~~~~~L~~~L~~-------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~  158 (247)
                      .+.++=|-++++++|.+...-             +.++-|.+||++|+|||-||+.++++....  |     +.+..+  
T Consensus       149 tY~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T~At--F-----IrvvgS--  219 (406)
T COG1222         149 TYEDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTDAT--F-----IRVVGS--  219 (406)
T ss_pred             ChhhccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhccCce--E-----EEeccH--
Confidence            355677789999998887641             257889999999999999999999987765  3     433332  


Q ss_pred             HHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCccc----------------hhhhcccCC--CCC
Q 037337          159 IRKVQGEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEHLD----------------LQVVGIPHG--DDH  220 (247)
Q Consensus       159 ~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~~~----------------~~~l~~~~~--~~~  220 (247)
                        ++.+.   .+|      ....+...+++..+.+.+++|.+|+++....                +-.+...+.  +..
T Consensus       220 --ElVqK---YiG------EGaRlVRelF~lArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~~  288 (406)
T COG1222         220 --ELVQK---YIG------EGARLVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDPR  288 (406)
T ss_pred             --HHHHH---Hhc------cchHHHHHHHHHHhhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCCCC
Confidence              11111   122      1234566677777777889999999974311                111112121  335


Q ss_pred             CCeEEEEeeCchhhh
Q 037337          221 KGCKVLFTARSLDVL  235 (247)
Q Consensus       221 ~~s~iiiTtR~~~va  235 (247)
                      .+.+||..|...++.
T Consensus       289 ~nvKVI~ATNR~D~L  303 (406)
T COG1222         289 GNVKVIMATNRPDIL  303 (406)
T ss_pred             CCeEEEEecCCcccc
Confidence            678899888777664

>PRK08116 hypothetical protein; Validated

Probab=98.37  E-value=1.9e-06  Score=71.52  Aligned_cols=102  Identities=21%  Similarity=0.173  Sum_probs=61.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNREKR  195 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr  195 (247)
                      ..+.++|.+|+|||.||..+++.+..+  ...++|++      ..+++..+...+..... .    ....+.+.+...  
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~~l~~~--~~~v~~~~------~~~ll~~i~~~~~~~~~-~----~~~~~~~~l~~~--  179 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIANELIEK--GVPVIFVN------FPQLLNRIKSTYKSSGK-E----DENEIIRSLVNA--  179 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHc--CCeEEEEE------HHHHHHHHHHHHhcccc-c----cHHHHHHHhcCC--
Confidence            468999999999999999999998755  23456664      44556666555432211 1    123344555553  


Q ss_pred             EEEEEeCCCC--ccchhh--hcccCCC-CCCCeEEEEeeCch
Q 037337          196 ILVILDNIWE--HLDLQV--VGIPHGD-DHKGCKVLFTARSL  232 (247)
Q Consensus       196 ~LlvlDdv~~--~~~~~~--l~~~~~~-~~~~s~iiiTtR~~  232 (247)
                      =||||||+..  ..+|..  +...+.. -..+..+|+||...
T Consensus       180 dlLviDDlg~e~~t~~~~~~l~~iin~r~~~~~~~IiTsN~~  221 (268)
T PRK08116        180 DLLILDDLGAERDTEWAREKVYNIIDSRYRKGLPTIVTTNLS  221 (268)
T ss_pred             CEEEEecccCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence            3899999943  333322  2222211 13456688888753

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.36  E-value=4e-06  Score=76.96  Aligned_cols=53  Identities=17%  Similarity=0.275  Sum_probs=44.2

Q ss_pred             cCCCcccccchHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337           90 NKGYEAFESRMSTLNDILGALRNPDI-SMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus        90 ~~~~~~~~gR~~~~~~L~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      |....+++|.+..+..|.+++..+.. ....++|+.|+||||+|+.+++.+-..
T Consensus        12 P~~f~eivGQe~i~~~L~~~i~~~ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c~   65 (620)
T PRK14954         12 PSKFADITAQEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAARVFAKAVNCQ   65 (620)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            44557899999999999998887654 558899999999999999999987653

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=98.36  E-value=1.7e-06  Score=71.67  Aligned_cols=26  Identities=23%  Similarity=0.287  Sum_probs=22.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ...+.++|++|+||||+|+.+++.+.
T Consensus        42 ~~~vll~GppGtGKTtlA~~ia~~l~   67 (261)
T TIGR02881        42 VLHMIFKGNPGTGKTTVARILGKLFK   67 (261)
T ss_pred             cceEEEEcCCCCCHHHHHHHHHHHHH
Confidence            45678999999999999999998764

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.

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.36  E-value=5.6e-06  Score=76.10  Aligned_cols=53  Identities=13%  Similarity=0.250  Sum_probs=43.6

Q ss_pred             ccCCCcccccchHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           89 SNKGYEAFESRMSTLNDILGALRNPDI-SMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        89 ~~~~~~~~~gR~~~~~~L~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      .|....+++|.+..++.|..++..+.. ..+.++|+.|+||||+|+.+++.+..
T Consensus        11 RP~~~~eiiGq~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c   64 (585)
T PRK14950         11 RSQTFAELVGQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAVNC   64 (585)
T ss_pred             CCCCHHHhcCCHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcC
Confidence            344557899999999999998876653 45689999999999999999988753

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=98.35  E-value=3.1e-06  Score=81.00  Aligned_cols=50  Identities=18%  Similarity=0.247  Sum_probs=43.5

Q ss_pred             CCcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           92 GYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        92 ~~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ...+++||+.++..++..|.......+.++|++|+|||++|..++.+...
T Consensus       171 ~~~~~igr~~ei~~~~~~l~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~  220 (852)
T TIGR03346       171 KLDPVIGRDEEIRRTIQVLSRRTKNNPVLIGEPGVGKTAIVEGLAQRIVN  220 (852)
T ss_pred             CCCcCCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHhc
Confidence            34679999999999999998776677789999999999999999998743

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.

>PRK10536 hypothetical protein; Provisional

Probab=98.35  E-value=1.2e-05  Score=65.65  Aligned_cols=57  Identities=23%  Similarity=0.263  Sum_probs=43.4

Q ss_pred             CCcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEE
Q 037337           92 GYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVF  150 (247)
Q Consensus        92 ~~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~w  150 (247)
                      ....+.+|......++.++.+.  ..+.+.|++|+|||+||..++.+.-....|+.++.
T Consensus        53 ~~~~i~p~n~~Q~~~l~al~~~--~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI  109 (262)
T PRK10536         53 DTSPILARNEAQAHYLKAIESK--QLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIV  109 (262)
T ss_pred             CCccccCCCHHHHHHHHHHhcC--CeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEE
Confidence            3455778899999999988765  59999999999999999999886332223554443

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.34  E-value=4.2e-06  Score=76.35  Aligned_cols=52  Identities=13%  Similarity=0.190  Sum_probs=43.1

Q ss_pred             cCCCcccccchHHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           90 NKGYEAFESRMSTLNDILGALRNPD-ISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        90 ~~~~~~~~gR~~~~~~L~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      |....+++|.+...+.|.+.+..++ ...+.++|+.|+||||+|+.+++.+-.
T Consensus        12 P~sf~dIiGQe~v~~~L~~ai~~~ri~ha~Lf~GPpG~GKTtiArilAk~L~C   64 (624)
T PRK14959         12 PQTFAEVAGQETVKAILSRAAQENRVAPAYLFSGTRGVGKTTIARIFAKALNC   64 (624)
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhccc
Confidence            4445778999988888888887765 467778999999999999999988754

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.34  E-value=5e-06  Score=76.16  Aligned_cols=53  Identities=13%  Similarity=0.241  Sum_probs=44.1

Q ss_pred             ccCCCcccccchHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           89 SNKGYEAFESRMSTLNDILGALRNPDI-SMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        89 ~~~~~~~~~gR~~~~~~L~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      .|....+++|.+...+.|.+++..++. ....++|+.|+||||+|+.+++.+-.
T Consensus        11 RP~~f~~iiGq~~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~lak~l~c   64 (576)
T PRK14965         11 RPQTFSDLTGQEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKALNC   64 (576)
T ss_pred             CCCCHHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhcC
Confidence            445567899999999999999887654 55689999999999999999988653

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.30  E-value=1e-05  Score=72.49  Aligned_cols=51  Identities=16%  Similarity=0.194  Sum_probs=42.3

Q ss_pred             cCCCcccccchHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337           90 NKGYEAFESRMSTLNDILGALRNPDI-SMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus        90 ~~~~~~~~gR~~~~~~L~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      |....+++|.+.....|.+++..+.. ....++|+.|+||||+|+.++..+.
T Consensus        12 P~~f~diiGq~~i~~~L~~~i~~~~i~hayLf~Gp~G~GKTtlAr~lAk~L~   63 (486)
T PRK14953         12 PKFFKEVIGQEIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTIARILAKVLN   63 (486)
T ss_pred             CCcHHHccChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            34457789999999999999987654 4567899999999999999998864

>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A

Probab=98.28  E-value=1.8e-05  Score=60.71  Aligned_cols=119  Identities=13%  Similarity=0.123  Sum_probs=72.1

Q ss_pred             cchHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHHHhcccCCC------------------CEEEEEEeCCC--
Q 037337           98 SRMSTLNDILGALRNPDI-SMLGICGMGGIGKTMLEKEVARKAKNHKLF------------------DLVVFSEMSQS--  156 (247)
Q Consensus        98 gR~~~~~~L~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f------------------~~~~wv~~~~~--  156 (247)
                      |.++..+.|.+.+..++. ..+.++|+.|+||+++|..+++.+-.....                  ....|+.-...  
T Consensus         1 gq~~~~~~L~~~~~~~~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~   80 (162)
T PF13177_consen    1 GQEEIIELLKNLIKSGRLPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIKPDKKKK   80 (162)
T ss_dssp             S-HHHHHHHHHHHHCTC--SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEETTTSSS
T ss_pred             CcHHHHHHHHHHHHcCCcceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEecccccc
Confidence            456677778887777654 567999999999999999999986443221                  12333332221  


Q ss_pred             -CCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc--cchhhhcccCCCCCCCeEEEEeeCchh
Q 037337          157 -PDIRKVQGEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH--LDLQVVGIPHGDDHKGCKVLFTARSLD  233 (247)
Q Consensus       157 -~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~--~~~~~l~~~~~~~~~~s~iiiTtR~~~  233 (247)
                       ...+++. .+...+.....                .+++-++|+|+++..  .....+...+.....++++|++|.+.+
T Consensus        81 ~i~i~~ir-~i~~~~~~~~~----------------~~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fiL~t~~~~  143 (162)
T PF13177_consen   81 SIKIDQIR-EIIEFLSLSPS----------------EGKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYFILITNNPS  143 (162)
T ss_dssp             SBSHHHHH-HHHHHCTSS-T----------------TSSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEEEEES-GG
T ss_pred             hhhHHHHH-HHHHHHHHHHh----------------cCCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEEEEECChH
Confidence             2222222 33333322211                124678999999976  445566566655667899999888766

...

>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=98.26  E-value=1.3e-05  Score=64.56  Aligned_cols=102  Identities=25%  Similarity=0.233  Sum_probs=63.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNREK  194 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  194 (247)
                      ...+.|||+.|+|||.|.+.+++.......-..++|++      ..++...+...+..        .....+.+.+..  
T Consensus        34 ~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~------~~~f~~~~~~~~~~--------~~~~~~~~~~~~--   97 (219)
T PF00308_consen   34 YNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLS------AEEFIREFADALRD--------GEIEEFKDRLRS--   97 (219)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEE------HHHHHHHHHHHHHT--------TSHHHHHHHHCT--
T ss_pred             CCceEEECCCCCCHHHHHHHHHHHHHhccccccceeec------HHHHHHHHHHHHHc--------ccchhhhhhhhc--
Confidence            45789999999999999999999876542222466764      44555555555533        113456666665  


Q ss_pred             cEEEEEeCCCCccc---hh-hhcccCC-CCCCCeEEEEeeCch
Q 037337          195 RILVILDNIWEHLD---LQ-VVGIPHG-DDHKGCKVLFTARSL  232 (247)
Q Consensus       195 r~LlvlDdv~~~~~---~~-~l~~~~~-~~~~~s~iiiTtR~~  232 (247)
                      -=+|+|||++....   |. .+...+. ....|.++|+|+...
T Consensus        98 ~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~~  140 (219)
T PF00308_consen   98 ADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDRP  140 (219)
T ss_dssp             SSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS-
T ss_pred             CCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCCC
Confidence            35899999986522   21 1212221 123467899999654

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.

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=98.26  E-value=1.6e-05  Score=68.73  Aligned_cols=53  Identities=25%  Similarity=0.205  Sum_probs=44.1

Q ss_pred             cCCCcccccchHHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337           90 NKGYEAFESRMSTLNDILGALRNPD-ISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus        90 ~~~~~~~~gR~~~~~~L~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      |....+++|.+...+.|.+.+..++ .....++|+.|+||+++|..+++.+-.+
T Consensus        15 P~~~~~iiGq~~~~~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~   68 (365)
T PRK07471         15 PRETTALFGHAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMARFLLAT   68 (365)
T ss_pred             CCchhhccChHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHhCC
Confidence            3345679999999999999888765 4568899999999999999999987543

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

Probab=98.26  E-value=2.8e-06  Score=67.58  Aligned_cols=103  Identities=18%  Similarity=0.114  Sum_probs=72.5

Q ss_pred             cCCCcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHH
Q 037337           90 NKGYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADK  169 (247)
Q Consensus        90 ~~~~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~  169 (247)
                      |....+++|-++.+++|.-...+++.+-+.|.||+|+||||-+..+++.+-...+-+.+.-.++|..-.++-+-..|-..
T Consensus        23 P~~l~dIVGNe~tv~rl~via~~gnmP~liisGpPG~GKTTsi~~LAr~LLG~~~ke~vLELNASdeRGIDvVRn~IK~F  102 (333)
T KOG0991|consen   23 PSVLQDIVGNEDTVERLSVIAKEGNMPNLIISGPPGTGKTTSILCLARELLGDSYKEAVLELNASDERGIDVVRNKIKMF  102 (333)
T ss_pred             chHHHHhhCCHHHHHHHHHHHHcCCCCceEeeCCCCCchhhHHHHHHHHHhChhhhhHhhhccCccccccHHHHHHHHHH
Confidence            33457899999999998887788888899999999999999999999998776545667777777766554443333111


Q ss_pred             hCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          170 LGLTFREESESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       170 l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                      ...              +-.|..++.-++|||+.++.
T Consensus       103 AQ~--------------kv~lp~grhKIiILDEADSM  125 (333)
T KOG0991|consen  103 AQK--------------KVTLPPGRHKIIILDEADSM  125 (333)
T ss_pred             HHh--------------hccCCCCceeEEEeeccchh
Confidence            100              00112335568889999876

>TIGR03689 pup_AAA proteasome ATPase

Probab=98.25  E-value=4.4e-06  Score=74.86  Aligned_cols=51  Identities=24%  Similarity=0.260  Sum_probs=39.7

Q ss_pred             CCcccccchHHHHHHHHHhcC-------------CCccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337           92 GYEAFESRMSTLNDILGALRN-------------PDISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus        92 ~~~~~~gR~~~~~~L~~~L~~-------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      ...++.|.+.+++.|.+.+.-             ...+-+.++|++|+|||++|+.+++.+...
T Consensus       180 ~~~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~  243 (512)
T TIGR03689       180 TYADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQR  243 (512)
T ss_pred             CHHHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccc
Confidence            346677899988888776531             135678999999999999999999987543

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.

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=98.25  E-value=1.7e-05  Score=71.54  Aligned_cols=51  Identities=24%  Similarity=0.261  Sum_probs=42.6

Q ss_pred             cCCCcccccchHHHHHHHHHhcCCCcc-EEEEEcCCCCcHHHHHHHHHHHhc
Q 037337           90 NKGYEAFESRMSTLNDILGALRNPDIS-MLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus        90 ~~~~~~~~gR~~~~~~L~~~L~~~~~~-~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      |....+++|.+...+.|..++..+... ...++|+.|+||||+|+.+++.+-
T Consensus        10 P~~fdeiiGqe~v~~~L~~~I~~grl~hayLf~Gp~G~GKTt~Ar~LAk~L~   61 (535)
T PRK08451         10 PKHFDELIGQESVSKTLSLALDNNRLAHAYLFSGLRGSGKTSSARIFARALV   61 (535)
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhc
Confidence            345577999999999999998876654 558999999999999999998864

>PRK05642 DNA replication initiation factor; Validated

Probab=98.25  E-value=4.3e-06  Score=68.06  Aligned_cols=91  Identities=18%  Similarity=0.250  Sum_probs=54.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNREK  194 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  194 (247)
                      ...+.|||++|+|||.|++.+++.....  -..++|++...      +...                 ...+.+.+... 
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~~~~~~--~~~v~y~~~~~------~~~~-----------------~~~~~~~~~~~-   98 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACLRFEQR--GEPAVYLPLAE------LLDR-----------------GPELLDNLEQY-   98 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHhC--CCcEEEeeHHH------HHhh-----------------hHHHHHhhhhC-
Confidence            3678999999999999999999877544  23467776432      2111                 12234444432 


Q ss_pred             cEEEEEeCCCCc---cchhh-hcccCCC-CCCCeEEEEeeCch
Q 037337          195 RILVILDNIWEH---LDLQV-VGIPHGD-DHKGCKVLFTARSL  232 (247)
Q Consensus       195 r~LlvlDdv~~~---~~~~~-l~~~~~~-~~~~s~iiiTtR~~  232 (247)
                       =+|++||+...   ..|.. +...+.. ...|.++|+|++..
T Consensus        99 -d~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~~~  140 (234)
T PRK05642         99 -ELVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAASKS  140 (234)
T ss_pred             -CEEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCCCC
Confidence             26789999743   23322 3233321 23466788888753

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.25  E-value=1.6e-05  Score=73.31  Aligned_cols=136  Identities=11%  Similarity=0.086  Sum_probs=76.3

Q ss_pred             CCCcccccchHHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHH
Q 037337           91 KGYEAFESRMSTLNDILGALRNPD-ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADK  169 (247)
Q Consensus        91 ~~~~~~~gR~~~~~~L~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~  169 (247)
                      .....++|.+.....|..++..++ ...+.++|+.|+||||+|+.+++.+-..... ....    ......+..+.+...
T Consensus        13 ~~f~~liGq~~i~~~L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~-~~~~----~~Cg~C~~C~~i~~g   87 (620)
T PRK14948         13 QRFDELVGQEAIATTLKNALISNRIAPAYLFTGPRGTGKTSSARILAKSLNCLNSD-KPTP----EPCGKCELCRAIAAG   87 (620)
T ss_pred             CcHhhccChHHHHHHHHHHHHcCCCCceEEEECCCCCChHHHHHHHHHHhcCCCcC-CCCC----CCCcccHHHHHHhcC
Confidence            345678999999999999988764 3677899999999999999999987543111 0000    011112222233222


Q ss_pred             hCCCC-----CCCChHHHHHHHHHHHc----CCCcEEEEEeCCCCc--cchhhhcccCCCCCCCeEEEEeeCc
Q 037337          170 LGLTF-----REESESGRARSLFSRLN----REKRILVILDNIWEH--LDLQVVGIPHGDDHKGCKVLFTARS  231 (247)
Q Consensus       170 l~~~~-----~~~~~~~~~~~l~~~l~----~~kr~LlvlDdv~~~--~~~~~l~~~~~~~~~~s~iiiTtR~  231 (247)
                      ...+.     ......+.+..+.+.+.    .+++-++|+|+++..  .....+...+......+.+|++|.+
T Consensus        88 ~h~D~~ei~~~~~~~vd~IReii~~a~~~p~~~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~t~~  160 (620)
T PRK14948         88 NALDVIEIDAASNTGVDNIRELIERAQFAPVQARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLATTD  160 (620)
T ss_pred             CCccEEEEeccccCCHHHHHHHHHHHhhChhcCCceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEEeCC
Confidence            21110     01111222333333331    134568899999876  3455554555444455656555543

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=98.24  E-value=6e-06  Score=71.06  Aligned_cols=52  Identities=19%  Similarity=0.109  Sum_probs=44.2

Q ss_pred             cCCCcccccchHHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           90 NKGYEAFESRMSTLNDILGALRNPD-ISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        90 ~~~~~~~~gR~~~~~~L~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      |.....++|.++..+.|...+..+. ...+.++|+.|+||||+|..+++.+-.
T Consensus        19 P~~~~~l~Gh~~a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA~~Llc   71 (351)
T PRK09112         19 PSENTRLFGHEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHILS   71 (351)
T ss_pred             CCchhhccCcHHHHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHHHHHcC
Confidence            3445678999999999999988665 457889999999999999999998765

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=98.24  E-value=1.3e-05  Score=71.43  Aligned_cols=52  Identities=19%  Similarity=0.238  Sum_probs=43.6

Q ss_pred             cCCCcccccchHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           90 NKGYEAFESRMSTLNDILGALRNPDI-SMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        90 ~~~~~~~~gR~~~~~~L~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      |....+++|.+..+..|.+++..+.. ....++|++|+||||+|+.+++.+-.
T Consensus        13 P~~~~diiGq~~~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c   65 (451)
T PRK06305         13 PQTFSEILGQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARIFAKALNC   65 (451)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCCCceEEEEEcCCCCCHHHHHHHHHHHhcC
Confidence            34557899999999999999886654 56789999999999999999998643

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=98.24  E-value=2.1e-05  Score=71.91  Aligned_cols=54  Identities=17%  Similarity=0.183  Sum_probs=44.4

Q ss_pred             cccCCCcccccchHHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           88 MSNKGYEAFESRMSTLNDILGALRNPD-ISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        88 ~~~~~~~~~~gR~~~~~~L~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      +.|....+++|.+...+.|.+++..+. .....++|+.|+|||++|+.+++.+-.
T Consensus        10 ~rP~~f~~viGq~~v~~~L~~~i~~~~~~hayLf~Gp~GtGKTt~Ak~lAkal~c   64 (559)
T PRK05563         10 WRPQTFEDVVGQEHITKTLKNAIKQGKISHAYLFSGPRGTGKTSAAKIFAKAVNC   64 (559)
T ss_pred             hCCCcHHhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence            345556789999999999999997664 455678999999999999999988653

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

Probab=98.23  E-value=3.2e-06  Score=79.38  Aligned_cols=102  Identities=19%  Similarity=0.282  Sum_probs=64.1

Q ss_pred             CcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccC-C---CCEEEEEEeCCCCCHHHHHHHHHH
Q 037337           93 YEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHK-L---FDLVVFSEMSQSPDIRKVQGEIAD  168 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~-~---f~~~~wv~~~~~~~~~~l~~~i~~  168 (247)
                      ..+++||+.++..+++.|......-+.++|++|+|||++|+.++....... .   .++.+|..     +...+    ..
T Consensus       185 ~~~liGR~~ei~~~i~iL~r~~~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l-----~~~~l----la  255 (758)
T PRK11034        185 IDPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSL-----DIGSL----LA  255 (758)
T ss_pred             CCcCcCCCHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEec-----cHHHH----hc
Confidence            456999999999999988876556677999999999999999998764321 1   13444421     11111    10


Q ss_pred             HhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          169 KLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       169 ~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                        +.. .....+.....+.+.+...++.+|+||+++..
T Consensus       256 --G~~-~~Ge~e~rl~~l~~~l~~~~~~ILfIDEIh~L  290 (758)
T PRK11034        256 --GTK-YRGDFEKRFKALLKQLEQDTNSILFIDEIHTI  290 (758)
T ss_pred             --ccc-hhhhHHHHHHHHHHHHHhcCCCEEEeccHHHH
Confidence              110 01122333444555554435689999999743

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=98.23  E-value=1.2e-05  Score=74.54  Aligned_cols=52  Identities=15%  Similarity=0.203  Sum_probs=43.0

Q ss_pred             cCCCcccccchHHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           90 NKGYEAFESRMSTLNDILGALRNPD-ISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        90 ~~~~~~~~gR~~~~~~L~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      |....+++|.+..++.|.+++..++ .....++|+.|+|||++|+.+++.+-.
T Consensus        14 P~~f~dIiGQe~~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~AriLAk~LnC   66 (725)
T PRK07133         14 PKTFDDIVGQDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIFANALNC   66 (725)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcc
Confidence            4445779999999999999998765 455678999999999999999987643

>PRK06526 transposase; Provisional

Probab=98.22  E-value=5.4e-06  Score=68.18  Aligned_cols=74  Identities=20%  Similarity=0.183  Sum_probs=44.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNREK  194 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  194 (247)
                      ...+.++|++|+|||+||..++......+ + .+.|+      +..+++..+.....    ....   ...+ ..+.  +
T Consensus        98 ~~nlll~Gp~GtGKThLa~al~~~a~~~g-~-~v~f~------t~~~l~~~l~~~~~----~~~~---~~~l-~~l~--~  159 (254)
T PRK06526         98 KENVVFLGPPGTGKTHLAIGLGIRACQAG-H-RVLFA------TAAQWVARLAAAHH----AGRL---QAEL-VKLG--R  159 (254)
T ss_pred             CceEEEEeCCCCchHHHHHHHHHHHHHCC-C-chhhh------hHHHHHHHHHHHHh----cCcH---HHHH-HHhc--c
Confidence            35689999999999999999998875442 2 23342      34455555543321    1111   1122 2232  2


Q ss_pred             cEEEEEeCCCCc
Q 037337          195 RILVILDNIWEH  206 (247)
Q Consensus       195 r~LlvlDdv~~~  206 (247)
                      .-+|||||+...
T Consensus       160 ~dlLIIDD~g~~  171 (254)
T PRK06526        160 YPLLIVDEVGYI  171 (254)
T ss_pred             CCEEEEcccccC
Confidence            368999999754

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=98.22  E-value=1.7e-05  Score=67.43  Aligned_cols=119  Identities=14%  Similarity=0.064  Sum_probs=73.9

Q ss_pred             cccchHHHHHHHHHhcC-CC-ccEEEEEcCCCCcHHHHHHHHHHHhcccCC-------------------CCEEEEEEeC
Q 037337           96 FESRMSTLNDILGALRN-PD-ISMLGICGMGGIGKTMLEKEVARKAKNHKL-------------------FDLVVFSEMS  154 (247)
Q Consensus        96 ~~gR~~~~~~L~~~L~~-~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~-------------------f~~~~wv~~~  154 (247)
                      ++|-+.....+..+... .+ ...+.++|++|+||||+|..+++.+-....                   .+.+..++.+
T Consensus         3 ~~~~~~~~~~l~~~~~~~~~~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~lel~~s   82 (325)
T COG0470           3 LVPWQEAVKRLLVQALESGRLPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFLELNPS   82 (325)
T ss_pred             cccchhHHHHHHHHHHhcCCCCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceEEeccc
Confidence            45667777778887763 33 345999999999999999999998764421                   1334445544


Q ss_pred             CCCC---HHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCcc--chhhhcccCCCCCCCeEEEEee
Q 037337          155 QSPD---IRKVQGEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEHL--DLQVVGIPHGDDHKGCKVLFTA  229 (247)
Q Consensus       155 ~~~~---~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~~--~~~~l~~~~~~~~~~s~iiiTt  229 (247)
                      ....   ..+..+.+.+.......                .++.-++++|+++...  .-..+...+......+++|++|
T Consensus        83 ~~~~~~i~~~~vr~~~~~~~~~~~----------------~~~~kviiidead~mt~~A~nallk~lEep~~~~~~il~~  146 (325)
T COG0470          83 DLRKIDIIVEQVRELAEFLSESPL----------------EGGYKVVIIDEADKLTEDAANALLKTLEEPPKNTRFILIT  146 (325)
T ss_pred             ccCCCcchHHHHHHHHHHhccCCC----------------CCCceEEEeCcHHHHhHHHHHHHHHHhccCCCCeEEEEEc
Confidence            4443   23334444433332211                1356788999998762  2344444444456677787777


Q ss_pred             C
Q 037337          230 R  230 (247)
Q Consensus       230 R  230 (247)
                      .
T Consensus       147 n  147 (325)
T COG0470         147 N  147 (325)
T ss_pred             C
Confidence            6

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=98.22  E-value=1.3e-05  Score=66.45  Aligned_cols=57  Identities=25%  Similarity=0.272  Sum_probs=39.3

Q ss_pred             HHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHH
Q 037337          101 STLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQG  164 (247)
Q Consensus       101 ~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~  164 (247)
                      ..++++..++..+  ..+.++|++|+|||+||+.++.....     ..+++++....+..+++.
T Consensus         9 ~l~~~~l~~l~~g--~~vLL~G~~GtGKT~lA~~la~~lg~-----~~~~i~~~~~~~~~dllg   65 (262)
T TIGR02640         9 RVTSRALRYLKSG--YPVHLRGPAGTGKTTLAMHVARKRDR-----PVMLINGDAELTTSDLVG   65 (262)
T ss_pred             HHHHHHHHHHhcC--CeEEEEcCCCCCHHHHHHHHHHHhCC-----CEEEEeCCccCCHHHHhh
Confidence            4455566666654  56779999999999999999975432     245667776666555543

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).

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.19  E-value=2.4e-05  Score=72.10  Aligned_cols=50  Identities=18%  Similarity=0.335  Sum_probs=42.3

Q ss_pred             CCCcccccchHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337           91 KGYEAFESRMSTLNDILGALRNPDI-SMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus        91 ~~~~~~~gR~~~~~~L~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ....+++|.+...+.|..++..+.. ....++|+.|+||||+|+.++..+.
T Consensus        14 ~~f~~viGq~~~~~~L~~~i~~~~l~hayLf~Gp~G~GKtt~A~~lAk~l~   64 (614)
T PRK14971         14 STFESVVGQEALTTTLKNAIATNKLAHAYLFCGPRGVGKTTCARIFAKTIN   64 (614)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhC
Confidence            3457799999999999999987654 4578999999999999999998764

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=98.19  E-value=5.4e-06  Score=67.11  Aligned_cols=61  Identities=11%  Similarity=0.175  Sum_probs=38.4

Q ss_pred             Ccccc-cchHHH-HHHHHHhcC-CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC
Q 037337           93 YEAFE-SRMSTL-NDILGALRN-PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQ  155 (247)
Q Consensus        93 ~~~~~-gR~~~~-~~L~~~L~~-~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~  155 (247)
                      ..+|+ |+.... ..+.++... .....+.|+|++|+|||+||+.+++.....+  ....++++..
T Consensus        17 ~d~f~~~~~~~~~~~l~~~~~~~~~~~~~~l~G~~G~GKT~La~ai~~~~~~~~--~~~~~i~~~~   80 (227)
T PRK08903         17 FDNFVAGENAELVARLRELAAGPVADRFFYLWGEAGSGRSHLLQALVADASYGG--RNARYLDAAS   80 (227)
T ss_pred             hcccccCCcHHHHHHHHHHHhccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCC--CcEEEEehHH
Confidence            34444 443333 444444432 3456889999999999999999999864431  2355665433

>CHL00181 cbbX CbbX; Provisional

Probab=98.18  E-value=2.2e-05  Score=65.83  Aligned_cols=26  Identities=23%  Similarity=0.279  Sum_probs=22.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ..+.++|++|+|||++|+.+++....
T Consensus        60 ~~ill~G~pGtGKT~lAr~la~~~~~   85 (287)
T CHL00181         60 LHMSFTGSPGTGKTTVALKMADILYK   85 (287)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHH
Confidence            35789999999999999999987643

>PRK12608 transcription termination factor Rho; Provisional

Probab=98.18  E-value=2.6e-05  Score=67.02  Aligned_cols=101  Identities=11%  Similarity=0.142  Sum_probs=66.1

Q ss_pred             HHHHHHhcC-CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCE-EEEEEeCC-CCCHHHHHHHHHHHhCCCCCCCChH
Q 037337          104 NDILGALRN-PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDL-VVFSEMSQ-SPDIRKVQGEIADKLGLTFREESES  180 (247)
Q Consensus       104 ~~L~~~L~~-~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~-~~wv~~~~-~~~~~~l~~~i~~~l~~~~~~~~~~  180 (247)
                      .++++.+.. ..-..+.|+|++|+|||||++.+++..... +.+. .+|+.+.. ..++.+++..++..+..+....+..
T Consensus       121 ~RvID~l~PiGkGQR~LIvG~pGtGKTTLl~~la~~i~~~-~~dv~~vv~lIgER~~EV~df~~~i~~~Vvast~de~~~  199 (380)
T PRK12608        121 MRVVDLVAPIGKGQRGLIVAPPRAGKTVLLQQIAAAVAAN-HPEVHLMVLLIDERPEEVTDMRRSVKGEVYASTFDRPPD  199 (380)
T ss_pred             HhhhhheeecCCCceEEEECCCCCCHHHHHHHHHHHHHhc-CCCceEEEEEecCCCCCHHHHHHHHhhhEEeecCCCCHH
Confidence            346665552 233567899999999999999999987654 2333 36666654 4577888888888776554322221


Q ss_pred             H------HHHHHHHHH-cCCCcEEEEEeCCCC
Q 037337          181 G------RARSLFSRL-NREKRILVILDNIWE  205 (247)
Q Consensus       181 ~------~~~~l~~~l-~~~kr~LlvlDdv~~  205 (247)
                      .      ......+++ ..+++++||+|++..
T Consensus       200 ~~~~v~~~~~~~Ae~f~~~GkdVVLvlDsltr  231 (380)
T PRK12608        200 EHIRVAELVLERAKRLVEQGKDVVILLDSLTR  231 (380)
T ss_pred             HHHHHHHHHHHHHHHHHHcCCCEEEEEeCcHH
Confidence            1      222333444 456889999999864

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

Probab=98.17  E-value=6.1e-06  Score=64.26  Aligned_cols=74  Identities=28%  Similarity=0.344  Sum_probs=45.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNREK  194 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  194 (247)
                      ..-+.++|++|+|||.||..+++.....+ + .+.|++      ..+++..+-.    .......    ..+.+.+..  
T Consensus        47 ~~~l~l~G~~G~GKThLa~ai~~~~~~~g-~-~v~f~~------~~~L~~~l~~----~~~~~~~----~~~~~~l~~--  108 (178)
T PF01695_consen   47 GENLILYGPPGTGKTHLAVAIANEAIRKG-Y-SVLFIT------ASDLLDELKQ----SRSDGSY----EELLKRLKR--  108 (178)
T ss_dssp             --EEEEEESTTSSHHHHHHHHHHHHHHTT----EEEEE------HHHHHHHHHC----CHCCTTH----CHHHHHHHT--
T ss_pred             CeEEEEEhhHhHHHHHHHHHHHHHhccCC-c-ceeEee------cCceeccccc----cccccch----hhhcCcccc--
Confidence            36799999999999999999999876642 3 356664      3455544432    2222222    233444544  


Q ss_pred             cEEEEEeCCCCc
Q 037337          195 RILVILDNIWEH  206 (247)
Q Consensus       195 r~LlvlDdv~~~  206 (247)
                      -=||||||+-..
T Consensus       109 ~dlLilDDlG~~  120 (178)
T PF01695_consen  109 VDLLILDDLGYE  120 (178)
T ss_dssp             SSCEEEETCTSS
T ss_pred             ccEeccccccee
Confidence            358889998654

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.

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

Probab=98.16  E-value=2e-05  Score=64.82  Aligned_cols=84  Identities=18%  Similarity=0.217  Sum_probs=55.5

Q ss_pred             HHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHH
Q 037337          104 NDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRA  183 (247)
Q Consensus       104 ~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~  183 (247)
                      ..+.+++.  +..-+.++|++|+|||.||..+++.+. +..+ .+.|+      +..+++..|.......       ...
T Consensus        96 ~~~~~~~~--~~~nl~l~G~~G~GKThLa~Ai~~~l~-~~g~-sv~f~------~~~el~~~Lk~~~~~~-------~~~  158 (254)
T COG1484          96 ASLVEFFE--RGENLVLLGPPGVGKTHLAIAIGNELL-KAGI-SVLFI------TAPDLLSKLKAAFDEG-------RLE  158 (254)
T ss_pred             HHHHHHhc--cCCcEEEECCCCCcHHHHHHHHHHHHH-HcCC-eEEEE------EHHHHHHHHHHHHhcC-------chH
Confidence            33455555  457889999999999999999999988 4223 34554      4566777776666431       112


Q ss_pred             HHHHHHHcCCCcEEEEEeCCCCc
Q 037337          184 RSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       184 ~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                      ..+.+.+..  -=||||||+-..
T Consensus       159 ~~l~~~l~~--~dlLIiDDlG~~  179 (254)
T COG1484         159 EKLLRELKK--VDLLIIDDIGYE  179 (254)
T ss_pred             HHHHHHhhc--CCEEEEecccCc
Confidence            334443433  359999998653

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=98.15  E-value=3e-05  Score=70.71  Aligned_cols=53  Identities=17%  Similarity=0.283  Sum_probs=44.1

Q ss_pred             ccCCCcccccchHHHHHHHHHhcCCCc-cEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           89 SNKGYEAFESRMSTLNDILGALRNPDI-SMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        89 ~~~~~~~~~gR~~~~~~L~~~L~~~~~-~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      .|....+++|.+..+..|..++.++.. ....++|+.|+||||+|+.+++.+-.
T Consensus        11 RP~~f~diiGqe~iv~~L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c   64 (563)
T PRK06647         11 RPRDFNSLEGQDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARAFARCLNC   64 (563)
T ss_pred             CCCCHHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhcc
Confidence            344557899999999999999987654 46789999999999999999998653

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

Probab=98.15  E-value=2.2e-05  Score=71.66  Aligned_cols=102  Identities=21%  Similarity=0.205  Sum_probs=65.6

Q ss_pred             CcccccchHHHHHHHHHhc------CCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHH
Q 037337           93 YEAFESRMSTLNDILGALR------NPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEI  166 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L~------~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i  166 (247)
                      ..+-.|-++..+++++.|.      +-+-+++.++||||+|||+|++.+++.....  |   +-++++.-.+..++-.  
T Consensus       322 d~dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al~Rk--f---vR~sLGGvrDEAEIRG--  394 (782)
T COG0466         322 DKDHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKALGRK--F---VRISLGGVRDEAEIRG--  394 (782)
T ss_pred             cccccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHHhCCC--E---EEEecCccccHHHhcc--
Confidence            4456788888888888874      2245899999999999999999999988765  3   3345555555444211  


Q ss_pred             HHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          167 ADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       167 ~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                         .....-+.-+...++.+.+.  +.++-+++||+++..
T Consensus       395 ---HRRTYIGamPGrIiQ~mkka--~~~NPv~LLDEIDKm  429 (782)
T COG0466         395 ---HRRTYIGAMPGKIIQGMKKA--GVKNPVFLLDEIDKM  429 (782)
T ss_pred             ---ccccccccCChHHHHHHHHh--CCcCCeEEeechhhc
Confidence               11111122233344444443  235689999999854

>PRK09087 hypothetical protein; Validated

Probab=98.15  E-value=7.5e-06  Score=66.25  Aligned_cols=26  Identities=27%  Similarity=0.270  Sum_probs=22.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ..+.+.|||++|+|||+|++.++...
T Consensus        43 ~~~~l~l~G~~GsGKThLl~~~~~~~   68 (226)
T PRK09087         43 PSPVVVLAGPVGSGKTHLASIWREKS   68 (226)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHhc
Confidence            34679999999999999999988754

>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=98.14  E-value=8.8e-06  Score=64.42  Aligned_cols=133  Identities=17%  Similarity=0.223  Sum_probs=63.2

Q ss_pred             ccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCC--CCH----HH-------HH
Q 037337           97 ESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQS--PDI----RK-------VQ  163 (247)
Q Consensus        97 ~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~--~~~----~~-------l~  163 (247)
                      .++..+....++.|.  ...++.+.|++|+|||.||...+-+.-....|+.++++.-.-.  .++    .+       .+
T Consensus         3 ~p~~~~Q~~~~~al~--~~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v~~~~~lGflpG~~~eK~~p~~   80 (205)
T PF02562_consen    3 KPKNEEQKFALDALL--NNDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPVEAGEDLGFLPGDLEEKMEPYL   80 (205)
T ss_dssp             ---SHHHHHHHHHHH--H-SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--TT----SS---------TTT
T ss_pred             cCCCHHHHHHHHHHH--hCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCCCCccccccCCCCHHHHHHHHH
Confidence            345566677777776  4479999999999999999999987655567888887733221  100    00       11


Q ss_pred             HHHHHHhCCCCCCCChHHHHHH------HHHHHcC--CCcEEEEEeCCCCc--cchhhhcccCCCCCCCeEEEEeeCchh
Q 037337          164 GEIADKLGLTFREESESGRARS------LFSRLNR--EKRILVILDNIWEH--LDLQVVGIPHGDDHKGCKVLFTARSLD  233 (247)
Q Consensus       164 ~~i~~~l~~~~~~~~~~~~~~~------l~~~l~~--~kr~LlvlDdv~~~--~~~~~l~~~~~~~~~~s~iiiTtR~~~  233 (247)
                      .-+...+..-..........+.      -..++++  =+..+||+|++++.  .++..+   +-..+.+|++|++--...
T Consensus        81 ~p~~d~l~~~~~~~~~~~~~~~~~Ie~~~~~~iRGrt~~~~~iIvDEaQN~t~~~~k~i---lTR~g~~skii~~GD~~Q  157 (205)
T PF02562_consen   81 RPIYDALEELFGKEKLEELIQNGKIEIEPLAFIRGRTFDNAFIIVDEAQNLTPEELKMI---LTRIGEGSKIIITGDPSQ  157 (205)
T ss_dssp             HHHHHHHTTTS-TTCHHHHHHTTSEEEEEGGGGTT--B-SEEEEE-SGGG--HHHHHHH---HTTB-TT-EEEEEE----
T ss_pred             HHHHHHHHHHhChHhHHHHhhcCeEEEEehhhhcCccccceEEEEecccCCCHHHHHHH---HcccCCCcEEEEecCcee
Confidence            1122222211111111111110      0011111  12488999999886  345444   334578999999865444


Q ss_pred             h
Q 037337          234 V  234 (247)
Q Consensus       234 v  234 (247)
                      +
T Consensus       158 ~  158 (205)
T PF02562_consen  158 I  158 (205)
T ss_dssp             -
T ss_pred             e
Confidence            3

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

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=98.13  E-value=2.6e-05  Score=59.09  Aligned_cols=40  Identities=23%  Similarity=0.339  Sum_probs=31.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCC
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPD  158 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~  158 (247)
                      ++.|+|++|+|||+++..++......  -..++|++......
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~~~~--~~~v~~~~~e~~~~   40 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNIATK--GGKVVYVDIEEEIE   40 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHHHhc--CCEEEEEECCcchH
Confidence            36799999999999999999987653  35678887765543

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.

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

Probab=98.12  E-value=1.5e-05  Score=69.94  Aligned_cols=114  Identities=21%  Similarity=0.220  Sum_probs=73.4

Q ss_pred             cchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCC-CHHHHHHHHHHHhCCCCCC
Q 037337           98 SRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSP-DIRKVQGEIADKLGLTFRE  176 (247)
Q Consensus        98 gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~l~~~i~~~l~~~~~~  176 (247)
                      .|...+.++.+.+..... ++.|+|+.++||||+++.+.......     .++++..+.. +..++ .+.          
T Consensus        21 ~~~~~~~~l~~~~~~~~~-i~~i~GpR~~GKTtll~~l~~~~~~~-----~iy~~~~d~~~~~~~l-~d~----------   83 (398)
T COG1373          21 ERRKLLPRLIKKLDLRPF-IILILGPRQVGKTTLLKLLIKGLLEE-----IIYINFDDLRLDRIEL-LDL----------   83 (398)
T ss_pred             hHHhhhHHHHhhcccCCc-EEEEECCccccHHHHHHHHHhhCCcc-----eEEEEecchhcchhhH-HHH----------
Confidence            345666667776665544 99999999999999996666554432     4555433322 21121 111          


Q ss_pred             CChHHHHHHHHHHHcCCCcEEEEEeCCCCccchhhhcccCCCCCCCeEEEEeeCchhhhh
Q 037337          177 ESESGRARSLFSRLNREKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTARSLDVLS  236 (247)
Q Consensus       177 ~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~~~~~~l~~~~~~~~~~s~iiiTtR~~~va~  236 (247)
                            ...+.+.-.. ++.+++||+|+....|......+.+.++. +|++|+-+..+..
T Consensus        84 ------~~~~~~~~~~-~~~yifLDEIq~v~~W~~~lk~l~d~~~~-~v~itgsss~ll~  135 (398)
T COG1373          84 ------LRAYIELKER-EKSYIFLDEIQNVPDWERALKYLYDRGNL-DVLITGSSSSLLS  135 (398)
T ss_pred             ------HHHHHHhhcc-CCceEEEecccCchhHHHHHHHHHccccc-eEEEECCchhhhc
Confidence                  1111111122 46899999999999998876777666666 8999998877754

>PRK06835 DNA replication protein DnaC; Validated

Probab=98.12  E-value=0.00012  Score=62.52  Aligned_cols=100  Identities=14%  Similarity=0.141  Sum_probs=56.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNREKR  195 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr  195 (247)
                      ..+.++|++|+|||+||..+++......  -.++|+++      .+++..+..... ... ...   . ...+.+..  -
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~~l~~~g--~~V~y~t~------~~l~~~l~~~~~-~~~-~~~---~-~~~~~l~~--~  247 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAKELLDRG--KSVIYRTA------DELIEILREIRF-NND-KEL---E-EVYDLLIN--C  247 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHHHHCC--CeEEEEEH------HHHHHHHHHHHh-ccc-hhH---H-HHHHHhcc--C
Confidence            7799999999999999999999886552  24667643      344444433211 100 111   1 11344444  2


Q ss_pred             EEEEEeCCCCc--cch--hhhcccCCC-CCCCeEEEEeeCc
Q 037337          196 ILVILDNIWEH--LDL--QVVGIPHGD-DHKGCKVLFTARS  231 (247)
Q Consensus       196 ~LlvlDdv~~~--~~~--~~l~~~~~~-~~~~s~iiiTtR~  231 (247)
                      =||||||+...  ..|  ..+...+.. ...+..+||||..
T Consensus       248 DLLIIDDlG~e~~t~~~~~~Lf~iin~R~~~~k~tIiTSNl  288 (329)
T PRK06835        248 DLLIIDDLGTEKITEFSKSELFNLINKRLLRQKKMIISTNL  288 (329)
T ss_pred             CEEEEeccCCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCC
Confidence            58999999543  222  222222221 1224457888764

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=98.10  E-value=2e-05  Score=62.86  Aligned_cols=87  Identities=20%  Similarity=0.167  Sum_probs=55.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHh-CC---C---CCCCCh---HHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKL-GL---T---FREESE---SGRAR  184 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l-~~---~---~~~~~~---~~~~~  184 (247)
                      ..++.|+|++|+|||+|+.+++......  ...++|++... ++...+.+ ++... ..   .   .+..+.   .....
T Consensus        12 g~i~~i~G~~GsGKT~l~~~~~~~~~~~--g~~v~yi~~e~-~~~~rl~~-~~~~~~~~~~~~i~~~~~~~~~~~~~~~~   87 (209)
T TIGR02237        12 GTITQIYGPPGSGKTNICMILAVNAARQ--GKKVVYIDTEG-LSPERFKQ-IAEDRPERALSNFIVFEVFDFDEQGVAIQ   87 (209)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhC--CCeEEEEECCC-CCHHHHHH-HHHhChHHHhcCEEEEECCCHHHHHHHHH
Confidence            5789999999999999999998876544  45789998875 55555443 33221 00   0   001121   22345


Q ss_pred             HHHHHHcCCCcEEEEEeCCCC
Q 037337          185 SLFSRLNREKRILVILDNIWE  205 (247)
Q Consensus       185 ~l~~~l~~~kr~LlvlDdv~~  205 (247)
                      .+.+.+...+.-+||+|.+..
T Consensus        88 ~l~~~~~~~~~~lvVIDSis~  108 (209)
T TIGR02237        88 KTSKFIDRDSASLVVVDSFTA  108 (209)
T ss_pred             HHHHHHhhcCccEEEEeCcHH
Confidence            555555443457899999864

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

>PRK09183 transposase/IS protein; Provisional

Probab=98.09  E-value=8.7e-05  Score=61.32  Aligned_cols=27  Identities=26%  Similarity=0.346  Sum_probs=23.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      ..+.|+|++|+|||+||..++......
T Consensus       103 ~~v~l~Gp~GtGKThLa~al~~~a~~~  129 (259)
T PRK09183        103 ENIVLLGPSGVGKTHLAIALGYEAVRA  129 (259)
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHHHHHc
Confidence            567899999999999999998875443

>TIGR00602 rad24 checkpoint protein rad24

Probab=98.08  E-value=6.1e-06  Score=75.82  Aligned_cols=52  Identities=15%  Similarity=0.201  Sum_probs=43.0

Q ss_pred             ccCCCcccccchHHHHHHHHHhcCC-----CccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337           89 SNKGYEAFESRMSTLNDILGALRNP-----DISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus        89 ~~~~~~~~~gR~~~~~~L~~~L~~~-----~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .|....+++|.++.++.+..|+...     ...++.|+|++|+||||+++.++....
T Consensus        79 rP~~ldel~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l~  135 (637)
T TIGR00602        79 KPETQHELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKELG  135 (637)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHhh
Confidence            3455678999999999999988642     345799999999999999999998764

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

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=98.08  E-value=2.6e-05  Score=65.30  Aligned_cols=27  Identities=22%  Similarity=0.274  Sum_probs=22.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      .-+.++|++|+|||++|+.+++.....
T Consensus        59 ~~vll~G~pGTGKT~lA~~ia~~l~~~   85 (284)
T TIGR02880        59 LHMSFTGNPGTGKTTVALRMAQILHRL   85 (284)
T ss_pred             ceEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            368899999999999999988876543

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.

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=98.08  E-value=1.4e-05  Score=76.25  Aligned_cols=107  Identities=18%  Similarity=0.189  Sum_probs=61.8

Q ss_pred             CcccccchHHHHHHHHHhc-------CC--CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHH
Q 037337           93 YEAFESRMSTLNDILGALR-------NP--DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQ  163 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L~-------~~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~  163 (247)
                      ...++|.+..++.+.+.+.       ++  +..++.++|++|+|||.||+.++..+-..  ....+-++++.....    
T Consensus       565 ~~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~~~--~~~~~~~dmse~~~~----  638 (852)
T TIGR03345       565 AERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELLYGG--EQNLITINMSEFQEA----  638 (852)
T ss_pred             cCeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHHhCC--CcceEEEeHHHhhhh----
Confidence            3568899998888877763       11  23468899999999999999999886433  222333343322111    


Q ss_pred             HHHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          164 GEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       164 ~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                      ..+.+.+|.+....... ....+.+.++.....+|+||+++..
T Consensus       639 ~~~~~l~g~~~gyvg~~-~~g~L~~~v~~~p~svvllDEieka  680 (852)
T TIGR03345       639 HTVSRLKGSPPGYVGYG-EGGVLTEAVRRKPYSVVLLDEVEKA  680 (852)
T ss_pred             hhhccccCCCCCccccc-ccchHHHHHHhCCCcEEEEechhhc
Confidence            11222233322211110 0112444554446689999999865

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.

>PHA00729 NTP-binding motif containing protein

Probab=98.06  E-value=3.2e-05  Score=62.00  Aligned_cols=35  Identities=34%  Similarity=0.352  Sum_probs=28.0

Q ss_pred             HHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          106 ILGALRNPDISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       106 L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      +.+.+...+...++|+|.+|+||||||..+++..-
T Consensus         8 ~~~~l~~~~f~nIlItG~pGvGKT~LA~aLa~~l~   42 (226)
T PHA00729          8 IVSAYNNNGFVSAVIFGKQGSGKTTYALKVARDVF   42 (226)
T ss_pred             HHHHHhcCCeEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            44445555566799999999999999999998753

>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=98.05  E-value=3e-05  Score=62.81  Aligned_cols=36  Identities=28%  Similarity=0.329  Sum_probs=30.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEe
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEM  153 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~  153 (247)
                      -.++|.|.+|+|||+|+..+.......  |+++++++-
T Consensus        14 fr~viIG~sGSGKT~li~~lL~~~~~~--f~~I~l~t~   49 (241)
T PF04665_consen   14 FRMVIIGKSGSGKTTLIKSLLYYLRHK--FDHIFLITP   49 (241)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHhhccc--CCEEEEEec
Confidence            467899999999999999999887766  877776644

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

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=98.05  E-value=0.00017  Score=60.32  Aligned_cols=86  Identities=17%  Similarity=0.208  Sum_probs=49.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCC-CHHHHHHHHHHHhCCCCCCC-ChHHHHHHHHHHHcC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSP-DIRKVQGEIADKLGLTFREE-SESGRARSLFSRLNR  192 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~l~~~i~~~l~~~~~~~-~~~~~~~~l~~~l~~  192 (247)
                      ..+++++|++|+||||++..++..+.....-..+..++..... ...+-+....+.++.+.... +... .....+.+..
T Consensus       194 ~~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~D~~r~~a~eql~~~~~~~~~p~~~~~~~~~-l~~~l~~~~~  272 (282)
T TIGR03499       194 GGVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITTDTYRIGAVEQLKTYAKILGVPVKVARDPKE-LRKALDRLRD  272 (282)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEECCccchhHHHHHHHHHHHhCCceeccCCHHH-HHHHHHHccC
Confidence            4689999999999999999999887543111245666655432 12233333444455443322 2233 3333344433


Q ss_pred             CCcEEEEEeCC
Q 037337          193 EKRILVILDNI  203 (247)
Q Consensus       193 ~kr~LlvlDdv  203 (247)
                        .=+|++|..
T Consensus       273 --~d~vliDt~  281 (282)
T TIGR03499       273 --KDLILIDTA  281 (282)
T ss_pred             --CCEEEEeCC
Confidence              357777753

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

Probab=98.05  E-value=7.1e-05  Score=60.50  Aligned_cols=119  Identities=13%  Similarity=0.157  Sum_probs=73.8

Q ss_pred             cCCCcccccchHHHHHHHH----HhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCC--CCHHHHH
Q 037337           90 NKGYEAFESRMSTLNDILG----ALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQS--PDIRKVQ  163 (247)
Q Consensus        90 ~~~~~~~~gR~~~~~~L~~----~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~--~~~~~l~  163 (247)
                      +.+...++|-+.+.+.|.+    ++...+..-+.+||..|+|||+|++.+.+.+..+.    .--|.+...  .+     
T Consensus        23 ~~~l~~L~Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y~~~G----LRlIev~k~~L~~-----   93 (249)
T PF05673_consen   23 PIRLDDLIGIERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEYADQG----LRLIEVSKEDLGD-----   93 (249)
T ss_pred             CCCHHHhcCHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHHhhcC----ceEEEECHHHhcc-----
Confidence            3455779998888887755    34455677888999999999999999999888763    222333321  12     


Q ss_pred             HHHHHHhCCCCCCCChHHHHHHHHHHHc-CCCcEEEEEeCCCCc---cchhhhcccC----CCCCCCeEEEEeeCchhhh
Q 037337          164 GEIADKLGLTFREESESGRARSLFSRLN-REKRILVILDNIWEH---LDLQVVGIPH----GDDHKGCKVLFTARSLDVL  235 (247)
Q Consensus       164 ~~i~~~l~~~~~~~~~~~~~~~l~~~l~-~~kr~LlvlDdv~~~---~~~~~l~~~~----~~~~~~s~iiiTtR~~~va  235 (247)
                                         +..+.+.|. ...|++|.+||+.=.   .....+...+    ...+.+..|..||..+.+.
T Consensus        94 -------------------l~~l~~~l~~~~~kFIlf~DDLsFe~~d~~yk~LKs~LeGgle~~P~NvliyATSNRRHLv  154 (249)
T PF05673_consen   94 -------------------LPELLDLLRDRPYKFILFCDDLSFEEGDTEYKALKSVLEGGLEARPDNVLIYATSNRRHLV  154 (249)
T ss_pred             -------------------HHHHHHHHhcCCCCEEEEecCCCCCCCcHHHHHHHHHhcCccccCCCcEEEEEecchhhcc
Confidence                               222333332 235799999998522   2233332222    2335567677777666555


Q ss_pred             h
Q 037337          236 S  236 (247)
Q Consensus       236 ~  236 (247)
                      .
T Consensus       155 ~  155 (249)
T PF05673_consen  155 P  155 (249)
T ss_pred             c
Confidence            4

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=98.04  E-value=1.2e-05  Score=71.48  Aligned_cols=103  Identities=16%  Similarity=0.118  Sum_probs=61.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNREK  194 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  194 (247)
                      ...+.|+|..|+|||+|++.+++.+.....-..++|++      ..++...+...++..      ......+.+.+..  
T Consensus       141 ~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~------~~~f~~~~~~~l~~~------~~~~~~~~~~~~~--  206 (450)
T PRK14087        141 YNPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMS------GDEFARKAVDILQKT------HKEIEQFKNEICQ--  206 (450)
T ss_pred             cCceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEE------HHHHHHHHHHHHHHh------hhHHHHHHHHhcc--
Confidence            45689999999999999999999765432223456654      345666666665421      0223444454443  


Q ss_pred             cEEEEEeCCCCcc---c-hhhhcccCCC-CCCCeEEEEeeCc
Q 037337          195 RILVILDNIWEHL---D-LQVVGIPHGD-DHKGCKVLFTARS  231 (247)
Q Consensus       195 r~LlvlDdv~~~~---~-~~~l~~~~~~-~~~~s~iiiTtR~  231 (247)
                      .-+|+|||+....   . .+.+...+.. ...+..||+||..
T Consensus       207 ~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd~  248 (450)
T PRK14087        207 NDVLIIDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSDK  248 (450)
T ss_pred             CCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECCC
Confidence            3588999997542   1 2233232221 1334568888754

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

Probab=98.04  E-value=3.3e-05  Score=72.95  Aligned_cols=103  Identities=16%  Similarity=0.226  Sum_probs=60.6

Q ss_pred             cccccchHHHHHHHHHhcC-------C--CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHH
Q 037337           94 EAFESRMSTLNDILGALRN-------P--DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQG  164 (247)
Q Consensus        94 ~~~~gR~~~~~~L~~~L~~-------~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~  164 (247)
                      ..++|.+..++.+.+.+..       +  ....+.++|++|+|||.||+.+++.+..     ..+.++++......    
T Consensus       454 ~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l~~-----~~~~~d~se~~~~~----  524 (731)
T TIGR02639       454 AKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEALGV-----HLERFDMSEYMEKH----  524 (731)
T ss_pred             cceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHhcC-----CeEEEeCchhhhcc----
Confidence            4577888888887776641       1  2345789999999999999999987732     24555554432211    


Q ss_pred             HHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          165 EIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       165 ~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                      .+...++.+...... +....+.+.+......+|+||+++..
T Consensus       525 ~~~~lig~~~gyvg~-~~~~~l~~~~~~~p~~VvllDEieka  565 (731)
T TIGR02639       525 TVSRLIGAPPGYVGF-EQGGLLTEAVRKHPHCVLLLDEIEKA  565 (731)
T ss_pred             cHHHHhcCCCCCccc-chhhHHHHHHHhCCCeEEEEechhhc
Confidence            112223322111111 11223445554445579999999865

>PRK08118 topology modulation protein; Reviewed

Probab=98.03  E-value=3.7e-06  Score=64.82  Aligned_cols=35  Identities=23%  Similarity=0.436  Sum_probs=28.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhccc-CCCCEEEE
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNH-KLFDLVVF  150 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~-~~f~~~~w  150 (247)
                      ..|.|+|++|+||||||+.+++..... -+||..+|
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~   37 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFW   37 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCCceecchhhc
Confidence            358899999999999999999997654 34677775

>TIGR00763 lon ATP-dependent protease La

Probab=98.02  E-value=5.9e-05  Score=71.68  Aligned_cols=49  Identities=27%  Similarity=0.304  Sum_probs=38.0

Q ss_pred             cccccchHHHHHHHHHhc------CCCccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337           94 EAFESRMSTLNDILGALR------NPDISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus        94 ~~~~gR~~~~~~L~~~L~------~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      ..++|.+...+.+.+++.      ..+...+.++|++|+|||++|+.+++.....
T Consensus       320 ~~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~l~~~  374 (775)
T TIGR00763       320 EDHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKALNRK  374 (775)
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHHhcCC
Confidence            447788888888877653      1134578999999999999999999987543

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.

>PRK10865 protein disaggregation chaperone; Provisional

Probab=98.02  E-value=3.2e-05  Score=74.05  Aligned_cols=106  Identities=20%  Similarity=0.211  Sum_probs=61.1

Q ss_pred             cccccchHHHHHHHHHhcC-------C--CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHH
Q 037337           94 EAFESRMSTLNDILGALRN-------P--DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQG  164 (247)
Q Consensus        94 ~~~~gR~~~~~~L~~~L~~-------~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~  164 (247)
                      ..++|.+..++.+...+..       +  +...+.++|++|+|||+||+.+++..-..  ....+.++++..... .   
T Consensus       568 ~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l~~~--~~~~i~id~se~~~~-~---  641 (857)
T PRK10865        568 HRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFMFDS--DDAMVRIDMSEFMEK-H---  641 (857)
T ss_pred             CeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHhhcC--CCcEEEEEhHHhhhh-h---
Confidence            4588999888888777641       1  12468899999999999999999876433  223455555433211 1   


Q ss_pred             HHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          165 EIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       165 ~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                      .+.+.+|.+........ ...+.+.+.....-+|+||+++..
T Consensus       642 ~~~~LiG~~pgy~g~~~-~g~l~~~v~~~p~~vLllDEieka  682 (857)
T PRK10865        642 SVSRLVGAPPGYVGYEE-GGYLTEAVRRRPYSVILLDEVEKA  682 (857)
T ss_pred             hHHHHhCCCCcccccch-hHHHHHHHHhCCCCeEEEeehhhC
Confidence            12222343222111111 122344443333478999999855

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

Probab=98.02  E-value=0.00013  Score=66.62  Aligned_cols=102  Identities=19%  Similarity=0.242  Sum_probs=65.4

Q ss_pred             CcccccchHHHHHHHHHhc------CCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHH
Q 037337           93 YEAFESRMSTLNDILGALR------NPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEI  166 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L~------~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i  166 (247)
                      ..+-.|-++..+++++++.      +-+-.++..+||+|+|||++|+.+++.+..+  |   +-++++.-.+..++-.. 
T Consensus       410 deDHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~ALnRk--F---fRfSvGG~tDvAeIkGH-  483 (906)
T KOG2004|consen  410 DEDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARALNRK--F---FRFSVGGMTDVAEIKGH-  483 (906)
T ss_pred             cccccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHHhCCc--e---EEEeccccccHHhhccc-
Confidence            4556777888888888774      2246899999999999999999999988755  3   34566766666553211 


Q ss_pred             HHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          167 ADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       167 ~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                          ....-+.-+...++.|... +. .+-|+.||+|+..
T Consensus       484 ----RRTYVGAMPGkiIq~LK~v-~t-~NPliLiDEvDKl  517 (906)
T KOG2004|consen  484 ----RRTYVGAMPGKIIQCLKKV-KT-ENPLILIDEVDKL  517 (906)
T ss_pred             ----ceeeeccCChHHHHHHHhh-CC-CCceEEeehhhhh
Confidence                1111112223333333332 22 3578899998854

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=98.02  E-value=2.8e-05  Score=74.56  Aligned_cols=107  Identities=21%  Similarity=0.218  Sum_probs=63.2

Q ss_pred             CcccccchHHHHHHHHHhcCC---------CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHH
Q 037337           93 YEAFESRMSTLNDILGALRNP---------DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQ  163 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L~~~---------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~  163 (247)
                      ...++|.+..++.+...+...         ....+.++|++|+|||++|+.++......  ....+.++++.......  
T Consensus       564 ~~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~~~--~~~~i~~d~s~~~~~~~--  639 (852)
T TIGR03346       564 HERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFLFDD--EDAMVRIDMSEYMEKHS--  639 (852)
T ss_pred             hcccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhcCC--CCcEEEEechhhcccch--
Confidence            345889999998888877521         13567899999999999999999876543  22345566554322111  


Q ss_pred             HHHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          164 GEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       164 ~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                        +...+|.+....... ....+.+.+......+|+||+++..
T Consensus       640 --~~~l~g~~~g~~g~~-~~g~l~~~v~~~p~~vlllDeieka  679 (852)
T TIGR03346       640 --VARLIGAPPGYVGYE-EGGQLTEAVRRKPYSVVLFDEVEKA  679 (852)
T ss_pred             --HHHhcCCCCCccCcc-cccHHHHHHHcCCCcEEEEeccccC
Confidence              112223222111110 0123444443334468999999865

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.

>PRK04296 thymidine kinase; Provisional

Probab=98.01  E-value=1.2e-05  Score=63.32  Aligned_cols=112  Identities=18%  Similarity=0.097  Sum_probs=64.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCC---CChHHHHHHHHHHHcC
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFRE---ESESGRARSLFSRLNR  192 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~---~~~~~~~~~l~~~l~~  192 (247)
                      .++.++|+.|.||||++..++.+....  ...++++.  +..+.......++..++.....   ....+....+.+  ..
T Consensus         3 ~i~litG~~GsGKTT~~l~~~~~~~~~--g~~v~i~k--~~~d~~~~~~~i~~~lg~~~~~~~~~~~~~~~~~~~~--~~   76 (190)
T PRK04296          3 KLEFIYGAMNSGKSTELLQRAYNYEER--GMKVLVFK--PAIDDRYGEGKVVSRIGLSREAIPVSSDTDIFELIEE--EG   76 (190)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHHHc--CCeEEEEe--ccccccccCCcEecCCCCcccceEeCChHHHHHHHHh--hC
Confidence            477899999999999999999988654  22334342  1112122233455555543322   223333444443  23


Q ss_pred             CCcEEEEEeCCCCc--cchhhhcccCCCCCCCeEEEEeeCchhhh
Q 037337          193 EKRILVILDNIWEH--LDLQVVGIPHGDDHKGCKVLFTARSLDVL  235 (247)
Q Consensus       193 ~kr~LlvlDdv~~~--~~~~~l~~~~~~~~~~s~iiiTtR~~~va  235 (247)
                      ++.-+||+|++.-.  +++..+...+  ...|..|++|.++.+..
T Consensus        77 ~~~dvviIDEaq~l~~~~v~~l~~~l--~~~g~~vi~tgl~~~~~  119 (190)
T PRK04296         77 EKIDCVLIDEAQFLDKEQVVQLAEVL--DDLGIPVICYGLDTDFR  119 (190)
T ss_pred             CCCCEEEEEccccCCHHHHHHHHHHH--HHcCCeEEEEecCcccc
Confidence            34458999999653  2233332221  34688899999996653

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=98.01  E-value=5.3e-05  Score=61.53  Aligned_cols=90  Identities=22%  Similarity=0.172  Sum_probs=57.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCC----CCEEEEEEeCCCCCHHHHHHHHHHHhCCCCC----------CCCh-
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKL----FDLVVFSEMSQSPDIRKVQGEIADKLGLTFR----------EESE-  179 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~----f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~----------~~~~-  179 (247)
                      ..++.|+|++|+|||+|+.+++........    ...++|++....++..++ .+++..++....          ..+. 
T Consensus        19 g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl-~~~~~~~~~~~~~~~~~i~~~~~~~~~   97 (235)
T cd01123          19 GSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERL-VQIAERFGLDPEEVLDNIYVARAYNSD   97 (235)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHH-HHHHHHhccChHhHhcCEEEEecCCHH
Confidence            478999999999999999999865432211    256899998877665544 333444332211          0112 


Q ss_pred             --HHHHHHHHHHHcCC-CcEEEEEeCCCC
Q 037337          180 --SGRARSLFSRLNRE-KRILVILDNIWE  205 (247)
Q Consensus       180 --~~~~~~l~~~l~~~-kr~LlvlDdv~~  205 (247)
                        ......+.+.+... +.-+||+|.+..
T Consensus        98 ~l~~~l~~l~~~l~~~~~~~liVIDSis~  126 (235)
T cd01123          98 HQLQLLEELEAILIESSRIKLVIVDSVTA  126 (235)
T ss_pred             HHHHHHHHHHHHHhhcCCeeEEEEeCcHH
Confidence              23334555556554 678999999864

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 .

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=98.00  E-value=2.8e-05  Score=69.08  Aligned_cols=101  Identities=14%  Similarity=0.186  Sum_probs=58.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNREK  194 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  194 (247)
                      ...+.|||++|+|||+|++.+++.......-..++|+++      .++...+...+...    +    ...+.+.+.. +
T Consensus       130 ~n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~------~~f~~~~~~~~~~~----~----~~~f~~~~~~-~  194 (440)
T PRK14088        130 YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITS------EKFLNDLVDSMKEG----K----LNEFREKYRK-K  194 (440)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH------HHHHHHHHHHHhcc----c----HHHHHHHHHh-c
Confidence            456999999999999999999998765421124677754      34555555555321    1    1223333332 2


Q ss_pred             cEEEEEeCCCCccc---h-hhhcccCCC-CCCCeEEEEeeC
Q 037337          195 RILVILDNIWEHLD---L-QVVGIPHGD-DHKGCKVLFTAR  230 (247)
Q Consensus       195 r~LlvlDdv~~~~~---~-~~l~~~~~~-~~~~s~iiiTtR  230 (247)
                      .-+|+|||++....   . ..+...+.. ...|..||+||.
T Consensus       195 ~dvLlIDDi~~l~~~~~~q~elf~~~n~l~~~~k~iIitsd  235 (440)
T PRK14088        195 VDVLLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSD  235 (440)
T ss_pred             CCEEEEechhhhcCcHHHHHHHHHHHHHHHHcCCeEEEECC
Confidence            45899999985421   1 122222211 123456888874

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

Probab=98.00  E-value=3.4e-05  Score=69.21  Aligned_cols=94  Identities=18%  Similarity=0.235  Sum_probs=61.5

Q ss_pred             CcccccchHHHHHHHHHhc---C---------CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHH
Q 037337           93 YEAFESRMSTLNDILGALR---N---------PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIR  160 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L~---~---------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~  160 (247)
                      ..++=|-+..+.+|.+.+.   .         ..++-|.++|++|+|||.||+.++.++.+.  |     +.++...   
T Consensus       189 f~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~vP--f-----~~isApe---  258 (802)
T KOG0733|consen  189 FSDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELGVP--F-----LSISAPE---  258 (802)
T ss_pred             hhhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhcCCc--e-----Eeecchh---
Confidence            4456778888877766553   1         246789999999999999999999988875  3     3332221   


Q ss_pred             HHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          161 KVQGEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       161 ~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                       +    ...    .. ...++.+..+++...+.-++++++|+++-.
T Consensus       259 -i----vSG----vS-GESEkkiRelF~~A~~~aPcivFiDeIDAI  294 (802)
T KOG0733|consen  259 -I----VSG----VS-GESEKKIRELFDQAKSNAPCIVFIDEIDAI  294 (802)
T ss_pred             -h----hcc----cC-cccHHHHHHHHHHHhccCCeEEEeeccccc
Confidence             1    111    11 122344555665555557899999999843

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

Probab=98.00  E-value=3.1e-05  Score=67.78  Aligned_cols=93  Identities=20%  Similarity=0.239  Sum_probs=56.2

Q ss_pred             CcccccchHHHHHHHHHhc----C---------CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCH
Q 037337           93 YEAFESRMSTLNDILGALR----N---------PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDI  159 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L~----~---------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~  159 (247)
                      ..++.|-+...++|.+.+.    .         ...+-+.++|++|+|||+||+.+++.....  |   +.+..      
T Consensus       144 ~~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l~~~--f---i~i~~------  212 (398)
T PTZ00454        144 YSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTAT--F---IRVVG------  212 (398)
T ss_pred             HHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCC--E---EEEeh------
Confidence            3457788777777766542    1         235779999999999999999999876543  2   22211      


Q ss_pred             HHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCC
Q 037337          160 RKVQGEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWE  205 (247)
Q Consensus       160 ~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~  205 (247)
                      .++...   ..+      ........+........+.+|+||+++.
T Consensus       213 s~l~~k---~~g------e~~~~lr~lf~~A~~~~P~ILfIDEID~  249 (398)
T PTZ00454        213 SEFVQK---YLG------EGPRMVRDVFRLARENAPSIIFIDEVDS  249 (398)
T ss_pred             HHHHHH---hcc------hhHHHHHHHHHHHHhcCCeEEEEECHhh
Confidence            111111   111      1122334444444444679999999874

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=97.99  E-value=2.9e-05  Score=70.18  Aligned_cols=51  Identities=24%  Similarity=0.269  Sum_probs=35.8

Q ss_pred             CCCcccccchHHHHHHHHH---hcC---------CCccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           91 KGYEAFESRMSTLNDILGA---LRN---------PDISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        91 ~~~~~~~gR~~~~~~L~~~---L~~---------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ....++.|-+...+.+.+.   +..         ...+-+.++|++|+|||+||+.+++....
T Consensus        52 ~~~~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~~~  114 (495)
T TIGR01241        52 VTFKDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGV  114 (495)
T ss_pred             CCHHHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCC
Confidence            3456678877665555443   321         22456889999999999999999987643

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.

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=97.99  E-value=1.9e-05  Score=69.51  Aligned_cols=101  Identities=17%  Similarity=0.187  Sum_probs=58.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNREK  194 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  194 (247)
                      ...+.|+|++|+|||+|++.+++.......-..++|+++      .++...+...+...    .    ...+.+.+..  
T Consensus       136 ~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~------~~~~~~~~~~~~~~----~----~~~~~~~~~~--  199 (405)
T TIGR00362       136 YNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSS------EKFTNDFVNALRNN----K----MEEFKEKYRS--  199 (405)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEH------HHHHHHHHHHHHcC----C----HHHHHHHHHh--
Confidence            457899999999999999999998765421134667643      34444454444321    1    2334444443  


Q ss_pred             cEEEEEeCCCCccc---h-hhhcccCCC-CCCCeEEEEeeCc
Q 037337          195 RILVILDNIWEHLD---L-QVVGIPHGD-DHKGCKVLFTARS  231 (247)
Q Consensus       195 r~LlvlDdv~~~~~---~-~~l~~~~~~-~~~~s~iiiTtR~  231 (247)
                      .-+|+|||++....   + +.+...+.. ...+..+|+||..
T Consensus       200 ~dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~~~~~iiits~~  241 (405)
T TIGR00362       200 VDLLLIDDIQFLAGKERTQEEFFHTFNALHENGKQIVLTSDR  241 (405)
T ss_pred             CCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCCEEEecCC
Confidence            24888999986421   1 122222211 1235567887754

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).

>CHL00176 ftsH cell division protein; Validated

Probab=97.99  E-value=5e-05  Score=70.19  Aligned_cols=49  Identities=22%  Similarity=0.334  Sum_probs=34.2

Q ss_pred             CcccccchHHHHHH---HHHhcCC---------CccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           93 YEAFESRMSTLNDI---LGALRNP---------DISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        93 ~~~~~gR~~~~~~L---~~~L~~~---------~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ..++.|.++..+.+   ..++...         ..+-+.++|++|+|||+||+.++.....
T Consensus       182 f~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~~~  242 (638)
T CHL00176        182 FRDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEV  242 (638)
T ss_pred             HHhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCC
Confidence            45577766555544   4444322         2456899999999999999999987643

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

Probab=97.99  E-value=2.7e-05  Score=73.21  Aligned_cols=103  Identities=13%  Similarity=0.147  Sum_probs=60.7

Q ss_pred             cccccchHHHHHHHHHhcC---------CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHH
Q 037337           94 EAFESRMSTLNDILGALRN---------PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQG  164 (247)
Q Consensus        94 ~~~~gR~~~~~~L~~~L~~---------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~  164 (247)
                      ..++|.++.++.|.+.+..         .....+.++|++|+|||.||+.++..+..     ..+.++++......    
T Consensus       458 ~~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l~~-----~~i~id~se~~~~~----  528 (758)
T PRK11034        458 MLVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGI-----ELLRFDMSEYMERH----  528 (758)
T ss_pred             ceEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHhCC-----CcEEeechhhcccc----
Confidence            3478888888888777651         12356889999999999999999988742     13445554332211    


Q ss_pred             HHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          165 EIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       165 ~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                      .+.+.+|.+...... .....+.+.+......+|+||+++..
T Consensus       529 ~~~~LiG~~~gyvg~-~~~g~L~~~v~~~p~sVlllDEieka  569 (758)
T PRK11034        529 TVSRLIGAPPGYVGF-DQGGLLTDAVIKHPHAVLLLDEIEKA  569 (758)
T ss_pred             cHHHHcCCCCCcccc-cccchHHHHHHhCCCcEEEeccHhhh
Confidence            122233432111110 11122344444434579999999876

>PRK06921 hypothetical protein; Provisional

Probab=97.98  E-value=3.3e-05  Score=64.02  Aligned_cols=72  Identities=18%  Similarity=0.301  Sum_probs=45.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCC
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNRE  193 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  193 (247)
                      ....+.++|++|+|||+||..+++....+. ...++|++.      .+++..+...+          .......+.+.. 
T Consensus       116 ~~~~l~l~G~~G~GKThLa~aia~~l~~~~-g~~v~y~~~------~~l~~~l~~~~----------~~~~~~~~~~~~-  177 (266)
T PRK06921        116 RKNSIALLGQPGSGKTHLLTAAANELMRKK-GVPVLYFPF------VEGFGDLKDDF----------DLLEAKLNRMKK-  177 (266)
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHhhhc-CceEEEEEH------HHHHHHHHHHH----------HHHHHHHHHhcC-
Confidence            357799999999999999999999876431 234567653      33344433322          011223344443 


Q ss_pred             CcEEEEEeCCC
Q 037337          194 KRILVILDNIW  204 (247)
Q Consensus       194 kr~LlvlDdv~  204 (247)
                       --||||||+.
T Consensus       178 -~dlLiIDDl~  187 (266)
T PRK06921        178 -VEVLFIDDLF  187 (266)
T ss_pred             -CCEEEEeccc
Confidence             3699999993

>CHL00095 clpC Clp protease ATP binding subunit

Probab=97.98  E-value=4.7e-05  Score=72.81  Aligned_cols=107  Identities=19%  Similarity=0.212  Sum_probs=62.2

Q ss_pred             CcccccchHHHHHHHHHhcC-------C--CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHH
Q 037337           93 YEAFESRMSTLNDILGALRN-------P--DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQ  163 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L~~-------~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~  163 (247)
                      ...++|.+..++.+...+..       +  +.....++|++|+|||+||+.+++.+-..  -...+.++.+.......  
T Consensus       508 ~~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l~~~--~~~~~~~d~s~~~~~~~--  583 (821)
T CHL00095        508 HKRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYFFGS--EDAMIRLDMSEYMEKHT--  583 (821)
T ss_pred             cCcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCC--ccceEEEEchhcccccc--
Confidence            45688999988888777641       1  12456789999999999999999876433  12344455544322111  


Q ss_pred             HHHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          164 GEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       164 ~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                        +...+|.+...... .....+.+.+......+++||+++..
T Consensus       584 --~~~l~g~~~gyvg~-~~~~~l~~~~~~~p~~VvllDeieka  623 (821)
T CHL00095        584 --VSKLIGSPPGYVGY-NEGGQLTEAVRKKPYTVVLFDEIEKA  623 (821)
T ss_pred             --HHHhcCCCCcccCc-CccchHHHHHHhCCCeEEEECChhhC
Confidence              11222322111110 01123445554444578999999865

>PRK07952 DNA replication protein DnaC; Validated

Probab=97.97  E-value=0.001  Score=54.32  Aligned_cols=89  Identities=18%  Similarity=0.247  Sum_probs=54.1

Q ss_pred             HHHHHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCh
Q 037337          102 TLNDILGALRN--PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESE  179 (247)
Q Consensus       102 ~~~~L~~~L~~--~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~  179 (247)
                      .+..+.++..+  .....+.++|.+|+|||+||..+++.+...  -..+++++      ..+++..+-..+..  ...+ 
T Consensus        84 al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~~~--g~~v~~it------~~~l~~~l~~~~~~--~~~~-  152 (244)
T PRK07952         84 ALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELLLR--GKSVLIIT------VADIMSAMKDTFSN--SETS-  152 (244)
T ss_pred             HHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHhc--CCeEEEEE------HHHHHHHHHHHHhh--cccc-
Confidence            34444444432  223578999999999999999999988654  23456663      45555555444421  1111 


Q ss_pred             HHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          180 SGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       180 ~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                         ...+.+.+..  .=+|||||+...
T Consensus       153 ---~~~~l~~l~~--~dlLvIDDig~~  174 (244)
T PRK07952        153 ---EEQLLNDLSN--VDLLVIDEIGVQ  174 (244)
T ss_pred             ---HHHHHHHhcc--CCEEEEeCCCCC
Confidence               2234445544  358889999654

>PRK07261 topology modulation protein; Provisional

Probab=97.96  E-value=5e-05  Score=58.76  Aligned_cols=54  Identities=22%  Similarity=0.323  Sum_probs=34.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhccc-CCCCEEEEEEeCCCCCHHHHHHHHHHHh
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAKNH-KLFDLVVFSEMSQSPDIRKVQGEIADKL  170 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~~~-~~f~~~~wv~~~~~~~~~~l~~~i~~~l  170 (247)
                      .|.|+|++|+||||||+.++...... -+.|...|-.-....+..++...+...+
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~~~~~i~~D~~~~~~~~~~~~~~~~~~~~~~~~   56 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHYNCPVLHLDTLHFQPNWQERDDDDMIADISNFL   56 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhCCCeEecCCEEeccccccCCHHHHHHHHHHHH
Confidence            47899999999999999998876432 1245566643323334444444443333

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=97.96  E-value=9.2e-05  Score=63.35  Aligned_cols=46  Identities=11%  Similarity=0.068  Sum_probs=36.3

Q ss_pred             ccc-chHHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           96 FES-RMSTLNDILGALRNPD-ISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        96 ~~g-R~~~~~~L~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ++| .+...+.|...+..++ .....++|+.|+|||++|..+++..-.
T Consensus         7 i~~~q~~~~~~L~~~~~~~~l~ha~Lf~G~~G~gk~~~a~~la~~l~c   54 (329)
T PRK08058          7 LTALQPVVVKMLQNSIAKNRLSHAYLFEGAKGTGKKATALWLAKSLFC   54 (329)
T ss_pred             HHhhHHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHCC
Confidence            455 6667777888776655 456689999999999999999988643

>PRK12377 putative replication protein; Provisional

Probab=97.95  E-value=0.00098  Score=54.62  Aligned_cols=74  Identities=18%  Similarity=0.233  Sum_probs=48.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNREK  194 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  194 (247)
                      ...+.++|++|+|||+||..+++.+...  .-.+.|+++      .+++..+-......   .+    ...+.+.+..  
T Consensus       101 ~~~l~l~G~~GtGKThLa~AIa~~l~~~--g~~v~~i~~------~~l~~~l~~~~~~~---~~----~~~~l~~l~~--  163 (248)
T PRK12377        101 CTNFVFSGKPGTGKNHLAAAIGNRLLAK--GRSVIVVTV------PDVMSRLHESYDNG---QS----GEKFLQELCK--  163 (248)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHc--CCCeEEEEH------HHHHHHHHHHHhcc---ch----HHHHHHHhcC--
Confidence            4678999999999999999999998754  223566643      35555554444211   11    2234444544  


Q ss_pred             cEEEEEeCCCC
Q 037337          195 RILVILDNIWE  205 (247)
Q Consensus       195 r~LlvlDdv~~  205 (247)
                      --||||||+..
T Consensus       164 ~dLLiIDDlg~  174 (248)
T PRK12377        164 VDLLVLDEIGI  174 (248)
T ss_pred             CCEEEEcCCCC
Confidence            47999999943

>TIGR02012 tigrfam_recA protein RecA

Probab=97.94  E-value=6.1e-05  Score=63.79  Aligned_cols=84  Identities=17%  Similarity=0.184  Sum_probs=55.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCC------CCChHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFR------EESESGRARSLFS  188 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~------~~~~~~~~~~l~~  188 (247)
                      -+++.|+|++|+||||||.+++......  -..++|++....++..     .++.++.+.+      ..+.++....+..
T Consensus        55 G~iteI~G~~GsGKTtLaL~~~~~~~~~--g~~v~yId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~~~~~  127 (321)
T TIGR02012        55 GRIIEIYGPESSGKTTLALHAIAEAQKA--GGTAAFIDAEHALDPV-----YARKLGVDIDNLLVSQPDTGEQALEIAET  127 (321)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHc--CCcEEEEcccchhHHH-----HHHHcCCCHHHeEEecCCCHHHHHHHHHH
Confidence            4789999999999999999998876544  3457788776655542     3455554321      1233444444444


Q ss_pred             HHcCCCcEEEEEeCCCC
Q 037337          189 RLNREKRILVILDNIWE  205 (247)
Q Consensus       189 ~l~~~kr~LlvlDdv~~  205 (247)
                      .+..+..-+||+|.+..
T Consensus       128 li~~~~~~lIVIDSv~a  144 (321)
T TIGR02012       128 LVRSGAVDIIVVDSVAA  144 (321)
T ss_pred             HhhccCCcEEEEcchhh
Confidence            44555567999999764

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.

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=97.93  E-value=3.4e-05  Score=68.85  Aligned_cols=76  Identities=18%  Similarity=0.194  Sum_probs=48.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNREK  194 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  194 (247)
                      ...+.|+|++|+|||+|++.+++.......-..++|+++.      ++...+...+...    .    ...+.+.+..  
T Consensus       148 ~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~~------~~~~~~~~~~~~~----~----~~~~~~~~~~--  211 (450)
T PRK00149        148 YNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTSE------KFTNDFVNALRNN----T----MEEFKEKYRS--  211 (450)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEHH------HHHHHHHHHHHcC----c----HHHHHHHHhc--
Confidence            4678999999999999999999998754212346676543      3334444444211    1    2334444443  


Q ss_pred             cEEEEEeCCCCc
Q 037337          195 RILVILDNIWEH  206 (247)
Q Consensus       195 r~LlvlDdv~~~  206 (247)
                      .-+|+|||++..
T Consensus       212 ~dlLiiDDi~~l  223 (450)
T PRK00149        212 VDVLLIDDIQFL  223 (450)
T ss_pred             CCEEEEehhhhh
Confidence            358899999754

>COG3903 Predicted ATPase [General function prediction only]

Probab=97.93  E-value=2.6e-06  Score=72.99  Aligned_cols=115  Identities=26%  Similarity=0.385  Sum_probs=82.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCC-CEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLF-DLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNRE  193 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f-~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  193 (247)
                      .+.+.++|+||+||||++-.+.+ ....  | +.+.++.+.+-.+...+.-.+...++.+....  +.....+...+.. 
T Consensus        14 ~RlvtL~g~ggvgkttl~~~~a~-~~~~--~~~~v~~vdl~pitD~~~v~~~~ag~~gl~~~~g--~~~~~~~~~~~~~-   87 (414)
T COG3903          14 LRLVTLTGAGGVGKTTLALQAAH-AASE--YADGVAFVDLAPITDPALVFPTLAGALGLHVQPG--DSAVDTLVRRIGD-   87 (414)
T ss_pred             hheeeeeccCccceehhhhhhHh-Hhhh--cccceeeeeccccCchhHhHHHHHhhcccccccc--hHHHHHHHHHHhh-
Confidence            48899999999999999999999 5544  5 55778888888888888888888787664332  2234455666656 


Q ss_pred             CcEEEEEeCCCCccc-hhhhcccCCCCCCCeEEEEeeCchhhh
Q 037337          194 KRILVILDNIWEHLD-LQVVGIPHGDDHKGCKVLFTARSLDVL  235 (247)
Q Consensus       194 kr~LlvlDdv~~~~~-~~~l~~~~~~~~~~s~iiiTtR~~~va  235 (247)
                      +|.++++||+.+..+ -..+...+..++...+++.|+|+....
T Consensus        88 rr~llvldncehl~~~~a~~i~all~~~~~~~~~atsre~~l~  130 (414)
T COG3903          88 RRALLVLDNCEHLLDACAALIVALLGACPRLAILATSREAILV  130 (414)
T ss_pred             hhHHHHhcCcHHHHHHHHHHHHHHHccchhhhhHHHhHhhhcc
Confidence            689999999987633 222223334456667788999876543

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

Probab=97.92  E-value=4.9e-05  Score=67.26  Aligned_cols=93  Identities=26%  Similarity=0.377  Sum_probs=57.8

Q ss_pred             cccccc---hHHHHHHHHHhcCCC---------ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHH
Q 037337           94 EAFESR---MSTLNDILGALRNPD---------ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRK  161 (247)
Q Consensus        94 ~~~~gR---~~~~~~L~~~L~~~~---------~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~  161 (247)
                      .+.-|-   .+|++++.++|.++.         ++-|.++|++|.|||-||+.++....+.  |    |...++.++  +
T Consensus       304 ~dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA~VP--F----F~~sGSEFd--E  375 (752)
T KOG0734|consen  304 EDVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEAGVP--F----FYASGSEFD--E  375 (752)
T ss_pred             ccccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcccCCC--e----Eeccccchh--h
Confidence            344454   457788888887641         5778999999999999999999877665  2    333333332  1


Q ss_pred             HHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          162 VQGEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       162 l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                      ++-.    .|        ...+..|....+..-+|+|.+|+++..
T Consensus       376 m~VG----vG--------ArRVRdLF~aAk~~APcIIFIDEiDav  408 (752)
T KOG0734|consen  376 MFVG----VG--------ARRVRDLFAAAKARAPCIIFIDEIDAV  408 (752)
T ss_pred             hhhc----cc--------HHHHHHHHHHHHhcCCeEEEEechhhh
Confidence            1111    11        112233333333445799999999854

>PRK08939 primosomal protein DnaI; Reviewed

Probab=97.92  E-value=3e-05  Score=65.53  Aligned_cols=115  Identities=17%  Similarity=0.176  Sum_probs=67.5

Q ss_pred             cchHHHHHHHHHhcC----CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCC
Q 037337           98 SRMSTLNDILGALRN----PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLT  173 (247)
Q Consensus        98 gR~~~~~~L~~~L~~----~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~  173 (247)
                      +|........+++..    ....-+.++|+.|+|||.||..+++.+... .+. +.|+++      .+++..+...++. 
T Consensus       135 ~~~~~~~~~~~fi~~~~~~~~~~gl~L~G~~G~GKThLa~Aia~~l~~~-g~~-v~~~~~------~~l~~~lk~~~~~-  205 (306)
T PRK08939        135 DRLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKSYLLAAIANELAKK-GVS-STLLHF------PEFIRELKNSISD-  205 (306)
T ss_pred             HHHHHHHHHHHHHHHhhccCCCCeEEEECCCCCCHHHHHHHHHHHHHHc-CCC-EEEEEH------HHHHHHHHHHHhc-
Confidence            444444444555542    134679999999999999999999998754 233 455543      3566666555532 


Q ss_pred             CCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc--cchhh--hcccC-CCC-CCCeEEEEeeC
Q 037337          174 FREESESGRARSLFSRLNREKRILVILDNIWEH--LDLQV--VGIPH-GDD-HKGCKVLFTAR  230 (247)
Q Consensus       174 ~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~--~~~~~--l~~~~-~~~-~~~s~iiiTtR  230 (247)
                         .+    .....+.+..  -=||||||+...  ..|..  +...+ ... ..+..+|+||.
T Consensus       206 ---~~----~~~~l~~l~~--~dlLiIDDiG~e~~s~~~~~~ll~~Il~~R~~~~~~ti~TSN  259 (306)
T PRK08939        206 ---GS----VKEKIDAVKE--APVLMLDDIGAEQMSSWVRDEVLGVILQYRMQEELPTFFTSN  259 (306)
T ss_pred             ---Cc----HHHHHHHhcC--CCEEEEecCCCccccHHHHHHHHHHHHHHHHHCCCeEEEECC
Confidence               11    2233444444  469999999643  34532  22222 211 23455778876

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

Probab=97.91  E-value=7.2e-05  Score=63.42  Aligned_cols=84  Identities=20%  Similarity=0.205  Sum_probs=55.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCC------CCChHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFR------EESESGRARSLFS  188 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~------~~~~~~~~~~l~~  188 (247)
                      -+++-|+|++|+||||||.+++......  -..++|++....++..     .++.++.+.+      ..+.++....+..
T Consensus        55 G~iteI~Gp~GsGKTtLal~~~~~~~~~--g~~~vyId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~i~~~  127 (325)
T cd00983          55 GRIIEIYGPESSGKTTLALHAIAEAQKL--GGTVAFIDAEHALDPV-----YAKKLGVDLDNLLISQPDTGEQALEIADS  127 (325)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHc--CCCEEEECccccHHHH-----HHHHcCCCHHHheecCCCCHHHHHHHHHH
Confidence            4788999999999999999998876544  3457898876665543     3444543311      1234444444444


Q ss_pred             HHcCCCcEEEEEeCCCC
Q 037337          189 RLNREKRILVILDNIWE  205 (247)
Q Consensus       189 ~l~~~kr~LlvlDdv~~  205 (247)
                      .+..+.--+||+|.+..
T Consensus       128 li~s~~~~lIVIDSvaa  144 (325)
T cd00983         128 LVRSGAVDLIVVDSVAA  144 (325)
T ss_pred             HHhccCCCEEEEcchHh
Confidence            44555668999999753

RecA couples ATP hydrolysis to DNA strand exchange.

>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=97.90  E-value=0.00011  Score=58.19  Aligned_cols=56  Identities=20%  Similarity=0.213  Sum_probs=37.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCC-CHHHHHHHHHHHhCC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSP-DIRKVQGEIADKLGL  172 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~l~~~i~~~l~~  172 (247)
                      ++++.++|+.|+||||.+.+++.....+  -..+..+++.... ...+-++..++.++.
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~~~~--~~~v~lis~D~~R~ga~eQL~~~a~~l~v   57 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARLKLK--GKKVALISADTYRIGAVEQLKTYAEILGV   57 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHHHHT--T--EEEEEESTSSTHHHHHHHHHHHHHTE
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHHhhc--cccceeecCCCCCccHHHHHHHHHHHhcc
Confidence            3689999999999999999999988766  3456677665432 223334455555553

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 ....

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

Probab=97.89  E-value=4.4e-05  Score=69.77  Aligned_cols=75  Identities=23%  Similarity=0.292  Sum_probs=55.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCC
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNRE  193 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  193 (247)
                      ..++..++|++|.||||||+-++++..-     .++=+++|..-+...+-..|...+....-..             .+.
T Consensus       325 ~kKilLL~GppGlGKTTLAHViAkqaGY-----sVvEINASDeRt~~~v~~kI~~avq~~s~l~-------------ads  386 (877)
T KOG1969|consen  325 PKKILLLCGPPGLGKTTLAHVIAKQAGY-----SVVEINASDERTAPMVKEKIENAVQNHSVLD-------------ADS  386 (877)
T ss_pred             ccceEEeecCCCCChhHHHHHHHHhcCc-----eEEEecccccccHHHHHHHHHHHHhhccccc-------------cCC
Confidence            4689999999999999999999987542     3677899998888877777766664321110             123


Q ss_pred             CcEEEEEeCCCCc
Q 037337          194 KRILVILDNIWEH  206 (247)
Q Consensus       194 kr~LlvlDdv~~~  206 (247)
                      ++.-||+|+++..
T Consensus       387 rP~CLViDEIDGa  399 (877)
T KOG1969|consen  387 RPVCLVIDEIDGA  399 (877)
T ss_pred             CcceEEEecccCC
Confidence            6788889998865

>PHA02244 ATPase-like protein

Probab=97.89  E-value=0.00015  Score=62.30  Aligned_cols=36  Identities=19%  Similarity=0.219  Sum_probs=27.6

Q ss_pred             HHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          104 NDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       104 ~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ..+..++..+  ..|.|+|++|+|||+||+.+++....
T Consensus       110 ~ri~r~l~~~--~PVLL~GppGtGKTtLA~aLA~~lg~  145 (383)
T PHA02244        110 ADIAKIVNAN--IPVFLKGGAGSGKNHIAEQIAEALDL  145 (383)
T ss_pred             HHHHHHHhcC--CCEEEECCCCCCHHHHHHHHHHHhCC
Confidence            3455555544  45778999999999999999998543

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

Probab=97.89  E-value=0.00017  Score=59.55  Aligned_cols=90  Identities=26%  Similarity=0.250  Sum_probs=58.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhccc----CCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCC----------CCChH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNH----KLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFR----------EESES  180 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~----~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~----------~~~~~  180 (247)
                      ..+.=|+|++|+|||.|+.+++-.....    ..-..++|++....++..++. +|++..+...+          ..+..
T Consensus        38 g~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~~Rl~-~i~~~~~~~~~~~l~~I~v~~~~~~~  116 (256)
T PF08423_consen   38 GSITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSPERLQ-QIAERFGLDPEEILDNIFVIRVFDLE  116 (256)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-HHHHH-HHHHHTTS-HHHHHHTEEEEE-SSHH
T ss_pred             CcEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCHHHHH-HHhhccccccchhhhceeeeecCCHH
Confidence            4788999999999999999998765422    112459999999999887764 56666543311          01222


Q ss_pred             ---HHHHHHHHHHcCCCcEEEEEeCCCC
Q 037337          181 ---GRARSLFSRLNREKRILVILDNIWE  205 (247)
Q Consensus       181 ---~~~~~l~~~l~~~kr~LlvlDdv~~  205 (247)
                         ..+..+...+...+=-|||+|.+-.
T Consensus       117 ~l~~~L~~l~~~l~~~~ikLIVIDSIaa  144 (256)
T PF08423_consen  117 ELLELLEQLPKLLSESKIKLIVIDSIAA  144 (256)
T ss_dssp             HHHHHHHHHHHHHHHSCEEEEEEETSSH
T ss_pred             HHHHHHHHHHhhccccceEEEEecchHH
Confidence               2333444444444567999999853

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 ....

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

Probab=97.88  E-value=2.2e-05  Score=69.28  Aligned_cols=50  Identities=24%  Similarity=0.320  Sum_probs=38.5

Q ss_pred             CcccccchHHHHHHHHHhc----C---------CCccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337           93 YEAFESRMSTLNDILGALR----N---------PDISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L~----~---------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      ..++.|.+.+++.|.+.+.    .         .....+.++|++|+|||++|+.+++.....
T Consensus       182 ~~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el~~~  244 (438)
T PTZ00361        182 YADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSAT  244 (438)
T ss_pred             HHHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhhCCC
Confidence            3456788888888877653    1         134678899999999999999999976543

>PRK09354 recA recombinase A; Provisional

Probab=97.88  E-value=0.0001  Score=63.04  Aligned_cols=84  Identities=18%  Similarity=0.186  Sum_probs=57.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCC------CCChHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFR------EESESGRARSLFS  188 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~------~~~~~~~~~~l~~  188 (247)
                      -+++-|+|++|+||||||.+++......  -..++|++....++..     .++.++.+.+      ..+.++....+..
T Consensus        60 G~IteI~G~~GsGKTtLal~~~~~~~~~--G~~~~yId~E~s~~~~-----~a~~lGvdld~lli~qp~~~Eq~l~i~~~  132 (349)
T PRK09354         60 GRIVEIYGPESSGKTTLALHAIAEAQKA--GGTAAFIDAEHALDPV-----YAKKLGVDIDNLLVSQPDTGEQALEIADT  132 (349)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHc--CCcEEEECCccchHHH-----HHHHcCCCHHHeEEecCCCHHHHHHHHHH
Confidence            4789999999999999999998876544  3457899887766643     3455554321      1234444444444


Q ss_pred             HHcCCCcEEEEEeCCCC
Q 037337          189 RLNREKRILVILDNIWE  205 (247)
Q Consensus       189 ~l~~~kr~LlvlDdv~~  205 (247)
                      .+..+..-+||+|.+..
T Consensus       133 li~s~~~~lIVIDSvaa  149 (349)
T PRK09354        133 LVRSGAVDLIVVDSVAA  149 (349)
T ss_pred             HhhcCCCCEEEEeChhh
Confidence            45555668999999864

>PF14516 AAA_35: AAA-like domain

Probab=97.88  E-value=0.0005  Score=58.94  Aligned_cols=114  Identities=16%  Similarity=0.185  Sum_probs=74.5

Q ss_pred             cCCCcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCC-----CCHHHHHH
Q 037337           90 NKGYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQS-----PDIRKVQG  164 (247)
Q Consensus        90 ~~~~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~-----~~~~~l~~  164 (247)
                      +.....++.|...-+.+.+.+.++ ...+.|.|+..+|||+|...+.+..+..+ + ..+++++...     .+...+++
T Consensus         7 ~~~~~~Yi~R~~~e~~~~~~i~~~-G~~~~I~apRq~GKTSll~~l~~~l~~~~-~-~~v~id~~~~~~~~~~~~~~f~~   83 (331)
T PF14516_consen    7 PLDSPFYIERPPAEQECYQEIVQP-GSYIRIKAPRQMGKTSLLLRLLERLQQQG-Y-RCVYIDLQQLGSAIFSDLEQFLR   83 (331)
T ss_pred             CCCCCcccCchHHHHHHHHHHhcC-CCEEEEECcccCCHHHHHHHHHHHHHHCC-C-EEEEEEeecCCCcccCCHHHHHH
Confidence            344566889986667777777653 36889999999999999999999887652 4 3557777642     34555555


Q ss_pred             HHHHH----hCCCCC--------CCChHHHHHHHHHHH--cCCCcEEEEEeCCCCc
Q 037337          165 EIADK----LGLTFR--------EESESGRARSLFSRL--NREKRILVILDNIWEH  206 (247)
Q Consensus       165 ~i~~~----l~~~~~--------~~~~~~~~~~l~~~l--~~~kr~LlvlDdv~~~  206 (247)
                      .++..    ++....        ..+.......+.+.+  ...++.+|+||+++..
T Consensus        84 ~~~~~i~~~L~l~~~l~~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~l  139 (331)
T PF14516_consen   84 WFCEEISRQLKLDEKLDEYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDRL  139 (331)
T ss_pred             HHHHHHHHHcCCChhHHHHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhhh
Confidence            55544    443321        112223333444443  2246899999999865

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=97.87  E-value=0.00024  Score=57.92  Aligned_cols=111  Identities=12%  Similarity=0.191  Sum_probs=65.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCC-------------------
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTF-------------------  174 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~-------------------  174 (247)
                      ..+++.|.|++|+|||+||.++....-..  -..++|++...  +..++.+.+. +++.+.                   
T Consensus        20 ~gs~~lI~G~pGsGKT~la~~~l~~~~~~--ge~~lyvs~ee--~~~~i~~~~~-~~g~~~~~~~~~g~l~~~d~~~~~~   94 (237)
T TIGR03877        20 ERNVVLLSGGPGTGKSIFSQQFLWNGLQM--GEPGIYVALEE--HPVQVRRNMA-QFGWDVRKYEEEGKFAIVDAFTGGI   94 (237)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHHHc--CCcEEEEEeeC--CHHHHHHHHH-HhCCCHHHHhhcCCEEEEecccccc
Confidence            35889999999999999999987764322  34678887654  4455555432 332210                   


Q ss_pred             ------------CCCChHHHHHHHHHHHcCCCcEEEEEeCCCCccc---------hhhhcccCCCCCCCeEEEEeeCc
Q 037337          175 ------------REESESGRARSLFSRLNREKRILVILDNIWEHLD---------LQVVGIPHGDDHKGCKVLFTARS  231 (247)
Q Consensus       175 ------------~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~~~---------~~~l~~~~~~~~~~s~iiiTtR~  231 (247)
                                  +..+..+....+.+.+...+.-++|+|.+.....         +..+...+  ...|+.+++|+..
T Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~vVIDSls~l~~~~~~~~r~~l~~l~~~l--k~~~~t~llt~~~  170 (237)
T TIGR03877        95 GEAAEREKYVVKDPTDVRELIDVLRQAIRDINAKRVVIDSVTTLYITKPAMARSIVMQLKRVL--SGLGCTSIFVSQV  170 (237)
T ss_pred             ccccccccccccCcccHHHHHHHHHHHHHHhCCCEEEEcChhHhhcCChHHHHHHHHHHHHHH--HhCCCEEEEEECc
Confidence                        1123445556666666443445799999865311         11121111  3557778888653

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.

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

Probab=97.87  E-value=0.00018  Score=65.64  Aligned_cols=135  Identities=21%  Similarity=0.158  Sum_probs=90.2

Q ss_pred             CCcccccchHHHHHHHHHhc----C-CCccEEEEEcCCCCcHHHHHHHHHHHhcc---c---CCCCEEEEEEeCCCCCHH
Q 037337           92 GYEAFESRMSTLNDILGALR----N-PDISMLGICGMGGIGKTMLEKEVARKAKN---H---KLFDLVVFSEMSQSPDIR  160 (247)
Q Consensus        92 ~~~~~~gR~~~~~~L~~~L~----~-~~~~~v~I~G~~GiGKTtLa~~~~~~~~~---~---~~f~~~~wv~~~~~~~~~  160 (247)
                      -|..+-+|+.+..+|..++.    + ...+++.|.|.+|+|||.++..|.+.++.   +   ..|+ .+.++.-.-....
T Consensus       394 vp~sLpcRe~E~~~I~~f~~~~i~~~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~-yveINgm~l~~~~  472 (767)
T KOG1514|consen  394 VPESLPCRENEFSEIEDFLRSFISDQGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFD-YVEINGLRLASPR  472 (767)
T ss_pred             ccccccchhHHHHHHHHHHHhhcCCCCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCcc-EEEEcceeecCHH
Confidence            35667789999999877764    3 23459999999999999999999997652   1   1232 4556666667799


Q ss_pred             HHHHHHHHHhCCCCCCCChHHHHHHHHHHHc----CCCcEEEEEeCCCCccc--hhhhcccCCC-CCCCeEEEEee
Q 037337          161 KVQGEIADKLGLTFREESESGRARSLFSRLN----REKRILVILDNIWEHLD--LQVVGIPHGD-DHKGCKVLFTA  229 (247)
Q Consensus       161 ~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~----~~kr~LlvlDdv~~~~~--~~~l~~~~~~-~~~~s~iiiTt  229 (247)
                      +++..|...+.......  ...++.|..+..    ..+.++|++|+++....  -+-++..|.| ...+|+++|.+
T Consensus       473 ~~Y~~I~~~lsg~~~~~--~~al~~L~~~f~~~k~~~~~~VvLiDElD~Lvtr~QdVlYn~fdWpt~~~sKLvvi~  546 (767)
T KOG1514|consen  473 EIYEKIWEALSGERVTW--DAALEALNFRFTVPKPKRSTTVVLIDELDILVTRSQDVLYNIFDWPTLKNSKLVVIA  546 (767)
T ss_pred             HHHHHHHHhcccCcccH--HHHHHHHHHhhccCCCCCCCEEEEeccHHHHhcccHHHHHHHhcCCcCCCCceEEEE
Confidence            99999999886543322  233455555552    23568888999886532  2334444543 35677776654

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

Probab=97.87  E-value=0.0002  Score=57.76  Aligned_cols=90  Identities=20%  Similarity=0.153  Sum_probs=55.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccC----CCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCC----------CCChH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHK----LFDLVVFSEMSQSPDIRKVQGEIADKLGLTFR----------EESES  180 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~----~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~----------~~~~~  180 (247)
                      ..++.|+|++|+|||+||..++.......    .-..++|++....++...+ ..++...+....          ..+..
T Consensus        19 g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~~~~~~rl-~~~~~~~~~~~~~~~~~i~~~~~~~~~   97 (226)
T cd01393          19 GRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEGAFRPERL-VQLAVRFGLDPEEVLDNIYVARPYNGE   97 (226)
T ss_pred             CcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCCCCCHHHH-HHHHHHhccchhhhhccEEEEeCCCHH
Confidence            47999999999999999999987754331    0146789988776665544 333443322110          12333


Q ss_pred             HHHHHHHHHH---cCCCcEEEEEeCCCC
Q 037337          181 GRARSLFSRL---NREKRILVILDNIWE  205 (247)
Q Consensus       181 ~~~~~l~~~l---~~~kr~LlvlDdv~~  205 (247)
                      +....+.+..   ...+.-+||+|.+..
T Consensus        98 ~~~~~l~~~~~~~~~~~~~lvVIDsis~  125 (226)
T cd01393          98 QQLEIVEELERIMSSGRVDLVVVDSVAA  125 (226)
T ss_pred             HHHHHHHHHHHHhhcCCeeEEEEcCcch
Confidence            3333333333   244557999999864

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.

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.84  E-value=0.00049  Score=61.80  Aligned_cols=39  Identities=18%  Similarity=0.196  Sum_probs=28.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEe
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEM  153 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~  153 (247)
                      ..+++|+|++|+||||++.+++..+........+.+++.
T Consensus       350 G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLIdt  388 (559)
T PRK12727        350 GGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTT  388 (559)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEec
Confidence            579999999999999999999887654321233555544

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

Probab=97.82  E-value=0.001  Score=62.21  Aligned_cols=107  Identities=18%  Similarity=0.223  Sum_probs=65.1

Q ss_pred             CcccccchHHHHHHHHHhc-------C--CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHH
Q 037337           93 YEAFESRMSTLNDILGALR-------N--PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQ  163 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L~-------~--~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~  163 (247)
                      ....+|.++.+..+.+.+.       +  .+.......||.|+|||.||+.++..+-...  +..+-++.|....    -
T Consensus       490 ~~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lfg~e--~aliR~DMSEy~E----k  563 (786)
T COG0542         490 KKRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFGDE--QALIRIDMSEYME----K  563 (786)
T ss_pred             hcceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHhcCCC--ccceeechHHHHH----H
Confidence            4568999999999888775       1  2345667799999999999999998875431  2233333333211    1


Q ss_pred             HHHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          164 GEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       164 ~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                      ..+.+.+|.++....-++ --.|-+..+++.-.+|.||+++..
T Consensus       564 HsVSrLIGaPPGYVGyee-GG~LTEaVRr~PySViLlDEIEKA  605 (786)
T COG0542         564 HSVSRLIGAPPGYVGYEE-GGQLTEAVRRKPYSVILLDEIEKA  605 (786)
T ss_pred             HHHHHHhCCCCCCceecc-ccchhHhhhcCCCeEEEechhhhc
Confidence            334445555443221111 233455555533347779999865

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

Probab=97.82  E-value=3.5e-05  Score=64.22  Aligned_cols=83  Identities=16%  Similarity=0.185  Sum_probs=46.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhccc--CCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNH--KLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNR  192 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~--~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~  192 (247)
                      .++|.++||||+|||+|++.++..+..+  ..|..-.-+.+..    ..++...+..-|     .-.....+.+.+.+..
T Consensus       177 NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEins----hsLFSKWFsESg-----KlV~kmF~kI~ELv~d  247 (423)
T KOG0744|consen  177 NRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEINS----HSLFSKWFSESG-----KLVAKMFQKIQELVED  247 (423)
T ss_pred             eeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEEeh----hHHHHHHHhhhh-----hHHHHHHHHHHHHHhC
Confidence            5889999999999999999999998653  2233222232221    233333222211     1112334455555544


Q ss_pred             CCc-EEEEEeCCCCc
Q 037337          193 EKR-ILVILDNIWEH  206 (247)
Q Consensus       193 ~kr-~LlvlDdv~~~  206 (247)
                      .+. +++.+|+|++.
T Consensus       248 ~~~lVfvLIDEVESL  262 (423)
T KOG0744|consen  248 RGNLVFVLIDEVESL  262 (423)
T ss_pred             CCcEEEEEeHHHHHH
Confidence            332 44458998754

>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=97.81  E-value=2e-05  Score=57.02  Aligned_cols=24  Identities=38%  Similarity=0.527  Sum_probs=22.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      +|.|.|++|+||||+|+.+++.+.
T Consensus         1 vI~I~G~~gsGKST~a~~La~~~~   24 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAERLG   24 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHT
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHC
Confidence            589999999999999999999863

...

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=97.81  E-value=0.00012  Score=59.16  Aligned_cols=85  Identities=21%  Similarity=0.206  Sum_probs=51.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHH-----hCC--CCCCCChH---HHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADK-----LGL--TFREESES---GRAR  184 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~-----l~~--~~~~~~~~---~~~~  184 (247)
                      ..++.|+|++|+|||+||.+++......  ...++|++.. ..+...+. +++..     +..  -....+..   ..+.
T Consensus        23 g~i~~i~G~~GsGKT~l~~~la~~~~~~--~~~v~yi~~e-~~~~~r~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~   98 (225)
T PRK09361         23 GTITQIYGPPGSGKTNICLQLAVEAAKN--GKKVIYIDTE-GLSPERFK-QIAGEDFEELLSNIIIFEPSSFEEQSEAIR   98 (225)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHC--CCeEEEEECC-CCCHHHHH-HHHhhChHhHhhCeEEEeCCCHHHHHHHHH
Confidence            4789999999999999999999876544  3568899887 55544432 33322     100  00111222   2233


Q ss_pred             HHHHHHcCCCcEEEEEeCCC
Q 037337          185 SLFSRLNREKRILVILDNIW  204 (247)
Q Consensus       185 ~l~~~l~~~kr~LlvlDdv~  204 (247)
                      .+...+.. +.-++|+|.+.
T Consensus        99 ~~~~~~~~-~~~lvVIDsi~  117 (225)
T PRK09361         99 KAEKLAKE-NVGLIVLDSAT  117 (225)
T ss_pred             HHHHHHHh-cccEEEEeCcH
Confidence            44444433 55799999985

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=97.81  E-value=0.00015  Score=61.41  Aligned_cols=90  Identities=19%  Similarity=0.226  Sum_probs=59.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhccc----CCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCC----------CChH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNH----KLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFRE----------ESES  180 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~----~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~----------~~~~  180 (247)
                      .+++-|+|++|+|||+|+.+++-.....    ..-..++|++....++.+++. ++++.++.+.+.          .+.+
T Consensus        96 G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~-~~a~~~g~d~~~~l~~i~~~~~~~~e  174 (313)
T TIGR02238        96 MSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIR-AIAERFGVDPDAVLDNILYARAYTSE  174 (313)
T ss_pred             CeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHH-HHHHHcCCChHHhcCcEEEecCCCHH
Confidence            4788899999999999999987644321    112468999998888887764 456777654321          1222


Q ss_pred             HH---HHHHHHHHcCCCcEEEEEeCCCC
Q 037337          181 GR---ARSLFSRLNREKRILVILDNIWE  205 (247)
Q Consensus       181 ~~---~~~l~~~l~~~kr~LlvlDdv~~  205 (247)
                      ..   +..+...+...+--|||+|.+..
T Consensus       175 ~~~~~l~~l~~~i~~~~~~LvVIDSisa  202 (313)
T TIGR02238       175 HQMELLDYLAAKFSEEPFRLLIVDSIMA  202 (313)
T ss_pred             HHHHHHHHHHHHhhccCCCEEEEEcchH
Confidence            22   33444445444556899999863

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.

>CHL00195 ycf46 Ycf46; Provisional

Probab=97.80  E-value=0.0001  Score=66.09  Aligned_cols=49  Identities=16%  Similarity=0.121  Sum_probs=34.0

Q ss_pred             cccccchHHHHHHHHHh---c-------CCCccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337           94 EAFESRMSTLNDILGAL---R-------NPDISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus        94 ~~~~gR~~~~~~L~~~L---~-------~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      .++.|.+...+.|....   .       -...+-+.++|++|+|||.+|+.+++.+...
T Consensus       228 ~dvgGl~~lK~~l~~~~~~~~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~~~~  286 (489)
T CHL00195        228 SDIGGLDNLKDWLKKRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDWQLP  286 (489)
T ss_pred             HHhcCHHHHHHHHHHHHHHhhHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCCC
Confidence            45667665555444321   1       0235678999999999999999999987643

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=97.80  E-value=7.9e-05  Score=67.97  Aligned_cols=101  Identities=16%  Similarity=0.161  Sum_probs=58.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNREK  194 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  194 (247)
                      ...+.|||..|+|||.|++.+++.......--.++|+++      .++...+...+...        ....+.+.+..  
T Consensus       314 ~NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yita------eef~~el~~al~~~--------~~~~f~~~y~~--  377 (617)
T PRK14086        314 YNPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSS------EEFTNEFINSIRDG--------KGDSFRRRYRE--  377 (617)
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeH------HHHHHHHHHHHHhc--------cHHHHHHHhhc--
Confidence            356899999999999999999998764311224567643      44444444443211        12234444443  


Q ss_pred             cEEEEEeCCCCccc---h-hhhcccCCC-CCCCeEEEEeeCc
Q 037337          195 RILVILDNIWEHLD---L-QVVGIPHGD-DHKGCKVLFTARS  231 (247)
Q Consensus       195 r~LlvlDdv~~~~~---~-~~l~~~~~~-~~~~s~iiiTtR~  231 (247)
                      -=+|+|||++....   + +.+...+.. ...+..||+||..
T Consensus       378 ~DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~gk~IIITSd~  419 (617)
T PRK14086        378 MDILLVDDIQFLEDKESTQEEFFHTFNTLHNANKQIVLSSDR  419 (617)
T ss_pred             CCEEEEehhccccCCHHHHHHHHHHHHHHHhcCCCEEEecCC
Confidence            25788999986521   1 122222211 1335668888875

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=97.79  E-value=0.00038  Score=59.14  Aligned_cols=47  Identities=9%  Similarity=0.118  Sum_probs=41.0

Q ss_pred             cccccchHHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337           94 EAFESRMSTLNDILGALRNPD-ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus        94 ~~~~gR~~~~~~L~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .+++|.+...+.|.+.+..+. .....++|+.|+||+++|..+++.+-
T Consensus         4 ~~iiGq~~~~~~L~~~i~~~rl~ha~Lf~G~~G~Gk~~~A~~~a~~ll   51 (314)
T PRK07399          4 ANLIGQPLAIELLTAAIKQNRIAPAYLFAGPEGVGRKLAALCFIEGLL   51 (314)
T ss_pred             HHhCCHHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHHc
Confidence            467899999999999988775 47889999999999999999998864

>cd01131 PilT Pilus retraction ATPase PilT

Probab=97.79  E-value=5.3e-05  Score=60.05  Aligned_cols=111  Identities=8%  Similarity=0.088  Sum_probs=60.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNREKR  195 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr  195 (247)
                      ..+.|.|+.|+||||++..++......  ....++..-.+......-...+..+-..   ..+.......+...|.. .+
T Consensus         2 GlilI~GptGSGKTTll~~ll~~~~~~--~~~~i~t~e~~~E~~~~~~~~~i~q~~v---g~~~~~~~~~i~~aLr~-~p   75 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDYINKN--KTHHILTIEDPIEFVHESKRSLINQREV---GLDTLSFENALKAALRQ-DP   75 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhhhc--CCcEEEEEcCCccccccCccceeeeccc---CCCccCHHHHHHHHhcC-Cc
Confidence            478999999999999999988876543  2333333222110000000001111000   11122334556666655 35


Q ss_pred             EEEEEeCCCCccchhhhcccCCCCCCCeEEEEeeCchhhh
Q 037337          196 ILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTARSLDVL  235 (247)
Q Consensus       196 ~LlvlDdv~~~~~~~~l~~~~~~~~~~s~iiiTtR~~~va  235 (247)
                      =++++|++.+.+.+......   ...|..++.|+...+++
T Consensus        76 d~ii~gEird~e~~~~~l~~---a~~G~~v~~t~Ha~~~~  112 (198)
T cd01131          76 DVILVGEMRDLETIRLALTA---AETGHLVMSTLHTNSAA  112 (198)
T ss_pred             CEEEEcCCCCHHHHHHHHHH---HHcCCEEEEEecCCcHH
Confidence            68999999877655443222   23456688888877664

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.

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

Probab=97.76  E-value=0.0003  Score=60.32  Aligned_cols=30  Identities=30%  Similarity=0.269  Sum_probs=26.7

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          113 PDISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       113 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      ..+..++|||++|+|||.+|+.+++.....
T Consensus       146 k~PlgllL~GPPGcGKTllAraiA~elg~~  175 (413)
T PLN00020        146 KVPLILGIWGGKGQGKSFQCELVFKKMGIE  175 (413)
T ss_pred             CCCeEEEeeCCCCCCHHHHHHHHHHHcCCC
Confidence            346889999999999999999999998765

>KOG0728 consensus 26S proteasome regulatory complex, ATPase RPT6 [Posttranslational modification, protein turnover, chaperones]

Probab=97.76  E-value=0.0073  Score=49.05  Aligned_cols=92  Identities=21%  Similarity=0.255  Sum_probs=54.1

Q ss_pred             cccc-chHHHHHHHHHhc-------------CCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHH
Q 037337           95 AFES-RMSTLNDILGALR-------------NPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIR  160 (247)
Q Consensus        95 ~~~g-R~~~~~~L~~~L~-------------~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~  160 (247)
                      .++| -+..++++.+.+.             =.++.-+.++|++|.|||-||+.++++...       .|+.++...-+ 
T Consensus       147 eMiGgLd~QIkeIkEVIeLPvKHPELF~aLGIaQPKGvlLygppgtGktLlaraVahht~c-------~firvsgselv-  218 (404)
T KOG0728|consen  147 EMIGGLDKQIKEIKEVIELPVKHPELFEALGIAQPKGVLLYGPPGTGKTLLARAVAHHTDC-------TFIRVSGSELV-  218 (404)
T ss_pred             HHhccHHHHHHHHHHHHhccccCHHHHHhcCCCCCcceEEecCCCCchhHHHHHHHhhcce-------EEEEechHHHH-
Confidence            3455 5666666655543             124678899999999999999999986443       45666654222 


Q ss_pred             HHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          161 KVQGEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       161 ~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                         +..   +|.      .......++-..+..-+.+|..|++++.
T Consensus       219 ---qk~---ige------gsrmvrelfvmarehapsiifmdeidsi  252 (404)
T KOG0728|consen  219 ---QKY---IGE------GSRMVRELFVMAREHAPSIIFMDEIDSI  252 (404)
T ss_pred             ---HHH---hhh------hHHHHHHHHHHHHhcCCceEeeeccccc
Confidence               111   111      1122333333333334678888888754

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

Probab=97.76  E-value=5.4e-05  Score=70.49  Aligned_cols=103  Identities=16%  Similarity=0.260  Sum_probs=66.9

Q ss_pred             CCcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCC----CEEEEEEeCCCCCHHHHHHHHH
Q 037337           92 GYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLF----DLVVFSEMSQSPDIRKVQGEIA  167 (247)
Q Consensus        92 ~~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f----~~~~wv~~~~~~~~~~l~~~i~  167 (247)
                      ...+.+||++|+.++++.|......--.++|.+|+|||+++--++.+.-..+-.    +..++. .    ++..      
T Consensus       168 klDPvIGRd~EI~r~iqIL~RR~KNNPvLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~s-L----D~g~------  236 (786)
T COG0542         168 KLDPVIGRDEEIRRTIQILSRRTKNNPVLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYS-L----DLGS------  236 (786)
T ss_pred             CCCCCcChHHHHHHHHHHHhccCCCCCeEecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEE-e----cHHH------
Confidence            356799999999999999986655555688999999999999999987554211    112221 0    1111      


Q ss_pred             HHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          168 DKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       168 ~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                       -.....--..-++.+..+.+.+...++.+|++|++...
T Consensus       237 -LvAGakyRGeFEeRlk~vl~ev~~~~~vILFIDEiHti  274 (786)
T COG0542         237 -LVAGAKYRGEFEERLKAVLKEVEKSKNVILFIDEIHTI  274 (786)
T ss_pred             -HhccccccCcHHHHHHHHHHHHhcCCCeEEEEechhhh
Confidence             11111111344555666666665445799999998754

>cd01394 radB RadB

Probab=97.75  E-value=0.00034  Score=56.18  Aligned_cols=86  Identities=16%  Similarity=0.140  Sum_probs=50.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHH----hCCC---CCCCChHH---HHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADK----LGLT---FREESESG---RAR  184 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~----l~~~---~~~~~~~~---~~~  184 (247)
                      ..++.|+|.+|+|||+||.+++......  -..++|++....+.  +-+.+++..    +...   .+..+..+   ...
T Consensus        19 g~i~~i~G~~GsGKT~l~~~~a~~~~~~--g~~v~yi~~e~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (218)
T cd01394          19 GTVTQVYGPPGTGKTNIAIQLAVETAGQ--GKKVAYIDTEGLSS--ERFRQIAGDRPERAASSIIVFEPMDFNEQGRAIQ   94 (218)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhc--CCeEEEEECCCCCH--HHHHHHHhHChHhhhcCEEEEeCCCHHHHHHHHH
Confidence            4789999999999999999999887543  34578887655443  223333322    1100   01112222   223


Q ss_pred             HHHHHHcCCCcEEEEEeCCCC
Q 037337          185 SLFSRLNREKRILVILDNIWE  205 (247)
Q Consensus       185 ~l~~~l~~~kr~LlvlDdv~~  205 (247)
                      .+...+.. +.-++|+|.+..
T Consensus        95 ~~~~~~~~-~~~lvvIDsi~~  114 (218)
T cd01394          95 ETETFADE-KVDLVVVDSATA  114 (218)
T ss_pred             HHHHHHhc-CCcEEEEechHH
Confidence            34444443 356899999764

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

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

Probab=97.74  E-value=5.2e-05  Score=62.19  Aligned_cols=53  Identities=17%  Similarity=0.241  Sum_probs=43.0

Q ss_pred             cCCCcccccchHHHHHHHHHhc-----CCCccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337           90 NKGYEAFESRMSTLNDILGALR-----NPDISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus        90 ~~~~~~~~gR~~~~~~L~~~L~-----~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      |....+|+|.++..+.|.-++.     +...--+.++|++|.||||||.-+++...+.
T Consensus        22 P~~l~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~Emgvn   79 (332)
T COG2255          22 PKTLDEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANELGVN   79 (332)
T ss_pred             cccHHHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHHhcCC
Confidence            4556889999888887755553     3456789999999999999999999998765

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

Probab=97.74  E-value=0.00047  Score=60.02  Aligned_cols=102  Identities=17%  Similarity=0.141  Sum_probs=60.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCC
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNRE  193 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  193 (247)
                      ....+.|||..|.|||.|++.+++.......-..++|++      .+.....+...+..        ..++..++.. . 
T Consensus       112 ~~nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~~------se~f~~~~v~a~~~--------~~~~~Fk~~y-~-  175 (408)
T COG0593         112 AYNPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLT------SEDFTNDFVKALRD--------NEMEKFKEKY-S-  175 (408)
T ss_pred             cCCcEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEecc------HHHHHHHHHHHHHh--------hhHHHHHHhh-c-
Confidence            378999999999999999999999987663223455542      33344444444321        2244555555 3 


Q ss_pred             CcEEEEEeCCCCccc---h-hhhcccCCC-CCCCeEEEEeeCch
Q 037337          194 KRILVILDNIWEHLD---L-QVVGIPHGD-DHKGCKVLFTARSL  232 (247)
Q Consensus       194 kr~LlvlDdv~~~~~---~-~~l~~~~~~-~~~~s~iiiTtR~~  232 (247)
                       -=++++||++....   + +.+...|.. ...|-.||+|++..
T Consensus       176 -~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~kqIvltsdr~  218 (408)
T COG0593         176 -LDLLLIDDIQFLAGKERTQEEFFHTFNALLENGKQIVLTSDRP  218 (408)
T ss_pred             -cCeeeechHhHhcCChhHHHHHHHHHHHHHhcCCEEEEEcCCC
Confidence             24888999986422   1 222222211 12344899998643

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

Probab=97.74  E-value=0.00021  Score=67.78  Aligned_cols=49  Identities=22%  Similarity=0.225  Sum_probs=39.4

Q ss_pred             CcccccchHHHHHHHHHhcC------CCccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           93 YEAFESRMSTLNDILGALRN------PDISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L~~------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ..+..|.+...+.++++|..      .....+.++|++|+||||+++.++.....
T Consensus       321 ~~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~l~~  375 (784)
T PRK10787        321 DTDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKATGR  375 (784)
T ss_pred             hhhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHHhCC
Confidence            44588888888889887751      23467999999999999999999987653

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=97.73  E-value=0.0001  Score=65.58  Aligned_cols=99  Identities=8%  Similarity=0.088  Sum_probs=57.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNREK  194 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  194 (247)
                      ...+.|+|++|+|||+|++.+++.....  ...++|++      ...+...+...+...        ....+.+.+..  
T Consensus       141 ~npl~L~G~~G~GKTHLl~Ai~~~l~~~--~~~v~yi~------~~~f~~~~~~~l~~~--------~~~~f~~~~~~--  202 (445)
T PRK12422        141 FNPIYLFGPEGSGKTHLMQAAVHALRES--GGKILYVR------SELFTEHLVSAIRSG--------EMQRFRQFYRN--  202 (445)
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHHHHHc--CCCEEEee------HHHHHHHHHHHHhcc--------hHHHHHHHccc--
Confidence            4678999999999999999999987654  23356664      234444555554321        12234444433  


Q ss_pred             cEEEEEeCCCCccc----hhhhcccCCC-CCCCeEEEEeeCc
Q 037337          195 RILVILDNIWEHLD----LQVVGIPHGD-DHKGCKVLFTARS  231 (247)
Q Consensus       195 r~LlvlDdv~~~~~----~~~l~~~~~~-~~~~s~iiiTtR~  231 (247)
                      .-+|++||++....    .+.+...+.. ...|..||+||..
T Consensus       203 ~dvLiIDDiq~l~~k~~~qeelf~l~N~l~~~~k~IIlts~~  244 (445)
T PRK12422        203 VDALFIEDIEVFSGKGATQEEFFHTFNSLHTEGKLIVISSTC  244 (445)
T ss_pred             CCEEEEcchhhhcCChhhHHHHHHHHHHHHHCCCcEEEecCC
Confidence            35888999876422    1222222211 1235568888854

>smart00763 AAA_PrkA PrkA AAA domain

Probab=97.73  E-value=5.8e-05  Score=64.56  Aligned_cols=47  Identities=17%  Similarity=0.218  Sum_probs=40.9

Q ss_pred             ccccchHHHHHHHHHhcC------CCccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           95 AFESRMSTLNDILGALRN------PDISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        95 ~~~gR~~~~~~L~~~L~~------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      .++|-++.+.++.+++..      ...+++.++|++|+||||||..+++.+..
T Consensus        52 ~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l~~  104 (361)
T smart00763       52 DFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGLEE  104 (361)
T ss_pred             hccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            799999999999988852      24588999999999999999999998765

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

>PRK06696 uridine kinase; Validated

Probab=97.72  E-value=6.6e-05  Score=60.64  Aligned_cols=45  Identities=22%  Similarity=0.290  Sum_probs=36.3

Q ss_pred             cchHHHHHHHHHhc---CCCccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337           98 SRMSTLNDILGALR---NPDISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus        98 gR~~~~~~L~~~L~---~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      .|.+.+++|.+.+.   .+...+|+|.|.+|+||||||+.++..+...
T Consensus         2 ~~~~~~~~la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~~~l~~~   49 (223)
T PRK06696          2 SRKQLIKELAEHILTLNLTRPLRVAIDGITASGKTTFADELAEEIKKR   49 (223)
T ss_pred             cHHHHHHHHHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            36667777777664   4567899999999999999999999988543

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=97.72  E-value=0.00032  Score=58.18  Aligned_cols=113  Identities=18%  Similarity=0.132  Sum_probs=65.3

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEE---eCCCCCHHHHHHHHHHHhC-CC-------CCCCChHH
Q 037337          113 PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSE---MSQSPDIRKVQGEIADKLG-LT-------FREESESG  181 (247)
Q Consensus       113 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~---~~~~~~~~~l~~~i~~~l~-~~-------~~~~~~~~  181 (247)
                      .....++|.|+.|+|||||.+.++......   .+.+++.   +......    .+++.... .+       .+..+...
T Consensus       109 ~~~~~~~i~g~~g~GKttl~~~l~~~~~~~---~G~i~~~g~~v~~~d~~----~ei~~~~~~~~q~~~~~r~~v~~~~~  181 (270)
T TIGR02858       109 NRVLNTLIISPPQCGKTTLLRDLARILSTG---ISQLGLRGKKVGIVDER----SEIAGCVNGVPQHDVGIRTDVLDGCP  181 (270)
T ss_pred             CCeeEEEEEcCCCCCHHHHHHHHhCccCCC---CceEEECCEEeecchhH----HHHHHHhcccccccccccccccccch
Confidence            345678999999999999999999877643   2334431   1111112    22322221 11       11111111


Q ss_pred             HHHHHHHHHcCCCcEEEEEeCCCCccchhhhcccCCCCCCCeEEEEeeCchhhh
Q 037337          182 RARSLFSRLNREKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTARSLDVL  235 (247)
Q Consensus       182 ~~~~l~~~l~~~kr~LlvlDdv~~~~~~~~l~~~~~~~~~~s~iiiTtR~~~va  235 (247)
                      ....+...+....+-++++|+....+.+..+...+   ..|..+|+||.+.++.
T Consensus       182 k~~~~~~~i~~~~P~villDE~~~~e~~~~l~~~~---~~G~~vI~ttH~~~~~  232 (270)
T TIGR02858       182 KAEGMMMLIRSMSPDVIVVDEIGREEDVEALLEAL---HAGVSIIATAHGRDVE  232 (270)
T ss_pred             HHHHHHHHHHhCCCCEEEEeCCCcHHHHHHHHHHH---hCCCEEEEEechhHHH
Confidence            22334444443356899999998776665554443   2477899999988773

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.

>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=97.72  E-value=0.00034  Score=54.04  Aligned_cols=37  Identities=22%  Similarity=0.350  Sum_probs=27.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQ  155 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~  155 (247)
                      ++.+.|++|+||||++..++..+....  ..++.+++..
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~~~~~g--~~v~~i~~D~   38 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALYLKKKG--KKVLLVAADT   38 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCC--CcEEEEEcCC
Confidence            678999999999999999998876542  2345555543

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.

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=97.72  E-value=0.00037  Score=56.56  Aligned_cols=87  Identities=15%  Similarity=0.171  Sum_probs=51.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCC----------------C-
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFRE----------------E-  177 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~----------------~-  177 (247)
                      ..++.|.|++|+||||||.+++.....+.  ..++|++  ...+..+++..+ ..++...+.                . 
T Consensus        24 g~~~~i~G~~G~GKTtl~~~~~~~~~~~g--~~~~yi~--~e~~~~~~~~~~-~~~g~~~~~~~~~~~l~~~~~~~~~~~   98 (230)
T PRK08533         24 GSLILIEGDESTGKSILSQRLAYGFLQNG--YSVSYVS--TQLTTTEFIKQM-MSLGYDINKKLISGKLLYIPVYPLLSG   98 (230)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHhCC--CcEEEEe--CCCCHHHHHHHH-HHhCCchHHHhhcCcEEEEEecccccC
Confidence            46999999999999999988777653331  3456766  333556666665 344432110                0 


Q ss_pred             --ChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          178 --SESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       178 --~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                        ........+.+.....+.-++|+|.....
T Consensus        99 ~~~~~~~l~~il~~~~~~~~~~lVIDe~t~~  129 (230)
T PRK08533         99 NSEKRKFLKKLMNTRRFYEKDVIIIDSLSSL  129 (230)
T ss_pred             hHHHHHHHHHHHHHHHhcCCCEEEEECccHH
Confidence              11223333444433224578999997653

>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.71  E-value=0.00011  Score=59.73  Aligned_cols=94  Identities=22%  Similarity=0.337  Sum_probs=61.0

Q ss_pred             CcccccchHHHHH---HHHHhcCC------CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHH
Q 037337           93 YEAFESRMSTLND---ILGALRNP------DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQ  163 (247)
Q Consensus        93 ~~~~~gR~~~~~~---L~~~L~~~------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~  163 (247)
                      ..+.+|.++...+   |.+.|.++      .++.|..+|++|+|||.+|+.+++..+..  |     +.+...    +  
T Consensus       120 ~ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~kvp--~-----l~vkat----~--  186 (368)
T COG1223         120 LDDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEAKVP--L-----LLVKAT----E--  186 (368)
T ss_pred             HhhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhcccCCc--e-----EEechH----H--
Confidence            4567887766544   56666654      37889999999999999999999887765  2     222111    1  


Q ss_pred             HHHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          164 GEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       164 ~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                       -|-+..|      +....+.++.++....-+|++.||+++-.
T Consensus       187 -liGehVG------dgar~Ihely~rA~~~aPcivFiDE~DAi  222 (368)
T COG1223         187 -LIGEHVG------DGARRIHELYERARKAAPCIVFIDELDAI  222 (368)
T ss_pred             -HHHHHhh------hHHHHHHHHHHHHHhcCCeEEEehhhhhh
Confidence             1112221      23444556666665556799999998743

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.71  E-value=9.5e-05  Score=69.99  Aligned_cols=49  Identities=27%  Similarity=0.270  Sum_probs=38.3

Q ss_pred             CcccccchHHHHHHHHHhcC-------------CCccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           93 YEAFESRMSTLNDILGALRN-------------PDISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L~~-------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ..++.|.+..++.|.+++.-             ...+.+.++|++|+|||+||+.+++....
T Consensus       177 ~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~~~  238 (733)
T TIGR01243       177 YEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGA  238 (733)
T ss_pred             HHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHhCC
Confidence            34578999988888776531             23467889999999999999999987643

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.

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=97.71  E-value=0.00033  Score=59.48  Aligned_cols=90  Identities=17%  Similarity=0.163  Sum_probs=57.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccC----CCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCC----------CC--
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHK----LFDLVVFSEMSQSPDIRKVQGEIADKLGLTFRE----------ES--  178 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~----~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~----------~~--  178 (247)
                      ..++-|+|++|+|||+|+.+++.......    .-..++|++....++..++. +++..++.....          .+  
T Consensus        95 g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~-~~~~~~gl~~~~~~~~i~i~~~~~~~  173 (310)
T TIGR02236        95 QAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIM-QMAEARGLDPDEVLKNIYVARAYNSN  173 (310)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHH-HHHHHcCCCHHHHhhceEEEecCCHH
Confidence            57889999999999999999988754311    01268999998888877654 445555433210          11  


Q ss_pred             -hHHHHHHHHHHHcCC--CcEEEEEeCCCC
Q 037337          179 -ESGRARSLFSRLNRE--KRILVILDNIWE  205 (247)
Q Consensus       179 -~~~~~~~l~~~l~~~--kr~LlvlDdv~~  205 (247)
                       .....+.+.+.+...  +.-+||+|.+..
T Consensus       174 ~~~~lld~l~~~i~~~~~~~~lVVIDSisa  203 (310)
T TIGR02236       174 HQMLLVEKAEDLIKELNNPVKLLIVDSLTS  203 (310)
T ss_pred             HHHHHHHHHHHHHHhcCCCceEEEEecchH
Confidence             112344555566442  245899999764

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.

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.71  E-value=0.00028  Score=61.02  Aligned_cols=60  Identities=15%  Similarity=0.112  Sum_probs=39.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCC-CCHHHHHHHHHHHhCCCC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQS-PDIRKVQGEIADKLGLTF  174 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~-~~~~~l~~~i~~~l~~~~  174 (247)
                      ..+++++|+.|+||||++.+++...........+.+++.... ....+-+...++.++.+.
T Consensus       137 g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~  197 (374)
T PRK14722        137 GGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPV  197 (374)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcCCce
Confidence            579999999999999999999988654311234566654432 233444555555665543

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=97.70  E-value=0.00026  Score=55.15  Aligned_cols=24  Identities=17%  Similarity=0.160  Sum_probs=21.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      +|.|.|++|+||||+|+.++..+.
T Consensus         1 ~i~i~G~pGsGKst~a~~la~~~~   24 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVENFG   24 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHcC
Confidence            478999999999999999998764

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.

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=97.70  E-value=0.00036  Score=59.45  Aligned_cols=90  Identities=21%  Similarity=0.201  Sum_probs=57.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCC----CCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCC----------CCh-
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKL----FDLVVFSEMSQSPDIRKVQGEIADKLGLTFRE----------ESE-  179 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~----f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~----------~~~-  179 (247)
                      ..++-|+|++|+|||+|+.+++........    -..++|++....++...+. ++++.++...+.          .+. 
T Consensus       102 g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~-~~~~~~g~~~~~~l~~i~~~~~~~~~  180 (317)
T PRK04301        102 QSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIE-QMAEALGLDPDEVLDNIHVARAYNSD  180 (317)
T ss_pred             CcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHH-HHHHHcCCChHhhhccEEEEeCCCHH
Confidence            578899999999999999999877543211    1368999998887877654 445555533211          111 


Q ss_pred             --HHHHHHHHHHHcC-CCcEEEEEeCCCC
Q 037337          180 --SGRARSLFSRLNR-EKRILVILDNIWE  205 (247)
Q Consensus       180 --~~~~~~l~~~l~~-~kr~LlvlDdv~~  205 (247)
                        ......+...+.. .+--|||+|.+..
T Consensus       181 ~~~~~~~~l~~~i~~~~~~~lvVIDSisa  209 (317)
T PRK04301        181 HQMLLAEKAEELIKEGENIKLVIVDSLTA  209 (317)
T ss_pred             HHHHHHHHHHHHHhccCceeEEEEECchH
Confidence              1223444445543 3445999999754

>PRK04328 hypothetical protein; Provisional

Probab=97.70  E-value=0.00028  Score=57.98  Aligned_cols=111  Identities=12%  Similarity=0.182  Sum_probs=63.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCC-------------------
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTF-------------------  174 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~-------------------  174 (247)
                      ..+++.|.|++|+|||+|+.+++......  -...+|++....  ..++.+ -+++++.+.                   
T Consensus        22 ~gs~ili~G~pGsGKT~l~~~fl~~~~~~--ge~~lyis~ee~--~~~i~~-~~~~~g~d~~~~~~~~~l~iid~~~~~~   96 (249)
T PRK04328         22 ERNVVLLSGGPGTGKSIFSQQFLWNGLQM--GEPGVYVALEEH--PVQVRR-NMRQFGWDVRKYEEEGKFAIVDAFTGGI   96 (249)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHhc--CCcEEEEEeeCC--HHHHHH-HHHHcCCCHHHHhhcCCEEEEecccccc
Confidence            35889999999999999999988764333  345788876653  333333 233333210                   


Q ss_pred             ------------CCCChHHHHHHHHHHHcCCCcEEEEEeCCCCcc--c-------hhhhcccCCCCCCCeEEEEeeCc
Q 037337          175 ------------REESESGRARSLFSRLNREKRILVILDNIWEHL--D-------LQVVGIPHGDDHKGCKVLFTARS  231 (247)
Q Consensus       175 ------------~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~~--~-------~~~l~~~~~~~~~~s~iiiTtR~  231 (247)
                                  +..+.......+.+.+...+.-++|+|.+....  +       +..+...+  ...|+.+++|+..
T Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~vVIDSlt~l~~~~~~~~r~~~~~l~~~l--k~~g~t~llt~e~  172 (249)
T PRK04328         97 GSAAKREKYVVKDPDDVRELIDVLRQAIKDIGAKRVVIDSVSTLYLTKPAMARSIVMQLKRVL--SGLGCTAIFVSQV  172 (249)
T ss_pred             ccccccccccccCcccHHHHHHHHHHHHHhhCCCEEEEeChhHhhcCChHHHHHHHHHHHHHH--HhCCCEEEEEECc
Confidence                        011233445556666654445689999985331  0       11111111  3557778888643

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=97.69  E-value=0.00035  Score=59.87  Aligned_cols=90  Identities=16%  Similarity=0.155  Sum_probs=58.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhccc----CCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCC----------CChH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNH----KLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFRE----------ESES  180 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~----~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~----------~~~~  180 (247)
                      ..+.-|+|++|+|||+|+.+++-.....    ..-..++|++....++.+++. ++++.++.+.+.          .+.+
T Consensus       126 G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~-~ia~~~g~d~~~~l~~I~~~~~~~~e  204 (344)
T PLN03187        126 RCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIV-PIAERFGMDADAVLDNIIYARAYTYE  204 (344)
T ss_pred             CeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHH-HHHHHcCCChhhhcCeEEEecCCCHH
Confidence            4788899999999999999997544321    112468999999988888754 456777654321          1222


Q ss_pred             HH---HHHHHHHHcCCCcEEEEEeCCCC
Q 037337          181 GR---ARSLFSRLNREKRILVILDNIWE  205 (247)
Q Consensus       181 ~~---~~~l~~~l~~~kr~LlvlDdv~~  205 (247)
                      ..   +..+...+...+--|||+|.+-.
T Consensus       205 ~~~~~l~~l~~~i~~~~~~LvVIDSita  232 (344)
T PLN03187        205 HQYNLLLGLAAKMAEEPFRLLIVDSVIA  232 (344)
T ss_pred             HHHHHHHHHHHHHHhcCCCEEEEeCcHH
Confidence            22   23333344333457899999763

>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=97.68  E-value=0.00065  Score=57.51  Aligned_cols=85  Identities=18%  Similarity=0.199  Sum_probs=55.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCC------CCChHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFR------EESESGRARSLFS  188 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~------~~~~~~~~~~l~~  188 (247)
                      .+++-|+|+.|+||||||..+.......  -...+|+++....+..-     +..+|.+.+      +.+.++....+..
T Consensus        53 G~ivEi~G~~ssGKttLaL~~ia~~q~~--g~~~a~ID~e~~ld~~~-----a~~lGvdl~rllv~~P~~~E~al~~~e~  125 (322)
T PF00154_consen   53 GRIVEIYGPESSGKTTLALHAIAEAQKQ--GGICAFIDAEHALDPEY-----AESLGVDLDRLLVVQPDTGEQALWIAEQ  125 (322)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHHT--T-EEEEEESSS---HHH-----HHHTT--GGGEEEEE-SSHHHHHHHHHH
T ss_pred             CceEEEeCCCCCchhhhHHHHHHhhhcc--cceeEEecCcccchhhH-----HHhcCccccceEEecCCcHHHHHHHHHH
Confidence            4789999999999999999999887655  34688999877766533     566665533      2334444454445


Q ss_pred             HHcCCCcEEEEEeCCCCc
Q 037337          189 RLNREKRILVILDNIWEH  206 (247)
Q Consensus       189 ~l~~~kr~LlvlDdv~~~  206 (247)
                      .++.+.--++|+|.|-..
T Consensus       126 lirsg~~~lVVvDSv~al  143 (322)
T PF00154_consen  126 LIRSGAVDLVVVDSVAAL  143 (322)
T ss_dssp             HHHTTSESEEEEE-CTT-
T ss_pred             HhhcccccEEEEecCccc
Confidence            556656678999998654

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 ....

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=97.67  E-value=0.00062  Score=58.17  Aligned_cols=27  Identities=26%  Similarity=0.267  Sum_probs=23.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      .....++|+.|+|||++|+.++..+-.
T Consensus        22 ~ha~Lf~G~~G~GK~~~A~~~A~~llC   48 (328)
T PRK05707         22 PHAYLLHGPAGIGKRALAERLAAALLC   48 (328)
T ss_pred             ceeeeeECCCCCCHHHHHHHHHHHHcC
Confidence            567889999999999999999998754

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=97.67  E-value=0.00058  Score=55.51  Aligned_cols=86  Identities=13%  Similarity=0.164  Sum_probs=55.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCC------------------
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFR------------------  175 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~------------------  175 (247)
                      ..+++.|+|.+|+|||+|+.+++.....+  -..++|++...  +..++...+ .+++....                  
T Consensus        24 ~g~~~~i~G~~GsGKt~l~~~~~~~~~~~--g~~~~y~~~e~--~~~~~~~~~-~~~g~~~~~~~~~g~l~i~~~~~~~~   98 (234)
T PRK06067         24 FPSLILIEGDHGTGKSVLSQQFVYGALKQ--GKKVYVITTEN--TSKSYLKQM-ESVKIDISDFFLWGYLRIFPLNTEGF   98 (234)
T ss_pred             CCcEEEEECCCCCChHHHHHHHHHHHHhC--CCEEEEEEcCC--CHHHHHHHH-HHCCCChhHHHhCCCceEEecccccc
Confidence            35899999999999999999997664333  34688888764  345555543 33332111                  


Q ss_pred             ---CCChHHHHHHHHHHHcCCCcEEEEEeCCC
Q 037337          176 ---EESESGRARSLFSRLNREKRILVILDNIW  204 (247)
Q Consensus       176 ---~~~~~~~~~~l~~~l~~~kr~LlvlDdv~  204 (247)
                         ..........+.+.+...+.-++|+|.+.
T Consensus        99 ~~~~~~~~~ll~~l~~~i~~~~~~~iviDs~t  130 (234)
T PRK06067         99 EWNSTLANKLLELIIEFIKSKREDVIIIDSLT  130 (234)
T ss_pred             ccCcchHHHHHHHHHHHHHhcCCCEEEEecHH
Confidence               11224455666666654345689999976

>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=97.66  E-value=0.00046  Score=53.20  Aligned_cols=59  Identities=10%  Similarity=0.136  Sum_probs=36.3

Q ss_pred             cccchHHHHHHHHHhc--CCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCC
Q 037337           96 FESRMSTLNDILGALR--NPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQS  156 (247)
Q Consensus        96 ~~gR~~~~~~L~~~L~--~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~  156 (247)
                      ++|....+.++.+.+.  ......|.|+|..|+||+.+|+.+.+.-...  -...+-|+|+.-
T Consensus         1 liG~s~~m~~~~~~~~~~a~~~~pVlI~GE~GtGK~~lA~~IH~~s~r~--~~pfi~vnc~~~   61 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAASSDLPVLITGETGTGKELLARAIHNNSPRK--NGPFISVNCAAL   61 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHTTSTS-EEEECSTTSSHHHHHHHHHHCSTTT--TS-EEEEETTTS
T ss_pred             CEeCCHHHHHHHHHHHHHhCCCCCEEEEcCCCCcHHHHHHHHHHhhhcc--cCCeEEEehhhh
Confidence            3566777777766554  1233677899999999999999998743221  123455666643

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 ....

>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=97.65  E-value=0.00014  Score=54.05  Aligned_cols=42  Identities=26%  Similarity=0.297  Sum_probs=33.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHH
Q 037337          118 LGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQG  164 (247)
Q Consensus       118 v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~  164 (247)
                      |.|+|++|+|||+||+.+++....     ....+.++...+..+++.
T Consensus         2 vlL~G~~G~GKt~l~~~la~~~~~-----~~~~i~~~~~~~~~dl~g   43 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAALLGR-----PVIRINCSSDTTEEDLIG   43 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHHHTC-----EEEEEE-TTTSTHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhhc-----ceEEEEecccccccccee
Confidence            679999999999999999998832     345678888888877654

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.

>PTZ00035 Rad51 protein; Provisional

Probab=97.64  E-value=0.00087  Score=57.50  Aligned_cols=90  Identities=17%  Similarity=0.154  Sum_probs=56.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhccc----CCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCC----------CCChH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNH----KLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFR----------EESES  180 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~----~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~----------~~~~~  180 (247)
                      ..++.|+|++|+|||+|+..++-.....    ..-..++|++....++.++ +.++++.++....          ..+.+
T Consensus       118 G~iteI~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE~~f~~er-i~~ia~~~g~~~~~~l~nI~~~~~~~~e  196 (337)
T PTZ00035        118 GSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEGTFRPER-IVQIAERFGLDPEDVLDNIAYARAYNHE  196 (337)
T ss_pred             CeEEEEECCCCCchhHHHHHHHHHhccccccCCCCceEEEEEccCCCCHHH-HHHHHHHhCCChHhHhhceEEEccCCHH
Confidence            5789999999999999999998655421    1123577998877777666 4555666654321          11222


Q ss_pred             HHHH---HHHHHHcCCCcEEEEEeCCCC
Q 037337          181 GRAR---SLFSRLNREKRILVILDNIWE  205 (247)
Q Consensus       181 ~~~~---~l~~~l~~~kr~LlvlDdv~~  205 (247)
                      ....   .+...+...+--|||+|.+..
T Consensus       197 ~~~~~l~~~~~~l~~~~~~lvVIDSita  224 (337)
T PTZ00035        197 HQMQLLSQAAAKMAEERFALLIVDSATA  224 (337)
T ss_pred             HHHHHHHHHHHHhhccCccEEEEECcHH
Confidence            2222   233344444557999999864

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=97.62  E-value=0.00058  Score=60.42  Aligned_cols=87  Identities=20%  Similarity=0.293  Sum_probs=52.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCC-CCHHHHHHHHHHHhCCCCCC----CChHHHHHHHHH
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQS-PDIRKVQGEIADKLGLTFRE----ESESGRARSLFS  188 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~-~~~~~l~~~i~~~l~~~~~~----~~~~~~~~~l~~  188 (247)
                      .+.++.++|++|+||||++..++..+.... + .+..+++... +...+-+..++..++.+...    .+.........+
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L~~~g-~-kV~lV~~D~~R~aa~eQL~~la~~~gvp~~~~~~~~d~~~i~~~al~  171 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYFKKKG-L-KVGLVAADTYRPAAYDQLKQLAEKIGVPFYGDPDNKDAVEIAKEGLE  171 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHHcC-C-eEEEecCCCCCHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHHHH
Confidence            467899999999999999999999887542 2 3445554432 12344456667776654322    222333333444


Q ss_pred             HHcCCCcEEEEEeCCC
Q 037337          189 RLNREKRILVILDNIW  204 (247)
Q Consensus       189 ~l~~~kr~LlvlDdv~  204 (247)
                      .+.. . -+||+|..-
T Consensus       172 ~~~~-~-DvVIIDTAG  185 (437)
T PRK00771        172 KFKK-A-DVIIVDTAG  185 (437)
T ss_pred             Hhhc-C-CEEEEECCC
Confidence            4433 2 567788764

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=97.62  E-value=0.00047  Score=59.87  Aligned_cols=86  Identities=24%  Similarity=0.296  Sum_probs=53.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCC--ChHHHHHHHHHHHcC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREE--SESGRARSLFSRLNR  192 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~--~~~~~~~~l~~~l~~  192 (247)
                      ..++.|.|.+|+|||||+.+++......  -..++|++...  +...+. .-+..++...+..  ........+.+.+..
T Consensus        82 GslvLI~G~pG~GKStLllq~a~~~a~~--g~~VlYvs~EE--s~~qi~-~Ra~rlg~~~~~l~l~~e~~le~I~~~i~~  156 (372)
T cd01121          82 GSVILIGGDPGIGKSTLLLQVAARLAKR--GGKVLYVSGEE--SPEQIK-LRADRLGISTENLYLLAETNLEDILASIEE  156 (372)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHhc--CCeEEEEECCc--CHHHHH-HHHHHcCCCcccEEEEccCcHHHHHHHHHh
Confidence            4789999999999999999999877654  24678887543  333332 2244555433221  011123445555544


Q ss_pred             CCcEEEEEeCCCC
Q 037337          193 EKRILVILDNIWE  205 (247)
Q Consensus       193 ~kr~LlvlDdv~~  205 (247)
                      .+.-+||+|.+..
T Consensus       157 ~~~~lVVIDSIq~  169 (372)
T cd01121         157 LKPDLVIIDSIQT  169 (372)
T ss_pred             cCCcEEEEcchHH
Confidence            4567899999854

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.

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

Probab=97.62  E-value=0.0002  Score=64.41  Aligned_cols=102  Identities=22%  Similarity=0.364  Sum_probs=63.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCC
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNRE  193 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  193 (247)
                      .+.-|.+||++|+|||-||+.+++.....       |+++...    +++..   ..|      ..+..+..++.+.+..
T Consensus       544 ~PsGvLL~GPPGCGKTLlAKAVANEag~N-------FisVKGP----ELlNk---YVG------ESErAVR~vFqRAR~s  603 (802)
T KOG0733|consen  544 APSGVLLCGPPGCGKTLLAKAVANEAGAN-------FISVKGP----ELLNK---YVG------ESERAVRQVFQRARAS  603 (802)
T ss_pred             CCCceEEeCCCCccHHHHHHHHhhhccCc-------eEeecCH----HHHHH---Hhh------hHHHHHHHHHHHhhcC
Confidence            35778999999999999999999987765       4555543    22111   111      1234456666666555


Q ss_pred             CcEEEEEeCCCCccc-------------hhhhcccCC--CCCCCeEEEEeeCchhhh
Q 037337          194 KRILVILDNIWEHLD-------------LQVVGIPHG--DDHKGCKVLFTARSLDVL  235 (247)
Q Consensus       194 kr~LlvlDdv~~~~~-------------~~~l~~~~~--~~~~~s~iiiTtR~~~va  235 (247)
                      -+++|.||+++....             +..+...+.  ....|.-||-.|..+++.
T Consensus       604 aPCVIFFDEiDaL~p~R~~~~s~~s~RvvNqLLtElDGl~~R~gV~viaATNRPDiI  660 (802)
T KOG0733|consen  604 APCVIFFDEIDALVPRRSDEGSSVSSRVVNQLLTELDGLEERRGVYVIAATNRPDII  660 (802)
T ss_pred             CCeEEEecchhhcCcccCCCCchhHHHHHHHHHHHhcccccccceEEEeecCCCccc
Confidence            689999999985411             122222221  123566677777767664

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.61  E-value=0.00021  Score=63.31  Aligned_cols=104  Identities=20%  Similarity=0.216  Sum_probs=61.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHH---
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRL---  190 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l---  190 (247)
                      +...+.+.|++|+|||+||..++..-    .|+.+--++...-..                  -+.......+.+..   
T Consensus       537 ~lvSvLl~Gp~~sGKTaLAA~iA~~S----~FPFvKiiSpe~miG------------------~sEsaKc~~i~k~F~DA  594 (744)
T KOG0741|consen  537 PLVSVLLEGPPGSGKTALAAKIALSS----DFPFVKIISPEDMIG------------------LSESAKCAHIKKIFEDA  594 (744)
T ss_pred             cceEEEEecCCCCChHHHHHHHHhhc----CCCeEEEeChHHccC------------------ccHHHHHHHHHHHHHHh
Confidence            46678889999999999999998653    366544332111110                  11122222232222   


Q ss_pred             -cCCCcEEEEEeCCCCccchhhhccc---------------CCCCCCCeEEEEeeCchhhhhccCCC
Q 037337          191 -NREKRILVILDNIWEHLDLQVVGIP---------------HGDDHKGCKVLFTARSLDVLSRKMDS  241 (247)
Q Consensus       191 -~~~kr~LlvlDdv~~~~~~~~l~~~---------------~~~~~~~s~iiiTtR~~~va~~~~~~  241 (247)
                       +. .--.||+||++...+|..++..               .|..++..=|+-||...+|.. .|+-
T Consensus       595 YkS-~lsiivvDdiErLiD~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~-~m~i  659 (744)
T KOG0741|consen  595 YKS-PLSIIVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQ-EMGI  659 (744)
T ss_pred             hcC-cceEEEEcchhhhhcccccCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHH-HcCH
Confidence             33 3478999999987665443222               233444555777888888876 4653

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

Probab=97.60  E-value=3.5e-05  Score=57.34  Aligned_cols=44  Identities=20%  Similarity=0.304  Sum_probs=29.9

Q ss_pred             ccchHHHHHHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337           97 ESRMSTLNDILGALRN--PDISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus        97 ~gR~~~~~~L~~~L~~--~~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      +|+...++++.+.+..  .....|.|+|.+|+||+++|+.+.+...
T Consensus         1 vG~S~~~~~l~~~l~~~a~~~~pvli~GE~GtGK~~~A~~lh~~~~   46 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLERLAKSSSPVLITGEPGTGKSLLARALHRYSG   46 (138)
T ss_dssp             --SCHHHHHHHHHHHHHHCSSS-EEEECCTTSSHHHHHHCCHHTTT
T ss_pred             CCCCHHHHHHHHHHHHHhCCCCcEEEEcCCCCCHHHHHHHHHhhcC
Confidence            3555566666555541  3346788999999999999998887644

>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]

Probab=97.60  E-value=0.00042  Score=56.52  Aligned_cols=94  Identities=18%  Similarity=0.262  Sum_probs=62.4

Q ss_pred             CCcccccchHHHHHHHHHhcC-------------CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCC
Q 037337           92 GYEAFESRMSTLNDILGALRN-------------PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPD  158 (247)
Q Consensus        92 ~~~~~~gR~~~~~~L~~~L~~-------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~  158 (247)
                      ...+.-|-.+++++|.+..+-             +.++-|.++|++|.|||-+|+.++++....  |     +.+-..  
T Consensus       175 ty~dvggckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravanrtdac--f-----irvigs--  245 (435)
T KOG0729|consen  175 TYSDVGGCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVANRTDAC--F-----IRVIGS--  245 (435)
T ss_pred             ccccccchHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhcccCce--E-----EeehhH--
Confidence            355677788888888776431             246788999999999999999999876543  3     322221  


Q ss_pred             HHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCC
Q 037337          159 IRKVQGEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWE  205 (247)
Q Consensus       159 ~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~  205 (247)
                        ++.+.   ..|      ........|.+..+.+|-++|.+|+++-
T Consensus       246 --elvqk---yvg------egarmvrelf~martkkaciiffdeida  281 (435)
T KOG0729|consen  246 --ELVQK---YVG------EGARMVRELFEMARTKKACIIFFDEIDA  281 (435)
T ss_pred             --HHHHH---Hhh------hhHHHHHHHHHHhcccceEEEEeecccc
Confidence              11111   111      1234456677777777889999999873

>PRK05541 adenylylsulfate kinase; Provisional

Probab=97.60  E-value=0.00024  Score=55.10  Aligned_cols=36  Identities=25%  Similarity=0.432  Sum_probs=29.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEE
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFS  151 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv  151 (247)
                      ...+|.+.|++|+||||+|+.++..+...  +...+++
T Consensus         6 ~~~~I~i~G~~GsGKst~a~~l~~~l~~~--~~~~~~~   41 (176)
T PRK05541          6 NGYVIWITGLAGSGKTTIAKALYERLKLK--YSNVIYL   41 (176)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHHHc--CCcEEEE
Confidence            34689999999999999999999998754  5555555

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=97.60  E-value=0.00052  Score=58.36  Aligned_cols=90  Identities=17%  Similarity=0.108  Sum_probs=56.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhccc---C-CCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCC----------CChH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNH---K-LFDLVVFSEMSQSPDIRKVQGEIADKLGLTFRE----------ESES  180 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~---~-~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~----------~~~~  180 (247)
                      ..++.|+|++|+|||+|+..++......   . .-..++|++....++..+ +.++++.++.....          .+.+
T Consensus        96 g~i~~i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~~f~~~R-l~~ia~~~~~~~~~~l~~i~~~~~~~~~  174 (316)
T TIGR02239        96 GSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPER-LLAIAERYGLNPEDVLDNVAYARAYNTD  174 (316)
T ss_pred             CeEEEEECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCCCCCHHH-HHHHHHHcCCChHHhhccEEEEecCChH
Confidence            5889999999999999999998643221   1 113579999888777766 44455655543211          1222


Q ss_pred             H---HHHHHHHHHcCCCcEEEEEeCCCC
Q 037337          181 G---RARSLFSRLNREKRILVILDNIWE  205 (247)
Q Consensus       181 ~---~~~~l~~~l~~~kr~LlvlDdv~~  205 (247)
                      +   .+..+...+...+--|||+|.+..
T Consensus       175 ~~~~~l~~~~~~~~~~~~~LvVIDSI~a  202 (316)
T TIGR02239       175 HQLQLLQQAAAMMSESRFALLIVDSATA  202 (316)
T ss_pred             HHHHHHHHHHHhhccCCccEEEEECcHH
Confidence            2   233333344444567899999754

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).

>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.59  E-value=0.00039  Score=57.57  Aligned_cols=93  Identities=20%  Similarity=0.257  Sum_probs=62.0

Q ss_pred             cccccchHHHHHHHHHhc----------C--CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHH
Q 037337           94 EAFESRMSTLNDILGALR----------N--PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRK  161 (247)
Q Consensus        94 ~~~~gR~~~~~~L~~~L~----------~--~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~  161 (247)
                      .+..|-+...+.|.+...          .  ..-+-|.++|++|.||+-||+.|+......       |+++++.    +
T Consensus       133 sDVAGLE~AKeALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLAKAVATEAnST-------FFSvSSS----D  201 (439)
T KOG0739|consen  133 SDVAGLEGAKEALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLAKAVATEANST-------FFSVSSS----D  201 (439)
T ss_pred             hhhccchhHHHHHHhheeecccchhhhcCCCCcceeEEEeCCCCCcHHHHHHHHHhhcCCc-------eEEeehH----H
Confidence            346666666666665532          1  135789999999999999999999876532       3445443    2


Q ss_pred             HHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          162 VQGEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       162 l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                      +..   ..+|      ..+.+...|.+..+..++.+|.+|+++..
T Consensus       202 LvS---KWmG------ESEkLVknLFemARe~kPSIIFiDEiDsl  237 (439)
T KOG0739|consen  202 LVS---KWMG------ESEKLVKNLFEMARENKPSIIFIDEIDSL  237 (439)
T ss_pred             HHH---HHhc------cHHHHHHHHHHHHHhcCCcEEEeehhhhh
Confidence            211   2333      23556677777777778899999999854

>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs

Probab=97.59  E-value=0.00033  Score=54.57  Aligned_cols=44  Identities=11%  Similarity=0.118  Sum_probs=31.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHH
Q 037337          118 LGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGE  165 (247)
Q Consensus       118 v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~  165 (247)
                      +.|.|++|+|||+|+.+++......  -..+.|++...  +..++...
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~~~~~--g~~v~~~s~e~--~~~~~~~~   45 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGLAR--GEPGLYVTLEE--SPEELIEN   45 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHC--CCcEEEEECCC--CHHHHHHH
Confidence            6799999999999999998876433  24577876544  44454443

A related protein is found in archaea.

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

Probab=97.58  E-value=0.00041  Score=64.04  Aligned_cols=93  Identities=19%  Similarity=0.274  Sum_probs=62.4

Q ss_pred             cccccchHHHHHHHHHhcC---------C---CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHH
Q 037337           94 EAFESRMSTLNDILGALRN---------P---DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRK  161 (247)
Q Consensus        94 ~~~~gR~~~~~~L~~~L~~---------~---~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~  161 (247)
                      .++=|-++....|.+.+.-         .   +.+-|.+||++|+|||-||+.|+....-.       |+++..+.    
T Consensus       672 dDVGGLeevK~eIldTIqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATEcsL~-------FlSVKGPE----  740 (953)
T KOG0736|consen  672 DDVGGLEEVKTEILDTIQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATECSLN-------FLSVKGPE----  740 (953)
T ss_pred             hcccCHHHHHHHHHHHhcCcccChhhhhccccccceeEEECCCCCchHHHHHHHHhhceee-------EEeecCHH----
Confidence            4555677777777776541         2   25678999999999999999999876644       45555431    


Q ss_pred             HHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          162 VQGEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       162 l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                      ++.   ...|.      .++-..++.++.+...+|+|.||++++.
T Consensus       741 LLN---MYVGq------SE~NVR~VFerAR~A~PCVIFFDELDSl  776 (953)
T KOG0736|consen  741 LLN---MYVGQ------SEENVREVFERARSAAPCVIFFDELDSL  776 (953)
T ss_pred             HHH---HHhcc------hHHHHHHHHHHhhccCCeEEEecccccc
Confidence            111   11221      1333566666666668899999999865

>PRK13531 regulatory ATPase RavA; Provisional

Probab=97.56  E-value=0.00014  Score=64.47  Aligned_cols=50  Identities=18%  Similarity=0.222  Sum_probs=41.9

Q ss_pred             cccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCC
Q 037337           94 EAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLF  145 (247)
Q Consensus        94 ~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f  145 (247)
                      ..++||++.++.+...+..+  .-|.++|++|+|||+||+.+.........|
T Consensus        20 ~~i~gre~vI~lll~aalag--~hVLL~GpPGTGKT~LAraLa~~~~~~~~F   69 (498)
T PRK13531         20 KGLYERSHAIRLCLLAALSG--ESVFLLGPPGIAKSLIARRLKFAFQNARAF   69 (498)
T ss_pred             hhccCcHHHHHHHHHHHccC--CCEEEECCCChhHHHHHHHHHHHhcccCcc
Confidence            45899999999999888766  678899999999999999999876544334

>PRK08233 hypothetical protein; Provisional

Probab=97.56  E-value=0.00041  Score=53.81  Aligned_cols=26  Identities=31%  Similarity=0.491  Sum_probs=23.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ..+|+|.|++|+||||||..++..+.
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~l~   28 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHKLK   28 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhCC
Confidence            36899999999999999999998764

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=97.54  E-value=0.0018  Score=60.91  Aligned_cols=61  Identities=15%  Similarity=0.184  Sum_probs=42.6

Q ss_pred             cccccchHHHHHHHHHhc--CCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCC
Q 037337           94 EAFESRMSTLNDILGALR--NPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQS  156 (247)
Q Consensus        94 ~~~~gR~~~~~~L~~~L~--~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~  156 (247)
                      ..++|+...+..+.+.+.  ......|.|+|..|+|||++|+.+.+.-...  -...+.++|...
T Consensus       376 ~~liG~S~~~~~~~~~~~~~a~~~~pVLI~GE~GTGK~~lA~~ih~~s~r~--~~~~v~i~c~~~  438 (686)
T PRK15429        376 GEIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSGRN--NRRMVKMNCAAM  438 (686)
T ss_pred             cceeecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhcCCC--CCCeEEEecccC
Confidence            357888888887766554  2234678899999999999999998754322  123566676654

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=97.54  E-value=0.00098  Score=55.08  Aligned_cols=87  Identities=18%  Similarity=0.221  Sum_probs=57.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCC-------------------
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTF-------------------  174 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~-------------------  174 (247)
                      ..+++.|+|.+|+|||+++.++.......  ...++||+....+  .++.....+ ++...                   
T Consensus        22 ~g~~~lI~G~pGsGKT~f~~qfl~~~~~~--ge~vlyvs~~e~~--~~l~~~~~~-~g~d~~~~~~~g~l~i~d~~~~~~   96 (260)
T COG0467          22 RGSVVLITGPPGTGKTIFALQFLYEGARE--GEPVLYVSTEESP--EELLENARS-FGWDLEVYIEKGKLAILDAFLSEK   96 (260)
T ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHHHhc--CCcEEEEEecCCH--HHHHHHHHH-cCCCHHHHhhcCCEEEEEcccccc
Confidence            45899999999999999999999987766  6678998877653  343333322 32110                   


Q ss_pred             C--------CCChHHHHHHHHHHHcCCCcEEEEEeCCCC
Q 037337          175 R--------EESESGRARSLFSRLNREKRILVILDNIWE  205 (247)
Q Consensus       175 ~--------~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~  205 (247)
                      .        ..+.......+.+....-+...+|+|++-.
T Consensus        97 ~~~~~~~~~~~~~~~l~~~I~~~~~~~~~~~~ViDsi~~  135 (260)
T COG0467          97 GLVSIVVGDPLDLEELLDRIREIVEKEGADRVVIDSITE  135 (260)
T ss_pred             ccccccccCCccHHHHHHHHHHHHHHhCCCEEEEeCCch
Confidence            0        112344555666665443457899999873

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=97.53  E-value=0.00055  Score=58.68  Aligned_cols=90  Identities=17%  Similarity=0.129  Sum_probs=58.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhccc----CCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCC----------CChH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNH----KLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFRE----------ESES  180 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~----~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~----------~~~~  180 (247)
                      ..++-|+|.+|+|||+|+..++-.....    ..-..++|++....++.+++ .++++.++...+.          .+.+
T Consensus       123 g~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~eRl-~qia~~~~~~~~~~l~~i~~~~~~~~e  201 (342)
T PLN03186        123 GSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRL-IQIAERFGLNGADVLENVAYARAYNTD  201 (342)
T ss_pred             ceEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHHHH-HHHHHHcCCChhhhccceEEEecCCHH
Confidence            4788899999999999999888654321    11126899999998888775 4567776644321          1222


Q ss_pred             HHH---HHHHHHHcCCCcEEEEEeCCCC
Q 037337          181 GRA---RSLFSRLNREKRILVILDNIWE  205 (247)
Q Consensus       181 ~~~---~~l~~~l~~~kr~LlvlDdv~~  205 (247)
                      ...   ..+...+...+--|||+|.+..
T Consensus       202 ~~~~ll~~~~~~~~~~~~~LIVIDSI~a  229 (342)
T PLN03186        202 HQSELLLEAASMMAETRFALMIVDSATA  229 (342)
T ss_pred             HHHHHHHHHHHHhhccCCCEEEEeCcHH
Confidence            222   2222334444567999999864

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=97.53  E-value=0.00094  Score=60.22  Aligned_cols=114  Identities=16%  Similarity=0.156  Sum_probs=70.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCC----------------CC
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFR----------------EE  177 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~----------------~~  177 (247)
                      ..+++.|.|++|+|||||+.+++......  -..++|++...  +..++... ++.++.+..                ..
T Consensus       262 ~gs~~li~G~~G~GKt~l~~~f~~~~~~~--ge~~~y~s~eE--s~~~i~~~-~~~lg~~~~~~~~~g~l~~~~~~p~~~  336 (484)
T TIGR02655       262 KDSIILATGATGTGKTLLVSKFLENACAN--KERAILFAYEE--SRAQLLRN-AYSWGIDFEEMEQQGLLKIICAYPESA  336 (484)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHC--CCeEEEEEeeC--CHHHHHHH-HHHcCCChHHHhhCCcEEEEEcccccC
Confidence            35899999999999999999999887544  24567765443  45555555 345543221                12


Q ss_pred             ChHHHHHHHHHHHcCCCcEEEEEeCCCCcc------chhh----hcccCCCCCCCeEEEEeeCchhh
Q 037337          178 SESGRARSLFSRLNREKRILVILDNIWEHL------DLQV----VGIPHGDDHKGCKVLFTARSLDV  234 (247)
Q Consensus       178 ~~~~~~~~l~~~l~~~kr~LlvlDdv~~~~------~~~~----l~~~~~~~~~~s~iiiTtR~~~v  234 (247)
                      +..+.+..+.+.+...+.-++|+|.+....      +...    +...  -...|..+++|.-...+
T Consensus       337 ~~~~~~~~i~~~i~~~~~~~vvIDsi~~~~~~~~~~~~r~~~~~l~~~--lk~~~it~~~t~~~~~~  401 (484)
T TIGR02655       337 GLEDHLQIIKSEIADFKPARIAIDSLSALARGVSNNAFRQFVIGVTGY--AKQEEITGFFTNTSDQF  401 (484)
T ss_pred             ChHHHHHHHHHHHHHcCCCEEEEcCHHHHHHhcCHHHHHHHHHHHHHH--HhhCCCeEEEeeccccc
Confidence            346677777777765556789999987431      1111    1111  13557777888554443

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.

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=97.53  E-value=0.00014  Score=58.28  Aligned_cols=116  Identities=16%  Similarity=0.102  Sum_probs=57.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh--cccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCC----CCChHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA--KNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFR----EESESGRARSLFS  188 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~--~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~----~~~~~~~~~~l~~  188 (247)
                      .+.+.|+|+.|.|||||.+.+....  .....   .+|.  .. .. ...+.++...++...+    ..+-...+.++..
T Consensus        29 ~~~~~itGpNg~GKStlLk~i~~~~~la~~G~---~v~a--~~-~~-~~~~d~i~~~l~~~~si~~~~S~f~~el~~l~~  101 (213)
T cd03281          29 PSIMVITGPNSSGKSVYLKQVALIVFLAHIGS---FVPA--DS-AT-IGLVDKIFTRMSSRESVSSGQSAFMIDLYQVSK  101 (213)
T ss_pred             ceEEEEECCCCCChHHHHHHHHHHHHHHhCCC---eeEc--CC-cE-EeeeeeeeeeeCCccChhhccchHHHHHHHHHH
Confidence            3889999999999999999998432  11111   1111  00 00 0011111111111100    0111222233333


Q ss_pred             HHc-CCCcEEEEEeCCCCccch-------hhhcccCCCC-CCCeEEEEeeCchhhhhc
Q 037337          189 RLN-REKRILVILDNIWEHLDL-------QVVGIPHGDD-HKGCKVLFTARSLDVLSR  237 (247)
Q Consensus       189 ~l~-~~kr~LlvlDdv~~~~~~-------~~l~~~~~~~-~~~s~iiiTtR~~~va~~  237 (247)
                      .+. ..++.|++||+.....+.       ..+...+... ..+..+|++|...+++..
T Consensus       102 ~l~~~~~~slvllDE~~~gtd~~~~~~~~~ail~~l~~~~~~~~~vli~TH~~~l~~~  159 (213)
T cd03281         102 ALRLATRRSLVLIDEFGKGTDTEDGAGLLIATIEHLLKRGPECPRVIVSTHFHELFNR  159 (213)
T ss_pred             HHHhCCCCcEEEeccccCCCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEcChHHHHHh
Confidence            331 135699999998765321       1121222122 234579999999998764

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

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=97.53  E-value=0.0011  Score=51.44  Aligned_cols=29  Identities=21%  Similarity=0.255  Sum_probs=25.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      +-..+.|+|++|.|||||.+.+|...+..
T Consensus        27 ~Gef~fl~GpSGAGKSTllkLi~~~e~pt   55 (223)
T COG2884          27 KGEFVFLTGPSGAGKSTLLKLIYGEERPT   55 (223)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhhhcCC
Confidence            34789999999999999999999988754

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=97.53  E-value=0.00065  Score=56.17  Aligned_cols=90  Identities=19%  Similarity=0.275  Sum_probs=52.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCH-HHHHHHHHHHhCCCCC------------C----
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDI-RKVQGEIADKLGLTFR------------E----  176 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~-~~l~~~i~~~l~~~~~------------~----  176 (247)
                      ..+++.|+|++|+|||+||.+++......  -..++|++....... .+-+...+..++...+            .    
T Consensus        35 ~gs~~lI~G~pGtGKT~l~~qf~~~~a~~--Ge~vlyis~Ee~~~~~~~~l~~~a~~~g~d~~~~~~~l~~id~~~~~~~  112 (259)
T TIGR03878        35 AYSVINITGVSDTGKSLMVEQFAVTQASR--GNPVLFVTVESPANFVYTSLKERAKAMGVDFDKIEENIILIDAASSTEL  112 (259)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHhC--CCcEEEEEecCCchHHHHHHHHHHHHcCCCHHHHhCCEEEEECCCchhh
Confidence            35889999999999999999997765433  245788877643311 1111222333433211            0    


Q ss_pred             -CChHHHHHHHHHHHcCCCcEEEEEeCCCC
Q 037337          177 -ESESGRARSLFSRLNREKRILVILDNIWE  205 (247)
Q Consensus       177 -~~~~~~~~~l~~~l~~~kr~LlvlDdv~~  205 (247)
                       .+.......+.......+.-++|+|.+..
T Consensus       113 ~~~~~~l~~~l~~~i~~~~~~~vVIDSls~  142 (259)
T TIGR03878       113 RENVPNLLATLAYAIKEYKVKNTVIDSITG  142 (259)
T ss_pred             hhhHHHHHHHHHHHHHhhCCCEEEEcCchH
Confidence             11233344455545444456899999853

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=97.52  E-value=0.00042  Score=58.69  Aligned_cols=67  Identities=13%  Similarity=0.078  Sum_probs=48.4

Q ss_pred             cCCCcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHH
Q 037337           90 NKGYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQ  163 (247)
Q Consensus        90 ~~~~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~  163 (247)
                      |...+.|+-..+....++.++..+  +.|.|.|++|+|||++|..++..+...     .+.|+++...+..+++
T Consensus        41 p~~d~~y~f~~~~~~~vl~~l~~~--~~ilL~G~pGtGKTtla~~lA~~l~~~-----~~rV~~~~~l~~~Dli  107 (327)
T TIGR01650        41 PDIDPAYLFDKATTKAICAGFAYD--RRVMVQGYHGTGKSTHIEQIAARLNWP-----CVRVNLDSHVSRIDLV  107 (327)
T ss_pred             CCCCCCccCCHHHHHHHHHHHhcC--CcEEEEeCCCChHHHHHHHHHHHHCCC-----eEEEEecCCCChhhcC
Confidence            333445666667777788888654  568999999999999999999988743     2456666665554443

This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.

>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]

Probab=97.52  E-value=0.0012  Score=53.55  Aligned_cols=94  Identities=22%  Similarity=0.243  Sum_probs=56.4

Q ss_pred             CcccccchHHHHHHHHHhc-------------CCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCH
Q 037337           93 YEAFESRMSTLNDILGALR-------------NPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDI  159 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L~-------------~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~  159 (247)
                      ..++-|-+-..+++.+..+             =+.++-|.++|++|+|||.||+.++++....  |     +.+-..   
T Consensus       154 y~diggld~qkqeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~t~a~--f-----irvvgs---  223 (408)
T KOG0727|consen  154 YADIGGLDVQKQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANHTTAA--F-----IRVVGS---  223 (408)
T ss_pred             ccccccchhhHHHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhccchh--e-----eeeccH---
Confidence            3455666666666655543             1357889999999999999999999876654  3     332221   


Q ss_pred             HHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          160 RKVQGEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       160 ~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                       ++.   -..+|..      ......+....+.+-+.++.+|+++..
T Consensus       224 -efv---qkylgeg------prmvrdvfrlakenapsiifideidai  260 (408)
T KOG0727|consen  224 -EFV---QKYLGEG------PRMVRDVFRLAKENAPSIIFIDEIDAI  260 (408)
T ss_pred             -HHH---HHHhccC------cHHHHHHHHHHhccCCcEEEeehhhhH
Confidence             111   1223321      122334444444556788889998754

>TIGR00959 ffh signal recognition particle protein

Probab=97.51  E-value=0.0011  Score=58.43  Aligned_cols=40  Identities=20%  Similarity=0.190  Sum_probs=29.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeC
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMS  154 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~  154 (247)
                      ++.++.++|++|+||||+|.+++..+..+..+ .+..+++.
T Consensus        98 ~p~vi~~vG~~GsGKTTtaakLA~~l~~~~g~-kV~lV~~D  137 (428)
T TIGR00959        98 PPTVILMVGLQGSGKTTTCGKLAYYLKKKQGK-KVLLVACD  137 (428)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHHHhCCC-eEEEEecc
Confidence            35789999999999999999999886532112 34455554

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.

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

Probab=97.50  E-value=0.00085  Score=54.94  Aligned_cols=120  Identities=21%  Similarity=0.225  Sum_probs=70.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC-----CCCHHHHHHHHHHHhCCCCC-------CCCh-H
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQ-----SPDIRKVQGEIADKLGLTFR-------EESE-S  180 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~-----~~~~~~l~~~i~~~l~~~~~-------~~~~-~  180 (247)
                      +..+++|+|.+|+|||||++.+..-.+..   .+.+++.-.+     .....+-..+++..++...+       .-+. +
T Consensus        38 ~ge~~glVGESG~GKSTlgr~i~~L~~pt---~G~i~f~g~~i~~~~~~~~~~~v~elL~~Vgl~~~~~~ryPhelSGGQ  114 (268)
T COG4608          38 EGETLGLVGESGCGKSTLGRLILGLEEPT---SGEILFEGKDITKLSKEERRERVLELLEKVGLPEEFLYRYPHELSGGQ  114 (268)
T ss_pred             CCCEEEEEecCCCCHHHHHHHHHcCcCCC---CceEEEcCcchhhcchhHHHHHHHHHHHHhCCCHHHhhcCCcccCchh
Confidence            34799999999999999999999877654   2344433211     12233445666676664422       1111 1


Q ss_pred             HHHHHHHHHHcCCCcEEEEEeCCCCccch---hhhcccC--CCCCCCeEEEEeeCchhhhhc
Q 037337          181 GRARSLFSRLNREKRILVILDNIWEHLDL---QVVGIPH--GDDHKGCKVLFTARSLDVLSR  237 (247)
Q Consensus       181 ~~~~~l~~~l~~~kr~LlvlDdv~~~~~~---~~l~~~~--~~~~~~s~iiiTtR~~~va~~  237 (247)
                      ..--.+...|.- ++-++|.|+.-+..+.   ..+...+  .....|...+..|.+-+|+.+
T Consensus       115 rQRi~IARALal-~P~liV~DEpvSaLDvSiqaqIlnLL~dlq~~~~lt~lFIsHDL~vv~~  175 (268)
T COG4608         115 RQRIGIARALAL-NPKLIVADEPVSALDVSVQAQILNLLKDLQEELGLTYLFISHDLSVVRY  175 (268)
T ss_pred             hhhHHHHHHHhh-CCcEEEecCchhhcchhHHHHHHHHHHHHHHHhCCeEEEEEEEHHhhhh
Confidence            122233444444 5689999998765432   1111111  123446778888888888874

>PRK14974 cell division protein FtsY; Provisional

Probab=97.49  E-value=0.0025  Score=54.55  Aligned_cols=58  Identities=24%  Similarity=0.286  Sum_probs=37.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCC-CCHHHHHHHHHHHhCCC
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQS-PDIRKVQGEIADKLGLT  173 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~-~~~~~l~~~i~~~l~~~  173 (247)
                      +..++.++|++|+||||++..++..+.... + .+.+++.... ....+-+...+..++.+
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~~l~~~g-~-~V~li~~Dt~R~~a~eqL~~~a~~lgv~  197 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAYYLKKNG-F-SVVIAAGDTFRAGAIEQLEEHAERLGVK  197 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHHHcC-C-eEEEecCCcCcHHHHHHHHHHHHHcCCc
Confidence            367999999999999999999998876542 3 3444443321 11223345556666543

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.48  E-value=0.00017  Score=54.38  Aligned_cols=28  Identities=32%  Similarity=0.420  Sum_probs=25.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccC
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHK  143 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~  143 (247)
                      .-|.|+|++|+||||++..+++.++...
T Consensus         6 mki~ITG~PGvGKtTl~~ki~e~L~~~g   33 (179)
T COG1618           6 MKIFITGRPGVGKTTLVLKIAEKLREKG   33 (179)
T ss_pred             eEEEEeCCCCccHHHHHHHHHHHHHhcC
Confidence            5689999999999999999999988764

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

Probab=97.48  E-value=0.0022  Score=48.83  Aligned_cols=115  Identities=19%  Similarity=0.172  Sum_probs=65.7

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEe-CC--CCCHHHHHHHHHHHh-----CCC--CCCCChHH----
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEM-SQ--SPDIRKVQGEIADKL-----GLT--FREESESG----  181 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~-~~--~~~~~~l~~~i~~~l-----~~~--~~~~~~~~----  181 (247)
                      ..|-|++..|.||||+|...+-+...+. + .+.++.. ..  ......++..+ ..+     +..  ....+..+    
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 GLIQVYTGNGKGKTTAALGLALRALGHG-Y-RVGVVQFLKGGWKYGELKALERL-PNIEIHRMGRGFFWTTENDEEDIAA   79 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHCC-C-eEEEEEEeCCCCccCHHHHHHhC-CCcEEEECCCCCccCCCChHHHHHH
Confidence            4688889999999999999998876653 3 2333322 22  33334444333 111     111  00011111    


Q ss_pred             ---HHHHHHHHHcCCCcEEEEEeCCCCc-----cchhhhcccCCCCCCCeEEEEeeCchh
Q 037337          182 ---RARSLFSRLNREKRILVILDNIWEH-----LDLQVVGIPHGDDHKGCKVLFTARSLD  233 (247)
Q Consensus       182 ---~~~~l~~~l~~~kr~LlvlDdv~~~-----~~~~~l~~~~~~~~~~s~iiiTtR~~~  233 (247)
                         ......+.+..+.-=|||||++-..     .+.+.+...+.....+..+|+|.|+..
T Consensus        80 a~~~~~~a~~~~~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~~p  139 (159)
T cd00561          80 AAEGWAFAKEAIASGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRNAP  139 (159)
T ss_pred             HHHHHHHHHHHHhcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCCCC
Confidence               2233444555555579999998654     223444444445566788999999865

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.

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A

Probab=97.47  E-value=0.00029  Score=56.60  Aligned_cols=64  Identities=14%  Similarity=0.111  Sum_probs=41.1

Q ss_pred             HHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhc-----ccCCCCEEEEEEeCCCCCHHHHHHHHHH
Q 037337          103 LNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAK-----NHKLFDLVVFSEMSQSPDIRKVQGEIAD  168 (247)
Q Consensus       103 ~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~-----~~~~f~~~~wv~~~~~~~~~~l~~~i~~  168 (247)
                      .+.+...+...  .+..|+|++|+|||+++..+.....     ........+.+....+..+.+++..+..
T Consensus         7 ~~Ai~~~~~~~--~~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~   75 (236)
T PF13086_consen    7 REAIQSALSSN--GITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKK   75 (236)
T ss_dssp             HHHHHHHCTSS--E-EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC
T ss_pred             HHHHHHHHcCC--CCEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHh
Confidence            34444444433  2788999999999988887777762     1122455666777777778888888777

>PRK10867 signal recognition particle protein; Provisional

Probab=97.47  E-value=0.00099  Score=58.87  Aligned_cols=40  Identities=23%  Similarity=0.335  Sum_probs=29.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeC
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMS  154 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~  154 (247)
                      .+.++.++|++|+||||++.+++..+..... ..+..+++.
T Consensus        99 ~p~vI~~vG~~GsGKTTtaakLA~~l~~~~G-~kV~lV~~D  138 (433)
T PRK10867         99 PPTVIMMVGLQGAGKTTTAGKLAKYLKKKKK-KKVLLVAAD  138 (433)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHHHhcC-CcEEEEEcc
Confidence            3678999999999999999999987764411 224445444

>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.47  E-value=0.0002  Score=61.17  Aligned_cols=28  Identities=32%  Similarity=0.382  Sum_probs=24.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      =+-|.++|++|+|||-||+.|+......
T Consensus       245 WkgvLm~GPPGTGKTlLAKAvATEc~tT  272 (491)
T KOG0738|consen  245 WKGVLMVGPPGTGKTLLAKAVATECGTT  272 (491)
T ss_pred             cceeeeeCCCCCcHHHHHHHHHHhhcCe
Confidence            3568899999999999999999987754

>PRK11823 DNA repair protein RadA; Provisional

Probab=97.47  E-value=0.00086  Score=59.74  Aligned_cols=86  Identities=24%  Similarity=0.302  Sum_probs=53.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCC--ChHHHHHHHHHHHcC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREE--SESGRARSLFSRLNR  192 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~--~~~~~~~~l~~~l~~  192 (247)
                      ..++.|.|.+|+|||||+.+++......  -..++|++...  +...+... ++.++...+..  ..+.....+.+.+..
T Consensus        80 Gs~~lI~G~pG~GKTtL~lq~a~~~a~~--g~~vlYvs~Ee--s~~qi~~r-a~rlg~~~~~l~~~~e~~l~~i~~~i~~  154 (446)
T PRK11823         80 GSVVLIGGDPGIGKSTLLLQVAARLAAA--GGKVLYVSGEE--SASQIKLR-AERLGLPSDNLYLLAETNLEAILATIEE  154 (446)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHhc--CCeEEEEEccc--cHHHHHHH-HHHcCCChhcEEEeCCCCHHHHHHHHHh
Confidence            4689999999999999999999887533  23578887543  33343322 45565432210  001113445555544


Q ss_pred             CCcEEEEEeCCCC
Q 037337          193 EKRILVILDNIWE  205 (247)
Q Consensus       193 ~kr~LlvlDdv~~  205 (247)
                      .+.-+||+|.+..
T Consensus       155 ~~~~lVVIDSIq~  167 (446)
T PRK11823        155 EKPDLVVIDSIQT  167 (446)
T ss_pred             hCCCEEEEechhh
Confidence            4567899999864

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.46  E-value=0.0006  Score=64.61  Aligned_cols=94  Identities=16%  Similarity=0.238  Sum_probs=55.4

Q ss_pred             CcccccchHHHHHHHHHhc-------------CCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCH
Q 037337           93 YEAFESRMSTLNDILGALR-------------NPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDI  159 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L~-------------~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~  159 (247)
                      ..++.|.+...+.|.+.+.             -...+-+.++|++|+|||+||+.+++.....  |     +.+...   
T Consensus       452 ~~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~~~~--f-----i~v~~~---  521 (733)
T TIGR01243       452 WSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGAN--F-----IAVRGP---  521 (733)
T ss_pred             hhhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCC--E-----EEEehH---
Confidence            3456676666666655432             1234568899999999999999999986543  2     222211   


Q ss_pred             HHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          160 RKVQGEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       160 ~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                       +++..   ..      ...+..+..+.+......+.+|+||+++..
T Consensus       522 -~l~~~---~v------Gese~~i~~~f~~A~~~~p~iifiDEid~l  558 (733)
T TIGR01243       522 -EILSK---WV------GESEKAIREIFRKARQAAPAIIFFDEIDAI  558 (733)
T ss_pred             -HHhhc---cc------CcHHHHHHHHHHHHHhcCCEEEEEEChhhh
Confidence             11110   01      111233444555544445799999999743

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.

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=97.46  E-value=0.0025  Score=54.30  Aligned_cols=125  Identities=10%  Similarity=-0.005  Sum_probs=66.3

Q ss_pred             HHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCC-----C
Q 037337          101 STLNDILGALRNPD-ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLT-----F  174 (247)
Q Consensus       101 ~~~~~L~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~-----~  174 (247)
                      ...+.|.+.+..+. .....++|+.|+||+++|+.++..+-........   .|+..    ...+.+...-.++     .
T Consensus         9 ~~~~~l~~~~~~~rl~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~~~---~Cg~C----~sC~~~~~g~HPD~~~i~p   81 (325)
T PRK06871          9 PTYQQITQAFQQGLGHHALLFKADSGLGTEQLIRALAQWLMCQTPQGDQ---PCGQC----HSCHLFQAGNHPDFHILEP   81 (325)
T ss_pred             HHHHHHHHHHHcCCcceeEEeECCCCCCHHHHHHHHHHHHcCCCCCCCC---CCCCC----HHHHHHhcCCCCCEEEEcc
Confidence            34455667676654 4677789999999999999999886543211000   00000    1111111110000     0


Q ss_pred             -CC-CChHHHHHHHHHHH----cCCCcEEEEEeCCCCc--cchhhhcccCCCCCCCeEEEEeeCch
Q 037337          175 -RE-ESESGRARSLFSRL----NREKRILVILDNIWEH--LDLQVVGIPHGDDHKGCKVLFTARSL  232 (247)
Q Consensus       175 -~~-~~~~~~~~~l~~~l----~~~kr~LlvlDdv~~~--~~~~~l~~~~~~~~~~s~iiiTtR~~  232 (247)
                       ++ .-..+.+..+.+.+    ..+++-++|+|+++..  .....+...+.....++.+|++|.+.
T Consensus        82 ~~~~~I~id~iR~l~~~~~~~~~~g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~  147 (325)
T PRK06871         82 IDNKDIGVDQVREINEKVSQHAQQGGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLS  147 (325)
T ss_pred             ccCCCCCHHHHHHHHHHHhhccccCCceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECCh
Confidence             00 01122333444443    2235578889999876  34455555555556677777777654

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=97.45  E-value=0.0022  Score=54.53  Aligned_cols=41  Identities=24%  Similarity=0.329  Sum_probs=32.1

Q ss_pred             HHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          101 STLNDILGALRNPD-ISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       101 ~~~~~L~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ...+.|...+..++ ...+.++|+.|+||+++|..++..+-.
T Consensus        11 ~~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~lA~~LlC   52 (319)
T PRK08769         11 RAYDQTVAALDAGRLGHGLLICGPEGLGKRAVALALAEHVLA   52 (319)
T ss_pred             HHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHhC
Confidence            44566777776654 456889999999999999999987654

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=97.45  E-value=0.0014  Score=53.03  Aligned_cols=30  Identities=23%  Similarity=0.389  Sum_probs=26.5

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          113 PDISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       113 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      ++..+++|.|++|+|||||++.++..+...
T Consensus        31 ~~~~iigi~G~~GsGKTTl~~~L~~~l~~~   60 (229)
T PRK09270         31 QRRTIVGIAGPPGAGKSTLAEFLEALLQQD   60 (229)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHhhhc
Confidence            457899999999999999999999887754

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=97.45  E-value=0.0017  Score=54.05  Aligned_cols=40  Identities=23%  Similarity=0.308  Sum_probs=30.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQ  155 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~  155 (247)
                      +..++.++|++|+||||++.+++..+...  -..+.++++..
T Consensus        71 ~~~vi~l~G~~G~GKTTt~akLA~~l~~~--g~~V~li~~D~  110 (272)
T TIGR00064        71 KPNVILFVGVNGVGKTTTIAKLANKLKKQ--GKSVLLAAGDT  110 (272)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhc--CCEEEEEeCCC
Confidence            45789999999999999999999887644  23456666553

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.

>PRK06547 hypothetical protein; Provisional

Probab=97.45  E-value=0.00024  Score=54.96  Aligned_cols=35  Identities=29%  Similarity=0.308  Sum_probs=28.8

Q ss_pred             HHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          106 ILGALRNPDISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       106 L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      +...+......+|+|.|++|+||||+|+.++....
T Consensus         6 ~~~~~~~~~~~~i~i~G~~GsGKTt~a~~l~~~~~   40 (172)
T PRK06547          6 IAARLCGGGMITVLIDGRSGSGKTTLAGALAARTG   40 (172)
T ss_pred             HHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHhC
Confidence            34445566778999999999999999999998754

>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=97.43  E-value=0.00042  Score=64.40  Aligned_cols=94  Identities=23%  Similarity=0.285  Sum_probs=58.1

Q ss_pred             CcccccchH---HHHHHHHHhcCC---------CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHH
Q 037337           93 YEAFESRMS---TLNDILGALRNP---------DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIR  160 (247)
Q Consensus        93 ~~~~~gR~~---~~~~L~~~L~~~---------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~  160 (247)
                      ..++.|-++   |+.++.+.|.++         -++-+.++|++|+|||-||+.++....+.       |++++...-++
T Consensus       310 FkDVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEAgVP-------F~svSGSEFvE  382 (774)
T KOG0731|consen  310 FKDVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEAGVP-------FFSVSGSEFVE  382 (774)
T ss_pred             cccccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhcccCCc-------eeeechHHHHH
Confidence            456777655   555556666653         26778999999999999999999876654       45555432111


Q ss_pred             HHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          161 KVQGEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       161 ~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                      -        +..     ........+....+...++++.+|+++..
T Consensus       383 ~--------~~g-----~~asrvr~lf~~ar~~aP~iifideida~  415 (774)
T KOG0731|consen  383 M--------FVG-----VGASRVRDLFPLARKNAPSIIFIDEIDAV  415 (774)
T ss_pred             H--------hcc-----cchHHHHHHHHHhhccCCeEEEecccccc
Confidence            1        100     00122344444444556789999988743

>COG3899 Predicted ATPase [General function prediction only]

Probab=97.43  E-value=0.00099  Score=63.91  Aligned_cols=48  Identities=25%  Similarity=0.389  Sum_probs=41.3

Q ss_pred             ccccchHHHHHHHHHhc---CCCccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337           95 AFESRMSTLNDILGALR---NPDISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus        95 ~~~gR~~~~~~L~~~L~---~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      .++||+.+++.|...+.   .....++.+.|.+|+|||+|++.|......+
T Consensus         1 ~l~GRe~ev~~Ll~~f~~v~~g~~~~~lv~G~sGIGKsalv~ev~~~i~~~   51 (849)
T COG3899           1 PLYGRETELAQLLAAFDRVSKGRGEVVLVAGESGIGKSALVNEVHKPITQQ   51 (849)
T ss_pred             CCCchHhHHHHHHHHHHHHhCCCeEEEEEeecCCCcHHHHHHHHHHHHhcc
Confidence            36899999999988875   3456799999999999999999999987655

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

Probab=97.42  E-value=0.0022  Score=54.57  Aligned_cols=45  Identities=24%  Similarity=0.325  Sum_probs=38.0

Q ss_pred             CcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHH
Q 037337           93 YEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVAR  137 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~  137 (247)
                      .-++-+|..+..--++.|.++....|.+.|.+|+|||-||....-
T Consensus       223 vwGi~prn~eQ~~ALdlLld~dI~lV~L~G~AGtGKTlLALaAgl  267 (436)
T COG1875         223 VWGIRPRNAEQRVALDLLLDDDIDLVSLGGKAGTGKTLLALAAGL  267 (436)
T ss_pred             hhccCcccHHHHHHHHHhcCCCCCeEEeeccCCccHhHHHHHHHH
Confidence            345677888888889999999999999999999999988876643

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

Probab=97.42  E-value=0.00041  Score=53.97  Aligned_cols=25  Identities=36%  Similarity=0.421  Sum_probs=22.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      .|.|.|++|+||||+|+.++..+..
T Consensus         2 riiilG~pGaGK~T~A~~La~~~~i   26 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKLGL   26 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCC
Confidence            4789999999999999999998543

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=97.42  E-value=0.00035  Score=64.59  Aligned_cols=79  Identities=14%  Similarity=0.116  Sum_probs=59.4

Q ss_pred             cCCCcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHH
Q 037337           90 NKGYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADK  169 (247)
Q Consensus        90 ~~~~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~  169 (247)
                      +.....++|.++.++.|...+...  +.+.++|++|+||||+|+.+++.+... .++..+|..- ...+...+++.++..
T Consensus        27 ~~~~~~vigq~~a~~~L~~~~~~~--~~~l~~G~~G~GKttla~~l~~~l~~~-~~~~~~~~~n-p~~~~~~~~~~v~~~  102 (637)
T PRK13765         27 ERLIDQVIGQEHAVEVIKKAAKQR--RHVMMIGSPGTGKSMLAKAMAELLPKE-ELQDILVYPN-PEDPNNPKIRTVPAG  102 (637)
T ss_pred             cccHHHcCChHHHHHHHHHHHHhC--CeEEEECCCCCcHHHHHHHHHHHcChH-hHHHheEeeC-CCcchHHHHHHHHHh
Confidence            345577999999998888877765  478899999999999999999886433 3566677544 445677777777776


Q ss_pred             hCC
Q 037337          170 LGL  172 (247)
Q Consensus       170 l~~  172 (247)
                      +|.
T Consensus       103 ~G~  105 (637)
T PRK13765        103 KGK  105 (637)
T ss_pred             cCH
Confidence            653

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=97.41  E-value=0.00057  Score=58.43  Aligned_cols=63  Identities=11%  Similarity=0.126  Sum_probs=43.1

Q ss_pred             CcccccchHHHHHHHHHhc--CCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCC
Q 037337           93 YEAFESRMSTLNDILGALR--NPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSP  157 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L~--~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~  157 (247)
                      ...++|+...+..+.+.+.  ......|.|+|..|+||+++|+.+...-...  -...+.++|....
T Consensus         5 ~~~liG~S~~~~~~~~~i~~~a~~~~pVlI~GE~GtGK~~lA~~iH~~s~r~--~~pfv~v~c~~~~   69 (326)
T PRK11608          5 KDNLLGEANSFLEVLEQVSRLAPLDKPVLIIGERGTGKELIASRLHYLSSRW--QGPFISLNCAALN   69 (326)
T ss_pred             cCccEECCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhCCcc--CCCeEEEeCCCCC
Confidence            3468898888888877664  2234678899999999999999887532211  1234556776543

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=97.41  E-value=0.0017  Score=50.86  Aligned_cols=89  Identities=19%  Similarity=0.178  Sum_probs=50.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCCC--------CEEEEEEeCCCCCHHHHHHHHHHHhCCC--------------
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKLF--------DLVVFSEMSQSPDIRKVQGEIADKLGLT--------------  173 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f--------~~~~wv~~~~~~~~~~l~~~i~~~l~~~--------------  173 (247)
                      .++.|+|++|+|||+++..++........|        ..++|++.....  ..+...+.......              
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            588999999999999999999987643222        257888776653  23333322221100              


Q ss_pred             ---------CCCCChHHHHHHHHHHHcC-CCcEEEEEeCCCCc
Q 037337          174 ---------FREESESGRARSLFSRLNR-EKRILVILDNIWEH  206 (247)
Q Consensus       174 ---------~~~~~~~~~~~~l~~~l~~-~kr~LlvlDdv~~~  206 (247)
                               ..........+.+.+.+.. .+.-++|+|++...
T Consensus       111 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~lvviD~l~~~  153 (193)
T PF13481_consen  111 GCIRLFEPDSGGPLLDEDLEELEAALKELYGPDLVVIDPLQSL  153 (193)
T ss_dssp             -EE---TTS---TTSHHHHHHHHHHHTT----SEEEEE-GGGG
T ss_pred             ccceeeecccccccchHHHHHHHHHHhhcCCCcEEEEcCHHHH
Confidence                     0011123445667777765 45689999987643

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=97.39  E-value=0.00035  Score=52.64  Aligned_cols=44  Identities=25%  Similarity=0.438  Sum_probs=34.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCC
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLT  173 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~  173 (247)
                      +|.|.|++|+||||+|+.+++++.-.       ++      +...+++++++..|.+
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~gl~-------~v------saG~iFR~~A~e~gms   45 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHLGLK-------LV------SAGTIFREMARERGMS   45 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHhCCc-------ee------eccHHHHHHHHHcCCC
Confidence            68899999999999999999987754       12      2346778888888765

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=97.39  E-value=0.0017  Score=49.98  Aligned_cols=117  Identities=18%  Similarity=0.114  Sum_probs=66.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEE--EEEEeCCCCCHHHHHHHHHH---HhCCC--CCCCCh-------H
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLV--VFSEMSQSPDIRKVQGEIAD---KLGLT--FREESE-------S  180 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~--~wv~~~~~~~~~~l~~~i~~---~l~~~--~~~~~~-------~  180 (247)
                      ...|-|++..|.||||.|.-++.+...+. +...  -|+.-.........+..+.-   .++..  ....+.       .
T Consensus         5 ~Gli~v~~g~GkGKtt~a~g~a~ra~~~g-~~v~ivQFlKg~~~~GE~~~l~~~~~~~~~~g~g~~~~~~~~~~~~~~~~   83 (173)
T TIGR00708         5 RGIIIVHTGNGKGKTTAAFGMALRALGHG-KKVGVIQFIKGAWPNGERAAFEPHGVEFQVMGTGFTWETQNREADTAIAK   83 (173)
T ss_pred             ccEEEEECCCCCChHHHHHHHHHHHHHCC-CeEEEEEEecCCcccChHHHHHhcCcEEEECCCCCeecCCCcHHHHHHHH
Confidence            36788888899999999999998877653 3322  23332222333344433200   01111  111111       1


Q ss_pred             HHHHHHHHHHcCCCcEEEEEeCCCCc-----cchhhhcccCCCCCCCeEEEEeeCch
Q 037337          181 GRARSLFSRLNREKRILVILDNIWEH-----LDLQVVGIPHGDDHKGCKVLFTARSL  232 (247)
Q Consensus       181 ~~~~~l~~~l~~~kr~LlvlDdv~~~-----~~~~~l~~~~~~~~~~s~iiiTtR~~  232 (247)
                      .......+.+..++-=|||||++-..     .+.+.+...+...+.+..||+|-|+.
T Consensus        84 ~~~~~a~~~l~~~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~rp~~~evVlTGR~~  140 (173)
T TIGR00708        84 AAWQHAKEMLADPELDLVLLDELTYALKYGYLDVEEVVEALQERPGHQHVIITGRGC  140 (173)
T ss_pred             HHHHHHHHHHhcCCCCEEEehhhHHHHHCCCcCHHHHHHHHHhCCCCCEEEEECCCC
Confidence            22344455555555679999998643     22334444444566788999999987

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=97.39  E-value=0.00016  Score=52.53  Aligned_cols=22  Identities=45%  Similarity=0.806  Sum_probs=20.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHh
Q 037337          118 LGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       118 v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      |.|.|++|+||||+|+.+....
T Consensus         1 I~i~G~~GsGKtTia~~L~~~~   22 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAERL   22 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHHH
Confidence            6899999999999999999985

...

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

Probab=97.39  E-value=0.0026  Score=52.67  Aligned_cols=91  Identities=19%  Similarity=0.265  Sum_probs=57.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCC-CHHHHHHHHHHHhCC-------CCCCCChH------
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSP-DIRKVQGEIADKLGL-------TFREESES------  180 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~l~~~i~~~l~~-------~~~~~~~~------  180 (247)
                      -..+.|.|.+|+|||+|+..+++....+ +-+..+++-++... .+.++...+...-..       ...+.+..      
T Consensus        69 GQr~~If~~~G~GKTtLa~~i~~~i~~~-~~~~~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~~~  147 (274)
T cd01133          69 GGKIGLFGGAGVGKTVLIMELINNIAKA-HGGYSVFAGVGERTREGNDLYHEMKESGVLSKTALVYGQMNEPPGARARVA  147 (274)
T ss_pred             CCEEEEecCCCCChhHHHHHHHHHHHhc-CCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHHH
Confidence            4678899999999999999999998765 12456677776654 345555555443111       11112221      


Q ss_pred             HHHHHHHHHHc-C-CCcEEEEEeCCCCc
Q 037337          181 GRARSLFSRLN-R-EKRILVILDNIWEH  206 (247)
Q Consensus       181 ~~~~~l~~~l~-~-~kr~LlvlDdv~~~  206 (247)
                      ...-.+.+++. . ++.+||++||+...
T Consensus       148 ~~a~~~AEyfr~~~g~~Vl~~~Dsltr~  175 (274)
T cd01133         148 LTGLTMAEYFRDEEGQDVLLFIDNIFRF  175 (274)
T ss_pred             HHHHHHHHHHHHhcCCeEEEEEeChhHH
Confidence            12234556662 2 57899999998643

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.

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.39  E-value=0.0012  Score=57.51  Aligned_cols=60  Identities=15%  Similarity=0.108  Sum_probs=36.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccC--CCCEEEEEEeCCCCC-HHHHHHHHHHHhCCC
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHK--LFDLVVFSEMSQSPD-IRKVQGEIADKLGLT  173 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~--~f~~~~wv~~~~~~~-~~~l~~~i~~~l~~~  173 (247)
                      ...++.++|+.|+||||.+..++..+....  .-..+..+++..... ...-+...++.++.+
T Consensus       173 ~~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lgvp  235 (388)
T PRK12723        173 KKRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIP  235 (388)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCCcc
Confidence            357899999999999999999998765321  123455565554311 112244444545543

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=97.39  E-value=0.0012  Score=57.00  Aligned_cols=86  Identities=27%  Similarity=0.338  Sum_probs=58.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCC--ChHHHHHHHHHHHcC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREE--SESGRARSLFSRLNR  192 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~--~~~~~~~~l~~~l~~  192 (247)
                      -.++.|-|-+|+|||||..+++.++....   .+.||+-  ..+..++ +--+..++.+.++.  -.+...+.+...+..
T Consensus        93 Gs~iLIgGdPGIGKSTLLLQva~~lA~~~---~vLYVsG--EES~~Qi-klRA~RL~~~~~~l~l~aEt~~e~I~~~l~~  166 (456)
T COG1066          93 GSVILIGGDPGIGKSTLLLQVAARLAKRG---KVLYVSG--EESLQQI-KLRADRLGLPTNNLYLLAETNLEDIIAELEQ  166 (456)
T ss_pred             ccEEEEccCCCCCHHHHHHHHHHHHHhcC---cEEEEeC--CcCHHHH-HHHHHHhCCCccceEEehhcCHHHHHHHHHh
Confidence            47999999999999999999999998763   6777753  3343332 22255666544321  223335566666666


Q ss_pred             CCcEEEEEeCCCCc
Q 037337          193 EKRILVILDNIWEH  206 (247)
Q Consensus       193 ~kr~LlvlDdv~~~  206 (247)
                      .++-++|+|.++..
T Consensus       167 ~~p~lvVIDSIQT~  180 (456)
T COG1066         167 EKPDLVVIDSIQTL  180 (456)
T ss_pred             cCCCEEEEecccee
Confidence            67899999998754

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.39  E-value=0.00011  Score=57.63  Aligned_cols=27  Identities=30%  Similarity=0.551  Sum_probs=24.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      +.|.+.|.+|+||||+|++++..++..
T Consensus         2 pLiIlTGyPgsGKTtfakeLak~L~~~   28 (261)
T COG4088           2 PLIILTGYPGSGKTTFAKELAKELRQE   28 (261)
T ss_pred             ceEEEecCCCCCchHHHHHHHHHHHHh
Confidence            467899999999999999999988764

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.38  E-value=0.0016  Score=56.63  Aligned_cols=39  Identities=23%  Similarity=0.363  Sum_probs=29.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeC
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMS  154 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~  154 (247)
                      +.++|+++|++|+||||++..++..+..++  ..+.++++.
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~~L~~~G--kkVglI~aD  278 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAWQFHGKK--KTVGFITTD  278 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHHHHHHcC--CcEEEEecC
Confidence            347899999999999999999998876442  234455544

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=97.37  E-value=0.0025  Score=51.47  Aligned_cols=113  Identities=17%  Similarity=0.166  Sum_probs=62.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCC--------------------
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTF--------------------  174 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~--------------------  174 (247)
                      ...+.|.|++|+|||+|+.+++......  -..++|++....  ..++... ++.++...                    
T Consensus        20 G~~~~i~G~~G~GKT~l~~~~~~~~~~~--g~~~~~is~e~~--~~~i~~~-~~~~g~~~~~~~~~~~l~i~d~~~~~~~   94 (229)
T TIGR03881        20 GFFVAVTGEPGTGKTIFCLHFAYKGLRD--GDPVIYVTTEES--RESIIRQ-AAQFGMDFEKAIEEGKLVIIDALMKEKE   94 (229)
T ss_pred             CeEEEEECCCCCChHHHHHHHHHHHHhc--CCeEEEEEccCC--HHHHHHH-HHHhCCCHHHHhhcCCEEEEEccccccc
Confidence            4789999999999999999987654322  346788876443  3444332 33332110                    


Q ss_pred             -----CCCChHHHHHHHHHHHcC--CCcEEEEEeCCCCc---c--chhhhcccCC--CCCCCeEEEEeeCch
Q 037337          175 -----REESESGRARSLFSRLNR--EKRILVILDNIWEH---L--DLQVVGIPHG--DDHKGCKVLFTARSL  232 (247)
Q Consensus       175 -----~~~~~~~~~~~l~~~l~~--~kr~LlvlDdv~~~---~--~~~~l~~~~~--~~~~~s~iiiTtR~~  232 (247)
                           ...+..+....+.+.+..  .+.-++|+|.+...   .  ....+...+.  -...|+.+++|+...
T Consensus        95 ~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~vvIDsl~~l~~~~~~~~r~~~~~l~~~l~~~~~tvil~~~~~  166 (229)
T TIGR03881        95 DEWSLRELSIEELLNKVIEAKKYLGYGHARLVIDSMSAFWLDKPAMARKYSYYLKRVLNRWNFTILLTSQYA  166 (229)
T ss_pred             cccccccCCHHHHHHHHHHHHHhhccCceEEEecCchhhhccChHHHHHHHHHHHHHHHhCCCEEEEEeccc
Confidence                 012344455555555432  13357889997643   1  1111101110  134588899998743

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.

>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

Probab=97.36  E-value=0.00035  Score=62.63  Aligned_cols=139  Identities=12%  Similarity=0.149  Sum_probs=78.6

Q ss_pred             ccCCCcccccchHHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHH
Q 037337           89 SNKGYEAFESRMSTLNDILGALRNPD-ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIA  167 (247)
Q Consensus        89 ~~~~~~~~~gR~~~~~~L~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~  167 (247)
                      .|..-.+++|.+.....|...+..++ ...-...|+.|+||||+|+-++..+-..+.-       .....+.....+.|.
T Consensus        11 RP~~F~evvGQe~v~~~L~nal~~~ri~hAYlfsG~RGvGKTt~Ari~AkalNC~~~~-------~~ePC~~C~~Ck~I~   83 (515)
T COG2812          11 RPKTFDDVVGQEHVVKTLSNALENGRIAHAYLFSGPRGVGKTTIARILAKALNCENGP-------TAEPCGKCISCKEIN   83 (515)
T ss_pred             CcccHHHhcccHHHHHHHHHHHHhCcchhhhhhcCCCCcCchhHHHHHHHHhcCCCCC-------CCCcchhhhhhHhhh
Confidence            34455778999999999999988665 3455678999999999999999987544210       011111111112222


Q ss_pred             HHhCCC-----CCCCChHHHHHHHHHHHc----CCCcEEEEEeCCCCc--cchhhhcccCCCCCCCeEEEEeeC-chhh
Q 037337          168 DKLGLT-----FREESESGRARSLFSRLN----REKRILVILDNIWEH--LDLQVVGIPHGDDHKGCKVLFTAR-SLDV  234 (247)
Q Consensus       168 ~~l~~~-----~~~~~~~~~~~~l~~~l~----~~kr~LlvlDdv~~~--~~~~~l~~~~~~~~~~s~iiiTtR-~~~v  234 (247)
                      ..-..+     .-.....+-+..+.+...    .++-=+.|+|+|.-.  ..|..+...+.........|+.|. -..+
T Consensus        84 ~g~~~DviEiDaASn~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIlATTe~~Ki  162 (515)
T COG2812          84 EGSLIDVIEIDAASNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATTEPQKI  162 (515)
T ss_pred             cCCcccchhhhhhhccChHHHHHHHHHhccCCccccceEEEEecHHhhhHHHHHHHhcccccCccCeEEEEecCCcCcC
Confidence            110000     001112223444444441    234457889999754  567777676655455555544444 4444

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.36  E-value=0.00099  Score=61.14  Aligned_cols=75  Identities=20%  Similarity=0.159  Sum_probs=49.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCC--CHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSP--DIRKVQGEIADKLGLTFREESESGRARSLFSRLN  191 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~--~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~  191 (247)
                      ....|.|.|+.|+|||+||+.+++.... ...-++.+++|+.-.  ..+.+.+.+-..+                .+.+.
T Consensus       430 ~~~~Ill~G~~GsGKT~L~kal~~~~~k-~~~~hv~~v~Cs~l~~~~~e~iQk~l~~vf----------------se~~~  492 (952)
T KOG0735|consen  430 RHGNILLNGPKGSGKTNLVKALFDYYSK-DLIAHVEIVSCSTLDGSSLEKIQKFLNNVF----------------SEALW  492 (952)
T ss_pred             ccccEEEeCCCCCCHhHHHHHHHHHhcc-ccceEEEEEechhccchhHHHHHHHHHHHH----------------HHHHh
Confidence            3578899999999999999999999884 345567777776542  2333333322222                11222


Q ss_pred             CCCcEEEEEeCCCCc
Q 037337          192 REKRILVILDNIWEH  206 (247)
Q Consensus       192 ~~kr~LlvlDdv~~~  206 (247)
                      . .+-+|||||++..
T Consensus       493 ~-~PSiIvLDdld~l  506 (952)
T KOG0735|consen  493 Y-APSIIVLDDLDCL  506 (952)
T ss_pred             h-CCcEEEEcchhhh
Confidence            3 4699999999743

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.36  E-value=0.0028  Score=56.09  Aligned_cols=40  Identities=18%  Similarity=0.195  Sum_probs=30.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc-ccCCCCEEEEEEeCC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK-NHKLFDLVVFSEMSQ  155 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~-~~~~f~~~~wv~~~~  155 (247)
                      ..++.++|++|+||||++..++.... ... ...+.++++..
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~~~~~~-g~~V~li~~D~  261 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARYALLYG-KKKVALITLDT  261 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcC-CCeEEEEECCc
Confidence            46899999999999999999988775 221 23566676654

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=97.36  E-value=0.0011  Score=54.09  Aligned_cols=118  Identities=16%  Similarity=0.115  Sum_probs=61.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcccC----------CCCEEEEEEeCCCCC-HHHHHHHHHHHhCCCCC----------
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAKNHK----------LFDLVVFSEMSQSPD-IRKVQGEIADKLGLTFR----------  175 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~~~~----------~f~~~~wv~~~~~~~-~~~l~~~i~~~l~~~~~----------  175 (247)
                      +..|+|++|+|||+|+..++.......          .-..++|++...+.+ +.+=+..+...++....          
T Consensus         3 ~~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~~Ed~~~~i~~Rl~~i~~~~~~~~~~~rl~~~~g~   82 (239)
T cd01125           3 VSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLSAEDPREEIHRRLEAILQHLEPDDAGDRLFIDSGR   82 (239)
T ss_pred             eeEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEECCCCHHHHHHHHHHHHhhcCCcCcccceEEeccC
Confidence            567899999999999999988754211          112366766554432 23333344443321100          


Q ss_pred             -------C---CChHHHHHHHHHHHcCCCcEEEEEeCCCC--------ccchhhhcccCC--CCCCCeEEEEeeCchhh
Q 037337          176 -------E---ESESGRARSLFSRLNREKRILVILDNIWE--------HLDLQVVGIPHG--DDHKGCKVLFTARSLDV  234 (247)
Q Consensus       176 -------~---~~~~~~~~~l~~~l~~~kr~LlvlDdv~~--------~~~~~~l~~~~~--~~~~~s~iiiTtR~~~v  234 (247)
                             .   .........+.+.+...+.-+||+|.+..        ......+...+.  ....|+.||+++....-
T Consensus        83 ~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~lvviDpl~~~~~~~~~d~~~~~~~~~~L~~~a~~~g~avl~v~H~~K~  161 (239)
T cd01125          83 IQPISIAREGRIIVVPEFERIIEQLLIRRIDLVVIDPLVSFHGVSENDNGAMDAVIKALRRIAAQTGAAILLVHHVRKG  161 (239)
T ss_pred             CCceecccCCcccccHHHHHHHHHHHhcCCCEEEECChHHhCCCCcCCHHHHHHHHHHHHHHHHHhCCEEEEEeccCcc
Confidence                   0   01223344555555333567999997632        111222211111  12347778888876543

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.

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=97.36  E-value=0.0012  Score=62.05  Aligned_cols=84  Identities=17%  Similarity=0.188  Sum_probs=57.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCC------CChHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFRE------ESESGRARSLFS  188 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~------~~~~~~~~~l~~  188 (247)
                      .+++-|+|++|+|||||+..++......  -..++|++....++.     ..++.++.+.+.      .+.+.....+..
T Consensus        60 GsiteI~G~~GsGKTtLal~~~~~a~~~--G~~v~yId~E~t~~~-----~~A~~lGvDl~~llv~~~~~~E~~l~~i~~  132 (790)
T PRK09519         60 GRVIEIYGPESSGKTTVALHAVANAQAA--GGVAAFIDAEHALDP-----DYAKKLGVDTDSLLVSQPDTGEQALEIADM  132 (790)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHc--CCcEEEECCccchhH-----HHHHHcCCChhHeEEecCCCHHHHHHHHHH
Confidence            4888899999999999999887765433  245789887776663     356777765331      233444444555


Q ss_pred             HHcCCCcEEEEEeCCCC
Q 037337          189 RLNREKRILVILDNIWE  205 (247)
Q Consensus       189 ~l~~~kr~LlvlDdv~~  205 (247)
                      .+..++--|||+|.+..
T Consensus       133 lv~~~~~~LVVIDSI~a  149 (790)
T PRK09519        133 LIRSGALDIVVIDSVAA  149 (790)
T ss_pred             HhhcCCCeEEEEcchhh
Confidence            55555678899999863

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=97.36  E-value=0.00058  Score=55.15  Aligned_cols=87  Identities=17%  Similarity=0.205  Sum_probs=54.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHh-cccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCC----------------CC-
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKA-KNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLT----------------FR-  175 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~-~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~----------------~~-  175 (247)
                      ..+++.|.|++|+|||+|+.+++... +..+  ..++|++....  ..++.+.+. .++.+                .. 
T Consensus        18 ~gs~~li~G~~GsGKT~l~~q~l~~~~~~~g--e~vlyvs~ee~--~~~l~~~~~-s~g~d~~~~~~~g~l~~~d~~~~~   92 (226)
T PF06745_consen   18 KGSVVLISGPPGSGKTTLALQFLYNGLKNFG--EKVLYVSFEEP--PEELIENMK-SFGWDLEEYEDSGKLKIIDAFPER   92 (226)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHHHT----EEEEESSS---HHHHHHHHH-TTTS-HHHHHHTTSEEEEESSGGG
T ss_pred             CCcEEEEEeCCCCCcHHHHHHHHHHhhhhcC--CcEEEEEecCC--HHHHHHHHH-HcCCcHHHHhhcCCEEEEeccccc
Confidence            35899999999999999999987654 4311  34778876554  344444432 33321                01 


Q ss_pred             ----CCChHHHHHHHHHHHcCCCcEEEEEeCCCC
Q 037337          176 ----EESESGRARSLFSRLNREKRILVILDNIWE  205 (247)
Q Consensus       176 ----~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~  205 (247)
                          ..+.......+.+.+...+...+|+|.+..
T Consensus        93 ~~~~~~~~~~l~~~i~~~i~~~~~~~vVIDsls~  126 (226)
T PF06745_consen   93 IGWSPNDLEELLSKIREAIEELKPDRVVIDSLSA  126 (226)
T ss_dssp             ST-TSCCHHHHHHHHHHHHHHHTSSEEEEETHHH
T ss_pred             ccccccCHHHHHHHHHHHHHhcCCCEEEEECHHH
Confidence                234566667777776544457999998753

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 ....

>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]

Probab=97.35  E-value=0.0014  Score=54.52  Aligned_cols=87  Identities=18%  Similarity=0.148  Sum_probs=57.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHH-hCC-----CCCCCChHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADK-LGL-----TFREESESGRARSLFS  188 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~-l~~-----~~~~~~~~~~~~~l~~  188 (247)
                      .+++=|+|+.|+||||+|.+++-..+..  -..++|++.-..++...+ .+++.. +..     +.+.....+.++.+..
T Consensus        60 g~ItEiyG~~gsGKT~lal~~~~~aq~~--g~~a~fIDtE~~l~p~r~-~~l~~~~~d~l~v~~~~~~e~q~~i~~~~~~  136 (279)
T COG0468          60 GRITEIYGPESSGKTTLALQLVANAQKP--GGKAAFIDTEHALDPERA-KQLGVDLLDNLLVSQPDTGEQQLEIAEKLAR  136 (279)
T ss_pred             ceEEEEecCCCcchhhHHHHHHHHhhcC--CCeEEEEeCCCCCCHHHH-HHHHHhhhcceeEecCCCHHHHHHHHHHHHH
Confidence            4889999999999999999998877765  347899999998888774 334444 321     1111122233334433


Q ss_pred             HHcCCCcEEEEEeCCCC
Q 037337          189 RLNREKRILVILDNIWE  205 (247)
Q Consensus       189 ~l~~~kr~LlvlDdv~~  205 (247)
                      ...+ +--|+|+|.+-.
T Consensus       137 ~~~~-~i~LvVVDSvaa  152 (279)
T COG0468         137 SGAE-KIDLLVVDSVAA  152 (279)
T ss_pred             hccC-CCCEEEEecCcc
Confidence            3333 357999999864

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=97.35  E-value=0.00044  Score=62.95  Aligned_cols=47  Identities=23%  Similarity=0.355  Sum_probs=39.7

Q ss_pred             CcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337           93 YEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ..+++|.+..++.+...+.......+.|+|++|+|||++|+.+++..
T Consensus        64 f~~iiGqs~~i~~l~~al~~~~~~~vLi~Ge~GtGKt~lAr~i~~~~  110 (531)
T TIGR02902        64 FDEIIGQEEGIKALKAALCGPNPQHVIIYGPPGVGKTAAARLVLEEA  110 (531)
T ss_pred             HHHeeCcHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            35689999999999887766656678899999999999999998754

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.

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.34  E-value=0.002  Score=55.65  Aligned_cols=89  Identities=15%  Similarity=0.169  Sum_probs=51.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCC-HHHHHHHHHHHhCCCCC-CCChHHHHHHHHHHHc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPD-IRKVQGEIADKLGLTFR-EESESGRARSLFSRLN  191 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~-~~~l~~~i~~~l~~~~~-~~~~~~~~~~l~~~l~  191 (247)
                      +..+++++|+.|+||||++..++.....+.  ..+.++++..... ..+-+...++.++.+.. ..++.+....+ +.+.
T Consensus       205 ~~~ii~lvGptGvGKTTt~akLA~~l~~~g--~~V~lItaDtyR~gAveQLk~yae~lgvpv~~~~dp~dL~~al-~~l~  281 (407)
T PRK12726        205 NHRIISLIGQTGVGKTTTLVKLGWQLLKQN--RTVGFITTDTFRSGAVEQFQGYADKLDVELIVATSPAELEEAV-QYMT  281 (407)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcC--CeEEEEeCCccCccHHHHHHHHhhcCCCCEEecCCHHHHHHHH-HHHH
Confidence            468999999999999999999998775442  3466777654432 23334444555554332 22333333222 3332


Q ss_pred             -CCCcEEEEEeCCCC
Q 037337          192 -REKRILVILDNIWE  205 (247)
Q Consensus       192 -~~kr~LlvlDdv~~  205 (247)
                       ....=+|++|-.-.
T Consensus       282 ~~~~~D~VLIDTAGr  296 (407)
T PRK12726        282 YVNCVDHILIDTVGR  296 (407)
T ss_pred             hcCCCCEEEEECCCC
Confidence             11235667777644

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=97.34  E-value=0.016  Score=52.73  Aligned_cols=121  Identities=21%  Similarity=0.249  Sum_probs=67.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccC------CCCEEEEEEeCC-----CCCH------------HHHHHHHHHHh
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHK------LFDLVVFSEMSQ-----SPDI------------RKVQGEIADKL  170 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~------~f~~~~wv~~~~-----~~~~------------~~l~~~i~~~l  170 (247)
                      ....|+|+|+.|+|||||.+.+........      .--.+.|+.-..     ..++            ..-.+..+..+
T Consensus       347 ~g~riaiiG~NG~GKSTLlk~l~g~~~~~~G~v~~g~~v~igyf~Q~~~~l~~~~t~~d~l~~~~~~~~e~~~r~~L~~f  426 (530)
T COG0488         347 RGDRIAIVGPNGAGKSTLLKLLAGELGPLSGTVKVGETVKIGYFDQHRDELDPDKTVLEELSEGFPDGDEQEVRAYLGRF  426 (530)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhhhcccCCceEEeCCceEEEEEEehhhhcCccCcHHHHHHhhCccccHHHHHHHHHHc
Confidence            347899999999999999999977654320      011123332111     1011            33445555555


Q ss_pred             CCCCCC-------CChHHHHHHHHHHHcCCCcEEEEEeCCCCccchhhh---cccCCCCCCCeEEEEeeCchhhhh
Q 037337          171 GLTFRE-------ESESGRARSLFSRLNREKRILVILDNIWEHLDLQVV---GIPHGDDHKGCKVLFTARSLDVLS  236 (247)
Q Consensus       171 ~~~~~~-------~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~~~~~~l---~~~~~~~~~~s~iiiTtR~~~va~  236 (247)
                      +.+.+.       -|..+........+--.+.-+||||+=.+..+++.+   ...+ ..-.|+ ||+.|.++....
T Consensus       427 ~F~~~~~~~~v~~LSGGEk~Rl~La~ll~~~pNvLiLDEPTNhLDi~s~~aLe~aL-~~f~Gt-vl~VSHDr~Fl~  500 (530)
T COG0488         427 GFTGEDQEKPVGVLSGGEKARLLLAKLLLQPPNLLLLDEPTNHLDIESLEALEEAL-LDFEGT-VLLVSHDRYFLD  500 (530)
T ss_pred             CCChHHHhCchhhcCHhHHHHHHHHHHhccCCCEEEEcCCCccCCHHHHHHHHHHH-HhCCCe-EEEEeCCHHHHH
Confidence            544332       123333333333332335689999998776554332   2222 223466 899999988765

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=97.34  E-value=0.0002  Score=53.29  Aligned_cols=24  Identities=33%  Similarity=0.672  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      +|.+.|++|+||||+|+.+.....
T Consensus         1 lii~~G~pgsGKSt~a~~l~~~~~   24 (143)
T PF13671_consen    1 LIILCGPPGSGKSTLAKRLAKRLG   24 (143)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHST
T ss_pred             CEEEECCCCCCHHHHHHHHHHHCC
Confidence            578999999999999999987654

...

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

Probab=97.34  E-value=0.00022  Score=56.27  Aligned_cols=26  Identities=38%  Similarity=0.638  Sum_probs=23.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      +|+|.|++|+||||||+.+...+...
T Consensus         1 IIgI~G~sgSGKTTla~~L~~~L~~~   26 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQILNKR   26 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHTTC
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhCcc
Confidence            68999999999999999999998754

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 ....

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=97.33  E-value=0.0027  Score=53.50  Aligned_cols=141  Identities=14%  Similarity=0.082  Sum_probs=81.3

Q ss_pred             CCcccccchHHHHHHHHHhcC----CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCH-HHHHHHH
Q 037337           92 GYEAFESRMSTLNDILGALRN----PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDI-RKVQGEI  166 (247)
Q Consensus        92 ~~~~~~gR~~~~~~L~~~L~~----~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~-~~l~~~i  166 (247)
                      +...++|-.++..+|.+|+..    +...-+.++||.|.|||+|......+.+.  .-+..+-|......-. .-.+..|
T Consensus        22 ~~~~l~g~~~~~~~l~~~lkqt~~~gEsnsviiigprgsgkT~li~~~Ls~~q~--~~E~~l~v~Lng~~~~dk~al~~I   99 (408)
T KOG2228|consen   22 PHINLFGVQDEQKHLSELLKQTILHGESNSVIIIGPRGSGKTILIDTRLSDIQE--NGENFLLVRLNGELQTDKIALKGI   99 (408)
T ss_pred             CCcceeehHHHHHHHHHHHHHHHHhcCCCceEEEccCCCCceEeeHHHHhhHHh--cCCeEEEEEECccchhhHHHHHHH
Confidence            345688988998888888752    33466779999999999999888887322  1233444555444322 2234555


Q ss_pred             HHHhCCC-----CCCCChHHHHHHHHHHHcC-----CCcEEEEEeCCCCccchh---hhcccC----CCCCCCeEEEEee
Q 037337          167 ADKLGLT-----FREESESGRARSLFSRLNR-----EKRILVILDNIWEHLDLQ---VVGIPH----GDDHKGCKVLFTA  229 (247)
Q Consensus       167 ~~~l~~~-----~~~~~~~~~~~~l~~~l~~-----~kr~LlvlDdv~~~~~~~---~l~~~~----~~~~~~s~iiiTt  229 (247)
                      .+++...     ....+-.+....+.+.|..     +.++++|+|+++--....   -++..|    ....+=|-|-+||
T Consensus       100 ~rql~~e~~~~~k~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisqs~r~Piciig~Tt  179 (408)
T KOG2228|consen  100 TRQLALELNRIVKSFGSFTENLSKLLEALKKGDETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQSARAPICIIGVTT  179 (408)
T ss_pred             HHHHHHHHhhhheeecccchhHHHHHHHHhcCCCCCCceEEEEeehhhccccchhhHHHHHHHHHHhhcCCCeEEEEeec
Confidence            5554321     1112334445666666632     235889999987542210   011111    1234557777888


Q ss_pred             Cchhh
Q 037337          230 RSLDV  234 (247)
Q Consensus       230 R~~~v  234 (247)
                      |-...
T Consensus       180 rld~l  184 (408)
T KOG2228|consen  180 RLDIL  184 (408)
T ss_pred             cccHH
Confidence            85443

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=97.33  E-value=0.0013  Score=50.66  Aligned_cols=81  Identities=17%  Similarity=0.131  Sum_probs=48.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCC-CcE
Q 037337          118 LGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNRE-KRI  196 (247)
Q Consensus       118 v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~-kr~  196 (247)
                      +.|.|.+|+|||++|.+++...     ...++|+.-....+. ++...|.+.-..........+....+.+.+... +.-
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~~-----~~~~~y~at~~~~d~-em~~rI~~H~~~R~~~w~t~E~~~~l~~~l~~~~~~~   75 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAEL-----GGPVTYIATAEAFDD-EMAERIARHRKRRPAHWRTIETPRDLVSALKELDPGD   75 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHhc-----CCCeEEEEccCcCCH-HHHHHHHHHHHhCCCCceEeecHHHHHHHHHhcCCCC
Confidence            6789999999999999998751     234677766655543 344454443322233333333444555555321 234


Q ss_pred             EEEEeCCC
Q 037337          197 LVILDNIW  204 (247)
Q Consensus       197 LlvlDdv~  204 (247)
                      .+++|.+.
T Consensus        76 ~VLIDclt   83 (169)
T cd00544          76 VVLIDCLT   83 (169)
T ss_pred             EEEEEcHh
Confidence            78899864

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.

>PRK07667 uridine kinase; Provisional

Probab=97.33  E-value=0.00074  Score=53.25  Aligned_cols=28  Identities=29%  Similarity=0.430  Sum_probs=24.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ...+|+|.|.+|+||||+|..+...+..
T Consensus        16 ~~~iIgI~G~~gsGKStla~~L~~~l~~   43 (193)
T PRK07667         16 NRFILGIDGLSRSGKTTFVANLKENMKQ   43 (193)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            3479999999999999999999998754

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=97.33  E-value=0.0016  Score=50.03  Aligned_cols=114  Identities=20%  Similarity=0.103  Sum_probs=58.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCC---CC---EEEEEEeCCCCCHHHHHHHHHHHhCC-CCCCCCh-HHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKL---FD---LVVFSEMSQSPDIRKVQGEIADKLGL-TFREESE-SGRARSL  186 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~---f~---~~~wv~~~~~~~~~~l~~~i~~~l~~-~~~~~~~-~~~~~~l  186 (247)
                      -.+++|.|+.|+|||||++.++........   ++   .+.|+  .+......  ..+.+.+.. ....-+. +...-.+
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~~~~~~i~~~--~q~~~~~~--~tv~~nl~~~~~~~LS~G~~~rv~l  102 (166)
T cd03223          27 GDRLLITGPSGTGKSSLFRALAGLWPWGSGRIGMPEGEDLLFL--PQRPYLPL--GTLREQLIYPWDDVLSGGEQQRLAF  102 (166)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCCCCCceEEECCCceEEEE--CCCCcccc--ccHHHHhhccCCCCCCHHHHHHHHH
Confidence            478999999999999999999887543210   11   12222  22221110  112222211 1112222 2222334


Q ss_pred             HHHHcCCCcEEEEEeCCCCccch---hhhcccCCCCCCCeEEEEeeCchhhh
Q 037337          187 FSRLNREKRILVILDNIWEHLDL---QVVGIPHGDDHKGCKVLFTARSLDVL  235 (247)
Q Consensus       187 ~~~l~~~kr~LlvlDdv~~~~~~---~~l~~~~~~~~~~s~iiiTtR~~~va  235 (247)
                      ...+.. ++-++++|+-....+.   ..+...+...  +..||++|.+.+.+
T Consensus       103 aral~~-~p~~lllDEPt~~LD~~~~~~l~~~l~~~--~~tiiivsh~~~~~  151 (166)
T cd03223         103 ARLLLH-KPKFVFLDEATSALDEESEDRLYQLLKEL--GITVISVGHRPSLW  151 (166)
T ss_pred             HHHHHc-CCCEEEEECCccccCHHHHHHHHHHHHHh--CCEEEEEeCChhHH
Confidence            444544 4578899997655332   2221222111  35688888887764

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

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=97.33  E-value=0.00071  Score=57.94  Aligned_cols=65  Identities=20%  Similarity=0.148  Sum_probs=50.8

Q ss_pred             ccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHH
Q 037337           95 AFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEI  166 (247)
Q Consensus        95 ~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i  166 (247)
                      .++|+++....+...+..+  ..+.+.|++|+|||+||+.++......     .+++.+.+.....++....
T Consensus        25 ~~~g~~~~~~~~l~a~~~~--~~vll~G~PG~gKT~la~~lA~~l~~~-----~~~i~~t~~l~p~d~~G~~   89 (329)
T COG0714          25 VVVGDEEVIELALLALLAG--GHVLLEGPPGVGKTLLARALARALGLP-----FVRIQCTPDLLPSDLLGTY   89 (329)
T ss_pred             eeeccHHHHHHHHHHHHcC--CCEEEECCCCccHHHHHHHHHHHhCCC-----eEEEecCCCCCHHHhcCch
Confidence            3888888888877777666  678899999999999999999988743     4667777777776665443

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=97.32  E-value=0.00082  Score=62.14  Aligned_cols=77  Identities=16%  Similarity=0.168  Sum_probs=52.7

Q ss_pred             CCCcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHh
Q 037337           91 KGYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKL  170 (247)
Q Consensus        91 ~~~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l  170 (247)
                      .....++|.++....+...+...  ..+.++|++|+|||++|+.+++.+.... |...+++. ....+..+++..++..+
T Consensus        15 ~~~~~viG~~~a~~~l~~a~~~~--~~~ll~G~pG~GKT~la~~la~~l~~~~-~~~~~~~~-n~~~~~~~~~~~v~~~~   90 (608)
T TIGR00764        15 RLIDQVIGQEEAVEIIKKAAKQK--RNVLLIGEPGVGKSMLAKAMAELLPDEE-LEDILVYP-NPEDPNMPRIVEVPAGE   90 (608)
T ss_pred             hhHhhccCHHHHHHHHHHHHHcC--CCEEEECCCCCCHHHHHHHHHHHcCchh-heeEEEEe-CCCCCchHHHHHHHHhh
Confidence            34567899998888887777655  4666999999999999999998876542 33333332 22234455566666665


Q ss_pred             C
Q 037337          171 G  171 (247)
Q Consensus       171 ~  171 (247)
                      +
T Consensus        91 g   91 (608)
T TIGR00764        91 G   91 (608)
T ss_pred             c
Confidence            4

Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.

>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=97.32  E-value=0.0018  Score=52.19  Aligned_cols=25  Identities=20%  Similarity=0.404  Sum_probs=22.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      +|+|.|++|+||||||+.++..+..
T Consensus         1 IigI~G~sGSGKTTla~~L~~~l~~   25 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQALLSR   25 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHHHhh
Confidence            4789999999999999999998753

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=97.32  E-value=0.00037  Score=63.01  Aligned_cols=49  Identities=18%  Similarity=0.226  Sum_probs=42.1

Q ss_pred             cccccchHHHHHHHHHh------cCCCccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337           94 EAFESRMSTLNDILGAL------RNPDISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus        94 ~~~~gR~~~~~~L~~~L------~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      .+++|-++.++++++.|      .+.+.+++.++||+|+|||+||+.+++.++..
T Consensus        76 ~d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~le~~  130 (644)
T PRK15455         76 EEFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSLMERV  130 (644)
T ss_pred             hcccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHHHHhC
Confidence            36889999999999988      24456899999999999999999999987753

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=97.31  E-value=0.0012  Score=51.20  Aligned_cols=115  Identities=15%  Similarity=0.106  Sum_probs=58.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCC--C-------------CCCCCh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGL--T-------------FREESE  179 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~--~-------------~~~~~~  179 (247)
                      -.+++|.|+.|+|||||++.++......   .+.++++-.   +.......+.+.++.  +             ...-+.
T Consensus        28 Ge~~~i~G~nGsGKStLl~~l~G~~~~~---~G~i~~~g~---~~~~~~~~~~~~i~~~~q~~~~~~~tv~~~i~~~LS~  101 (178)
T cd03247          28 GEKIALLGRSGSGKSTLLQLLTGDLKPQ---QGEITLDGV---PVSDLEKALSSLISVLNQRPYLFDTTLRNNLGRRFSG  101 (178)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhccCCCC---CCEEEECCE---EHHHHHHHHHhhEEEEccCCeeecccHHHhhcccCCH
Confidence            4689999999999999999998865432   233433211   111111111111110  0             011111


Q ss_pred             HH-HHHHHHHHHcCCCcEEEEEeCCCCccch---hhhcccCCCCCCCeEEEEeeCchhhhh
Q 037337          180 SG-RARSLFSRLNREKRILVILDNIWEHLDL---QVVGIPHGDDHKGCKVLFTARSLDVLS  236 (247)
Q Consensus       180 ~~-~~~~l~~~l~~~kr~LlvlDdv~~~~~~---~~l~~~~~~~~~~s~iiiTtR~~~va~  236 (247)
                      .+ ..-.+...+.. ++-+++||+-....+.   +.+...+.....+..||++|.+.+...
T Consensus       102 G~~qrv~laral~~-~p~~lllDEP~~~LD~~~~~~l~~~l~~~~~~~tii~~sh~~~~~~  161 (178)
T cd03247         102 GERQRLALARILLQ-DAPIVLLDEPTVGLDPITERQLLSLIFEVLKDKTLIWITHHLTGIE  161 (178)
T ss_pred             HHHHHHHHHHHHhc-CCCEEEEECCcccCCHHHHHHHHHHHHHHcCCCEEEEEecCHHHHH
Confidence            11 12233344444 4578999998765332   112111111123567889998887654

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.

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=97.31  E-value=0.00088  Score=57.71  Aligned_cols=112  Identities=10%  Similarity=0.068  Sum_probs=61.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHH-hCCCCCCCChHHHHHHHHHHHcC
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADK-LGLTFREESESGRARSLFSRLNR  192 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~-l~~~~~~~~~~~~~~~l~~~l~~  192 (247)
                      ....+.|.|+.|+||||+++.+.+.....  ....++.. ..+...  .... ... +.....+.........+...|..
T Consensus       121 ~~g~ili~G~tGSGKTT~l~al~~~i~~~--~~~~i~ti-Edp~E~--~~~~-~~~~i~q~evg~~~~~~~~~l~~~lr~  194 (343)
T TIGR01420       121 PRGLILVTGPTGSGKSTTLASMIDYINKN--AAGHIITI-EDPIEY--VHRN-KRSLINQREVGLDTLSFANALRAALRE  194 (343)
T ss_pred             cCcEEEEECCCCCCHHHHHHHHHHhhCcC--CCCEEEEE-cCChhh--hccC-ccceEEccccCCCCcCHHHHHHHhhcc
Confidence            34789999999999999999988876533  33444432 211110  0000 000 00000011112334455666655


Q ss_pred             CCcEEEEEeCCCCccchhhhcccCCCCCCCeEEEEeeCchhhh
Q 037337          193 EKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTARSLDVL  235 (247)
Q Consensus       193 ~kr~LlvlDdv~~~~~~~~l~~~~~~~~~~s~iiiTtR~~~va  235 (247)
                       .+=.|++|++.+.+.+......   ...|..++.|....+++
T Consensus       195 -~pd~i~vgEird~~~~~~~l~a---a~tGh~v~~T~Ha~~~~  233 (343)
T TIGR01420       195 -DPDVILIGEMRDLETVELALTA---AETGHLVFGTLHTNSAA  233 (343)
T ss_pred             -CCCEEEEeCCCCHHHHHHHHHH---HHcCCcEEEEEcCCCHH
Confidence             5688999999877655432122   23455577777776655

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.

>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=97.31  E-value=0.00018  Score=55.62  Aligned_cols=42  Identities=26%  Similarity=0.274  Sum_probs=33.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc-ccCCCCEEEEEEeCCCCC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK-NHKLFDLVVFSEMSQSPD  158 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~-~~~~f~~~~wv~~~~~~~  158 (247)
                      ...+.+.|+.|+|||.||+.++..+. ..  ....+-++++....
T Consensus         3 ~~~~ll~GpsGvGKT~la~~la~~l~~~~--~~~~~~~d~s~~~~   45 (171)
T PF07724_consen    3 KSNFLLAGPSGVGKTELAKALAELLFVGS--ERPLIRIDMSEYSE   45 (171)
T ss_dssp             SEEEEEESSTTSSHHHHHHHHHHHHT-SS--CCEEEEEEGGGHCS
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHHhccCC--ccchHHHhhhcccc
Confidence            46788999999999999999999988 34  45667777776555

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 ....

>PF08433 KTI12: Chromatin associated protein KTI12 ; InterPro: IPR013641 This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II []

Probab=97.30  E-value=0.00064  Score=56.45  Aligned_cols=27  Identities=26%  Similarity=0.490  Sum_probs=21.7

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      +.|.|+|.||+||||+|+.+...+...
T Consensus         2 pLiil~G~P~SGKTt~a~~L~~~~~~~   28 (270)
T PF08433_consen    2 PLIILCGLPCSGKTTRAKELKKYLEEK   28 (270)
T ss_dssp             -EEEEE--TTSSHHHHHHHHHHHHHHT
T ss_pred             EEEEEEcCCCCcHHHHHHHHHHHHHhc
Confidence            468999999999999999999987763

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

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=97.30  E-value=0.0024  Score=56.28  Aligned_cols=38  Identities=18%  Similarity=0.204  Sum_probs=29.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEe
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEM  153 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~  153 (247)
                      ++.+|.++|++|+||||++.+++..+..++ + .+..+++
T Consensus        99 ~~~vi~lvG~~GvGKTTtaaKLA~~l~~~G-~-kV~lV~~  136 (429)
T TIGR01425        99 KQNVIMFVGLQGSGKTTTCTKLAYYYQRKG-F-KPCLVCA  136 (429)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHCC-C-CEEEEcC
Confidence            367999999999999999999998776442 2 3444444

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.

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.30  E-value=0.0012  Score=57.86  Aligned_cols=25  Identities=28%  Similarity=0.230  Sum_probs=22.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ..++.++|++|+||||++.+++...
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA~~~  247 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLAAKY  247 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4679999999999999999999865

>TIGR00416 sms DNA repair protein RadA

Probab=97.30  E-value=0.0016  Score=58.11  Aligned_cols=86  Identities=21%  Similarity=0.246  Sum_probs=51.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCC--ChHHHHHHHHHHHcC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREE--SESGRARSLFSRLNR  192 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~--~~~~~~~~l~~~l~~  192 (247)
                      -.++.|.|.+|+|||||+.+++......  -..++|++...  +..++... +..++...+..  ..+.....+.+.+..
T Consensus        94 GsvilI~G~pGsGKTTL~lq~a~~~a~~--g~kvlYvs~EE--s~~qi~~r-a~rlg~~~~~l~~~~e~~~~~I~~~i~~  168 (454)
T TIGR00416        94 GSLILIGGDPGIGKSTLLLQVACQLAKN--QMKVLYVSGEE--SLQQIKMR-AIRLGLPEPNLYVLSETNWEQICANIEE  168 (454)
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHHHhc--CCcEEEEECcC--CHHHHHHH-HHHcCCChHHeEEcCCCCHHHHHHHHHh
Confidence            4789999999999999999998876543  23577876543  34443322 33444332110  001113445555544


Q ss_pred             CCcEEEEEeCCCC
Q 037337          193 EKRILVILDNIWE  205 (247)
Q Consensus       193 ~kr~LlvlDdv~~  205 (247)
                      .+.-++|+|.+..
T Consensus       169 ~~~~~vVIDSIq~  181 (454)
T TIGR00416       169 ENPQACVIDSIQT  181 (454)
T ss_pred             cCCcEEEEecchh
Confidence            4567899999864

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)).

>PF13245 AAA_19: Part of AAA domain

Probab=97.29  E-value=0.00085  Score=44.48  Aligned_cols=26  Identities=19%  Similarity=0.173  Sum_probs=18.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      +.+++.|.|++|+|||+++......+
T Consensus         9 ~~~~~vv~g~pGtGKT~~~~~~i~~l   34 (76)
T PF13245_consen    9 GSPLFVVQGPPGTGKTTTLAARIAEL   34 (76)
T ss_pred             hCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            34778889999999995555554443

>PRK06851 hypothetical protein; Provisional

Probab=97.29  E-value=0.0045  Score=53.52  Aligned_cols=42  Identities=24%  Similarity=0.296  Sum_probs=31.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCC
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQS  156 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~  156 (247)
                      -.+.+.|.|++|+|||||+..++.....++ ++..+|-|.+.+
T Consensus       213 ~~~~~~i~G~pG~GKstl~~~i~~~a~~~G-~~v~~~hC~~dP  254 (367)
T PRK06851        213 VKNRYFLKGRPGTGKSTMLKKIAKAAEERG-FDVEVYHCGFDP  254 (367)
T ss_pred             cceEEEEeCCCCCcHHHHHHHHHHHHHhCC-CeEEEEeCCCCC
Confidence            347899999999999999999999987653 555555444443

>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.29  E-value=0.011  Score=51.76  Aligned_cols=41  Identities=17%  Similarity=0.203  Sum_probs=29.7

Q ss_pred             hHHHHHHHHHhcCCC---------ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          100 MSTLNDILGALRNPD---------ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       100 ~~~~~~L~~~L~~~~---------~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      +..+++|.+++.+.+         .+-=.++||||+|||+++..+++.+.
T Consensus       211 ~~I~~Dl~~F~k~k~~YkrvGkawKRGYLLYGPPGTGKSS~IaAmAn~L~  260 (457)
T KOG0743|consen  211 ERIIDDLDDFIKGKDFYKRVGKAWKRGYLLYGPPGTGKSSFIAAMANYLN  260 (457)
T ss_pred             HHHHHHHHHHHhcchHHHhcCcchhccceeeCCCCCCHHHHHHHHHhhcC
Confidence            344555666555431         24557899999999999999998776

>PRK14531 adenylate kinase; Provisional

Probab=97.28  E-value=0.0012  Score=51.47  Aligned_cols=25  Identities=20%  Similarity=0.161  Sum_probs=22.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ..|.|.|++|+||||+++.++..+.
T Consensus         3 ~~i~i~G~pGsGKsT~~~~la~~~g   27 (183)
T PRK14531          3 QRLLFLGPPGAGKGTQAARLCAAHG   27 (183)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4588999999999999999998864

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

Probab=97.28  E-value=0.0011  Score=60.18  Aligned_cols=74  Identities=19%  Similarity=0.267  Sum_probs=46.2

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcC
Q 037337          113 PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNR  192 (247)
Q Consensus       113 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~  192 (247)
                      +..+-|.+||+||+|||++|+.+++.....  |     +.++..    +++..   ..      ...+..+..++..-+.
T Consensus       466 ~ppkGVLlyGPPGC~KT~lAkalAne~~~n--F-----lsvkgp----EL~sk---~v------GeSEr~ir~iF~kAR~  525 (693)
T KOG0730|consen  466 SPPKGVLLYGPPGCGKTLLAKALANEAGMN--F-----LSVKGP----ELFSK---YV------GESERAIREVFRKARQ  525 (693)
T ss_pred             CCCceEEEECCCCcchHHHHHHHhhhhcCC--e-----eeccCH----HHHHH---hc------CchHHHHHHHHHHHhh
Confidence            357889999999999999999999987765  3     333322    11111   11      1123334444444444


Q ss_pred             CCcEEEEEeCCCCc
Q 037337          193 EKRILVILDNIWEH  206 (247)
Q Consensus       193 ~kr~LlvlDdv~~~  206 (247)
                      --+++|.||+++..
T Consensus       526 ~aP~IiFfDEiDsi  539 (693)
T KOG0730|consen  526 VAPCIIFFDEIDAL  539 (693)
T ss_pred             cCCeEEehhhHHhH
Confidence            34689999998754

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=97.28  E-value=0.0045  Score=53.65  Aligned_cols=56  Identities=20%  Similarity=0.200  Sum_probs=35.4

Q ss_pred             hHHHHHHHHHhcCC----CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC
Q 037337          100 MSTLNDILGALRNP----DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQ  155 (247)
Q Consensus       100 ~~~~~~L~~~L~~~----~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~  155 (247)
                      .+.+..+..++.++    +.++++++||.|+||||...+++.++.....-..+..++...
T Consensus       184 ~~~l~~~~~~~~~~~~~~~~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDt  243 (407)
T COG1419         184 SEKLRKLLLSLIENLIVEQKRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDT  243 (407)
T ss_pred             HHHHHHHHHhhccccccccCcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEecc
Confidence            34445555555544    479999999999999966666666654211124466665544

>PF10443 RNA12: RNA12 protein; InterPro: IPR018850 Mitochondrial escape protein 2 (also known as RNA12) plays a role in maintaining the mitochondrial genome and in controlling mtDNA escape [, ]

Probab=97.27  E-value=0.0012  Score=57.61  Aligned_cols=67  Identities=18%  Similarity=0.217  Sum_probs=51.5

Q ss_pred             chHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHH-HHHHHHhcccCCCCEEEEEEeCCC---CCHHHHHHHHHHHhC
Q 037337           99 RMSTLNDILGALRNPDISMLGICGMGGIGKTMLE-KEVARKAKNHKLFDLVVFSEMSQS---PDIRKVQGEIADKLG  171 (247)
Q Consensus        99 R~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa-~~~~~~~~~~~~f~~~~wv~~~~~---~~~~~l~~~i~~~l~  171 (247)
                      |.+.++.|..||.......|+|.||.|+||+.|+ .++.++      .+.+.+++|.+-   .+-..++..++.++|
T Consensus         1 R~e~~~~L~~wL~e~~~TFIvV~GPrGSGK~elV~d~~L~~------r~~vL~IDC~~i~~ar~D~~~I~~lA~qvG   71 (431)
T PF10443_consen    1 RKEAIEQLKSWLNENPNTFIVVQGPRGSGKRELVMDHVLKD------RKNVLVIDCDQIVKARGDAAFIKNLASQVG   71 (431)
T ss_pred             CchHHHHHHHHHhcCCCeEEEEECCCCCCccHHHHHHHHhC------CCCEEEEEChHhhhccChHHHHHHHHHhcC
Confidence            6678899999999888899999999999999999 666654      233788888643   344566666666665

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 [].

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=97.26  E-value=0.0023  Score=53.59  Aligned_cols=28  Identities=14%  Similarity=0.169  Sum_probs=23.9

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          113 PDISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       113 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ..+.+|+|.|+.|+||||||+.+...+.
T Consensus        60 ~~p~IIGIaG~~GSGKSTlar~L~~ll~   87 (290)
T TIGR00554        60 KIPYIISIAGSVAVGKSTTARILQALLS   87 (290)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            4568999999999999999988876654

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.

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=97.26  E-value=0.0009  Score=58.89  Aligned_cols=48  Identities=21%  Similarity=0.166  Sum_probs=35.6

Q ss_pred             cccccchHHHHHHHHHhc-------CC---------CccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           94 EAFESRMSTLNDILGALR-------NP---------DISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        94 ~~~~gR~~~~~~L~~~L~-------~~---------~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ..++|.+...+.|...+.       ..         ....+.++|++|+|||+||+.++.....
T Consensus        71 ~~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l~~  134 (412)
T PRK05342         71 QYVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARILDV  134 (412)
T ss_pred             hHeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHhCC
Confidence            457888888887754431       10         2356899999999999999999987643

>PRK06762 hypothetical protein; Provisional

Probab=97.26  E-value=0.0003  Score=53.89  Aligned_cols=25  Identities=28%  Similarity=0.485  Sum_probs=22.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      +.+|.|+|++|+||||+|+.++..+
T Consensus         2 ~~li~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          2 TTLIIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3688999999999999999999876

>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins

Probab=97.25  E-value=0.0009  Score=58.12  Aligned_cols=40  Identities=20%  Similarity=0.355  Sum_probs=31.7

Q ss_pred             HHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          103 LNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       103 ~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      ++.+++.+.......+.|.|+||+|||+|.+.+.+.++..
T Consensus        10 ~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~i~~~~~~~   49 (364)
T PF05970_consen   10 FDTVIEAIENEEGLNFFVTGPAGTGKSFLIKAIIDYLRSR   49 (364)
T ss_pred             HHHHHHHHHccCCcEEEEEcCCCCChhHHHHHHHHHhccc
Confidence            3445555555566888999999999999999999988764

The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].

>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=97.25  E-value=0.0021  Score=49.99  Aligned_cols=117  Identities=22%  Similarity=0.225  Sum_probs=62.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeC--CCCCHHHH------HHHHHHHhCCCC------CCCChH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMS--QSPDIRKV------QGEIADKLGLTF------REESES  180 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~--~~~~~~~l------~~~i~~~l~~~~------~~~~~~  180 (247)
                      -.+++|.|+.|+|||||++.++.....   ..+.++++-.  ...+....      ..++++.++...      ..-+..
T Consensus        25 G~~~~l~G~nGsGKStLl~~i~G~~~~---~~G~v~~~g~~~~~~~~~~~~~~i~~~~q~l~~~gl~~~~~~~~~~LS~G  101 (180)
T cd03214          25 GEIVGILGPNGAGKSTLLKTLAGLLKP---SSGEILLDGKDLASLSPKELARKIAYVPQALELLGLAHLADRPFNELSGG  101 (180)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCC---CCcEEEECCEECCcCCHHHHHHHHhHHHHHHHHcCCHhHhcCCcccCCHH
Confidence            478999999999999999999876543   3344444211  11121111      122455554321      111222


Q ss_pred             H-HHHHHHHHHcCCCcEEEEEeCCCCccc---hhhhcccCCC--CCCCeEEEEeeCchhhh
Q 037337          181 G-RARSLFSRLNREKRILVILDNIWEHLD---LQVVGIPHGD--DHKGCKVLFTARSLDVL  235 (247)
Q Consensus       181 ~-~~~~l~~~l~~~kr~LlvlDdv~~~~~---~~~l~~~~~~--~~~~s~iiiTtR~~~va  235 (247)
                      + ..-.+...+.. ++-++++|+-....+   .+.+...+..  ...+..||++|.+.+.+
T Consensus       102 ~~qrl~laral~~-~p~llllDEP~~~LD~~~~~~~~~~l~~~~~~~~~tiii~sh~~~~~  161 (180)
T cd03214         102 ERQRVLLARALAQ-EPPILLLDEPTSHLDIAHQIELLELLRRLARERGKTVVMVLHDLNLA  161 (180)
T ss_pred             HHHHHHHHHHHhc-CCCEEEEeCCccCCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHHHH
Confidence            2 22234444444 458999999775533   2222222211  12256788998887764

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.

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=97.24  E-value=0.00077  Score=54.93  Aligned_cols=60  Identities=20%  Similarity=0.206  Sum_probs=37.7

Q ss_pred             HHHHHHHHhc--CCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHH
Q 037337          102 TLNDILGALR--NPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRK  161 (247)
Q Consensus       102 ~~~~L~~~L~--~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~  161 (247)
                      +..+|++.+.  ..+..+|+|+|+||+|||||.-.+...+..+.+--.++-|+-++.++-..
T Consensus        14 ~~~~ll~~l~~~~g~a~~iGiTG~PGaGKSTli~~l~~~~~~~g~~VaVlAVDPSSp~tGGA   75 (266)
T PF03308_consen   14 EARELLKRLYPHTGRAHVIGITGPPGAGKSTLIDALIRELRERGKRVAVLAVDPSSPFTGGA   75 (266)
T ss_dssp             HHHHHHHHHGGGTT-SEEEEEEE-TTSSHHHHHHHHHHHHHHTT--EEEEEE-GGGGCC---
T ss_pred             HHHHHHHHHHhhcCCceEEEeeCCCCCcHHHHHHHHHHHHhhcCCceEEEEECCCCCCCCCc
Confidence            3344555443  34578999999999999999999999988764333455566666555433

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.

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=97.24  E-value=0.00056  Score=61.83  Aligned_cols=58  Identities=19%  Similarity=0.300  Sum_probs=43.5

Q ss_pred             CCCcccccchHHHHHHHHHhcC-----CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEE
Q 037337           91 KGYEAFESRMSTLNDILGALRN-----PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSE  152 (247)
Q Consensus        91 ~~~~~~~gR~~~~~~L~~~L~~-----~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~  152 (247)
                      ....++.-..+-++++..||..     ...+++.++||+|+||||.++.+++.+.    |+..-|.+
T Consensus        16 ~~~~eLavhkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~elg----~~v~Ew~n   78 (519)
T PF03215_consen   16 KTLDELAVHKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKELG----FEVQEWIN   78 (519)
T ss_pred             CCHHHhhccHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHhC----CeeEEecC
Confidence            3345556667778888888863     2357899999999999999999998864    45555654

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=97.23  E-value=0.0054  Score=52.59  Aligned_cols=126  Identities=10%  Similarity=0.018  Sum_probs=67.4

Q ss_pred             HHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCC-----C
Q 037337          101 STLNDILGALRNPD-ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLT-----F  174 (247)
Q Consensus       101 ~~~~~L~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~-----~  174 (247)
                      ..-+.|.+.+.+++ .....++|+.|+||+++|..++..+-.....+..   .|+..    ...+.+......+     .
T Consensus         9 ~~~~~l~~~~~~~rl~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~---~Cg~C----~sC~~~~~g~HPD~~~i~p   81 (334)
T PRK07993          9 PDYEQLVGSYQAGRGHHALLIQALPGMGDDALIYALSRWLMCQQPQGHK---SCGHC----RGCQLMQAGTHPDYYTLTP   81 (334)
T ss_pred             HHHHHHHHHHHcCCcceEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCC---CCCCC----HHHHHHHcCCCCCEEEEec
Confidence            44566777776654 5678899999999999999999887432111000   01110    0001111000000     0


Q ss_pred             CC---CChHHHHHHHHHHHc----CCCcEEEEEeCCCCc--cchhhhcccCCCCCCCeEEEEeeCchh
Q 037337          175 RE---ESESGRARSLFSRLN----REKRILVILDNIWEH--LDLQVVGIPHGDDHKGCKVLFTARSLD  233 (247)
Q Consensus       175 ~~---~~~~~~~~~l~~~l~----~~kr~LlvlDdv~~~--~~~~~l~~~~~~~~~~s~iiiTtR~~~  233 (247)
                      +.   .-..+.+..+.+.+.    .+++-++|+|+++..  ..-..+...+.....++.+|++|.+.+
T Consensus        82 ~~~~~~I~idqiR~l~~~~~~~~~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~  149 (334)
T PRK07993         82 EKGKSSLGVDAVREVTEKLYEHARLGGAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPA  149 (334)
T ss_pred             ccccccCCHHHHHHHHHHHhhccccCCceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChh
Confidence            00   011223344444441    235678999999876  344555555555566777777776544

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=97.23  E-value=0.0011  Score=60.28  Aligned_cols=63  Identities=11%  Similarity=0.193  Sum_probs=45.9

Q ss_pred             CcccccchHHHHHHHHHhc--CCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCC
Q 037337           93 YEAFESRMSTLNDILGALR--NPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSP  157 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L~--~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~  157 (247)
                      +..++|+...++.+.+.+.  ......|.|+|..|+|||++|+.+.+.-...  -...+.++|..-+
T Consensus       186 ~~~iig~s~~~~~~~~~i~~~a~~~~pVlI~Ge~GtGK~~~A~~ih~~s~r~--~~p~v~v~c~~~~  250 (509)
T PRK05022        186 EGEMIGQSPAMQQLKKEIEVVAASDLNVLILGETGVGKELVARAIHAASPRA--DKPLVYLNCAALP  250 (509)
T ss_pred             CCceeecCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhCCcC--CCCeEEEEcccCC
Confidence            3568898888888877665  2334678899999999999999998764322  2235667777654

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=97.23  E-value=0.005  Score=50.11  Aligned_cols=40  Identities=18%  Similarity=0.228  Sum_probs=30.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQ  155 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~  155 (247)
                      ..++.|.|.+|+|||+++.+++....... -..++|++...
T Consensus        13 G~l~lI~G~~G~GKT~~~~~~~~~~~~~~-g~~vly~s~E~   52 (242)
T cd00984          13 GDLIIIAARPSMGKTAFALNIAENIAKKQ-GKPVLFFSLEM   52 (242)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHHhC-CCceEEEeCCC
Confidence            36899999999999999999988765431 12467776544

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.

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

Probab=97.23  E-value=0.00027  Score=50.21  Aligned_cols=25  Identities=44%  Similarity=0.639  Sum_probs=21.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          118 LGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       118 v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      |-|+|++|+|||+||..++.++...
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~~~   25 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLLKH   25 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHHHH
Confidence            4689999999999999999887643

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

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=97.23  E-value=0.0013  Score=57.57  Aligned_cols=49  Identities=22%  Similarity=0.267  Sum_probs=37.8

Q ss_pred             cccccchHHHHHHHHHhcCC--------------CccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337           94 EAFESRMSTLNDILGALRNP--------------DISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus        94 ~~~~gR~~~~~~L~~~L~~~--------------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      ..++|.++..+.+...+..+              ..+.+.++|++|+|||++|+.++......
T Consensus        12 ~~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l~~~   74 (441)
T TIGR00390        12 KYIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLANAP   74 (441)
T ss_pred             hhccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHhCCe
Confidence            45788888887775544321              24678999999999999999999987654

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.

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

Probab=97.23  E-value=0.00085  Score=55.09  Aligned_cols=26  Identities=31%  Similarity=0.655  Sum_probs=22.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      .|.++|++|+||||+|+.++..+...
T Consensus         1 LIvl~G~pGSGKST~a~~La~~l~~~   26 (249)
T TIGR03574         1 LIILTGLPGVGKSTFSKELAKKLSEK   26 (249)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            37899999999999999999987643

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.

>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars

Probab=97.22  E-value=0.00036  Score=45.35  Aligned_cols=23  Identities=30%  Similarity=0.572  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 037337          117 MLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ++.|.|.+|+||||+++.+.+.+
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            47889999999999999999986

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.

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=97.22  E-value=0.0027  Score=52.98  Aligned_cols=37  Identities=22%  Similarity=0.209  Sum_probs=30.5

Q ss_pred             HHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          106 ILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       106 L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      ...++...+..++.|.|.+|+|||||+..+...+...
T Consensus        95 ~r~~~~~~~~~~v~l~G~pGsGKTTLl~~l~~~l~~~  131 (290)
T PRK10463         95 NRARFAARKQLVLNLVSSPGSGKTTLLTETLMRLKDS  131 (290)
T ss_pred             HHHHHHhcCCeEEEEECCCCCCHHHHHHHHHHHhccC
Confidence            3444455678999999999999999999999987654

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.22  E-value=0.00077  Score=61.83  Aligned_cols=72  Identities=21%  Similarity=0.332  Sum_probs=51.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNREK  194 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  194 (247)
                      ..-|.++|++|+|||-||..++.....+       ++++..+.    ++   ...+|.      .++....+.++.+.-+
T Consensus       701 ~~giLLyGppGcGKT~la~a~a~~~~~~-------fisvKGPE----lL---~KyIGa------SEq~vR~lF~rA~~a~  760 (952)
T KOG0735|consen  701 RTGILLYGPPGCGKTLLASAIASNSNLR-------FISVKGPE----LL---SKYIGA------SEQNVRDLFERAQSAK  760 (952)
T ss_pred             ccceEEECCCCCcHHHHHHHHHhhCCee-------EEEecCHH----HH---HHHhcc------cHHHHHHHHHHhhccC
Confidence            3568899999999999999999766544       57766542    21   122332      2344666777777778


Q ss_pred             cEEEEEeCCCCc
Q 037337          195 RILVILDNIWEH  206 (247)
Q Consensus       195 r~LlvlDdv~~~  206 (247)
                      +|+|.+|++++.
T Consensus       761 PCiLFFDEfdSi  772 (952)
T KOG0735|consen  761 PCILFFDEFDSI  772 (952)
T ss_pred             CeEEEecccccc
Confidence            999999999875

>PTZ00301 uridine kinase; Provisional

Probab=97.22  E-value=0.00036  Score=55.75  Aligned_cols=26  Identities=27%  Similarity=0.556  Sum_probs=23.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      +.+|+|.|.+|+||||||+.+...+.
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~~l~   28 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVSELM   28 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHHHHH
Confidence            46899999999999999999987764

>PRK05480 uridine/cytidine kinase; Provisional

Probab=97.21  E-value=0.00039  Score=55.48  Aligned_cols=27  Identities=26%  Similarity=0.433  Sum_probs=24.5

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          113 PDISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       113 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      .+..+|+|.|++|+|||||++.++..+
T Consensus         4 ~~~~iI~I~G~sGsGKTTl~~~l~~~l   30 (209)
T PRK05480          4 KKPIIIGIAGGSGSGKTTVASTIYEEL   30 (209)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            356799999999999999999999987

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=97.20  E-value=0.0088  Score=50.03  Aligned_cols=113  Identities=11%  Similarity=0.040  Sum_probs=64.5

Q ss_pred             HHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHHHhcccC------------CCCEEEEEEeCCCCCHHHHHHHHHH
Q 037337          102 TLNDILGALRNPD-ISMLGICGMGGIGKTMLEKEVARKAKNHK------------LFDLVVFSEMSQSPDIRKVQGEIAD  168 (247)
Q Consensus       102 ~~~~L~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~~------------~f~~~~wv~~~~~~~~~~l~~~i~~  168 (247)
                      .-+.|.+.+..++ .....++|+.|+||+++|..++..+-...            |.|..+.........          
T Consensus         5 ~~~~L~~~i~~~rl~HAyLf~G~~G~Gk~~lA~~~A~~llC~~~~~~c~~~~~~~HPD~~~i~p~~~~~~----------   74 (290)
T PRK05917          5 AWEALIQRVRDQKVPSAIILHGQDLSNLSARAYELASLILKETSPEAAYKISQKIHPDIHEFSPQGKGRL----------   74 (290)
T ss_pred             HHHHHHHHHHcCCcCeeEeeECCCCCcHHHHHHHHHHHHhCCCCccHHHHHhcCCCCCEEEEecCCCCCc----------
Confidence            3456677776654 45677899999999999999998764321            222221111111000          


Q ss_pred             HhCCCCCCCChHHHHHHHHHHHc----CCCcEEEEEeCCCCc--cchhhhcccCCCCCCCeEEEEeeCchh
Q 037337          169 KLGLTFREESESGRARSLFSRLN----REKRILVILDNIWEH--LDLQVVGIPHGDDHKGCKVLFTARSLD  233 (247)
Q Consensus       169 ~l~~~~~~~~~~~~~~~l~~~l~----~~kr~LlvlDdv~~~--~~~~~l~~~~~~~~~~s~iiiTtR~~~  233 (247)
                               -..+.+..+.+.+.    .+++-++|+|+++..  +....+...+.....++.+|++|.+.+
T Consensus        75 ---------I~idqiR~l~~~~~~~p~e~~~kv~ii~~ad~mt~~AaNaLLK~LEEPp~~~~fiL~~~~~~  136 (290)
T PRK05917         75 ---------HSIETPRAIKKQIWIHPYESPYKIYIIHEADRMTLDAISAFLKVLEDPPQHGVIILTSAKPQ  136 (290)
T ss_pred             ---------CcHHHHHHHHHHHhhCccCCCceEEEEechhhcCHHHHHHHHHHhhcCCCCeEEEEEeCChh
Confidence                     01122233333331    234568889999876  445566566655566777777766643

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=97.20  E-value=0.0083  Score=51.01  Aligned_cols=125  Identities=8%  Similarity=-0.029  Sum_probs=65.6

Q ss_pred             HHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCC-----C
Q 037337          101 STLNDILGALRNPD-ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLT-----F  174 (247)
Q Consensus       101 ~~~~~L~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~-----~  174 (247)
                      ...+.|.+.+..++ .....++|+.|+||+++|..++..+-....-+.    .|+..    ...+.+...-..+     .
T Consensus        10 ~~~~~l~~~~~~~rl~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~~----~Cg~C----~sC~~~~~g~HPD~~~i~p   81 (319)
T PRK06090         10 PVWQNWKAGLDAGRIPGALLLQSDEGLGVESLVELFSRALLCQNYQSE----ACGFC----HSCELMQSGNHPDLHVIKP   81 (319)
T ss_pred             HHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHcCCCCCCC----CCCCC----HHHHHHHcCCCCCEEEEec
Confidence            44456666665554 567889999999999999999987643321000    01110    0011111110000     0


Q ss_pred             C---CCChHHHHHHHHHHH----cCCCcEEEEEeCCCCc--cchhhhcccCCCCCCCeEEEEeeCchh
Q 037337          175 R---EESESGRARSLFSRL----NREKRILVILDNIWEH--LDLQVVGIPHGDDHKGCKVLFTARSLD  233 (247)
Q Consensus       175 ~---~~~~~~~~~~l~~~l----~~~kr~LlvlDdv~~~--~~~~~l~~~~~~~~~~s~iiiTtR~~~  233 (247)
                      +   ..-..+.+..+.+.+    ..+++-++|+|+++..  .....+...+.....++.+|++|.+.+
T Consensus        82 ~~~~~~I~vdqiR~l~~~~~~~~~~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~  149 (319)
T PRK06090         82 EKEGKSITVEQIRQCNRLAQESSQLNGYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQK  149 (319)
T ss_pred             CcCCCcCCHHHHHHHHHHHhhCcccCCceEEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEECChh
Confidence            0   000112233344443    1234568899999876  345555555555566777777766543

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=97.19  E-value=0.0096  Score=51.12  Aligned_cols=37  Identities=27%  Similarity=0.289  Sum_probs=27.6

Q ss_pred             HHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          104 NDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       104 ~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ++|.. +.+.-...+.++|+.|+||+++|..++..+-.
T Consensus        11 ~~l~~-~~~rl~ha~Lf~Gp~G~GK~~lA~~~A~~LlC   47 (342)
T PRK06964         11 NRLQA-LRARLPHALLLHGQAGIGKLDFAQHLAQGLLC   47 (342)
T ss_pred             HHHHH-hcCCcceEEEEECCCCCCHHHHHHHHHHHHcC
Confidence            34444 23334578889999999999999999987644

>PRK03839 putative kinase; Provisional

Probab=97.18  E-value=0.00038  Score=54.17  Aligned_cols=25  Identities=36%  Similarity=0.555  Sum_probs=22.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      .|.|.|++|+||||+++.+++.+..
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~~~   26 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKLGY   26 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCC
Confidence            4889999999999999999998753

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=97.18  E-value=0.00071  Score=56.06  Aligned_cols=61  Identities=23%  Similarity=0.321  Sum_probs=45.9

Q ss_pred             HHHHHHhc--CCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHH
Q 037337          104 NDILGALR--NPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQG  164 (247)
Q Consensus       104 ~~L~~~L~--~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~  164 (247)
                      .+|+..+.  .++..+|+|+|.||+|||||.-.+...+..+.+--.++-|+-|++++-..++.
T Consensus        38 ~~ll~~l~p~tG~a~viGITG~PGaGKSTli~~L~~~l~~~G~rVaVlAVDPSSp~TGGsiLG  100 (323)
T COG1703          38 RELLRALYPRTGNAHVIGITGVPGAGKSTLIEALGRELRERGHRVAVLAVDPSSPFTGGSILG  100 (323)
T ss_pred             HHHHHHHhhcCCCCcEEEecCCCCCchHHHHHHHHHHHHHCCcEEEEEEECCCCCCCCccccc
Confidence            44555554  34568999999999999999999999998776555677777777776555543

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=97.17  E-value=0.00057  Score=52.36  Aligned_cols=114  Identities=18%  Similarity=0.185  Sum_probs=59.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCC--CCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQS--PDIRKVQGEIADKLGLTFREESESGRARSLFSRLNR  192 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~--~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~  192 (247)
                      -.+++|.|+.|+|||||.+.++.....   ..+.++++-...  .+..+..   .+.++....-+.-+...-.+...+..
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~i~G~~~~---~~G~v~~~g~~~~~~~~~~~~---~~~i~~~~qLS~G~~qrl~laral~~   99 (163)
T cd03216          26 GEVHALLGENGAGKSTLMKILSGLYKP---DSGEILVDGKEVSFASPRDAR---RAGIAMVYQLSVGERQMVEIARALAR   99 (163)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCC---CCeEEEECCEECCcCCHHHHH---hcCeEEEEecCHHHHHHHHHHHHHhc
Confidence            478999999999999999999876543   345555432111  1111111   11121111111112222334444444


Q ss_pred             CCcEEEEEeCCCCccch---hhhcccCCC-CCCCeEEEEeeCchhhh
Q 037337          193 EKRILVILDNIWEHLDL---QVVGIPHGD-DHKGCKVLFTARSLDVL  235 (247)
Q Consensus       193 ~kr~LlvlDdv~~~~~~---~~l~~~~~~-~~~~s~iiiTtR~~~va  235 (247)
                       ++-++++|+-....+.   ..+...+.. ...+..||++|.+.+.+
T Consensus       100 -~p~illlDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~~~  145 (163)
T cd03216         100 -NARLLILDEPTAALTPAEVERLFKVIRRLRAQGVAVIFISHRLDEV  145 (163)
T ss_pred             -CCCEEEEECCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHH
Confidence             4578999998765332   122122211 12366688898887644

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.

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=97.17  E-value=0.00043  Score=54.01  Aligned_cols=25  Identities=24%  Similarity=0.267  Sum_probs=22.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ..+++|.|++|+||||+|+.++..+
T Consensus         3 ~~ii~i~G~~GsGKsTl~~~l~~~~   27 (188)
T TIGR01360         3 CKIIFIVGGPGSGKGTQCEKIVEKY   27 (188)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            5789999999999999999999875

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.

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=97.17  E-value=0.0011  Score=56.64  Aligned_cols=59  Identities=15%  Similarity=0.151  Sum_probs=37.7

Q ss_pred             cccchHHHHHHHHHhc--CCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCC
Q 037337           96 FESRMSTLNDILGALR--NPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQS  156 (247)
Q Consensus        96 ~~gR~~~~~~L~~~L~--~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~  156 (247)
                      ++|+...+..+.+.+.  ......|.|+|.+|+||+++|+.+.+.-...  -...+-++|...
T Consensus         1 liG~S~~m~~~~~~~~~~a~~~~pVLI~GE~GtGK~~lAr~iH~~s~r~--~~pfv~vnc~~~   61 (329)
T TIGR02974         1 LIGESNAFLEVLEQVSRLAPLDRPVLIIGERGTGKELIAARLHYLSKRW--QGPLVKLNCAAL   61 (329)
T ss_pred             CCcCCHHHHHHHHHHHHHhCCCCCEEEECCCCChHHHHHHHHHHhcCcc--CCCeEEEeCCCC
Confidence            3566666666655553  1234678899999999999999887643322  122345666643

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

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=97.17  E-value=0.0017  Score=48.65  Aligned_cols=103  Identities=20%  Similarity=0.193  Sum_probs=55.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNREK  194 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  194 (247)
                      -.+++|.|+.|.|||||++.++.....   ..+.+|++-.             ..++.-..-+.-+...-.+...+.. +
T Consensus        26 Ge~~~i~G~nGsGKStLl~~l~G~~~~---~~G~i~~~~~-------------~~i~~~~~lS~G~~~rv~laral~~-~   88 (144)
T cd03221          26 GDRIGLVGRNGAGKSTLLKLIAGELEP---DEGIVTWGST-------------VKIGYFEQLSGGEKMRLALAKLLLE-N   88 (144)
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCCCCC---CceEEEECCe-------------EEEEEEccCCHHHHHHHHHHHHHhc-C
Confidence            478999999999999999999876543   2344444210             0000000011111122233444444 3


Q ss_pred             cEEEEEeCCCCccc---hhhhcccCCCCCCCeEEEEeeCchhhhh
Q 037337          195 RILVILDNIWEHLD---LQVVGIPHGDDHKGCKVLFTARSLDVLS  236 (247)
Q Consensus       195 r~LlvlDdv~~~~~---~~~l~~~~~~~~~~s~iiiTtR~~~va~  236 (247)
                      +-++++|+-....+   ...+...+...  +..||++|.+.+.+.
T Consensus        89 p~illlDEP~~~LD~~~~~~l~~~l~~~--~~til~~th~~~~~~  131 (144)
T cd03221          89 PNLLLLDEPTNHLDLESIEALEEALKEY--PGTVILVSHDRYFLD  131 (144)
T ss_pred             CCEEEEeCCccCCCHHHHHHHHHHHHHc--CCEEEEEECCHHHHH
Confidence            57899999765533   12222222111  246888888777653

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.

>cd03287 ABC_MSH3_euk MutS3 homolog in eukaryotes

Probab=97.16  E-value=0.00032  Score=56.54  Aligned_cols=116  Identities=17%  Similarity=0.062  Sum_probs=58.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHH-HhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCC----CCCChHHHHHHHHH
Q 037337          114 DISMLGICGMGGIGKTMLEKEVAR-KAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTF----REESESGRARSLFS  188 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~-~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~----~~~~~~~~~~~l~~  188 (247)
                      ...++.|.|+.|.||||+.+.++- .+..+  -.+.+|-.-..-    ..+.+|+..++...    ..++-...+.++..
T Consensus        30 ~g~~~~itG~N~~GKStll~~i~~~~~la~--~G~~v~a~~~~~----~~~~~i~~~~~~~d~~~~~~StF~~e~~~~~~  103 (222)
T cd03287          30 GGYCQIITGPNMGGKSSYIRQVALITIMAQ--IGSFVPASSATL----SIFDSVLTRMGASDSIQHGMSTFMVELSETSH  103 (222)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHHh--CCCEEEcCceEE----eccceEEEEecCccccccccchHHHHHHHHHH
Confidence            346889999999999999999987 33222  111222110000    00111111111110    01111222334444


Q ss_pred             HHc-CCCcEEEEEeCCCCccc-------hhhhcccCCCCCCCeEEEEeeCchhhhh
Q 037337          189 RLN-REKRILVILDNIWEHLD-------LQVVGIPHGDDHKGCKVLFTARSLDVLS  236 (247)
Q Consensus       189 ~l~-~~kr~LlvlDdv~~~~~-------~~~l~~~~~~~~~~s~iiiTtR~~~va~  236 (247)
                      .+. ..++.|++||+.....+       ...+...+.. ..++.+|++|...+++.
T Consensus       104 il~~~~~~sLvllDE~~~gT~~~d~~~i~~~il~~l~~-~~~~~~i~~TH~~~l~~  158 (222)
T cd03287         104 ILSNCTSRSLVILDELGRGTSTHDGIAIAYATLHYLLE-EKKCLVLFVTHYPSLGE  158 (222)
T ss_pred             HHHhCCCCeEEEEccCCCCCChhhHHHHHHHHHHHHHh-ccCCeEEEEcccHHHHH
Confidence            442 23579999999753311       1112222222 25788999999999865

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

>PF00006 ATP-synt_ab: ATP synthase alpha/beta family, nucleotide-binding domain This Pfam entry corresponds to chains a,b,c,d,e and f; InterPro: IPR000194 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane

Probab=97.16  E-value=0.002  Score=51.56  Aligned_cols=86  Identities=23%  Similarity=0.431  Sum_probs=54.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCC-CCHHHHHHHHHHHhC-------CCCCCCChHH------
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQS-PDIRKVQGEIADKLG-------LTFREESESG------  181 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~-~~~~~l~~~i~~~l~-------~~~~~~~~~~------  181 (247)
                      ..+.|.|.+|+|||+|+..+++...    -+.++++.++.. ..+.++..++...-.       ....+.+...      
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            6788999999999999999999875    345688888765 345555555533211       1111122211      


Q ss_pred             HHHHHHHHH-cCCCcEEEEEeCCCC
Q 037337          182 RARSLFSRL-NREKRILVILDNIWE  205 (247)
Q Consensus       182 ~~~~l~~~l-~~~kr~LlvlDdv~~  205 (247)
                      ..-.+.+++ ..++++|+++||+..
T Consensus        92 ~a~t~AEyfrd~G~dVlli~Dsltr  116 (215)
T PF00006_consen   92 TALTIAEYFRDQGKDVLLIIDSLTR  116 (215)
T ss_dssp             HHHHHHHHHHHTTSEEEEEEETHHH
T ss_pred             cchhhhHHHhhcCCceeehhhhhHH
Confidence            122344444 245789999999854

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 ....

>KOG0726 consensus 26S proteasome regulatory complex, ATPase RPT2 [Posttranslational modification, protein turnover, chaperones]

Probab=97.15  E-value=0.0033  Score=52.06  Aligned_cols=52  Identities=23%  Similarity=0.291  Sum_probs=41.2

Q ss_pred             CCCcccccchHHHHHHHHHhcC-------------CCccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337           91 KGYEAFESRMSTLNDILGALRN-------------PDISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus        91 ~~~~~~~gR~~~~~~L~~~L~~-------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      ....++-|-+..+++|.+..+-             ..+.-|.+||.+|.|||-||+.|++.....
T Consensus       182 Ety~diGGle~QiQEiKEsvELPLthPE~YeemGikpPKGVIlyG~PGTGKTLLAKAVANqTSAT  246 (440)
T KOG0726|consen  182 ETYADIGGLESQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGEPGTGKTLLAKAVANQTSAT  246 (440)
T ss_pred             hhhcccccHHHHHHHHHHhhcCCCCCHHHHHHcCCCCCCeeEEeCCCCCchhHHHHHHhcccchh
Confidence            3456677888999998887641             146778899999999999999999877655

>KOG0651 consensus 26S proteasome regulatory complex, ATPase RPT4 [Posttranslational modification, protein turnover, chaperones]

Probab=97.15  E-value=0.0013  Score=54.78  Aligned_cols=102  Identities=20%  Similarity=0.152  Sum_probs=58.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCC
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNRE  193 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  193 (247)
                      .+..+.|||++|.|||-+|+.++......  |     +-++...-..             ........++........+.
T Consensus       165 ~Pkg~ll~GppGtGKTlla~~Vaa~mg~n--f-----l~v~ss~lv~-------------kyiGEsaRlIRemf~yA~~~  224 (388)
T KOG0651|consen  165 PPKGLLLYGPPGTGKTLLARAVAATMGVN--F-----LKVVSSALVD-------------KYIGESARLIRDMFRYAREV  224 (388)
T ss_pred             CCceeEEeCCCCCchhHHHHHHHHhcCCc--e-----EEeeHhhhhh-------------hhcccHHHHHHHHHHHHhhh
Confidence            36789999999999999999999988765  3     1111110000             00112223334444444444


Q ss_pred             CcEEEEEeCCCCccc----------------hhhhcccC--CCCCCCeEEEEeeCchhhh
Q 037337          194 KRILVILDNIWEHLD----------------LQVVGIPH--GDDHKGCKVLFTARSLDVL  235 (247)
Q Consensus       194 kr~LlvlDdv~~~~~----------------~~~l~~~~--~~~~~~s~iiiTtR~~~va  235 (247)
                      .++.|.+|+++-...                +-.+....  .+.-...++|.||...+..
T Consensus       225 ~pciifmdeiDAigGRr~se~Ts~dreiqrTLMeLlnqmdgfd~l~rVk~ImatNrpdtL  284 (388)
T KOG0651|consen  225 IPCIIFMDEIDAIGGRRFSEGTSSDREIQRTLMELLNQMDGFDTLHRVKTIMATNRPDTL  284 (388)
T ss_pred             CceEEeehhhhhhccEEeccccchhHHHHHHHHHHHHhhccchhcccccEEEecCCcccc
Confidence            569999999873210                11111111  1334567899999888764

>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases

Probab=97.15  E-value=0.0009  Score=50.70  Aligned_cols=34  Identities=24%  Similarity=0.286  Sum_probs=27.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEE
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFS  151 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv  151 (247)
                      .+|-++|.+|+||||||+.+.+.+...  -..+.++
T Consensus         3 ~vIwltGlsGsGKtTlA~~L~~~L~~~--g~~~~~L   36 (156)
T PF01583_consen    3 FVIWLTGLSGSGKTTLARALERRLFAR--GIKVYLL   36 (156)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHHT--TS-EEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHc--CCcEEEe
Confidence            578899999999999999999999876  3345555

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 ....

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=97.15  E-value=0.002  Score=49.98  Aligned_cols=112  Identities=25%  Similarity=0.231  Sum_probs=58.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcc---cC---CC-C-EEEEEEeCCCCCHHHHHHHHHHHhCCCCC---C----CCh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKN---HK---LF-D-LVVFSEMSQSPDIRKVQGEIADKLGLTFR---E----ESE  179 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~---~~---~f-~-~~~wv~~~~~~~~~~l~~~i~~~l~~~~~---~----~~~  179 (247)
                      -.+++|.|+.|+|||||.+.+..+...   ..   .| . .+.|+  .+        .+.+..++....   .    -+.
T Consensus        21 G~~~~l~G~nG~GKSTLl~~il~~~G~v~~~~~~~~~~~~~~~~~--~q--------~~~l~~~~L~~~~~~~~~~~LSg   90 (176)
T cd03238          21 NVLVVVTGVSGSGKSTLVNEGLYASGKARLISFLPKFSRNKLIFI--DQ--------LQFLIDVGLGYLTLGQKLSTLSG   90 (176)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhhcCCcEEECCcccccccccEEEE--hH--------HHHHHHcCCCccccCCCcCcCCH
Confidence            478999999999999999988632100   00   00 0 12222  11        345566654321   1    121


Q ss_pred             H-HHHHHHHHHHcCC-CcEEEEEeCCCCccch---hhhcccCCC-CCCCeEEEEeeCchhhhh
Q 037337          180 S-GRARSLFSRLNRE-KRILVILDNIWEHLDL---QVVGIPHGD-DHKGCKVLFTARSLDVLS  236 (247)
Q Consensus       180 ~-~~~~~l~~~l~~~-kr~LlvlDdv~~~~~~---~~l~~~~~~-~~~~s~iiiTtR~~~va~  236 (247)
                      . ...-.+...+..+ .+-++++|+-....+.   ..+...+.. ...|..||++|.+.+.+.
T Consensus        91 Gq~qrl~laral~~~~~p~llLlDEPt~~LD~~~~~~l~~~l~~~~~~g~tvIivSH~~~~~~  153 (176)
T cd03238          91 GELQRVKLASELFSEPPGTLFILDEPSTGLHQQDINQLLEVIKGLIDLGNTVILIEHNLDVLS  153 (176)
T ss_pred             HHHHHHHHHHHHhhCCCCCEEEEeCCcccCCHHHHHHHHHHHHHHHhCCCEEEEEeCCHHHHH
Confidence            1 1222333444342 1578889997655332   122121211 124667999999887753

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.

>TIGR00235 udk uridine kinase

Probab=97.15  E-value=0.0005  Score=54.81  Aligned_cols=28  Identities=29%  Similarity=0.500  Sum_probs=24.5

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          113 PDISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       113 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ++..+++|.|++|+|||||++.++..+.
T Consensus         4 ~~g~vi~I~G~sGsGKSTl~~~l~~~l~   31 (207)
T TIGR00235         4 PKGIIIGIGGGSGSGKTTVARKIYEQLG   31 (207)
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            3457899999999999999999998765

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

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=97.14  E-value=0.0012  Score=52.91  Aligned_cols=42  Identities=19%  Similarity=0.410  Sum_probs=32.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCH
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDI  159 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~  159 (247)
                      .|+|+|-||+||||+|..++..+..+..| .+.-|++..++++
T Consensus         2 kIaI~GKGG~GKTtiaalll~~l~~~~~~-~VLvVDaDpd~nL   43 (255)
T COG3640           2 KIAITGKGGVGKTTIAALLLKRLLSKGGY-NVLVVDADPDSNL   43 (255)
T ss_pred             eEEEecCCCccHHHHHHHHHHHHHhcCCc-eEEEEeCCCCCCh
Confidence            58999999999999999987777655333 4566777776654

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=97.14  E-value=0.0071  Score=43.93  Aligned_cols=46  Identities=20%  Similarity=0.307  Sum_probs=33.1

Q ss_pred             cccccchHHHHHHHHH----hcC---CCccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337           94 EAFESRMSTLNDILGA----LRN---PDISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus        94 ~~~~gR~~~~~~L~~~----L~~---~~~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ..++|..-..+.+.+.    +.+   +++-+++.+|.+|+|||.+++.+++.+
T Consensus        25 ~~l~GQhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~~l   77 (127)
T PF06309_consen   25 RNLFGQHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAEHL   77 (127)
T ss_pred             HHccCcHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHHHH
Confidence            3456655444444444    433   357888999999999999999999984

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

>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes

Probab=97.14  E-value=0.00092  Score=53.00  Aligned_cols=24  Identities=17%  Similarity=0.205  Sum_probs=21.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      .+++|.|+.|.|||||.+.++...
T Consensus        26 ~~~~ltGpNg~GKSTllr~i~~~~   49 (199)
T cd03283          26 NGILITGSNMSGKSTFLRTIGVNV   49 (199)
T ss_pred             cEEEEECCCCCChHHHHHHHHHHH
Confidence            799999999999999999998654

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form slid

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=97.14  E-value=0.0016  Score=53.99  Aligned_cols=120  Identities=17%  Similarity=0.127  Sum_probs=61.4

Q ss_pred             HHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHH
Q 037337          102 TLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESG  181 (247)
Q Consensus       102 ~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~  181 (247)
                      ..+.|.+++ ......+.|.|+.|+||||++..+.......  -..++.+.-........     ..++...  ......
T Consensus        68 ~~~~l~~~~-~~~~GlilisG~tGSGKTT~l~all~~i~~~--~~~iitiEdp~E~~~~~-----~~q~~v~--~~~~~~  137 (264)
T cd01129          68 NLEIFRKLL-EKPHGIILVTGPTGSGKTTTLYSALSELNTP--EKNIITVEDPVEYQIPG-----INQVQVN--EKAGLT  137 (264)
T ss_pred             HHHHHHHHH-hcCCCEEEEECCCCCcHHHHHHHHHhhhCCC--CCeEEEECCCceecCCC-----ceEEEeC--CcCCcC
Confidence            334444444 3445789999999999999999887765421  11233332111111100     0011111  111112


Q ss_pred             HHHHHHHHHcCCCcEEEEEeCCCCccchhhhcccCCCCCCCeEEEEeeCchhhh
Q 037337          182 RARSLFSRLNREKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTARSLDVL  235 (247)
Q Consensus       182 ~~~~l~~~l~~~kr~LlvlDdv~~~~~~~~l~~~~~~~~~~s~iiiTtR~~~va  235 (247)
                      ....+...|+. .+=.++++++.+.+....+....   ..|..++-|....++.
T Consensus       138 ~~~~l~~~lR~-~PD~i~vgEiR~~e~a~~~~~aa---~tGh~v~tTlHa~~~~  187 (264)
T cd01129         138 FARGLRAILRQ-DPDIIMVGEIRDAETAEIAVQAA---LTGHLVLSTLHTNDAP  187 (264)
T ss_pred             HHHHHHHHhcc-CCCEEEeccCCCHHHHHHHHHHH---HcCCcEEEEeccCCHH
Confidence            34455555655 46788999998876544332221   2344455555555543

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.

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=97.14  E-value=0.0071  Score=50.15  Aligned_cols=40  Identities=18%  Similarity=0.096  Sum_probs=30.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQ  155 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~  155 (247)
                      ..++.|.|++|+|||+|+.+++.....+. -..++|++...
T Consensus        30 g~~~~i~g~~G~GKT~l~~~~~~~~~~~~-g~~vl~iS~E~   69 (271)
T cd01122          30 GELIILTAGTGVGKTTFLREYALDLITQH-GVRVGTISLEE   69 (271)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHHHhc-CceEEEEEccc
Confidence            36888999999999999999988764331 23578887655

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=97.13  E-value=0.00046  Score=51.31  Aligned_cols=35  Identities=26%  Similarity=0.347  Sum_probs=27.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQS  156 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~  156 (247)
                      .+-|.|+|.||+|||||+..++....-       -|++++.-
T Consensus         7 ~PNILvtGTPG~GKstl~~~lae~~~~-------~~i~isd~   41 (176)
T KOG3347|consen    7 RPNILVTGTPGTGKSTLAERLAEKTGL-------EYIEISDL   41 (176)
T ss_pred             CCCEEEeCCCCCCchhHHHHHHHHhCC-------ceEehhhH
Confidence            356889999999999999999965443       36766654

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

Probab=97.12  E-value=0.0069  Score=48.83  Aligned_cols=51  Identities=12%  Similarity=0.112  Sum_probs=39.5

Q ss_pred             CCcccccchHHHHHHHH----HhcCCCccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337           92 GYEAFESRMSTLNDILG----ALRNPDISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus        92 ~~~~~~gR~~~~~~L~~----~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      ....++|-+...+.|.+    ++......-|.+||..|+|||+|++.+.+.+..+
T Consensus        58 ~L~~l~Gvd~qk~~L~~NT~~F~~G~pANnVLLwGaRGtGKSSLVKA~~~e~~~~  112 (287)
T COG2607          58 DLADLVGVDRQKEALVRNTEQFAEGLPANNVLLWGARGTGKSSLVKALLNEYADE  112 (287)
T ss_pred             CHHHHhCchHHHHHHHHHHHHHHcCCcccceEEecCCCCChHHHHHHHHHHHHhc
Confidence            34567886666666544    4445567789999999999999999999998776

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.12  E-value=0.0062  Score=53.64  Aligned_cols=27  Identities=26%  Similarity=0.390  Sum_probs=23.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ...+++++|+.|+||||++..++....
T Consensus       190 ~g~vi~lvGpnG~GKTTtlakLA~~~~  216 (420)
T PRK14721        190 QGGVYALIGPTGVGKTTTTAKLAARAV  216 (420)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHH
Confidence            357999999999999999999987643

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=97.11  E-value=0.01  Score=50.77  Aligned_cols=27  Identities=26%  Similarity=0.262  Sum_probs=23.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      -.....++|+.|+|||++|..++..+-
T Consensus        20 ~~hA~Lf~G~~G~GK~~la~~~a~~ll   46 (325)
T PRK08699         20 RPNAWLFAGKKGIGKTAFARFAAQALL   46 (325)
T ss_pred             cceEEEeECCCCCCHHHHHHHHHHHHc
Confidence            356788999999999999999999864

>PLN02200 adenylate kinase family protein

Probab=97.11  E-value=0.0018  Score=52.62  Aligned_cols=26  Identities=15%  Similarity=0.063  Sum_probs=22.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ..++.|.|++|+||||+|+.++..+.
T Consensus        43 ~~ii~I~G~PGSGKsT~a~~La~~~g   68 (234)
T PLN02200         43 PFITFVLGGPGSGKGTQCEKIVETFG   68 (234)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhC
Confidence            46889999999999999999988653

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.11  E-value=0.0044  Score=55.46  Aligned_cols=41  Identities=17%  Similarity=0.205  Sum_probs=30.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQ  155 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~  155 (247)
                      ..+++++|+.|+||||++.+++..+..+.....+.++....
T Consensus       256 g~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~~Dt  296 (484)
T PRK06995        256 GGVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLTTDS  296 (484)
T ss_pred             CcEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEeCCc
Confidence            47999999999999999999998775432122455555543

>TIGR01817 nifA Nif-specific regulatory protein

Probab=97.11  E-value=0.0013  Score=60.15  Aligned_cols=63  Identities=13%  Similarity=0.154  Sum_probs=44.8

Q ss_pred             CCcccccchHHHHHHHHHhc--CCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCC
Q 037337           92 GYEAFESRMSTLNDILGALR--NPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQS  156 (247)
Q Consensus        92 ~~~~~~gR~~~~~~L~~~L~--~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~  156 (247)
                      ....++|....+.++.+.+.  ......|.|+|.+|+|||++|+.+.+.-...  -...+.++|...
T Consensus       194 ~~~~liG~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~lA~~ih~~s~r~--~~pfv~i~c~~~  258 (534)
T TIGR01817       194 KEDGIIGKSPAMRQVVDQARVVARSNSTVLLRGESGTGKELIAKAIHYLSPRA--KRPFVKVNCAAL  258 (534)
T ss_pred             ccCceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCccHHHHHHHHHHhCCCC--CCCeEEeecCCC
Confidence            34678999988888877664  2234567899999999999999998764322  123455666654

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.

>PTZ00088 adenylate kinase 1; Provisional

Probab=97.11  E-value=0.00059  Score=55.26  Aligned_cols=24  Identities=21%  Similarity=0.450  Sum_probs=21.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .|.|.|++|+||||+|+.+++.+.
T Consensus         8 rIvl~G~PGsGK~T~a~~La~~~g   31 (229)
T PTZ00088          8 KIVLFGAPGVGKGTFAEILSKKEN   31 (229)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC
Confidence            488999999999999999998765

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

Probab=97.11  E-value=0.0058  Score=46.05  Aligned_cols=25  Identities=20%  Similarity=0.469  Sum_probs=22.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ++.|+|.+|+||||||+.+...+..
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~~l~~   25 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEKLFQ   25 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            4789999999999999999998763

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

>PRK00279 adk adenylate kinase; Reviewed

Probab=97.10  E-value=0.0033  Score=50.37  Aligned_cols=24  Identities=33%  Similarity=0.267  Sum_probs=21.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .|.|.|++|+||||+|+.++..+.
T Consensus         2 ~I~v~G~pGsGKsT~a~~la~~~~   25 (215)
T PRK00279          2 RLILLGPPGAGKGTQAKFIAEKYG   25 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            478999999999999999998764

>PRK14529 adenylate kinase; Provisional

Probab=97.10  E-value=0.0032  Score=50.69  Aligned_cols=84  Identities=15%  Similarity=0.130  Sum_probs=46.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhcccCCCC-EEE-EEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCc
Q 037337          118 LGICGMGGIGKTMLEKEVARKAKNHKLFD-LVV-FSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNREKR  195 (247)
Q Consensus       118 v~I~G~~GiGKTtLa~~~~~~~~~~~~f~-~~~-wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr  195 (247)
                      |.|.|++|+||||+++.++..+... +.+ +.+ .-.+..........+.++..    ....+.+-....+.++|.....
T Consensus         3 I~l~G~PGsGK~T~a~~La~~~~~~-~is~gdllr~~i~~~t~lg~~i~~~i~~----G~lvpdei~~~lv~~~l~~~~~   77 (223)
T PRK14529          3 ILIFGPNGSGKGTQGALVKKKYDLA-HIESGAIFREHIGGGTELGKKAKEYIDR----GDLVPDDITIPMILETLKQDGK   77 (223)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCC-CcccchhhhhhccCCChHHHHHHHHHhc----cCcchHHHHHHHHHHHHhccCC
Confidence            7889999999999999999987643 221 111 11222222223333333322    1222333344556666643223


Q ss_pred             EEEEEeCCCCc
Q 037337          196 ILVILDNIWEH  206 (247)
Q Consensus       196 ~LlvlDdv~~~  206 (247)
                      .-+|||++-..
T Consensus        78 ~g~iLDGfPRt   88 (223)
T PRK14529         78 NGWLLDGFPRN   88 (223)
T ss_pred             CcEEEeCCCCC
Confidence            55888988654

>PRK04040 adenylate kinase; Provisional

Probab=97.09  E-value=0.00053  Score=53.84  Aligned_cols=25  Identities=28%  Similarity=0.485  Sum_probs=23.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .+|+|+|++|+||||+++.++..+.
T Consensus         3 ~~i~v~G~pG~GKtt~~~~l~~~l~   27 (188)
T PRK04040          3 KVVVVTGVPGVGKTTVLNKALEKLK   27 (188)
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHhc
Confidence            5799999999999999999999874

>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]

Probab=97.09  E-value=0.0024  Score=52.04  Aligned_cols=51  Identities=16%  Similarity=0.247  Sum_probs=39.6

Q ss_pred             CCcccccchHHHHHHHHHhcC-------------CCccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337           92 GYEAFESRMSTLNDILGALRN-------------PDISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus        92 ~~~~~~gR~~~~~~L~~~L~~-------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      .+.++-|-+..+++|.+.+--             ..++-+..||++|.|||-+|+..+......
T Consensus       169 ~YsDiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT~aT  232 (424)
T KOG0652|consen  169 QYSDIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQTNAT  232 (424)
T ss_pred             cccccccHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhccch
Confidence            356677889999999887631             246778999999999999999887765443

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=97.09  E-value=0.0041  Score=56.11  Aligned_cols=114  Identities=13%  Similarity=0.115  Sum_probs=66.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHh-cccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCC-----------------
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKA-KNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFR-----------------  175 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~-~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~-----------------  175 (247)
                      ..+.+.|.|++|+|||+||.+++..- +..  -...+||+...  +..++.+. +..++....                 
T Consensus        20 ~g~~~Li~G~pGsGKT~la~qfl~~g~~~~--ge~~lyvs~eE--~~~~l~~~-~~~~G~~~~~~~~~g~l~~~~~~~~~   94 (484)
T TIGR02655        20 IGRSTLVSGTSGTGKTLFSIQFLYNGIIHF--DEPGVFVTFEE--SPQDIIKN-ARSFGWDLQKLVDEGKLFILDASPDP   94 (484)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHHHhC--CCCEEEEEEec--CHHHHHHH-HHHcCCCHHHHhhcCceEEEecCchh
Confidence            35899999999999999999997653 321  13577887753  44454444 334432211                 


Q ss_pred             -------CCChHHHHHHHHHHHcCCCcEEEEEeCCCCc----cc-------hhhhcccCCCCCCCeEEEEeeCchhh
Q 037337          176 -------EESESGRARSLFSRLNREKRILVILDNIWEH----LD-------LQVVGIPHGDDHKGCKVLFTARSLDV  234 (247)
Q Consensus       176 -------~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~----~~-------~~~l~~~~~~~~~~s~iiiTtR~~~v  234 (247)
                             ..+.......+...+..+++-.+++|.+...    ..       +..+...+  ...|+.+|+||.+.+.
T Consensus        95 ~~~~~~~~~~l~~~l~~i~~~ls~g~~qRVvIDSl~aL~~~~~~~~~~r~~l~~Li~~L--~~~g~TvLLtsh~~~~  169 (484)
T TIGR02655        95 EGQDVVGGFDLSALIERINYAIRKYKAKRVSIDSVTAVFQQYDAVSVVRREIFRLVARL--KQIGVTTVMTTERIEE  169 (484)
T ss_pred             ccccccccCCHHHHHHHHHHHHHHhCCcEEEEeehhHhhhhcCchHHHHHHHHHHHHHH--HHCCCEEEEEecCccc
Confidence                   1123445566666775556677899954321    11       11111111  2457888899876543

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.

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=97.08  E-value=0.0079  Score=51.38  Aligned_cols=39  Identities=23%  Similarity=0.440  Sum_probs=30.3

Q ss_pred             HHHHHHhc--CCCccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          104 NDILGALR--NPDISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       104 ~~L~~~L~--~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      ..|++.+.  ..+..+|+|.|++|+|||||+..+...+...
T Consensus        43 ~~l~~~~~~~~~~~~~igi~G~~GaGKSTl~~~l~~~l~~~   83 (332)
T PRK09435         43 QELLDALLPHTGNALRIGITGVPGVGKSTFIEALGMHLIEQ   83 (332)
T ss_pred             HHHHHHHhhcCCCcEEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            34444443  3456899999999999999999999888754

>PRK05439 pantothenate kinase; Provisional

Probab=97.08  E-value=0.0055  Score=51.81  Aligned_cols=29  Identities=17%  Similarity=0.236  Sum_probs=24.8

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          113 PDISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       113 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ...-+|+|.|.+|+||||+|+.+...+..
T Consensus        84 ~~~~iIgIaG~~gsGKSTla~~L~~~l~~  112 (311)
T PRK05439         84 KVPFIIGIAGSVAVGKSTTARLLQALLSR  112 (311)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            34678999999999999999999886653

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=97.08  E-value=0.0027  Score=48.99  Aligned_cols=28  Identities=29%  Similarity=0.266  Sum_probs=24.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      .-.+++|.|+.|.|||||.+.++.-...
T Consensus        27 ~G~~~~l~G~nGsGKstLl~~i~G~~~~   54 (171)
T cd03228          27 PGEKVAIVGPSGSGKSTLLKLLLRLYDP   54 (171)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHcCCCC
Confidence            3478999999999999999999887543

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.

>PTZ00494 tuzin-like protein; Provisional

Probab=97.08  E-value=0.12  Score=45.89  Aligned_cols=78  Identities=12%  Similarity=0.121  Sum_probs=60.0

Q ss_pred             cCCCcccccchHHHHHHHHHhcC---CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHH
Q 037337           90 NKGYEAFESRMSTLNDILGALRN---PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEI  166 (247)
Q Consensus        90 ~~~~~~~~gR~~~~~~L~~~L~~---~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i  166 (247)
                      +..+..++.|+.+-..+...|..   ..++++++.|..|+||++|.+.........     .++|++....   +-++.+
T Consensus       367 ~a~~~~~V~R~~eE~~vRqvL~qld~aHPRIvV~TG~~GcGKSslcRsAvrkE~~p-----aV~VDVRg~E---DtLrsV  438 (664)
T PTZ00494        367 AAAEAFEVRREDEEALVRSVLTQMAPSHPRIVALAGGSGGGRCVPCRRAVRVEGVA-----LVHVDVGGTE---DTLRSV  438 (664)
T ss_pred             ccccccccchhhHHHHHHHHHhhccCCCCcEEEEecCCCCCchHHHHHHHHHcCCC-----eEEEEecCCc---chHHHH
Confidence            44567789998887777666653   357999999999999999999998876654     5788887764   446778


Q ss_pred             HHHhCCCCC
Q 037337          167 ADKLGLTFR  175 (247)
Q Consensus       167 ~~~l~~~~~  175 (247)
                      .++++.+.-
T Consensus       439 VKALgV~nv  447 (664)
T PTZ00494        439 VRALGVSNV  447 (664)
T ss_pred             HHHhCCCCh
Confidence            888886644

>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=97.07  E-value=0.0018  Score=50.04  Aligned_cols=26  Identities=27%  Similarity=0.335  Sum_probs=23.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ..+++|.|+.|+|||||.+.++....
T Consensus        28 Ge~~~i~G~nGsGKStLl~~l~G~~~   53 (173)
T cd03246          28 GESLAIIGPSGSGKSTLARLILGLLR   53 (173)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhccC
Confidence            46899999999999999999987654

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

>PRK01184 hypothetical protein; Provisional

Probab=97.07  E-value=0.0062  Score=47.41  Aligned_cols=22  Identities=41%  Similarity=0.798  Sum_probs=18.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      .+|+|+|++|+||||+++ ++..
T Consensus         2 ~~i~l~G~~GsGKsT~a~-~~~~   23 (184)
T PRK01184          2 KIIGVVGMPGSGKGEFSK-IARE   23 (184)
T ss_pred             cEEEEECCCCCCHHHHHH-HHHH
Confidence            478999999999999987 4443

>PRK13768 GTPase; Provisional

Probab=97.07  E-value=0.0043  Score=51.10  Aligned_cols=27  Identities=26%  Similarity=0.347  Sum_probs=23.7

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      .+++|.|++|+||||++..+.......
T Consensus         3 ~~i~v~G~~G~GKTt~~~~~~~~l~~~   29 (253)
T PRK13768          3 YIVFFLGTAGSGKTTLTKALSDWLEEQ   29 (253)
T ss_pred             EEEEEECCCCccHHHHHHHHHHHHHhc
Confidence            578899999999999999999887654

>PRK00131 aroK shikimate kinase; Reviewed

Probab=97.07  E-value=0.00066  Score=52.17  Aligned_cols=26  Identities=19%  Similarity=0.326  Sum_probs=23.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ...|.|+|++|+||||+|+.++..+.
T Consensus         4 ~~~i~l~G~~GsGKstla~~La~~l~   29 (175)
T PRK00131          4 GPNIVLIGFMGAGKSTIGRLLAKRLG   29 (175)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHhC
Confidence            46899999999999999999999874

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=97.06  E-value=0.0014  Score=59.31  Aligned_cols=73  Identities=22%  Similarity=0.323  Sum_probs=44.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCC
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNRE  193 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  193 (247)
                      ..+.+.++|++|+|||.||+.+++.....  |     +.+... +   ++..   .+      ...+..+..+.......
T Consensus       275 ~~~giLl~GpPGtGKT~lAkava~~~~~~--f-----i~v~~~-~---l~sk---~v------Gesek~ir~~F~~A~~~  334 (494)
T COG0464         275 PPKGVLLYGPPGTGKTLLAKAVALESRSR--F-----ISVKGS-E---LLSK---WV------GESEKNIRELFEKARKL  334 (494)
T ss_pred             CCCeeEEECCCCCCHHHHHHHHHhhCCCe--E-----EEeeCH-H---Hhcc---cc------chHHHHHHHHHHHHHcC
Confidence            45689999999999999999999965543  3     222221 1   1000   01      11223344444444444


Q ss_pred             CcEEEEEeCCCCc
Q 037337          194 KRILVILDNIWEH  206 (247)
Q Consensus       194 kr~LlvlDdv~~~  206 (247)
                      .++.|.+|+++..
T Consensus       335 ~p~iiFiDEiDs~  347 (494)
T COG0464         335 APSIIFIDEIDSL  347 (494)
T ss_pred             CCcEEEEEchhhh
Confidence            6799999999854

>cd03243 ABC_MutS_homologs The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch

Probab=97.06  E-value=0.00056  Score=54.31  Aligned_cols=23  Identities=22%  Similarity=0.206  Sum_probs=21.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      .+++|+|+.|.|||||.+.++..
T Consensus        30 ~~~~l~G~Ng~GKStll~~i~~~   52 (202)
T cd03243          30 RLLLITGPNMGGKSTYLRSIGLA   52 (202)
T ss_pred             eEEEEECCCCCccHHHHHHHHHH
Confidence            78999999999999999999843

Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, and recognition of specific DNA stru

>cd01135 V_A-ATPase_B V/A-type ATP synthase (non-catalytic) subunit B

Probab=97.04  E-value=0.008  Score=49.77  Aligned_cols=92  Identities=22%  Similarity=0.228  Sum_probs=59.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc--ccCCCCEEEEEEeCCCC-CHHHHHHHHHHHhCCC-------CCCCChH----
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK--NHKLFDLVVFSEMSQSP-DIRKVQGEIADKLGLT-------FREESES----  180 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~--~~~~f~~~~wv~~~~~~-~~~~l~~~i~~~l~~~-------~~~~~~~----  180 (247)
                      -..++|.|-+|+|||+|+.++++...  .+..-+..+|+-+++.. ...+++..+...-...       ..+.+..    
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            46789999999999999999988754  11224678888887654 4566666665432111       1112221    


Q ss_pred             --HHHHHHHHHHcC--CCcEEEEEeCCCCc
Q 037337          181 --GRARSLFSRLNR--EKRILVILDNIWEH  206 (247)
Q Consensus       181 --~~~~~l~~~l~~--~kr~LlvlDdv~~~  206 (247)
                        ...-.+.|++..  ++++|+++||+...
T Consensus       149 a~~~a~aiAEyfrd~~g~~VLl~~D~ltr~  178 (276)
T cd01135         149 TPRMALTTAEYLAYEKGKHVLVILTDMTNY  178 (276)
T ss_pred             HHHHHHHHHHHHHhccCCeEEEEEcChhHH
Confidence              123356667643  57899999998654

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.

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.04  E-value=0.0092  Score=56.17  Aligned_cols=60  Identities=17%  Similarity=0.176  Sum_probs=37.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCC-CHHHHHHHHHHHhCCCC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSP-DIRKVQGEIADKLGLTF  174 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~l~~~i~~~l~~~~  174 (247)
                      ..+++++|+.|+||||++.+++..+........+..+...... ...+-+....+.++.+.
T Consensus       185 g~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~Dt~RigA~eQL~~~a~~~gvpv  245 (767)
T PRK14723        185 GGVLALVGPTGVGKTTTTAKLAARCVAREGADQLALLTTDSFRIGALEQLRIYGRILGVPV  245 (767)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecCcccchHHHHHHHHHHHhCCCCc
Confidence            4799999999999999999999877432212345555544321 12344455555555443

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=97.04  E-value=0.0088  Score=54.36  Aligned_cols=86  Identities=16%  Similarity=0.172  Sum_probs=55.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCC----------------CCCC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTF----------------REES  178 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~----------------~~~~  178 (247)
                      ..++.|.|.+|+|||+|+.+++......  -..++|++....  ..++...+ ..++.+.                ....
T Consensus       273 g~~~li~G~~G~GKT~l~~~~~~~~~~~--g~~~~yis~e~~--~~~i~~~~-~~~g~~~~~~~~~g~l~i~~~~~~~~~  347 (509)
T PRK09302        273 GSIILVSGATGTGKTLLASKFAEAACRR--GERCLLFAFEES--RAQLIRNA-RSWGIDLEKMEEKGLLKIICARPESYG  347 (509)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHHhC--CCcEEEEEecCC--HHHHHHHH-HHcCCChHHHhhcCCceeecCCcccCC
Confidence            4788899999999999999998776443  356788876553  44444433 3444221                1112


Q ss_pred             hHHHHHHHHHHHcCCCcEEEEEeCCCC
Q 037337          179 ESGRARSLFSRLNREKRILVILDNIWE  205 (247)
Q Consensus       179 ~~~~~~~l~~~l~~~kr~LlvlDdv~~  205 (247)
                      ..+....+.+.+...+.-++|+|.+..
T Consensus       348 ~~~~~~~i~~~i~~~~~~~vVIDslt~  374 (509)
T PRK09302        348 LEDHLIIIKREIEEFKPSRVAIDPLSA  374 (509)
T ss_pred             HHHHHHHHHHHHHHcCCCEEEEcCHHH
Confidence            344556666666554556899999853

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=97.04  E-value=0.0038  Score=48.49  Aligned_cols=27  Identities=33%  Similarity=0.383  Sum_probs=23.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      -.+++|.|+.|+|||||++.++.-...
T Consensus        25 Ge~~~l~G~nGsGKSTLl~~l~Gl~~p   51 (177)
T cd03222          25 GEVIGIVGPNGTGKTTAVKILAGQLIP   51 (177)
T ss_pred             CCEEEEECCCCChHHHHHHHHHcCCCC
Confidence            479999999999999999999876543

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.

>TIGR00750 lao LAO/AO transport system ATPase

Probab=97.03  E-value=0.0037  Score=52.82  Aligned_cols=38  Identities=21%  Similarity=0.406  Sum_probs=29.4

Q ss_pred             HHHHHhc--CCCccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          105 DILGALR--NPDISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       105 ~L~~~L~--~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      .+++.+.  .+...+++|.|++|+|||||+..+...+...
T Consensus        22 ~~~~~~~~~~~~~~~i~i~G~~G~GKttl~~~l~~~~~~~   61 (300)
T TIGR00750        22 QLLDRIMPYTGNAHRVGITGTPGAGKSTLLEALGMELRRR   61 (300)
T ss_pred             HHHHhCCcccCCceEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            3444443  2456899999999999999999999987654

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.

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=97.03  E-value=0.0016  Score=48.07  Aligned_cols=28  Identities=21%  Similarity=0.152  Sum_probs=24.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      ..++.+.|.-|+|||||++.+++.+...
T Consensus        22 ~~~i~l~G~lGaGKTtl~~~l~~~lg~~   49 (133)
T TIGR00150        22 GTVVLLKGDLGAGKTTLVQGLLQGLGIQ   49 (133)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHcCCC
Confidence            4689999999999999999999987543

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.

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=97.02  E-value=0.0017  Score=51.29  Aligned_cols=28  Identities=29%  Similarity=0.343  Sum_probs=25.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      ..+|+|-||=|+||||||+.+++++...
T Consensus         4 ~~~IvI~G~IG~GKSTLa~~La~~l~~~   31 (216)
T COG1428           4 AMVIVIEGMIGAGKSTLAQALAEHLGFK   31 (216)
T ss_pred             ccEEEEecccccCHHHHHHHHHHHhCCc
Confidence            4689999999999999999999998743

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=97.02  E-value=0.0021  Score=59.94  Aligned_cols=27  Identities=37%  Similarity=0.438  Sum_probs=23.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      +-+.++|++|+|||++|+.++......
T Consensus       186 ~gill~G~~G~GKt~~~~~~a~~~~~~  212 (644)
T PRK10733        186 KGVLMVGPPGTGKTLLAKAIAGEAKVP  212 (644)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHcCCC
Confidence            458999999999999999998876543

>PRK00889 adenylylsulfate kinase; Provisional

Probab=97.02  E-value=0.0014  Score=50.73  Aligned_cols=29  Identities=24%  Similarity=0.393  Sum_probs=25.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      ...++++.|++|+||||+|+.++..+...
T Consensus         3 ~g~~i~~~G~~GsGKST~a~~la~~l~~~   31 (175)
T PRK00889          3 RGVTVWFTGLSGAGKTTIARALAEKLREA   31 (175)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            34689999999999999999999988643

>PRK00625 shikimate kinase; Provisional

Probab=97.02  E-value=0.00065  Score=52.60  Aligned_cols=25  Identities=28%  Similarity=0.474  Sum_probs=22.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      .|.++|++|+||||+++.+++.+..
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l~~   26 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFLSL   26 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCC
Confidence            4789999999999999999988753

>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX)

Probab=97.01  E-value=0.0033  Score=55.27  Aligned_cols=49  Identities=22%  Similarity=0.150  Sum_probs=36.3

Q ss_pred             CcccccchHHHHHHHHHh-------cC----C-------CccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           93 YEAFESRMSTLNDILGAL-------RN----P-------DISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L-------~~----~-------~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ...++|.++..+.+...+       ..    .       ....+.++|++|+|||+||+.++..+..
T Consensus        76 ~~~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~~l~~  142 (413)
T TIGR00382        76 DEYVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLARILNV  142 (413)
T ss_pred             cceecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHHhcCC
Confidence            455789888888775544       11    1       1257899999999999999999977653

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.

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=96.99  E-value=0.0026  Score=49.09  Aligned_cols=81  Identities=16%  Similarity=0.119  Sum_probs=44.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCC----ChHHHHHHHHHHHc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREE----SESGRARSLFSRLN  191 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~----~~~~~~~~l~~~l~  191 (247)
                      ..+.|.|.+|+|||++|..++......     .+|+.... ....+....+...........    .+......+.....
T Consensus         2 ~~ili~G~~~sGKS~~a~~l~~~~~~~-----~~~iat~~-~~~~e~~~ri~~h~~~R~~~w~t~E~~~~l~~~i~~~~~   75 (170)
T PRK05800          2 MLILVTGGARSGKSRFAERLAAQSGLQ-----VLYIATAQ-PFDDEMAARIAHHRQRRPAHWQTVEEPLDLAELLRADAA   75 (170)
T ss_pred             CEEEEECCCCccHHHHHHHHHHHcCCC-----cEeCcCCC-CChHHHHHHHHHHHhcCCCCCeEecccccHHHHHHhhcC
Confidence            368899999999999999998764321     34544333 334455556555443222221    11122233322233


Q ss_pred             CCCcEEEEEeCCC
Q 037337          192 REKRILVILDNIW  204 (247)
Q Consensus       192 ~~kr~LlvlDdv~  204 (247)
                      ++  -++++|.+.
T Consensus        76 ~~--~~VlID~Lt   86 (170)
T PRK05800         76 PG--RCVLVDCLT   86 (170)
T ss_pred             CC--CEEEehhHH
Confidence            32  368888864

>PHA02774 E1; Provisional

Probab=96.99  E-value=0.0023  Score=57.94  Aligned_cols=51  Identities=22%  Similarity=0.252  Sum_probs=37.4

Q ss_pred             HHHHHHHHHhcCC-CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC
Q 037337          101 STLNDILGALRNP-DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQ  155 (247)
Q Consensus       101 ~~~~~L~~~L~~~-~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~  155 (247)
                      .-+..|..++... +...+.|+|++|+|||.+|..+.+-+..    ..+.|++...
T Consensus       419 ~fl~~lk~~l~~~PKknciv~~GPP~TGKS~fa~sL~~~L~G----~vi~fvN~~s  470 (613)
T PHA02774        419 SFLTALKDFLKGIPKKNCLVIYGPPDTGKSMFCMSLIKFLKG----KVISFVNSKS  470 (613)
T ss_pred             HHHHHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHhCC----CEEEEEECcc
Confidence            3455666666543 3578999999999999999999988753    2456777543

>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=96.99  E-value=0.001  Score=57.56  Aligned_cols=79  Identities=16%  Similarity=0.112  Sum_probs=46.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCC
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNRE  193 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  193 (247)
                      ..+-+.|||..|.|||.|.-.+|+....+..-  ++        -..+.+..+-+.+.......   ..+..+.+.+.+ 
T Consensus        61 ~~~GlYl~G~vG~GKT~Lmd~f~~~lp~~~k~--R~--------HFh~Fm~~vh~~l~~~~~~~---~~l~~va~~l~~-  126 (362)
T PF03969_consen   61 PPKGLYLWGPVGRGKTMLMDLFYDSLPIKRKR--RV--------HFHEFMLDVHSRLHQLRGQD---DPLPQVADELAK-  126 (362)
T ss_pred             CCceEEEECCCCCchhHHHHHHHHhCCccccc--cc--------cccHHHHHHHHHHHHHhCCC---ccHHHHHHHHHh-
Confidence            46889999999999999999999987653111  11        11133333333332111111   113344455545 


Q ss_pred             CcEEEEEeCCCCc
Q 037337          194 KRILVILDNIWEH  206 (247)
Q Consensus       194 kr~LlvlDdv~~~  206 (247)
                      +..||.||++.-.
T Consensus       127 ~~~lLcfDEF~V~  139 (362)
T PF03969_consen  127 ESRLLCFDEFQVT  139 (362)
T ss_pred             cCCEEEEeeeecc
Confidence            3479999997643

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

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=96.97  E-value=0.0011  Score=54.30  Aligned_cols=61  Identities=21%  Similarity=0.272  Sum_probs=40.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeC---------CCCCHHHH--HHHHHHHhCCCCCC
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMS---------QSPDIRKV--QGEIADKLGLTFRE  176 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~---------~~~~~~~l--~~~i~~~l~~~~~~  176 (247)
                      .+.++.++||+|+||||+.++++.++..+.....+  +++.         -+.++++.  +++...+.+..+.+
T Consensus        18 ~p~~ilVvGMAGSGKTTF~QrL~~hl~~~~~ppYv--iNLDPAv~~vpy~aniDIRDtVkYkEvMkqY~LGPNG   89 (366)
T KOG1532|consen   18 RPVIILVVGMAGSGKTTFMQRLNSHLHAKKTPPYV--INLDPAVRNVPYPANIDIRDTVKYKEVMKQYQLGPNG   89 (366)
T ss_pred             CCcEEEEEecCCCCchhHHHHHHHHHhhccCCCeE--EeCCHHHhcCCCccCCchhhhhhHHHHHHHhCCCCCc
Confidence            35788899999999999999999998876333333  2332         22344443  35677776655443

>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family

Probab=96.97  E-value=0.00048  Score=53.91  Aligned_cols=21  Identities=24%  Similarity=0.208  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 037337          117 MLGICGMGGIGKTMLEKEVAR  137 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~  137 (247)
                      ++.|+|+.|.||||+.+.++-
T Consensus         1 ~~~ltG~N~~GKst~l~~i~~   21 (185)
T smart00534        1 VVIITGPNMGGKSTYLRQVGL   21 (185)
T ss_pred             CEEEECCCCCcHHHHHHHHHH
Confidence            467999999999999999984

>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=96.97  E-value=0.00073  Score=56.22  Aligned_cols=53  Identities=23%  Similarity=0.283  Sum_probs=33.3

Q ss_pred             HHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHH
Q 037337          106 ILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRK  161 (247)
Q Consensus       106 L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~  161 (247)
                      +++.+... .+-+.++|++|+|||++++.......... | ...-++.+...+...
T Consensus        25 ll~~l~~~-~~pvLl~G~~GtGKT~li~~~l~~l~~~~-~-~~~~~~~s~~Tts~~   77 (272)
T PF12775_consen   25 LLDLLLSN-GRPVLLVGPSGTGKTSLIQNFLSSLDSDK-Y-LVITINFSAQTTSNQ   77 (272)
T ss_dssp             HHHHHHHC-TEEEEEESSTTSSHHHHHHHHHHCSTTCC-E-EEEEEES-TTHHHHH
T ss_pred             HHHHHHHc-CCcEEEECCCCCchhHHHHhhhccCCccc-c-ceeEeeccCCCCHHH
Confidence            44444433 35678999999999999999887654432 1 234456665544443

>TIGR01287 nifH nitrogenase iron protein

Probab=96.96  E-value=0.0016  Score=54.27  Aligned_cols=39  Identities=23%  Similarity=0.338  Sum_probs=29.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCC
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQS  156 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~  156 (247)
                      +.|+|+|-||+||||++..++..+...+ + .+.-++...+
T Consensus         1 ~~ia~~gKGGVGKTT~a~nLA~~La~~G-~-~VlliD~D~q   39 (275)
T TIGR01287         1 RQIAIYGKGGIGKSTTTQNIAAALAEMG-K-KVMIVGCDPK   39 (275)
T ss_pred             CeeEEeCCCcCcHHHHHHHHHHHHHHCC-C-eEEEEeCCCC
Confidence            4688999999999999999999887653 2 3455555433

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.

>cd00046 DEXDc DEAD-like helicases superfamily

Probab=96.96  E-value=0.0022  Score=46.61  Aligned_cols=36  Identities=14%  Similarity=-0.035  Sum_probs=27.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEE
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSE  152 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~  152 (247)
                      .+.|+|+.|+|||+.+..+............++|+.
T Consensus         2 ~~~i~~~~G~GKT~~~~~~~~~~~~~~~~~~~lv~~   37 (144)
T cd00046           2 DVLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLA   37 (144)
T ss_pred             CEEEECCCCCchhHHHHHHHHHHHhcccCCCEEEEc
Confidence            467999999999999999988766543345566664

A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=96.95  E-value=0.00093  Score=53.17  Aligned_cols=29  Identities=31%  Similarity=0.547  Sum_probs=25.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      +..+|+|.|.+|+||||+|+.++..+...
T Consensus         7 ~~iiIgIaG~SgSGKTTva~~l~~~~~~~   35 (218)
T COG0572           7 KVIIIGIAGGSGSGKTTVAKELSEQLGVE   35 (218)
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHhCcC
Confidence            34789999999999999999999988754

>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=96.95  E-value=0.00045  Score=50.32  Aligned_cols=25  Identities=36%  Similarity=0.480  Sum_probs=18.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          118 LGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       118 v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      |.|+|.+|+|||++|+.++......
T Consensus         2 vLleg~PG~GKT~la~~lA~~~~~~   26 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKALARSLGLS   26 (131)
T ss_dssp             EEEES---HHHHHHHHHHHHHTT--
T ss_pred             EeeECCCccHHHHHHHHHHHHcCCc
Confidence            6799999999999999999987765

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.

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=96.95  E-value=0.00094  Score=51.74  Aligned_cols=25  Identities=12%  Similarity=0.244  Sum_probs=22.7

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ++|.+.|++|+||||+|+.+.....
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~~~   27 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSVLA   27 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhhC
Confidence            5899999999999999999988764

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=96.94  E-value=0.0013  Score=56.21  Aligned_cols=49  Identities=16%  Similarity=0.181  Sum_probs=38.9

Q ss_pred             CCCcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337           91 KGYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus        91 ~~~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      .+...++|.+..++.|.-.+.+.+..-+.+.|.+|+||||+|+.+..-+
T Consensus         5 ~~f~~i~Gq~~~~~~l~~~~~~~~~~~vLl~G~pG~gKT~lar~la~ll   53 (334)
T PRK13407          5 FPFSAIVGQEEMKQAMVLTAIDPGIGGVLVFGDRGTGKSTAVRALAALL   53 (334)
T ss_pred             CCHHHhCCHHHHHHHHHHHHhccCCCcEEEEcCCCCCHHHHHHHHHHHC
Confidence            3456789999988887765544444568899999999999999998875

>TIGR01351 adk adenylate kinases

Probab=96.93  E-value=0.0043  Score=49.55  Aligned_cols=23  Identities=35%  Similarity=0.368  Sum_probs=20.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhc
Q 037337          118 LGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       118 v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      |.|.|++|+||||+|+.++..+.
T Consensus         2 I~i~G~pGsGKsT~a~~La~~~g   24 (210)
T TIGR01351         2 LVLLGPPGSGKGTQAKRIAEKYG   24 (210)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcC
Confidence            67899999999999999987654

Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=96.93  E-value=0.00086  Score=52.04  Aligned_cols=25  Identities=20%  Similarity=0.309  Sum_probs=22.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .+++|.|++|+|||||++.++..+.
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~~~   26 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARARLA   26 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcC
Confidence            4789999999999999999988754

Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.

>PRK06217 hypothetical protein; Validated

Probab=96.93  E-value=0.00077  Score=52.62  Aligned_cols=34  Identities=24%  Similarity=0.293  Sum_probs=26.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcccCCC--CEEEEE
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAKNHKLF--DLVVFS  151 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~~~~~f--~~~~wv  151 (247)
                      .|.|.|.+|+||||||+.++..+... ++  |..+|.
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l~~~-~~~~D~~~~~   38 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERLDIP-HLDTDDYFWL   38 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCc-EEEcCceeec
Confidence            48899999999999999999987542 23  445564

>PRK10875 recD exonuclease V subunit alpha; Provisional

Probab=96.93  E-value=0.0032  Score=58.20  Aligned_cols=53  Identities=11%  Similarity=0.008  Sum_probs=35.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccC-CCCEEEEEEeCCCCCHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHK-LFDLVVFSEMSQSPDIRKVQGEIA  167 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~-~f~~~~wv~~~~~~~~~~l~~~i~  167 (247)
                      .++..|.|.+|+||||++..+...+.... .-...+.+......-...+...+.
T Consensus       167 ~~~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~  220 (615)
T PRK10875        167 RRISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESLG  220 (615)
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHH
Confidence            36899999999999999999988764321 112456666665555555554443

>PRK12597 F0F1 ATP synthase subunit beta; Provisional

Probab=96.92  E-value=0.0083  Score=53.42  Aligned_cols=90  Identities=20%  Similarity=0.273  Sum_probs=59.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCC-CHHHHHHHHHHHhCCC-------CCCCChH------
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSP-DIRKVQGEIADKLGLT-------FREESES------  180 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~l~~~i~~~l~~~-------~~~~~~~------  180 (247)
                      -..++|.|.+|+|||+|+.++++..... +-+.++++-++... .+.++...+...-...       ..+.+..      
T Consensus       143 GQR~gIfa~~G~GKt~Ll~~~~~~~~~~-~~dv~V~~liGER~rEv~ef~~~~~~~~~l~rsvvv~atsd~~~~~R~~a~  221 (461)
T PRK12597        143 GGKTGLFGGAGVGKTVLMMELIFNISKQ-HSGSSVFAGVGERSREGHELYHEMKESGVLDKTVMVYGQMNEPPGARMRVV  221 (461)
T ss_pred             CCEEEeecCCCCChhHHHHHHHHHHHhh-CCCEEEEEcCCcchHHHHHHHHHHHhcCCcceeEEEecCCCCCHHHHHHHH
Confidence            4688999999999999999999887644 45777887776553 4556666655432211       1122221      


Q ss_pred             HHHHHHHHHHcC--CCcEEEEEeCCCC
Q 037337          181 GRARSLFSRLNR--EKRILVILDNIWE  205 (247)
Q Consensus       181 ~~~~~l~~~l~~--~kr~LlvlDdv~~  205 (247)
                      ...-.+.+++..  ++++||++|++..
T Consensus       222 ~~a~tiAEyfrd~~G~~VLl~~DslTR  248 (461)
T PRK12597        222 LTGLTIAEYLRDEEKEDVLLFIDNIFR  248 (461)
T ss_pred             HHHHHHHHHHHHhcCCceEEEeccchH
Confidence            223456666632  5789999999854

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=96.92  E-value=0.002  Score=48.06  Aligned_cols=39  Identities=18%  Similarity=0.356  Sum_probs=28.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQ  155 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~  155 (247)
                      ++|.|+|+.|+|||||++.+.+.+..+. +...++.+...
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~l~~~g-~~v~~ik~~~~   39 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINELKRRG-YRVAVIKHTDH   39 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHHHHTT---EEEEEE-ST
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHhHcC-CceEEEEEccC
Confidence            4789999999999999999999988653 54555555554

>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=96.92  E-value=0.0011  Score=51.53  Aligned_cols=25  Identities=32%  Similarity=0.614  Sum_probs=22.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      +|+|.|.+|+||||||..+...+..
T Consensus         1 ii~i~G~sgsGKttla~~l~~~l~~   25 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQLRV   25 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHH
Confidence            4899999999999999999998753

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>PF02374 ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_A 3IBG_B 3SJA_A 3H84_B 3SJD_A 3ZS9_A 3A37_A 2WOJ_A 3SJC_B 3A36_B

Probab=96.91  E-value=0.002  Score=54.58  Aligned_cols=41  Identities=20%  Similarity=0.294  Sum_probs=29.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCC
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPD  158 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~  158 (247)
                      +++.+.|.||+||||+|...+-....++  ..+.-++..+..+
T Consensus         2 r~~~~~GKGGVGKTT~aaA~A~~~A~~G--~rtLlvS~Dpa~~   42 (305)
T PF02374_consen    2 RILFFGGKGGVGKTTVAAALALALARRG--KRTLLVSTDPAHS   42 (305)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHHHTT--S-EEEEESSTTTH
T ss_pred             eEEEEecCCCCCcHHHHHHHHHHHhhCC--CCeeEeecCCCcc
Confidence            6789999999999999998888765542  2344555544433

...

>PRK14527 adenylate kinase; Provisional

Probab=96.91  E-value=0.0011  Score=52.06  Aligned_cols=28  Identities=18%  Similarity=0.172  Sum_probs=24.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ...++.|.|++|+||||+|+.++..+..
T Consensus         5 ~~~~i~i~G~pGsGKsT~a~~La~~~~~   32 (191)
T PRK14527          5 KNKVVIFLGPPGAGKGTQAERLAQELGL   32 (191)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            4578999999999999999999987753

>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family

Probab=96.91  E-value=0.0079  Score=48.44  Aligned_cols=47  Identities=13%  Similarity=0.203  Sum_probs=33.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGE  165 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~  165 (247)
                      ..++.|.|.+|+|||+++.+++...-..  -..++|++....  ..++...
T Consensus        16 g~~~li~G~~G~GKt~~~~~~~~~~~~~--g~~~~y~s~e~~--~~~l~~~   62 (224)
T TIGR03880        16 GHVIVVIGEYGTGKTTFSLQFLYQGLKN--GEKAMYISLEER--EERILGY   62 (224)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhC--CCeEEEEECCCC--HHHHHHH
Confidence            5789999999999999999998764333  245778877653  4444333

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.

>TIGR03305 alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit beta

Probab=96.90  E-value=0.009  Score=52.93  Aligned_cols=91  Identities=19%  Similarity=0.299  Sum_probs=59.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCC-CHHHHHHHHHHHhCCC-------CCCCChH------
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSP-DIRKVQGEIADKLGLT-------FREESES------  180 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~l~~~i~~~l~~~-------~~~~~~~------  180 (247)
                      -..++|.|.+|+|||+|+.+++...... +-+.++|+-++... .+.+++..+...-...       ..+.+..      
T Consensus       138 GQr~~Ifg~~G~GKt~l~~~~~~~~~~~-~~~v~V~~~iGeR~rEv~e~~~~~~~~~~l~rtvvv~~ts~~~~~~r~~~~  216 (449)
T TIGR03305       138 GGKAGLFGGAGVGKTVLLTEMIHNMVGQ-HQGVSIFCGIGERCREGEELYREMKEAGVLDNTVMVFGQMNEPPGARFRVG  216 (449)
T ss_pred             CCEEEeecCCCCChhHHHHHHHHHHHhc-CCCEEEEEEeccCcHHHHHHHHHHhhccccceEEEEEeCCCCCHHHHHHHH
Confidence            4678999999999999999998876532 24678888777654 3455666655432111       1122221      


Q ss_pred             HHHHHHHHHHc--CCCcEEEEEeCCCCc
Q 037337          181 GRARSLFSRLN--REKRILVILDNIWEH  206 (247)
Q Consensus       181 ~~~~~l~~~l~--~~kr~LlvlDdv~~~  206 (247)
                      ...-.+.+++.  .++++||++||+...
T Consensus       217 ~~a~tiAEyfrd~~G~~VLl~~DslTR~  244 (449)
T TIGR03305       217 HTALTMAEYFRDDEKQDVLLLIDNIFRF  244 (449)
T ss_pred             HHHHHHHHHHHHhcCCceEEEecChHHH
Confidence            22345667775  368899999998654

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.

>PRK13947 shikimate kinase; Provisional

Probab=96.90  E-value=0.00088  Score=51.51  Aligned_cols=26  Identities=31%  Similarity=0.336  Sum_probs=22.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      .|.|.|++|+||||+|+.+++.+...
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~lg~~   28 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTLSFG   28 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCC
Confidence            48899999999999999999987543

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []

Probab=96.90  E-value=0.0009  Score=51.55  Aligned_cols=24  Identities=42%  Similarity=0.524  Sum_probs=20.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          118 LGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       118 v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      +.|+|.+|+|||||++.+++.++.
T Consensus         2 i~iTG~pG~GKTTll~k~i~~l~~   25 (168)
T PF03266_consen    2 IFITGPPGVGKTTLLKKVIEELKK   25 (168)
T ss_dssp             EEEES-TTSSHHHHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHHhhc
Confidence            679999999999999999998853

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.

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=96.90  E-value=0.0021  Score=55.12  Aligned_cols=48  Identities=19%  Similarity=0.213  Sum_probs=40.3

Q ss_pred             CCcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337           92 GYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus        92 ~~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      |...++|.++.+..|+-.+.++...-+.|.|.+|+|||||++.+..-+
T Consensus         2 pf~~ivgq~~~~~al~~~~~~~~~g~vli~G~~G~gKttl~r~~~~~~   49 (337)
T TIGR02030         2 PFTAIVGQDEMKLALLLNVIDPKIGGVMVMGDRGTGKSTAVRALAALL   49 (337)
T ss_pred             CccccccHHHHHHHHHHHhcCCCCCeEEEEcCCCCCHHHHHHHHHHhh
Confidence            345688999998888777777666778899999999999999998776

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.

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=96.90  E-value=0.0047  Score=49.54  Aligned_cols=120  Identities=19%  Similarity=0.211  Sum_probs=64.2

Q ss_pred             HHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhccc-CCCCE--EEEEEeCCCCCHHHH-----HHHHHHHhCCCCCCC
Q 037337          106 ILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNH-KLFDL--VVFSEMSQSPDIRKV-----QGEIADKLGLTFREE  177 (247)
Q Consensus       106 L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-~~f~~--~~wv~~~~~~~~~~l-----~~~i~~~l~~~~~~~  177 (247)
                      ++..+-..+-.-..+.|++|+|||||.+.+++-.... ..|.+  +.-++-++.  +..-     ...+...+...    
T Consensus       128 li~~ly~~g~lntLiigpP~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDersE--Iag~~~gvpq~~~g~R~dVl----  201 (308)
T COG3854         128 LIKDLYQNGWLNTLIIGPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDERSE--IAGCLNGVPQHGRGRRMDVL----  201 (308)
T ss_pred             HHHHHHhcCceeeEEecCCCCChHHHHHHHHHHhhccccccCCceEEEEeccch--hhccccCCchhhhhhhhhhc----
Confidence            3333333344456789999999999999999877643 23433  222222211  1100     01111111111    


Q ss_pred             ChHHHHHHHHHHHcCCCcEEEEEeCCCCccchhhhcccCCCCCCCeEEEEeeCchhh
Q 037337          178 SESGRARSLFSRLNREKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTARSLDV  234 (247)
Q Consensus       178 ~~~~~~~~l~~~l~~~kr~LlvlDdv~~~~~~~~l~~~~~~~~~~s~iiiTtR~~~v  234 (247)
                      +.....+-+.....+--+=++|+|++-..++..++...+   ..|.+++.|..-..+
T Consensus       202 d~cpk~~gmmmaIrsm~PEViIvDEIGt~~d~~A~~ta~---~~GVkli~TaHG~~i  255 (308)
T COG3854         202 DPCPKAEGMMMAIRSMSPEVIIVDEIGTEEDALAILTAL---HAGVKLITTAHGNGI  255 (308)
T ss_pred             ccchHHHHHHHHHHhcCCcEEEEeccccHHHHHHHHHHH---hcCcEEEEeeccccH
Confidence            111122333333433345789999999887766654443   558888888765544

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=96.89  E-value=0.00084  Score=50.48  Aligned_cols=23  Identities=26%  Similarity=0.560  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 037337          117 MLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ++.++|++|+||||+|+.+....
T Consensus         1 li~l~G~~GsGKST~a~~l~~~~   23 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAERL   23 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhhc
Confidence            36789999999999999998874

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>KOG0927 consensus Predicted transporter (ABC superfamily) [General function prediction only]

Probab=96.89  E-value=0.053  Score=48.71  Aligned_cols=119  Identities=24%  Similarity=0.312  Sum_probs=68.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccC---------CCC-----------EEEEE-----EeCCCCCHHHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHK---------LFD-----------LVVFS-----EMSQSPDIRKVQGEIADK  169 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~---------~f~-----------~~~wv-----~~~~~~~~~~l~~~i~~~  169 (247)
                      -..|+++|+.|+|||||.+.++-++....         .|.           ...|.     ..-......+..+.++..
T Consensus       416 ~srvAlVGPNG~GKsTLlKl~~gdl~p~~G~vs~~~H~~~~~y~Qh~~e~ldl~~s~le~~~~~~~~~~~~e~~r~ilgr  495 (614)
T KOG0927|consen  416 DSRVALVGPNGAGKSTLLKLITGDLQPTIGMVSRHSHNKLPRYNQHLAEQLDLDKSSLEFMMPKFPDEKELEEMRSILGR  495 (614)
T ss_pred             ccceeEecCCCCchhhhHHHHhhccccccccccccccccchhhhhhhHhhcCcchhHHHHHHHhccccchHHHHHHHHHH
Confidence            47899999999999999999988765321         111           00000     000112345667778888


Q ss_pred             hCCCCCCC-------ChHHHHHHHHHHHcCCCcEEEEEeCCCCccchh---hhcccCCCCCCCeEEEEeeCchhhh
Q 037337          170 LGLTFREE-------SESGRARSLFSRLNREKRILVILDNIWEHLDLQ---VVGIPHGDDHKGCKVLFTARSLDVL  235 (247)
Q Consensus       170 l~~~~~~~-------~~~~~~~~l~~~l~~~kr~LlvlDdv~~~~~~~---~l~~~~~~~~~~s~iiiTtR~~~va  235 (247)
                      +|...+..       +.......+..++.=+.+-+|+||+-.+..+.+   .+...+. .-.|. +|++|.+--+.
T Consensus       496 fgLtgd~q~~p~~~LS~Gqr~rVlFa~l~~kqP~lLlLDEPtnhLDi~tid~laeaiN-e~~Gg-vv~vSHDfrlI  569 (614)
T KOG0927|consen  496 FGLTGDAQVVPMSQLSDGQRRRVLFARLAVKQPHLLLLDEPTNHLDIETIDALAEAIN-EFPGG-VVLVSHDFRLI  569 (614)
T ss_pred             hCCCccccccchhhcccccchhHHHHHHHhcCCcEEEecCCCcCCCchhHHHHHHHHh-ccCCc-eeeeechhhHH
Confidence            87664432       222333445555543457999999987765433   3333332 23344 67777765544

>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=96.88  E-value=0.0061  Score=51.84  Aligned_cols=71  Identities=15%  Similarity=0.208  Sum_probs=46.8

Q ss_pred             hHHHHHHHHHhcC---CCccEEEEEcCCCCcHHHHHHHHHHHhcccCC-CCEEEEEEeCCCCC----HHHHHHHHHHHh
Q 037337          100 MSTLNDILGALRN---PDISMLGICGMGGIGKTMLEKEVARKAKNHKL-FDLVVFSEMSQSPD----IRKVQGEIADKL  170 (247)
Q Consensus       100 ~~~~~~L~~~L~~---~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~-f~~~~wv~~~~~~~----~~~l~~~i~~~l  170 (247)
                      +...+.|.+.+.+   +...+|+|.|.=|+|||++.+.+.+.++.... --.++|++......    ...++..|..++
T Consensus         2 ~~~a~~la~~I~~~~~~~~~~IgL~G~WGsGKSs~l~~l~~~L~~~~~~~~~~i~fn~w~~~~~~~~~~~~~~~l~~~l   80 (325)
T PF07693_consen    2 KPYAKALAEIIKNPDSDDPFVIGLYGEWGSGKSSFLNMLKEELKEDNKEKYIFIYFNAWEYDGEDDLWASFLEELFDQL   80 (325)
T ss_pred             hHHHHHHHHHHhccCCCCCeEEEEECCCCCCHHHHHHHHHHHHhcccccceeeEEEccccCCCcchHHHHHHHHHHHHH
Confidence            4455666666654   45789999999999999999999999887611 12244555443333    445555555554

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 [].

>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=96.88  E-value=0.0062  Score=47.01  Aligned_cols=26  Identities=35%  Similarity=0.396  Sum_probs=22.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      -.+++|.|+.|+|||||++.++....
T Consensus        26 Ge~~~i~G~nGsGKStLl~~l~G~~~   51 (173)
T cd03230          26 GEIYGLLGPNGAGKTTLIKIILGLLK   51 (173)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCC
Confidence            46899999999999999999987654

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.

>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=96.88  E-value=0.0034  Score=47.57  Aligned_cols=114  Identities=15%  Similarity=0.173  Sum_probs=60.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCC--HHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPD--IRKVQGEIADKLGLTFREESESGRARSLFSRLNR  192 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~--~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~  192 (247)
                      ..+++|.|+.|.|||||++.++.....   ..+.++++-.....  ...    ....++....-..-+...-.+...+..
T Consensus        25 g~~~~i~G~nGsGKStll~~l~g~~~~---~~G~i~~~~~~~~~~~~~~----~~~~i~~~~qlS~G~~~r~~l~~~l~~   97 (157)
T cd00267          25 GEIVALVGPNGSGKSTLLRAIAGLLKP---TSGEILIDGKDIAKLPLEE----LRRRIGYVPQLSGGQRQRVALARALLL   97 (157)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCC---CccEEEECCEEcccCCHHH----HHhceEEEeeCCHHHHHHHHHHHHHhc
Confidence            378999999999999999999876542   34555553321111  111    111122111111112222234444444


Q ss_pred             CCcEEEEEeCCCCccch---hhhcccCCC-CCCCeEEEEeeCchhhhh
Q 037337          193 EKRILVILDNIWEHLDL---QVVGIPHGD-DHKGCKVLFTARSLDVLS  236 (247)
Q Consensus       193 ~kr~LlvlDdv~~~~~~---~~l~~~~~~-~~~~s~iiiTtR~~~va~  236 (247)
                       .+-++++|+.....+.   ..+...+.. ...+..++++|.+.+.+.
T Consensus        98 -~~~i~ilDEp~~~lD~~~~~~l~~~l~~~~~~~~tii~~sh~~~~~~  144 (157)
T cd00267          98 -NPDLLLLDEPTSGLDPASRERLLELLRELAEEGRTVIIVTHDPELAE  144 (157)
T ss_pred             -CCCEEEEeCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHHH
Confidence             3579999998765332   122111111 122567899998887765

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.

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]

Probab=96.88  E-value=0.0087  Score=56.99  Aligned_cols=101  Identities=18%  Similarity=0.190  Sum_probs=63.0

Q ss_pred             cccchHHHHHHHHHhcC------C--CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHH
Q 037337           96 FESRMSTLNDILGALRN------P--DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIA  167 (247)
Q Consensus        96 ~~gR~~~~~~L~~~L~~------~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~  167 (247)
                      ++|.++.+..+.+.+..      +  +..+..+.|+.|+|||-||+.++.-+-..  .+..+-++.+....       +.
T Consensus       564 V~gQ~eAv~aIa~AI~~sr~gl~~~~~~awflflGpdgvGKt~lAkaLA~~~Fgs--e~~~IriDmse~~e-------vs  634 (898)
T KOG1051|consen  564 VIGQDEAVAAIAAAIRRSRAGLKDPNPDAWFLFLGPDGVGKTELAKALAEYVFGS--EENFIRLDMSEFQE-------VS  634 (898)
T ss_pred             ccchHHHHHHHHHHHHhhhcccCCCCCCeEEEEECCCchhHHHHHHHHHHHHcCC--ccceEEechhhhhh-------hh
Confidence            56666666666666542      1  35678889999999999999999887544  34444454443221       33


Q ss_pred             HHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          168 DKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       168 ~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                      +..+.+.... ..+....|.+.+++..-.+|+||||+..
T Consensus       635 kligsp~gyv-G~e~gg~LteavrrrP~sVVLfdeIEkA  672 (898)
T KOG1051|consen  635 KLIGSPPGYV-GKEEGGQLTEAVKRRPYSVVLFEEIEKA  672 (898)
T ss_pred             hccCCCcccc-cchhHHHHHHHHhcCCceEEEEechhhc
Confidence            3333332211 1223457778887755567779999876

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=96.88  E-value=0.00088  Score=52.92  Aligned_cols=23  Identities=35%  Similarity=0.667  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 037337          117 MLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      +|+|.|++|+|||||++.+...+
T Consensus         1 iigi~G~~GsGKSTl~~~l~~~l   23 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIEQL   23 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999998876

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.

>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor

Probab=96.88  E-value=0.00093  Score=49.79  Aligned_cols=25  Identities=32%  Similarity=0.452  Sum_probs=22.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      +|.|.|++|+||||+|+.++..+..
T Consensus         1 ~I~i~G~~GsGKst~a~~la~~~~~   25 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAKKLGL   25 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhCC
Confidence            4789999999999999999988653

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=96.87  E-value=0.016  Score=49.37  Aligned_cols=29  Identities=28%  Similarity=0.394  Sum_probs=25.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      +..++.++|++|+||||++..++..+...
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~~l~~~  141 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAHKYKAQ  141 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhc
Confidence            45799999999999999999999987654

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=96.86  E-value=0.0033  Score=57.25  Aligned_cols=63  Identities=14%  Similarity=0.140  Sum_probs=41.6

Q ss_pred             CcccccchHHHHHHHHHhc--CCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCC
Q 037337           93 YEAFESRMSTLNDILGALR--NPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSP  157 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L~--~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~  157 (247)
                      ...++|....+..+.+.+.  ......|.|+|..|+||+.+|+.+... .... -...+.++|..-+
T Consensus       203 f~~~ig~s~~~~~~~~~~~~~A~~~~pvlI~GE~GtGK~~lA~aiH~~-s~r~-~~pfv~inca~~~  267 (520)
T PRK10820        203 FSQIVAVSPKMRQVVEQARKLAMLDAPLLITGDTGTGKDLLAYACHLR-SPRG-KKPFLALNCASIP  267 (520)
T ss_pred             ccceeECCHHHHHHHHHHHHHhCCCCCEEEECCCCccHHHHHHHHHHh-CCCC-CCCeEEeccccCC
Confidence            4568888887777766553  222356889999999999999996543 2221 1234567776644

>PLN02165 adenylate isopentenyltransferase

Probab=96.86  E-value=0.0017  Score=55.20  Aligned_cols=30  Identities=27%  Similarity=0.339  Sum_probs=25.8

Q ss_pred             cCCCccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          111 RNPDISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       111 ~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .+....+++|+|+.|+|||+||..++..+.
T Consensus        39 ~~~~g~iivIiGPTGSGKStLA~~LA~~l~   68 (334)
T PLN02165         39 QNCKDKVVVIMGATGSGKSRLSVDLATRFP   68 (334)
T ss_pred             cCCCCCEEEEECCCCCcHHHHHHHHHHHcC
Confidence            444567999999999999999999998864

>TIGR00041 DTMP_kinase thymidylate kinase

Probab=96.86  E-value=0.0043  Score=48.75  Aligned_cols=27  Identities=22%  Similarity=0.350  Sum_probs=24.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      ..|+|.|..|+||||+++.+++.+...
T Consensus         4 ~~IvieG~~GsGKsT~~~~L~~~l~~~   30 (195)
T TIGR00041         4 MFIVIEGIDGAGKTTQANLLKKLLQEN   30 (195)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            579999999999999999999988764

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.

>PRK14530 adenylate kinase; Provisional

Probab=96.86  E-value=0.0011  Score=53.17  Aligned_cols=25  Identities=20%  Similarity=0.250  Sum_probs=22.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      +.|.|.|++|+||||+|+.++..+.
T Consensus         4 ~~I~i~G~pGsGKsT~~~~La~~~~   28 (215)
T PRK14530          4 PRILLLGAPGAGKGTQSSNLAEEFG   28 (215)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4688999999999999999998764

>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=96.86  E-value=0.0028  Score=53.83  Aligned_cols=48  Identities=21%  Similarity=0.308  Sum_probs=36.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQG  164 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~  164 (247)
                      .+++.+.|.||+||||+|...+-.+...+  ..+.-|+..+..+..+++.
T Consensus         2 ~riv~f~GKGGVGKTT~aaA~A~~lA~~g--~kvLlvStDPAhsL~d~f~   49 (322)
T COG0003           2 TRIVFFTGKGGVGKTTIAAATAVKLAESG--KKVLLVSTDPAHSLGDVFD   49 (322)
T ss_pred             cEEEEEecCCcccHHHHHHHHHHHHHHcC--CcEEEEEeCCCCchHhhhc
Confidence            47889999999999999999888777653  3477777766665555443

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=96.85  E-value=0.0019  Score=55.49  Aligned_cols=50  Identities=16%  Similarity=0.164  Sum_probs=43.2

Q ss_pred             CCCcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337           91 KGYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus        91 ~~~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .|...++|.++....|...+.++...-+.|.|..|+||||+|+.+++-..
T Consensus        14 ~pf~~ivGq~~~k~al~~~~~~p~~~~vli~G~~GtGKs~~ar~~~~~l~   63 (350)
T CHL00081         14 FPFTAIVGQEEMKLALILNVIDPKIGGVMIMGDRGTGKSTTIRALVDLLP   63 (350)
T ss_pred             CCHHHHhChHHHHHHHHHhccCCCCCeEEEEcCCCCCHHHHHHHHHHHHh
Confidence            35577999999999988888888888888999999999999999987654

>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]

Probab=96.84  E-value=0.0034  Score=57.23  Aligned_cols=52  Identities=25%  Similarity=0.321  Sum_probs=39.0

Q ss_pred             CCCcccccchHHHHH---HHHHhcCCC---------ccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337           91 KGYEAFESRMSTLND---ILGALRNPD---------ISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus        91 ~~~~~~~gR~~~~~~---L~~~L~~~~---------~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      ....+..|.++..++   +++.|.++.         ++-+.++|++|+|||.||+.++....+.
T Consensus       147 v~F~DVAG~dEakeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA~VP  210 (596)
T COG0465         147 VTFADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVP  210 (596)
T ss_pred             cChhhhcCcHHHHHHHHHHHHHHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhcccCCC
Confidence            345667787765555   555666442         5678899999999999999999887765

>PRK06620 hypothetical protein; Validated

Probab=96.84  E-value=0.00097  Score=53.48  Aligned_cols=24  Identities=33%  Similarity=0.191  Sum_probs=21.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      +.+.|||++|+|||+|++.+++..
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~   68 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLS   68 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhcc
Confidence            668999999999999999887654

>PRK09280 F0F1 ATP synthase subunit beta; Validated

Probab=96.83  E-value=0.015  Score=51.77  Aligned_cols=91  Identities=19%  Similarity=0.284  Sum_probs=58.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCC-CHHHHHHHHHHHhCCC-------CCCCChH------
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSP-DIRKVQGEIADKLGLT-------FREESES------  180 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~l~~~i~~~l~~~-------~~~~~~~------  180 (247)
                      -..++|.|.+|+|||||+.+++.....+. -+.++++-++... .+.+++..+...-...       ..+.+..      
T Consensus       144 GQR~gIfa~~GvGKt~Ll~~i~~~~~~~~-~~v~V~~liGER~rEv~efi~~~~~~~~l~rsvvV~atsd~p~~~r~~a~  222 (463)
T PRK09280        144 GGKIGLFGGAGVGKTVLIQELINNIAKEH-GGYSVFAGVGERTREGNDLYHEMKESGVLDKTALVFGQMNEPPGARLRVA  222 (463)
T ss_pred             CCEEEeecCCCCChhHHHHHHHHHHHhcC-CCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHHH
Confidence            46789999999999999999988776442 2467777776554 4556666665432211       1122221      


Q ss_pred             HHHHHHHHHH--cCCCcEEEEEeCCCCc
Q 037337          181 GRARSLFSRL--NREKRILVILDNIWEH  206 (247)
Q Consensus       181 ~~~~~l~~~l--~~~kr~LlvlDdv~~~  206 (247)
                      ...-.+.+++  ..++++||++|++...
T Consensus       223 ~~a~tiAEyfrd~~G~~VLll~DslTR~  250 (463)
T PRK09280        223 LTGLTMAEYFRDVEGQDVLLFIDNIFRF  250 (463)
T ss_pred             HHHHHHHHHHHHhcCCceEEEecchHHH
Confidence            2233466666  2568899999998643

>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor

Probab=96.82  E-value=0.0048  Score=48.34  Aligned_cols=26  Identities=27%  Similarity=0.426  Sum_probs=23.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      +|+|.|+.|+||||+++.++..+...
T Consensus         2 ~I~ieG~~GsGKtT~~~~L~~~l~~~   27 (200)
T cd01672           2 FIVFEGIDGAGKTTLIELLAERLEAR   27 (200)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            68999999999999999999998643

TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=96.82  E-value=0.0034  Score=49.61  Aligned_cols=37  Identities=24%  Similarity=0.241  Sum_probs=28.5

Q ss_pred             HHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          106 ILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       106 L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      .+..+..++.+++.|.|++|+|||+++..+...+...
T Consensus         9 a~~~~l~~~~~~~~l~G~aGtGKT~~l~~~~~~~~~~   45 (196)
T PF13604_consen    9 AVRAILTSGDRVSVLQGPAGTGKTTLLKALAEALEAA   45 (196)
T ss_dssp             HHHHHHHCTCSEEEEEESTTSTHHHHHHHHHHHHHHT
T ss_pred             HHHHHHhcCCeEEEEEECCCCCHHHHHHHHHHHHHhC
Confidence            3333433345789999999999999999998888775

>PRK05748 replicative DNA helicase; Provisional

Probab=96.82  E-value=0.23  Score=44.52  Aligned_cols=50  Identities=10%  Similarity=0.135  Sum_probs=33.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIA  167 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~  167 (247)
                      ...++|-|.+|+|||+||..++.....+.. ..++|++...  +..++...++
T Consensus       203 G~livIaarpg~GKT~~al~ia~~~a~~~g-~~v~~fSlEm--s~~~l~~R~l  252 (448)
T PRK05748        203 NDLIIVAARPSVGKTAFALNIAQNVATKTD-KNVAIFSLEM--GAESLVMRML  252 (448)
T ss_pred             CceEEEEeCCCCCchHHHHHHHHHHHHhCC-CeEEEEeCCC--CHHHHHHHHH
Confidence            378999999999999999999987643211 2455654433  4445544443

>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated

Probab=96.82  E-value=0.0044  Score=48.46  Aligned_cols=117  Identities=20%  Similarity=0.121  Sum_probs=67.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC--CCCHHHHHHHHH--HH--hCCC--CCCCCh-------
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQ--SPDIRKVQGEIA--DK--LGLT--FREESE-------  179 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~--~~~~~~l~~~i~--~~--l~~~--~~~~~~-------  179 (247)
                      ...|.|+|..|-||||.|.-.+-+...+. +...+.-.+..  .......+..+-  ..  .+..  ....+.       
T Consensus        22 ~g~v~v~~g~GkGKtt~a~g~a~ra~g~G-~~V~ivQFlKg~~~~GE~~~l~~l~~v~~~~~g~~~~~~~~~~~e~~~~~  100 (191)
T PRK05986         22 KGLLIVHTGNGKGKSTAAFGMALRAVGHG-KKVGVVQFIKGAWSTGERNLLEFGGGVEFHVMGTGFTWETQDRERDIAAA  100 (191)
T ss_pred             CCeEEEECCCCCChHHHHHHHHHHHHHCC-CeEEEEEEecCCCccCHHHHHhcCCCcEEEECCCCCcccCCCcHHHHHHH
Confidence            47899999999999999999998876653 22222212222  233344443321  00  1111  111111       


Q ss_pred             HHHHHHHHHHHcCCCcEEEEEeCCCCc-----cchhhhcccCCCCCCCeEEEEeeCch
Q 037337          180 SGRARSLFSRLNREKRILVILDNIWEH-----LDLQVVGIPHGDDHKGCKVLFTARSL  232 (247)
Q Consensus       180 ~~~~~~l~~~l~~~kr~LlvlDdv~~~-----~~~~~l~~~~~~~~~~s~iiiTtR~~  232 (247)
                      ........+.+..++-=|||||++-..     .+.+.+...+...+.+..||+|-|+.
T Consensus       101 ~~~~~~a~~~l~~~~ydlvVLDEi~~Al~~gli~~eevi~~L~~rp~~~evVlTGR~~  158 (191)
T PRK05986        101 REGWEEAKRMLADESYDLVVLDELTYALKYGYLDVEEVLEALNARPGMQHVVITGRGA  158 (191)
T ss_pred             HHHHHHHHHHHhCCCCCEEEEehhhHHHHCCCccHHHHHHHHHcCCCCCEEEEECCCC
Confidence            112344455555656679999998654     22344444454567788999999987

>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+)

Probab=96.82  E-value=0.001  Score=52.15  Aligned_cols=23  Identities=39%  Similarity=0.577  Sum_probs=21.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 037337          117 MLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      +|+|.|.+|+||||||+.++...
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~~   23 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRIL   23 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            47899999999999999999986

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.

>cd02040 NifH NifH gene encodes component II (iron protein) of nitrogenase

Probab=96.81  E-value=0.0028  Score=52.46  Aligned_cols=41  Identities=22%  Similarity=0.372  Sum_probs=30.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCC
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPD  158 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~  158 (247)
                      ++|+|.|-||+||||++..++..+...+  ..+.-|++..+.+
T Consensus         2 ~~iav~~KGGvGKTT~~~nLA~~La~~G--~kVlliD~Dpq~n   42 (270)
T cd02040           2 RQIAIYGKGGIGKSTTTQNLSAALAEMG--KKVMIVGCDPKAD   42 (270)
T ss_pred             cEEEEEeCCcCCHHHHHHHHHHHHHhCC--CeEEEEEcCCCCC
Confidence            4677889999999999999999887542  2466676665543

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.

>PRK13949 shikimate kinase; Provisional

Probab=96.81  E-value=0.0013  Score=50.78  Aligned_cols=25  Identities=36%  Similarity=0.405  Sum_probs=22.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      .|.|+|++|+||||+++.+++.+..
T Consensus         3 ~I~liG~~GsGKstl~~~La~~l~~   27 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALARELGL   27 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCC
Confidence            5889999999999999999998753

>PLN02924 thymidylate kinase

Probab=96.81  E-value=0.0088  Score=48.16  Aligned_cols=53  Identities=8%  Similarity=0.078  Sum_probs=35.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIAD  168 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~  168 (247)
                      ...|+|.|..|+||||++..+++.+.... +....+-..+......+..+.++.
T Consensus        16 g~~IviEGiDGsGKsTq~~~L~~~l~~~g-~~v~~~~ep~~~~~~g~~ir~~l~   68 (220)
T PLN02924         16 GALIVLEGLDRSGKSTQCAKLVSFLKGLG-VAAELWRFPDRTTSVGQMISAYLS   68 (220)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhcC-CCceeeeCCCCCChHHHHHHHHHh
Confidence            46899999999999999999999998653 443333222223344555555544

>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity

Probab=96.81  E-value=0.0018  Score=52.85  Aligned_cols=35  Identities=20%  Similarity=0.273  Sum_probs=24.9

Q ss_pred             EEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCC
Q 037337          120 ICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQS  156 (247)
Q Consensus       120 I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~  156 (247)
                      |.||+|+||||+++.+.+.....+  ..++.|+..+.
T Consensus         1 ViGpaGSGKTT~~~~~~~~~~~~~--~~~~~vNLDPa   35 (238)
T PF03029_consen    1 VIGPAGSGKTTFCKGLSEWLESNG--RDVYIVNLDPA   35 (238)
T ss_dssp             -EESTTSSHHHHHHHHHHHHTTT---S-EEEEE--TT
T ss_pred             CCCCCCCCHHHHHHHHHHHHHhcc--CCceEEEcchH
Confidence            689999999999999999887652  34566666554

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=96.80  E-value=0.0033  Score=53.45  Aligned_cols=55  Identities=20%  Similarity=0.175  Sum_probs=42.1

Q ss_pred             CCCcccccchHHHHH---HHHHhcCC--CccEEEEEcCCCCcHHHHHHHHHHHhcccCCC
Q 037337           91 KGYEAFESRMSTLND---ILGALRNP--DISMLGICGMGGIGKTMLEKEVARKAKNHKLF  145 (247)
Q Consensus        91 ~~~~~~~gR~~~~~~---L~~~L~~~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f  145 (247)
                      ....+++|..+..+.   +.++..+.  .-+.|.+.|++|+|||.||..+++.+....+|
T Consensus        36 ~~~dG~VGQ~~AReAaGvIv~mik~gk~aGrgiLi~GppgTGKTAlA~gIa~eLG~dvPF   95 (450)
T COG1224          36 FIGDGLVGQEEAREAAGVIVKMIKQGKMAGRGILIVGPPGTGKTALAMGIARELGEDVPF   95 (450)
T ss_pred             EcCCcccchHHHHHhhhHHHHHHHhCcccccEEEEECCCCCcHHHHHHHHHHHhCCCCCc
Confidence            346789997665544   45555444  35889999999999999999999999877666

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=96.80  E-value=0.00094  Score=50.98  Aligned_cols=23  Identities=22%  Similarity=0.478  Sum_probs=20.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhc
Q 037337          118 LGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       118 v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      +++.|++|+||||+|+.+.+...
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l~   23 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRLG   23 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhcC
Confidence            46899999999999999998763

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.

>cd02034 CooC The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH)

Probab=96.80  E-value=0.0098  Score=42.82  Aligned_cols=36  Identities=28%  Similarity=0.434  Sum_probs=27.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC
Q 037337          118 LGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQ  155 (247)
Q Consensus       118 v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~  155 (247)
                      +.+.|.||+|||+++..++..+....  ..+.-++...
T Consensus         2 i~~~GkgG~GKTt~a~~la~~l~~~g--~~V~~id~D~   37 (116)
T cd02034           2 IAITGKGGVGKTTIAALLARYLAEKG--KPVLAIDADP   37 (116)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCC--CcEEEEECCc
Confidence            68999999999999999999886542  2345555444

CODH from Rhodospirillum rubrum catalyzes the reversible oxidation of CO to CO2. CODH contains a nickel-iron-sulfur cluster (C-center) and an iron-sulfur cluster (B-center). CO oxidation occurs at the C-center. Three accessory proteins encoded by cooCTJ genes are involved in nickel incorporation into a nickel site. CooC functions as a nickel insertase that mobilizes nickel to apoCODH using energy released from ATP hydrolysis. CooC is a homodimer and has NTPase activities. Mutation at the P-loop abolishs its function.

>PF06068 TIP49: TIP49 C-terminus; InterPro: IPR010339 This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins

Probab=96.78  E-value=0.0024  Score=54.77  Aligned_cols=53  Identities=19%  Similarity=0.268  Sum_probs=37.8

Q ss_pred             CcccccchHHHHH---HHHHhcCCC--ccEEEEEcCCCCcHHHHHHHHHHHhcccCCC
Q 037337           93 YEAFESRMSTLND---ILGALRNPD--ISMLGICGMGGIGKTMLEKEVARKAKNHKLF  145 (247)
Q Consensus        93 ~~~~~gR~~~~~~---L~~~L~~~~--~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f  145 (247)
                      ..+++|..+..+.   +.+++...+  -+.+.+.|++|+|||+||..+++.+..+..|
T Consensus        23 ~~GlVGQ~~AReAagiiv~mIk~~K~aGr~iLiaGppGtGKTAlA~~ia~eLG~~~PF   80 (398)
T PF06068_consen   23 ADGLVGQEKAREAAGIIVDMIKEGKIAGRAILIAGPPGTGKTALAMAIAKELGEDVPF   80 (398)
T ss_dssp             ETTEES-HHHHHHHHHHHHHHHTT--TT-EEEEEE-TTSSHHHHHHHHHHHCTTTS-E
T ss_pred             cccccChHHHHHHHHHHHHHHhcccccCcEEEEeCCCCCCchHHHHHHHHHhCCCCCe
Confidence            4689997766655   455555543  5899999999999999999999998866433

The N-terminal domain contains the AAA ATPase, central region IPR003959 from INTERPRO domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway []. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities. TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases [].; GO: 0003678 DNA helicase activity, 0005524 ATP binding; PDB: 2XSZ_E 2CQA_A 2C9O_C.

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=96.78  E-value=0.005  Score=53.96  Aligned_cols=50  Identities=22%  Similarity=0.234  Sum_probs=38.9

Q ss_pred             CcccccchHHHHHHHHHhcC---------C-----CccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337           93 YEAFESRMSTLNDILGALRN---------P-----DISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L~~---------~-----~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      ...++|.++..+.+..++..         .     ....+.++|++|+|||+||+.++......
T Consensus        14 d~~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l~~~   77 (443)
T PRK05201         14 DKYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLANAP   77 (443)
T ss_pred             ccccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHhCCh
Confidence            35588888888888766632         0     14678999999999999999999987543

>TIGR01448 recD_rel helicase, putative, RecD/TraA family

Probab=96.77  E-value=0.0085  Score=56.66  Aligned_cols=40  Identities=20%  Similarity=0.152  Sum_probs=29.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCC
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQS  156 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~  156 (247)
                      +++.|.|.+|+||||+++.+...+..... ...+++.+...
T Consensus       339 ~~~iitGgpGTGKTt~l~~i~~~~~~~~~-~~~v~l~ApTg  378 (720)
T TIGR01448       339 KVVILTGGPGTGKTTITRAIIELAEELGG-LLPVGLAAPTG  378 (720)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHcCC-CceEEEEeCch
Confidence            58999999999999999999887765421 13455555443

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.

>PRK03846 adenylylsulfate kinase; Provisional

Probab=96.77  E-value=0.0027  Score=50.19  Aligned_cols=29  Identities=17%  Similarity=0.279  Sum_probs=25.4

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          113 PDISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       113 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ++..+++|+|++|+||||||+.+...+..
T Consensus        22 ~~~~~i~i~G~~GsGKSTla~~l~~~l~~   50 (198)
T PRK03846         22 HKGVVLWFTGLSGSGKSTVAGALEEALHE   50 (198)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            45689999999999999999999998753

>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants

Probab=96.77  E-value=0.0014  Score=49.34  Aligned_cols=23  Identities=30%  Similarity=0.453  Sum_probs=21.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhc
Q 037337          118 LGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       118 v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      |.|+|++|+||||+|+.++..+.
T Consensus         2 i~l~G~~GsGKstla~~la~~l~   24 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKALG   24 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHhC
Confidence            68999999999999999998874

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.

>PRK13230 nitrogenase reductase-like protein; Reviewed

Probab=96.76  E-value=0.003  Score=52.71  Aligned_cols=39  Identities=21%  Similarity=0.233  Sum_probs=29.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCC
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQS  156 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~  156 (247)
                      .+++|+|-||+||||++..++..+...+ + .+.-|++...
T Consensus         2 ~~i~~~gKGGVGKTT~a~nLA~~La~~G-~-rVLliD~Dpq   40 (279)
T PRK13230          2 RKFCFYGKGGIGKSTTVCNIAAALAESG-K-KVLVVGCDPK   40 (279)
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHHhCC-C-EEEEEeeCCc
Confidence            4688889999999999999999887542 2 3555555444

>PRK13975 thymidylate kinase; Provisional

Probab=96.76  E-value=0.0015  Score=51.42  Aligned_cols=26  Identities=31%  Similarity=0.396  Sum_probs=23.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ..|+|.|+.|+||||+++.+++.+..
T Consensus         3 ~~I~ieG~~GsGKtT~~~~L~~~l~~   28 (196)
T PRK13975          3 KFIVFEGIDGSGKTTQAKLLAEKLNA   28 (196)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            57999999999999999999998864

>PRK00300 gmk guanylate kinase; Provisional

Probab=96.75  E-value=0.0014  Score=51.92  Aligned_cols=26  Identities=23%  Similarity=0.358  Sum_probs=23.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ..+++|+|++|+|||||++.++....
T Consensus         5 g~~i~i~G~sGsGKstl~~~l~~~~~   30 (205)
T PRK00300          5 GLLIVLSGPSGAGKSTLVKALLERDP   30 (205)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhCc
Confidence            47899999999999999999998753

>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=96.75  E-value=0.0014  Score=46.89  Aligned_cols=23  Identities=26%  Similarity=0.393  Sum_probs=20.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhc
Q 037337          118 LGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       118 v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      |.|+|..|+|||||.+.++....
T Consensus         2 I~V~G~~g~GKTsLi~~l~~~~~   24 (119)
T PF08477_consen    2 IVVLGDSGVGKTSLIRRLCGGEF   24 (119)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS-
T ss_pred             EEEECcCCCCHHHHHHHHhcCCC
Confidence            78999999999999999997654

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.

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=96.75  E-value=0.0025  Score=49.25  Aligned_cols=29  Identities=31%  Similarity=0.374  Sum_probs=25.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      ...+++|+|+.|+|||||+..+...+...
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~~l~~~   33 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIPALCAR   33 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHHHHhhc
Confidence            45789999999999999999999988754

>PRK12678 transcription termination factor Rho; Provisional

Probab=96.75  E-value=0.0081  Score=54.54  Aligned_cols=90  Identities=17%  Similarity=0.148  Sum_probs=50.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEE-EEEEeCCCCC-HHHHHHHHHHHhCCCCCCCCh------HHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLV-VFSEMSQSPD-IRKVQGEIADKLGLTFREESE------SGRARSL  186 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~-~wv~~~~~~~-~~~l~~~i~~~l~~~~~~~~~------~~~~~~l  186 (247)
                      -....|+|++|+|||||++.+++..... +-++. +++-+..... +.++...+-..+-......+.      ....-.+
T Consensus       416 GQR~LIvgpp~aGKTtLL~~IAn~i~~n-~~~~~~ivvLIgERpeEVtdm~rsVkgeVVasT~D~p~~~~~~~a~~ai~~  494 (672)
T PRK12678        416 GQRGLIVSPPKAGKTTILQNIANAITTN-NPECHLMVVLVDERPEEVTDMQRSVKGEVIASTFDRPPSDHTTVAELAIER  494 (672)
T ss_pred             CCEeEEeCCCCCCHHHHHHHHHHHHhhc-CCCeEEEEEEEeCchhhHHHHHHhccceEEEECCCCCHHHHHHHHHHHHHH
Confidence            4677899999999999999999876542 23333 3455554432 222222220111111111111      1223344


Q ss_pred             HHHH-cCCCcEEEEEeCCCC
Q 037337          187 FSRL-NREKRILVILDNIWE  205 (247)
Q Consensus       187 ~~~l-~~~kr~LlvlDdv~~  205 (247)
                      .+++ ..++.+||++|++..
T Consensus       495 Ae~fre~G~dVlillDSlTR  514 (672)
T PRK12678        495 AKRLVELGKDVVVLLDSITR  514 (672)
T ss_pred             HHHHHHcCCCEEEEEeCchH
Confidence            5555 456789999999864

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=96.75  E-value=0.0022  Score=50.05  Aligned_cols=35  Identities=26%  Similarity=0.356  Sum_probs=27.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEE
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFS  151 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv  151 (247)
                      .++++|+|++|+|||||+..+.......  |...+..
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~~~~~~--~~~~v~~   36 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQEFPDK--FGRVVSH   36 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHHHSTTT--EEEEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcccc--cccceee
Confidence            4789999999999999999999987654  5433333

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 ....

>TIGR03263 guanyl_kin guanylate kinase

Probab=96.75  E-value=0.0012  Score=51.16  Aligned_cols=24  Identities=29%  Similarity=0.508  Sum_probs=21.7

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      .+++|+|++|+|||||++.++...
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~~~   25 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLEED   25 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHccC
Confidence            578999999999999999999854

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.

>PRK05973 replicative DNA helicase; Provisional

Probab=96.73  E-value=0.0035  Score=50.95  Aligned_cols=112  Identities=21%  Similarity=0.146  Sum_probs=60.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCC------------CCChHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFR------------EESESGR  182 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~------------~~~~~~~  182 (247)
                      ...+.|.|.+|+|||+|+.+++......  -..++|++....  ..++...+ .+++.+..            .......
T Consensus        64 Gsl~LIaG~PG~GKT~lalqfa~~~a~~--Ge~vlyfSlEes--~~~i~~R~-~s~g~d~~~~~~~~~~d~~d~~~~~~i  138 (237)
T PRK05973         64 GDLVLLGARPGHGKTLLGLELAVEAMKS--GRTGVFFTLEYT--EQDVRDRL-RALGADRAQFADLFEFDTSDAICADYI  138 (237)
T ss_pred             CCEEEEEeCCCCCHHHHHHHHHHHHHhc--CCeEEEEEEeCC--HHHHHHHH-HHcCCChHHhccceEeecCCCCCHHHH
Confidence            3789999999999999999998776433  245677765554  34444443 22232211            1122222


Q ss_pred             HHHHHHHHcCCCcEEEEEeCCCCcc------chhhhcccC--CCCCCCeEEEEeeCchhh
Q 037337          183 ARSLFSRLNREKRILVILDNIWEHL------DLQVVGIPH--GDDHKGCKVLFTARSLDV  234 (247)
Q Consensus       183 ~~~l~~~l~~~kr~LlvlDdv~~~~------~~~~l~~~~--~~~~~~s~iiiTtR~~~v  234 (247)
                      ...+..   ..+.-++|+|.+....      .+..+...+  .....|..||+|+....-
T Consensus       139 i~~l~~---~~~~~lVVIDsLq~l~~~~~~~el~~~~~~Lk~~Ak~~gitvIl~sQl~r~  195 (237)
T PRK05973        139 IARLAS---APRGTLVVIDYLQLLDQRREKPDLSVQVRALKSFARERGLIIVFISQIDRS  195 (237)
T ss_pred             HHHHHH---hhCCCEEEEEcHHHHhhcccchhHHHHHHHHHHHHHhCCCeEEEEecCccc
Confidence            232222   2234689999986431      111110101  013567888888765443

>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=96.73  E-value=0.021  Score=49.91  Aligned_cols=58  Identities=19%  Similarity=0.314  Sum_probs=39.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC-CCCHHHHHHHHHHHhCCC
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQ-SPDIRKVQGEIADKLGLT  173 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~-~~~~~~l~~~i~~~l~~~  173 (247)
                      .+.+|..+|.-|.||||.|-++++.++.+. + .+..|++.. .+...+-++.++.+.+.+
T Consensus        99 ~P~vImmvGLQGsGKTTt~~KLA~~lkk~~-~-kvllVaaD~~RpAA~eQL~~La~q~~v~  157 (451)
T COG0541          99 PPTVILMVGLQGSGKTTTAGKLAKYLKKKG-K-KVLLVAADTYRPAAIEQLKQLAEQVGVP  157 (451)
T ss_pred             CCeEEEEEeccCCChHhHHHHHHHHHHHcC-C-ceEEEecccCChHHHHHHHHHHHHcCCc
Confidence            468899999999999999999999988743 2 233333322 123344466777777644

>cd02117 NifH_like This family contains the NifH (iron protein) of nitrogenase, L subunit (BchL/ChlL) of the protochlorophyllide reductase and the BchX subunit of the Chlorophyllide reductase

Probab=96.73  E-value=0.0033  Score=50.27  Aligned_cols=27  Identities=26%  Similarity=0.493  Sum_probs=23.7

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      ++|+|.|-||+||||++..++..+...
T Consensus         1 ~~iav~gKGGvGKTt~~~nLA~~la~~   27 (212)
T cd02117           1 RQIAIYGKGGIGKSTTSQNLSAALAEM   27 (212)
T ss_pred             CEEEEECCCcCcHHHHHHHHHHHHHHC
Confidence            468899999999999999999988754

Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.

>PRK08972 fliI flagellum-specific ATP synthase; Validated

Probab=96.73  E-value=0.012  Score=52.01  Aligned_cols=88  Identities=17%  Similarity=0.295  Sum_probs=53.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCC-CHHHHHHHHHHHhCCC-------CCCCChH------
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSP-DIRKVQGEIADKLGLT-------FREESES------  180 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~l~~~i~~~l~~~-------~~~~~~~------  180 (247)
                      -..++|.|..|+|||||+..++....    .+.+++.-++... .+.++...++..-+..       ..+.+..      
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 GQRMGLFAGSGVGKSVLLGMMTRGTT----ADVIVVGLVGERGREVKEFIEEILGEEGRARSVVVAAPADTSPLMRLKGC  237 (444)
T ss_pred             CCEEEEECCCCCChhHHHHHhccCCC----CCEEEEEEEcCChHHHHHHHHHhhccCCcccEEEEEECCCCCHHHHHHHH
Confidence            46899999999999999999986432    3456666666544 3455555554432211       1112221      


Q ss_pred             HHHHHHHHHH-cCCCcEEEEEeCCCCc
Q 037337          181 GRARSLFSRL-NREKRILVILDNIWEH  206 (247)
Q Consensus       181 ~~~~~l~~~l-~~~kr~LlvlDdv~~~  206 (247)
                      ...-.+.+++ ..++++||++||+...
T Consensus       238 ~~A~tiAEyfrd~G~~VLl~~DslTR~  264 (444)
T PRK08972        238 ETATTIAEYFRDQGLNVLLLMDSLTRY  264 (444)
T ss_pred             HHHHHHHHHHHHcCCCEEEEEcChHHH
Confidence            1223455666 3457899999998643

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

Probab=96.73  E-value=0.037  Score=45.05  Aligned_cols=101  Identities=18%  Similarity=0.228  Sum_probs=60.7

Q ss_pred             HHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChH
Q 037337          101 STLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESES  180 (247)
Q Consensus       101 ~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~  180 (247)
                      +.+..+...+ .++..++.++|.-|+|||.+++..........  -+++++ -....+...+...++..+..+ +.....
T Consensus        38 e~l~~l~~~i-~d~qg~~~vtGevGsGKTv~~Ral~~s~~~d~--~~~v~i-~~~~~s~~~~~~ai~~~l~~~-p~~~~~  112 (269)
T COG3267          38 EALLMLHAAI-ADGQGILAVTGEVGSGKTVLRRALLASLNEDQ--VAVVVI-DKPTLSDATLLEAIVADLESQ-PKVNVN  112 (269)
T ss_pred             HHHHHHHHHH-hcCCceEEEEecCCCchhHHHHHHHHhcCCCc--eEEEEe-cCcchhHHHHHHHHHHHhccC-ccchhH
Confidence            3444444433 34457999999999999999995554444321  122222 234456677888888888763 222222


Q ss_pred             ----HHHHHHHHHHcCCCc-EEEEEeCCCCc
Q 037337          181 ----GRARSLFSRLNREKR-ILVILDNIWEH  206 (247)
Q Consensus       181 ----~~~~~l~~~l~~~kr-~LlvlDdv~~~  206 (247)
                          .....+.+....++| ..+++|+....
T Consensus       113 ~~~e~~~~~L~al~~~g~r~v~l~vdEah~L  143 (269)
T COG3267         113 AVLEQIDRELAALVKKGKRPVVLMVDEAHDL  143 (269)
T ss_pred             HHHHHHHHHHHHHHHhCCCCeEEeehhHhhh
Confidence                222344444455566 89999998765

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=96.73  E-value=0.0014  Score=50.08  Aligned_cols=20  Identities=35%  Similarity=0.597  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q 037337          117 MLGICGMGGIGKTMLEKEVA  136 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~  136 (247)
                      .|.|+|.||+||||++..+.
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            58899999999999999997

>PRK08927 fliI flagellum-specific ATP synthase; Validated

Probab=96.73  E-value=0.018  Score=50.92  Aligned_cols=89  Identities=19%  Similarity=0.302  Sum_probs=54.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCC-CHHHHHHHHHHHhCCC-------CCCCChH-----
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSP-DIRKVQGEIADKLGLT-------FREESES-----  180 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~l~~~i~~~l~~~-------~~~~~~~-----  180 (247)
                      +...++|.|..|+|||||+..+++....    +.+++.-++... .+.++....+..-+..       ..+.+..     
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 RGQRMGIFAGSGVGKSVLLSMLARNADA----DVSVIGLIGERGREVQEFLQDDLGPEGLARSVVVVATSDEPALMRRQA  232 (442)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhccCC----CEEEEEEEecCcHHHHHHHHHHhhccCceeEEEEEECCCCCHHHHHHH
Confidence            3578899999999999999999876543    455566665543 3445554444332211       1112221     


Q ss_pred             -HHHHHHHHHH-cCCCcEEEEEeCCCCc
Q 037337          181 -GRARSLFSRL-NREKRILVILDNIWEH  206 (247)
Q Consensus       181 -~~~~~l~~~l-~~~kr~LlvlDdv~~~  206 (247)
                       ...-.+.+++ ..++++||++||+...
T Consensus       233 ~~~a~tiAEyfrd~G~~Vll~~DslTr~  260 (442)
T PRK08927        233 AYLTLAIAEYFRDQGKDVLCLMDSVTRF  260 (442)
T ss_pred             HHHHHHHHHHHHHCCCcEEEEEeCcHHH
Confidence             1223455666 3467899999998643

>TIGR01967 DEAH_box_HrpA ATP-dependent helicase HrpA

Probab=96.72  E-value=0.033  Score=55.46  Aligned_cols=68  Identities=24%  Similarity=0.247  Sum_probs=44.3

Q ss_pred             hHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCC--CHHHHHHHHHHHhCCC
Q 037337          100 MSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSP--DIRKVQGEIADKLGLT  173 (247)
Q Consensus       100 ~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~--~~~~l~~~i~~~l~~~  173 (247)
                      ....++|.+.+.++  .++.|+|..|+||||.+=.++.+....  ..+.+.  +.++-  ....+...++..++..
T Consensus        69 ~~~~~~Il~~l~~~--~vvii~g~TGSGKTTqlPq~lle~~~~--~~~~I~--~tQPRRlAA~svA~RvA~elg~~  138 (1283)
T TIGR01967        69 SAKREDIAEAIAEN--QVVIIAGETGSGKTTQLPKICLELGRG--SHGLIG--HTQPRRLAARTVAQRIAEELGTP  138 (1283)
T ss_pred             HHHHHHHHHHHHhC--ceEEEeCCCCCCcHHHHHHHHHHcCCC--CCceEe--cCCccHHHHHHHHHHHHHHhCCC
Confidence            45556677777655  699999999999999887777654321  233333  34333  3456667777777543

This model represents HrpA, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria and a few high-GC Gram-positive bacteria. HrpA is about 1300 amino acids long, while its paralog HrpB, also uncharacterized, is about 800 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=96.72  E-value=0.013  Score=55.17  Aligned_cols=27  Identities=30%  Similarity=0.256  Sum_probs=23.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      -..|+|+|..|+|||||++.+..-+..
T Consensus       499 Ge~vaIvG~SGsGKSTL~KLL~gly~p  525 (709)
T COG2274         499 GEKVAIVGRSGSGKSTLLKLLLGLYKP  525 (709)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            478999999999999999999776553

>cd03284 ABC_MutS1 MutS1 homolog in eukaryotes

Probab=96.71  E-value=0.0027  Score=50.99  Aligned_cols=22  Identities=32%  Similarity=0.335  Sum_probs=20.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVAR  137 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~  137 (247)
                      .+++|.|+.|.||||+.+.++.
T Consensus        31 ~~~~l~Gpn~sGKstllr~i~~   52 (216)
T cd03284          31 QILLITGPNMAGKSTYLRQVAL   52 (216)
T ss_pred             eEEEEECCCCCChHHHHHHHHH
Confidence            7899999999999999999864

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

>TIGR01039 atpD ATP synthase, F1 beta subunit

Probab=96.71  E-value=0.019  Score=50.96  Aligned_cols=91  Identities=18%  Similarity=0.293  Sum_probs=59.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCC-CHHHHHHHHHHHhCCC-------CCCCChH------
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSP-DIRKVQGEIADKLGLT-------FREESES------  180 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~l~~~i~~~l~~~-------~~~~~~~------  180 (247)
                      -..++|.|.+|+|||+|+.+++.....+. -..++++-++... .+.+++..+...-...       ..+.+..      
T Consensus       143 GQr~~If~~~G~GKt~L~~~~~~~~~~~~-~~v~V~alIGER~rEv~ef~~~~~~~~~l~rtvvV~atsd~p~~~R~~a~  221 (461)
T TIGR01039       143 GGKIGLFGGAGVGKTVLIQELINNIAKEH-GGYSVFAGVGERTREGNDLYHEMKESGVIDKTALVYGQMNEPPGARMRVA  221 (461)
T ss_pred             CCEEEeecCCCCChHHHHHHHHHHHHhcC-CCeEEEEEecCCchHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHHH
Confidence            46789999999999999999988765432 3467787776554 4566666665432111       1112221      


Q ss_pred             HHHHHHHHHHc--CCCcEEEEEeCCCCc
Q 037337          181 GRARSLFSRLN--REKRILVILDNIWEH  206 (247)
Q Consensus       181 ~~~~~l~~~l~--~~kr~LlvlDdv~~~  206 (247)
                      ...-.+.+++.  .++++||++|++...
T Consensus       222 ~~a~tiAEyfrd~~G~~VLll~DslTR~  249 (461)
T TIGR01039       222 LTGLTMAEYFRDEQGQDVLLFIDNIFRF  249 (461)
T ss_pred             HHHHHHHHHHHHhcCCeeEEEecchhHH
Confidence            12345667773  357899999998654

The sequences of ATP synthase F1 alpha and beta subunits are related and both contain a nucleotide-binding site for ATP and ADP. They have a common amino terminal domain but vary at the C-terminus. The beta chain has catalytic activity, while the alpha chain is a regulatory subunit. Proton translocating ATP synthase, F1 beta subunit is homologous to proton translocating ATP synthase archaeal/vacuolar(V1), A subunit.

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=96.71  E-value=0.0098  Score=54.30  Aligned_cols=28  Identities=21%  Similarity=0.156  Sum_probs=23.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      +...++|+|+.|+|||||++.+..-+..
T Consensus       360 ~G~~vaIvG~SGsGKSTLl~lL~g~~~p  387 (529)
T TIGR02868       360 PGERVAILGPSGSGKSTLLMLLTGLLDP  387 (529)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            4578999999999999999999876543

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.

>PRK06002 fliI flagellum-specific ATP synthase; Validated

Probab=96.71  E-value=0.012  Score=52.05  Aligned_cols=89  Identities=19%  Similarity=0.246  Sum_probs=50.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHh-----CC-CCCCCChH------HH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKL-----GL-TFREESES------GR  182 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l-----~~-~~~~~~~~------~~  182 (247)
                      -..++|+|++|+|||||++.++.....   ..++++..-....++.++....+...     .. ...+.+..      ..
T Consensus       165 Gqri~I~G~SGsGKTTLL~~Ia~l~~p---d~gvv~liGergrev~e~~~~~l~~~r~rtI~vV~qsd~~~~~r~~~~~~  241 (450)
T PRK06002        165 GQRIGIFAGSGVGKSTLLAMLARADAF---DTVVIALVGERGREVREFLEDTLADNLKKAVAVVATSDESPMMRRLAPLT  241 (450)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCCC---CeeeeeecccCCccHHHHhHHHHHHhhCCeEEEEEcCCCCHHHHHHHHHH
Confidence            367999999999999999988764432   22344443223344554444333322     10 11112221      12


Q ss_pred             HHHHHHHH-cCCCcEEEEEeCCCCc
Q 037337          183 ARSLFSRL-NREKRILVILDNIWEH  206 (247)
Q Consensus       183 ~~~l~~~l-~~~kr~LlvlDdv~~~  206 (247)
                      .-.+.+++ ..++.+|+++||+...
T Consensus       242 a~~iAEyfrd~G~~Vll~~DslTr~  266 (450)
T PRK06002        242 ATAIAEYFRDRGENVLLIVDSVTRF  266 (450)
T ss_pred             HHHHHHHHHHcCCCEEEeccchHHH
Confidence            23455555 3457899999998643

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=96.70  E-value=0.0018  Score=51.28  Aligned_cols=25  Identities=32%  Similarity=0.462  Sum_probs=22.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ..++.|.|.+|+||||+|..++.+.
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~~~   27 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIARHR   27 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999999999875

>TIGR00665 DnaB replicative DNA helicase

Probab=96.70  E-value=0.27  Score=43.82  Aligned_cols=40  Identities=18%  Similarity=0.227  Sum_probs=29.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQ  155 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~  155 (247)
                      ...++|.|.+|+|||+++.+++........ ..+.|++...
T Consensus       195 G~l~vi~g~pg~GKT~~~l~~a~~~a~~~g-~~vl~~SlEm  234 (434)
T TIGR00665       195 SDLIILAARPSMGKTAFALNIAENAAIKEG-KPVAFFSLEM  234 (434)
T ss_pred             CeEEEEEeCCCCChHHHHHHHHHHHHHhCC-CeEEEEeCcC
Confidence            368999999999999999999887543211 3466765543

This model describes the helicase DnaB, a homohexameric protein required for DNA replication. The homohexamer can form a ring around a single strand of DNA near a replication fork. An intein of 400 residues is found at a conserved location in DnaB of Synechocystis PCC6803, Rhodothermus marinus (both experimentally confirmed), and Mycobacterium tuberculosis. The intein removes itself by a self-splicing reaction. The seed alignment contains inteins so that the model built from the seed alignment will model a low cost at common intein insertion sites.

>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11

Probab=96.69  E-value=0.0026  Score=54.00  Aligned_cols=111  Identities=14%  Similarity=0.060  Sum_probs=56.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHh-CCCCCCCChHHHHHHHHHHHcCC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKL-GLTFREESESGRARSLFSRLNRE  193 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l-~~~~~~~~~~~~~~~l~~~l~~~  193 (247)
                      ...+.|.|+.|+|||||++.+.......   ..++.+.-........  ....... .............+.+...|+. 
T Consensus       144 ~~~ili~G~tGsGKTTll~al~~~~~~~---~~iv~ied~~El~~~~--~~~~~l~~~~~~~~~~~~~~~~~l~~~Lr~-  217 (308)
T TIGR02788       144 RKNIIISGGTGSGKTTFLKSLVDEIPKD---ERIITIEDTREIFLPH--PNYVHLFYSKGGQGLAKVTPKDLLQSCLRM-  217 (308)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHccCCcc---ccEEEEcCccccCCCC--CCEEEEEecCCCCCcCccCHHHHHHHHhcC-
Confidence            3789999999999999999998765432   1233331111111100  0000000 0000011112223344445554 


Q ss_pred             CcEEEEEeCCCCccchhhhcccCCCCCCCe-EEEEeeCchhhh
Q 037337          194 KRILVILDNIWEHLDLQVVGIPHGDDHKGC-KVLFTARSLDVL  235 (247)
Q Consensus       194 kr~LlvlDdv~~~~~~~~l~~~~~~~~~~s-~iiiTtR~~~va  235 (247)
                      ..=.+++|++...+.+..+ ....   .|. -++.|+...+++
T Consensus       218 ~pd~ii~gE~r~~e~~~~l-~a~~---~g~~~~i~T~Ha~~~~  256 (308)
T TIGR02788       218 RPDRIILGELRGDEAFDFI-RAVN---TGHPGSITTLHAGSPE  256 (308)
T ss_pred             CCCeEEEeccCCHHHHHHH-HHHh---cCCCeEEEEEeCCCHH
Confidence            4577899999987655443 3222   222 257777776654

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.

>PRK14737 gmk guanylate kinase; Provisional

Probab=96.68  E-value=0.0017  Score=50.90  Aligned_cols=26  Identities=15%  Similarity=0.267  Sum_probs=23.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      +..+++|+|++|+|||||++.+....
T Consensus         3 ~~~~ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          3 SPKLFIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhcC
Confidence            35789999999999999999998764

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=96.68  E-value=0.0022  Score=51.08  Aligned_cols=32  Identities=25%  Similarity=0.334  Sum_probs=27.5

Q ss_pred             HhcCCCccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          109 ALRNPDISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       109 ~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .+.+++.++++++|+.|+|||||..++.+...
T Consensus        16 ~~~~~~~~~i~~~G~~gsGKTTli~~l~~~~~   47 (207)
T TIGR00073        16 RLDKHGLVVLNFMSSPGSGKTTLIEKLIDNLK   47 (207)
T ss_pred             HhhhcCcEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            34466789999999999999999999998754

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=96.66  E-value=0.0019  Score=51.24  Aligned_cols=34  Identities=18%  Similarity=0.137  Sum_probs=26.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEE
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFS  151 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv  151 (247)
                      -.+++|.|++|+|||||.+.+..-...+   .+.+|+
T Consensus        28 Gevv~iiGpSGSGKSTlLRclN~LE~~~---~G~I~i   61 (240)
T COG1126          28 GEVVVIIGPSGSGKSTLLRCLNGLEEPD---SGSITV   61 (240)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCcCCC---CceEEE
Confidence            4799999999999999999986654433   345555

>PRK14532 adenylate kinase; Provisional

Probab=96.66  E-value=0.0016  Score=50.93  Aligned_cols=23  Identities=22%  Similarity=0.229  Sum_probs=20.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhc
Q 037337          118 LGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       118 v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      |.+.|++|+||||+|+.++..+.
T Consensus         3 i~~~G~pGsGKsT~a~~la~~~g   25 (188)
T PRK14532          3 LILFGPPAAGKGTQAKRLVEERG   25 (188)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcC
Confidence            77899999999999999997653

>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis

Probab=96.65  E-value=0.0035  Score=47.74  Aligned_cols=36  Identities=19%  Similarity=0.350  Sum_probs=29.3

Q ss_pred             HHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          101 STLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       101 ~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      +.++.|.+++.+   +++++.|.+|+|||||+..+....
T Consensus        24 ~g~~~l~~~l~~---k~~vl~G~SGvGKSSLiN~L~~~~   59 (161)
T PF03193_consen   24 EGIEELKELLKG---KTSVLLGQSGVGKSSLINALLPEA   59 (161)
T ss_dssp             TTHHHHHHHHTT---SEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             cCHHHHHHHhcC---CEEEEECCCCCCHHHHHHHHHhhc
Confidence            456677777754   689999999999999999998753

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.

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=96.65  E-value=0.016  Score=52.64  Aligned_cols=88  Identities=17%  Similarity=0.180  Sum_probs=53.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCC------------------
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFR------------------  175 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~------------------  175 (247)
                      ..+++.|.|.+|+|||+|+.+++.....+ +-..++|++....  ..++...+. .++.+..                  
T Consensus        30 ~Gs~~li~G~pGsGKT~l~~qf~~~~~~~-~ge~~lyis~ee~--~~~i~~~~~-~~g~d~~~~~~~g~l~~~~~~~~~~  105 (509)
T PRK09302         30 KGRPTLVSGTAGTGKTLFALQFLVNGIKR-FDEPGVFVTFEES--PEDIIRNVA-SFGWDLQKLIDEGKLFILDASPDPS  105 (509)
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHHh-cCCCEEEEEccCC--HHHHHHHHH-HcCCCHHHHhhCCeEEEEecCcccc
Confidence            35899999999999999999998654432 1245788876653  444444432 2332100                  


Q ss_pred             ------CCChHHHHHHHHHHHcCCCcEEEEEeCCCC
Q 037337          176 ------EESESGRARSLFSRLNREKRILVILDNIWE  205 (247)
Q Consensus       176 ------~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~  205 (247)
                            ..+.......+.+.+...+.-.+|+|.+..
T Consensus       106 ~~~~~~~~~~~~l~~~l~~~i~~~~~~~vVIDSls~  141 (509)
T PRK09302        106 EQEEAGEYDLEALFIRIEYAIDKIGAKRVVLDSIEA  141 (509)
T ss_pred             cccccccccHHHHHHHHHHHHHhhCCCEEEECCHHH
Confidence                  012234455566666444456799999864

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=96.65  E-value=0.0054  Score=57.31  Aligned_cols=63  Identities=13%  Similarity=0.285  Sum_probs=42.4

Q ss_pred             CcccccchHHHHHHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCC
Q 037337           93 YEAFESRMSTLNDILGALRN--PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSP  157 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L~~--~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~  157 (247)
                      ...++|....+.++.+....  .....|.|+|..|+||+++|+.+.+.-...  -...+.++|...+
T Consensus       324 ~~~l~g~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~~A~~ih~~s~r~--~~pfv~vnc~~~~  388 (638)
T PRK11388        324 FDHMPQDSPQMRRLIHFGRQAAKSSFPVLLCGEEGVGKALLAQAIHNESERA--AGPYIAVNCQLYP  388 (638)
T ss_pred             ccceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCcCHHHHHHHHHHhCCcc--CCCeEEEECCCCC
Confidence            35678888877777665541  223558899999999999999997754321  1223556666554

>PRK05922 type III secretion system ATPase; Validated

Probab=96.64  E-value=0.02  Score=50.65  Aligned_cols=88  Identities=18%  Similarity=0.292  Sum_probs=52.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC-CCCHHHHHHHHHHHhCCCC-------CCCChH------
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQ-SPDIRKVQGEIADKLGLTF-------REESES------  180 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~-~~~~~~l~~~i~~~l~~~~-------~~~~~~------  180 (247)
                      -..++|.|..|+|||||.+.++....    .+...+..++. .....+.+.+.........       .+.+..      
T Consensus       157 GqrigI~G~nG~GKSTLL~~Ia~~~~----~d~gvi~liGerg~ev~eyl~q~~~~~~~~rTVlv~atsd~~~~~r~~a~  232 (434)
T PRK05922        157 GQRIGVFSEPGSGKSSLLSTIAKGSK----STINVIALIGERGREVREYIEQHKEGLAAQRTIIIASPAHETAPTKVIAG  232 (434)
T ss_pred             CcEEEEECCCCCChHHHHHHHhccCC----CCceEEEEeCCCCchHHHHHHHHHhhccccceEEEEECCCCCHHHHHHHH
Confidence            46789999999999999999986543    23334433433 2344555555544432221       111111      


Q ss_pred             HHHHHHHHHH-cCCCcEEEEEeCCCCc
Q 037337          181 GRARSLFSRL-NREKRILVILDNIWEH  206 (247)
Q Consensus       181 ~~~~~l~~~l-~~~kr~LlvlDdv~~~  206 (247)
                      ...-.+.+++ ..++++||++|++...
T Consensus       233 ~~a~tiAEyfrd~G~~VLl~~DslTR~  259 (434)
T PRK05922        233 RAAMTIAEYFRDQGHRVLFIMDSLSRW  259 (434)
T ss_pred             HHHHHHHHHHHHcCCCEEEeccchhHH
Confidence            1233455666 3467899999998654

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=96.64  E-value=0.0016  Score=49.76  Aligned_cols=21  Identities=33%  Similarity=0.395  Sum_probs=17.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 037337          118 LGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       118 v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      |+|+|.+|+|||||+..+...
T Consensus         2 I~i~G~~stGKTTL~~~L~~~   22 (163)
T PF13521_consen    2 IVITGGPSTGKTTLIEALAAR   22 (163)
T ss_dssp             EEEE--TTSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHc
Confidence            789999999999999999977

>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP)

Probab=96.64  E-value=0.0018  Score=50.80  Aligned_cols=23  Identities=26%  Similarity=0.320  Sum_probs=20.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhc
Q 037337          118 LGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       118 v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      |.|.|++|+||||+|+.++..+.
T Consensus         2 I~i~G~pGsGKst~a~~La~~~~   24 (194)
T cd01428           2 ILLLGPPGSGKGTQAERLAKKYG   24 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcC
Confidence            78999999999999999998753

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>cd03280 ABC_MutS2 MutS2 homologs in bacteria and eukaryotes

Probab=96.63  E-value=0.0023  Score=50.72  Aligned_cols=22  Identities=32%  Similarity=0.294  Sum_probs=20.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVA  136 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~  136 (247)
                      .++++|+|+.|.|||||.+.+.
T Consensus        28 ~~~~~ltG~Ng~GKStll~~i~   49 (200)
T cd03280          28 KRVLVITGPNAGGKTVTLKTLG   49 (200)
T ss_pred             ceEEEEECCCCCChHHHHHHHH
Confidence            3689999999999999999988

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 also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, a

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=96.63  E-value=0.0016  Score=48.37  Aligned_cols=24  Identities=25%  Similarity=0.492  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .++|+|++|+|||||++.++....
T Consensus         1 ~i~i~GpsGsGKstl~~~L~~~~~   24 (137)
T cd00071           1 LIVLSGPSGVGKSTLLKRLLEEFD   24 (137)
T ss_pred             CEEEECCCCCCHHHHHHHHHhcCC
Confidence            368999999999999999998653

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.

>PRK00698 tmk thymidylate kinase; Validated

Probab=96.63  E-value=0.0074  Score=47.68  Aligned_cols=27  Identities=19%  Similarity=0.302  Sum_probs=24.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      .+|+|.|+.|+||||+++.+.+.+...
T Consensus         4 ~~I~ieG~~gsGKsT~~~~L~~~l~~~   30 (205)
T PRK00698          4 MFITIEGIDGAGKSTQIELLKELLEQQ   30 (205)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            689999999999999999999987654

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.62  E-value=0.02  Score=47.50  Aligned_cols=39  Identities=23%  Similarity=0.363  Sum_probs=29.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeC
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMS  154 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~  154 (247)
                      +...++++|++|+||||++..++.....+.  ..+.++++.
T Consensus        74 ~~~~i~~~G~~g~GKTtl~~~l~~~l~~~~--~~v~~i~~D  112 (270)
T PRK06731         74 EVQTIALIGPTGVGKTTTLAKMAWQFHGKK--KTVGFITTD  112 (270)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHHHHcC--CeEEEEecC
Confidence            347999999999999999999988765431  235555554

>cd01132 F1_ATPase_alpha F1 ATP synthase alpha, central domain

Probab=96.62  E-value=0.016  Score=48.04  Aligned_cols=88  Identities=13%  Similarity=0.166  Sum_probs=51.4

Q ss_pred             ccEEEEEcCCCCcHHHHH-HHHHHHhcccCCCCEE-EEEEeCCCC-CHHHHHHHHHHHhCC-------CCCCCChHH---
Q 037337          115 ISMLGICGMGGIGKTMLE-KEVARKAKNHKLFDLV-VFSEMSQSP-DIRKVQGEIADKLGL-------TFREESESG---  181 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa-~~~~~~~~~~~~f~~~-~wv~~~~~~-~~~~l~~~i~~~l~~-------~~~~~~~~~---  181 (247)
                      -..+.|.|.+|+|||+|| ..+.+...    -+.+ +++-+.... ...++...+...-..       +..+.+...   
T Consensus        69 GQr~~Ifg~~g~GKt~L~l~~i~~~~~----~~v~~V~~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~  144 (274)
T cd01132          69 GQRELIIGDRQTGKTAIAIDTIINQKG----KKVYCIYVAIGQKASTVAQVVKTLEEHGAMEYTIVVAATASDPAPLQYL  144 (274)
T ss_pred             CCEEEeeCCCCCCccHHHHHHHHHhcC----CCeEEEEEecccchHHHHHHHHHHHhcCccceeEEEEeCCCCchhHHHH
Confidence            467899999999999996 55554322    2343 667666654 455666655533211       111122211   


Q ss_pred             ---HHHHHHHHHc-CCCcEEEEEeCCCCc
Q 037337          182 ---RARSLFSRLN-REKRILVILDNIWEH  206 (247)
Q Consensus       182 ---~~~~l~~~l~-~~kr~LlvlDdv~~~  206 (247)
                         ..-.+.+++. .++.+||++||+...
T Consensus       145 a~~~a~aiAE~fr~~G~~Vlvl~DslTr~  173 (274)
T cd01132         145 APYTGCAMGEYFMDNGKHALIIYDDLSKQ  173 (274)
T ss_pred             HHHHHHHHHHHHHHCCCCEEEEEcChHHH
Confidence               1234455552 357899999998754

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.

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=96.62  E-value=0.0017  Score=50.76  Aligned_cols=25  Identities=20%  Similarity=0.389  Sum_probs=21.7

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ..++|.|++|+|||||++.++....
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~~~~   27 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQREQ   27 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhccCC
Confidence            4789999999999999999977543

>PRK08149 ATP synthase SpaL; Validated

Probab=96.61  E-value=0.018  Score=50.86  Aligned_cols=88  Identities=16%  Similarity=0.229  Sum_probs=53.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCC-CCHHHHHHHHHHHhCCC-------CCCCCh------H
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQS-PDIRKVQGEIADKLGLT-------FREESE------S  180 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~-~~~~~l~~~i~~~l~~~-------~~~~~~------~  180 (247)
                      -..++|.|.+|+|||||+..++....    .+.+++..+... ..+.++...........       ..+.+.      .
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 GQRMGIFASAGCGKTSLMNMLIEHSE----ADVFVIGLIGERGREVTEFVESLRASSRREKCVLVYATSDFSSVDRCNAA  226 (428)
T ss_pred             CCEEEEECCCCCChhHHHHHHhcCCC----CCeEEEEEEeeCCccHHHHHHHHhhcccccceEEEEECCCCCHHHHHhHH
Confidence            46889999999999999998886443    234444444433 34556666665543211       111222      1


Q ss_pred             HHHHHHHHHH-cCCCcEEEEEeCCCCc
Q 037337          181 GRARSLFSRL-NREKRILVILDNIWEH  206 (247)
Q Consensus       181 ~~~~~l~~~l-~~~kr~LlvlDdv~~~  206 (247)
                      .....+.+++ ..++++||++||+...
T Consensus       227 ~~a~tiAE~fr~~G~~Vll~~DslTr~  253 (428)
T PRK08149        227 LVATTVAEYFRDQGKRVVLFIDSMTRY  253 (428)
T ss_pred             HHHHHHHHHHHHcCCCEEEEccchHHH
Confidence            2233455566 3467899999998654

>PF06414 Zeta_toxin: Zeta toxin; InterPro: IPR010488 This entry represents a domain originally identified in bacterial zeta toxin proteins, where it comprises the whole protein []

Probab=96.61  E-value=0.0025  Score=50.50  Aligned_cols=118  Identities=14%  Similarity=0.106  Sum_probs=51.5

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCC---CChHHHHHHHHHH
Q 037337          113 PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFRE---ESESGRARSLFSR  189 (247)
Q Consensus       113 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~---~~~~~~~~~l~~~  189 (247)
                      +.+.++.+.|.+|+||||++..+.....    ....++++...-...-.-+..+...-......   .........+.+.
T Consensus        13 ~~P~~~i~aG~~GsGKSt~~~~~~~~~~----~~~~v~i~~D~~r~~~p~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~   88 (199)
T PF06414_consen   13 EKPTLIIIAGQPGSGKSTLARQLLEEFG----GGGIVVIDADEFRQFHPDYDELLKADPDEASELTQKEASRLAEKLIEY   88 (199)
T ss_dssp             SS-EEEEEES-TTSTTHHHHHHHHHHT-----TT-SEEE-GGGGGGGSTTHHHHHHHHCCCTHHHHHHHHHHHHHHHHHH
T ss_pred             cCCEEEEEeCCCCCCHHHHHHHhhhhcc----CCCeEEEehHHHHHhccchhhhhhhhhhhhHHHHHHHHHHHHHHHHHH
Confidence            4568888999999999999999988764    23445565433211111112222211100000   0112234445555


Q ss_pred             HcCCCcEEEEEeCCCCc-cchhhhcccCCCCCCCeEEEEeeCchhhh
Q 037337          190 LNREKRILVILDNIWEH-LDLQVVGIPHGDDHKGCKVLFTARSLDVL  235 (247)
Q Consensus       190 l~~~kr~LlvlDdv~~~-~~~~~l~~~~~~~~~~s~iiiTtR~~~va  235 (247)
                      +.. +++=+|+|..-.. .....+...+...+....|++..-+++++
T Consensus        89 a~~-~~~nii~E~tl~~~~~~~~~~~~~k~~GY~v~l~~v~~~~e~s  134 (199)
T PF06414_consen   89 AIE-NRYNIIFEGTLSNPSKLRKLIREAKAAGYKVELYYVAVPPELS  134 (199)
T ss_dssp             HHH-CT--EEEE--TTSSHHHHHHHHHHHCTT-EEEEEEE---HHHH
T ss_pred             HHH-cCCCEEEecCCCChhHHHHHHHHHHcCCceEEEEEEECCHHHH
Confidence            444 3577888886654 22332333333344455555554444443

It has subsequently been found in a number of other proteins, such as polynucleotide kinase and 2',3'-cyclic-nucleotide 3'-phosphodiesterase. It appears to function as a kinase domain [, ].; GO: 0005524 ATP binding, 0016301 kinase activity; PDB: 2P5T_H 1GVN_B 3Q8X_D.

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=96.60  E-value=0.0023  Score=49.46  Aligned_cols=25  Identities=20%  Similarity=0.380  Sum_probs=22.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ..|+|.|+.|+||||+++.++..+.
T Consensus         5 ~~I~liG~~GaGKStl~~~La~~l~   29 (172)
T PRK05057          5 RNIFLVGPMGAGKSTIGRQLAQQLN   29 (172)
T ss_pred             CEEEEECCCCcCHHHHHHHHHHHcC
Confidence            5689999999999999999998764

>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=96.60  E-value=0.008  Score=49.55  Aligned_cols=26  Identities=15%  Similarity=0.383  Sum_probs=22.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      +|+|.|.+|+||||+++.+.+.+...
T Consensus         1 IIgItG~SGSGKTTv~~~l~~~l~~~   26 (277)
T cd02029           1 VIAVTGSSGAGTTTVKRAFEHIFARE   26 (277)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            48999999999999999999887643

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.

>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB

Probab=96.60  E-value=0.0059  Score=52.84  Aligned_cols=100  Identities=14%  Similarity=0.132  Sum_probs=52.0

Q ss_pred             HHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCC-EEEEEEeCCCCCHHHHHH--HHHHHhCCCCCCCChHHH
Q 037337          106 ILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFD-LVVFSEMSQSPDIRKVQG--EIADKLGLTFREESESGR  182 (247)
Q Consensus       106 L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~-~~~wv~~~~~~~~~~l~~--~i~~~l~~~~~~~~~~~~  182 (247)
                      +.+++.. ....|.|+|+.|+||||+++.+++.......-. .++.+.-.-.........  ....+...   .......
T Consensus       126 ~~~~~~~-~~glilI~GpTGSGKTTtL~aLl~~i~~~~~~~~~Ivt~EdpiE~~~~~~~~~~~~v~Q~~v---~~~~~~~  201 (358)
T TIGR02524       126 IIDAIAP-QEGIVFITGATGSGKSTLLAAIIRELAEAPDSHRKILTYEAPIEFVYDEIETISASVCQSEI---PRHLNNF  201 (358)
T ss_pred             HHHHHhc-cCCEEEEECCCCCCHHHHHHHHHHHHhhcCCCCcEEEEeCCCceEeccccccccceeeeeec---cccccCH
Confidence            3444432 358999999999999999999988764321111 222221111111111100  00001100   1111234


Q ss_pred             HHHHHHHHcCCCcEEEEEeCCCCccchh
Q 037337          183 ARSLFSRLNREKRILVILDNIWEHLDLQ  210 (247)
Q Consensus       183 ~~~l~~~l~~~kr~LlvlDdv~~~~~~~  210 (247)
                      ...++..|.. .+-.+++.++.+.+...
T Consensus       202 ~~~l~~aLR~-~Pd~i~vGEiRd~et~~  228 (358)
T TIGR02524       202 AAGVRNALRR-KPHAILVGEARDAETIS  228 (358)
T ss_pred             HHHHHHHhcc-CCCEEeeeeeCCHHHHH
Confidence            4556666766 56788888888776554

Members of this protein family are the DotB component of Dot/Icm secretion systems, as found in obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii. While this system resembles type IV secretion systems and has been called a form of type IV, the liturature now seems to favor calling this the Dot/Icm system. This family is most closely related to TraJ proteins of plasmid transfer, rather than to proteins of other type IV secretion systems.

>TIGR03498 FliI_clade3 flagellar protein export ATPase FliI

Probab=96.60  E-value=0.011  Score=52.16  Aligned_cols=89  Identities=21%  Similarity=0.294  Sum_probs=51.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCC-------CCCCChH------H
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLT-------FREESES------G  181 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~-------~~~~~~~------~  181 (247)
                      -..++|.|..|+|||||+..++......   .+++...-.....+.++....+..-+..       ..+.+..      .
T Consensus       140 Gq~i~I~G~sG~GKTtLl~~I~~~~~~~---~gvi~~iGer~~ev~~~~~~~l~~~~~~~tvvv~atsd~~~~~r~~a~~  216 (418)
T TIGR03498       140 GQRLGIFAGSGVGKSTLLSMLARNTDAD---VVVIALVGERGREVREFLEDDLGEEGLKRSVVVVATSDESPLMRRQAAY  216 (418)
T ss_pred             CcEEEEECCCCCChHHHHHHHhCCCCCC---EEEEEEEeeechHHHHHHHHhhhccccceeEEEEECCCCCHHHHHHHHH
Confidence            4688999999999999998888654422   2333222223334555555444332211       1112221      1


Q ss_pred             HHHHHHHHH-cCCCcEEEEEeCCCCc
Q 037337          182 RARSLFSRL-NREKRILVILDNIWEH  206 (247)
Q Consensus       182 ~~~~l~~~l-~~~kr~LlvlDdv~~~  206 (247)
                      ..-.+.+++ ..++++||++||+...
T Consensus       217 ~a~~iAEyfrd~G~~Vll~~DslTr~  242 (418)
T TIGR03498       217 TATAIAEYFRDQGKDVLLLMDSVTRF  242 (418)
T ss_pred             HHHHHHHHHHHcCCCEEEeccchhHH
Confidence            223455666 3457899999998654

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.

>PRK13946 shikimate kinase; Provisional

Probab=96.60  E-value=0.0024  Score=49.96  Aligned_cols=27  Identities=19%  Similarity=0.276  Sum_probs=24.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      .+.|++.|++|+||||+++.++..+..
T Consensus        10 ~~~I~l~G~~GsGKsti~~~LA~~Lg~   36 (184)
T PRK13946         10 KRTVVLVGLMGAGKSTVGRRLATMLGL   36 (184)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHcCC
Confidence            367999999999999999999998754

>TIGR01447 recD exodeoxyribonuclease V, alpha subunit

Probab=96.60  E-value=0.0064  Score=56.03  Aligned_cols=51  Identities=14%  Similarity=0.085  Sum_probs=31.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCCC--CEEEEEEeCCCCCHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKLF--DLVVFSEMSQSPDIRKVQGEI  166 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f--~~~~wv~~~~~~~~~~l~~~i  166 (247)
                      ++..|.|.+|+||||++..+...+......  ...+.+.+....-...+...+
T Consensus       161 ~~~vitGgpGTGKTt~v~~ll~~l~~~~~~~~~~~I~l~APTGkAA~rL~e~~  213 (586)
T TIGR01447       161 NFSLITGGPGTGKTTTVARLLLALVKQSPKQGKLRIALAAPTGKAAARLAESL  213 (586)
T ss_pred             CeEEEEcCCCCCHHHHHHHHHHHHHHhccccCCCcEEEECCcHHHHHHHHHHH
Confidence            789999999999999999988776432111  123444444433334444333

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.

>PRK13948 shikimate kinase; Provisional

Probab=96.59  E-value=0.0023  Score=49.92  Aligned_cols=28  Identities=21%  Similarity=0.388  Sum_probs=24.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ....|++.|+.|+||||+++.++..+..
T Consensus         9 ~~~~I~LiG~~GsGKSTvg~~La~~lg~   36 (182)
T PRK13948          9 PVTWVALAGFMGTGKSRIGWELSRALML   36 (182)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHcCC
Confidence            4578999999999999999999988753

>COG3598 RepA RecA-family ATPase [DNA replication, recombination, and repair]

Probab=96.59  E-value=0.011  Score=49.72  Aligned_cols=89  Identities=18%  Similarity=0.198  Sum_probs=52.7

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcc-cCC-------CCEEEEEEeCCC-CCHHHHHHHHHHHhCCCCCCC---------
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKN-HKL-------FDLVVFSEMSQS-PDIRKVQGEIADKLGLTFREE---------  177 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~-~~~-------f~~~~wv~~~~~-~~~~~l~~~i~~~l~~~~~~~---------  177 (247)
                      -.+.|+|.||+|||||+..++=.... ++.       ...++||++... .++-+=++.++.+++.++.+.         
T Consensus        90 ~~~~~~gdsg~GKttllL~l~IalaaG~~lfG~~v~epGkvlyvslEl~re~~L~Rl~~v~a~mgLsPadvrn~dltd~~  169 (402)
T COG3598          90 YVSILYGDSGVGKTTLLLYLCIALAAGKNLFGNKVKEPGKVLYVSLELYREDILERLEPVRARMGLSPADVRNMDLTDVS  169 (402)
T ss_pred             eeEEEecCCcccHhHHHHHHHHHHHhhHHHhcccccCCCeEEEEEeccChHHHHHHHHHHHHHcCCChHhhhheeccccc
Confidence            45667899999999999888654321 111       235888887654 344455567777777553211         


Q ss_pred             ------ChH--HHHHHHHHHHcCCCcEEEEEeCCC
Q 037337          178 ------SES--GRARSLFSRLNREKRILVILDNIW  204 (247)
Q Consensus       178 ------~~~--~~~~~l~~~l~~~kr~LlvlDdv~  204 (247)
                            +..  .+..+....+.+.+.-++|+|-.-
T Consensus       170 Gaa~~~d~l~pkl~rRfek~~~Q~rp~~vViDp~v  204 (402)
T COG3598         170 GAADESDVLSPKLYRRFEKILEQKRPDFVVIDPFV  204 (402)
T ss_pred             cCCCccccccHHHHHHHHHHHHHhCCCeEEEcchh
Confidence                  001  122333333344456788999753

>cd03282 ABC_MSH4_euk MutS4 homolog in eukaryotes

Probab=96.59  E-value=0.0031  Score=50.20  Aligned_cols=115  Identities=16%  Similarity=0.107  Sum_probs=57.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCC----CChHHHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFRE----ESESGRARSLFSRL  190 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~----~~~~~~~~~l~~~l  190 (247)
                      ..++.|.|+.|.||||+.+.++.-.--.+ ..  .++.+.. ..+ .++..|...++...+.    ..-.....++...+
T Consensus        29 ~~~~~l~G~n~~GKstll~~i~~~~~la~-~G--~~vpa~~-~~l-~~~d~I~~~~~~~d~~~~~~S~fs~e~~~~~~il  103 (204)
T cd03282          29 SRFHIITGPNMSGKSTYLKQIALLAIMAQ-IG--CFVPAEY-ATL-PIFNRLLSRLSNDDSMERNLSTFASEMSETAYIL  103 (204)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHHH-cC--CCcchhh-cCc-cChhheeEecCCccccchhhhHHHHHHHHHHHHH
Confidence            37899999999999999999875432110 00  1111111 000 1222222233222111    01111122222222


Q ss_pred             c-CCCcEEEEEeCCCCcc---c----hhhhcccCCCCCCCeEEEEeeCchhhhh
Q 037337          191 N-REKRILVILDNIWEHL---D----LQVVGIPHGDDHKGCKVLFTARSLDVLS  236 (247)
Q Consensus       191 ~-~~kr~LlvlDdv~~~~---~----~~~l~~~~~~~~~~s~iiiTtR~~~va~  236 (247)
                      . -.++-|+++|+.....   +    ...+...+  ...++.+|++|...+++.
T Consensus       104 ~~~~~~~lvllDE~~~gt~~~~~~~l~~~il~~l--~~~~~~~i~~TH~~~l~~  155 (204)
T cd03282         104 DYADGDSLVLIDELGRGTSSADGFAISLAILECL--IKKESTVFFATHFRDIAA  155 (204)
T ss_pred             HhcCCCcEEEeccccCCCCHHHHHHHHHHHHHHH--HhcCCEEEEECChHHHHH
Confidence            1 1246899999985432   1    11121222  123788999999999876

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

>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function

Probab=96.58  E-value=0.011  Score=51.16  Aligned_cols=41  Identities=24%  Similarity=0.309  Sum_probs=30.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCC
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQS  156 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~  156 (247)
                      .++.|.|.+|+|||.||..++.++..........+++....
T Consensus         2 ~v~~I~G~aGTGKTvla~~l~~~l~~~~~~~~~~~l~~n~~   42 (352)
T PF09848_consen    2 QVILITGGAGTGKTVLALNLAKELQNSEEGKKVLYLCGNHP   42 (352)
T ss_pred             eEEEEEecCCcCHHHHHHHHHHHhhccccCCceEEEEecch
Confidence            57899999999999999999999822222455666655443

It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].

>PRK13236 nitrogenase reductase; Reviewed

Probab=96.57  E-value=0.0043  Score=52.31  Aligned_cols=31  Identities=23%  Similarity=0.444  Sum_probs=26.8

Q ss_pred             CCCccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          112 NPDISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       112 ~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      +.+.+++++.|-||+||||++..++..+...
T Consensus         3 ~~~~~~~~~~GKGGVGKTt~a~NLA~~La~~   33 (296)
T PRK13236          3 DENIRQIAFYGKGGIGKSTTSQNTLAAMAEM   33 (296)
T ss_pred             CcCceEEEEECCCcCCHHHHHHHHHHHHHHC
Confidence            4456899999999999999999999987664

>cd03114 ArgK-like The function of this protein family is unkown

Probab=96.57  E-value=0.0056  Score=46.12  Aligned_cols=36  Identities=22%  Similarity=0.402  Sum_probs=26.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeC
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMS  154 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~  154 (247)
                      ++++.|.+|+||||++..++..+....  ..+.++...
T Consensus         1 ~i~~~G~~GsGKTt~~~~l~~~~~~~g--~~v~ii~~D   36 (148)
T cd03114           1 VIGITGVPGAGKSTLIDALITALRARG--KRVAVLAID   36 (148)
T ss_pred             CEEEECCCCCcHHHHHHHHHHHHHHCC--CEEEEEEeC
Confidence            378899999999999999998876542  234444443

The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.

>cd02032 Bchl_like This family of proteins contains bchL and chlL

Probab=96.57  E-value=0.0045  Score=51.28  Aligned_cols=26  Identities=27%  Similarity=0.539  Sum_probs=23.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      +|+|.|-||+||||++.+++..+...
T Consensus         2 ~i~v~gKGGvGKTT~a~nLA~~la~~   27 (267)
T cd02032           2 VLAVYGKGGIGKSTTSSNLSVALAKR   27 (267)
T ss_pred             EEEEecCCCCCHHHHHHHHHHHHHHC
Confidence            57888999999999999999988654

Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are involved in light-independent protochlorophyllide reduction in bacteriochlorophyll biosynthesis. In cyanobacteria, algae, and gymnosperms, three similar genes, chlL, chlN and chlB are involved in protochlorophyllide reduction during chlorophylls biosynthesis. BchL/chlL, bchN/chlN and bchB/chlB exhibit significant sequence similarity to the nifH, nifD and nifK subunits of nitrogenase, respectively. Nitrogenase catalyzes the reductive formation of ammonia from dinitrogen.

>PRK06936 type III secretion system ATPase; Provisional

Probab=96.56  E-value=0.02  Score=50.64  Aligned_cols=89  Identities=21%  Similarity=0.347  Sum_probs=55.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCC-CHHHHHHHHHHHhCCC-------CCCCChHH----
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSP-DIRKVQGEIADKLGLT-------FREESESG----  181 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~l~~~i~~~l~~~-------~~~~~~~~----  181 (247)
                      +-..++|.|..|+|||||...+++...    .+..++.-++... .+.++....+..-+..       ..+.+...    
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 EGQRMGIFAAAGGGKSTLLASLIRSAE----VDVTVLALIGERGREVREFIESDLGEEGLRKAVLVVATSDRPSMERAKA  236 (439)
T ss_pred             CCCEEEEECCCCCChHHHHHHHhcCCC----CCEEEEEEEccCcHHHHHHHHHHhcccccceeEEEEECCCCCHHHHHHH
Confidence            346889999999999999999987654    3567777776654 3445444433322111       11122211    


Q ss_pred             --HHHHHHHHH-cCCCcEEEEEeCCCCc
Q 037337          182 --RARSLFSRL-NREKRILVILDNIWEH  206 (247)
Q Consensus       182 --~~~~l~~~l-~~~kr~LlvlDdv~~~  206 (247)
                        ..-.+.+++ ..++++||++|++...
T Consensus       237 ~~~a~tiAEyfrd~G~~Vll~~DslTR~  264 (439)
T PRK06936        237 GFVATSIAEYFRDQGKRVLLLMDSVTRF  264 (439)
T ss_pred             HHHHHHHHHHHHHcCCCEEEeccchhHH
Confidence              123455666 3457899999998643

>cd01134 V_A-ATPase_A V/A-type ATP synthase catalytic subunit A

Probab=96.56  E-value=0.033  Score=47.77  Aligned_cols=87  Identities=14%  Similarity=0.201  Sum_probs=54.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCC-CHHHHHHHHHHHh----CCC----------CCCCCh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSP-DIRKVQGEIADKL----GLT----------FREESE  179 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~l~~~i~~~l----~~~----------~~~~~~  179 (247)
                      -..++|.|..|+|||+|++++++...    -+.++|+-++... .+.+++.++-+.-    +..          ..+.+.
T Consensus       157 Gqr~~I~G~~G~GKT~L~~~Iak~~~----~dvvVyv~iGERg~Ev~e~l~ef~~l~~~~~~~~~m~rtvlV~nts~~p~  232 (369)
T cd01134         157 GGTAAIPGPFGCGKTVIQQSLSKYSN----SDIVIYVGCGERGNEMTEVLEEFPELTDPVTGEPLMKRTVLIANTSNMPV  232 (369)
T ss_pred             CCEEEEECCCCCChHHHHHHHHhCCC----CCEEEEEEeCCChHHHHHHHHHHHhhccccccCCccceEEEEEECCCCCH
Confidence            36889999999999999999988532    3578888887654 3455555543211    110          111111


Q ss_pred             H------HHHHHHHHHH-cCCCcEEEEEeCCCC
Q 037337          180 S------GRARSLFSRL-NREKRILVILDNIWE  205 (247)
Q Consensus       180 ~------~~~~~l~~~l-~~~kr~LlvlDdv~~  205 (247)
                      .      ...-.+.+++ ..++.+|+++|++..
T Consensus       233 ~~R~~s~yta~tiAEYfrd~G~dVll~~Ds~tR  265 (369)
T cd01134         233 AAREASIYTGITIAEYFRDMGYNVALMADSTSR  265 (369)
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCCEEEEEcChhH
Confidence            1      1223455555 345789999999853

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.

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=96.56  E-value=0.0028  Score=51.10  Aligned_cols=121  Identities=26%  Similarity=0.361  Sum_probs=66.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccC------------------CCCE--EEEEEeCCCC----CHHHH-------
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHK------------------LFDL--VVFSEMSQSP----DIRKV-------  162 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~------------------~f~~--~~wv~~~~~~----~~~~l-------  162 (247)
                      .-.+++|+|.+|+|||||++.++--.+...                  +|..  .+|-+-....    ++.++       
T Consensus        32 ~Ge~lgivGeSGsGKSTL~r~l~Gl~~p~~G~I~~~G~~~~~~~~~~~~~~~VQmVFQDp~~SLnP~~tv~~~l~Epl~~  111 (252)
T COG1124          32 RGETLGIVGESGSGKSTLARLLAGLEKPSSGSILLDGKPLAPKKRAKAFYRPVQMVFQDPYSSLNPRRTVGRILSEPLRP  111 (252)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhcccCCCCceEEECCcccCccccchhhccceeEEecCCccccCcchhHHHHHhhhhcc
Confidence            347899999999999999999976544210                  1111  1222221111    22222       


Q ss_pred             ---------HHHHHHHhCCCCC-------CCChHHH-HHHHHHHHcCCCcEEEEEeCCCCccc-------hhhhcccCCC
Q 037337          163 ---------QGEIADKLGLTFR-------EESESGR-ARSLFSRLNREKRILVILDNIWEHLD-------LQVVGIPHGD  218 (247)
Q Consensus       163 ---------~~~i~~~l~~~~~-------~~~~~~~-~~~l~~~l~~~kr~LlvlDdv~~~~~-------~~~l~~~~~~  218 (247)
                               ..+++.+++.+..       .-+-.+. --.+...|.- ++-+||+|+.-+..+       |+-+...  .
T Consensus       112 ~~~~~~~~~i~~~L~~VgL~~~~l~R~P~eLSGGQ~QRiaIARAL~~-~PklLIlDEptSaLD~siQa~IlnlL~~l--~  188 (252)
T COG1124         112 HGLSKSQQRIAELLDQVGLPPSFLDRRPHELSGGQRQRIAIARALIP-EPKLLILDEPTSALDVSVQAQILNLLLEL--K  188 (252)
T ss_pred             CCccHHHHHHHHHHHHcCCCHHHHhcCchhcChhHHHHHHHHHHhcc-CCCEEEecCchhhhcHHHHHHHHHHHHHH--H
Confidence                     2344445554321       1121221 2234455544 467999999876533       2222111  2


Q ss_pred             CCCCeEEEEeeCchhhhhc
Q 037337          219 DHKGCKVLFTARSLDVLSR  237 (247)
Q Consensus       219 ~~~~s~iiiTtR~~~va~~  237 (247)
                      ...+..+|+.|.+..++.+
T Consensus       189 ~~~~lt~l~IsHdl~~v~~  207 (252)
T COG1124         189 KERGLTYLFISHDLALVEH  207 (252)
T ss_pred             HhcCceEEEEeCcHHHHHH
Confidence            4567779999999998864

>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX

Probab=96.56  E-value=0.0047  Score=48.87  Aligned_cols=43  Identities=21%  Similarity=0.191  Sum_probs=31.5

Q ss_pred             cccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHH
Q 037337           94 EAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus        94 ~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      .+++|.+.....|.-.....  .-+.++|++|+|||++|+.+..-
T Consensus         3 ~dI~GQe~aKrAL~iAAaG~--h~lLl~GppGtGKTmlA~~l~~l   45 (206)
T PF01078_consen    3 SDIVGQEEAKRALEIAAAGG--HHLLLIGPPGTGKTMLARRLPSL   45 (206)
T ss_dssp             CCSSSTHHHHHHHHHHHHCC----EEEES-CCCTHHHHHHHHHHC
T ss_pred             hhhcCcHHHHHHHHHHHcCC--CCeEEECCCCCCHHHHHHHHHHh
Confidence            45778777777766655543  67889999999999999999764

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.

>PF02463 SMC_N: RecF/RecN/SMC N terminal domain; InterPro: IPR003395 This domain is found at the N terminus of structural maintenance of chromosomes (SMC) proteins, which function together with other proteins in a range of chromosomal transactions, including chromosome condensation, sister-chromatid cohesion, recombination, DNA repair and epigenetic silencing of gene expression []

Probab=96.56  E-value=0.019  Score=45.98  Aligned_cols=45  Identities=16%  Similarity=0.196  Sum_probs=26.9

Q ss_pred             CCcEEEEEeCCCCccc---hhhhcccCCCCCCCeEEEEeeCchhhhhc
Q 037337          193 EKRILVILDNIWEHLD---LQVVGIPHGDDHKGCKVLFTARSLDVLSR  237 (247)
Q Consensus       193 ~kr~LlvlDdv~~~~~---~~~l~~~~~~~~~~s~iiiTtR~~~va~~  237 (247)
                      +..-+++|||++...+   ...+...+......+.+||||.++.++..
T Consensus       157 ~~~p~~ilDEvd~~LD~~~~~~l~~~l~~~~~~~Q~ii~Th~~~~~~~  204 (220)
T PF02463_consen  157 KPSPFLILDEVDAALDEQNRKRLADLLKELSKQSQFIITTHNPEMFED  204 (220)
T ss_dssp             S--SEEEEESTTTTS-HHHHHHHHHHHHHHTTTSEEEEE-S-HHHHTT
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            3457899999987643   22232233333456899999999998763

The domain is also found in RecF and RecN proteins, which are involved in DNA metabolism and recombination.; PDB: 3HTK_A 1W1W_C 2WD5_A 3L51_A 1XEW_Y 3KTA_B 3NWC_B 1XEX_A 1GXL_C 1GXK_A ....

>COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.55  E-value=0.021  Score=45.76  Aligned_cols=59  Identities=20%  Similarity=0.208  Sum_probs=36.2

Q ss_pred             HHHHHHHcCCCcEEEEEeCCCCccchhhhccc---CC-CCCCCeEEEEeeCchhhhhccCCCccc
Q 037337          184 RSLFSRLNREKRILVILDNIWEHLDLQVVGIP---HG-DDHKGCKVLFTARSLDVLSRKMDSQQN  244 (247)
Q Consensus       184 ~~l~~~l~~~kr~LlvlDdv~~~~~~~~l~~~---~~-~~~~~s~iiiTtR~~~va~~~~~~~~~  244 (247)
                      ..+.+.+.- ++-+.|||+.++..+.+++...   +. -...++-+++.|....++.. ..+...
T Consensus       153 ~EilQ~~~l-ePkl~ILDE~DSGLDIdalk~V~~~i~~lr~~~~~~liITHy~rll~~-i~pD~v  215 (251)
T COG0396         153 NEILQLLLL-EPKLAILDEPDSGLDIDALKIVAEGINALREEGRGVLIITHYQRLLDY-IKPDKV  215 (251)
T ss_pred             HHHHHHHhc-CCCEEEecCCCcCccHHHHHHHHHHHHHHhcCCCeEEEEecHHHHHhh-cCCCEE
Confidence            345555544 4579999999998776654211   10 12346668888888888874 444433

>COG4778 PhnL ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.55  E-value=0.0035  Score=47.98  Aligned_cols=35  Identities=14%  Similarity=0.148  Sum_probs=28.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEE
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSE  152 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~  152 (247)
                      --++++.|++|+||+||.+.+|..+...   .+.+|+.
T Consensus        37 GECvvL~G~SG~GKStllr~LYaNY~~d---~G~I~v~   71 (235)
T COG4778          37 GECVVLHGPSGSGKSTLLRSLYANYLPD---EGQILVR   71 (235)
T ss_pred             ccEEEeeCCCCCcHHHHHHHHHhccCCC---CceEEEE
Confidence            3578899999999999999999988764   3566663

>COG2842 Uncharacterized ATPase, putative transposase [General function prediction only]

Probab=96.54  E-value=0.02  Score=47.58  Aligned_cols=90  Identities=20%  Similarity=0.121  Sum_probs=62.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNREK  194 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  194 (247)
                      .+.++++|..|+|||+-++.+++..      +..+.+..++.++...+...++......... ........+...+.. .
T Consensus        94 g~l~~vyg~~g~gKt~a~~~y~~s~------p~~~l~~~~p~~~a~~~i~~i~~~~~~~~~~-~~~d~~~~~~~~l~~-~  165 (297)
T COG2842          94 GSLVVVYGYAGLGKTQAAKNYAPSN------PNALLIEADPSYTALVLILIICAAAFGATDG-TINDLTERLMIRLRD-T  165 (297)
T ss_pred             CceEEEeccccchhHHHHHhhcccC------ccceeecCChhhHHHHHHHHHHHHHhcccch-hHHHHHHHHHHHHcc-C
Confidence            3589999999999999999998653      3345567777777777777777665443332 233445666666655 5


Q ss_pred             cEEEEEeCCCCc--cchhhh
Q 037337          195 RILVILDNIWEH--LDLQVV  212 (247)
Q Consensus       195 r~LlvlDdv~~~--~~~~~l  212 (247)
                      .-+++.|+.+..  ..++.+
T Consensus       166 ~~~iivDEA~~L~~~ale~l  185 (297)
T COG2842         166 VRLIIVDEADRLPYRALEEL  185 (297)
T ss_pred             cceeeeehhhccChHHHHHH
Confidence            688899998875  334444

>PRK13833 conjugal transfer protein TrbB; Provisional

Probab=96.54  E-value=0.011  Score=50.30  Aligned_cols=107  Identities=19%  Similarity=0.202  Sum_probs=53.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNREKR  195 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr  195 (247)
                      ..+.|.|..|+||||+++.+........ .+.++ +.+.....+. +..  -......  ........+.+...|+. ++
T Consensus       145 ~nilI~G~tGSGKTTll~aL~~~i~~~~-~~~ri-vtiEd~~El~-~~~--~n~v~l~--~~~~~~~~~lv~~aLR~-~P  216 (323)
T PRK13833        145 LNIVISGGTGSGKTTLANAVIAEIVASA-PEDRL-VILEDTAEIQ-CAA--ENAVALH--TSDTVDMARLLKSTMRL-RP  216 (323)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHhcCC-CCceE-EEecCCcccc-cCC--CCEEEec--cCCCcCHHHHHHHHhCC-CC
Confidence            4678999999999999999988753210 11122 2222221110 000  0000000  01112233445556655 45


Q ss_pred             EEEEEeCCCCccchhhhcccCCCCCCCeEEEEeeCchh
Q 037337          196 ILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTARSLD  233 (247)
Q Consensus       196 ~LlvlDdv~~~~~~~~l~~~~~~~~~~s~iiiTtR~~~  233 (247)
                      =.|++.++...+.+..+ .....++.|  .+-|....+
T Consensus       217 D~IivGEiRg~ea~~~l-~a~~tGh~G--~itTiHA~s  251 (323)
T PRK13833        217 DRIIVGEVRDGAALTLL-KAWNTGHPG--GVTTIHSNT  251 (323)
T ss_pred             CEEEEeecCCHHHHHHH-HHHcCCCCc--eEEEECCCC
Confidence            77889999887766544 332222233  344544444

>TIGR02688 conserved hypothetical protein TIGR02688

Probab=96.53  E-value=0.019  Score=50.35  Aligned_cols=61  Identities=15%  Similarity=0.107  Sum_probs=39.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH-hcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCC
Q 037337          116 SMLGICGMGGIGKTMLEKEVARK-AKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNREK  194 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~-~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  194 (247)
                      .-+.+.|+.|+|||.||..+... .-..+           ...+..+++..+..                .....+.  +
T Consensus       210 ~Nli~lGp~GTGKThla~~l~~~~a~~sG-----------~f~T~a~Lf~~L~~----------------~~lg~v~--~  260 (449)
T TIGR02688       210 YNLIELGPKGTGKSYIYNNLSPYVILISG-----------GTITVAKLFYNIST----------------RQIGLVG--R  260 (449)
T ss_pred             CcEEEECCCCCCHHHHHHHHhHHHHHHcC-----------CcCcHHHHHHHHHH----------------HHHhhhc--c
Confidence            56778999999999999998776 22221           33466666666554                1222222  2


Q ss_pred             cEEEEEeCCCC
Q 037337          195 RILVILDNIWE  205 (247)
Q Consensus       195 r~LlvlDdv~~  205 (247)
                      -=+||||++..
T Consensus       261 ~DlLI~DEvgy  271 (449)
T TIGR02688       261 WDVVAFDEVAT  271 (449)
T ss_pred             CCEEEEEcCCC
Confidence            35889999875

Members of this family are uncharacterized proteins sporadically distributed in bacteria and archaea, about 470 amino acids in length. Several members of this family appear in public databases with annotation as ATP-dependent protease La, despite the lack of similarity to families TIGR00763 (ATP-dependent protease La) or pfam02190 (ATP-dependent protease La (LON) domain). This protein is repeatedly found downstream of another uncharacterized protein of about 880 amino acids in length, described by model TIGR02687.

>PF00142 Fer4_NifH: 4Fe-4S iron sulfur cluster binding proteins, NifH/frxC family; InterPro: IPR000392 This entry represents members of the NifH/BchL/ChlL family

Probab=96.53  E-value=0.006  Score=49.97  Aligned_cols=40  Identities=20%  Similarity=0.259  Sum_probs=31.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCC
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSP  157 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~  157 (247)
                      +.|+|||-||+||||.+.++...+...  -..+.-|-|++..
T Consensus         1 r~IAiYGKGGIGKST~~~Nlsaala~~--G~kVl~iGCDPK~   40 (273)
T PF00142_consen    1 RKIAIYGKGGIGKSTTASNLSAALAEM--GKKVLQIGCDPKA   40 (273)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHHHT--T--EEEEEESSSS
T ss_pred             CeEEEEcCCCcccChhhhHHHHHHHhc--cceeeEecccCCC
Confidence            368999999999999999999988765  3457777776554

Nitrogen fixing bacteria possess a nitrogenase enzyme complex that catalyses the reduction of molecular nitrogen to ammonia [, , ]. The nitrogenase enzyme complex consists of two components: Component I is nitrogenase MoFe protein or dinitrogenase, which contains 2 molecules each of 2 non-identical subunits. Component II is nitrogenase Fe protein or dinitrogenase reductase, which is a homodimer. The monomer is encoded by the nifH gene []. Component II has 2 ATP-binding domains and one 4Fe-4S cluster per homodimer: it supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component I for the reduction of molecular nitrogen to ammonia []. There are a number of conserved regions in the sequence of these proteins: in the N-terminal section there is an ATP-binding site motif 'A' (P-loop) IPR001687 from INTERPRO and in the central section there are two conserved cysteines which have been shown, in nifH, to be the ligands of the 4Fe-4S cluster. Protochlorophyllide reductase is involved in light-independent chlorophyll biosynthesis. The light-independent reaction uses Mg-ATP and reduced ferredoxin to reduce ring D of protochlorophyllide (Pchlide) to form chlorophyllide a (Chlide). This enzyme complex is composed of three subunits: ChlL, ChlN and ChlB. ChlL is present as a homodimer, and binds one 4Fe-4S cluster per dimer. The conserved domains, including the ATP-binding motif and the Fe-S binding motif found in the three subunits, are similar to those in nitrogenases []. ; GO: 0005524 ATP binding, 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1CP2_A 2AFI_F 1N2C_F 1FP6_C 2AFK_G 1M34_M 1XD8_A 1NIP_A 1M1Y_N 1G21_H ....

>PRK14738 gmk guanylate kinase; Provisional

Probab=96.52  E-value=0.0025  Score=50.76  Aligned_cols=25  Identities=20%  Similarity=0.371  Sum_probs=21.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      ..+.++|+|++|+|||||+..+...
T Consensus        12 ~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738         12 KPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHhc
Confidence            4688999999999999999999754

>PRK05537 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated

Probab=96.52  E-value=0.005  Score=56.54  Aligned_cols=49  Identities=14%  Similarity=0.140  Sum_probs=37.4

Q ss_pred             CcccccchHHHHHHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           93 YEAFESRMSTLNDILGALRN--PDISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L~~--~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ++..+.|.+..+.|.+....  ....+|.++|++|+||||+|+.++..+..
T Consensus       368 pP~~f~rpeV~~iL~~~~~~r~~~g~~Ivl~Gl~GSGKSTia~~La~~L~~  418 (568)
T PRK05537        368 IPEWFSFPEVVAELRRTYPPRHKQGFTVFFTGLSGAGKSTIAKALMVKLME  418 (568)
T ss_pred             CChhhcHHHHHHHHHHHhccccCCCeEEEEECCCCChHHHHHHHHHHHhhh
Confidence            45556677777766665542  24568899999999999999999998875

>PLN02674 adenylate kinase

Probab=96.51  E-value=0.012  Score=48.02  Aligned_cols=26  Identities=19%  Similarity=0.069  Sum_probs=22.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ...|.|.|++|+||||+|..++.++.
T Consensus        31 ~~~i~l~G~PGsGKgT~a~~La~~~~   56 (244)
T PLN02674         31 DKRLILIGPPGSGKGTQSPIIKDEYC   56 (244)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHcC
Confidence            45688999999999999999998764

>PRK08760 replicative DNA helicase; Provisional

Probab=96.51  E-value=0.41  Score=43.24  Aligned_cols=50  Identities=14%  Similarity=0.105  Sum_probs=32.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIA  167 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~  167 (247)
                      ..++.|.|.+|+|||++|..++.....+... .+++++..  -+..++...++
T Consensus       229 G~LivIaarPg~GKTafal~iA~~~a~~~g~-~V~~fSlE--Ms~~ql~~Rl~  278 (476)
T PRK08760        229 TDLIILAARPAMGKTTFALNIAEYAAIKSKK-GVAVFSME--MSASQLAMRLI  278 (476)
T ss_pred             CceEEEEeCCCCChhHHHHHHHHHHHHhcCC-ceEEEecc--CCHHHHHHHHH
Confidence            3789999999999999999999876432122 35555433  23344444443

>PLN02459 probable adenylate kinase

Probab=96.51  E-value=0.016  Score=47.73  Aligned_cols=25  Identities=16%  Similarity=0.214  Sum_probs=21.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ..+.|.|++|+||||+|..++..+.
T Consensus        30 ~~ii~~G~PGsGK~T~a~~la~~~~   54 (261)
T PLN02459         30 VNWVFLGCPGVGKGTYASRLSKLLG   54 (261)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3477789999999999999998764

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.50  E-value=0.0024  Score=51.70  Aligned_cols=27  Identities=30%  Similarity=0.373  Sum_probs=23.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      +--+|+|.|++|+|||||.+.++.-..
T Consensus        28 ~GEfvsilGpSGcGKSTLLriiAGL~~   54 (248)
T COG1116          28 KGEFVAILGPSGCGKSTLLRLIAGLEK   54 (248)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            347999999999999999999986543

>PRK04132 replication factor C small subunit; Provisional

Probab=96.50  E-value=0.02  Score=54.65  Aligned_cols=96  Identities=11%  Similarity=0.007  Sum_probs=57.5

Q ss_pred             c--CCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEE
Q 037337          122 G--MGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNREKRILVI  199 (247)
Q Consensus       122 G--~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~Llv  199 (247)
                      |  |.++||||+|..++++.-....-..++-+++++......+ +.+...+....+.              .+.+.-++|
T Consensus       571 G~lPh~lGKTT~A~ala~~l~g~~~~~~~lElNASd~rgid~I-R~iIk~~a~~~~~--------------~~~~~KVvI  635 (846)
T PRK04132        571 GNLPTVLHNTTAALALARELFGENWRHNFLELNASDERGINVI-REKVKEFARTKPI--------------GGASFKIIF  635 (846)
T ss_pred             CCCCCcccHHHHHHHHHHhhhcccccCeEEEEeCCCcccHHHH-HHHHHHHHhcCCc--------------CCCCCEEEE
Confidence            7  8899999999999998743321134677888876665543 3333322110000              011357999


Q ss_pred             EeCCCCcc--chhhhcccCCCCCCCeEEEEeeCch
Q 037337          200 LDNIWEHL--DLQVVGIPHGDDHKGCKVLFTARSL  232 (247)
Q Consensus       200 lDdv~~~~--~~~~l~~~~~~~~~~s~iiiTtR~~  232 (247)
                      ||+++...  +...+...+......+++|+++.+.
T Consensus       636 IDEaD~Lt~~AQnALLk~lEep~~~~~FILi~N~~  670 (846)
T PRK04132        636 LDEADALTQDAQQALRRTMEMFSSNVRFILSCNYS  670 (846)
T ss_pred             EECcccCCHHHHHHHHHHhhCCCCCeEEEEEeCCh
Confidence            99999873  4455544444334567777766544

>cd01136 ATPase_flagellum-secretory_path_III Flagellum-specific ATPase/type III secretory pathway virulence-related protein

Probab=96.50  E-value=0.022  Score=48.59  Aligned_cols=88  Identities=23%  Similarity=0.333  Sum_probs=52.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeC-CCCCHHHHHHHHHHHhCCC-------CCCCChH------
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMS-QSPDIRKVQGEIADKLGLT-------FREESES------  180 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~-~~~~~~~l~~~i~~~l~~~-------~~~~~~~------  180 (247)
                      ...++|.|..|+|||||.+.++.....    +..++.-+. ....+.++.......-+..       ..+.+..      
T Consensus        69 Gqri~I~G~sG~GKTtLl~~Ia~~~~~----~~~vi~~iGer~~ev~~~~~~~~~~~~l~rtvvv~~t~d~~~~~r~~~~  144 (326)
T cd01136          69 GQRLGIFAGSGVGKSTLLGMIARGTTA----DVNVIALIGERGREVREFIEKDLGEEGLKRSVVVVATSDESPLLRVKAA  144 (326)
T ss_pred             CcEEEEECCCCCChHHHHHHHhCCCCC----CEEEEEEEecCCccHHHHHHHHHhcCccceEEEEEcCCCCCHHHHHHHH
Confidence            467899999999999999988875442    333444443 3345555555555442211       1112221      


Q ss_pred             HHHHHHHHHH-cCCCcEEEEEeCCCCc
Q 037337          181 GRARSLFSRL-NREKRILVILDNIWEH  206 (247)
Q Consensus       181 ~~~~~l~~~l-~~~kr~LlvlDdv~~~  206 (247)
                      ...-.+.+++ ..++.+||++||+...
T Consensus       145 ~~a~~~AEyfr~~g~~Vll~~Dsltr~  171 (326)
T cd01136         145 YTATAIAEYFRDQGKDVLLLMDSLTRF  171 (326)
T ss_pred             HHHHHHHHHHHHcCCCeEEEeccchHH
Confidence            1223445555 3457899999997643

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.

>TIGR01281 DPOR_bchL light-independent protochlorophyllide reductase, iron-sulfur ATP-binding protein

Probab=96.49  E-value=0.0055  Score=50.78  Aligned_cols=26  Identities=27%  Similarity=0.505  Sum_probs=22.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      +|++.|-||+||||++.+++..+...
T Consensus         2 ~i~~~gKGGVGKTT~~~nLA~~La~~   27 (268)
T TIGR01281         2 ILAVYGKGGIGKSTTSSNLSVAFAKL   27 (268)
T ss_pred             EEEEEcCCcCcHHHHHHHHHHHHHhC
Confidence            47788999999999999999877644

The BchL peptide (ChlL in chloroplast and cyanobacteria) is an ATP-binding iron-sulfur protein of the dark form protochlorophyllide reductase, an enzyme similar to nitrogenase. This subunit resembles the nitrogenase NifH subunit.

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=96.49  E-value=0.0026  Score=53.64  Aligned_cols=24  Identities=29%  Similarity=0.458  Sum_probs=21.7

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      .++.+.|++|+||||+|+.++.++
T Consensus         3 ~liil~G~pGSGKSTla~~L~~~~   26 (300)
T PHA02530          3 KIILTVGVPGSGKSTWAREFAAKN   26 (300)
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHHC
Confidence            578889999999999999998875

>PRK03731 aroL shikimate kinase II; Reviewed

Probab=96.48  E-value=0.003  Score=48.61  Aligned_cols=25  Identities=28%  Similarity=0.323  Sum_probs=22.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ..+.|+|++|+||||+++.+++.+.
T Consensus         3 ~~i~~~G~~GsGKst~~~~la~~lg   27 (171)
T PRK03731          3 QPLFLVGARGCGKTTVGMALAQALG   27 (171)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhC
Confidence            3578899999999999999998874

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	247
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-23
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	3e-17
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	2e-10
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	3e-10

>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 = 98.0 bits (243), Expect = 2e-23
 Identities = 49/279 (17%), Positives = 81/279 (29%), Gaps = 75/279 (26%)

Query: 19  STERQFSY---VRDYTSNF-ENLNTQ-VEKLEGEIIRHRLSKEAVRQLDA---------- 63
           + E Q+ Y   +  +   F +N + + V+ +   I+        +   DA          
Sbjct: 11  TGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWT 70

Query: 64  -------IVK------LRKDGRF--ERIS-HSIIPEDTLLMSNKGYEAFESRMSTLNDIL 107
                  +V+      LR + +F    I      P     M  + Y     R+   N + 
Sbjct: 71  LLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPS----MMTRMYIEQRDRLYNDNQVF 126

Query: 108 G-----------ALRNP-----DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVF- 150
                        LR           + I G+ G GKT +  +V    K     D  +F 
Sbjct: 127 AKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFW 186

Query: 151 ------------SEMSQS--PDIRKVQGEIADKL-GLTFREESESGRARSLFSRLNREKR 195
                        EM Q     I       +D    +  R  S     R L  +    + 
Sbjct: 187 LNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLL-KSKPYEN 245

Query: 196 ILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTARSLDV 234
            L++L N+          +        CK+L T R   V
Sbjct: 246 CLLVLLNVQNAKAWNAFNL-------SCKILLTTRFKQV 277

>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 = 79.7 bits (196), Expect = 3e-17
 Identities = 36/263 (13%), Positives = 81/263 (30%), Gaps = 24/263 (9%)

Query: 3   EIIVSVVIEVGKCLAPSTERQFSYVRDYTSNFENLNTQVEKLEGEIIRH------RLSKE 56
            I      E+   ++   ER  +++R Y      L   ++        H           
Sbjct: 34  NIFTEDHSELISKMSTRLERIANFLRIYRRQASELGPLIDFFNYNNQSHLADFLEDYIDF 93

Query: 57  AVRQLDAIVKLRKDGRFERISHSIIPEDTLLMSNKGYEAFESRMSTLNDILGALRNPDIS 116
           A+ + D +  +    +F R           +         E  +  +   L  + + D  
Sbjct: 94  AINEPDLLRPVVIAPQFSRQMLDRKLLLGNVPKQMTCYIREYHVDRVIKKLDEMCDLDSF 153

Query: 117 MLGICGMGGIGKTMLEKEVARKAKN--HKLFDLVVFSEMSQSP---------DIRKVQGE 165
            L + G  G GK+++  +   K+       +D +V+ + S +          DI  +   
Sbjct: 154 FLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKS 213

Query: 166 IADKLGLTFREESESGRARSLFSRLNRE-KRILVILDNIWEHLDLQVVGIPHGDDHKGCK 224
             D L     E   S   + +      +    L + D++ +   +              +
Sbjct: 214 EDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETI------RWAQELRLR 267

Query: 225 VLFTARSLDVLSRKMDSQQNFLV 247
            L T R +++ +    + +   V
Sbjct: 268 CLVTTRDVEISNAASQTCEFIEV 290

>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 = 59.1 bits (143), Expect = 2e-10
 Identities = 34/227 (14%), Positives = 73/227 (32%), Gaps = 26/227 (11%)

Query: 31  TSNFENLNTQVEKLEGEIIRHRLSK--EAVRQLDAIVKLRKDGRFERISHSIIPEDTLLM 88
             + ++  +    L  E  +   +   + +  + +               +++ E  +  
Sbjct: 62  KKDNDSYVSFYNALLHEGYKDLAALLHDGIPVVSSSSGKDSVSGITSYVRTVLCEGGVPQ 121

Query: 89  SNKGYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVAR--KAKNHKLFD 146
               +   +  ++ +   L  L   +   + I GM G GK++L  E  R           
Sbjct: 122 RPVVFVTRKKLVNAIQQKLSKL-KGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPG 180

Query: 147 LVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRA----RSLFSRL-----NREKRIL 197
            V +  + +      +  ++ +      ++ES S R          RL      +  R L
Sbjct: 181 GVHWVSVGKQDKSGLLM-KLQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSL 239

Query: 198 VILDNIW--EHLDLQVVGIPHGDDHKGCKVLFTARSLDVLSRKMDSQ 242
           +ILD++W    L               C++L T R   V    M  +
Sbjct: 240 LILDDVWDSWVLK---------AFDSQCQILLTTRDKSVTDSVMGPK 277

>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 = 59.1 bits (143), Expect = 3e-10
 Identities = 32/164 (19%), Positives = 54/164 (32%), Gaps = 19/164 (11%)

Query: 96  FESRMSTLNDILGALRNPDIS--MLGICGMGGIGKTMLEKEVARKAK--NHKLFDLVVFS 151
           F +R   ++ I   L   +     + I GM G GK++L  E  R            V + 
Sbjct: 126 FVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWV 185

Query: 152 EMSQSP---DIRKVQGEIADKLGLTFREESESGRARSLFSRL-----NREKRILVILDNI 203
            + +      + K+Q             +           RL      +  R L+ILD++
Sbjct: 186 SIGKQDKSGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDV 245

Query: 204 WEHLDLQVVGIPHGDDHKGCKVLFTARSLDVLSRKMDSQQNFLV 247
           W+   L+            C++L T R   V    M  +    V
Sbjct: 246 WDPWVLKAFDNQ-------CQILLTTRDKSVTDSVMGPKHVVPV 282

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	247
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	99.93
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	99.86
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	99.85
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.83
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.45
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	99.45
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.39
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.38
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.37
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.36
2fna_A	357	Conserved hypothetical protein; structural genomic	99.36
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.28
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.17
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	99.17
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	99.11
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	99.09
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	98.96
2chq_A	319	Replication factor C small subunit; DNA-binding pr	98.93
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	98.89
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	98.8
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	98.76
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	98.71
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	98.71
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	98.68
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	98.67
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	98.66
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	98.65
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	98.63
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	98.6
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	98.6
3pvs_A	447	Replication-associated recombination protein A; ma	98.59
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	98.58
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	98.57
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	98.54
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	98.53
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	98.53
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	98.51
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	98.5
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	98.5
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	98.49
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	98.49
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	98.48
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	98.46
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	98.42
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	98.4
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	98.39
3co5_A	143	Putative two-component system transcriptional RES	98.38
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	98.38
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	98.37
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	98.34
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	98.32
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	98.29
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	98.29
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	98.26
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	98.25
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	98.25
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	98.21
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	98.19
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	98.19
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	98.16
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	98.16
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	98.15
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	98.13
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	98.13
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	98.13
3bos_A	242	Putative DNA replication factor; P-loop containing	98.12
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	98.11
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	98.09
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	98.09
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	97.99
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	97.95
3io5_A	333	Recombination and repair protein; storage dimer, i	97.93
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	97.93
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	97.93
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	97.91
2cvh_A	220	DNA repair and recombination protein RADB; filamen	97.9
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.88
2qgz_A	308	Helicase loader, putative primosome component; str	97.86
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	97.85
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	97.84
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	97.83
1xp8_A	366	RECA protein, recombinase A; recombination, radior	97.82
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	97.81
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	97.79
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	97.79
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	97.73
1u94_A	356	RECA protein, recombinase A; homologous recombinat	97.72
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	97.71
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	97.71
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.71
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	97.7
2z43_A	324	DNA repair and recombination protein RADA; archaea	97.7
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	97.67
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	97.65
2r44_A	331	Uncharacterized protein; putative ATPase, structur	97.62
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	97.61
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	97.6
4a74_A	231	DNA repair and recombination protein RADA; hydrola	97.56
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	97.55
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	97.5
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	97.5
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	97.44
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	97.4
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	97.4
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	97.36
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	97.35
2r6a_A	454	DNAB helicase, replicative helicase; replication,	97.34
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	97.34
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	97.31
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	97.3
3fwy_A	314	Light-independent protochlorophyllide reductase I	97.3
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	97.29
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	97.28
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	97.28
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	97.28
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	97.27
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	97.26
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	97.26
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	97.23
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	97.21
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	97.2
2xxa_A	433	Signal recognition particle protein; protein trans	97.18
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	97.17
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	97.16
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	97.12
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	97.12
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	97.12
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	97.12
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	97.11
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	97.11
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	97.11
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	97.1
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	97.1
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	97.09
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	97.08
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	97.07
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	97.07
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	97.07
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	97.07
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	97.06
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	97.05
2hf9_A	226	Probable hydrogenase nickel incorporation protein	97.04
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	97.02
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	97.01
3end_A	307	Light-independent protochlorophyllide reductase ir	97.0
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	96.99
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	96.99
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.98
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.98
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	96.98
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	96.97
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	96.96
3ice_A	422	Transcription termination factor RHO; transcriptio	96.96
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	96.96
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	96.96
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	96.95
1via_A	175	Shikimate kinase; structural genomics, transferase	96.93
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	96.93
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.92
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	96.92
1tue_A	212	Replication protein E1; helicase, replication, E1E	96.92
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.91
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	96.91
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	96.9
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	96.9
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	96.9
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	96.89
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	96.89
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	96.89
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.89
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	96.89
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	96.88
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	96.88
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	96.87
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	96.87
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	96.86
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	96.86
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	96.86
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.85
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	96.85
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	96.85
2vli_A	183	Antibiotic resistance protein; transferase, tunica	96.84
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	96.83
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	96.83
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	96.83
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	96.82
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	96.81
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	96.81
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	96.81
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	96.8
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	96.8
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	96.79
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	96.79
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	96.79
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	96.78
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	96.78
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	96.76
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	96.76
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	96.76
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	96.76
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	96.75
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	96.75
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	96.75
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	96.72
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	96.72
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	96.72
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	96.71
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	96.7
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	96.7
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	96.69
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	96.68
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	96.66
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	96.65
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	96.63
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	96.62
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	96.61
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	96.6
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	96.59
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	96.58
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	96.58
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	96.56
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	96.56
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	96.56
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.55
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	96.53
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	96.52
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	96.52
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	96.5
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	96.5
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	96.5
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	96.5
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	96.49
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	96.49
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	96.49
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	96.49
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.48
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	96.48
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	96.47
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	96.47
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	96.46
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	96.46
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	96.45
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	96.44
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	96.44
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	96.43
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	96.43
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	96.41
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	96.39
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	96.38
3ch4_B	202	Pmkase, phosphomevalonate kinase; parallel beta-sh	96.36
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	96.36
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	96.36
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	96.35
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	96.35
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	96.35
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	96.34
2eyu_A	261	Twitching motility protein PILT; pilus retraction	96.32
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	96.32
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	96.31
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	96.31
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	96.3
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	96.29
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	96.29
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	96.29
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	96.29
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	96.29
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	96.29
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	96.28
3qfl_A	115	MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-	96.27
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	96.25
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	96.24
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	96.23
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	96.23
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	96.21
3vr4_D	465	V-type sodium ATPase subunit D; V-ATPase, rotary m	96.2
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	96.2
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	96.2
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	96.19
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	96.16
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	96.16
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	96.15
2og2_A	359	Putative signal recognition particle receptor; nuc	96.14
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	96.12
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	96.08
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	96.08
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	96.07
2woj_A	354	ATPase GET3; tail-anchored, membrane protein, targ	96.05
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	96.02
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	96.01
2woo_A	329	ATPase GET3; tail-anchored, membrane protein, targ	95.99
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	95.99
3l0o_A	427	Transcription termination factor RHO; helicase, RH	95.99
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	95.96
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	95.96
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	95.94
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	95.94
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	95.93
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	95.92
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	95.92
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	95.91
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	95.89
2wji_A	165	Ferrous iron transport protein B homolog; membrane	95.87
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	95.87
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	95.86
1ihu_A	589	Arsenical pump-driving ATPase; aluminum fluoride,	95.86
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	95.83
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	95.83
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	95.83
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	95.82
3zq6_A	324	Putative arsenical pump-driving ATPase; tail-ancho	95.81
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	95.81
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	95.8
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	95.8
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	95.8
1b0u_A	262	Histidine permease; ABC transporter, transport pro	95.79
2ged_A	193	SR-beta, signal recognition particle receptor beta	95.78
3ug7_A	349	Arsenical pump-driving ATPase; tail-anchored, memb	95.78
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	95.78
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	95.78
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	95.76
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	95.75
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	95.73
1ji0_A	240	ABC transporter; ATP binding protein, structural g	95.73
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	95.72
1g6h_A	257	High-affinity branched-chain amino acid transport	95.72
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	95.71
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	95.69
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	95.68
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	95.67
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	95.67
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	95.65
1sgw_A	214	Putative ABC transporter; structural genomics, P p	95.65
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	95.64
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	95.64
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	95.63
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	95.63
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	95.62
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	95.6
2ghi_A	260	Transport protein; multidrug resistance protein, M	95.6
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	95.6
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	95.6
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	95.6
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	95.59
1nrj_B	218	SR-beta, signal recognition particle receptor beta	95.59
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	95.58
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	95.58
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	95.58
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	95.57
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	95.57
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	95.56
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	95.55
2gk6_A	624	Regulator of nonsense transcripts 1; UPF1, helicas	95.55
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	95.55
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	95.55
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	95.55
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	95.53
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	95.53
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	95.52
1p9r_A	418	General secretion pathway protein E; bacterial typ	95.51
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	95.51
2oze_A	298	ORF delta'; para, walker type atpases, DNA segrega	95.51
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	95.5
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	95.5
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	95.49
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	95.48
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	95.48
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	95.47
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	95.47
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	95.45
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	95.45
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	95.44
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	95.44
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	95.43
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	95.43
2j9r_A	214	Thymidine kinase; TK1, DNK, lasso, transferase, AT	95.43
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	95.42
3k9g_A	267	PF-32 protein; ssgcid, SBRI, decode biostructures,	95.42
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	95.4
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	95.4
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	95.39
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	95.39
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	95.38
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	95.38
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	95.35
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	95.35
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	95.34
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	95.33
2ewv_A	372	Twitching motility protein PILT; pilus retraction	95.33
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	95.33
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	95.33
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	95.33
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	95.32
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	95.31
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	95.31
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	95.31
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	95.3
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	95.3
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	95.29
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	95.29
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	95.29
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	95.29
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	95.28
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	95.28
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	95.28
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	95.27
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	95.26
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	95.26
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	95.25
3mfy_A	588	V-type ATP synthase alpha chain; A-type ATP syntha	95.25
1wcv_1	257	SOJ, segregation protein; ATPase, bacterial, chrom	95.24
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	95.24
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	95.24
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	95.23
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	95.22
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	95.22
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	95.21
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	95.21
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	95.21
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	95.2
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	95.19
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	95.19
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	95.18
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	95.18
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	95.17
3bfv_A	271	CAPA1, CAPB2, membrane protein CAPA1, protein tyro	95.16
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	95.16
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	95.16
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	95.16
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	95.16
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	95.16
3cwq_A	209	Para family chromosome partitioning protein; alpha	95.15
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	95.15
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	95.14
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	95.13
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	95.13
2orv_A	234	Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2	95.13
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	95.12
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	95.1
3la6_A	286	Tyrosine-protein kinase WZC; P-loop protein, nucle	95.1
3cio_A	299	ETK, tyrosine-protein kinase ETK; WZC, escherichia	95.09
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	95.07
3kta_A	182	Chromosome segregation protein SMC; structural mai	95.07
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	95.06
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	95.06
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	95.06
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	95.05
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	95.05
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	95.04
2fh5_B	214	SR-beta, signal recognition particle receptor beta	95.04
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	95.04
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	95.03
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	95.03
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	95.02
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	95.02
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	95.01
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	95.0
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	95.0
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	94.99
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	94.99
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	94.98
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	94.97
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	94.94
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	94.92
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	94.92
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	94.91
3ez2_A	398	Plasmid partition protein A; type IA, DNA binding,	94.91
2xj4_A	286	MIPZ; replication, cell division, ATPase, WACA; 1.	94.91
3igf_A	374	ALL4481 protein; two-domained protein consisting o	94.91
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	94.9
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	94.88
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	94.88
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	94.86
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	94.85
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	94.82
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	94.81
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	94.81
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	94.81
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	94.79
3vr4_A	600	V-type sodium ATPase catalytic subunit A; V-ATPase	94.78
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	94.75
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	94.7
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	94.69
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	94.69
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	94.68
2xzl_A	802	ATP-dependent helicase NAM7; hydrolase-RNA complex	94.68
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	94.67
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	94.66
2xau_A	773	PRE-mRNA-splicing factor ATP-dependent RNA helica;	94.66
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	94.64
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	94.64
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	94.64
2wjy_A	800	Regulator of nonsense transcripts 1; nonsense medi	94.62
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	94.62
3llu_A	196	RAS-related GTP-binding protein C; structural geno	94.61
3hdt_A	223	Putative kinase; structura genomics, PSI-2, protei	94.61
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	94.6
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	94.59
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	94.59
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	94.58
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	94.57

>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=99.93  E-value=2.3e-25  Score=201.09  Aligned_cols=143  Identities=14%  Similarity=0.140  Sum_probs=114.0

Q ss_pred             ccchHHHHHHHHHhcCC---CccEEEEEcCCCCcHHHHHHHHHH--HhcccCCCCEEEEEEeCCCC--CHHHHHHHHHHH
Q 037337           97 ESRMSTLNDILGALRNP---DISMLGICGMGGIGKTMLEKEVAR--KAKNHKLFDLVVFSEMSQSP--DIRKVQGEIADK  169 (247)
Q Consensus        97 ~gR~~~~~~L~~~L~~~---~~~~v~I~G~~GiGKTtLa~~~~~--~~~~~~~f~~~~wv~~~~~~--~~~~l~~~i~~~  169 (247)
                      +||+.++++|.++|...   ..++|+|+||||+||||||+.+|+  +.+...+|++++|++++..+  +...++..|+.+
T Consensus       131 ~GR~~~~~~l~~~L~~~~~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~~~il~~  210 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLM  210 (549)
T ss_dssp             CCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHhcccCCCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCCcEEEEEECCCCCCCHHHHHHHHHHH
Confidence            49999999999999643   579999999999999999999998  45566679999999999885  789999999999


Q ss_pred             hCCCCC--------CCChHHHHHHHHHHHcCCCcEEEEEeCCCCccchhhhcccCCCCCCCeEEEEeeCchhhhhccCC-
Q 037337          170 LGLTFR--------EESESGRARSLFSRLNREKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTARSLDVLSRKMD-  240 (247)
Q Consensus       170 l~~~~~--------~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~~~~~~l~~~~~~~~~~s~iiiTtR~~~va~~~~~-  240 (247)
                      ++....        ..+.......+.+.|.+++|+||||||+|+..++ .+.     ..+||+||||||++.|+.. ++ 
T Consensus       211 l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~~~~-~~~-----~~~gs~ilvTTR~~~v~~~-~~~  283 (549)
T 2a5y_B          211 LKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETI-RWA-----QELRLRCLVTTRDVEISNA-ASQ  283 (549)
T ss_dssp             HTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHH-HHH-----HHTTCEEEEEESBGGGGGG-CCS
T ss_pred             HhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCCchhh-ccc-----ccCCCEEEEEcCCHHHHHH-cCC
Confidence            976421        1233456788888998744899999999998655 221     1269999999999999874 54 


Q ss_pred             Ccccee
Q 037337          241 SQQNFL  246 (247)
Q Consensus       241 ~~~~~~  246 (247)
                      ...+|+
T Consensus       284 ~~~~~~  289 (549)
T 2a5y_B          284 TCEFIE  289 (549)
T ss_dssp             CEEEEE
T ss_pred             CCeEEE
Confidence            334454

>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=99.86  E-value=1.5e-21  Score=190.33  Aligned_cols=152  Identities=20%  Similarity=0.259  Sum_probs=114.9

Q ss_pred             cccCCCcccccchHHHHHHHHHhc--CCCccEEEEEcCCCCcHHHHHHHHHHHhcc--cCCCCEEEEEEeCCCCC--HHH
Q 037337           88 MSNKGYEAFESRMSTLNDILGALR--NPDISMLGICGMGGIGKTMLEKEVARKAKN--HKLFDLVVFSEMSQSPD--IRK  161 (247)
Q Consensus        88 ~~~~~~~~~~gR~~~~~~L~~~L~--~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~--~~~f~~~~wv~~~~~~~--~~~  161 (247)
                      ..|.++..|+||++++++|.++|.  ++..++|+|+||||+||||||++++++.+.  ..+++.++|++++...+  ...
T Consensus       118 ~~p~~~~~~vgR~~~~~~l~~~l~~~~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~  197 (1249)
T 3sfz_A          118 GVPQRPVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLM  197 (1249)
T ss_dssp             TCCCCCSSCCCCHHHHHHHHHHHHTTTTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHHHHHH
T ss_pred             CCCCCCceeccHHHHHHHHHHHHhhccCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCchHHHH
Confidence            345567789999999999999985  356789999999999999999999988543  22457899999988644  344


Q ss_pred             HHHHHHHHhCCCCC-----CCChHHHHHHHHHHHcC-CCcEEEEEeCCCCccchhhhcccCCCCCCCeEEEEeeCchhhh
Q 037337          162 VQGEIADKLGLTFR-----EESESGRARSLFSRLNR-EKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTARSLDVL  235 (247)
Q Consensus       162 l~~~i~~~l~~~~~-----~~~~~~~~~~l~~~l~~-~kr~LlvlDdv~~~~~~~~l~~~~~~~~~~s~iiiTtR~~~va  235 (247)
                      .+..++..+.....     ..+.......+...+.. ++|+||||||+|+..+|..+       ++||+||+|||++.|+
T Consensus       198 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~~~~~~~~-------~~~~~ilvTtR~~~~~  270 (1249)
T 3sfz_A          198 KLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAF-------DNQCQILLTTRDKSVT  270 (1249)
T ss_dssp             HHHHHHHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCCHHHHTTT-------CSSCEEEEEESSTTTT
T ss_pred             HHHHHHHHhhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCCHHHHHhh-------cCCCEEEEEcCCHHHH
Confidence            46667777754322     23456667777777765 24899999999998776654       5689999999999998


Q ss_pred             hccCCCcccee
Q 037337          236 SRKMDSQQNFL  246 (247)
Q Consensus       236 ~~~~~~~~~~~  246 (247)
                      ...++....++
T Consensus       271 ~~~~~~~~~~~  281 (1249)
T 3sfz_A          271 DSVMGPKHVVP  281 (1249)
T ss_dssp             TTCCSCBCCEE
T ss_pred             HhhcCCceEEE
Confidence            64455555544

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=99.85  E-value=8.7e-22  Score=184.46  Aligned_cols=135  Identities=19%  Similarity=0.181  Sum_probs=104.8

Q ss_pred             ccccchHHHHHHHHHhcC-CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCE-EEEEEeCCCCCHHHHHHHHHHHhCC
Q 037337           95 AFESRMSTLNDILGALRN-PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDL-VVFSEMSQSPDIRKVQGEIADKLGL  172 (247)
Q Consensus        95 ~~~gR~~~~~~L~~~L~~-~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~-~~wv~~~~~~~~~~l~~~i~~~l~~  172 (247)
                      ..+||+.+++.|.++|.+ ++.++|+|+||||+||||||+.++++.+...+|+. ++|++++..++...++..|+..++.
T Consensus       129 ~~VGRe~eLeeL~elL~~~d~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs~~~d~~~IL~~Ll~lL~~  208 (1221)
T 1vt4_I          129 YNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQ  208 (1221)
T ss_dssp             SCCCCHHHHHHHHHHHHHCCSSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEECCCSSSHHHHHHHHHHHHHH
T ss_pred             CCCCcHHHHHHHHHHHhccCCCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHhh
Confidence            359999999999999875 45789999999999999999999987654445876 9999999999988888887775431


Q ss_pred             ---CCC--CC-------ChHHHHHHHHHHH--cCCCcEEEEEeCCCCccchhhhcccCCCCCCCeEEEEeeCchhhhh
Q 037337          173 ---TFR--EE-------SESGRARSLFSRL--NREKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTARSLDVLS  236 (247)
Q Consensus       173 ---~~~--~~-------~~~~~~~~l~~~l--~~~kr~LlvlDdv~~~~~~~~l~~~~~~~~~~s~iiiTtR~~~va~  236 (247)
                         ...  ..       +.......+.+.|  ..++|+||||||+|+...|+.+.       .||+||||||++.++.
T Consensus       209 i~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd~eqLe~f~-------pGSRILVTTRd~~Va~  279 (1221)
T 1vt4_I          209 IDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFN-------LSCKILLTTRFKQVTD  279 (1221)
T ss_dssp             HCSSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCCHHHHHHHH-------SSCCEEEECSCSHHHH
T ss_pred             cCcccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcChHHHHHhhC-------CCeEEEEeccChHHHH
Confidence               111  00       1223445566655  13478999999999988887652       5899999999999985

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=99.83  E-value=2.2e-20  Score=169.87  Aligned_cols=141  Identities=23%  Similarity=0.318  Sum_probs=104.8

Q ss_pred             ccCCCcccccchHHHHHHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHHHhcc-cCCC-CEEEEEEeCCCCCHHHHHH
Q 037337           89 SNKGYEAFESRMSTLNDILGALRN--PDISMLGICGMGGIGKTMLEKEVARKAKN-HKLF-DLVVFSEMSQSPDIRKVQG  164 (247)
Q Consensus        89 ~~~~~~~~~gR~~~~~~L~~~L~~--~~~~~v~I~G~~GiGKTtLa~~~~~~~~~-~~~f-~~~~wv~~~~~~~~~~l~~  164 (247)
                      .|+.+..|+||+.+++.|.++|..  ++.++|+|+|+||+||||||..++++... ..+| ++++|++++.. +...++.
T Consensus       119 ~P~~~~~~vGR~~~l~~L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~~-~~~~~~~  197 (591)
T 1z6t_A          119 VPQRPVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQ-DKSGLLM  197 (591)
T ss_dssp             CCCCCSSCCCCHHHHHHHHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEESC-CHHHHHH
T ss_pred             CCCCCCeecccHHHHHHHHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCCC-chHHHHH
Confidence            355678899999999999999973  45789999999999999999999987643 3347 57999999876 3333443


Q ss_pred             H---HHHHhCCC-----CCCCChHHHHHHHHHHHcC-CCcEEEEEeCCCCccchhhhcccCCCCCCCeEEEEeeCchhhh
Q 037337          165 E---IADKLGLT-----FREESESGRARSLFSRLNR-EKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTARSLDVL  235 (247)
Q Consensus       165 ~---i~~~l~~~-----~~~~~~~~~~~~l~~~l~~-~kr~LlvlDdv~~~~~~~~l~~~~~~~~~~s~iiiTtR~~~va  235 (247)
                      .   ++..++..     ....+.......+.+.+.+ .+++||||||+|+...+..+       +.+++||+|||+..++
T Consensus       198 ~l~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~~~l~~l-------~~~~~ilvTsR~~~~~  270 (591)
T 1z6t_A          198 KLQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAF-------DSQCQILLTTRDKSVT  270 (591)
T ss_dssp             HHHHHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCHHHHHTT-------CSSCEEEEEESCGGGG
T ss_pred             HHHHHHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCHHHHHHh-------cCCCeEEEECCCcHHH
Confidence            3   34455421     1223455667777777754 25799999999987655433       4589999999999987


Q ss_pred             hc
Q 037337          236 SR  237 (247)
Q Consensus       236 ~~  237 (247)
                      ..
T Consensus       271 ~~  272 (591)
T 1z6t_A          271 DS  272 (591)
T ss_dssp             TT
T ss_pred             Hh
Confidence            63

>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=99.45  E-value=4.7e-13  Score=115.99  Aligned_cols=143  Identities=17%  Similarity=0.191  Sum_probs=99.6

Q ss_pred             CCcccccchHHHHHHHHHh-c----C--CCccEEEE--EcCCCCcHHHHHHHHHHHhccc---CCCC-EEEEEEeCCCCC
Q 037337           92 GYEAFESRMSTLNDILGAL-R----N--PDISMLGI--CGMGGIGKTMLEKEVARKAKNH---KLFD-LVVFSEMSQSPD  158 (247)
Q Consensus        92 ~~~~~~gR~~~~~~L~~~L-~----~--~~~~~v~I--~G~~GiGKTtLa~~~~~~~~~~---~~f~-~~~wv~~~~~~~  158 (247)
                      .|..|+||+.+++.|.+++ .    .  .....+.|  +|++|+|||+|++.+++.....   ..+. .++|+++....+
T Consensus        20 ~p~~l~gR~~el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   99 (412)
T 1w5s_A           20 IPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPN   99 (412)
T ss_dssp             CCSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCS
T ss_pred             CCCCCCChHHHHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCCCCC
Confidence            4578999999999998888 3    2  24567778  9999999999999999887542   1123 368888877788


Q ss_pred             HHHHHHHHHHHhCCCCC--CCChHHHHHHHHHHHc-CCCcEEEEEeCCCCccc--------hhhhcccCCC-C--C--CC
Q 037337          159 IRKVQGEIADKLGLTFR--EESESGRARSLFSRLN-REKRILVILDNIWEHLD--------LQVVGIPHGD-D--H--KG  222 (247)
Q Consensus       159 ~~~l~~~i~~~l~~~~~--~~~~~~~~~~l~~~l~-~~kr~LlvlDdv~~~~~--------~~~l~~~~~~-~--~--~~  222 (247)
                      ...++..++..++...+  ..+.......+.+.+. .+++++|||||++....        +..+...+.. .  +  .+
T Consensus       100 ~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~~~~~~~~~  179 (412)
T 1w5s_A          100 LYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNR  179 (412)
T ss_dssp             HHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCCB
T ss_pred             HHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhccCcchHHHHHHHHHHHhcccCCCCce
Confidence            99999999999976533  2344555666777664 23689999999987421        2222121111 1  2  45


Q ss_pred             eEEEEeeCchhh
Q 037337          223 CKVLFTARSLDV  234 (247)
Q Consensus       223 s~iiiTtR~~~v  234 (247)
                      ..+|+||+..++
T Consensus       180 v~lI~~~~~~~~  191 (412)
T 1w5s_A          180 IGFLLVASDVRA  191 (412)
T ss_dssp             EEEEEEEEETHH
T ss_pred             EEEEEEeccccH
Confidence            668889886654

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=99.45  E-value=1.6e-13  Score=116.25  Aligned_cols=138  Identities=15%  Similarity=0.121  Sum_probs=92.2

Q ss_pred             ccccCCCcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCC------CHH
Q 037337           87 LMSNKGYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSP------DIR  160 (247)
Q Consensus        87 ~~~~~~~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~------~~~  160 (247)
                      |.++..+..|+||+.+++.|.+++..+  +.+.|+|++|+|||+|++.+++...       .+|+++....      +..
T Consensus         5 ~~~~~~~~~~~gR~~el~~L~~~l~~~--~~v~i~G~~G~GKT~Ll~~~~~~~~-------~~~~~~~~~~~~~~~~~~~   75 (350)
T 2qen_A            5 LRPKTRREDIFDREEESRKLEESLENY--PLTLLLGIRRVGKSSLLRAFLNERP-------GILIDCRELYAERGHITRE   75 (350)
T ss_dssp             CSCCCSGGGSCSCHHHHHHHHHHHHHC--SEEEEECCTTSSHHHHHHHHHHHSS-------EEEEEHHHHHHTTTCBCHH
T ss_pred             CCCCCChHhcCChHHHHHHHHHHHhcC--CeEEEECCCcCCHHHHHHHHHHHcC-------cEEEEeecccccccCCCHH
Confidence            345556778999999999999988754  7999999999999999999998741       6788776432      566


Q ss_pred             HHHHHHHHHhCC-----------------CC--CCCChHHHHHHHHHHHcCCCcEEEEEeCCCCccc---------hhhh
Q 037337          161 KVQGEIADKLGL-----------------TF--REESESGRARSLFSRLNREKRILVILDNIWEHLD---------LQVV  212 (247)
Q Consensus       161 ~l~~~i~~~l~~-----------------~~--~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~~~---------~~~l  212 (247)
                      .++..+...+..                 ..  ...+.......+.+.+...++++|||||++....         +..+
T Consensus        76 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~~~~~~~~~~~~~L  155 (350)
T 2qen_A           76 ELIKELQSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGSRGGKELLALF  155 (350)
T ss_dssp             HHHHHHHHHSCSHHHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGGBTTTTTHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhHhhhceeEEEecceeeccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhccCccchhhHHHHH
Confidence            777777665542                 00  0123344444555544332379999999987542         1222


Q ss_pred             cccCCCCCCCeEEEEeeCchhh
Q 037337          213 GIPHGDDHKGCKVLFTARSLDV  234 (247)
Q Consensus       213 ~~~~~~~~~~s~iiiTtR~~~v  234 (247)
                       ..+.+...+.++|+|++...+
T Consensus       156 -~~~~~~~~~~~~il~g~~~~~  176 (350)
T 2qen_A          156 -AYAYDSLPNLKIILTGSEVGL  176 (350)
T ss_dssp             -HHHHHHCTTEEEEEEESSHHH
T ss_pred             -HHHHHhcCCeEEEEECCcHHH
Confidence             111112257889999987654

>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=99.39  E-value=1.4e-12  Score=111.76  Aligned_cols=144  Identities=17%  Similarity=0.170  Sum_probs=99.8

Q ss_pred             CCcccccchHHHHHHHHHhc----CCCccEEEEEcCCCCcHHHHHHHHHHHhcccCC-CCEEEEEEeCCCCCHHHHHHHH
Q 037337           92 GYEAFESRMSTLNDILGALR----NPDISMLGICGMGGIGKTMLEKEVARKAKNHKL-FDLVVFSEMSQSPDIRKVQGEI  166 (247)
Q Consensus        92 ~~~~~~gR~~~~~~L~~~L~----~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~-f~~~~wv~~~~~~~~~~l~~~i  166 (247)
                      .|..|+||+.+++.|.+++.    ......+.|+|++|+|||||++.+++....... -..++|+++....+...++..+
T Consensus        18 ~p~~~~gr~~e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~i   97 (386)
T 2qby_A           18 IPDELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPYRVLADL   97 (386)
T ss_dssp             CCSCCTTCHHHHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHHHCSHHHHHHHH
T ss_pred             CCCCCCChHHHHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCCCCCHHHHHHHH
Confidence            45789999999999999887    345678999999999999999999998765411 1257888887777788888888


Q ss_pred             HHHhCCCCC--CCChHHHHHHHHHHHcC-CCcEEEEEeCCCCcc------chhhhcccCCC-CCCCeEEEEeeCchhhh
Q 037337          167 ADKLGLTFR--EESESGRARSLFSRLNR-EKRILVILDNIWEHL------DLQVVGIPHGD-DHKGCKVLFTARSLDVL  235 (247)
Q Consensus       167 ~~~l~~~~~--~~~~~~~~~~l~~~l~~-~kr~LlvlDdv~~~~------~~~~l~~~~~~-~~~~s~iiiTtR~~~va  235 (247)
                      +..++....  ..+.......+.+.+.. +++.+|+||+++...      .+..+...+.. ...+..+|+||+..+..
T Consensus        98 ~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~~~~~~~I~~~~~~~~~  176 (386)
T 2qby_A           98 LESLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITNDVKFV  176 (386)
T ss_dssp             TTTTSCCCCSSSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSCCC--EEEEEEESCGGGG
T ss_pred             HHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhccCcCHHHHHHhhchhhcCCCeEEEEEEECCCChH
Confidence            887765432  22345556677777754 347999999997642      12222111111 23467788888877653

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.38  E-value=3.6e-12  Score=109.26  Aligned_cols=143  Identities=17%  Similarity=0.175  Sum_probs=100.1

Q ss_pred             CCcccccchHHHHHHHHHhc----CCCccEEEEEcCCCCcHHHHHHHHHHHhccc----CCCCEEEEEEeCCCCCHHHHH
Q 037337           92 GYEAFESRMSTLNDILGALR----NPDISMLGICGMGGIGKTMLEKEVARKAKNH----KLFDLVVFSEMSQSPDIRKVQ  163 (247)
Q Consensus        92 ~~~~~~gR~~~~~~L~~~L~----~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~----~~f~~~~wv~~~~~~~~~~l~  163 (247)
                      .|..++||+.+++.|..++.    ......+.|+|++|+|||+||+.+++.....    ..-...+|+++....+...++
T Consensus        17 ~p~~~~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~   96 (387)
T 2v1u_A           17 VPDVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYRVA   96 (387)
T ss_dssp             CCSCCTTCHHHHHHHHHTTGGGTSSCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTSCSHHHHH
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcCCCHHHHH
Confidence            35789999999999999884    2456789999999999999999999887432    101247889999888999999


Q ss_pred             HHHHHHhCCCCCC--CChHHHHHHHHHHHcC-CCcEEEEEeCCCCccc----hhhhcccC---CC-C-CCCeEEEEeeCc
Q 037337          164 GEIADKLGLTFRE--ESESGRARSLFSRLNR-EKRILVILDNIWEHLD----LQVVGIPH---GD-D-HKGCKVLFTARS  231 (247)
Q Consensus       164 ~~i~~~l~~~~~~--~~~~~~~~~l~~~l~~-~kr~LlvlDdv~~~~~----~~~l~~~~---~~-~-~~~s~iiiTtR~  231 (247)
                      ..++..++.....  .+.......+.+.+.. +++.+|+|||++....    .+.+...+   .. . ..+..+|.||+.
T Consensus        97 ~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~~~~~~~I~~t~~  176 (387)
T 2v1u_A           97 SAIAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVSLVGITNS  176 (387)
T ss_dssp             HHHHHHHSCCCCSSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC-----CEEEEECSC
T ss_pred             HHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhcCCCceEEEEEEECC
Confidence            9999999765332  3455666777777743 4578999999987532    12221111   11 1 446678888877


Q ss_pred             hhh
Q 037337          232 LDV  234 (247)
Q Consensus       232 ~~v  234 (247)
                      .+.
T Consensus       177 ~~~  179 (387)
T 2v1u_A          177 LGF  179 (387)
T ss_dssp             STT
T ss_pred             Cch
Confidence            643

>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=99.37  E-value=2.4e-12  Score=110.50  Aligned_cols=139  Identities=15%  Similarity=0.160  Sum_probs=98.3

Q ss_pred             CcccccchHHHHHHHHHhc----CCCccEEEEEcCCCCcHHHHHHHHHHHhccc-----CC-CCEEEEEEeCCCC-CHHH
Q 037337           93 YEAFESRMSTLNDILGALR----NPDISMLGICGMGGIGKTMLEKEVARKAKNH-----KL-FDLVVFSEMSQSP-DIRK  161 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L~----~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-----~~-f~~~~wv~~~~~~-~~~~  161 (247)
                      |..++||+.+++.|..++.    ....+.+.|+|++|+|||+||+.+++.....     .. ....+|+++.... +...
T Consensus        19 p~~l~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~   98 (384)
T 2qby_B           19 FKEIPFREDILRDAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTPQA   98 (384)
T ss_dssp             CSSCTTCHHHHHHHHHHHHHHHTTCCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHHHHCSCHHH
T ss_pred             CCCCCChHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECccCCCCHHH
Confidence            4789999999999887664    3446789999999999999999999986432     01 2357888888777 8888


Q ss_pred             HHHHHHHHh-CCCC--CCCChHHHHHHHHHHHcCCCcEEEEEeCCCCccc---hhh-hcccCCCCCCCeEEEEeeCchh
Q 037337          162 VQGEIADKL-GLTF--REESESGRARSLFSRLNREKRILVILDNIWEHLD---LQV-VGIPHGDDHKGCKVLFTARSLD  233 (247)
Q Consensus       162 l~~~i~~~l-~~~~--~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~~~---~~~-l~~~~~~~~~~s~iiiTtR~~~  233 (247)
                      ++..++..+ +...  ...+.......+.+.+...+ .+|+|||++....   .+. +...+... .+..+|+||+...
T Consensus        99 ~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~-~vlilDEi~~l~~~~~~~~~l~~l~~~~-~~~~iI~~t~~~~  175 (384)
T 2qby_B           99 VLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIR-AIIYLDEVDTLVKRRGGDIVLYQLLRSD-ANISVIMISNDIN  175 (384)
T ss_dssp             HHHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSSSC-EEEEEETTHHHHHSTTSHHHHHHHHTSS-SCEEEEEECSSTT
T ss_pred             HHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhccCC-CEEEEECHHHhccCCCCceeHHHHhcCC-cceEEEEEECCCc
Confidence            889988887 3322  22344566777888887644 4999999987532   222 21111111 6788999998764

>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=99.36  E-value=1.2e-11  Score=106.31  Aligned_cols=143  Identities=19%  Similarity=0.174  Sum_probs=101.8

Q ss_pred             CCcccccchHHHHHHHHHhcC----CCcc--EEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHH
Q 037337           92 GYEAFESRMSTLNDILGALRN----PDIS--MLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGE  165 (247)
Q Consensus        92 ~~~~~~gR~~~~~~L~~~L~~----~~~~--~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~  165 (247)
                      .|..++||+.+++.|..++..    ....  .+.|+|++|+|||||++.+++...... -..++|+++....+...++..
T Consensus        15 ~p~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~~~~~~-~~~~~~i~~~~~~~~~~~~~~   93 (389)
T 1fnn_A           15 VPKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKT-TARFVYINGFIYRNFTAIIGE   93 (389)
T ss_dssp             CCSCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSC-CCEEEEEETTTCCSHHHHHHH
T ss_pred             CCCCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHHHhhhc-CeeEEEEeCccCCCHHHHHHH
Confidence            347799999999999888863    3334  899999999999999999999876541 135788898888888999999


Q ss_pred             HHHHhCCCCC--CCChHHHHHHHHHHHc-CCCcEEEEEeCCCCc--cchhhhcccCCCC-C---CCeEEEEeeCchhhh
Q 037337          166 IADKLGLTFR--EESESGRARSLFSRLN-REKRILVILDNIWEH--LDLQVVGIPHGDD-H---KGCKVLFTARSLDVL  235 (247)
Q Consensus       166 i~~~l~~~~~--~~~~~~~~~~l~~~l~-~~kr~LlvlDdv~~~--~~~~~l~~~~~~~-~---~~s~iiiTtR~~~va  235 (247)
                      ++..++....  ..+.......+.+.+. .+++.+|+||+++..  ..+..+...+... .   .+..+|++|+..++.
T Consensus        94 l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~L~~~~~~~~~~~~~~~~iI~~~~~~~~~  172 (389)
T 1fnn_A           94 IARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVL  172 (389)
T ss_dssp             HHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHH
T ss_pred             HHHHhCccCCCCCCCHHHHHHHHHHHHhhcCCeEEEEEECccccchHHHHHHHHHHHhCCCCCcCCEEEEEEECCchHH
Confidence            9999876433  2345555666666663 235789999999875  2233332222111 1   477888888877543

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=99.36  E-value=2.2e-12  Score=109.37  Aligned_cols=138  Identities=13%  Similarity=0.199  Sum_probs=85.6

Q ss_pred             cccCCCcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCC-----CCHHHH
Q 037337           88 MSNKGYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQS-----PDIRKV  162 (247)
Q Consensus        88 ~~~~~~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~-----~~~~~l  162 (247)
                      .++..+..|+||+.+++.|.+ +..   +++.|+|++|+|||+|++.+++....     ..+|+++...     .+...+
T Consensus         7 ~~~~~~~~~~gR~~el~~L~~-l~~---~~v~i~G~~G~GKT~L~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~   77 (357)
T 2fna_A            7 SPKDNRKDFFDREKEIEKLKG-LRA---PITLVLGLRRTGKSSIIKIGINELNL-----PYIYLDLRKFEERNYISYKDF   77 (357)
T ss_dssp             SCCCSGGGSCCCHHHHHHHHH-TCS---SEEEEEESTTSSHHHHHHHHHHHHTC-----CEEEEEGGGGTTCSCCCHHHH
T ss_pred             CCCCCHHHhcChHHHHHHHHH-hcC---CcEEEECCCCCCHHHHHHHHHHhcCC-----CEEEEEchhhccccCCCHHHH
Confidence            444566789999999999999 765   69999999999999999999988642     2578887643     345555


Q ss_pred             HHHHHHHhCC------------------CCCC-----CC---hHHHHHHHHHHHcC-C-CcEEEEEeCCCCcc-----ch
Q 037337          163 QGEIADKLGL------------------TFRE-----ES---ESGRARSLFSRLNR-E-KRILVILDNIWEHL-----DL  209 (247)
Q Consensus       163 ~~~i~~~l~~------------------~~~~-----~~---~~~~~~~l~~~l~~-~-kr~LlvlDdv~~~~-----~~  209 (247)
                      +..+...+..                  ..+.     ..   .......+.+.+.. . ++++|||||++...     ++
T Consensus        78 ~~~l~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~vlvlDe~~~~~~~~~~~~  157 (357)
T 2fna_A           78 LLELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVKLRGVNL  157 (357)
T ss_dssp             HHHHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGGGCTTCCC
T ss_pred             HHHHHHHHHHHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHhcCCCCeEEEEECHHHhhccCchhH
Confidence            5555443310                  0000     00   01112334444422 1 37999999997642     22


Q ss_pred             hhhcccCCCCCCCeEEEEeeCchhh
Q 037337          210 QVVGIPHGDDHKGCKVLFTARSLDV  234 (247)
Q Consensus       210 ~~l~~~~~~~~~~s~iiiTtR~~~v  234 (247)
                      ..+...+.+...+.++|+|++....
T Consensus       158 ~~~l~~~~~~~~~~~~i~~g~~~~~  182 (357)
T 2fna_A          158 LPALAYAYDNLKRIKFIMSGSEMGL  182 (357)
T ss_dssp             HHHHHHHHHHCTTEEEEEEESSHHH
T ss_pred             HHHHHHHHHcCCCeEEEEEcCchHH
Confidence            1111111122247889999998654

>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=99.28  E-value=2.3e-11  Score=95.90  Aligned_cols=128  Identities=15%  Similarity=0.158  Sum_probs=81.9

Q ss_pred             CCCcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHh
Q 037337           91 KGYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKL  170 (247)
Q Consensus        91 ~~~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l  170 (247)
                      .....++||+..++.|.+++.......+.|+|++|+|||+||+.+++.......-...+.++.+.......+...+....
T Consensus        14 ~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (226)
T 2chg_A           14 RTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVVRHKIKEFA   93 (226)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHTTCCCCEEEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEEETTCTTCHHHHHHHHHHHH
T ss_pred             CCHHHHcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHhccccccceEEeccccccChHHHHHHHHHHh
Confidence            34567999999999999999876655699999999999999999998864432112345556555544433332222221


Q ss_pred             CCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCcc--chhhhcccCCCCCCCeEEEEeeCchh
Q 037337          171 GLTFREESESGRARSLFSRLNREKRILVILDNIWEHL--DLQVVGIPHGDDHKGCKVLFTARSLD  233 (247)
Q Consensus       171 ~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~~--~~~~l~~~~~~~~~~s~iiiTtR~~~  233 (247)
                      ....               ....++.+|+|||++...  ....+...+.....++++|+||+...
T Consensus        94 ~~~~---------------~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~  143 (226)
T 2chg_A           94 RTAP---------------IGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVS  143 (226)
T ss_dssp             TSCC---------------STTCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGG
T ss_pred             cccC---------------CCccCceEEEEeChhhcCHHHHHHHHHHHHhcCCCCeEEEEeCChh
Confidence            1100               012357999999998752  23334333333456788999887653

>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=99.17  E-value=1.5e-10  Score=92.28  Aligned_cols=138  Identities=12%  Similarity=0.137  Sum_probs=77.6

Q ss_pred             ccCCCcccccchHHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHH
Q 037337           89 SNKGYEAFESRMSTLNDILGALRNPD-ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIA  167 (247)
Q Consensus        89 ~~~~~~~~~gR~~~~~~L~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~  167 (247)
                      .|.....++||+.+++.|..++.... ...+.|+|++|+|||+||+.+++.......+..   ..+..   ... ...+.
T Consensus        18 ~p~~~~~~~g~~~~~~~l~~~l~~~~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~---~~~~~---~~~-~~~~~   90 (250)
T 1njg_A           18 RPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITA---TPCGV---CDN-CREIE   90 (250)
T ss_dssp             CCCSGGGCCSCHHHHHHHHHHHHHTCCCSEEEEECSTTSCHHHHHHHHHHHHHCTTCSCS---SCCSC---SHH-HHHHH
T ss_pred             CCccHHHHhCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCC---CCCcc---cHH-HHHHh
Confidence            34445679999999999999887543 458899999999999999999988754321100   00000   000 00000


Q ss_pred             HHhC-----CCCCCCChHHHHHHHHHHHc----CCCcEEEEEeCCCCc--cchhhhcccCCCCCCCeEEEEeeCchh
Q 037337          168 DKLG-----LTFREESESGRARSLFSRLN----REKRILVILDNIWEH--LDLQVVGIPHGDDHKGCKVLFTARSLD  233 (247)
Q Consensus       168 ~~l~-----~~~~~~~~~~~~~~l~~~l~----~~kr~LlvlDdv~~~--~~~~~l~~~~~~~~~~s~iiiTtR~~~  233 (247)
                      ....     ..............+.+.+.    .+++.+|||||++..  ..+..+...+.....++.+|+||+...
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlviDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~t~~~~  167 (250)
T 1njg_A           91 QGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQ  167 (250)
T ss_dssp             TTCCSSEEEEETTCGGGHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGG
T ss_pred             ccCCcceEEecCcccccHHHHHHHHHHhhhchhcCCceEEEEECcccccHHHHHHHHHHHhcCCCceEEEEEeCChH
Confidence            0000     00000011112222333221    235699999999864  334444344434456788999987654

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=99.17  E-value=3.5e-10  Score=94.61  Aligned_cols=114  Identities=10%  Similarity=0.088  Sum_probs=81.6

Q ss_pred             cccccchHHHHHHHHHhc----CCCccEEEEEcCCCCcHHHHHHHHHHHhcccCC---C-C-EEEEEEeCCCCCHHHHHH
Q 037337           94 EAFESRMSTLNDILGALR----NPDISMLGICGMGGIGKTMLEKEVARKAKNHKL---F-D-LVVFSEMSQSPDIRKVQG  164 (247)
Q Consensus        94 ~~~~gR~~~~~~L~~~L~----~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~---f-~-~~~wv~~~~~~~~~~l~~  164 (247)
                      ..+.||++|++.|...|.    .+....+.|+|++|+|||++++.+++.+.....   . . .++++++....+...++.
T Consensus        20 ~~L~~Re~E~~~i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t~~~~~~   99 (318)
T 3te6_A           20 ELLKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDALYE   99 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC--HHHHH
T ss_pred             cccCCHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccCCHHHHHH
Confidence            347899999999887764    456788999999999999999999999864311   1 1 467889888889999999


Q ss_pred             HHHHHhCCCC-CCCChHHHHHHHHHHH--cCCCcEEEEEeCCCCcc
Q 037337          165 EIADKLGLTF-REESESGRARSLFSRL--NREKRILVILDNIWEHL  207 (247)
Q Consensus       165 ~i~~~l~~~~-~~~~~~~~~~~l~~~l--~~~kr~LlvlDdv~~~~  207 (247)
                      .|++++.... ...........+.+.+  ..+++++++||+++...
T Consensus       100 ~I~~~L~g~~~~~~~~~~~L~~~f~~~~~~~~~~~ii~lDE~d~l~  145 (318)
T 3te6_A          100 KIWFAISKENLCGDISLEALNFYITNVPKAKKRKTLILIQNPENLL  145 (318)
T ss_dssp             HHHHHHSCCC--CCCCHHHHHHHHHHSCGGGSCEEEEEEECCSSSC
T ss_pred             HHHHHhcCCCCCchHHHHHHHHHHHHhhhccCCceEEEEecHHHhh
Confidence            9999985331 1222233444444444  23457999999998864

>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=99.11  E-value=1.2e-10  Score=97.48  Aligned_cols=129  Identities=18%  Similarity=0.132  Sum_probs=80.1

Q ss_pred             cCCCcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHH
Q 037337           90 NKGYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADK  169 (247)
Q Consensus        90 ~~~~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~  169 (247)
                      |....+++|++..++.|.+++..+..+.+.++|++|+|||++|+.+++...........++++.+.......+ ..++..
T Consensus        17 p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i-~~~~~~   95 (323)
T 1sxj_B           17 PQVLSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGIDVV-RNQIKH   95 (323)
T ss_dssp             CSSGGGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSHHHH-HTHHHH
T ss_pred             CCCHHHHHCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCCEEEecCccccChHHH-HHHHHH
Confidence            3445779999999999999998766555999999999999999999998643311112455555544333222 222222


Q ss_pred             hCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc--cchhhhcccCCCCCCCeEEEEeeCch
Q 037337          170 LGLTFREESESGRARSLFSRLNREKRILVILDNIWEH--LDLQVVGIPHGDDHKGCKVLFTARSL  232 (247)
Q Consensus       170 l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~--~~~~~l~~~~~~~~~~s~iiiTtR~~  232 (247)
                      +.....             .+..+++.++|+||++..  .....+...+.....++++|+||+..
T Consensus        96 ~~~~~~-------------~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~~~~  147 (323)
T 1sxj_B           96 FAQKKL-------------HLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQS  147 (323)
T ss_dssp             HHHBCC-------------CCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCG
T ss_pred             HHhccc-------------cCCCCCceEEEEECcccCCHHHHHHHHHHHhccCCCceEEEEeCCh
Confidence            110000             000234789999999875  23334433333345678888888664

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=99.09  E-value=5.4e-10  Score=85.90  Aligned_cols=51  Identities=18%  Similarity=0.244  Sum_probs=44.6

Q ss_pred             CCCcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           91 KGYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        91 ~~~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      .....++||+++++.+.+++.......+.|+|++|+|||+||+.+++....
T Consensus        19 ~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~~~~~~~~   69 (195)
T 1jbk_A           19 GKLDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIIN   69 (195)
T ss_dssp             TCSCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             ccccccccchHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHHHh
Confidence            345679999999999999998776778899999999999999999998754

>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=98.96  E-value=5e-10  Score=93.79  Aligned_cols=127  Identities=11%  Similarity=0.085  Sum_probs=77.2

Q ss_pred             cCCCcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHH
Q 037337           90 NKGYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADK  169 (247)
Q Consensus        90 ~~~~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~  169 (247)
                      |....+++|++..++.|..++..+....+.++|++|+|||++|+.+++.......-...+.++++.......+ ......
T Consensus        21 p~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~   99 (327)
T 1iqp_A           21 PQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERGINVI-REKVKE   99 (327)
T ss_dssp             CCSTTTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHHHHHTT-HHHHHH
T ss_pred             CCCHHHhhCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCceEEeeccccCchHHH-HHHHHH
Confidence            3345679999999999999988766556999999999999999999998643311112344444332111111 111111


Q ss_pred             hCCCCCCCChHHHHHHHHHH--HcCCCcEEEEEeCCCCc--cchhhhcccCCCCCCCeEEEEeeCchh
Q 037337          170 LGLTFREESESGRARSLFSR--LNREKRILVILDNIWEH--LDLQVVGIPHGDDHKGCKVLFTARSLD  233 (247)
Q Consensus       170 l~~~~~~~~~~~~~~~l~~~--l~~~kr~LlvlDdv~~~--~~~~~l~~~~~~~~~~s~iiiTtR~~~  233 (247)
                                      ....  +..+++.++++||++..  .....+...+.....++++|+||...+
T Consensus       100 ----------------~~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~  151 (327)
T 1iqp_A          100 ----------------FARTKPIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSS  151 (327)
T ss_dssp             ----------------HHHSCCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGG
T ss_pred             ----------------HHhhCCcCCCCCeEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCCcc
Confidence                            0000  11135689999999875  233444333333456788888887643

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A

Probab=98.93  E-value=2.7e-09  Score=88.94  Aligned_cols=126  Identities=13%  Similarity=0.152  Sum_probs=77.8

Q ss_pred             CCCcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHh
Q 037337           91 KGYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKL  170 (247)
Q Consensus        91 ~~~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l  170 (247)
                      ....+++|++..++.|.+++..+....+.++|++|+|||++|+.+++.......-...+.++++.......         
T Consensus        14 ~~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~---------   84 (319)
T 2chq_A           14 RTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDV---------   84 (319)
T ss_dssp             SSGGGSCSCHHHHHHHHTTTTTTCCCCEEEESSSSSSHHHHHHHHHHHHHTTCHHHHCEEEETTSTTCTTT---------
T ss_pred             CCHHHHhCCHHHHHHHHHHHhCCCCCeEEEECcCCcCHHHHHHHHHHHhcCCcccCCeEEEeCccccChHH---------
Confidence            34567999999999999998876655599999999999999999999864321111234455543221111         


Q ss_pred             CCCCCCCChHHHHHHHHHH--HcCCCcEEEEEeCCCCc--cchhhhcccCCCCCCCeEEEEeeCchh
Q 037337          171 GLTFREESESGRARSLFSR--LNREKRILVILDNIWEH--LDLQVVGIPHGDDHKGCKVLFTARSLD  233 (247)
Q Consensus       171 ~~~~~~~~~~~~~~~l~~~--l~~~kr~LlvlDdv~~~--~~~~~l~~~~~~~~~~s~iiiTtR~~~  233 (247)
                              ...........  +..+++.++++|+++..  .....+...+.....++++|+||....
T Consensus        85 --------~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~  143 (319)
T 2chq_A           85 --------VRHKIKEFARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVS  143 (319)
T ss_dssp             --------SSHHHHHHHHSCCSSSCCCEEEEEETGGGSCHHHHHTTGGGTSSSSSSEEEEEEESCGG
T ss_pred             --------HHHHHHHHHhcCCCCCCCceEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCChh
Confidence                    00111111111  11235689999999865  233445444444456788888886544

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=98.89  E-value=3.9e-09  Score=80.82  Aligned_cols=51  Identities=18%  Similarity=0.177  Sum_probs=44.6

Q ss_pred             CCCcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           91 KGYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        91 ~~~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      .....++||+.+++.+.+++.......+.|+|++|+|||+||+.+++....
T Consensus        19 ~~~~~~~g~~~~~~~l~~~l~~~~~~~vll~G~~G~GKT~la~~~~~~~~~   69 (187)
T 2p65_A           19 GKLDPVIGRDTEIRRAIQILSRRTKNNPILLGDPGVGKTAIVEGLAIKIVQ   69 (187)
T ss_dssp             TCSCCCCSCHHHHHHHHHHHTSSSSCEEEEESCGGGCHHHHHHHHHHHHHT
T ss_pred             cccchhhcchHHHHHHHHHHhCCCCCceEEECCCCCCHHHHHHHHHHHHHh
Confidence            345679999999999999998766778899999999999999999998744

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=98.80  E-value=1.3e-08  Score=83.80  Aligned_cols=96  Identities=17%  Similarity=0.178  Sum_probs=61.3

Q ss_pred             CCCcccccchHHHHHHHHHhcC-------------CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCC
Q 037337           91 KGYEAFESRMSTLNDILGALRN-------------PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSP  157 (247)
Q Consensus        91 ~~~~~~~gR~~~~~~L~~~L~~-------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~  157 (247)
                      ....+++|.+..++.|.+.+..             .....+.|+|++|+|||+||+.+++.....     .+.++++.-.
T Consensus        14 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~~~~-----~~~v~~~~~~   88 (285)
T 3h4m_A           14 VRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNAT-----FIRVVGSELV   88 (285)
T ss_dssp             CCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHTTCE-----EEEEEGGGGC
T ss_pred             CCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCC-----EEEEehHHHH
Confidence            3457799999999998877632             345679999999999999999999876432     3344432211


Q ss_pred             CHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          158 DIRKVQGEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       158 ~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                      .              . ...........+........+.+|+|||++..
T Consensus        89 ~--------------~-~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l  122 (285)
T 3h4m_A           89 K--------------K-FIGEGASLVKDIFKLAKEKAPSIIFIDEIDAI  122 (285)
T ss_dssp             C--------------C-STTHHHHHHHHHHHHHHHTCSEEEEEETTHHH
T ss_pred             H--------------h-ccchHHHHHHHHHHHHHHcCCeEEEEECHHHh
Confidence            0              0 00111222333444443335689999999753

>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=98.76  E-value=2.5e-08  Score=85.02  Aligned_cols=52  Identities=15%  Similarity=0.224  Sum_probs=43.2

Q ss_pred             CCCcccccchHHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337           91 KGYEAFESRMSTLNDILGALRNPD-ISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus        91 ~~~~~~~gR~~~~~~L~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      ....+++||+..++.|..++..+. ...+.|+|++|+|||++|+.+++.....
T Consensus        13 ~~~~~~vg~~~~~~~L~~~l~~~~~~~~~ll~G~~G~GKT~la~~la~~l~~~   65 (373)
T 1jr3_A           13 QTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCE   65 (373)
T ss_dssp             CSTTTSCSCHHHHHHHHHHHHHTCCCSEEEEESCTTSSHHHHHHHHHHHHSCT
T ss_pred             CchhhccCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            344679999999999999887553 4578899999999999999999987543

>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=98.71  E-value=5.9e-08  Score=81.36  Aligned_cols=123  Identities=11%  Similarity=0.078  Sum_probs=76.1

Q ss_pred             ccCCCcccccchHHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHH
Q 037337           89 SNKGYEAFESRMSTLNDILGALRNPD-ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIA  167 (247)
Q Consensus        89 ~~~~~~~~~gR~~~~~~L~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~  167 (247)
                      .|....+++|++..++.|.+++.... ...+.++|++|+|||++|+.+++....     .+++++++... ... +..++
T Consensus        21 rP~~~~~ivg~~~~~~~l~~~l~~~~~~~~~L~~G~~G~GKT~la~~la~~l~~-----~~~~i~~~~~~-~~~-i~~~~   93 (324)
T 3u61_B           21 RPSTIDECILPAFDKETFKSITSKGKIPHIILHSPSPGTGKTTVAKALCHDVNA-----DMMFVNGSDCK-IDF-VRGPL   93 (324)
T ss_dssp             CCCSTTTSCCCHHHHHHHHHHHHTTCCCSEEEECSSTTSSHHHHHHHHHHHTTE-----EEEEEETTTCC-HHH-HHTHH
T ss_pred             CCCCHHHHhCcHHHHHHHHHHHHcCCCCeEEEeeCcCCCCHHHHHHHHHHHhCC-----CEEEEcccccC-HHH-HHHHH
Confidence            34456789999999999999998654 467778888999999999999988743     24566654422 222 22222


Q ss_pred             HHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCcc---chhhhcccCCCCCCCeEEEEeeCchh
Q 037337          168 DKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEHL---DLQVVGIPHGDDHKGCKVLFTARSLD  233 (247)
Q Consensus       168 ~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~~---~~~~l~~~~~~~~~~s~iiiTtR~~~  233 (247)
                      ..+.....               ..+++.+|+|||++...   ....+...+.....++++|+||....
T Consensus        94 ~~~~~~~~---------------~~~~~~vliiDEi~~l~~~~~~~~L~~~le~~~~~~~iI~~~n~~~  147 (324)
T 3u61_B           94 TNFASAAS---------------FDGRQKVIVIDEFDRSGLAESQRHLRSFMEAYSSNCSIIITANNID  147 (324)
T ss_dssp             HHHHHBCC---------------CSSCEEEEEEESCCCGGGHHHHHHHHHHHHHHGGGCEEEEEESSGG
T ss_pred             HHHHhhcc---------------cCCCCeEEEEECCcccCcHHHHHHHHHHHHhCCCCcEEEEEeCCcc
Confidence            11100000               01256899999999764   22333222222234567888876543

>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=98.71  E-value=2.2e-08  Score=84.66  Aligned_cols=137  Identities=12%  Similarity=0.125  Sum_probs=77.2

Q ss_pred             cCCCcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCC-CEEEEEEeCCCCCHHHHHHHHHH
Q 037337           90 NKGYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLF-DLVVFSEMSQSPDIRKVQGEIAD  168 (247)
Q Consensus        90 ~~~~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f-~~~~wv~~~~~~~~~~l~~~i~~  168 (247)
                      |.....++|+++.++.|..++.......+.++|++|+|||++|+.+++.......+ ..+..++++.......+... ..
T Consensus        33 p~~~~~i~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~  111 (353)
T 1sxj_D           33 PKNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREK-VK  111 (353)
T ss_dssp             CSSTTTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHTTH-HH
T ss_pred             CCCHHHhhCCHHHHHHHHHHHhcCCCCEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEccccccchHHHHHH-HH
Confidence            34457799999999999999987654558999999999999999999886421001 12445555544343332222 22


Q ss_pred             HhC-CCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCcc--chhhhcccCCCCCCCeEEEEeeCch
Q 037337          169 KLG-LTFREESESGRARSLFSRLNREKRILVILDNIWEHL--DLQVVGIPHGDDHKGCKVLFTARSL  232 (247)
Q Consensus       169 ~l~-~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~~--~~~~l~~~~~~~~~~s~iiiTtR~~  232 (247)
                      .+. .........     ........++-+|++|+++...  ....+...+......+++|++|...
T Consensus       112 ~~~~~~~~~~~~~-----~~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~  173 (353)
T 1sxj_D          112 NFARLTVSKPSKH-----DLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYV  173 (353)
T ss_dssp             HHHHSCCCCCCTT-----HHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCG
T ss_pred             HHhhhcccccchh-----hcccCCCCCceEEEEECCCccCHHHHHHHHHHHHhcCCCceEEEEeCch
Confidence            211 111000000     0011112245799999987652  2233333332234467777777543

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=98.68  E-value=1.1e-08  Score=75.95  Aligned_cols=110  Identities=9%  Similarity=0.063  Sum_probs=63.5

Q ss_pred             ccccchHHHHHHHHHhc--CCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCC
Q 037337           95 AFESRMSTLNDILGALR--NPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGL  172 (247)
Q Consensus        95 ~~~gR~~~~~~L~~~L~--~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~  172 (247)
                      .++|+...+..+.+.+.  ......|.|+|++|+|||++|+.+++...... .. .+ ++++...+.             
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~~~~~vll~G~~GtGKt~lA~~i~~~~~~~~-~~-~v-~~~~~~~~~-------------   65 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSETDIAVWLYGAPGTGRMTGARYLHQFGRNAQ-GE-FV-YRELTPDNA-------------   65 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTTCCSCEEEESSTTSSHHHHHHHHHHSSTTTT-SC-CE-EEECCTTTS-------------
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCCHHHHHHHHHHhCCccC-CC-EE-EECCCCCcc-------------
Confidence            47899999988888764  23335678999999999999999987643321 12 23 666543322             


Q ss_pred             CCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCcc--chhhhcccCCCCCCCeEEEEeeCc
Q 037337          173 TFREESESGRARSLFSRLNREKRILVILDNIWEHL--DLQVVGIPHGDDHKGCKVLFTARS  231 (247)
Q Consensus       173 ~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~~--~~~~l~~~~~~~~~~s~iiiTtR~  231 (247)
                          ..    ...+.+..   +.-.|+||+++...  ....+...+.......++|.||..
T Consensus        66 ----~~----~~~~~~~a---~~g~l~ldei~~l~~~~q~~Ll~~l~~~~~~~~~I~~t~~  115 (145)
T 3n70_A           66 ----PQ----LNDFIALA---QGGTLVLSHPEHLTREQQYHLVQLQSQEHRPFRLIGIGDT  115 (145)
T ss_dssp             ----SC----HHHHHHHH---TTSCEEEECGGGSCHHHHHHHHHHHHSSSCSSCEEEEESS
T ss_pred             ----hh----hhcHHHHc---CCcEEEEcChHHCCHHHHHHHHHHHhhcCCCEEEEEECCc
Confidence                00    11111111   22578999998652  122222222223345677777764

>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=98.67  E-value=4.1e-08  Score=82.17  Aligned_cols=63  Identities=16%  Similarity=0.182  Sum_probs=46.9

Q ss_pred             CCCcccccchHHHHHHHHHhc-----CCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCC
Q 037337           91 KGYEAFESRMSTLNDILGALR-----NPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPD  158 (247)
Q Consensus        91 ~~~~~~~gR~~~~~~L~~~L~-----~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~  158 (247)
                      ....+|+|++..+..+..++.     ......+.|+|++|+|||+||+.+++.....     .++++++....
T Consensus         9 ~~~~~~ig~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~i~~~~~~~-----~~~~~~~~~~~   76 (324)
T 1hqc_A            9 KTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVN-----LRVTSGPAIEK   76 (324)
T ss_dssp             CSTTTCCSCHHHHHHHHHHHHHHHHHCSCCCCCEEECCTTCCCHHHHHHHHHHHTCC-----EEEECTTTCCS
T ss_pred             ccHHHhhCHHHHHHHHHHHHHHHHccCCCCCcEEEECCCCCCHHHHHHHHHHHhCCC-----EEEEeccccCC
Confidence            345779999999988887775     2334678899999999999999999876432     34566554433

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=98.66  E-value=2.7e-08  Score=82.77  Aligned_cols=48  Identities=15%  Similarity=0.115  Sum_probs=37.9

Q ss_pred             ccccchHHHHHHHHHhc---------------CCCccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337           95 AFESRMSTLNDILGALR---------------NPDISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus        95 ~~~gR~~~~~~L~~~L~---------------~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      .++|.+...+.|.+.+.               ......+.|+|++|+|||+||+.+++.+...
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~   94 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRL   94 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHHT
T ss_pred             HccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            58898888888776543               2344578999999999999999999887553

>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=98.65  E-value=3e-07  Score=74.45  Aligned_cols=94  Identities=19%  Similarity=0.202  Sum_probs=55.2

Q ss_pred             CcccccchHHHHHHHHHh---cC---------CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHH
Q 037337           93 YEAFESRMSTLNDILGAL---RN---------PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIR  160 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L---~~---------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~  160 (247)
                      ..+++|.+...+.|.+.+   ..         ...+.+.|+|++|+|||++|+.+++.....     .+.++++...+. 
T Consensus         5 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~~~~-----~~~~~~~~~~~~-   78 (262)
T 2qz4_A            5 FKDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQVP-----FLAMAGAEFVEV-   78 (262)
T ss_dssp             TTSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHHTCC-----EEEEETTTTSSS-
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHhCCC-----EEEechHHHHhh-
Confidence            456888888777765543   21         234668899999999999999999976532     345555432110 


Q ss_pred             HHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          161 KVQGEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       161 ~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                                   . ..........+.+......+.+|+||+++..
T Consensus        79 -------------~-~~~~~~~~~~~~~~a~~~~~~vl~iDeid~l  110 (262)
T 2qz4_A           79 -------------I-GGLGAARVRSLFKEARARAPCIVYIDEIDAV  110 (262)
T ss_dssp             -------------S-TTHHHHHHHHHHHHHHHTCSEEEEEECC---
T ss_pred             -------------c-cChhHHHHHHHHHHHHhcCCeEEEEeCcchh
Confidence                         0 0111122233333333334689999999864

>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=98.63  E-value=1.2e-07  Score=79.70  Aligned_cols=96  Identities=18%  Similarity=0.213  Sum_probs=61.3

Q ss_pred             CCCcccccchHHHHHHHHHhc------------CCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCC
Q 037337           91 KGYEAFESRMSTLNDILGALR------------NPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPD  158 (247)
Q Consensus        91 ~~~~~~~gR~~~~~~L~~~L~------------~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~  158 (247)
                      ....+++|.+..++.|.+.+.            ....+.+.++|++|+|||+||+.+++.....     .+.++++    
T Consensus        15 ~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~~~-----~~~v~~~----   85 (322)
T 3eie_A           15 VKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANST-----FFSVSSS----   85 (322)
T ss_dssp             CCGGGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHHHTCE-----EEEEEHH----
T ss_pred             CCHHHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHHCCC-----EEEEchH----
Confidence            345678999999999888762            1124679999999999999999999886433     3444432    


Q ss_pred             HHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          159 IRKVQGEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       159 ~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                        ++...        . ..........+.+.....++.+|+||+++..
T Consensus        86 --~l~~~--------~-~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l  122 (322)
T 3eie_A           86 --DLVSK--------W-MGESEKLVKQLFAMARENKPSIIFIDQVDAL  122 (322)
T ss_dssp             --HHHTT--------T-GGGHHHHHHHHHHHHHHTSSEEEEEECGGGG
T ss_pred             --HHhhc--------c-cchHHHHHHHHHHHHHhcCCeEEEechhhhh
Confidence              11100        0 0112233444444444445689999999854

>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=98.60  E-value=2.2e-07  Score=75.93  Aligned_cols=47  Identities=15%  Similarity=0.199  Sum_probs=35.1

Q ss_pred             cccccchHHHHHHHH-------Hhc---CCCccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337           94 EAFESRMSTLNDILG-------ALR---NPDISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus        94 ~~~~gR~~~~~~L~~-------~L~---~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ..++|....++.+..       .+.   ......+.|+|++|+|||+||+.+++...
T Consensus        33 ~~~i~~~~~~~~i~~~~~~l~~~l~~~~~~~~~~vLl~G~~GtGKT~la~~ia~~~~   89 (272)
T 1d2n_A           33 NGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESN   89 (272)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             cCCCCccHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECCCCCcHHHHHHHHHHHhC
Confidence            456777666655554       332   34567899999999999999999999754

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=98.60  E-value=1.1e-06  Score=73.83  Aligned_cols=96  Identities=18%  Similarity=0.184  Sum_probs=60.6

Q ss_pred             CCcccccchHHHHHHHHHhc------------CCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCH
Q 037337           92 GYEAFESRMSTLNDILGALR------------NPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDI  159 (247)
Q Consensus        92 ~~~~~~gR~~~~~~L~~~L~------------~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~  159 (247)
                      .-.++.|.+...+.|.+.+.            ....+.+.++|++|+|||+||+.+++.....    ..+.++++.-.+ 
T Consensus        10 ~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~~----~~~~i~~~~l~~-   84 (322)
T 1xwi_A           10 KWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANNS----TFFSISSSDLVS-   84 (322)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHTTSC----EEEEEECCSSCC-
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHcCCC----cEEEEEhHHHHh-
Confidence            34678888888888776552            1234789999999999999999999986321    234455442211 


Q ss_pred             HHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          160 RKVQGEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       160 ~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                                   ... .........+.+.....++.+|+||+++..
T Consensus        85 -------------~~~-g~~~~~~~~lf~~a~~~~~~vl~iDEid~l  117 (322)
T 1xwi_A           85 -------------KWL-GESEKLVKNLFQLARENKPSIIFIDEIDSL  117 (322)
T ss_dssp             -------------SSC-CSCHHHHHHHHHHHHHTSSEEEEEETTTGG
T ss_pred             -------------hhh-hHHHHHHHHHHHHHHhcCCcEEEeecHHHh
Confidence                         001 112333444444444345789999999865

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=98.59  E-value=3e-07  Score=80.64  Aligned_cols=52  Identities=21%  Similarity=0.296  Sum_probs=44.0

Q ss_pred             cCCCcccccchHHH---HHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           90 NKGYEAFESRMSTL---NDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        90 ~~~~~~~~gR~~~~---~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      |....+++|.+..+   ..|...+.......+.+||++|+||||||+.+++....
T Consensus        22 P~~l~~ivGq~~~~~~~~~L~~~i~~~~~~~vLL~GppGtGKTtlAr~ia~~~~~   76 (447)
T 3pvs_A           22 PENLAQYIGQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKTTLAEVIARYANA   76 (447)
T ss_dssp             CCSTTTCCSCHHHHSTTSHHHHHHHHTCCCEEEEECSTTSSHHHHHHHHHHHTTC
T ss_pred             CCCHHHhCCcHHHHhchHHHHHHHHcCCCcEEEEECCCCCcHHHHHHHHHHHhCC
Confidence            44567899999888   77888887776778999999999999999999988653

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=98.58  E-value=3.3e-07  Score=78.92  Aligned_cols=96  Identities=16%  Similarity=0.161  Sum_probs=60.4

Q ss_pred             CCCcccccchHHHHHHHHHhc------------CCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCC
Q 037337           91 KGYEAFESRMSTLNDILGALR------------NPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPD  158 (247)
Q Consensus        91 ~~~~~~~gR~~~~~~L~~~L~------------~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~  158 (247)
                      ....+++|.+..++.|.+++.            ....+.+.|+|++|+|||+||+.+++....     ..+.++++.-..
T Consensus       112 ~~~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~~~~-----~~~~v~~~~l~~  186 (389)
T 3vfd_A          112 VKFDDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAESNA-----TFFNISAASLTS  186 (389)
T ss_dssp             CCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHHTTC-----EEEEECSCCC--
T ss_pred             CChHHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHhhcC-----cEEEeeHHHhhc
Confidence            345679999999999988772            123478999999999999999999887543     234555443221


Q ss_pred             HHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          159 IRKVQGEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       159 ~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                      .  .       .      .........+.+........+|+||+++..
T Consensus       187 ~--~-------~------g~~~~~~~~~~~~a~~~~~~il~iDEid~l  219 (389)
T 3vfd_A          187 K--Y-------V------GEGEKLVRALFAVARELQPSIIFIDQVDSL  219 (389)
T ss_dssp             --------------------CHHHHHHHHHHHHHSSSEEEEEETGGGG
T ss_pred             c--c-------c------chHHHHHHHHHHHHHhcCCeEEEEECchhh
Confidence            0  0       0      011222333444433334589999999754

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens}

Probab=98.57  E-value=2.9e-07  Score=78.37  Aligned_cols=94  Identities=16%  Similarity=0.156  Sum_probs=60.0

Q ss_pred             CCcccccchHHHHHHHHHhc------------CCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCH
Q 037337           92 GYEAFESRMSTLNDILGALR------------NPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDI  159 (247)
Q Consensus        92 ~~~~~~gR~~~~~~L~~~L~------------~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~  159 (247)
                      ...+++|.+..++.|.+.+.            ....+.+.|+|++|+|||+||+.+++....     ..+.++++.-...
T Consensus        82 ~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~~-----~~~~i~~~~l~~~  156 (357)
T 3d8b_A           82 NWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQSGA-----TFFSISASSLTSK  156 (357)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHHHTTC-----EEEEEEGGGGCCS
T ss_pred             CHHHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHHHcCC-----eEEEEehHHhhcc
Confidence            34668999999998887763            124578999999999999999999987642     2455555432110


Q ss_pred             HHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCC
Q 037337          160 RKVQGEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWE  205 (247)
Q Consensus       160 ~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~  205 (247)
                                    . ..........+.......++.+|+||+++.
T Consensus       157 --------------~-~g~~~~~~~~~~~~a~~~~~~vl~iDEid~  187 (357)
T 3d8b_A          157 --------------W-VGEGEKMVRALFAVARCQQPAVIFIDEIDS  187 (357)
T ss_dssp             --------------S-TTHHHHHHHHHHHHHHHTCSEEEEEETHHH
T ss_pred             --------------c-cchHHHHHHHHHHHHHhcCCeEEEEeCchh
Confidence                          0 011122233333333333568999999964

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=98.54  E-value=4.1e-07  Score=80.29  Aligned_cols=50  Identities=18%  Similarity=0.298  Sum_probs=43.5

Q ss_pred             CCcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           92 GYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        92 ~~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ...+++||+.+++.+...+.......+.++|++|+|||++|+.+++....
T Consensus       178 ~ld~iiGr~~~i~~l~~~l~r~~~~~~LL~G~pG~GKT~la~~la~~l~~  227 (468)
T 3pxg_A          178 SLDPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQIIN  227 (468)
T ss_dssp             CSCCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHHHS
T ss_pred             CCCCccCcHHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHHHh
Confidence            34679999999999999997766677889999999999999999998743

>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=98.53  E-value=9.4e-08  Score=73.23  Aligned_cols=117  Identities=15%  Similarity=0.110  Sum_probs=64.3

Q ss_pred             chHHHHHHHHHhcC---CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCC
Q 037337           99 RMSTLNDILGALRN---PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFR  175 (247)
Q Consensus        99 R~~~~~~L~~~L~~---~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~  175 (247)
                      +...++.+.+++.+   .....+.|+|++|+|||||++.+++.......+. ++|+      +..++...+...+.....
T Consensus        19 ~~~~~~~~~~~~~~~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~~-~~~~------~~~~~~~~~~~~~~~~~~   91 (180)
T 3ec2_A           19 QNRALLTIRVFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAIYEKKGIR-GYFF------DTKDLIFRLKHLMDEGKD   91 (180)
T ss_dssp             HHHHHHHHHHHHHSCCGGGCCEEEECCSSSSSHHHHHHHHHHHHHHHSCCC-CCEE------EHHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHHHhccccCCCEEEEECCCCCCHHHHHHHHHHHHHHHcCCe-EEEE------EHHHHHHHHHHHhcCchH
Confidence            34445555555432   2347899999999999999999999876322222 3343      344555555444321111


Q ss_pred             CCChHHHHHHHHHHHcCCCcEEEEEeCCCC--ccchh--hhcccCCC-CCCCeEEEEeeCch
Q 037337          176 EESESGRARSLFSRLNREKRILVILDNIWE--HLDLQ--VVGIPHGD-DHKGCKVLFTARSL  232 (247)
Q Consensus       176 ~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~--~~~~~--~l~~~~~~-~~~~s~iiiTtR~~  232 (247)
                          .    .+.+.+..  .-+|||||++.  ...+.  .+...+.. ...|..+|+||...
T Consensus        92 ----~----~~~~~~~~--~~llilDE~~~~~~~~~~~~~l~~ll~~~~~~~~~ii~tsn~~  143 (180)
T 3ec2_A           92 ----T----KFLKTVLN--SPVLVLDDLGSERLSDWQRELISYIITYRYNNLKSTIITTNYS  143 (180)
T ss_dssp             ----S----HHHHHHHT--CSEEEEETCSSSCCCHHHHHHHHHHHHHHHHTTCEEEEECCCC
T ss_pred             ----H----HHHHHhcC--CCEEEEeCCCCCcCCHHHHHHHHHHHHHHHHcCCCEEEEcCCC
Confidence                1    23333333  46899999984  22221  12111111 12466788888654

>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=98.53  E-value=2.9e-07  Score=77.93  Aligned_cols=50  Identities=18%  Similarity=0.154  Sum_probs=41.4

Q ss_pred             cCCCcccccchHHHHHHHHHh-cCCCccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337           90 NKGYEAFESRMSTLNDILGAL-RNPDISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus        90 ~~~~~~~~gR~~~~~~L~~~L-~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      |....+++|++...+.|.+++ ..+....+.|+|++|+||||+++.++..+
T Consensus        10 P~~~~~~vg~~~~~~~l~~~~~~~~~~~~~ll~Gp~G~GKTtl~~~la~~l   60 (354)
T 1sxj_E           10 PKSLNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESI   60 (354)
T ss_dssp             CCSGGGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHH
T ss_pred             CCCHHHhcCCHHHHHHHHHHHhhCCCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            344567899999999999988 65544448999999999999999999965

>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=98.51  E-value=2.8e-07  Score=77.87  Aligned_cols=128  Identities=15%  Similarity=0.102  Sum_probs=72.7

Q ss_pred             cCCCcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHH
Q 037337           90 NKGYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADK  169 (247)
Q Consensus        90 ~~~~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~  169 (247)
                      |.....++|.+..++.|..++..++...+.++|++|+||||+|+.+++.......-..+..++.+.......+.. +...
T Consensus        21 p~~~~~~~g~~~~~~~L~~~i~~g~~~~~ll~Gp~G~GKTtla~~la~~l~~~~~~~~~~~~~~~~~~~~~~ir~-~i~~   99 (340)
T 1sxj_C           21 PETLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGIDVVRN-QIKD   99 (340)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCSHHHHHT-HHHH
T ss_pred             CCcHHHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHcCCCccceEEEEcCcccccHHHHHH-HHHH
Confidence            334566889999999999988877554589999999999999999999875431101133444443323322211 1111


Q ss_pred             hCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc--cchhhhcccCCCCCCCeEEEEeeCch
Q 037337          170 LGLTFREESESGRARSLFSRLNREKRILVILDNIWEH--LDLQVVGIPHGDDHKGCKVLFTARSL  232 (247)
Q Consensus       170 l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~--~~~~~l~~~~~~~~~~s~iiiTtR~~  232 (247)
                      +.....             .+.. .+-++|+|+++..  .....+...+......++++++|...
T Consensus       100 ~~~~~~-------------~~~~-~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~n~~  150 (340)
T 1sxj_C          100 FASTRQ-------------IFSK-GFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYA  150 (340)
T ss_dssp             HHHBCC-------------SSSC-SCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCG
T ss_pred             HHhhcc-------------cCCC-CceEEEEeCCCCCCHHHHHHHHHHHhcCCCCeEEEEEecCc
Confidence            100000             0012 3578899998754  22233323222223466777776543

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.50  E-value=2.3e-07  Score=82.93  Aligned_cols=66  Identities=17%  Similarity=0.138  Sum_probs=51.0

Q ss_pred             cCCCcccccchHHHHHHHHHhcC-----------------CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEE
Q 037337           90 NKGYEAFESRMSTLNDILGALRN-----------------PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSE  152 (247)
Q Consensus        90 ~~~~~~~~gR~~~~~~L~~~L~~-----------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~  152 (247)
                      |....+++|++..++.|.+|+..                 +..+.+.|+|++|+|||++|+.+++...    + .++.++
T Consensus        35 P~~~~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l~----~-~~i~in  109 (516)
T 1sxj_A           35 PTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELG----Y-DILEQN  109 (516)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTT----C-EEEEEC
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHcC----C-CEEEEe
Confidence            44457899999999999999864                 1347899999999999999999999873    2 355666


Q ss_pred             eCCCCCHH
Q 037337          153 MSQSPDIR  160 (247)
Q Consensus       153 ~~~~~~~~  160 (247)
                      ++......
T Consensus       110 ~s~~~~~~  117 (516)
T 1sxj_A          110 ASDVRSKT  117 (516)
T ss_dssp             TTSCCCHH
T ss_pred             CCCcchHH
Confidence            66655543

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=98.50  E-value=1.4e-07  Score=73.56  Aligned_cols=121  Identities=12%  Similarity=0.068  Sum_probs=65.4

Q ss_pred             Ccccccch----HHHHHHHHHhcCC----CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHH
Q 037337           93 YEAFESRM----STLNDILGALRNP----DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQG  164 (247)
Q Consensus        93 ~~~~~gR~----~~~~~L~~~L~~~----~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~  164 (247)
                      ...|++..    ..++.+..++...    ....+.|+|++|+|||+||+.+++.....  ...++|+++.      ++..
T Consensus        24 f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~G~~GtGKT~la~~i~~~~~~~--~~~~~~~~~~------~~~~   95 (202)
T 2w58_A           24 LSDVDLNDDGRIKAIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIANELAKR--NVSSLIVYVP------ELFR   95 (202)
T ss_dssp             TTSSCCSSHHHHHHHHHHHHHHHHCCSSCCCCEEEEECSTTSSHHHHHHHHHHHHHTT--TCCEEEEEHH------HHHH
T ss_pred             HhhccCCChhHHHHHHHHHHHHHHhhhccCCCeEEEECCCCCCHHHHHHHHHHHHHHc--CCeEEEEEhH------HHHH
Confidence            34455433    3445555555432    12789999999999999999999987654  2345666543      4444


Q ss_pred             HHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc--cchhh--hcc-cCCCC-CCCeEEEEeeCc
Q 037337          165 EIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH--LDLQV--VGI-PHGDD-HKGCKVLFTARS  231 (247)
Q Consensus       165 ~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~--~~~~~--l~~-~~~~~-~~~s~iiiTtR~  231 (247)
                      .+...+..    ...    ..+.+.+..  .-+|||||++..  ..|..  +.. .+... ..+.++|+||..
T Consensus        96 ~~~~~~~~----~~~----~~~~~~~~~--~~~lilDei~~~~~~~~~~~~ll~~~l~~~~~~~~~~i~tsn~  158 (202)
T 2w58_A           96 ELKHSLQD----QTM----NEKLDYIKK--VPVLMLDDLGAEAMSSWVRDDVFGPILQYRMFENLPTFFTSNF  158 (202)
T ss_dssp             HHHHC-------CCC----HHHHHHHHH--SSEEEEEEECCC---CCGGGTTHHHHHHHHHHTTCCEEEEESS
T ss_pred             HHHHHhcc----chH----HHHHHHhcC--CCEEEEcCCCCCcCCHHHHHHHHHHHHHHHHhCCCCEEEEcCC
Confidence            44332211    111    222333333  248999999653  22211  211 11111 235568888874

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=98.49  E-value=3.5e-07  Score=86.44  Aligned_cols=102  Identities=13%  Similarity=0.201  Sum_probs=62.5

Q ss_pred             CCcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCC-----CCEEEEEEeCCCCCHHHHHHHH
Q 037337           92 GYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKL-----FDLVVFSEMSQSPDIRKVQGEI  166 (247)
Q Consensus        92 ~~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~-----f~~~~wv~~~~~~~~~~l~~~i  166 (247)
                      ...+++||+.++..+...+.......+.++|++|+|||+||+.+++.......     -..+++++++.-..        
T Consensus       168 ~ld~viGr~~~i~~l~~~l~~~~~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~l~~--------  239 (854)
T 1qvr_A          168 KLDPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLA--------  239 (854)
T ss_dssp             CSCCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-------------
T ss_pred             CCcccCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeehHHhhc--------
Confidence            35679999999999999998766667889999999999999999998743210     12344554432110        


Q ss_pred             HHHhCCCCCCCChHHHHHHHHHHHcC-CCcEEEEEeCCCCc
Q 037337          167 ADKLGLTFREESESGRARSLFSRLNR-EKRILVILDNIWEH  206 (247)
Q Consensus       167 ~~~l~~~~~~~~~~~~~~~l~~~l~~-~kr~LlvlDdv~~~  206 (247)
                          +.. ...........+.+.+.. .++.+|+||+++..
T Consensus       240 ----g~~-~~g~~~~~l~~~~~~~~~~~~~~iL~IDEi~~l  275 (854)
T 1qvr_A          240 ----GAK-YRGEFEERLKAVIQEVVQSQGEVILFIDELHTV  275 (854)
T ss_dssp             -----------CHHHHHHHHHHHHHTTCSSEEEEECCC---
T ss_pred             ----cCc-cchHHHHHHHHHHHHHHhcCCCeEEEEecHHHH
Confidence                000 011223334444444433 35689999999865

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=98.49  E-value=2.1e-06  Score=80.06  Aligned_cols=102  Identities=18%  Similarity=0.277  Sum_probs=66.6

Q ss_pred             CCcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCC----CCEEEE-EEeCCCCCHHHHHHHH
Q 037337           92 GYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKL----FDLVVF-SEMSQSPDIRKVQGEI  166 (247)
Q Consensus        92 ~~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~----f~~~~w-v~~~~~~~~~~l~~~i  166 (247)
                      ...+++||+.+++.+.+.|.......+.|+|++|+|||++|+.++........    ..+.+| ++++..          
T Consensus       184 ~~d~~iGr~~~i~~l~~~l~~~~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~~~~l----------  253 (758)
T 1r6b_X          184 GIDPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSL----------  253 (758)
T ss_dssp             CSCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC------------
T ss_pred             CCCCccCCHHHHHHHHHHHhccCCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEcHHHH----------
Confidence            35679999999999999998776778899999999999999999998743211    123333 222111          


Q ss_pred             HHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          167 ADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       167 ~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                         +.........+.....+.+.+...++.+|++|+++..
T Consensus       254 ---~~~~~~~g~~e~~l~~~~~~~~~~~~~iL~IDEi~~l  290 (758)
T 1r6b_X          254 ---LAGTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTI  290 (758)
T ss_dssp             ----CCCCCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTT
T ss_pred             ---hccccccchHHHHHHHHHHHHHhcCCeEEEEechHHH
Confidence               0001111233344455555554445689999999865

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=98.48  E-value=1.3e-06  Score=72.13  Aligned_cols=95  Identities=14%  Similarity=0.147  Sum_probs=61.2

Q ss_pred             CCcccccchHHHHHHHHHhcC------------CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCH
Q 037337           92 GYEAFESRMSTLNDILGALRN------------PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDI  159 (247)
Q Consensus        92 ~~~~~~gR~~~~~~L~~~L~~------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~  159 (247)
                      ...+++|.+..++.|.+++..            .....+.|+|++|+|||+||+.+++.....     .+.++++.... 
T Consensus        19 ~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~~~~-----~~~i~~~~l~~-   92 (297)
T 3b9p_A           19 EWTDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATECSAT-----FLNISAASLTS-   92 (297)
T ss_dssp             CGGGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHTTCE-----EEEEESTTTSS-
T ss_pred             CHHHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHhCCC-----eEEeeHHHHhh-
Confidence            446799999999998887631            235789999999999999999999876422     34455543211 


Q ss_pred             HHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          160 RKVQGEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       160 ~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                                   . ...........+.......++.+|+||+++..
T Consensus        93 -------------~-~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l  125 (297)
T 3b9p_A           93 -------------K-YVGDGEKLVRALFAVARHMQPSIIFIDEVDSL  125 (297)
T ss_dssp             -------------S-SCSCHHHHHHHHHHHHHHTCSEEEEEETGGGT
T ss_pred             -------------c-ccchHHHHHHHHHHHHHHcCCcEEEeccHHHh
Confidence                         0 01122233333444443335689999999754

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A

Probab=98.46  E-value=1.4e-06  Score=76.30  Aligned_cols=48  Identities=21%  Similarity=0.218  Sum_probs=39.2

Q ss_pred             CCcccccchHHHHHHHHHhc------------CCCccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337           92 GYEAFESRMSTLNDILGALR------------NPDISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus        92 ~~~~~~gR~~~~~~L~~~L~------------~~~~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ...+++|.+...+.|.+.+.            ....+.+.|+|++|+|||+||+.+++..
T Consensus       132 ~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~  191 (444)
T 2zan_A          132 KWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEA  191 (444)
T ss_dssp             CGGGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHC
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHc
Confidence            45678999998888887662            1234789999999999999999999986

>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=98.42  E-value=6.4e-07  Score=78.41  Aligned_cols=124  Identities=15%  Similarity=0.211  Sum_probs=69.7

Q ss_pred             Ccccc-cchH--HHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHH
Q 037337           93 YEAFE-SRMS--TLNDILGALRNPD-ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIAD  168 (247)
Q Consensus        93 ~~~~~-gR~~--~~~~L~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~  168 (247)
                      ...|+ |...  ....+........ ...+.|+|++|+||||||+.+++.......-..++|+++.      .+...+..
T Consensus       104 fd~fv~g~~n~~a~~~~~~~a~~~~~~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~~~------~~~~~~~~  177 (440)
T 2z4s_A          104 FENFVVGPGNSFAYHAALEVAKHPGRYNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSE------KFLNDLVD  177 (440)
T ss_dssp             GGGCCCCTTTHHHHHHHHHHHHSTTSSCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEEHH------HHHHHHHH
T ss_pred             hhhcCCCCchHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHH------HHHHHHHH
Confidence            34566 5333  3334444444433 6789999999999999999999987544111235666543      33444444


Q ss_pred             HhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCccc----hhhhcccCCC-CCCCeEEEEeeCc
Q 037337          169 KLGLTFREESESGRARSLFSRLNREKRILVILDNIWEHLD----LQVVGIPHGD-DHKGCKVLFTARS  231 (247)
Q Consensus       169 ~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~~~----~~~l~~~~~~-~~~~s~iiiTtR~  231 (247)
                      .+...    .    ...+.+.+.. +..+|+|||++....    .+.+...+.. ...|..||+||.+
T Consensus       178 ~~~~~----~----~~~~~~~~~~-~~~vL~IDEi~~l~~~~~~q~~l~~~l~~l~~~~~~iIitt~~  236 (440)
T 2z4s_A          178 SMKEG----K----LNEFREKYRK-KVDILLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDR  236 (440)
T ss_dssp             HHHTT----C----HHHHHHHHTT-TCSEEEEECGGGGSSCHHHHHHHHHHHHHHHTTTCEEEEEESS
T ss_pred             HHHcc----c----HHHHHHHhcC-CCCEEEEeCcccccCChHHHHHHHHHHHHHHHCCCeEEEEECC
Confidence            44221    1    1233344442 357999999976532    2222222211 2346788898876

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=98.40  E-value=7.1e-06  Score=69.69  Aligned_cols=50  Identities=20%  Similarity=0.312  Sum_probs=39.4

Q ss_pred             CcccccchHHHHH---HHHHhcCCCc--cEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337           93 YEAFESRMSTLND---ILGALRNPDI--SMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus        93 ~~~~~gR~~~~~~---L~~~L~~~~~--~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      ...|+|++...+.   +...+.....  ..+.|+|++|+|||+||+.+++.....
T Consensus        43 ~~~ivG~~~~~~~l~~l~~~~~~~~~~~~~vLl~GppGtGKT~la~~la~~l~~~   97 (368)
T 3uk6_A           43 SQGMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQALGPD   97 (368)
T ss_dssp             ETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEEESTTSSHHHHHHHHHHHHCSS
T ss_pred             hhhccChHHHHHHHHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHHHHHHHhccc
Confidence            5679999988766   4555554433  589999999999999999999988643

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=98.39  E-value=2.5e-06  Score=72.58  Aligned_cols=95  Identities=18%  Similarity=0.218  Sum_probs=59.4

Q ss_pred             CCcccccchHHHHHHHHHhc------------CCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCH
Q 037337           92 GYEAFESRMSTLNDILGALR------------NPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDI  159 (247)
Q Consensus        92 ~~~~~~gR~~~~~~L~~~L~------------~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~  159 (247)
                      ...+++|.+..++.|.+.+.            ....+.+.|+|++|+|||+||+.+++.....     .+.++++     
T Consensus        49 ~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~~-----~~~v~~~-----  118 (355)
T 2qp9_X           49 KWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANST-----FFSVSSS-----  118 (355)
T ss_dssp             CGGGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHHTCE-----EEEEEHH-----
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCCC-----EEEeeHH-----
Confidence            44678999998888887662            1123568899999999999999999987532     3334322     


Q ss_pred             HHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          160 RKVQGEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       160 ~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                       ++..        .... ........+.......++.+|+||+++..
T Consensus       119 -~l~~--------~~~g-~~~~~~~~~f~~a~~~~~~vl~iDEid~l  155 (355)
T 2qp9_X          119 -DLVS--------KWMG-ESEKLVKQLFAMARENKPSIIFIDQVDAL  155 (355)
T ss_dssp             -HHHS--------CC----CHHHHHHHHHHHHHTSSEEEEEECGGGG
T ss_pred             -HHhh--------hhcc-hHHHHHHHHHHHHHHcCCeEEEEechHhh
Confidence             1111        0001 11233344444443335689999999864

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=98.38  E-value=8.6e-08  Score=70.83  Aligned_cols=46  Identities=7%  Similarity=0.031  Sum_probs=33.0

Q ss_pred             cccccchHHHHHHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337           94 EAFESRMSTLNDILGALRN--PDISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus        94 ~~~~gR~~~~~~L~~~L~~--~~~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ..++|+...++++.+.+..  .....|.|+|++|+|||++|+.+++..
T Consensus         4 ~~~iG~s~~~~~l~~~~~~~~~~~~~vll~G~~GtGKt~lA~~i~~~~   51 (143)
T 3co5_A            4 FDKLGNSAAIQEMNREVEAAAKRTSPVFLTGEAGSPFETVARYFHKNG   51 (143)
T ss_dssp             ----CCCHHHHHHHHHHHHHHTCSSCEEEEEETTCCHHHHHGGGCCTT
T ss_pred             cCceeCCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhC
Confidence            3578888888888777642  233568899999999999999987643

>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=98.38  E-value=6.6e-07  Score=74.98  Aligned_cols=113  Identities=16%  Similarity=0.094  Sum_probs=62.7

Q ss_pred             HHHHHHHHhcCC--CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCCh
Q 037337          102 TLNDILGALRNP--DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESE  179 (247)
Q Consensus       102 ~~~~L~~~L~~~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~  179 (247)
                      ....+..+...+  ....+.|+|++|+||||||+.+++.....  -..++++++.      ++...+...+..    .. 
T Consensus        22 a~~~~~~~~~~~~~~~~~lll~G~~GtGKT~la~~i~~~~~~~--~~~~~~i~~~------~~~~~~~~~~~~----~~-   88 (324)
T 1l8q_A           22 AYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKR--GYRVIYSSAD------DFAQAMVEHLKK----GT-   88 (324)
T ss_dssp             HHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHT--TCCEEEEEHH------HHHHHHHHHHHH----TC-
T ss_pred             HHHHHHHHHhCcCCCCCeEEEECCCCCcHHHHHHHHHHHHHHC--CCEEEEEEHH------HHHHHHHHHHHc----Cc-
Confidence            334455555443  34678999999999999999999987543  1235566543      333333333321    01 


Q ss_pred             HHHHHHHHHHHcCCCcEEEEEeCCCCccc----hhhhcccCCC-CCCCeEEEEeeCch
Q 037337          180 SGRARSLFSRLNREKRILVILDNIWEHLD----LQVVGIPHGD-DHKGCKVLFTARSL  232 (247)
Q Consensus       180 ~~~~~~l~~~l~~~kr~LlvlDdv~~~~~----~~~l~~~~~~-~~~~s~iiiTtR~~  232 (247)
                         ...+.+.+..  ..+|+|||++....    ...+...+.. ...+..+|+||.+.
T Consensus        89 ---~~~~~~~~~~--~~vL~iDEi~~l~~~~~~~~~l~~~l~~~~~~~~~iii~~~~~  141 (324)
T 1l8q_A           89 ---INEFRNMYKS--VDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRH  141 (324)
T ss_dssp             ---HHHHHHHHHT--CSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSC
T ss_pred             ---HHHHHHHhcC--CCEEEEcCcccccCChHHHHHHHHHHHHHHHCCCeEEEEecCC
Confidence               1222333333  47999999976531    1222222211 12356788888643

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=98.37  E-value=1.6e-06  Score=72.95  Aligned_cols=50  Identities=14%  Similarity=0.258  Sum_probs=41.3

Q ss_pred             CCCcccccchHHHHHHHHHhcC-----CCccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337           91 KGYEAFESRMSTLNDILGALRN-----PDISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus        91 ~~~~~~~gR~~~~~~L~~~L~~-----~~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ....+++|++..++.+..++..     .....+.|+|++|+|||+||+.+++...
T Consensus        26 ~~~~~iiG~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~ia~~~~   80 (338)
T 3pfi_A           26 SNFDGYIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISYEMS   80 (338)
T ss_dssp             CSGGGCCSCHHHHHHHHHHHHHHHHTTSCCCCEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CCHHHhCChHHHHHHHHHHHHHHHhcCCCCCeEEEECcCCCCHHHHHHHHHHHhC
Confidence            3457799999999998888752     3456789999999999999999988754

>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=98.34  E-value=2.4e-06  Score=71.09  Aligned_cols=117  Identities=13%  Similarity=0.049  Sum_probs=71.0

Q ss_pred             cchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhccc--CCCCEEEEEEeCC-CCCHHHHHHHHHHHhCCCC
Q 037337           98 SRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNH--KLFDLVVFSEMSQ-SPDIRKVQGEIADKLGLTF  174 (247)
Q Consensus        98 gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~--~~f~~~~wv~~~~-~~~~~~l~~~i~~~l~~~~  174 (247)
                      |-++.++.|.+.+..++.....++|++|+|||++|..+++.....  .+.+ ..+++.+. ...++.+ +.+...+...+
T Consensus         1 g~~~~~~~L~~~i~~~~~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d-~~~l~~~~~~~~id~i-r~li~~~~~~p   78 (305)
T 2gno_A            1 GAKDQLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASD-VLEIDPEGENIGIDDI-RTIKDFLNYSP   78 (305)
T ss_dssp             ---CHHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTT-EEEECCSSSCBCHHHH-HHHHHHHTSCC
T ss_pred             ChHHHHHHHHHHHHCCCCcEEEEECCCCCCHHHHHHHHHHhCchhhccCCC-EEEEcCCcCCCCHHHH-HHHHHHHhhcc
Confidence            345566777787776667788999999999999999999863211  1233 35555543 3343332 33444443221


Q ss_pred             CCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc--cchhhhcccCCCCCCCeEEEEeeCch
Q 037337          175 REESESGRARSLFSRLNREKRILVILDNIWEH--LDLQVVGIPHGDDHKGCKVLFTARSL  232 (247)
Q Consensus       175 ~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~--~~~~~l~~~~~~~~~~s~iiiTtR~~  232 (247)
                      .                .+++-++|+|+++..  ...+.+...+......+.+|++|.+.
T Consensus        79 ~----------------~~~~kvviIdead~lt~~a~naLLk~LEep~~~t~fIl~t~~~  122 (305)
T 2gno_A           79 E----------------LYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRW  122 (305)
T ss_dssp             S----------------SSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCG
T ss_pred             c----------------cCCceEEEeccHHHhCHHHHHHHHHHHhCCCCCeEEEEEECCh
Confidence            1                124678999999875  33445544444445678888877554

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=98.32  E-value=2.4e-06  Score=79.70  Aligned_cols=49  Identities=16%  Similarity=0.278  Sum_probs=43.3

Q ss_pred             CCcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337           92 GYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus        92 ~~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ...+++||+.+++.+...+......-+.++|++|+|||++|+.+++...
T Consensus       178 ~ld~iiG~~~~i~~l~~~l~~~~~~~vLL~G~pGtGKT~la~~la~~l~  226 (758)
T 3pxi_A          178 SLDPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQII  226 (758)
T ss_dssp             CSCCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHHH
T ss_pred             CCCCccCchHHHHHHHHHHhCCCCCCeEEECCCCCCHHHHHHHHHHHHh
Confidence            3567999999999999999876667789999999999999999999873

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=98.29  E-value=5e-06  Score=70.06  Aligned_cols=42  Identities=14%  Similarity=0.181  Sum_probs=34.0

Q ss_pred             hHHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          100 MSTLNDILGALRNPD-ISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       100 ~~~~~~L~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ++..+.|...+..++ ...+.++|++|+|||++|+.+++.+..
T Consensus         8 ~~~~~~l~~~i~~~~~~~a~L~~G~~G~GKt~~a~~la~~l~~   50 (334)
T 1a5t_A            8 RPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLC   50 (334)
T ss_dssp             HHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHcCCcceeEEEECCCCchHHHHHHHHHHHHhC
Confidence            556677777776654 467899999999999999999998754

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=98.29  E-value=3.8e-07  Score=75.75  Aligned_cols=105  Identities=16%  Similarity=0.203  Sum_probs=61.5

Q ss_pred             ccccchHHHHHHHHHhcCC---------CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHH
Q 037337           95 AFESRMSTLNDILGALRNP---------DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGE  165 (247)
Q Consensus        95 ~~~gR~~~~~~L~~~L~~~---------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~  165 (247)
                      .++|.+..++.+...+...         ....+.++|++|+|||++|+.+++.....  -...+.++++.......    
T Consensus        18 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~~~~--~~~~~~~~~~~~~~~~~----   91 (311)
T 4fcw_A           18 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDT--EEAMIRIDMTEYMEKHA----   91 (311)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHHHHSC--GGGEEEEEGGGCCSTTH----
T ss_pred             hcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHHHcCC--CcceEEeeccccccccc----
Confidence            4678888888877766421         13579999999999999999999987543  12356666664433211    


Q ss_pred             HHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          166 IADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       166 i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                      ....++.......... ...+.+.+......+|+||+++..
T Consensus        92 ~~~l~g~~~~~~~~~~-~~~~~~~~~~~~~~vl~lDEi~~l  131 (311)
T 4fcw_A           92 VSRLIGAPPGYVGYEE-GGQLTEAVRRRPYSVILFDAIEKA  131 (311)
T ss_dssp             HHHHHCCCTTSTTTTT-CCHHHHHHHHCSSEEEEEETGGGS
T ss_pred             HHHhcCCCCccccccc-cchHHHHHHhCCCeEEEEeChhhc
Confidence            1122332211111000 012333443334479999999865

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.26  E-value=7.6e-06  Score=71.17  Aligned_cols=94  Identities=17%  Similarity=0.251  Sum_probs=60.1

Q ss_pred             CcccccchHHHHHHHHHhc-------------CCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCH
Q 037337           93 YEAFESRMSTLNDILGALR-------------NPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDI  159 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L~-------------~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~  159 (247)
                      ..++.|-++.++.|.+.+.             -..++-+.+||++|+|||.||+.+++.....     .+.++.+.-.+ 
T Consensus       180 ~~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~~~~-----~~~v~~s~l~s-  253 (437)
T 4b4t_L          180 FDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIGAN-----FIFSPASGIVD-  253 (437)
T ss_dssp             SGGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCE-----EEEEEGGGTCC-
T ss_pred             hhHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCC-----EEEEehhhhcc-
Confidence            4567788887777766542             1245789999999999999999999987754     34454433221 


Q ss_pred             HHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          160 RKVQGEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       160 ~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                                   . ...........+........+++|++|+++..
T Consensus       254 -------------k-~~Gese~~ir~~F~~A~~~~P~IifiDEiDai  286 (437)
T 4b4t_L          254 -------------K-YIGESARIIREMFAYAKEHEPCIIFMDEVDAI  286 (437)
T ss_dssp             -------------S-SSSHHHHHHHHHHHHHHHSCSEEEEEECCCSS
T ss_pred             -------------c-cchHHHHHHHHHHHHHHhcCCceeeeeccccc
Confidence                         0 00111223334444443446799999999854

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=98.25  E-value=4.6e-06  Score=69.19  Aligned_cols=94  Identities=14%  Similarity=0.225  Sum_probs=58.6

Q ss_pred             CCcccccchHHHHHHHHHhcC-------------CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCC
Q 037337           92 GYEAFESRMSTLNDILGALRN-------------PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPD  158 (247)
Q Consensus        92 ~~~~~~gR~~~~~~L~~~L~~-------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~  158 (247)
                      ...+++|.+..++.|.+++..             .....+.|+|++|+|||+||+.+++.....     .+.++      
T Consensus        13 ~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~~~~-----~i~v~------   81 (301)
T 3cf0_A           13 TWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQAN-----FISIK------   81 (301)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHTTCE-----EEEEC------
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHhCCC-----EEEEE------
Confidence            345688988888887766531             345679999999999999999999876422     23332      


Q ss_pred             HHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCC
Q 037337          159 IRKVQGEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWE  205 (247)
Q Consensus       159 ~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~  205 (247)
                      ..++....   ++..      ......+.+......+.+|+||+++.
T Consensus        82 ~~~l~~~~---~g~~------~~~~~~~f~~a~~~~p~il~iDEid~  119 (301)
T 3cf0_A           82 GPELLTMW---FGES------EANVREIFDKARQAAPCVLFFDELDS  119 (301)
T ss_dssp             HHHHHHHH---HTTC------TTHHHHHHHHHHHTCSEEEEECSTTH
T ss_pred             hHHHHhhh---cCch------HHHHHHHHHHHHhcCCeEEEEEChHH
Confidence            22332221   2211      11223333333333569999999984

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.25  E-value=5.8e-06  Score=70.99  Aligned_cols=94  Identities=17%  Similarity=0.208  Sum_probs=60.1

Q ss_pred             CcccccchHHHHHHHHHhc-------------CCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCH
Q 037337           93 YEAFESRMSTLNDILGALR-------------NPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDI  159 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L~-------------~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~  159 (247)
                      ..++.|-++..+.|.+.+.             -..++-+.++||+|+|||.||+.+++.....     .+.++.+.-.+ 
T Consensus       147 ~~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~~~~-----f~~v~~s~l~s-  220 (405)
T 4b4t_J          147 YDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTDCK-----FIRVSGAELVQ-  220 (405)
T ss_dssp             GGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHHTCE-----EEEEEGGGGSC-
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhhCCC-----ceEEEhHHhhc-
Confidence            4567788888877766542             1235778999999999999999999987754     24444332211 


Q ss_pred             HHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          160 RKVQGEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       160 ~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                                   . .....+..+..+.+......+++|++|+++..
T Consensus       221 -------------k-~vGese~~vr~lF~~Ar~~aP~IIFiDEiDai  253 (405)
T 4b4t_J          221 -------------K-YIGEGSRMVRELFVMAREHAPSIIFMDEIDSI  253 (405)
T ss_dssp             -------------S-STTHHHHHHHHHHHHHHHTCSEEEEEESSSCC
T ss_pred             -------------c-ccchHHHHHHHHHHHHHHhCCceEeeecchhh
Confidence                         0 00112233344444444446799999999854

>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=98.21  E-value=6.8e-07  Score=72.70  Aligned_cols=61  Identities=11%  Similarity=0.147  Sum_probs=41.0

Q ss_pred             cccccchHHHHHHHHHhc--CCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCC
Q 037337           94 EAFESRMSTLNDILGALR--NPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQS  156 (247)
Q Consensus        94 ~~~~gR~~~~~~L~~~L~--~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~  156 (247)
                      ..++|+...+..+.+.+.  ......+.|+|++|+|||+||+.+++.....  -...+.++++..
T Consensus         6 ~~~ig~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKt~la~~i~~~~~~~--~~~~~~v~~~~~   68 (265)
T 2bjv_A            6 DNLLGEANSFLEVLEQVSHLAPLDKPVLIIGERGTGKELIASRLHYLSSRW--QGPFISLNCAAL   68 (265)
T ss_dssp             ----CCCHHHHHHHHHHHHHTTSCSCEEEECCTTSCHHHHHHHHHHTSTTT--TSCEEEEEGGGS
T ss_pred             ccceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhcCcc--CCCeEEEecCCC
Confidence            457899888888776553  1233678899999999999999999875432  123466776654

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.19  E-value=5.9e-06  Score=71.82  Aligned_cols=94  Identities=14%  Similarity=0.197  Sum_probs=59.3

Q ss_pred             CCcccccchHHHHHHHHHhc----C---------CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCC
Q 037337           92 GYEAFESRMSTLNDILGALR----N---------PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPD  158 (247)
Q Consensus        92 ~~~~~~gR~~~~~~L~~~L~----~---------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~  158 (247)
                      ...++.|-++..+.|.+.+.    .         ..++-|.+|||+|+|||.||+.+++.....     .+.++.+.-.+
T Consensus       179 t~~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~~~~-----f~~v~~s~l~~  253 (434)
T 4b4t_M          179 TYSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNAT-----FLKLAAPQLVQ  253 (434)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCE-----EEEEEGGGGCS
T ss_pred             ChHhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHhCCC-----EEEEehhhhhh
Confidence            35678888888888776542    1         236789999999999999999999987754     23444332111


Q ss_pred             HHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCC
Q 037337          159 IRKVQGEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWE  205 (247)
Q Consensus       159 ~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~  205 (247)
                                    .. ....+.....+........+++|++|+++.
T Consensus       254 --------------~~-vGese~~ir~lF~~A~~~aP~IifiDEiDa  285 (434)
T 4b4t_M          254 --------------MY-IGEGAKLVRDAFALAKEKAPTIIFIDELDA  285 (434)
T ss_dssp             --------------SC-SSHHHHHHHHHHHHHHHHCSEEEEEECTHH
T ss_pred             --------------cc-cchHHHHHHHHHHHHHhcCCeEEeecchhh
Confidence                          00 011122333344333333579999999874

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=98.19  E-value=8.4e-07  Score=72.18  Aligned_cols=50  Identities=20%  Similarity=0.258  Sum_probs=36.8

Q ss_pred             CCcccccchHHHHHHHHHhc---C---------CCccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           92 GYEAFESRMSTLNDILGALR---N---------PDISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        92 ~~~~~~gR~~~~~~L~~~L~---~---------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ...+++|.+...+.|.+.+.   .         .....+.|+|++|+|||+||+.+++....
T Consensus         9 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~   70 (268)
T 2r62_A            9 RFKDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHV   70 (268)
T ss_dssp             CSTTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHHTC
T ss_pred             CHHHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHhCC
Confidence            34668888877776665443   1         12345789999999999999999998754

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.16  E-value=1.1e-05  Score=69.93  Aligned_cols=93  Identities=19%  Similarity=0.169  Sum_probs=59.2

Q ss_pred             CcccccchHHHHHHHHHhc----C---------CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCH
Q 037337           93 YEAFESRMSTLNDILGALR----N---------PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDI  159 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L~----~---------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~  159 (247)
                      ..++.|-++..+.|.+.+.    .         ...+-+.++|++|+|||+||+.+++.....     .+.++.+.-.+ 
T Consensus       171 ~~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~~~~-----~~~v~~~~l~~-  244 (428)
T 4b4t_K          171 YADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAA-----FIRVNGSEFVH-  244 (428)
T ss_dssp             GGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHHTCE-----EEEEEGGGTCC-
T ss_pred             HHHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHhCCC-----eEEEecchhhc-
Confidence            4567888888887766543    1         235779999999999999999999987654     34454433211 


Q ss_pred             HHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCC
Q 037337          160 RKVQGEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWE  205 (247)
Q Consensus       160 ~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~  205 (247)
                                    ......+..+..+........+++|++|+++.
T Consensus       245 --------------~~~Ge~e~~ir~lF~~A~~~aP~IifiDEiD~  276 (428)
T 4b4t_K          245 --------------KYLGEGPRMVRDVFRLARENAPSIIFIDEVDS  276 (428)
T ss_dssp             --------------SSCSHHHHHHHHHHHHHHHTCSEEEEEECTHH
T ss_pred             --------------cccchhHHHHHHHHHHHHHcCCCeeechhhhh
Confidence                          00011122333444444334579999999863

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=98.16  E-value=1e-05  Score=65.40  Aligned_cols=50  Identities=24%  Similarity=0.286  Sum_probs=36.8

Q ss_pred             CCCcccccchHHHHHHHHH---hcC---------CCccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337           91 KGYEAFESRMSTLNDILGA---LRN---------PDISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus        91 ~~~~~~~gR~~~~~~L~~~---L~~---------~~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ....+++|.+...+.|.+.   +..         ....-+.|+|++|+||||||+.+++...
T Consensus         9 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~   70 (257)
T 1lv7_A            9 TTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAK   70 (257)
T ss_dssp             CCGGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             CCHHHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHcC
Confidence            3456788988777666543   322         1245688999999999999999998764

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A*

Probab=98.15  E-value=1.3e-05  Score=70.87  Aligned_cols=48  Identities=21%  Similarity=0.287  Sum_probs=39.2

Q ss_pred             CcccccchHHHHHHHHHhc-------------CCCccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337           93 YEAFESRMSTLNDILGALR-------------NPDISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L~-------------~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ..+++|.+..++.|.+++.             ......+.|+|++|+|||+||+.+++...
T Consensus       203 ~~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~~  263 (489)
T 3hu3_A          203 YDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG  263 (489)
T ss_dssp             GGGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHCS
T ss_pred             HHHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHhC
Confidence            4568999999998887764             23456799999999999999999988763

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.13  E-value=1.6e-05  Score=69.34  Aligned_cols=94  Identities=16%  Similarity=0.203  Sum_probs=60.3

Q ss_pred             CcccccchHHHHHHHHHhc-------------CCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCH
Q 037337           93 YEAFESRMSTLNDILGALR-------------NPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDI  159 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L~-------------~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~  159 (247)
                      ..++.|-++..+.|.+.+.             -...+-|.++|++|+|||.||+.+++.....     .+.++.+.-.+ 
T Consensus       208 ~~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~~~~-----fi~vs~s~L~s-  281 (467)
T 4b4t_H          208 YSDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDAT-----FIRVIGSELVQ-  281 (467)
T ss_dssp             CSSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHHTCE-----EEEEEGGGGCC-
T ss_pred             HHHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhccCCC-----eEEEEhHHhhc-
Confidence            4568888888888766542             1346889999999999999999999987754     24444332111 


Q ss_pred             HHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          160 RKVQGEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       160 ~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                                   .. ....+..+..+........+++|++|+++..
T Consensus       282 -------------k~-vGesek~ir~lF~~Ar~~aP~IIfiDEiDai  314 (467)
T 4b4t_H          282 -------------KY-VGEGARMVRELFEMARTKKACIIFFDEIDAV  314 (467)
T ss_dssp             -------------CS-SSHHHHHHHHHHHHHHHTCSEEEEEECCTTT
T ss_pred             -------------cc-CCHHHHHHHHHHHHHHhcCCceEeecccccc
Confidence                         00 0111223344444444446799999999854

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E*

Probab=98.13  E-value=8.9e-06  Score=71.65  Aligned_cols=94  Identities=21%  Similarity=0.328  Sum_probs=55.7

Q ss_pred             CCcccccchHHHHHHHHH---hcCC---------CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCH
Q 037337           92 GYEAFESRMSTLNDILGA---LRNP---------DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDI  159 (247)
Q Consensus        92 ~~~~~~gR~~~~~~L~~~---L~~~---------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~  159 (247)
                      ...+++|.++.+++|.+.   +...         ..+-+.|+|++|+|||+||+.++......     .+.++++.....
T Consensus        14 ~f~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~~~~-----f~~is~~~~~~~   88 (476)
T 2ce7_A           14 TFKDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVP-----FFHISGSDFVEL   88 (476)
T ss_dssp             CGGGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHHTCC-----EEEEEGGGTTTC
T ss_pred             CHHHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHcCCC-----eeeCCHHHHHHH
Confidence            345688888776666544   3221         23568899999999999999999976533     244554432210


Q ss_pred             HHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCC
Q 037337          160 RKVQGEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWE  205 (247)
Q Consensus       160 ~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~  205 (247)
                                    .. .........+.+......+.+|+||+++.
T Consensus        89 --------------~~-g~~~~~~r~lf~~A~~~~p~ILfIDEid~  119 (476)
T 2ce7_A           89 --------------FV-GVGAARVRDLFAQAKAHAPCIVFIDEIDA  119 (476)
T ss_dssp             --------------CT-THHHHHHHHHHHHHHHTCSEEEEEETGGG
T ss_pred             --------------Hh-cccHHHHHHHHHHHHhcCCCEEEEechhh
Confidence                          00 00111222333333333579999999965

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.13  E-value=1.5e-05  Score=68.88  Aligned_cols=94  Identities=19%  Similarity=0.203  Sum_probs=59.3

Q ss_pred             CcccccchHHHHHHHHHhc----C---------CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCH
Q 037337           93 YEAFESRMSTLNDILGALR----N---------PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDI  159 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L~----~---------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~  159 (247)
                      ..++.|-++..+.|.+.+.    .         ...+-|.++|++|+|||.||+.+++.....     .+.++.+.-.+ 
T Consensus       181 ~~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~~~~-----fi~v~~s~l~s-  254 (437)
T 4b4t_I          181 YSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSAT-----FLRIVGSELIQ-  254 (437)
T ss_dssp             GGGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHHTCE-----EEEEESGGGCC-
T ss_pred             ceecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHhCCC-----EEEEEHHHhhh-
Confidence            4567788887777766542    1         235789999999999999999999987754     23343322110 


Q ss_pred             HHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          160 RKVQGEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       160 ~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                                   . .....+..+..+........+++|++|+++..
T Consensus       255 -------------k-~vGesek~ir~lF~~Ar~~aP~IIfiDEiDai  287 (437)
T 4b4t_I          255 -------------K-YLGDGPRLCRQIFKVAGENAPSIVFIDEIDAI  287 (437)
T ss_dssp             -------------S-SSSHHHHHHHHHHHHHHHTCSEEEEEEEESSS
T ss_pred             -------------c-cCchHHHHHHHHHHHHHhcCCcEEEEehhhhh
Confidence                         0 01112233344444444445799999999853

>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=98.12  E-value=5.7e-06  Score=65.61  Aligned_cols=62  Identities=10%  Similarity=0.127  Sum_probs=45.0

Q ss_pred             CCcccccc---hHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC
Q 037337           92 GYEAFESR---MSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQ  155 (247)
Q Consensus        92 ~~~~~~gR---~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~  155 (247)
                      ...+|+|+   +..++.+..+........+.|+|++|+|||+||+.+++.....  ...+.|++++.
T Consensus        26 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~la~~l~~~~~~~--~~~~~~~~~~~   90 (242)
T 3bos_A           26 TFTSYYPAAGNDELIGALKSAASGDGVQAIYLWGPVKSGRTHLIHAACARANEL--ERRSFYIPLGI   90 (242)
T ss_dssp             STTTSCC--CCHHHHHHHHHHHHTCSCSEEEEECSTTSSHHHHHHHHHHHHHHT--TCCEEEEEGGG
T ss_pred             ChhhccCCCCCHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHHc--CCeEEEEEHHH
Confidence            34567763   3566667776666566889999999999999999999987654  23466776643

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=98.11  E-value=5.6e-06  Score=61.46  Aligned_cols=40  Identities=15%  Similarity=0.134  Sum_probs=30.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQ  155 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~  155 (247)
                      ....++|+|+.|+|||||++.++...... .+ .++|++...
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~~~~-g~-~~~~~~~~~   74 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQALEA-GK-NAAYIDAAS   74 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHHHTT-TC-CEEEEETTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHhc-CC-cEEEEcHHH
Confidence            45789999999999999999999987643 12 256666543

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=98.09  E-value=1.8e-06  Score=71.88  Aligned_cols=61  Identities=13%  Similarity=0.205  Sum_probs=42.9

Q ss_pred             cccccchHHHHHHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCC
Q 037337           94 EAFESRMSTLNDILGALRN--PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQS  156 (247)
Q Consensus        94 ~~~~gR~~~~~~L~~~L~~--~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~  156 (247)
                      ..++|+...+..+.+.+..  .....|.|+|++|+|||++|+.+++......  ...+.++++..
T Consensus         2 ~~iig~s~~~~~~~~~~~~~a~~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~--~~~v~v~~~~~   64 (304)
T 1ojl_A            2 SHMIGSSPAMQHLLNEIAMVAPSDATVLIHGDSGTGKELVARALHACSARSD--RPLVTLNCAAL   64 (304)
T ss_dssp             -CCCCCSHHHHHHHHHHHHHCSTTSCEEEESCTTSCHHHHHHHHHHHSSCSS--SCCCEEECSSC
T ss_pred             CCcEECCHHHHHHHHHHHHHhCCCCcEEEECCCCchHHHHHHHHHHhCcccC--CCeEEEeCCCC
Confidence            3578998888888776642  3346788999999999999999988653221  12345666654

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=98.09  E-value=3.9e-06  Score=69.38  Aligned_cols=57  Identities=21%  Similarity=0.267  Sum_probs=42.8

Q ss_pred             cccccchHHHHHHHHHhcC--------------CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC
Q 037337           94 EAFESRMSTLNDILGALRN--------------PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQ  155 (247)
Q Consensus        94 ~~~~gR~~~~~~L~~~L~~--------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~  155 (247)
                      ..++|++..++.|...+..              .....+.++|++|+|||++|+.+++.....     .+.++++.
T Consensus        15 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~-----~~~i~~~~   85 (310)
T 1ofh_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAP-----FIKVEATK   85 (310)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTCC-----EEEEEGGG
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHhCCC-----EEEEcchh
Confidence            4588999998888776643              234678899999999999999999987432     34555543

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=97.99  E-value=1.7e-05  Score=62.52  Aligned_cols=113  Identities=9%  Similarity=0.132  Sum_probs=62.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCC-------------------
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFR-------------------  175 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~-------------------  175 (247)
                      ..+++|.|++|+|||||++.++......  -..+.|++...  ....+...+ ..++....                   
T Consensus        23 G~~~~i~G~~GsGKTtl~~~l~~~~~~~--~~~v~~~~~~~--~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (235)
T 2w0m_A           23 GFFIALTGEPGTGKTIFSLHFIAKGLRD--GDPCIYVTTEE--SRDSIIRQA-KQFNWDFEEYIEKKLIIIDALMKEKED   97 (235)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHHHHHH--TCCEEEEESSS--CHHHHHHHH-HHTTCCCGGGBTTTEEEEECCC----C
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHHC--CCeEEEEEccc--CHHHHHHHH-HHhcchHHHHhhCCEEEEeccccccCc
Confidence            3689999999999999999999766543  12466766543  344444333 23432211                   


Q ss_pred             -----CCChHHHHHHHHHHHcCCC--cEEEEEeCCCCcc--c---hhhhcccCC--CCCCCeEEEEeeCch
Q 037337          176 -----EESESGRARSLFSRLNREK--RILVILDNIWEHL--D---LQVVGIPHG--DDHKGCKVLFTARSL  232 (247)
Q Consensus       176 -----~~~~~~~~~~l~~~l~~~k--r~LlvlDdv~~~~--~---~~~l~~~~~--~~~~~s~iiiTtR~~  232 (247)
                           ..+..+....+...+...+  ..+||+|+.....  +   ...+...+.  ....|+.||++|...
T Consensus        98 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~llilDe~~~~~~~d~~~~~~~~~~l~~~~~~~~~~vi~~~h~~  168 (235)
T 2w0m_A           98 QWSLVNLTPEELVNKVIEAKQKLGYGKARLVIDSVSALFLDKPAMARKISYYLKRVLNKWNFTIYATSQYA  168 (235)
T ss_dssp             TTBCSSCCHHHHHHHHHHHHHHHCSSCEEEEEETGGGGSSSCGGGHHHHHHHHHHHHHHTTEEEEEEEC--
T ss_pred             eeeecCCCHHHHHHHHHHHHHhhCCCceEEEEECchHhhcCCHHHHHHHHHHHHHHHHhCCCeEEEEeccC
Confidence                 1133444444444442212  3499999987432  1   112211111  123478899998876

>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=97.95  E-value=8.3e-05  Score=59.08  Aligned_cols=91  Identities=14%  Similarity=0.075  Sum_probs=57.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccC----CCCEEEEEEeCCCCCHHHHHHHHHHHhCCCC----------CCCChH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHK----LFDLVVFSEMSQSPDIRKVQGEIADKLGLTF----------REESES  180 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~----~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~----------~~~~~~  180 (247)
                      ..++.|+|++|+|||||+..++.......    .-..++|++.........+ ..++..++...          ...+..
T Consensus        24 G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~~~~~~~~-~~~~~~~g~~~~~~~~~~~~~~~~~~~  102 (243)
T 1n0w_A           24 GSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERL-LAVAERYGLSGSDVLDNVAYARAFNTD  102 (243)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHH-HHHHHHTTCCHHHHHHTEEEEECCSHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCCCcCHHHH-HHHHHHcCCCHHHHhhCeEEEecCCHH
Confidence            47999999999999999999998633210    1256889987775555443 33445555432          111222


Q ss_pred             H---HHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          181 G---RARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       181 ~---~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                      +   ....+.+.+...+.-+||||++...
T Consensus       103 ~~~~~~~~~~~~~~~~~~~lliiD~~~~~  131 (243)
T 1n0w_A          103 HQTQLLYQASAMMVESRYALLIVDSATAL  131 (243)
T ss_dssp             HHHHHHHHHHHHHHHSCEEEEEEETSSGG
T ss_pred             HHHHHHHHHHHHHhcCCceEEEEeCchHH
Confidence            2   2334555554446789999998754

>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=97.93  E-value=9.2e-05  Score=61.48  Aligned_cols=85  Identities=12%  Similarity=0.125  Sum_probs=58.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCC------CChHHHHHHHHHHH
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFRE------ESESGRARSLFSRL  190 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~------~~~~~~~~~l~~~l  190 (247)
                      ++.|+|++|+|||||+.+++........-..++|++....++..     -++.++.+.+.      .+.++....+.+.+
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            68999999999999999998876543112458899888777653     26778766442      23333313333443


Q ss_pred             ---cCCCcEEEEEeCCCCc
Q 037337          191 ---NREKRILVILDNIWEH  206 (247)
Q Consensus       191 ---~~~kr~LlvlDdv~~~  206 (247)
                         ...+.-+||+|.+...
T Consensus       105 ~~i~~~~~~lvVIDSI~aL  123 (333)
T 3io5_A          105 DAIERGEKVVVFIDSLGNL  123 (333)
T ss_dssp             HTCCTTCCEEEEEECSTTC
T ss_pred             HHhhccCceEEEEeccccc
Confidence               5556789999998755

>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=97.93  E-value=6.2e-05  Score=63.79  Aligned_cols=85  Identities=16%  Similarity=0.192  Sum_probs=57.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCC------CCChHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFR------EESESGRARSLFS  188 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~------~~~~~~~~~~l~~  188 (247)
                      -.++.|+|++|+|||||+..++......  -..++|++.....+..     .++.++....      ..+.++....+..
T Consensus        61 G~i~~I~GppGsGKSTLal~la~~~~~~--gg~VlyId~E~s~~~~-----ra~rlgv~~~~l~i~~~~~~e~~l~~~~~  133 (356)
T 3hr8_A           61 GRIVEIFGQESSGKTTLALHAIAEAQKM--GGVAAFIDAEHALDPV-----YAKNLGVDLKSLLISQPDHGEQALEIVDE  133 (356)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHHHHHT--TCCEEEEESSCCCCHH-----HHHHHTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHhc--CCeEEEEecccccchH-----HHHHcCCchhhhhhhhccCHHHHHHHHHH
Confidence            4799999999999999999999887654  2347888877766644     4566665432      1234444444444


Q ss_pred             HHcCCCcEEEEEeCCCCc
Q 037337          189 RLNREKRILVILDNIWEH  206 (247)
Q Consensus       189 ~l~~~kr~LlvlDdv~~~  206 (247)
                      .+...+.-++|+|.+...
T Consensus       134 l~~~~~~dlvVIDSi~~l  151 (356)
T 3hr8_A          134 LVRSGVVDLIVVDSVAAL  151 (356)
T ss_dssp             HHHTSCCSEEEEECTTTC
T ss_pred             HhhhcCCCeEEehHhhhh
Confidence            444445578999997643

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=97.93  E-value=1.9e-05  Score=65.21  Aligned_cols=29  Identities=34%  Similarity=0.318  Sum_probs=25.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      .+..+.++|++|+|||+||+.+++.....
T Consensus        35 ~p~~lLl~GppGtGKT~la~aiA~~l~~~   63 (293)
T 3t15_A           35 VPLILGIWGGKGQGKSFQCELVFRKMGIN   63 (293)
T ss_dssp             CCSEEEEEECTTSCHHHHHHHHHHHHTCC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            35688899999999999999999988543

>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=97.91  E-value=3.4e-05  Score=67.71  Aligned_cols=49  Identities=14%  Similarity=0.128  Sum_probs=38.0

Q ss_pred             CcccccchHHHHHHHHH---hcCC--CccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           93 YEAFESRMSTLNDILGA---LRNP--DISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~---L~~~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ..+++|.++..+.+..+   +...  ..+.+.++|++|+|||+||+.+++....
T Consensus        36 ~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~iLl~GppGtGKT~la~ala~~l~~   89 (456)
T 2c9o_A           36 ASGLVGQENAREACGVIVELIKSKKMAGRAVLLAGPPGTGKTALALAIAQELGS   89 (456)
T ss_dssp             ETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEECCTTSSHHHHHHHHHHHHCT
T ss_pred             hhhccCHHHHHHHHHHHHHHHHhCCCCCCeEEEECCCcCCHHHHHHHHHHHhCC
Confidence            47799999887765443   3333  2367899999999999999999998764

>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=97.90  E-value=6.7e-05  Score=58.66  Aligned_cols=85  Identities=19%  Similarity=0.176  Sum_probs=52.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCC-----------C-CCC-ChHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLT-----------F-REE-SESG  181 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~-----------~-~~~-~~~~  181 (247)
                      ..++.|+|++|+|||||+..++.  . .  -..++|++.....+...+.. ++..++..           . ... ....
T Consensus        20 G~~~~i~G~~GsGKTtl~~~l~~--~-~--~~~v~~i~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (220)
T 2cvh_A           20 GVLTQVYGPYASGKTTLALQTGL--L-S--GKKVAYVDTEGGFSPERLVQ-MAETRGLNPEEALSRFILFTPSDFKEQRR   93 (220)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHH--H-H--CSEEEEEESSCCCCHHHHHH-HHHTTTCCHHHHHHHEEEECCTTTSHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH--H-c--CCcEEEEECCCCCCHHHHHH-HHHhcCCChHHHhhcEEEEecCCHHHHHH
Confidence            47899999999999999999998  2 1  24688888777556555433 33333221           0 111 1122


Q ss_pred             HHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          182 RARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       182 ~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                      ....+...+.. +.-+||||.+...
T Consensus        94 ~~~~~~~l~~~-~~~lliiD~~~~~  117 (220)
T 2cvh_A           94 VIGSLKKTVDS-NFALVVVDSITAH  117 (220)
T ss_dssp             HHHHHHHHCCT-TEEEEEEECCCCC
T ss_pred             HHHHHHHHhhc-CCCEEEEcCcHHH
Confidence            33334344434 4689999998765

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.88  E-value=6.3e-06  Score=76.93  Aligned_cols=60  Identities=22%  Similarity=0.287  Sum_probs=43.9

Q ss_pred             cccccchHHHHHHHHHhcC-------C--CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC
Q 037337           94 EAFESRMSTLNDILGALRN-------P--DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQ  155 (247)
Q Consensus        94 ~~~~gR~~~~~~L~~~L~~-------~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~  155 (247)
                      ..++|.+..++.+...+..       .  ....+.++|++|+|||++|+.+++.....  -...+.++++.
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l~~~--~~~~i~i~~s~  559 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESIFGD--EESMIRIDMSE  559 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHHHSC--TTCEEEEEGGG
T ss_pred             CcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCC--CcceEEEechh
Confidence            4588999988888776641       1  12368999999999999999999987433  23356676654

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=97.86  E-value=2.7e-05  Score=64.83  Aligned_cols=53  Identities=23%  Similarity=0.286  Sum_probs=36.2

Q ss_pred             chHHHHHHHHHhcCC---CccEEEEEcCCCCcHHHHHHHHHHHhc-ccCCCCEEEEEEe
Q 037337           99 RMSTLNDILGALRNP---DISMLGICGMGGIGKTMLEKEVARKAK-NHKLFDLVVFSEM  153 (247)
Q Consensus        99 R~~~~~~L~~~L~~~---~~~~v~I~G~~GiGKTtLa~~~~~~~~-~~~~f~~~~wv~~  153 (247)
                      +...+..+.+++...   ....+.|+|++|+|||+||..+++... ... + .+.++++
T Consensus       133 ~~~~~~~~~~~i~~~~~~~~~~lll~G~~GtGKT~La~aia~~~~~~~g-~-~v~~~~~  189 (308)
T 2qgz_A          133 RMEAFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHELSEKKG-V-STTLLHF  189 (308)
T ss_dssp             HHHHHHHHHHHHHHCSCSSCCEEEEECSTTSSHHHHHHHHHHHHHHHSC-C-CEEEEEH
T ss_pred             HHHHHHHHHHHHHhccccCCceEEEECCCCCCHHHHHHHHHHHHHHhcC-C-cEEEEEH
Confidence            334445555665531   247889999999999999999999876 442 2 3555554

>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=97.85  E-value=3.8e-05  Score=63.96  Aligned_cols=69  Identities=13%  Similarity=0.179  Sum_probs=45.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEe--CCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCC
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEM--SQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNRE  193 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~--~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  193 (247)
                      +.+.|+|++|+|||+||..++.. ..    ..++|+++  ....+             .  ...+.......+.+.+...
T Consensus       124 sviLI~GpPGsGKTtLAlqlA~~-~G----~~VlyIs~~~eE~v~-------------~--~~~~le~~l~~i~~~l~~~  183 (331)
T 2vhj_A          124 GMVIVTGKGNSGKTPLVHALGEA-LG----GKDKYATVRFGEPLS-------------G--YNTDFNVFVDDIARAMLQH  183 (331)
T ss_dssp             EEEEEECSCSSSHHHHHHHHHHH-HH----TTSCCEEEEBSCSST-------------T--CBCCHHHHHHHHHHHHHHC
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHh-CC----CCEEEEEecchhhhh-------------h--hhcCHHHHHHHHHHHHhhC
Confidence            56789999999999999999987 21    12456666  22211             0  0134455556666777653


Q ss_pred             CcEEEEEeCCCCc
Q 037337          194 KRILVILDNIWEH  206 (247)
Q Consensus       194 kr~LlvlDdv~~~  206 (247)
                       + +||+|++...
T Consensus       184 -~-LLVIDsI~aL  194 (331)
T 2vhj_A          184 -R-VIVIDSLKNV  194 (331)
T ss_dssp             -S-EEEEECCTTT
T ss_pred             -C-EEEEeccccc
Confidence             4 9999998754

>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=97.84  E-value=3e-05  Score=72.22  Aligned_cols=94  Identities=14%  Similarity=0.239  Sum_probs=58.0

Q ss_pred             CcccccchHHHHHHHHHhc----C---------CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCH
Q 037337           93 YEAFESRMSTLNDILGALR----N---------PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDI  159 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L~----~---------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~  159 (247)
                      ..++.|-++.++.|.+.+.    .         ..++-|.++|++|+|||+||+.+++.....     .++++++.    
T Consensus       203 ~~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~elg~~-----~~~v~~~~----  273 (806)
T 3cf2_A          203 YDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF-----FFLINGPE----  273 (806)
T ss_dssp             GGGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTTTCE-----EEEEEHHH----
T ss_pred             hhhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCe-----EEEEEhHH----
Confidence            3456777777776665532    1         235789999999999999999999876543     34454321    


Q ss_pred             HHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          160 RKVQGEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       160 ~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                        +.       + . .....+..+..+.+......+++|+||+++..
T Consensus       274 --l~-------s-k-~~gese~~lr~lF~~A~~~~PsIIfIDEiDal  309 (806)
T 3cf2_A          274 --IM-------S-K-LAGESESNLRKAFEEAEKNAPAIIFIDELDAI  309 (806)
T ss_dssp             --HH-------S-S-CTTHHHHHHHHHHHHHTTSCSEEEEEESGGGT
T ss_pred             --hh-------c-c-cchHHHHHHHHHHHHHHHcCCeEEEEehhccc
Confidence              10       0 0 01112233444444444446799999999754

>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=97.83  E-value=0.00011  Score=62.24  Aligned_cols=85  Identities=15%  Similarity=0.169  Sum_probs=56.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCC------CChHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFRE------ESESGRARSLFS  188 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~------~~~~~~~~~l~~  188 (247)
                      ..++.|+|++|+||||||.+++......  -..++|++.....+..     .++.++...+.      .+..+....+..
T Consensus        61 G~iv~I~G~pGsGKTtLal~la~~~~~~--g~~vlyi~~E~~~~~~-----~a~~lG~~~~~l~i~~~~~~e~~l~~~~~  133 (349)
T 2zr9_A           61 GRVIEIYGPESSGKTTVALHAVANAQAA--GGIAAFIDAEHALDPE-----YAKKLGVDTDSLLVSQPDTGEQALEIADM  133 (349)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHHT--TCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhC--CCeEEEEECCCCcCHH-----HHHHcCCCHHHeEEecCCCHHHHHHHHHH
Confidence            4789999999999999999999876543  2357899887766543     25556644321      233333443433


Q ss_pred             HHcCCCcEEEEEeCCCCc
Q 037337          189 RLNREKRILVILDNIWEH  206 (247)
Q Consensus       189 ~l~~~kr~LlvlDdv~~~  206 (247)
                      .....+.-+||+|.+...
T Consensus       134 l~~~~~~~lIVIDsl~~l  151 (349)
T 2zr9_A          134 LVRSGALDIIVIDSVAAL  151 (349)
T ss_dssp             HHTTTCCSEEEEECGGGC
T ss_pred             HHhcCCCCEEEEcChHhh
Confidence            444445679999998654

>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=97.82  E-value=0.00013  Score=62.12  Aligned_cols=85  Identities=16%  Similarity=0.133  Sum_probs=57.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCC------CCChHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFR------EESESGRARSLFS  188 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~------~~~~~~~~~~l~~  188 (247)
                      ..++.|+|++|+|||+||..++......  -..++|++....++..     .+..++.+.+      ..+.+.....+..
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 GRITEIYGPESGGKTTLALAIVAQAQKA--GGTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIMEL  146 (366)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHHT--TCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCChHHHHHHHHHHHHHC--CCeEEEEECCCChhHH-----HHHHcCCCHHHceeecCCcHHHHHHHHHH
Confidence            4689999999999999999998876543  2368899988766543     2455655422      1234444444444


Q ss_pred             HHcCCCcEEEEEeCCCCc
Q 037337          189 RLNREKRILVILDNIWEH  206 (247)
Q Consensus       189 ~l~~~kr~LlvlDdv~~~  206 (247)
                      .+...+.-+||+|.+...
T Consensus       147 l~~~~~~~lVVIDsl~~l  164 (366)
T 1xp8_A          147 LVRSGAIDVVVVDSVAAL  164 (366)
T ss_dssp             HHTTTCCSEEEEECTTTC
T ss_pred             HHhcCCCCEEEEeChHHh
Confidence            444444578999998643

>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=97.81  E-value=0.00012  Score=61.76  Aligned_cols=91  Identities=15%  Similarity=0.192  Sum_probs=58.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccC----CCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCC----------CCChH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHK----LFDLVVFSEMSQSPDIRKVQGEIADKLGLTFR----------EESES  180 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~----~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~----------~~~~~  180 (247)
                      ..++.|+|++|+|||+||..++.......    .-..++|++....++...+. .++..++....          ..+..
T Consensus       122 G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~~~~~~~l~-~~~~~~g~~~~~~l~~l~~~~~~~~e  200 (343)
T 1v5w_A          122 MAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLR-DIADRFNVDHDAVLDNVLYARAYTSE  200 (343)
T ss_dssp             SEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHHHH-HHHHHTTCCHHHHHHTEEEEECCSTT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHH-HHHHHcCCCHHHHHhceeEeecCCHH
Confidence            47899999999999999999998743311    12468999988877766654 34455554321          11111


Q ss_pred             ---HHHHHHHHHHcC--CCcEEEEEeCCCCc
Q 037337          181 ---GRARSLFSRLNR--EKRILVILDNIWEH  206 (247)
Q Consensus       181 ---~~~~~l~~~l~~--~kr~LlvlDdv~~~  206 (247)
                         .....+...+..  .+.-+||+|.+...
T Consensus       201 ~~~~ll~~l~~~i~~~~~~~~lvVIDsl~~l  231 (343)
T 1v5w_A          201 HQMELLDYVAAKFHEEAGIFKLLIIDSIMAL  231 (343)
T ss_dssp             HHHHHHHHHHHHHHHSCSSEEEEEEETSGGG
T ss_pred             HHHHHHHHHHHHHHhcCCCccEEEEechHHH
Confidence               233344455543  45679999998643

>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=97.79  E-value=1e-05  Score=76.44  Aligned_cols=61  Identities=20%  Similarity=0.275  Sum_probs=43.6

Q ss_pred             cccccchHHHHHHHHHhcCC---------CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCC
Q 037337           94 EAFESRMSTLNDILGALRNP---------DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQS  156 (247)
Q Consensus        94 ~~~~gR~~~~~~L~~~L~~~---------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~  156 (247)
                      ..++|.+..++.+...+...         ....+.++|++|+|||++|+.+++.....  -...+.++++..
T Consensus       558 ~~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~~~~--~~~~i~i~~~~~  627 (854)
T 1qvr_A          558 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDT--EEAMIRIDMTEY  627 (854)
T ss_dssp             HHSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSS--GGGEEEECTTTC
T ss_pred             cccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCC--CCcEEEEechhc
Confidence            35789999888887766421         12578999999999999999999987432  122456666544

>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=97.79  E-value=0.00019  Score=64.36  Aligned_cols=48  Identities=27%  Similarity=0.326  Sum_probs=34.8

Q ss_pred             cccccchHHHHHHHHHhc------CCCccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           94 EAFESRMSTLNDILGALR------NPDISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        94 ~~~~gR~~~~~~L~~~L~------~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      .+++|-+...+.+.+.+.      .-....+.++|++|+||||||+.++.....
T Consensus        81 ~di~G~~~vk~~i~~~~~l~~~~~~~~g~~vll~Gp~GtGKTtlar~ia~~l~~  134 (543)
T 3m6a_A           81 EEHHGLEKVKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAKSLGR  134 (543)
T ss_dssp             HHCSSCHHHHHHHHHHHHHHHHSSSCCSCEEEEESSSSSSHHHHHHHHHHHHTC
T ss_pred             HHhccHHHHHHHHHHHHHHHHhcccCCCCEEEEECCCCCCHHHHHHHHHHhcCC
Confidence            346776666666544332      223568999999999999999999998743

>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=97.73  E-value=1.7e-05  Score=62.81  Aligned_cols=112  Identities=13%  Similarity=0.052  Sum_probs=64.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCC---CChHHHHHHHHHHHc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFRE---ESESGRARSLFSRLN  191 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~---~~~~~~~~~l~~~l~  191 (247)
                      ..++.++|+.|+||||++..++++...+. . .++.+.......   ....++..++...+.   .+..+..+.+.+.+.
T Consensus        12 G~i~litG~mGsGKTT~ll~~~~r~~~~g-~-kVli~~~~~d~r---~~~~i~srlG~~~~~~~~~~~~~i~~~i~~~~~   86 (223)
T 2b8t_A           12 GWIEFITGPMFAGKTAELIRRLHRLEYAD-V-KYLVFKPKIDTR---SIRNIQSRTGTSLPSVEVESAPEILNYIMSNSF   86 (223)
T ss_dssp             CEEEEEECSTTSCHHHHHHHHHHHHHHTT-C-CEEEEEECCCGG---GCSSCCCCCCCSSCCEEESSTHHHHHHHHSTTS
T ss_pred             cEEEEEECCCCCcHHHHHHHHHHHHHhcC-C-EEEEEEeccCch---HHHHHHHhcCCCccccccCCHHHHHHHHHHHhh
Confidence            47889999999999999999999887652 2 344444333221   122344445543222   122333333333333


Q ss_pred             CCCcEEEEEeCCCCc--cchhhhcccCCCCCCCeEEEEeeCchhh
Q 037337          192 REKRILVILDNIWEH--LDLQVVGIPHGDDHKGCKVLFTARSLDV  234 (247)
Q Consensus       192 ~~kr~LlvlDdv~~~--~~~~~l~~~~~~~~~~s~iiiTtR~~~v  234 (247)
                      .++.-+|++|++...  +.++.+.. +.+  .|..||+|-+..+.
T Consensus        87 ~~~~dvViIDEaQ~l~~~~ve~l~~-L~~--~gi~Vil~Gl~~df  128 (223)
T 2b8t_A           87 NDETKVIGIDEVQFFDDRICEVANI-LAE--NGFVVIISGLDKNF  128 (223)
T ss_dssp             CTTCCEEEECSGGGSCTHHHHHHHH-HHH--TTCEEEEECCSBCT
T ss_pred             CCCCCEEEEecCccCcHHHHHHHHH-HHh--CCCeEEEEeccccc
Confidence            334459999999754  23333322 211  27889999996655

>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=97.72  E-value=0.00017  Score=61.17  Aligned_cols=85  Identities=18%  Similarity=0.169  Sum_probs=54.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCC------CChHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFRE------ESESGRARSLFS  188 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~------~~~~~~~~~l~~  188 (247)
                      ..++.|+|.+|+||||||.+++......  -..++|++.....+..     .+..++...+.      .+.......+..
T Consensus        63 G~ii~I~G~pGsGKTtLal~la~~~~~~--g~~vlyid~E~s~~~~-----~a~~~g~~~~~l~i~~~~~~e~~~~~~~~  135 (356)
T 1u94_A           63 GRIVEIYGPESSGKTTLTLQVIAAAQRE--GKTCAFIDAEHALDPI-----YARKLGVDIDNLLCSQPDTGEQALEICDA  135 (356)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHHHHHT--TCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHC--CCeEEEEeCCCCccHH-----HHHHcCCChhheeeeCCCCHHHHHHHHHH
Confidence            4789999999999999999999876544  2358899887766643     24556544321      123333333333


Q ss_pred             HHcCCCcEEEEEeCCCCc
Q 037337          189 RLNREKRILVILDNIWEH  206 (247)
Q Consensus       189 ~l~~~kr~LlvlDdv~~~  206 (247)
                      .....+.-+||+|.+...
T Consensus       136 l~~~~~~~lVVIDsl~~l  153 (356)
T 1u94_A          136 LARSGAVDVIVVDSVAAL  153 (356)
T ss_dssp             HHHHTCCSEEEEECGGGC
T ss_pred             HHhccCCCEEEEcCHHHh
Confidence            333334568999997543

>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=97.71  E-value=0.00014  Score=60.67  Aligned_cols=90  Identities=16%  Similarity=0.183  Sum_probs=58.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhccc------------CCC--CEEEEEEeCCCCCHHHHHHHHHHHhCCCCC-----
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNH------------KLF--DLVVFSEMSQSPDIRKVQGEIADKLGLTFR-----  175 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~------------~~f--~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~-----  175 (247)
                      ..++.|+|++|+|||+||..++......            ...  ..++|++....++..++.. ++..++.+.+     
T Consensus        98 g~i~~i~G~~gsGKT~la~~la~~~~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~~~~~~l~~-~~~~~g~~~~~~~~~  176 (322)
T 2i1q_A           98 QSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQ-MAEHAGIDGQTVLDN  176 (322)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHHHHHH-HHHHHTCCHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhccccccccccccccCCCCCceEEEEECCCCCCHHHHHH-HHHHcCCCHHHHhcC
Confidence            4789999999999999999999864211            101  3688999888777666553 3455654321     


Q ss_pred             -----CCChH---HHHHHHHHHHcC-CCcEEEEEeCCCC
Q 037337          176 -----EESES---GRARSLFSRLNR-EKRILVILDNIWE  205 (247)
Q Consensus       176 -----~~~~~---~~~~~l~~~l~~-~kr~LlvlDdv~~  205 (247)
                           ..+.+   .....+.+.+.. .+.-+||+|.+..
T Consensus       177 l~~~~~~~~~~~~~~l~~l~~~~~~~~~~~lvVIDsl~~  215 (322)
T 2i1q_A          177 TFVARAYNSDMQMLFAEKIEDLIQEGNNIKLVVIDSLTS  215 (322)
T ss_dssp             EEEEECSSHHHHHHHHHTHHHHHHTTCEEEEEEEECSSH
T ss_pred             EEEEeCCCHHHHHHHHHHHHHHHhhccCccEEEEECcHH
Confidence                 11222   234455555554 4567999999864

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=97.71  E-value=0.00012  Score=59.74  Aligned_cols=48  Identities=23%  Similarity=0.270  Sum_probs=32.4

Q ss_pred             CcccccchHHHHHHHHHhc----C---------CCccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337           93 YEAFESRMSTLNDILGALR----N---------PDISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L~----~---------~~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ..++.|-++..+.|.+.+.    .         .-.+-+.|+|++|+||||||+.++....
T Consensus         9 ~~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~GvlL~Gp~GtGKTtLakala~~~~   69 (274)
T 2x8a_A            9 WADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANESG   69 (274)
T ss_dssp             ---CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSEEEEESSTTSCHHHHHHHHHHHTT
T ss_pred             HHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCeEEEECCCCCcHHHHHHHHHHHcC
Confidence            4556676766666655432    1         1123499999999999999999998754

>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=97.71  E-value=3.2e-05  Score=72.09  Aligned_cols=103  Identities=13%  Similarity=0.147  Sum_probs=59.7

Q ss_pred             cccccchHHHHHHHHHhcC---------CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHH
Q 037337           94 EAFESRMSTLNDILGALRN---------PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQG  164 (247)
Q Consensus        94 ~~~~gR~~~~~~L~~~L~~---------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~  164 (247)
                      ..++|.+..++.+...+..         .....+.++|++|+|||++|+.+++...     ...+.++++.......   
T Consensus       458 ~~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l~-----~~~~~i~~s~~~~~~~---  529 (758)
T 1r6b_X          458 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG-----IELLRFDMSEYMERHT---  529 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHT-----CEEEEEEGGGCSSSSC---
T ss_pred             hhccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHhc-----CCEEEEechhhcchhh---
Confidence            4588998888887776541         1234789999999999999999998873     2345666654322100   


Q ss_pred             HHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          165 EIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       165 ~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                       +.+.++.+.. .........+.+.+......+|+||+++..
T Consensus       530 -~~~l~g~~~g-~~g~~~~~~l~~~~~~~~~~vl~lDEi~~~  569 (758)
T 1r6b_X          530 -VSRLIGAPPG-YVGFDQGGLLTDAVIKHPHAVLLLDEIEKA  569 (758)
T ss_dssp             -CSSSCCCCSC-SHHHHHTTHHHHHHHHCSSEEEEEETGGGS
T ss_pred             -HhhhcCCCCC-CcCccccchHHHHHHhCCCcEEEEeCcccc
Confidence             0011121111 100011112334443334589999999865

>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=97.70  E-value=0.00028  Score=59.01  Aligned_cols=91  Identities=19%  Similarity=0.262  Sum_probs=59.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccC----CCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCC----------CCChH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHK----LFDLVVFSEMSQSPDIRKVQGEIADKLGLTFR----------EESES  180 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~----~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~----------~~~~~  180 (247)
                      ..++.|+|++|+|||+||..++.......    .-..++|++....++...+. .++..++....          ..+..
T Consensus       107 G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~~~~~~~l~-~~~~~~g~~~~~~~~~l~~~~~~~~~  185 (324)
T 2z43_A          107 RTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGTFRWERIE-NMAKALGLDIDNVMNNIYYIRAINTD  185 (324)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHHHH-HHHHHTTCCHHHHHHTEEEEECCSHH
T ss_pred             CcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHH-HHHHHhCCCHHHHhccEEEEeCCCHH
Confidence            47899999999999999999998753221    02468999888877666654 34556654321          11222


Q ss_pred             ---HHHHHHHHHHcC-CCcEEEEEeCCCCc
Q 037337          181 ---GRARSLFSRLNR-EKRILVILDNIWEH  206 (247)
Q Consensus       181 ---~~~~~l~~~l~~-~kr~LlvlDdv~~~  206 (247)
                         .....+...+.. .+.-+||+|.+...
T Consensus       186 ~~~~~l~~l~~~~~~~~~~~lvVIDsl~~l  215 (324)
T 2z43_A          186 HQIAIVDDLQELVSKDPSIKLIVVDSVTSH  215 (324)
T ss_dssp             HHHHHHHHHHHHHHHCTTEEEEEETTTTHH
T ss_pred             HHHHHHHHHHHHHHhccCCCEEEEeCcHHH
Confidence               234455555543 45689999998643

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=97.67  E-value=0.00064  Score=56.59  Aligned_cols=60  Identities=13%  Similarity=0.215  Sum_probs=40.4

Q ss_pred             HHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHH
Q 037337          102 TLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIA  167 (247)
Q Consensus       102 ~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~  167 (247)
                      .++.+..-+..  ..++.|.|.+|+||||||.+++.....+.  ..++|++..  .+..++...+.
T Consensus        57 ~LD~~lgGl~~--G~l~li~G~pG~GKTtl~l~ia~~~a~~g--~~vl~~slE--~s~~~l~~R~~  116 (315)
T 3bh0_A           57 ELDRMTYGYKR--RNFVLIAARPSMGKTAFALKQAKNMSDND--DVVNLHSLE--MGKKENIKRLI  116 (315)
T ss_dssp             HHHHHHSSBCT--TCEEEEECCTTSSHHHHHHHHHHHHHTTT--CEEEEEESS--SCHHHHHHHHH
T ss_pred             HHHhhcCCCCC--CcEEEEEeCCCCCHHHHHHHHHHHHHHcC--CeEEEEECC--CCHHHHHHHHH
Confidence            44554433333  37899999999999999999998765542  568888765  34444444443

>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=97.65  E-value=0.0004  Score=51.87  Aligned_cols=20  Identities=35%  Similarity=0.521  Sum_probs=18.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEV  135 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~  135 (247)
                      .+|+|.|++|+||||+|+.+
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            47899999999999999999

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=97.62  E-value=9.4e-05  Score=61.90  Aligned_cols=61  Identities=11%  Similarity=0.105  Sum_probs=45.1

Q ss_pred             cccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHH
Q 037337           94 EAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRK  161 (247)
Q Consensus        94 ~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~  161 (247)
                      ..++|++..++.+...+..+  ..+.++|++|+|||+||+.+++.....     ...+++.......+
T Consensus        27 ~~i~g~~~~~~~l~~~l~~~--~~vll~G~pGtGKT~la~~la~~~~~~-----~~~i~~~~~~~~~~   87 (331)
T 2r44_A           27 KVVVGQKYMINRLLIGICTG--GHILLEGVPGLAKTLSVNTLAKTMDLD-----FHRIQFTPDLLPSD   87 (331)
T ss_dssp             TTCCSCHHHHHHHHHHHHHT--CCEEEESCCCHHHHHHHHHHHHHTTCC-----EEEEECCTTCCHHH
T ss_pred             cceeCcHHHHHHHHHHHHcC--CeEEEECCCCCcHHHHHHHHHHHhCCC-----eEEEecCCCCChhh
Confidence            45789999998888877654  468899999999999999999876432     23455554444443

>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=97.61  E-value=0.00019  Score=61.85  Aligned_cols=90  Identities=13%  Similarity=0.112  Sum_probs=56.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhccc----CCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCC----------CCChH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNH----KLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFR----------EESES  180 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~----~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~----------~~~~~  180 (247)
                      -.++.|+|++|+|||||+..++-.....    ..-..++|++....+....+ ..+++.++....          ..+..
T Consensus       178 Gei~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~~~~~~rl-~~~a~~~gl~~~~vleni~~~~~~~~~  256 (400)
T 3lda_A          178 GSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRL-VSIAQRFGLDPDDALNNVAYARAYNAD  256 (400)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHH-HHHHHHTTCCHHHHHHTEEEEECCSHH
T ss_pred             CcEEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCCccCHHHH-HHHHHHcCCChHhHhhcEEEeccCChH
Confidence            4799999999999999999887543321    01346889887776655543 346666664321          11121


Q ss_pred             ---HHHHHHHHHHcCCCcEEEEEeCCCC
Q 037337          181 ---GRARSLFSRLNREKRILVILDNIWE  205 (247)
Q Consensus       181 ---~~~~~l~~~l~~~kr~LlvlDdv~~  205 (247)
                         .....+...+...+.-+||+|.+..
T Consensus       257 ~~~~~l~~~~~~l~~~~~~llVIDs~t~  284 (400)
T 3lda_A          257 HQLRLLDAAAQMMSESRFSLIVVDSVMA  284 (400)
T ss_dssp             HHHHHHHHHHHHHHHSCEEEEEEETGGG
T ss_pred             HHHHHHHHHHHHHHhcCCceEEecchhh
Confidence               2233444444444678999999754

>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=97.56  E-value=0.00044  Score=54.32  Aligned_cols=91  Identities=20%  Similarity=0.189  Sum_probs=54.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhccc---C-CCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCC----------CCCh-
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNH---K-LFDLVVFSEMSQSPDIRKVQGEIADKLGLTFR----------EESE-  179 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~---~-~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~----------~~~~-  179 (247)
                      -.+++|+|++|+|||||++.++......   . .....+|++......... +..++..++....          .... 
T Consensus        25 G~~~~l~G~nGsGKSTll~~l~g~~~~~~~~g~~~~~~i~~~~~~~~~~~~-i~~~~~~~~~~~~~~~~~~~~~~~~~~~  103 (231)
T 4a74_A           25 QAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPER-IREIAQNRGLDPDEVLKHIYVARAFNSN  103 (231)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHH-HHHHHHHTTSCHHHHHHTEEEEECCSHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCEEEEEECCCCCCHHH-HHHHHHHcCCCHHHHhhcEEEEecCChH
Confidence            3799999999999999999998854331   1 134578887655444333 3344444443211          0111 


Q ss_pred             --HHHHHHHHHHHc-----CCCcEEEEEeCCCCc
Q 037337          180 --SGRARSLFSRLN-----REKRILVILDNIWEH  206 (247)
Q Consensus       180 --~~~~~~l~~~l~-----~~kr~LlvlDdv~~~  206 (247)
                        ......+.+.+.     ..+.-+|+||+....
T Consensus       104 ~~~~~~~~~~~~~~~~~~~~~~~~llilDe~~~~  137 (231)
T 4a74_A          104 HQMLLVQQAEDKIKELLNTDRPVKLLIVDSLTSH  137 (231)
T ss_dssp             HHHHHHHHHHHHHHHHTTSSSCEEEEEEETSSHH
T ss_pred             HHHHHHHHHHHHHHHhcccCCceeEEEECChHHH
Confidence              112334444444     446789999998653

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=97.55  E-value=6.6e-05  Score=63.12  Aligned_cols=51  Identities=22%  Similarity=0.300  Sum_probs=39.5

Q ss_pred             CCCcccccchHHHHHHHHHhcC-----CCccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           91 KGYEAFESRMSTLNDILGALRN-----PDISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        91 ~~~~~~~gR~~~~~~L~~~L~~-----~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      .....++|.+..++.+...+..     .....+.++|++|+||||||+.++.....
T Consensus        22 ~~l~~~~g~~~~~~~l~~~i~~~~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l~~   77 (334)
T 1in4_A           22 KSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQT   77 (334)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHTC
T ss_pred             ccHHHccCcHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHHHhCC
Confidence            3446688988888777666542     23467899999999999999999998753

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=97.50  E-value=0.00058  Score=54.18  Aligned_cols=39  Identities=13%  Similarity=0.240  Sum_probs=30.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQ  155 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~  155 (247)
                      ..++.|.|++|+|||||+.+++......  -..++|++...
T Consensus        23 G~~~~i~G~~GsGKTtl~~~~~~~~~~~--~~~v~~~~~e~   61 (247)
T 2dr3_A           23 RNVVLLSGGPGTGKTIFSQQFLWNGLKM--GEPGIYVALEE   61 (247)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHHHHHT--TCCEEEEESSS
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHhc--CCeEEEEEccC
Confidence            3689999999999999999988766433  23577877554

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=97.50  E-value=0.00045  Score=61.18  Aligned_cols=50  Identities=24%  Similarity=0.349  Sum_probs=36.3

Q ss_pred             CCCcccccchHHHHHHHHH---hcCC---------CccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337           91 KGYEAFESRMSTLNDILGA---LRNP---------DISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus        91 ~~~~~~~gR~~~~~~L~~~---L~~~---------~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ....+++|.++....+.+.   +...         -.+-+.|+|++|+|||+||+.++....
T Consensus        28 ~~f~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~~   89 (499)
T 2dhr_A           28 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEAR   89 (499)
T ss_dssp             CCTTSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHTT
T ss_pred             CCHHHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHhC
Confidence            3456788988776665443   3221         134589999999999999999998765

>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=97.44  E-value=0.00087  Score=55.31  Aligned_cols=41  Identities=20%  Similarity=0.203  Sum_probs=30.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQ  155 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~  155 (247)
                      +..+++++|++|+||||++..++..+..... ..+.++....
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~~l~~~~G-~~V~lv~~D~  144 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAAISMLEKH-KKIAFITTDT  144 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHHHHTTC-CCEEEEECCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHhcC-CEEEEEecCc
Confidence            4579999999999999999999988764211 2355565543

>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=97.40  E-value=9e-05  Score=62.27  Aligned_cols=49  Identities=18%  Similarity=0.196  Sum_probs=36.7

Q ss_pred             CCcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337           92 GYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus        92 ~~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ....++|.+.....+...+.......+.|+|++|+|||+||+.+++...
T Consensus        22 ~f~~i~G~~~~~~~l~~~~~~~~~~~vLl~G~~GtGKT~la~~la~~~~   70 (350)
T 1g8p_A           22 PFSAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAALLP   70 (350)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHHHSC
T ss_pred             CchhccChHHHHHHHHHHhhCCCCceEEEECCCCccHHHHHHHHHHhCc
Confidence            3456899888666654444333334589999999999999999998764

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=97.40  E-value=0.0002  Score=55.49  Aligned_cols=43  Identities=19%  Similarity=0.304  Sum_probs=34.4

Q ss_pred             chHHHHHHHHHhcC---CCccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           99 RMSTLNDILGALRN---PDISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        99 R~~~~~~L~~~L~~---~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      |++.++.|.+.+..   ....+++|.|++|+|||||++.+...+..
T Consensus         3 ~~~~~~~l~~~~~~~~~~~~~~i~i~G~~GsGKstl~~~l~~~~~~   48 (201)
T 1rz3_A            3 LRDRIDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQTLRE   48 (201)
T ss_dssp             HHHHHHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccCCCeEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            56677777776653   34579999999999999999999987754

>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=97.36  E-value=0.00084  Score=51.79  Aligned_cols=116  Identities=17%  Similarity=0.065  Sum_probs=64.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC---CCCHHHHHHHHHH---HhCC--CCCCCC-------h
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQ---SPDIRKVQGEIAD---KLGL--TFREES-------E  179 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~---~~~~~~l~~~i~~---~l~~--~~~~~~-------~  179 (247)
                      ...|.|++..|.||||.|.-.+-+...+. + .+.++..-.   .....+++..+.-   .++.  ......       .
T Consensus        28 ~g~i~v~tG~GkGKTTaA~GlalRA~g~G-~-rV~~vQF~Kg~~~~gE~~~l~~L~v~~~~~g~gf~~~~~~~~~~~~~a  105 (196)
T 1g5t_A           28 RGIIIVFTGNGKGKTTAAFGTAARAVGHG-K-NVGVVQFIKGTWPNGERNLLEPHGVEFQVMATGFTWETQNREADTAAC  105 (196)
T ss_dssp             CCCEEEEESSSSCHHHHHHHHHHHHHHTT-C-CEEEEESSCCSSCCHHHHHHGGGTCEEEECCTTCCCCGGGHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHHCC-C-eEEEEEeeCCCCCccHHHHHHhCCcEEEEcccccccCCCCcHHHHHHH
Confidence            35666777777999999999998877653 3 344443332   2233344443310   0011  111111       1


Q ss_pred             HHHHHHHHHHHcCCCcEEEEEeCCCCc-----cchhhhcccCCCCCCCeEEEEeeCch
Q 037337          180 SGRARSLFSRLNREKRILVILDNIWEH-----LDLQVVGIPHGDDHKGCKVLFTARSL  232 (247)
Q Consensus       180 ~~~~~~l~~~l~~~kr~LlvlDdv~~~-----~~~~~l~~~~~~~~~~s~iiiTtR~~  232 (247)
                      ........+.+.+++-=|||||++-..     ...+.+...+........||+|+|+.
T Consensus       106 ~~~l~~a~~~l~~~~yDlvILDEi~~al~~g~l~~~ev~~~l~~Rp~~~~vIlTGr~a  163 (196)
T 1g5t_A          106 MAVWQHGKRMLADPLLDMVVLDELTYMVAYDYLPLEEVISALNARPGHQTVIITGRGC  163 (196)
T ss_dssp             HHHHHHHHHHTTCTTCSEEEEETHHHHHHTTSSCHHHHHHHHHTSCTTCEEEEECSSC
T ss_pred             HHHHHHHHHHHhcCCCCEEEEeCCCccccCCCCCHHHHHHHHHhCcCCCEEEEECCCC
Confidence            122344555665555579999998432     23333333343455677899999986

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=97.35  E-value=1.2e-05  Score=61.85  Aligned_cols=110  Identities=18%  Similarity=0.041  Sum_probs=53.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNREKR  195 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr  195 (247)
                      .++.++|+.|+||||++..++++....+ . .+.++....+.  ......+...++........ .....+.+.+.. +.
T Consensus         4 ~i~vi~G~~gsGKTT~ll~~~~~~~~~g-~-~v~~~~~~~d~--r~~~~~i~s~~g~~~~~~~~-~~~~~~~~~~~~-~~   77 (184)
T 2orw_A            4 KLTVITGPMYSGKTTELLSFVEIYKLGK-K-KVAVFKPKIDS--RYHSTMIVSHSGNGVEAHVI-ERPEEMRKYIEE-DT   77 (184)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHHHTT-C-EEEEEEEC-------CCCEECC----CEECEEE-SSGGGGGGGCCT-TE
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHCC-C-eEEEEeecccc--ccCcccEEecCCCceeeEEE-CCHHHHHHHhcC-CC
Confidence            5788999999999999988888775442 2 23333322111  00000011111111100000 001122222332 34


Q ss_pred             EEEEEeCCCCc-cchhhhcccCCCCCCCeEEEEeeCchh
Q 037337          196 ILVILDNIWEH-LDLQVVGIPHGDDHKGCKVLFTARSLD  233 (247)
Q Consensus       196 ~LlvlDdv~~~-~~~~~l~~~~~~~~~~s~iiiTtR~~~  233 (247)
                      -+|++|+++.. .+|......+.+  .+..|++|.+..+
T Consensus        78 dvviIDE~Q~~~~~~~~~l~~l~~--~~~~Vi~~Gl~~~  114 (184)
T 2orw_A           78 RGVFIDEVQFFNPSLFEVVKDLLD--RGIDVFCAGLDLT  114 (184)
T ss_dssp             EEEEECCGGGSCTTHHHHHHHHHH--TTCEEEEEEESBC
T ss_pred             CEEEEECcccCCHHHHHHHHHHHH--CCCCEEEEeeccc
Confidence            69999999765 233332222212  2778999888554

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=97.34  E-value=0.012  Score=51.51  Aligned_cols=60  Identities=10%  Similarity=0.235  Sum_probs=39.4

Q ss_pred             HHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHH
Q 037337          102 TLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEI  166 (247)
Q Consensus       102 ~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i  166 (247)
                      .++.+..-+..+  .++.|.|.+|+|||||+..++....... -..++|++...  +..++...+
T Consensus       192 ~LD~~~gGl~~G--~liiI~G~pG~GKTtl~l~ia~~~~~~~-g~~Vl~~s~E~--s~~~l~~r~  251 (454)
T 2r6a_A          192 ELDRMTSGFQRS--DLIIVAARPSVGKTAFALNIAQNVATKT-NENVAIFSLEM--SAQQLVMRM  251 (454)
T ss_dssp             HHHHHHSSBCTT--CEEEEECCTTSCHHHHHHHHHHHHHHHS-SCCEEEEESSS--CHHHHHHHH
T ss_pred             HHHhhcCCCCCC--CEEEEECCCCCCHHHHHHHHHHHHHHhC-CCcEEEEECCC--CHHHHHHHH
Confidence            455555334333  6899999999999999999998876431 12477776544  334444443

>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=97.34  E-value=0.0022  Score=55.73  Aligned_cols=29  Identities=28%  Similarity=0.387  Sum_probs=25.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      ++.+|.++|++|+||||++..++..+..+
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l~~~  127 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYFQKR  127 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTT
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHHHHC
Confidence            36899999999999999999999887754

>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=97.31  E-value=0.00059  Score=57.68  Aligned_cols=91  Identities=19%  Similarity=0.185  Sum_probs=54.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhccc---CCC-CEEEEEEeCCCCCHHHHHHHHHHHhCCCCC----------CCC--
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNH---KLF-DLVVFSEMSQSPDIRKVQGEIADKLGLTFR----------EES--  178 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~---~~f-~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~----------~~~--  178 (247)
                      -.++.|+|++|+|||||+..++......   ... ..++|++....+.... +..++..++....          ..+  
T Consensus       131 G~i~~I~G~~GsGKTTL~~~l~~~~~~~~~~Gg~~G~vi~i~~e~~~~~~~-i~~i~q~~~~~~~~v~~ni~~~~~~~~~  209 (349)
T 1pzn_A          131 QAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPER-IREIAQNRGLDPDEVLKHIYVARAFNSN  209 (349)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHH-HHHHHHTTTCCHHHHGGGEEEEECCSHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhccchhcCCCCCeEEEEeCCCCCCHHH-HHHHHHHcCCCHHHHhhCEEEEecCChH
Confidence            4899999999999999999999876321   011 2358888766544333 2334444433210          011  


Q ss_pred             -hHHHHHHHHHHHcC-----CCcEEEEEeCCCCc
Q 037337          179 -ESGRARSLFSRLNR-----EKRILVILDNIWEH  206 (247)
Q Consensus       179 -~~~~~~~l~~~l~~-----~kr~LlvlDdv~~~  206 (247)
                       .......+...+..     .+.-+||+|.+...
T Consensus       210 ~~~~~l~~~~~~~~~lS~G~~~~~llIlDs~ta~  243 (349)
T 1pzn_A          210 HQMLLVQQAEDKIKELLNTDRPVKLLIVDSLTSH  243 (349)
T ss_dssp             HHHHHHHHHHHHHHHSSSSSSCEEEEEEETSSTT
T ss_pred             HHHHHHHHHHHHHHHhccccCCCCEEEEeCchHh
Confidence             11223333344432     35789999998765

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=97.30  E-value=0.0023  Score=53.69  Aligned_cols=60  Identities=17%  Similarity=0.118  Sum_probs=40.2

Q ss_pred             HHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHH
Q 037337          101 STLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEI  166 (247)
Q Consensus       101 ~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i  166 (247)
                      ..++.+..-+..+  .++.|.|.+|+||||||..++......  -..++|++...  +..++...+
T Consensus        34 ~~LD~~~gGl~~G--~LiiIaG~pG~GKTt~al~ia~~~a~~--g~~Vl~fSlEm--s~~ql~~Rl   93 (338)
T 4a1f_A           34 VQLDNYTSGFNKG--SLVIIGARPSMGKTSLMMNMVLSALND--DRGVAVFSLEM--SAEQLALRA   93 (338)
T ss_dssp             HHHHHHHCSBCTT--CEEEEEECTTSCHHHHHHHHHHHHHHT--TCEEEEEESSS--CHHHHHHHH
T ss_pred             hHHHHHhcCCCCC--cEEEEEeCCCCCHHHHHHHHHHHHHHc--CCeEEEEeCCC--CHHHHHHHH
Confidence            3445544333333  689999999999999999999887653  24577776543  444554444

>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=97.30  E-value=0.00034  Score=58.27  Aligned_cols=42  Identities=17%  Similarity=0.247  Sum_probs=33.8

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCC
Q 037337          113 PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQS  156 (247)
Q Consensus       113 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~  156 (247)
                      ++.++|+|+|-||+||||.+.+++..+....  ..+.-+++..+
T Consensus        46 ~~aKVIAIaGKGGVGKTTtavNLA~aLA~~G--kkVllID~Dpq   87 (314)
T 3fwy_A           46 TGAKVFAVYGKGGIGKSTTSSNLSAAFSILG--KRVLQIGCDPK   87 (314)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHHHHTT--CCEEEEEESSS
T ss_pred             CCceEEEEECCCccCHHHHHHHHHHHHHHCC--CeEEEEecCCC
Confidence            3579999999999999999999999887653  24777777754

>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=97.29  E-value=0.0027  Score=55.08  Aligned_cols=39  Identities=21%  Similarity=0.123  Sum_probs=29.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeC
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMS  154 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~  154 (247)
                      +..++.++|++|+||||++..++..+....  ..+..+++.
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~l~~~G--~kVllv~~D  134 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYFYKKRG--YKVGLVAAD  134 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHHHHHTT--CCEEEEEEC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcC--CeEEEEecC
Confidence            367999999999999999999998887542  234445443

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=97.28  E-value=0.00032  Score=54.69  Aligned_cols=41  Identities=22%  Similarity=0.385  Sum_probs=32.1

Q ss_pred             HHHHHHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          101 STLNDILGALRN--PDISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       101 ~~~~~L~~~L~~--~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      +.++.|.+.+..  +...+++|.|++|+|||||++.++..+..
T Consensus         6 ~~~~~~~~~~~~~~~~g~~v~I~G~sGsGKSTl~~~l~~~~~~   48 (208)
T 3c8u_A            6 ALCQGVLERLDPRQPGRQLVALSGAPGSGKSTLSNPLAAALSA   48 (208)
T ss_dssp             HHHHHHHHHSCTTCCSCEEEEEECCTTSCTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            455566666553  34679999999999999999999988764

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=97.28  E-value=0.00091  Score=67.75  Aligned_cols=84  Identities=18%  Similarity=0.162  Sum_probs=56.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCC------CChHHHHHHHH
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFRE------ESESGRARSLF  187 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~------~~~~~~~~~l~  187 (247)
                      ..+.+.|+|++|+|||+||..++......  -..++|+++....+...     ++.++.+.+.      .+.+.....+.
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 MGRIVEIYGPESSGKTTLTLQVIAAAQRE--GKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEICD 1498 (2050)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHHHTT--TCCEEEECTTSCCCHHH-----HHHTTCCTTTCEEECCSSHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc--CCcEEEEEcccccCHHH-----HHHcCCCchhceeecCChHHHHHHHHH
Confidence            34899999999999999999998876644  23577888777666544     5566643221      12334444444


Q ss_pred             HHHcCCCcEEEEEeCCC
Q 037337          188 SRLNREKRILVILDNIW  204 (247)
Q Consensus       188 ~~l~~~kr~LlvlDdv~  204 (247)
                      ...+..+.-+||+|++.
T Consensus      1499 ~lvr~~~~~lVVIDsi~ 1515 (2050)
T 3cmu_A         1499 ALARSGAVDVIVVDSVA 1515 (2050)
T ss_dssp             HHHHHTCCSEEEESCGG
T ss_pred             HHHhcCCCCEEEEcChh
Confidence            44444467899999985

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=97.28  E-value=6.2e-05  Score=63.89  Aligned_cols=112  Identities=12%  Similarity=0.075  Sum_probs=61.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCE-EEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDL-VVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNRE  193 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~-~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  193 (247)
                      ...++|.|+.|+|||||.+.+.......  ... ++.+.-......... ..+..+...   ..........+...|.. 
T Consensus       123 ~g~i~I~GptGSGKTTlL~~l~g~~~~~--~~~~i~t~ed~~e~~~~~~-~~~v~q~~~---~~~~~~~~~~La~aL~~-  195 (356)
T 3jvv_A          123 RGLVLVTGPTGSGKSTTLAAMLDYLNNT--KYHHILTIEDPIEFVHESK-KCLVNQREV---HRDTLGFSEALRSALRE-  195 (356)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHHHHH--CCCEEEEEESSCCSCCCCS-SSEEEEEEB---TTTBSCHHHHHHHHTTS-
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcccCC--CCcEEEEccCcHHhhhhcc-ccceeeeee---ccccCCHHHHHHHHhhh-
Confidence            3599999999999999999998876543  122 222211111100000 000000000   01112233466666766 


Q ss_pred             CcEEEEEeCCCCccchhhhcccCCCCCCCeEEEEeeCchhhhh
Q 037337          194 KRILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTARSLDVLS  236 (247)
Q Consensus       194 kr~LlvlDdv~~~~~~~~l~~~~~~~~~~s~iiiTtR~~~va~  236 (247)
                      ++=+|++|+..+.+.++.+...   ...|..|++|+...+.+.
T Consensus       196 ~PdvillDEp~d~e~~~~~~~~---~~~G~~vl~t~H~~~~~~  235 (356)
T 3jvv_A          196 DPDIILVGEMRDLETIRLALTA---AETGHLVFGTLHTTSAAK  235 (356)
T ss_dssp             CCSEEEESCCCSHHHHHHHHHH---HHTTCEEEEEESCSSHHH
T ss_pred             CcCEEecCCCCCHHHHHHHHHH---HhcCCEEEEEEccChHHH
Confidence            4678899999876555443222   233666999998887753

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=97.27  E-value=0.00017  Score=54.42  Aligned_cols=25  Identities=16%  Similarity=0.173  Sum_probs=22.7

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .+|.|.|++|+||||+|+.++..+.
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~~l~   28 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQSVLP   28 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcC
Confidence            5789999999999999999998764

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=97.26  E-value=0.00013  Score=64.59  Aligned_cols=46  Identities=17%  Similarity=0.186  Sum_probs=38.3

Q ss_pred             cccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           94 EAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        94 ~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ..++|++..++.+...+..+  ..+.++|++|+|||+||+.+++....
T Consensus        22 ~~ivGq~~~i~~l~~al~~~--~~VLL~GpPGtGKT~LAraLa~~l~~   67 (500)
T 3nbx_X           22 KGLYERSHAIRLCLLAALSG--ESVFLLGPPGIAKSLIARRLKFAFQN   67 (500)
T ss_dssp             TTCSSCHHHHHHHHHHHHHT--CEEEEECCSSSSHHHHHHHGGGGBSS
T ss_pred             hhhHHHHHHHHHHHHHHhcC--CeeEeecCchHHHHHHHHHHHHHHhh
Confidence            34789999998888877655  57889999999999999999987643

>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=97.26  E-value=0.00026  Score=66.00  Aligned_cols=94  Identities=16%  Similarity=0.254  Sum_probs=59.1

Q ss_pred             CcccccchHHHHHHHHHhcC-------------CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCH
Q 037337           93 YEAFESRMSTLNDILGALRN-------------PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDI  159 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L~~-------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~  159 (247)
                      ..++.|-++..+.|.+.+.-             ...+-+.++|++|+|||.||+.+++.....       ++.++    .
T Consensus       476 w~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~~~~-------f~~v~----~  544 (806)
T 3cf2_A          476 WEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQAN-------FISIK----G  544 (806)
T ss_dssp             STTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTTTCE-------EEECC----H
T ss_pred             HHHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHhCCc-------eEEec----c
Confidence            45566777777776655431             124568899999999999999999987643       23332    1


Q ss_pred             HHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          160 RKVQGEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       160 ~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                      .+++        ..+-..+ +..+..+.+..+...+++|+||+++..
T Consensus       545 ~~l~--------s~~vGes-e~~vr~lF~~Ar~~~P~IifiDEiDsl  582 (806)
T 3cf2_A          545 PELL--------TMWFGES-EANVREIFDKARQAAPCVLFFDELDSI  582 (806)
T ss_dssp             HHHH--------TTTCSSC-HHHHHHHHHHHHTTCSEEEECSCGGGC
T ss_pred             chhh--------ccccchH-HHHHHHHHHHHHHcCCceeechhhhHH
Confidence            1211        1111122 344566666665556799999999753

>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=97.23  E-value=0.00021  Score=53.50  Aligned_cols=25  Identities=12%  Similarity=0.187  Sum_probs=22.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .+|+|.|++|+||||+++.++..+.
T Consensus         2 ~~i~l~G~~GsGKsT~~~~L~~~l~   26 (173)
T 3kb2_A            2 TLIILEGPDCCFKSTVAAKLSKELK   26 (173)
T ss_dssp             CEEEEECSSSSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4789999999999999999998764

>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=97.21  E-value=0.0023  Score=53.07  Aligned_cols=89  Identities=17%  Similarity=0.169  Sum_probs=49.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCC-HHHHHHHHHHHhCCCC----CCCChHHH-HHHHH
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPD-IRKVQGEIADKLGLTF----REESESGR-ARSLF  187 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~-~~~l~~~i~~~l~~~~----~~~~~~~~-~~~l~  187 (247)
                      ...++.|+|++|+||||++..++..+...  -..+.++....... ..+-+...++..+.+.    ...++... ...+.
T Consensus       103 ~~~vi~ivG~~GsGKTTl~~~LA~~l~~~--g~kV~lv~~D~~r~~a~eqL~~~~~~~gl~~~~~~s~~~~~~v~~~al~  180 (306)
T 1vma_A          103 PPFVIMVVGVNGTGKTTSCGKLAKMFVDE--GKSVVLAAADTFRAAAIEQLKIWGERVGATVISHSEGADPAAVAFDAVA  180 (306)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHHT--TCCEEEEEECTTCHHHHHHHHHHHHHHTCEEECCSTTCCHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHHHHHhc--CCEEEEEccccccHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHHHH
Confidence            35789999999999999999999988654  22355565543211 1122233444544321    12223222 22344


Q ss_pred             HHHcCCCcEEEEEeCCCC
Q 037337          188 SRLNREKRILVILDNIWE  205 (247)
Q Consensus       188 ~~l~~~kr~LlvlDdv~~  205 (247)
                      ..+.. +.-++|+|..-.
T Consensus       181 ~a~~~-~~dvvIiDtpg~  197 (306)
T 1vma_A          181 HALAR-NKDVVIIDTAGR  197 (306)
T ss_dssp             HHHHT-TCSEEEEEECCC
T ss_pred             HHHhc-CCCEEEEECCCc
Confidence            43444 234778887643

>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=97.20  E-value=0.0047  Score=50.92  Aligned_cols=39  Identities=21%  Similarity=0.133  Sum_probs=30.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQ  155 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~  155 (247)
                      ..+++++|.+|+||||++..++..+....  ..+.+++...
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~~~~~g--~~v~l~~~D~  136 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYFYKKKG--FKVGLVGADV  136 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHHHHHTT--CCEEEEECCC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHCC--CeEEEEecCC
Confidence            56899999999999999999998876542  2355665543

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=97.18  E-value=0.0032  Score=54.74  Aligned_cols=41  Identities=15%  Similarity=0.184  Sum_probs=30.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQ  155 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~  155 (247)
                      +.++|.++|.+|+||||++..++..+...... .+..+++..
T Consensus        99 ~~~vI~ivG~~GvGKTT~a~~LA~~l~~~~G~-kVllvd~D~  139 (433)
T 2xxa_A           99 PPAVVLMAGLQGAGKTTSVGKLGKFLREKHKK-KVLVVSADV  139 (433)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHHHHHHTSCC-CEEEEECCC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHhcCC-eEEEEecCC
Confidence            35789999999999999999999988764112 355565554

>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=97.17  E-value=0.001  Score=58.17  Aligned_cols=89  Identities=19%  Similarity=0.321  Sum_probs=53.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCC-CHHHHHHHHHHHhCC-------CCCCCChHH------
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSP-DIRKVQGEIADKLGL-------TFREESESG------  181 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~l~~~i~~~l~~-------~~~~~~~~~------  181 (247)
                      ..++|+|.+|+|||||+..++.....+. .+..+++.++... ...+++..+...-..       .....++..      
T Consensus       152 q~~~i~G~sGvGKTtL~~~l~~~~~~~~-~~i~V~~~iGerttev~el~~~l~~~~~l~~tvvv~~~~~d~pg~r~~~~~  230 (473)
T 1sky_E          152 GKIGLFGGAGVGKTVLIQELIHNIAQEH-GGISVFAGVGERTREGNDLYHEMKDSGVISKTAMVFGQMNEPPGARMRVAL  230 (473)
T ss_dssp             CEEEEECCSSSCHHHHHHHHHHHHHHHT-CCCEEEEEESSCHHHHHHHHHHHHHTSGGGGEEEEEECTTSCHHHHHHHHH
T ss_pred             CEEEEECCCCCCccHHHHHHHhhhhhcc-CcEEEEeeeccCchHHHHHHHHhhhcCCcceeEEEEEcCCCCHHHHHHHHH
Confidence            4688999999999999999998766542 2345677776654 344555545432100       011111111      


Q ss_pred             HHHHHHHHHc--CCCcEEEEEeCCCC
Q 037337          182 RARSLFSRLN--REKRILVILDNIWE  205 (247)
Q Consensus       182 ~~~~l~~~l~--~~kr~LlvlDdv~~  205 (247)
                      ..-.+.+++.  .++++||++||+..
T Consensus       231 ~~ltiAEyFrd~~G~~VLl~~D~itR  256 (473)
T 1sky_E          231 TGLTMAEYFRDEQGQDGLLFIDNIFR  256 (473)
T ss_dssp             HHHHHHHHHHHHSCCEEEEEEECTHH
T ss_pred             HHHHHHHHHHHhcCCcEEEEeccHHH
Confidence            1124455553  46889999999853

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=97.16  E-value=0.00051  Score=58.24  Aligned_cols=46  Identities=22%  Similarity=0.167  Sum_probs=36.5

Q ss_pred             ccccchHHHHHHHHHhc-------------C--CCccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337           95 AFESRMSTLNDILGALR-------------N--PDISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus        95 ~~~gR~~~~~~L~~~L~-------------~--~~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .++|.+..++.|...+.             .  .....+.++|++|+|||++|+.+++...
T Consensus        16 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~~   76 (363)
T 3hws_A           16 YVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLLD   76 (363)
T ss_dssp             HCCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             hccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHcC
Confidence            36888888888877662             1  1346789999999999999999998874

>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=97.12  E-value=0.0009  Score=53.62  Aligned_cols=49  Identities=22%  Similarity=0.300  Sum_probs=33.7

Q ss_pred             CCcccccchHHHHHHHH---HhcC---------CCccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337           92 GYEAFESRMSTLNDILG---ALRN---------PDISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus        92 ~~~~~~gR~~~~~~L~~---~L~~---------~~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ...+++|.+.....+.+   .+..         .-.+-+.|+|++|+|||||++.++....
T Consensus        14 ~~~~i~g~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~~   74 (254)
T 1ixz_A           14 TFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEAR   74 (254)
T ss_dssp             CGGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             CHHHhCCcHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHhC
Confidence            34567887765555433   3321         1123489999999999999999998765

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=97.12  E-value=0.00032  Score=53.31  Aligned_cols=26  Identities=27%  Similarity=0.470  Sum_probs=23.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ...|.|+|++|+||||+|+.++..+.
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l~   30 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLTK   30 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhC
Confidence            36789999999999999999998764

>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=97.12  E-value=0.0014  Score=65.53  Aligned_cols=85  Identities=18%  Similarity=0.160  Sum_probs=57.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCC------CCChHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFR------EESESGRARSLFS  188 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~------~~~~~~~~~~l~~  188 (247)
                      ..++.|+|++|+||||||.+++......  -..++|++........  .   ++.++.+.+      ..+..+....+..
T Consensus       732 G~lVlI~G~PG~GKTtLal~lA~~aa~~--g~~VlyiS~Ees~~ql--~---A~~lGvd~~~L~i~~~~~leei~~~l~~  804 (1706)
T 3cmw_A          732 GRIVEIYGPESSGKTTLTLQVIAAAQRE--GKTCAFIDAEHALDPI--Y---ARKLGVDIDNLLCSQPDTGEQALEICDA  804 (1706)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHHHHHT--TCCEEEECTTSCCCHH--H---HHHTTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             CceEEEECCCCCCcHHHHHHHHHHHHHc--CCCeEEEeccchHHHH--H---HHHcCCChhheEEecCCcHHHHHHHHHH
Confidence            4799999999999999999999887654  2357888776665532  2   566664322      2244444455544


Q ss_pred             HHcCCCcEEEEEeCCCCc
Q 037337          189 RLNREKRILVILDNIWEH  206 (247)
Q Consensus       189 ~l~~~kr~LlvlDdv~~~  206 (247)
                      .....+.-+||+|.+...
T Consensus       805 lv~~~~~~lVVIDsLq~l  822 (1706)
T 3cmw_A          805 LARSGAVDVIVVDSVAAL  822 (1706)
T ss_dssp             HHHHTCCSEEEESCSTTC
T ss_pred             HHHccCCCEEEEechhhh
Confidence            443345679999998754

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=97.12  E-value=0.0029  Score=55.17  Aligned_cols=51  Identities=16%  Similarity=0.238  Sum_probs=36.2

Q ss_pred             HHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCC
Q 037337          102 TLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQS  156 (247)
Q Consensus       102 ~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~  156 (247)
                      .++++..-+..  ..++.|.|.+|+|||+||.+++.....+  -..++|++....
T Consensus       186 ~LD~~lgGl~~--G~liiIaG~pG~GKTtlal~ia~~~a~~--g~~vl~fSlEms  236 (444)
T 3bgw_A          186 ELDRMTYGYKR--RNFVLIAARPSMGKTAFALKQAKNMSDN--DDVVNLHSLEMG  236 (444)
T ss_dssp             HHHHHHSSBCS--SCEEEEEECSSSSHHHHHHHHHHHHHHT--TCEEEEECSSSC
T ss_pred             HHHhhcCCCCC--CcEEEEEeCCCCChHHHHHHHHHHHHHc--CCEEEEEECCCC
Confidence            44444433332  3789999999999999999999887654  235778766543

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=97.11  E-value=0.00035  Score=53.97  Aligned_cols=26  Identities=38%  Similarity=0.469  Sum_probs=23.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ...|+|.|++|+||||+++.++..+.
T Consensus        25 ~~~i~l~G~~GsGKsTl~~~La~~l~   50 (199)
T 3vaa_A           25 MVRIFLTGYMGAGKTTLGKAFARKLN   50 (199)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            46899999999999999999998774

>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=97.11  E-value=0.00064  Score=57.88  Aligned_cols=26  Identities=27%  Similarity=0.411  Sum_probs=23.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ...+.++|++|+|||++|+.+++...
T Consensus        72 ~~~ill~Gp~GtGKT~la~~la~~l~   97 (376)
T 1um8_A           72 KSNILLIGPTGSGKTLMAQTLAKHLD   97 (376)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHhC
Confidence            35688999999999999999998773

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=97.11  E-value=0.004  Score=54.28  Aligned_cols=61  Identities=18%  Similarity=0.152  Sum_probs=39.8

Q ss_pred             HHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHH
Q 037337          102 TLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIA  167 (247)
Q Consensus       102 ~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~  167 (247)
                      .++.+..-+..  ..++.|.|.+|+|||+||..++....... -..++|++...  +..++...++
T Consensus       189 ~LD~~lgGl~~--G~l~ii~G~pg~GKT~lal~ia~~~a~~~-g~~vl~~slE~--~~~~l~~R~~  249 (444)
T 2q6t_A          189 ELDQLIGTLGP--GSLNIIAARPAMGKTAFALTIAQNAALKE-GVGVGIYSLEM--PAAQLTLRMM  249 (444)
T ss_dssp             HHHHHHCCCCT--TCEEEEEECTTSCHHHHHHHHHHHHHHTT-CCCEEEEESSS--CHHHHHHHHH
T ss_pred             hhhhhcCCcCC--CcEEEEEeCCCCCHHHHHHHHHHHHHHhC-CCeEEEEECCC--CHHHHHHHHH
Confidence            34444432332  36899999999999999999998865431 13477776643  4455555543

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=97.10  E-value=0.0089  Score=52.91  Aligned_cols=29  Identities=21%  Similarity=0.275  Sum_probs=24.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      +..+|+|+|.+|+||||++..++..+...
T Consensus       100 ~~~vI~ivG~~GvGKTTl~~kLA~~l~~~  128 (504)
T 2j37_W          100 KQNVIMFVGLQGSGKTTTCSKLAYYYQRK  128 (504)
T ss_dssp             --EEEEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhC
Confidence            35689999999999999999999877643

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=97.10  E-value=0.00032  Score=52.86  Aligned_cols=22  Identities=23%  Similarity=0.353  Sum_probs=20.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVAR  137 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~  137 (247)
                      .+|.|.|++|+||||+|+.++.
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEecCCCCCHHHHHHHHHh
Confidence            5789999999999999999987

>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=97.09  E-value=0.0004  Score=53.72  Aligned_cols=29  Identities=17%  Similarity=0.299  Sum_probs=25.6

Q ss_pred             CCCccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          112 NPDISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       112 ~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .....+++|.|++|+|||||++.++..+.
T Consensus        22 ~~~g~~i~l~G~sGsGKSTl~~~La~~l~   50 (200)
T 3uie_A           22 DQKGCVIWVTGLSGSGKSTLACALNQMLY   50 (200)
T ss_dssp             TSCCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            34558999999999999999999999876

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=97.08  E-value=0.0004  Score=53.68  Aligned_cols=27  Identities=26%  Similarity=0.401  Sum_probs=23.6

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          113 PDISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       113 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ....+++|.|++|+|||||++.++...
T Consensus        27 ~~g~~i~l~G~~GsGKSTl~~~L~~~~   53 (200)
T 4eun_A           27 EPTRHVVVMGVSGSGKTTIAHGVADET   53 (200)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHhh
Confidence            345799999999999999999999876

>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=97.07  E-value=0.00041  Score=52.94  Aligned_cols=26  Identities=23%  Similarity=0.355  Sum_probs=23.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ...|.|.|++|+||||+++.++..+.
T Consensus         5 ~~~I~l~G~~GsGKST~~~~L~~~l~   30 (193)
T 2rhm_A            5 PALIIVTGHPATGKTTLSQALATGLR   30 (193)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHcC
Confidence            46899999999999999999998763

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=97.07  E-value=0.00036  Score=53.16  Aligned_cols=27  Identities=22%  Similarity=0.367  Sum_probs=23.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      ..|+|.|++|+||||+|+.++..+...
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~~l~~~   28 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKEILDNQ   28 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            468999999999999999999987643

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=97.07  E-value=0.00046  Score=52.62  Aligned_cols=29  Identities=21%  Similarity=0.310  Sum_probs=25.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      ...+|.|.|++|+||||+++.++..+...
T Consensus        12 ~~~~i~l~G~~GsGKsT~~~~L~~~l~~~   40 (186)
T 2yvu_A           12 KGIVVWLTGLPGSGKTTIATRLADLLQKE   40 (186)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHhc
Confidence            45789999999999999999999987654

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=97.07  E-value=0.00031  Score=52.72  Aligned_cols=25  Identities=20%  Similarity=0.380  Sum_probs=22.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .+|+|+|++|+|||||++.++..+.
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~l~   29 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQLN   29 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhC
Confidence            5789999999999999999998754

>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=97.06  E-value=0.0038  Score=51.40  Aligned_cols=87  Identities=18%  Similarity=0.227  Sum_probs=49.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHH-HHHHHHHHHhCCCCC----CCChHHHHHHHHH
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIR-KVQGEIADKLGLTFR----EESESGRARSLFS  188 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~-~l~~~i~~~l~~~~~----~~~~~~~~~~l~~  188 (247)
                      ...+++++|.+|+||||++..++..+....  ..+.++......... ..+..+....+...-    ..++.+......+
T Consensus        97 ~~~~i~i~g~~G~GKTT~~~~la~~~~~~~--~~v~l~~~d~~~~~~~~ql~~~~~~~~l~~~~~~~~~~p~~l~~~~l~  174 (295)
T 1ls1_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKGKG--RRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEE  174 (295)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHHHTT--CCEEEEECCSSCHHHHHHHHHHHHHHTCCEEECCTTCCHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcC--CeEEEecCCcccHhHHHHHHHhcccCCeEEEEcCCCCCHHHHHHHHHH
Confidence            346899999999999999999999876542  235556554332211 122334444443321    2233344333333


Q ss_pred             HHc-CCCcEEEEEeCC
Q 037337          189 RLN-REKRILVILDNI  203 (247)
Q Consensus       189 ~l~-~~kr~LlvlDdv  203 (247)
                      .+. . +.=++|+|.-
T Consensus       175 ~~~~~-~~D~viiDtp  189 (295)
T 1ls1_A          175 KARLE-ARDLILVDTA  189 (295)
T ss_dssp             HHHHH-TCCEEEEECC
T ss_pred             HHHhC-CCCEEEEeCC
Confidence            332 3 2356778875

>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=97.05  E-value=0.00041  Score=52.80  Aligned_cols=26  Identities=15%  Similarity=0.344  Sum_probs=23.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ..|+|.|++|+||||+++.++..+..
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~~l~~   29 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMDNLRK   29 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            57999999999999999999998764

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=97.04  E-value=0.00062  Score=53.38  Aligned_cols=41  Identities=20%  Similarity=0.255  Sum_probs=30.6

Q ss_pred             HHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          101 STLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       101 ~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      +..+.+...+.......|+|+|.+|+|||||+..++.....
T Consensus        24 ~~a~~~r~~~~~~~~~~i~ivG~~gvGKTtl~~~l~~~~~~   64 (226)
T 2hf9_A           24 RLADKNRKLLNKHGVVAFDFMGAIGSGKTLLIEKLIDNLKD   64 (226)
T ss_dssp             HHHHHHHHHHHHTTCEEEEEEESTTSSHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhCCCeEEEEEcCCCCCHHHHHHHHHHHhcc
Confidence            33444555444455688999999999999999999987643

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=97.02  E-value=0.00039  Score=53.76  Aligned_cols=26  Identities=19%  Similarity=0.367  Sum_probs=23.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ..+|+|.|++|+||||+|+.++..+.
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~lg   43 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEACG   43 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            46899999999999999999998763

>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=97.01  E-value=0.00044  Score=52.37  Aligned_cols=26  Identities=38%  Similarity=0.574  Sum_probs=23.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ...|.|+|++|+||||+++.++..+.
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~~~~   36 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELASKSG   36 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHhC
Confidence            36788999999999999999998764

>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=96.99  E-value=0.0048  Score=54.63  Aligned_cols=49  Identities=6%  Similarity=0.063  Sum_probs=35.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEI  166 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i  166 (247)
                      ..++.|.|.+|+|||+||.+++....... -..++|++...  +..++...+
T Consensus       242 G~l~li~G~pG~GKT~lal~~a~~~a~~~-g~~vl~~s~E~--s~~~l~~r~  290 (503)
T 1q57_A          242 GEVIMVTSGSGMVMSTFVRQQALQWGTAM-GKKVGLAMLEE--SVEETAEDL  290 (503)
T ss_dssp             TCEEEEEESSCHHHHHHHHHHHHHHTTTS-CCCEEEEESSS--CHHHHHHHH
T ss_pred             CeEEEEeecCCCCchHHHHHHHHHHHHhc-CCcEEEEeccC--CHHHHHHHH
Confidence            36889999999999999999998876431 12477776644  344555544

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=96.99  E-value=0.00045  Score=52.54  Aligned_cols=25  Identities=20%  Similarity=0.412  Sum_probs=22.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .+++|+|++|+|||||++.+.....
T Consensus         6 ~~i~i~GpsGsGKSTL~~~L~~~~~   30 (180)
T 1kgd_A            6 KTLVLLGAHGVGRRHIKNTLITKHP   30 (180)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhCC
Confidence            6899999999999999999988653

>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=96.98  E-value=0.00048  Score=52.59  Aligned_cols=24  Identities=25%  Similarity=0.376  Sum_probs=21.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      ..+++|.|++|+|||||++.++..
T Consensus         9 g~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A            9 GNILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhc
Confidence            468999999999999999999875

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.98  E-value=0.00053  Score=52.30  Aligned_cols=26  Identities=19%  Similarity=0.123  Sum_probs=22.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ...|+|.|++|+||||+|+.++..+.
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~~~~   28 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVEKYG   28 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhC
Confidence            36799999999999999999988754

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=96.98  E-value=0.0029  Score=64.24  Aligned_cols=85  Identities=18%  Similarity=0.164  Sum_probs=57.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCC------CCChHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFR------EESESGRARSLFS  188 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~------~~~~~~~~~~l~~  188 (247)
                      ..++.|+|++|+||||||.+++......  -..++|++.....+..     .++.++.+.+      ..+..+....+..
T Consensus       383 G~lilI~G~pGsGKTtLaLqia~~~a~~--G~~vlyis~E~s~~~~-----~a~~lGvd~~~L~I~~~~~~e~il~~~~~  455 (2050)
T 3cmu_A          383 GRIVEIYGPESSGKTTLTLQVIAAAQRE--GKTCAFIDAEHALDPI-----YARKLGVDIDNLLCSQPDTGEQALEICDA  455 (2050)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHHHHHTT--TCCEEEECTTSCCCHH-----HHHHTTCCTTTCEEECCSSHHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHHHhc--CCeEEEEEcCCCHHHH-----HHHHcCCCHHHeEEeCCCCHHHHHHHHHH
Confidence            4799999999999999999999887654  2358888887776643     2566665432      2234444444444


Q ss_pred             HHcCCCcEEEEEeCCCCc
Q 037337          189 RLNREKRILVILDNIWEH  206 (247)
Q Consensus       189 ~l~~~kr~LlvlDdv~~~  206 (247)
                      .....+.-+||+|.+...
T Consensus       456 lv~~~~~~lIVIDSL~al  473 (2050)
T 3cmu_A          456 LARSGAVDVIVVDSVAAL  473 (2050)
T ss_dssp             HHHHTCCSEEEESCGGGC
T ss_pred             HHHhcCCcEEEECCHHHh
Confidence            333345579999998643

>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=96.97  E-value=0.0058  Score=52.93  Aligned_cols=39  Identities=21%  Similarity=0.227  Sum_probs=29.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeC
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMS  154 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~  154 (247)
                      ...++.++|++|+||||++..++..+....  ..+.++.+.
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~LA~~l~~~g--~~Vllvd~D  135 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKGKG--RRPLLVAAD  135 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTTT--CCEEEEECC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcC--CeEEEeecc
Confidence            356899999999999999999999887542  235555543

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=96.96  E-value=0.00057  Score=52.30  Aligned_cols=26  Identities=19%  Similarity=0.262  Sum_probs=23.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ..+|+|.|++|+||||+|+.++..+.
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~La~~l~   34 (196)
T 2c95_A            9 TNIIFVVGGPGSGKGTQCEKIVQKYG   34 (196)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhC
Confidence            46899999999999999999998764

>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=96.96  E-value=0.00082  Score=57.32  Aligned_cols=88  Identities=19%  Similarity=0.163  Sum_probs=49.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhccc-CCCCEEEEEEeCCCCCHHHHHHHHHHHhC----CCCCCCChHH------HH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNH-KLFDLVVFSEMSQSPDIRKVQGEIADKLG----LTFREESESG------RA  183 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~-~~f~~~~wv~~~~~~~~~~l~~~i~~~l~----~~~~~~~~~~------~~  183 (247)
                      -..++|+|++|+|||||++.+++..... ..+. ++++-++......   .++.+.+.    ....+.+...      ..
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-LMVLLIDERPEEV---TEMQRLVKGEVVASTFDEPASRHVQVAEMV  249 (422)
T ss_dssp             TCEEEEECCSSSSHHHHHHHHHHHHHHHCTTSE-EEEEEESSCHHHH---HHHHTTCSSEEEEECTTSCHHHHHHHHHHH
T ss_pred             CcEEEEecCCCCChhHHHHHHHHHHhhcCCCee-EEEEEecCChHHH---HHHHHHhCeEEEEeCCCCCHHHHHHHHHHH
Confidence            4688999999999999999998875432 2233 4467677553221   12222221    0111112211      11


Q ss_pred             HHHHHHH-cCCCcEEEEEeCCCCc
Q 037337          184 RSLFSRL-NREKRILVILDNIWEH  206 (247)
Q Consensus       184 ~~l~~~l-~~~kr~LlvlDdv~~~  206 (247)
                      -.+.+++ ..++.+||++||+...
T Consensus       250 lt~AEyfrd~G~dVLil~DslTR~  273 (422)
T 3ice_A          250 IEKAKRLVEHKKDVIILLDSITRL  273 (422)
T ss_dssp             HHHHHHHHHTSCEEEEEEECHHHH
T ss_pred             HHHHHHHHhcCCCEEEEEeCchHH
Confidence            2233444 3467899999998643

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=96.96  E-value=0.0015  Score=53.13  Aligned_cols=50  Identities=22%  Similarity=0.292  Sum_probs=35.0

Q ss_pred             CCCcccccchHHHHHHHHH---hcC---------CCccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337           91 KGYEAFESRMSTLNDILGA---LRN---------PDISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus        91 ~~~~~~~gR~~~~~~L~~~---L~~---------~~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ....+++|.++....+.+.   +..         .-.+-+.|+|++|+|||||++.++....
T Consensus        37 ~~~~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~~   98 (278)
T 1iy2_A           37 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEAR   98 (278)
T ss_dssp             CCGGGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             CCHHHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHcC
Confidence            3456788887766555433   221         1123489999999999999999998765

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=96.95  E-value=0.0027  Score=50.30  Aligned_cols=48  Identities=21%  Similarity=0.245  Sum_probs=31.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGE  165 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~  165 (247)
                      ..++.|.|.+|+|||+||.+++....... -..++|++...  +...+...
T Consensus        30 G~l~~i~G~pG~GKT~l~l~~~~~~~~~~-~~~v~~~s~E~--~~~~~~~~   77 (251)
T 2zts_A           30 GTTVLLTGGTGTGKTTFAAQFIYKGAEEY-GEPGVFVTLEE--RARDLRRE   77 (251)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHHHHHHHH-CCCEEEEESSS--CHHHHHHH
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHHhc-CCCceeecccC--CHHHHHHH
Confidence            47899999999999999999876532221 23466666543  34444444

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=96.93  E-value=0.00051  Score=51.81  Aligned_cols=25  Identities=24%  Similarity=0.413  Sum_probs=22.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ..|.|.|++|+||||+|+.++..+.
T Consensus         5 ~~i~i~G~~GsGKsTla~~La~~l~   29 (175)
T 1via_A            5 KNIVFIGFMGSGKSTLARALAKDLD   29 (175)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            3588999999999999999998765

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=96.93  E-value=0.0006  Score=52.46  Aligned_cols=25  Identities=28%  Similarity=0.493  Sum_probs=22.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      .|+|.|++|+||||+++.++..+..
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l~~   26 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKLGY   26 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHCC
T ss_pred             EEEEECCCccCHHHHHHHHHHhcCC
Confidence            5899999999999999999988753

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.92  E-value=0.0005  Score=53.32  Aligned_cols=26  Identities=38%  Similarity=0.586  Sum_probs=23.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ..+++|.|++|+|||||++.+.....
T Consensus        12 ~~~i~l~G~sGsGKsTl~~~L~~~~~   37 (204)
T 2qor_A           12 IPPLVVCGPSGVGKGTLIKKVLSEFP   37 (204)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHHCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhCc
Confidence            46899999999999999999998763

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=96.92  E-value=0.00059  Score=54.99  Aligned_cols=25  Identities=24%  Similarity=0.223  Sum_probs=22.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .+++|.|++|+||||||+.++....
T Consensus         2 ~li~I~G~~GSGKSTla~~La~~~~   26 (253)
T 2ze6_A            2 LLHLIYGPTCSGKTDMAIQIAQETG   26 (253)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCcCHHHHHHHHHhcCC
Confidence            4789999999999999999998764

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=96.92  E-value=0.0008  Score=52.31  Aligned_cols=39  Identities=18%  Similarity=0.301  Sum_probs=29.2

Q ss_pred             HHHHHHHhcCC-CccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          103 LNDILGALRNP-DISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       103 ~~~L~~~L~~~-~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      +..|..++..- +...+.++|++|+|||++|..+++.+..
T Consensus        45 ~~~l~~~~~~iPkkn~ili~GPPGtGKTt~a~ala~~l~g   84 (212)
T 1tue_A           45 LGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFIQG   84 (212)
T ss_dssp             HHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            44555555432 2357999999999999999999998753

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.91  E-value=0.00069  Score=52.45  Aligned_cols=27  Identities=15%  Similarity=0.228  Sum_probs=24.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      ..|+|.|++|+||||+|+.++..+...
T Consensus         5 ~~I~i~G~~GsGKsT~~~~L~~~l~~~   31 (213)
T 2plr_A            5 VLIAFEGIDGSGKSSQATLLKDWIELK   31 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHTTT
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHHhhc
Confidence            579999999999999999999987654

>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=96.91  E-value=0.00078  Score=51.35  Aligned_cols=24  Identities=29%  Similarity=0.318  Sum_probs=22.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      ...|+|+|++|+||||+++.++..
T Consensus        10 ~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A           10 GINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh
Confidence            468999999999999999999986

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=96.90  E-value=0.00065  Score=52.09  Aligned_cols=26  Identities=23%  Similarity=0.212  Sum_probs=23.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ..+|+|.|++|+||||+|+.++..+.
T Consensus        12 ~~~I~l~G~~GsGKsT~a~~L~~~l~   37 (199)
T 2bwj_A           12 CKIIFIIGGPGSGKGTQCEKLVEKYG   37 (199)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhC
Confidence            36899999999999999999998764

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=96.90  E-value=0.00073  Score=52.15  Aligned_cols=26  Identities=19%  Similarity=0.298  Sum_probs=23.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ...+|+|.|++|+||||+++.+++.+
T Consensus        14 ~~~~I~l~G~~GsGKsT~~~~L~~~~   39 (203)
T 1ukz_A           14 QVSVIFVLGGPGAGKGTQCEKLVKDY   39 (203)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            35689999999999999999999765

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=96.90  E-value=0.0008  Score=51.21  Aligned_cols=26  Identities=19%  Similarity=0.174  Sum_probs=23.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ..+|+|.|++|+||||+|+.++..+.
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~~l~   31 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVRDFG   31 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            46899999999999999999998764

>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=96.89  E-value=0.00061  Score=53.07  Aligned_cols=27  Identities=19%  Similarity=0.370  Sum_probs=23.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ...+++|.|++|+|||||++.++....
T Consensus         7 ~g~~i~l~GpsGsGKsTl~~~L~~~~~   33 (208)
T 3tau_A            7 RGLLIVLSGPSGVGKGTVREAVFKDPE   33 (208)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHSTT
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHhhCC
Confidence            347899999999999999999998764

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=96.89  E-value=0.0007  Score=50.63  Aligned_cols=27  Identities=30%  Similarity=0.384  Sum_probs=23.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ...|+|.|++|+||||+++.++..+..
T Consensus         7 ~~~i~l~G~~GsGKSTva~~La~~lg~   33 (168)
T 1zuh_A            7 MQHLVLIGFMGSGKSSLAQELGLALKL   33 (168)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHHHHHTC
T ss_pred             cceEEEECCCCCCHHHHHHHHHHHhCC
Confidence            468999999999999999999987653

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=96.89  E-value=0.00056  Score=52.52  Aligned_cols=25  Identities=28%  Similarity=0.337  Sum_probs=21.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      +.|+|.||+|+|||||++.+.....
T Consensus         2 RpIVi~GPSG~GK~Tl~~~L~~~~~   26 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLKKLFAEYP   26 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhCC
Confidence            5688999999999999999987643

>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=96.89  E-value=0.0007  Score=50.94  Aligned_cols=25  Identities=28%  Similarity=0.466  Sum_probs=22.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ..+++|.|++|+||||+++.++...
T Consensus         8 g~~i~l~G~~GsGKSTl~~~l~~~~   32 (175)
T 1knq_A            8 HHIYVLMGVSGSGKSAVASEVAHQL   32 (175)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHhh
Confidence            4689999999999999999998865

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=96.89  E-value=0.00055  Score=51.97  Aligned_cols=25  Identities=20%  Similarity=0.400  Sum_probs=22.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .+|.|.|++|+||||+|+.++..+.
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~lg   27 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLAKALG   27 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHcC
Confidence            4689999999999999999998765

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=96.88  E-value=0.0007  Score=51.41  Aligned_cols=25  Identities=20%  Similarity=0.219  Sum_probs=22.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ..|+|.|++|+||||+++.++..+.
T Consensus         5 ~~I~l~G~~GsGKST~~~~La~~l~   29 (186)
T 3cm0_A            5 QAVIFLGPPGAGKGTQASRLAQELG   29 (186)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            5789999999999999999998764

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=96.88  E-value=0.0012  Score=59.94  Aligned_cols=50  Identities=20%  Similarity=0.194  Sum_probs=41.5

Q ss_pred             CCCcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337           91 KGYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus        91 ~~~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      .....++|.+..++.+...+..+  ..+.|+|++|+||||||+.++......
T Consensus        38 ~~l~~i~G~~~~l~~l~~~i~~g--~~vll~Gp~GtGKTtlar~ia~~l~~~   87 (604)
T 3k1j_A           38 KLIDQVIGQEHAVEVIKTAANQK--RHVLLIGEPGTGKSMLGQAMAELLPTE   87 (604)
T ss_dssp             SHHHHCCSCHHHHHHHHHHHHTT--CCEEEECCTTSSHHHHHHHHHHTSCCS
T ss_pred             cccceEECchhhHhhccccccCC--CEEEEEeCCCCCHHHHHHHHhccCCcc
Confidence            34467899999998888877766  688999999999999999999976543

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=96.87  E-value=0.0012  Score=54.26  Aligned_cols=26  Identities=23%  Similarity=0.313  Sum_probs=23.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ...++.|.|++|+||||+|+.++...
T Consensus        32 ~~~livl~G~sGsGKSTla~~L~~~~   57 (287)
T 1gvn_B           32 SPTAFLLGGQPGSGKTSLRSAIFEET   57 (287)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            35789999999999999999998865

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=96.87  E-value=0.00088  Score=51.69  Aligned_cols=26  Identities=23%  Similarity=0.172  Sum_probs=23.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ...|+|.|++|+||||+|+.++..+.
T Consensus        20 ~~~I~l~G~~GsGKST~a~~La~~l~   45 (201)
T 2cdn_A           20 HMRVLLLGPPGAGKGTQAVKLAEKLG   45 (201)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            45899999999999999999998764

>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=96.86  E-value=0.017  Score=48.18  Aligned_cols=30  Identities=30%  Similarity=0.358  Sum_probs=26.1

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          113 PDISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       113 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      .+..+++|+|+.|+||||+++.++..+...
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag~l~~~  156 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLANWLKNH  156 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            346899999999999999999999887654

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=96.86  E-value=0.0008  Score=52.75  Aligned_cols=26  Identities=15%  Similarity=0.183  Sum_probs=23.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ...|+|.|++|+||||+|+.++..+.
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~~l~   29 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQERFH   29 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcC
Confidence            46789999999999999999998764

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=96.86  E-value=0.00083  Score=52.44  Aligned_cols=41  Identities=24%  Similarity=0.259  Sum_probs=30.6

Q ss_pred             hHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          100 MSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       100 ~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ++..+.+...+.......++|+|.+|+|||||+..+.....
T Consensus        15 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKTTl~~~l~~~~~   55 (221)
T 2wsm_A           15 KRLAEKNREALRESGTVAVNIMGAIGSGKTLLIERTIERIG   55 (221)
T ss_dssp             HHHHHHHHHHHHHHTCEEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhhcccCceEEEEEcCCCCCHHHHHHHHHHHhc
Confidence            33444444444444568999999999999999999998764

>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=96.85  E-value=0.0016  Score=53.60  Aligned_cols=29  Identities=14%  Similarity=0.132  Sum_probs=25.2

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          113 PDISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       113 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      .+..+|+|.|++|+||||||+.+...+..
T Consensus        29 ~~~~ii~I~G~sGsGKSTla~~L~~~l~~   57 (290)
T 1odf_A           29 KCPLFIFFSGPQGSGKSFTSIQIYNHLME   57 (290)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhhh
Confidence            34678999999999999999999887764

>2ck3_D ATP synthase subunit beta\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1cow_D* 1bmf_D* 1e1q_D* 1e1r_D* 1efr_D* 1e79_D* 1h8h_D* 1ohh_D* 1qo1_D 1w0j_D* 1w0k_D* 1h8e_D* 2jdi_D* 2jiz_D* 2jj1_D* 2jj2_D* 2v7q_D* 2wss_D* 2w6j_D 2w6e_D ...

Probab=96.85  E-value=0.0085  Score=52.39  Aligned_cols=90  Identities=18%  Similarity=0.268  Sum_probs=58.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCC-CHHHHHHHHHHHhCCC-------------CCCCChH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSP-DIRKVQGEIADKLGLT-------------FREESES  180 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~l~~~i~~~l~~~-------------~~~~~~~  180 (247)
                      -..++|.|.+|+|||+|+.++++..... +.+..+|+-++... .+.+++..+...-...             ..+.+..
T Consensus       153 GQr~~Ifgg~G~GKT~L~~~i~~~~~~~-~~~v~V~~~iGER~rEv~e~~~~~~~~~~l~~~~~~~rtvvV~~t~d~p~~  231 (482)
T 2ck3_D          153 GGKIGLFGGAGVGKTVLIMELINNVAKA-HGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSKVALVYGQMNEPPG  231 (482)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHHTTTT-CSSEEEEEEESCCHHHHHHHHHHHHHHTSSCSSSSCCCEEEEEECTTSCHH
T ss_pred             CCeeeeecCCCCChHHHHHHHHHhhHhh-CCCEEEEEECCCcchHHHHHHHHhhhccccccccCCceEEEEEECCCCCHH
Confidence            3678999999999999999999876432 24567788887664 3456666666542221             1111211


Q ss_pred             ------HHHHHHHHHHc--CCCcEEEEEeCCCC
Q 037337          181 ------GRARSLFSRLN--REKRILVILDNIWE  205 (247)
Q Consensus       181 ------~~~~~l~~~l~--~~kr~LlvlDdv~~  205 (247)
                            ...-.+.+++.  .++.+||++||+..
T Consensus       232 ~r~~~~~~a~tiAEyfrd~~G~dVLll~DsitR  264 (482)
T 2ck3_D          232 ARARVALTGLTVAEYFRDQEGQDVLLFIDNIFR  264 (482)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCSCEEEEEECTHH
T ss_pred             HHHHHHHHHHHHHHHHHHhcCCcEEEEeccHHH
Confidence                  12234556663  46889999999853

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=96.85  E-value=0.00066  Score=50.87  Aligned_cols=25  Identities=28%  Similarity=0.387  Sum_probs=22.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ..|.|.|++|+||||+|+.++..+.
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~lg   27 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELARALG   27 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhC
Confidence            4689999999999999999998764

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=96.84  E-value=0.00052  Score=51.96  Aligned_cols=26  Identities=23%  Similarity=0.300  Sum_probs=19.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ...|.|.|++|+||||+|+.++..+.
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~~l~   30 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHERLP   30 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHHHST
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhcC
Confidence            36899999999999999999988765

>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=96.83  E-value=0.005  Score=54.01  Aligned_cols=90  Identities=20%  Similarity=0.276  Sum_probs=59.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCC-HHHHHHHHHHHhCCC--------------CCCCCh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPD-IRKVQGEIADKLGLT--------------FREESE  179 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~-~~~l~~~i~~~l~~~--------------~~~~~~  179 (247)
                      -..++|.|.+|+|||+|+.++++..... +.+..+|+-++.... ..+++..+...-...              ..+.+.
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 GGKIGLFGGAGVGKTVLIMELINNIAKA-HGGVSVFGGVGERTREGNDLYMEMKESGVINEQNIAESKVALVYGQMNEPP  243 (498)
T ss_dssp             TCCEEEEECSSSSHHHHHHHHHHHTTTT-CSSCEEEEEESCCSHHHHHHHHHHHHTTSSCSSTTCCCCEEEEEECTTSCH
T ss_pred             CCeEEeecCCCCCchHHHHHHHHHHHhh-CCCEEEEEEcccCcHHHHHHHHhhhcccccccccccccceEEEEeCCCCCH
Confidence            4678999999999999999999986432 246778888887653 556666665432121              011111


Q ss_pred             ------HHHHHHHHHHHcC--CCcEEEEEeCCCC
Q 037337          180 ------SGRARSLFSRLNR--EKRILVILDNIWE  205 (247)
Q Consensus       180 ------~~~~~~l~~~l~~--~kr~LlvlDdv~~  205 (247)
                            ....-.+.+++..  ++.+||++||+..
T Consensus       244 ~~R~~~~~~altiAEyfrd~~G~dVLl~~DsitR  277 (498)
T 1fx0_B          244 GARMRVGLTALTMAEYFRDVNEQDVLLFIDNIFR  277 (498)
T ss_dssp             HHHTTHHHHHHHTHHHHTTTSCCEEEEEEECSHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhcCCcEEEEeccHHH
Confidence                  1223456677754  6889999999853

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=96.83  E-value=0.004  Score=48.09  Aligned_cols=84  Identities=17%  Similarity=0.147  Sum_probs=48.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCC------ChHHHHHHHHHHH
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREE------SESGRARSLFSRL  190 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~------~~~~~~~~l~~~l  190 (247)
                      .|++-|.-|+||||.++.+++.++..+ . .+++..-.......+....++..-.......      +..+....+...|
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 FITFEGIDGSGKSTQIQLLAQYLEKRG-K-KVILKREPGGTETGEKIRKILLEEEVTPKAELFLFLASRNLLVTEIKQYL   79 (197)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTT-C-CEEEEESSCSSHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCC-C-cEEEEECCCCCcHHHHHHHHhhcccCChHHHHHHHHHHHHHHHHHHHHHH
Confidence            478999999999999999999988763 2 3444444444444555555543322110000      0112234455556


Q ss_pred             cCCCcEEEEEeCCC
Q 037337          191 NREKRILVILDNIW  204 (247)
Q Consensus       191 ~~~kr~LlvlDdv~  204 (247)
                      ..+  ..+|.|-..
T Consensus        80 ~~g--~~Vi~DRy~   91 (197)
T 3hjn_A           80 SEG--YAVLLDRYT   91 (197)
T ss_dssp             TTT--CEEEEESCH
T ss_pred             HCC--CeEEecccc
Confidence            654  467778653

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=96.83  E-value=0.00079  Score=51.90  Aligned_cols=25  Identities=24%  Similarity=0.368  Sum_probs=22.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ..+++|.|+.|+|||||++.++...
T Consensus         7 g~ii~l~Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A            7 ANLFIISAPSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CcEEEEECcCCCCHHHHHHHHHhhC
Confidence            3689999999999999999998864

>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=96.82  E-value=0.00084  Score=53.91  Aligned_cols=28  Identities=14%  Similarity=0.259  Sum_probs=24.0

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          113 PDISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       113 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ....+|+|.|++|+||||+|+.+...+.
T Consensus        20 ~~~~iI~I~G~~GSGKST~a~~L~~~lg   47 (252)
T 1uj2_A           20 GEPFLIGVSGGTASGKSSVCAKIVQLLG   47 (252)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHHhh
Confidence            3457899999999999999999998754

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=96.81  E-value=0.00081  Score=52.77  Aligned_cols=24  Identities=33%  Similarity=0.418  Sum_probs=22.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      .+|+|+|++|+||||+++.++..+
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~~~   29 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAEAL   29 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            579999999999999999998765

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=96.81  E-value=0.00089  Score=51.91  Aligned_cols=32  Identities=19%  Similarity=0.209  Sum_probs=26.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCE
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDL  147 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~  147 (247)
                      ...|+|.|++|+||||+++.++..+... +++.
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~~l~~~-~~~~   41 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVEYLKNN-NVEV   41 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHHHHHHT-TCCE
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHHc-CCcE
Confidence            4689999999999999999999987653 3454

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=96.81  E-value=0.00094  Score=52.55  Aligned_cols=27  Identities=19%  Similarity=0.220  Sum_probs=24.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      +.++|.|.|++|+||+|.|..++..+.
T Consensus        28 k~kiI~llGpPGsGKgTqa~~L~~~~g   54 (217)
T 3umf_A           28 KAKVIFVLGGPGSGKGTQCEKLVQKFH   54 (217)
T ss_dssp             SCEEEEEECCTTCCHHHHHHHHHHHHC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHC
Confidence            468999999999999999999998764

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=96.80  E-value=0.00088  Score=51.68  Aligned_cols=25  Identities=20%  Similarity=0.385  Sum_probs=22.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ..+++|.|++|+||||+++.+....
T Consensus         6 g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            6 GLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhh
Confidence            3689999999999999999998865

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=96.79  E-value=0.00094  Score=53.35  Aligned_cols=26  Identities=23%  Similarity=0.227  Sum_probs=23.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ..+++|.|++|+|||||++.++..+.
T Consensus        27 ~~~i~l~G~~GsGKSTl~k~La~~lg   52 (246)
T 2bbw_A           27 LLRAVILGPPGSGKGTVCQRIAQNFG   52 (246)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            57899999999999999999997764

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=96.79  E-value=0.00096  Score=51.80  Aligned_cols=32  Identities=9%  Similarity=0.098  Sum_probs=26.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCE
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDL  147 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~  147 (247)
                      ...|+|.|++|+||||+++.++..+... +++.
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~L~~~l~~~-~~~v   40 (215)
T 1nn5_A            9 GALIVLEGVDRAGKSTQSRKLVEALCAA-GHRA   40 (215)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHHHHT-TCCE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHc-CCcE
Confidence            4689999999999999999999987654 3444

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=96.79  E-value=0.00095  Score=49.76  Aligned_cols=24  Identities=17%  Similarity=0.224  Sum_probs=21.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .|+|.|++|+||||+|+.+...+.
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l~   25 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSLN   25 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC
Confidence            588999999999999999998765

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=96.78  E-value=0.00094  Score=50.90  Aligned_cols=25  Identities=28%  Similarity=0.444  Sum_probs=22.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      .|+|.|++|+||||+++.++..+..
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l~~   26 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYLKQ   26 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH
Confidence            6899999999999999999998753

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=96.78  E-value=0.0019  Score=51.57  Aligned_cols=27  Identities=15%  Similarity=0.057  Sum_probs=23.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ....|+|.|++|+||||+|+.+++.+.
T Consensus        28 ~~~~I~l~G~~GsGKsT~a~~L~~~~g   54 (243)
T 3tlx_A           28 PDGRYIFLGAPGSGKGTQSLNLKKSHC   54 (243)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            457899999999999999999998763

>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=96.76  E-value=0.0026  Score=55.76  Aligned_cols=42  Identities=21%  Similarity=0.308  Sum_probs=31.3

Q ss_pred             hHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          100 MSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       100 ~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      .+.+..+..++.+.+ ..+.|.|.+|+|||+++..++..+...
T Consensus        31 ~~av~~~~~~i~~~~-~~~li~G~aGTGKT~ll~~~~~~l~~~   72 (459)
T 3upu_A           31 KNAFNIVMKAIKEKK-HHVTINGPAGTGATTLTKFIIEALIST   72 (459)
T ss_dssp             HHHHHHHHHHHHSSS-CEEEEECCTTSCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhcCC-CEEEEEeCCCCCHHHHHHHHHHHHHhc
Confidence            334444555555443 489999999999999999999988665

>1g41_A Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dependent proteolysis, chaperone; HET: ADP; 2.30A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1g3i_A* 1im2_A* 1kyi_A* 1g4a_E* 1g4b_E 1yyf_A* 1do0_A* 1do2_A* 1e94_E* 1hqy_E* 1ht1_E* 1ht2_E*

Probab=96.76  E-value=0.001  Score=57.90  Aligned_cols=48  Identities=23%  Similarity=0.291  Sum_probs=36.4

Q ss_pred             cccccchHHHHHHHHHhcC--------------CCccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           94 EAFESRMSTLNDILGALRN--------------PDISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        94 ~~~~gR~~~~~~L~~~L~~--------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ..++|.++..+.|...+..              ...+-+.++|++|+|||++|+.++.....
T Consensus        15 ~~IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~~l~~   76 (444)
T 1g41_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANA   76 (444)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTTC
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHHHcCC
Confidence            4578888877777655521              12456899999999999999999998754

>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=96.76  E-value=0.001  Score=50.65  Aligned_cols=25  Identities=32%  Similarity=0.482  Sum_probs=22.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      .++|+|+.|+|||||++.++.....
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l~i   26 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERLGK   26 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHGG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCC
Confidence            5789999999999999999988753

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=96.76  E-value=0.00097  Score=51.97  Aligned_cols=24  Identities=21%  Similarity=0.378  Sum_probs=21.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .|+|.|++|+||||+|+.++..+.
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~~   25 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIEKYE   25 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            478999999999999999988764

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=96.75  E-value=0.0019  Score=54.53  Aligned_cols=42  Identities=19%  Similarity=0.288  Sum_probs=30.0

Q ss_pred             hHHHHHHHHHh----cCCCccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          100 MSTLNDILGAL----RNPDISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       100 ~~~~~~L~~~L----~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      +...+.+++.+    ..+....+.|+|++|+||||+++.++..+..
T Consensus         5 ~~L~~~il~~l~~~i~~g~~~~i~l~G~~G~GKTTl~~~la~~l~~   50 (359)
T 2ga8_A            5 HKLADDVLQLLDNRIEDNYRVCVILVGSPGSGKSTIAEELCQIINE   50 (359)
T ss_dssp             HHHHHHHHHHHHHTTTTCSCEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccCCeeEEEEECCCCCcHHHHHHHHHHHhCC
Confidence            34444444444    3444567999999999999999999887643

>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=96.75  E-value=0.00091  Score=51.01  Aligned_cols=22  Identities=32%  Similarity=0.454  Sum_probs=20.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVAR  137 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~  137 (247)
                      .+++|.|++|+|||||++.++.
T Consensus         3 ~ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            3 KLYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHhc
Confidence            4789999999999999999986

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=96.75  E-value=0.0011  Score=51.44  Aligned_cols=27  Identities=33%  Similarity=0.436  Sum_probs=23.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      +..+++|.|+.|+|||||++.++..+.
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~~~~   31 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALARTLG   31 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHHG
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHhC
Confidence            346899999999999999999998765

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=96.72  E-value=0.0011  Score=53.59  Aligned_cols=27  Identities=26%  Similarity=0.556  Sum_probs=23.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ...|.|.|++|+||||+|+.++..+..
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~~L~~   30 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAKILSK   30 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHh
Confidence            368999999999999999999988653

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=96.72  E-value=0.00097  Score=52.54  Aligned_cols=26  Identities=19%  Similarity=0.262  Sum_probs=23.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ...|+|.|++|+||||+|+.++..+.
T Consensus         7 ~~~I~l~G~~GsGKsT~a~~La~~l~   32 (227)
T 1zd8_A            7 LLRAVIMGAPGSGKGTVSSRITTHFE   32 (227)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHSS
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcC
Confidence            36799999999999999999998753

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=96.72  E-value=0.001  Score=52.17  Aligned_cols=26  Identities=19%  Similarity=0.082  Sum_probs=23.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ...|+|.|++|+||||+++.++..+.
T Consensus         5 ~~~I~l~G~~GsGKsT~~~~La~~l~   30 (222)
T 1zak_A            5 PLKVMISGAPASGKGTQCELIKTKYQ   30 (222)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            36789999999999999999998765

>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=96.71  E-value=0.0011  Score=50.92  Aligned_cols=25  Identities=24%  Similarity=0.307  Sum_probs=22.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      +..+|+|.|+.|+||||+++.++..
T Consensus         7 ~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            7 HPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHC
Confidence            4578999999999999999999875

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=96.70  E-value=0.00096  Score=51.56  Aligned_cols=25  Identities=24%  Similarity=0.361  Sum_probs=22.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      +.++|+|+.|+|||||++.+.....
T Consensus         5 ~~i~lvGpsGaGKSTLl~~L~~~~~   29 (198)
T 1lvg_A            5 RPVVLSGPSGAGKSTLLKKLFQEHS   29 (198)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhCc
Confidence            6789999999999999999988653

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=96.70  E-value=0.0011  Score=51.23  Aligned_cols=27  Identities=15%  Similarity=0.383  Sum_probs=23.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ..++++|+|++|+|||||++.+.....
T Consensus        18 ~g~~ivl~GPSGaGKsTL~~~L~~~~~   44 (197)
T 3ney_A           18 GRKTLVLIGASGVGRSHIKNALLSQNP   44 (197)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CCCEEEEECcCCCCHHHHHHHHHhhCC
Confidence            357899999999999999999997654

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=96.69  E-value=0.0011  Score=51.75  Aligned_cols=24  Identities=25%  Similarity=0.346  Sum_probs=21.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .|+|.|++|+||||+|+.++..+.
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~~   25 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEKYG   25 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            478999999999999999987653

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=96.68  E-value=0.0011  Score=51.28  Aligned_cols=22  Identities=23%  Similarity=0.416  Sum_probs=20.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVAR  137 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~  137 (247)
                      ..|+|.|+.|+||||+++.++.
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            3689999999999999999987

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=96.66  E-value=0.0011  Score=51.00  Aligned_cols=25  Identities=16%  Similarity=0.165  Sum_probs=22.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ...|+|.|+.|+||||+++.++..+
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~~l   28 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIMESI   28 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTS
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            3689999999999999999999876

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=96.65  E-value=0.0019  Score=48.67  Aligned_cols=28  Identities=21%  Similarity=0.270  Sum_probs=25.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      ..++.|.|+.|+|||||+..+...+...
T Consensus         4 ~~~i~i~G~sGsGKTTl~~~L~~~l~~~   31 (169)
T 1xjc_A            4 MNVWQVVGYKHSGKTTLMEKWVAAAVRE   31 (169)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhhHhc
Confidence            5789999999999999999999987654

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=96.63  E-value=0.0054  Score=51.85  Aligned_cols=40  Identities=20%  Similarity=0.321  Sum_probs=30.2

Q ss_pred             HHHHHHHhc--CCCccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          103 LNDILGALR--NPDISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       103 ~~~L~~~L~--~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      ...++..+.  ..+..+|+|+|.+|+|||||+..++..+...
T Consensus        65 ~~~~~~~~~~~~~~~~~I~i~G~~G~GKSTl~~~L~~~l~~~  106 (355)
T 3p32_A           65 AQQLLLRLLPDSGNAHRVGITGVPGVGKSTAIEALGMHLIER  106 (355)
T ss_dssp             HHHHHHHHGGGCCCSEEEEEECCTTSSHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHhHhhcCCceEEEEECCCCCCHHHHHHHHHHHHHhC
Confidence            344454443  3456899999999999999999999877543

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii}

Probab=96.62  E-value=0.0035  Score=52.87  Aligned_cols=46  Identities=17%  Similarity=0.296  Sum_probs=33.5

Q ss_pred             hcCCCccEEEEEcCCCCcHHHHHHHHHHHhc--ccCCCCEEEEEEeCCCC
Q 037337          110 LRNPDISMLGICGMGGIGKTMLEKEVARKAK--NHKLFDLVVFSEMSQSP  157 (247)
Q Consensus       110 L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~--~~~~f~~~~wv~~~~~~  157 (247)
                      +.....+++.+.|.||+||||+|..++..+.  ..  -..+..+++....
T Consensus        13 l~~~~~~i~~~~gkGGvGKTt~a~~lA~~la~~~~--g~~vllid~D~~~   60 (348)
T 3io3_A           13 VQHDSLKWIFVGGKGGVGKTTTSSSVAVQLALAQP--NEQFLLISTDPAH   60 (348)
T ss_dssp             HTCTTCSEEEEECSTTSSHHHHHHHHHHHHHHHCT--TSCEEEEECCSSC
T ss_pred             hcCCCcEEEEEeCCCCCcHHHHHHHHHHHHHHhcC--CCeEEEEECCCCC
Confidence            3455568999999999999999999998876  43  2235556555443

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=96.61  E-value=0.0017  Score=52.14  Aligned_cols=27  Identities=19%  Similarity=0.284  Sum_probs=23.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ....+.|.|++|+||||+|+.++..+.
T Consensus        31 ~~~~i~l~G~~GsGKSTla~~L~~~l~   57 (253)
T 2p5t_B           31 QPIAILLGGQSGAGKTTIHRIKQKEFQ   57 (253)
T ss_dssp             SCEEEEEESCGGGTTHHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhcC
Confidence            357899999999999999999998764

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=96.60  E-value=0.0025  Score=52.73  Aligned_cols=29  Identities=24%  Similarity=0.355  Sum_probs=25.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      +..+++|+|++|+|||||+..++..+...
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lagll~~~  129 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGRYYQNL  129 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhc
Confidence            45799999999999999999999877643

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=96.59  E-value=0.0013  Score=50.94  Aligned_cols=22  Identities=27%  Similarity=0.419  Sum_probs=20.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVAR  137 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~  137 (247)
                      .+|+|.|+.|+||||+++.++.
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            4789999999999999999976

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=96.58  E-value=0.0021  Score=50.04  Aligned_cols=27  Identities=19%  Similarity=0.245  Sum_probs=24.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ...+|+|.|++|+||||+++.++..+.
T Consensus        24 ~~~~i~~~G~~GsGKsT~~~~l~~~l~   50 (211)
T 1m7g_A           24 RGLTIWLTGLSASGKSTLAVELEHQLV   50 (211)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHhc
Confidence            457899999999999999999998876

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=96.58  E-value=0.00072  Score=52.53  Aligned_cols=25  Identities=24%  Similarity=0.485  Sum_probs=22.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      +|+|.|++|+||||+++.+...+..
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~l~~   26 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGAFRA   26 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHHHHE
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHh
Confidence            6899999999999999999988753

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=96.56  E-value=0.0011  Score=49.87  Aligned_cols=21  Identities=29%  Similarity=0.533  Sum_probs=18.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEV  135 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~  135 (247)
                      ..+++|+|+.|+|||||++.+
T Consensus         9 gei~~l~G~nGsGKSTl~~~~   29 (171)
T 4gp7_A            9 LSLVVLIGSSGSGKSTFAKKH   29 (171)
T ss_dssp             SEEEEEECCTTSCHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHH
Confidence            468999999999999999953

>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=96.56  E-value=0.0038  Score=52.37  Aligned_cols=50  Identities=18%  Similarity=0.262  Sum_probs=35.9

Q ss_pred             hcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHH
Q 037337          110 LRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRK  161 (247)
Q Consensus       110 L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~  161 (247)
                      +.....+++.+.|.||+||||+|..++..+...  -..+..+++....+...
T Consensus        11 l~~~~~~i~~~sgkGGvGKTt~a~~lA~~la~~--g~~vllid~D~~~~l~~   60 (334)
T 3iqw_A           11 LDQRSLRWIFVGGKGGVGKTTTSCSLAIQLAKV--RRSVLLLSTDPAHNLSD   60 (334)
T ss_dssp             HHCTTCCEEEEECSTTSSHHHHHHHHHHHHTTS--SSCEEEEECCSSCHHHH
T ss_pred             hcCCCeEEEEEeCCCCccHHHHHHHHHHHHHhC--CCcEEEEECCCCCChhH
Confidence            334556888999999999999999999887654  23466666665444333

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=96.56  E-value=0.0035  Score=57.35  Aligned_cols=63  Identities=24%  Similarity=0.212  Sum_probs=42.5

Q ss_pred             HHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHH
Q 037337          101 STLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIAD  168 (247)
Q Consensus       101 ~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~  168 (247)
                      .+.+.+...|...  ....|+||||+|||+.+..+...+-..   ...+.++...+..++++...|..
T Consensus       193 ~Q~~AV~~al~~~--~~~lI~GPPGTGKT~ti~~~I~~l~~~---~~~ILv~a~TN~AvD~i~erL~~  255 (646)
T 4b3f_X          193 SQKEAVLFALSQK--ELAIIHGPPGTGKTTTVVEIILQAVKQ---GLKVLCCAPSNIAVDNLVERLAL  255 (646)
T ss_dssp             HHHHHHHHHHHCS--SEEEEECCTTSCHHHHHHHHHHHHHHT---TCCEEEEESSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCC--CceEEECCCCCCHHHHHHHHHHHHHhC---CCeEEEEcCchHHHHHHHHHHHh
Confidence            4445566666544  477899999999997666665554333   23577777777777777777643

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=96.55  E-value=0.0016  Score=50.46  Aligned_cols=25  Identities=32%  Similarity=0.558  Sum_probs=22.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ..+|+|+|++|+||||+++.+...+
T Consensus        21 ~~~i~i~G~~GsGKSTl~~~L~~~~   45 (207)
T 2qt1_A           21 TFIIGISGVTNSGKTTLAKNLQKHL   45 (207)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTTS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999999998753

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=96.53  E-value=0.0016  Score=52.30  Aligned_cols=27  Identities=26%  Similarity=0.322  Sum_probs=23.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ...+|+|.|+.|+||||+++.++..+.
T Consensus        26 ~g~~I~I~G~~GsGKSTl~k~La~~Lg   52 (252)
T 4e22_A           26 IAPVITVDGPSGAGKGTLCKALAESLN   52 (252)
T ss_dssp             TSCEEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhcC
Confidence            346899999999999999999996653

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=96.52  E-value=0.002  Score=48.62  Aligned_cols=27  Identities=19%  Similarity=0.229  Sum_probs=23.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ..+|+|.|+.|+||||+++.++..+..
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~~l~~   31 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEEYLVC   31 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            467899999999999999999987644

>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=96.52  E-value=0.0083  Score=60.17  Aligned_cols=85  Identities=18%  Similarity=0.160  Sum_probs=61.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCC------CChHHHHHHHH
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFRE------ESESGRARSLF  187 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~------~~~~~~~~~l~  187 (247)
                      +-++|-|+|+.|+||||||.++....+..  -...+|+++....+..-     ++.+|.+.+.      .+.+..+..+.
T Consensus      1430 rg~~iei~g~~~sGkttl~~~~~a~~~~~--g~~~~~i~~e~~~~~~~-----~~~~Gv~~~~l~~~~p~~~e~~l~~~~ 1502 (1706)
T 3cmw_A         1430 MGRIVEIYGPESSGKTTLTLQVIAAAQRE--GKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEICD 1502 (1706)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHHHT--TCCEEEECTTSCCCHHH-----HHHTTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHHhc--CCeEEEEecCCCCCHHH-----HHHcCCCHHHeEEeCCCcHHHHHHHHH
Confidence            35899999999999999999999876654  34578888877666543     7788876543      23344455555


Q ss_pred             HHHcCCCcEEEEEeCCCC
Q 037337          188 SRLNREKRILVILDNIWE  205 (247)
Q Consensus       188 ~~l~~~kr~LlvlDdv~~  205 (247)
                      ..++.+..-+||+|.|..
T Consensus      1503 ~~~~s~~~~~vvvDsv~a 1520 (1706)
T 3cmw_A         1503 ALARSGAVDVIVVDSVAA 1520 (1706)
T ss_dssp             HHHHHTCCSEEEESCSTT
T ss_pred             HHHHcCCCCEEEEccHHh
Confidence            555666678999999753

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=96.50  E-value=0.0019  Score=50.35  Aligned_cols=24  Identities=29%  Similarity=0.387  Sum_probs=21.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      +|.|.|++|+||+|.|..++..+.
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~g   25 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEKG   25 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
Confidence            578899999999999999998764

>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=96.50  E-value=0.0018  Score=49.83  Aligned_cols=26  Identities=23%  Similarity=0.358  Sum_probs=23.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ...+|+|+|+.|+||||+++.+...+
T Consensus        11 ~~~iIgltG~~GSGKSTva~~L~~~l   36 (192)
T 2grj_A           11 HHMVIGVTGKIGTGKSTVCEILKNKY   36 (192)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHhc
Confidence            35789999999999999999998864

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=96.50  E-value=0.0018  Score=50.68  Aligned_cols=25  Identities=20%  Similarity=0.162  Sum_probs=22.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ..|+|.|++|+||||+|+.++..+.
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~~l~   30 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKKEYG   30 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4688999999999999999998874

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=96.50  E-value=0.0019  Score=50.87  Aligned_cols=24  Identities=29%  Similarity=0.228  Sum_probs=21.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .|+|.|++|+||||+|+.++..+.
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~~lg   25 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKDKYS   25 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            588999999999999999998763

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=96.49  E-value=0.0017  Score=50.37  Aligned_cols=25  Identities=12%  Similarity=0.272  Sum_probs=22.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ..+++|.|+.|+|||||++.++.-.
T Consensus        20 Gei~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           20 GRVVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            3789999999999999999998865

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=96.49  E-value=0.0065  Score=49.75  Aligned_cols=39  Identities=13%  Similarity=0.112  Sum_probs=29.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMS  154 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~  154 (247)
                      -.+++|.|++|+|||||+..++........ ..++|++..
T Consensus        35 G~~~~i~G~~G~GKTTl~~~ia~~~~~~~G-~~v~~~~~e   73 (296)
T 1cr0_A           35 GEVIMVTSGSGMGKSTFVRQQALQWGTAMG-KKVGLAMLE   73 (296)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHHHHHHTSC-CCEEEEESS
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHHHcC-CeEEEEeCc
Confidence            378999999999999999999988765411 136666543

>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=96.49  E-value=0.0018  Score=50.42  Aligned_cols=24  Identities=17%  Similarity=0.070  Sum_probs=21.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .|+|.|++|+||||+|+.++..+.
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~g   25 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIMEKYG   25 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            478999999999999999998763

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=96.49  E-value=0.0039  Score=51.79  Aligned_cols=42  Identities=14%  Similarity=0.194  Sum_probs=30.0

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeC
Q 037337          113 PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMS  154 (247)
Q Consensus       113 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~  154 (247)
                      ....+++|.|+.|+|||||++.++.-+.....-..+.++.-.
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~gll~~~~G~~~v~~v~qd  129 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQALLARWDHHPRVDLVTTD  129 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHHHHHTSTTCCCEEEEEGG
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHhhccccCCCCeEEEEecC
Confidence            345799999999999999999999877643111235555443

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.48  E-value=0.0031  Score=52.61  Aligned_cols=28  Identities=18%  Similarity=0.273  Sum_probs=24.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ...+++|.|+.|+|||||++.+...+..
T Consensus        91 ~p~iigI~GpsGSGKSTl~~~L~~ll~~  118 (321)
T 3tqc_A           91 VPYIIGIAGSVAVGKSTTSRVLKALLSR  118 (321)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHTT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHhcc
Confidence            3568999999999999999999887653

>1u0j_A DNA replication protein; AAA+ protein, P-loop atpases, helicase; HET: DNA ADP; 2.10A {Adeno-associated virus - 2} SCOP: c.37.1.20 PDB: 1s9h_A

Probab=96.48  E-value=0.0035  Score=50.70  Aligned_cols=38  Identities=18%  Similarity=0.237  Sum_probs=29.6

Q ss_pred             HHHHHHHHhcCC--CccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          102 TLNDILGALRNP--DISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       102 ~~~~L~~~L~~~--~~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      -...+..|+...  +...+.++|++|+|||.+|..+++..
T Consensus        89 ~~~~l~~~l~~~~~~~n~~~l~GppgtGKt~~a~ala~~~  128 (267)
T 1u0j_A           89 AASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             HHHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             HHHHHHHHHhCCCCCCcEEEEECCCCCCHHHHHHHHHhhh
Confidence            334467777654  25679999999999999999999863

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=96.47  E-value=0.0022  Score=51.15  Aligned_cols=26  Identities=15%  Similarity=0.281  Sum_probs=23.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ...+++|.|+.|+|||||++.++..+
T Consensus        24 ~g~iigI~G~~GsGKSTl~k~L~~~l   49 (245)
T 2jeo_A           24 RPFLIGVSGGTASGKSTVCEKIMELL   49 (245)
T ss_dssp             CSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            34789999999999999999998865

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=96.47  E-value=0.0017  Score=51.01  Aligned_cols=25  Identities=40%  Similarity=0.584  Sum_probs=22.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ..+++|+|+.|+|||||++.++...
T Consensus        23 G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           23 IYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            4689999999999999999998865

>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=96.46  E-value=0.0041  Score=52.04  Aligned_cols=107  Identities=17%  Similarity=0.091  Sum_probs=57.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNREKR  195 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr  195 (247)
                      ..++|+|+.|+|||||++.++......   .+.+.+.-.........    -+.++.-..  ........+...|.. ++
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 KNVIVCGGTGSGKTTYIKSIMEFIPKE---ERIISIEDTEEIVFKHH----KNYTQLFFG--GNITSADCLKSCLRM-RP  241 (330)
T ss_dssp             CCEEEEESTTSCHHHHHHHGGGGSCTT---SCEEEEESSCCCCCSSC----SSEEEEECB--TTBCHHHHHHHHTTS-CC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCcCC---CcEEEECCeeccccccc----hhEEEEEeC--CChhHHHHHHHHhhh-CC
Confidence            589999999999999999998776532   34555542221110000    000000000  112233445555655 45


Q ss_pred             EEEEEeCCCCccchhhhcccCCCCCCCeEEEEeeCchhhh
Q 037337          196 ILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTARSLDVL  235 (247)
Q Consensus       196 ~LlvlDdv~~~~~~~~l~~~~~~~~~~s~iiiTtR~~~va  235 (247)
                      -+|++|+..+.+.++.+ ..+.. + +..+|+||...+..
T Consensus       242 ~ilildE~~~~e~~~~l-~~~~~-g-~~tvi~t~H~~~~~  278 (330)
T 2pt7_A          242 DRIILGELRSSEAYDFY-NVLCS-G-HKGTLTTLHAGSSE  278 (330)
T ss_dssp             SEEEECCCCSTHHHHHH-HHHHT-T-CCCEEEEEECSSHH
T ss_pred             CEEEEcCCChHHHHHHH-HHHhc-C-CCEEEEEEcccHHH
Confidence            78899999875444434 22211 1 22367777766643

>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=96.46  E-value=0.0022  Score=50.73  Aligned_cols=26  Identities=19%  Similarity=0.101  Sum_probs=23.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ...|+|.|++|+||||+|+.++..+.
T Consensus        16 ~~~I~l~G~~GsGKsT~a~~La~~l~   41 (233)
T 1ak2_A           16 GVRAVLLGPPGAGKGTQAPKLAKNFC   41 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35789999999999999999998865

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=96.45  E-value=0.0038  Score=52.07  Aligned_cols=39  Identities=18%  Similarity=0.250  Sum_probs=29.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeC
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMS  154 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~  154 (247)
                      +..+++|+|++|+||||++..++..+....  ..+.++.+.
T Consensus       104 ~~~vI~ivG~~G~GKTT~~~~LA~~l~~~g--~kVllid~D  142 (320)
T 1zu4_A          104 RLNIFMLVGVNGTGKTTSLAKMANYYAELG--YKVLIAAAD  142 (320)
T ss_dssp             SCEEEEEESSTTSSHHHHHHHHHHHHHHTT--CCEEEEECC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHCC--CeEEEEeCC
Confidence            357899999999999999999998876542  235555544

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=96.44  E-value=0.0014  Score=49.55  Aligned_cols=37  Identities=27%  Similarity=0.247  Sum_probs=27.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEE
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSE  152 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~  152 (247)
                      .+++|+|+.|+|||||+..+...+.....-.+.+.++
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~~~~g~~~G~I~~d   39 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPILRERGLRVAVVKRH   39 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHHHHTTCCEEEEEC-
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhhhcCCceEEEEEc
Confidence            5789999999999999999998877542223455543

>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=96.44  E-value=0.0019  Score=49.79  Aligned_cols=40  Identities=15%  Similarity=0.095  Sum_probs=21.5

Q ss_pred             chHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHH
Q 037337           99 RMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus        99 R~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      +....+.+.+.....+.-.|+|+|.+|+|||||+..+...
T Consensus        14 ~~~~~~~m~~~~~~~~~~ki~vvG~~~~GKSsLi~~l~~~   53 (204)
T 4gzl_A           14 LVPRGSHMENLYFQGQAIKCVVVGDGAVGKTCLLISYTTN   53 (204)
T ss_dssp             ----------------CEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             cccchhHHHhHhhcCCeEEEEEECcCCCCHHHHHHHHHhC
Confidence            3444444444444445567899999999999999999865

>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=96.43  E-value=0.0071  Score=48.12  Aligned_cols=37  Identities=19%  Similarity=0.268  Sum_probs=29.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEE
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSE  152 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~  152 (247)
                      ...|++.|+.|+||||++..++..+... .+..+....
T Consensus        27 ~~~i~~eG~~GsGKsT~~~~l~~~l~~~-~~~~~~~~r   63 (236)
T 3lv8_A           27 AKFIVIEGLEGAGKSTAIQVVVETLQQN-GIDHITRTR   63 (236)
T ss_dssp             CCEEEEEESTTSCHHHHHHHHHHHHHHT-TCCCEEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhc-CCCeeeeec
Confidence            4689999999999999999999988765 355344443

>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=96.43  E-value=0.0022  Score=49.41  Aligned_cols=24  Identities=25%  Similarity=0.343  Sum_probs=22.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      +|+|.|+.|+||||+++.++..+.
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~lg   27 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAALG   27 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcC
Confidence            899999999999999999998765

>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=96.41  E-value=0.017  Score=45.76  Aligned_cols=41  Identities=17%  Similarity=-0.002  Sum_probs=29.1

Q ss_pred             cccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337           96 FESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus        96 ~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      +.-|+.+.+.+..++...   -+.|+|+.|.|||.+|..++...
T Consensus        92 ~~l~~~Q~~ai~~~~~~~---~~ll~~~tG~GKT~~a~~~~~~~  132 (237)
T 2fz4_A           92 ISLRDYQEKALERWLVDK---RGCIVLPTGSGKTHVAMAAINEL  132 (237)
T ss_dssp             CCCCHHHHHHHHHHTTTS---EEEEEESSSTTHHHHHHHHHHHS
T ss_pred             CCcCHHHHHHHHHHHhCC---CEEEEeCCCCCHHHHHHHHHHHc
Confidence            344555555555555433   37889999999999999888765

>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=96.39  E-value=0.0024  Score=50.73  Aligned_cols=26  Identities=23%  Similarity=0.394  Sum_probs=23.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ..+++|.|++|+||||+++.++..+.
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~~lg   34 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLARALG   34 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            46899999999999999999998764

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=96.38  E-value=0.0024  Score=50.26  Aligned_cols=26  Identities=15%  Similarity=0.234  Sum_probs=23.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ..+++|.|+.|+|||||++.++....
T Consensus        16 G~ii~l~GpsGsGKSTLlk~L~g~~~   41 (219)
T 1s96_A           16 GTLYIVSAPSGAGKSSLIQALLKTQP   41 (219)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             CcEEEEECCCCCCHHHHHHHHhccCC
Confidence            47899999999999999999988764

>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=96.36  E-value=0.026  Score=43.61  Aligned_cols=92  Identities=12%  Similarity=0.099  Sum_probs=51.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHH-HHHHHhCCCCCCC------------ChH
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQG-EIADKLGLTFREE------------SES  180 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~-~i~~~l~~~~~~~------------~~~  180 (247)
                      +..+|+|+|++|+||+++|..+.+.+...   ...++       .+.+.++ ..+...+.+.+..            ...
T Consensus        10 ~~~II~itGk~~SGKd~va~~l~~~~g~~---~~~vv-------~msD~iK~~~a~~~gl~~~~~l~~~~ykE~~R~~m~   79 (202)
T 3ch4_B           10 PRLVLLFSGKRKSGKDFVTEALQSRLGAD---VCAVL-------RLSGPLKEQYAQEHGLNFQRLLDTSTYKEAFRKDMI   79 (202)
T ss_dssp             CSEEEEEEECTTSSHHHHHHHHHHHHCTT---TEEEE-------CTHHHHHHHHHHTTTCCCC-------CCSSHHHHHH
T ss_pred             CCEEEEEECCCCCChHHHHHHHHHHcCCC---CceEE-------EccHHHHHHHHHHcCCCchhhcchhhhHHHHHHHHH
Confidence            45799999999999999999987755311   11111       3444444 3455555443221            111


Q ss_pred             HHHHHHHHH---------HcCCCcEEEEEeCCCCccchhhhccc
Q 037337          181 GRARSLFSR---------LNREKRILVILDNIWEHLDLQVVGIP  215 (247)
Q Consensus       181 ~~~~~l~~~---------l~~~kr~LlvlDdv~~~~~~~~l~~~  215 (247)
                      .....+++.         +..-..-.+|+||+.+..+.+.+...
T Consensus        80 ~~g~~~R~~d~~~~~~~~~~~~~~~~vII~dvR~~~Ev~~fr~~  123 (202)
T 3ch4_B           80 RWGEEKRQADPGFFCRKIVEGISQPIWLVSDTRRVSDIQWFREA  123 (202)
T ss_dssp             HHHHHHHHHCTTTTHHHHSBTCCCSEEEECCCCSHHHHHHHHHH
T ss_pred             HHHHHHHhcCchHHHHHHHHhcCCCcEEEeCCCCHHHHHHHHHh
Confidence            112222221         11111237899999999887777543

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=96.36  E-value=0.0064  Score=47.96  Aligned_cols=42  Identities=14%  Similarity=0.090  Sum_probs=30.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDI  159 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~  159 (247)
                      -.|.+.|.||+||||+|..++......+ ++ +.++.+....+.
T Consensus         7 l~I~~~~kgGvGKTt~a~~la~~l~~~G-~~-V~v~d~D~q~~~   48 (228)
T 2r8r_A            7 LKVFLGAAPGVGKTYAMLQAAHAQLRQG-VR-VMAGVVETHGRA   48 (228)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHHTT-CC-EEEEECCCTTCH
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHHCC-CC-EEEEEeCCCCCh
Confidence            4588899999999999999999887653 33 455556554443

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=96.36  E-value=0.0082  Score=46.96  Aligned_cols=52  Identities=17%  Similarity=0.211  Sum_probs=35.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIAD  168 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~  168 (247)
                      ..|++.|+.|+||||+++.++..+.... +..+.+..-.......+.+++++.
T Consensus         4 ~~i~~eG~~gsGKsT~~~~l~~~l~~~~-~~~v~~~rep~~t~~g~~ir~~l~   55 (213)
T 4tmk_A            4 KYIVIEGLEGAGKTTARNVVVETLEQLG-IRDMVFTREPGGTQLAEKLRSLLL   55 (213)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHHHTT-CCCEEEEESSCSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHcC-CCcceeeeCCCCCHHHHHHHHHHh
Confidence            5899999999999999999999987653 433344433333334455555544

>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=96.35  E-value=0.0027  Score=49.56  Aligned_cols=23  Identities=22%  Similarity=0.316  Sum_probs=20.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVAR  137 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~  137 (247)
                      ..+|+|.|+.|+||||+++.+..
T Consensus         4 ~~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            4 RYIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            36899999999999999999976

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=96.35  E-value=0.0022  Score=51.60  Aligned_cols=25  Identities=36%  Similarity=0.426  Sum_probs=22.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ..|+|.|++|+||||+++.++..+.
T Consensus        49 ~~i~l~G~~GsGKSTl~~~La~~lg   73 (250)
T 3nwj_A           49 RSMYLVGMMGSGKTTVGKIMARSLG   73 (250)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhcC
Confidence            6899999999999999999998765

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=96.35  E-value=0.0056  Score=49.29  Aligned_cols=40  Identities=18%  Similarity=0.322  Sum_probs=30.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCC
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSP  157 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~  157 (247)
                      ++|+|.|-||+||||+|..++..+...+  ..+..+++....
T Consensus         2 ~vI~vs~KGGvGKTT~a~nLA~~la~~G--~~VlliD~D~q~   41 (269)
T 1cp2_A            2 RQVAIYGKGGIGKSTTTQNLTSGLHAMG--KTIMVVGCDPKA   41 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHTTT--CCEEEEEECTTS
T ss_pred             cEEEEecCCCCcHHHHHHHHHHHHHHCC--CcEEEEcCCCCC
Confidence            4677889999999999999999887542  246777776543

>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=96.34  E-value=0.032  Score=49.15  Aligned_cols=29  Identities=24%  Similarity=0.393  Sum_probs=25.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      ...+++|+|+.|+|||||++.++..+...
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~~LAgll~~~  320 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIGKLARQFEQQ  320 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCcccHHHHHHHHHHHhhhc
Confidence            35799999999999999999999887643

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=96.32  E-value=0.0057  Score=49.43  Aligned_cols=110  Identities=11%  Similarity=0.109  Sum_probs=56.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCC-CCHHHHHHHHH--HHhCCCCCCCChHHHHHHHHHHH
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQS-PDIRKVQGEIA--DKLGLTFREESESGRARSLFSRL  190 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~-~~~~~l~~~i~--~~l~~~~~~~~~~~~~~~l~~~l  190 (247)
                      ...+++|+|+.|+|||||++.++......  +.+.+++.-... .-.... ..+.  ..++..     .......+...|
T Consensus        24 ~g~~v~i~Gp~GsGKSTll~~l~g~~~~~--~~G~I~~~g~~i~~~~~~~-~~~v~q~~~gl~-----~~~l~~~la~aL   95 (261)
T 2eyu_A           24 KMGLILVTGPTGSGKSTTIASMIDYINQT--KSYHIITIEDPIEYVFKHK-KSIVNQREVGED-----TKSFADALRAAL   95 (261)
T ss_dssp             SSEEEEEECSTTCSHHHHHHHHHHHHHHH--CCCEEEEEESSCCSCCCCS-SSEEEEEEBTTT-----BSCHHHHHHHHH
T ss_pred             CCCEEEEECCCCccHHHHHHHHHHhCCCC--CCCEEEEcCCcceeecCCc-ceeeeHHHhCCC-----HHHHHHHHHHHH
Confidence            34789999999999999999998876543  233333321110 000000 0000  000100     112234455555


Q ss_pred             cCCCcEEEEEeCCCCccchhhhcccCCCCCCCeEEEEeeCchhhh
Q 037337          191 NREKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTARSLDVL  235 (247)
Q Consensus       191 ~~~kr~LlvlDdv~~~~~~~~l~~~~~~~~~~s~iiiTtR~~~va  235 (247)
                      .. ++-+|++|+..+.+........   ...|.-|++||.+.+++
T Consensus        96 ~~-~p~illlDEp~D~~~~~~~l~~---~~~g~~vl~t~H~~~~~  136 (261)
T 2eyu_A           96 RE-DPDVIFVGEMRDLETVETALRA---AETGHLVFGTLHTNTAI  136 (261)
T ss_dssp             HH-CCSEEEESCCCSHHHHHHHHHH---HHTTCEEEEEECCSSHH
T ss_pred             hh-CCCEEEeCCCCCHHHHHHHHHH---HccCCEEEEEeCcchHH
Confidence            44 3467888988754433222121   12356688888776643

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=96.32  E-value=0.0049  Score=46.67  Aligned_cols=28  Identities=29%  Similarity=0.387  Sum_probs=24.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      ..+++|.|+.|+|||||+..+...+...
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~~l~~~   33 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIPALCAR   33 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHHHT
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhcccc
Confidence            4789999999999999999999886543

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=96.31  E-value=0.0027  Score=47.29  Aligned_cols=26  Identities=27%  Similarity=0.303  Sum_probs=23.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ...+++|.|+.|+|||||++.++.-.
T Consensus        32 ~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           32 KAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            34789999999999999999999876

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=96.31  E-value=0.0024  Score=49.09  Aligned_cols=25  Identities=28%  Similarity=0.353  Sum_probs=22.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .+++|+|+.|+|||||++.++....
T Consensus         2 ~~i~i~G~nG~GKTTll~~l~g~~~   26 (189)
T 2i3b_A            2 RHVFLTGPPGVGKTTLIHKASEVLK   26 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCChHHHHHHHHHhhcc
Confidence            3688999999999999999998765

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=96.30  E-value=0.0044  Score=51.22  Aligned_cols=27  Identities=33%  Similarity=0.425  Sum_probs=24.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ..+++|+|+.|+||||+++.++..+..
T Consensus       100 g~vi~lvG~nGsGKTTll~~Lag~l~~  126 (302)
T 3b9q_A          100 PAVIMIVGVNGGGKTTSLGKLAHRLKN  126 (302)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            469999999999999999999988764

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=96.29  E-value=0.0016  Score=53.50  Aligned_cols=27  Identities=11%  Similarity=0.361  Sum_probs=20.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      +..+|+|.|+.|+||||+|+.+...+.
T Consensus         4 ~~~iIgItG~sGSGKSTva~~L~~~lg   30 (290)
T 1a7j_A            4 KHPIISVTGSSGAGTSTVKHTFDQIFR   30 (290)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHHh
Confidence            456899999999999999999998654

>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=96.29  E-value=0.005  Score=54.56  Aligned_cols=47  Identities=4%  Similarity=-0.123  Sum_probs=35.1

Q ss_pred             ccccchHHHHHHHHHhc--CCCccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           95 AFESRMSTLNDILGALR--NPDISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        95 ~~~gR~~~~~~L~~~L~--~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ....|.+..+.|.+...  .+...+|.+.|++|+||||+|+.++..+..
T Consensus       373 ~~f~rpeV~~vLr~~~~~~~~~~~~I~l~GlsGsGKSTIa~~La~~L~~  421 (511)
T 1g8f_A          373 EWFSYPEVVKILRESNPPRPKQGFSIVLGNSLTVSREQLSIALLSTFLQ  421 (511)
T ss_dssp             TTTSCHHHHHHHHHHSCCGGGCCEEEEECTTCCSCHHHHHHHHHHHHTT
T ss_pred             ccccChhhHHHHHHhcccccccceEEEecccCCCCHHHHHHHHHHHHHH
Confidence            34455555666666552  234578999999999999999999999874

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=96.29  E-value=0.0026  Score=53.34  Aligned_cols=25  Identities=40%  Similarity=0.421  Sum_probs=22.7

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .+|+|.|++|+||||||..++..+.
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~l~   32 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKKFN   32 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             ceEEEECCCcCcHHHHHHHHHHHcC
Confidence            5899999999999999999998764

>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=96.29  E-value=0.016  Score=45.77  Aligned_cols=23  Identities=30%  Similarity=0.293  Sum_probs=18.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      ..+.+.|+.|+||||+.....-+
T Consensus        77 ~~~~i~g~TGsGKTt~~~~~~~~   99 (235)
T 3llm_A           77 SVVIIRGATGCGKTTQVPQFILD   99 (235)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEEeCCCCCcHHhHHHHHhc
Confidence            68899999999999876655443

>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=96.29  E-value=0.0027  Score=51.87  Aligned_cols=24  Identities=25%  Similarity=0.627  Sum_probs=21.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHH
Q 037337          114 DISMLGICGMGGIGKTMLEKEVAR  137 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~  137 (247)
                      ...+|+|.|++|+||||+|+.+..
T Consensus        74 ~~~iI~I~G~~GSGKSTva~~La~   97 (281)
T 2f6r_A           74 GLYVLGLTGISGSGKSSVAQRLKN   97 (281)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            357899999999999999999983

>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=96.29  E-value=0.011  Score=46.25  Aligned_cols=32  Identities=16%  Similarity=0.231  Sum_probs=26.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCE
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDL  147 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~  147 (247)
                      ...|++.|+.|+||||++..++..+... .+..
T Consensus         6 g~~i~~eG~~gsGKsT~~~~l~~~l~~~-~~~v   37 (213)
T 4edh_A            6 GLFVTLEGPEGAGKSTNRDYLAERLRER-GIEV   37 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHTT-TCCE
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHHHHc-CCCc
Confidence            3689999999999999999999988765 2444

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=96.28  E-value=0.0026  Score=53.03  Aligned_cols=25  Identities=24%  Similarity=0.210  Sum_probs=22.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .+|+|+|+.|+||||||..++..+.
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~l~   30 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADALP   30 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcC
Confidence            5899999999999999999998754

>3qfl_A MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-binding domain, L rich repeat containing receptors, protein binding; 2.00A {Hordeum vulgare}

Probab=96.27  E-value=0.0049  Score=43.27  Aligned_cols=38  Identities=16%  Similarity=0.284  Sum_probs=35.4

Q ss_pred             HHHHHhhHHHHHHHhhhhHhhHHHHHHHHHHHHHHHHH
Q 037337            9 VIEVGKCLAPSTERQFSYVRDYTSNFENLNTQVEKLEG   46 (247)
Q Consensus         9 ~~~~~~~l~~~l~~~~~~~~~~~~~~~~l~~~l~~l~~   46 (247)
                      +++++++|.+.+.+++.++.+++++++.|+++|+.|++
T Consensus         3 v~~ll~KL~~ll~~E~~l~~gv~~~i~~Lk~eL~~m~a   40 (115)
T 3qfl_A            3 ISNLIPKLGELLTEEFKLHKGVKKNIEDLGKELESMNA   40 (115)
T ss_dssp             TCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHHH
Confidence            45678899999999999999999999999999999998

>3kjh_A CO dehydrogenase/acetyl-COA synthase complex, accessory protein COOC; Zn-bound dimer, nickel binding protein, ATPase; 1.90A {Carboxydothermus hydrogenoformans} PDB: 3kjg_A* 3kje_A 3kji_A*

Probab=96.25  E-value=0.0052  Score=48.63  Aligned_cols=41  Identities=20%  Similarity=0.342  Sum_probs=32.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHH
Q 037337          118 LGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIR  160 (247)
Q Consensus       118 v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~  160 (247)
                      |+|.|-||+||||+|..++..+...+  ..+..+++....+..
T Consensus         3 I~vs~kGGvGKTt~a~~LA~~la~~g--~~VlliD~D~~~~l~   43 (254)
T 3kjh_A            3 LAVAGKGGVGKTTVAAGLIKIMASDY--DKIYAVDGDPDSCLG   43 (254)
T ss_dssp             EEEECSSSHHHHHHHHHHHHHHTTTC--SCEEEEEECTTSCHH
T ss_pred             EEEecCCCCCHHHHHHHHHHHHHHCC--CeEEEEeCCCCcChH
Confidence            56699999999999999999987653  357778887765543

>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=96.24  E-value=0.0071  Score=48.37  Aligned_cols=27  Identities=30%  Similarity=0.385  Sum_probs=24.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ...++.+.|.||+||||++..++..+.
T Consensus        13 ~~~i~~~~GkgGvGKTTl~~~La~~l~   39 (262)
T 1yrb_A           13 ASMIVVFVGTAGSGKTTLTGEFGRYLE   39 (262)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            357888999999999999999998877

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=96.23  E-value=0.006  Score=48.23  Aligned_cols=27  Identities=26%  Similarity=0.327  Sum_probs=24.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ...|+|.|++|+||||+++.++..+..
T Consensus        26 g~~i~i~G~~GsGKsT~~~~l~~~l~~   52 (229)
T 4eaq_A           26 SAFITFEGPEGSGKTTVINEVYHRLVK   52 (229)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHHTT
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHHhc
Confidence            478999999999999999999998875

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=96.23  E-value=0.0019  Score=51.00  Aligned_cols=25  Identities=20%  Similarity=0.327  Sum_probs=16.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHH-HHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVA-RKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~-~~~  139 (247)
                      ..+++|+|+.|+|||||++.++ ...
T Consensus        27 G~ii~l~Gp~GsGKSTl~~~L~~~~~   52 (231)
T 3lnc_A           27 GVILVLSSPSGCGKTTVANKLLEKQK   52 (231)
T ss_dssp             CCEEEEECSCC----CHHHHHHC---
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            4689999999999999999998 654

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=96.21  E-value=0.003  Score=52.36  Aligned_cols=26  Identities=23%  Similarity=0.367  Sum_probs=22.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ..+|+|.|+.|+|||+||..++....
T Consensus         3 ~~~i~i~GptgsGKt~la~~La~~~~   28 (322)
T 3exa_A            3 EKLVAIVGPTAVGKTKTSVMLAKRLN   28 (322)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHTTT
T ss_pred             CcEEEEECCCcCCHHHHHHHHHHhCc
Confidence            36889999999999999999998653

>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=96.20  E-value=0.0098  Score=51.71  Aligned_cols=90  Identities=17%  Similarity=0.235  Sum_probs=55.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccC-CCC-EEEEEEeCCCC-CHHHHHHHHHHH--hC-----CCCCCCChH-----
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHK-LFD-LVVFSEMSQSP-DIRKVQGEIADK--LG-----LTFREESES-----  180 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~-~f~-~~~wv~~~~~~-~~~~l~~~i~~~--l~-----~~~~~~~~~-----  180 (247)
                      ..++|.|.+|+|||+|+.++++...... +-+ ..+|+-++... .+.++...+...  +.     ....+.+..     
T Consensus       152 Qr~~Ifgg~G~GKt~L~~~Ia~~~~~~~d~~~~~~V~~~iGeR~~Ev~e~~~~~~~~g~~~rtvvV~atsd~p~~~r~~a  231 (465)
T 3vr4_D          152 QKLPVFSGSGLPHKELAAQIARQATVLDSSDDFAVVFAAIGITFEEAEFFMEDFRQTGAIDRSVMFMNLANDPAIERIAT  231 (465)
T ss_dssp             CBCCEEECTTSCHHHHHHHHHHHCBCSSCSSCEEEEEEEEEECHHHHHHHHHHHHHHTGGGGEEEEEEETTSCHHHHHHH
T ss_pred             CEEEEeCCCCcChHHHHHHHHHHHHhccCCCceEEEEEEecCCcHHHHHHHHHHhhcCCccceEEEEECCCCCHHHHHHH
Confidence            4568899999999999999998766421 112 46777777543 455666665443  11     111122221     


Q ss_pred             -HHHHHHHHHHc--CCCcEEEEEeCCCC
Q 037337          181 -GRARSLFSRLN--REKRILVILDNIWE  205 (247)
Q Consensus       181 -~~~~~l~~~l~--~~kr~LlvlDdv~~  205 (247)
                       ...-.+.+++.  .++.+||++||+..
T Consensus       232 ~~~a~tiAEyfrd~~G~~VLl~~DslTr  259 (465)
T 3vr4_D          232 PRMALTAAEYLAYEKGMHVLVIMTDMTN  259 (465)
T ss_dssp             HHHHHHHHHHHHHTTCCEEEEEEECHHH
T ss_pred             HHHHHHHHHHHHHhcCCeEEEEEcChHH
Confidence             12235667775  36889999999853

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=96.20  E-value=0.0025  Score=55.17  Aligned_cols=27  Identities=26%  Similarity=0.390  Sum_probs=23.5

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          113 PDISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       113 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      +...+|.|+|++|+||||+|+.++...
T Consensus       256 ~~~~lIil~G~pGSGKSTla~~L~~~~  282 (416)
T 3zvl_A          256 PNPEVVVAVGFPGAGKSTFIQEHLVSA  282 (416)
T ss_dssp             SSCCEEEEESCTTSSHHHHHHHHTGGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHhc
Confidence            346899999999999999999998754

>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=96.20  E-value=0.0068  Score=49.47  Aligned_cols=40  Identities=20%  Similarity=0.298  Sum_probs=31.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCC
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSP  157 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~  157 (247)
                      ++|+|.|-||+||||+|..++..+...+  ..+..+++....
T Consensus         3 kvIavs~KGGvGKTT~a~nLA~~La~~G--~rVlliD~D~q~   42 (289)
T 2afh_E            3 RQCAIYGKGGIGKSTTTQNLVAALAEMG--KKVMIVGCDPKA   42 (289)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHHTT--CCEEEEEECSSS
T ss_pred             eEEEEeCCCcCcHHHHHHHHHHHHHHCC--CeEEEEecCCCC
Confidence            5778899999999999999999887542  246677776543

>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=96.19  E-value=0.0032  Score=51.64  Aligned_cols=23  Identities=26%  Similarity=0.384  Sum_probs=21.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      .+|.|.|++|+||||+|+.++..
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~~   25 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIAK   25 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            57899999999999999999874

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=96.16  E-value=0.0026  Score=53.32  Aligned_cols=26  Identities=27%  Similarity=0.377  Sum_probs=23.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ..+|+|.|+.|+|||||+..++..+.
T Consensus        40 ~~lIvI~GPTgsGKTtLa~~LA~~l~   65 (339)
T 3a8t_A           40 EKLLVLMGATGTGKSRLSIDLAAHFP   65 (339)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTTSC
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHCC
Confidence            46899999999999999999997653

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=96.16  E-value=0.0038  Score=48.67  Aligned_cols=23  Identities=30%  Similarity=0.277  Sum_probs=21.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      .+++|.|+.|+|||||++.++.-
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            68999999999999999999876

>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=96.15  E-value=0.0041  Score=51.44  Aligned_cols=26  Identities=23%  Similarity=0.197  Sum_probs=23.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ..+++|.|+.|+|||+||..++....
T Consensus        10 ~~~i~i~GptgsGKt~la~~La~~~~   35 (316)
T 3foz_A           10 PKAIFLMGPTASGKTALAIELRKILP   35 (316)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             CcEEEEECCCccCHHHHHHHHHHhCC
Confidence            46899999999999999999998753

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=96.14  E-value=0.0057  Score=51.77  Aligned_cols=27  Identities=33%  Similarity=0.425  Sum_probs=24.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ..+++|+|+.|+||||+++.++..+..
T Consensus       157 g~vi~lvG~nGsGKTTll~~Lag~l~~  183 (359)
T 2og2_A          157 PAVIMIVGVNGGGKTTSLGKLAHRLKN  183 (359)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCChHHHHHHHHHhhccc
Confidence            469999999999999999999988764

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=96.12  E-value=0.0042  Score=51.43  Aligned_cols=27  Identities=15%  Similarity=0.192  Sum_probs=24.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ...+++|.|+.|+|||||++.+.....
T Consensus        79 ~g~iigI~G~~GsGKSTl~~~L~~~l~  105 (308)
T 1sq5_A           79 IPYIISIAGSVAVGKSTTARVLQALLS  105 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            457999999999999999999998765

>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=96.08  E-value=0.0082  Score=46.03  Aligned_cols=44  Identities=14%  Similarity=0.181  Sum_probs=32.7

Q ss_pred             cEEEEE-cCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHH
Q 037337          116 SMLGIC-GMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRK  161 (247)
Q Consensus       116 ~~v~I~-G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~  161 (247)
                      ++|+|+ +-||+||||+|..++..+...+  ..+..+++....+...
T Consensus         2 ~vi~v~s~kgG~GKTt~a~~la~~la~~g--~~vlliD~D~~~~~~~   46 (206)
T 4dzz_A            2 KVISFLNPKGGSGKTTAVINIATALSRSG--YNIAVVDTDPQMSLTN   46 (206)
T ss_dssp             EEEEECCSSTTSSHHHHHHHHHHHHHHTT--CCEEEEECCTTCHHHH
T ss_pred             eEEEEEeCCCCccHHHHHHHHHHHHHHCC--CeEEEEECCCCCCHHH
Confidence            467776 7899999999999999887642  3477788776654433

>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=96.08  E-value=0.015  Score=60.79  Aligned_cols=80  Identities=18%  Similarity=0.219  Sum_probs=49.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNREKR  195 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr  195 (247)
                      +-+.++|++|+|||++|+.+......   + ..+.++++...+...+...+...+.........      +..--..+++
T Consensus      1268 ~~vLL~GPpGtGKT~la~~~l~~~~~---~-~~~~infsa~ts~~~~~~~i~~~~~~~~~~~g~------~~~P~~~gk~ 1337 (2695)
T 4akg_A         1268 RGIILCGPPGSGKTMIMNNALRNSSL---Y-DVVGINFSKDTTTEHILSALHRHTNYVTTSKGL------TLLPKSDIKN 1337 (2695)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSCSS---C-EEEEEECCTTCCHHHHHHHHHHHBCCEEETTTE------EEEEBSSSSC
T ss_pred             CeEEEECCCCCCHHHHHHHHHhcCCC---C-ceEEEEeecCCCHHHHHHHHHHHhhhccccCCc------cccCCCCCce
Confidence            67889999999999999887765321   2 356678888877777666655544321100000      0000003467


Q ss_pred             EEEEEeCCCC
Q 037337          196 ILVILDNIWE  205 (247)
Q Consensus       196 ~LlvlDdv~~  205 (247)
                      .++.+||+.-
T Consensus      1338 ~VlFiDEinm 1347 (2695)
T 4akg_A         1338 LVLFCDEINL 1347 (2695)
T ss_dssp             EEEEEETTTC
T ss_pred             EEEEeccccc
Confidence            8888999754

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=96.07  E-value=0.0084  Score=47.27  Aligned_cols=56  Identities=16%  Similarity=0.181  Sum_probs=35.5

Q ss_pred             CCCccEEEEEcCCCCcHHHHHHHHHHHhcc-cCCCCEEEEEEeCCCCCHHHHHHHHHH
Q 037337          112 NPDISMLGICGMGGIGKTMLEKEVARKAKN-HKLFDLVVFSEMSQSPDIRKVQGEIAD  168 (247)
Q Consensus       112 ~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~-~~~f~~~~wv~~~~~~~~~~l~~~i~~  168 (247)
                      ......|++.|+.|+||||+++.+.+.+.. .. ++......-.......+.++.++.
T Consensus        18 ~~~~~~i~~~G~~g~GKst~~~~l~~~l~~~~g-~~v~~~treP~~t~~g~~ir~~l~   74 (223)
T 3ld9_A           18 GPGSMFITFEGIDGSGKTTQSHLLAEYLSEIYG-VNNVVLTREPGGTLLNESVRNLLF   74 (223)
T ss_dssp             -CCCEEEEEECSTTSSHHHHHHHHHHHHHHHHC-GGGEEEEESSCSSHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHHhhccC-ceeeEeeeCCCCChHHHHHHHHHh
Confidence            334678999999999999999999998876 42 333332322233333444444444

>2woj_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; HET: ADP; 1.99A {Saccharomyces cerevisiae} PDB: 3h84_A 3zs8_A 3zs9_A* 3sja_A 3sjb_A 3sjc_A 3sjd_A* 3idq_A 3a36_A 3a37_A*

Probab=96.05  E-value=0.013  Score=49.40  Aligned_cols=45  Identities=16%  Similarity=0.241  Sum_probs=31.8

Q ss_pred             CCCccEEEEEcCCCCcHHHHHHHHHHHhc--ccCCCCEEEEEEeCCCCC
Q 037337          112 NPDISMLGICGMGGIGKTMLEKEVARKAK--NHKLFDLVVFSEMSQSPD  158 (247)
Q Consensus       112 ~~~~~~v~I~G~~GiGKTtLa~~~~~~~~--~~~~f~~~~wv~~~~~~~  158 (247)
                      .....++...|-||+||||+|..++..+.  ..+  ..+.-+++....+
T Consensus        15 ~~~~~i~v~sgKGGvGKTTvaanLA~~lA~~~~G--~rVLLvD~D~~~~   61 (354)
T 2woj_A           15 STTHKWIFVGGKGGVGKTTSSCSIAIQMALSQPN--KQFLLISTDPAHN   61 (354)
T ss_dssp             CSSCCEEEEEESTTSSHHHHHHHHHHHHHHHCTT--SCEEEEECCSSCC
T ss_pred             CCCcEEEEEeCCCCCcHHHHHHHHHHHHHHhcCC--CeEEEEECCCCCC
Confidence            33456777789999999999999998887  442  2356665554333

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=96.02  E-value=0.0044  Score=49.48  Aligned_cols=25  Identities=24%  Similarity=0.293  Sum_probs=22.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .+++|.|+.|+|||||.+.++.-..
T Consensus        25 e~~~liG~nGsGKSTLl~~l~Gl~~   49 (240)
T 2onk_A           25 DYCVLLGPTGAGKSVFLELIAGIVK   49 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EEEEEECCCCCCHHHHHHHHhCCCC
Confidence            7899999999999999999987543

>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=96.01  E-value=0.0033  Score=49.97  Aligned_cols=25  Identities=20%  Similarity=0.266  Sum_probs=22.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      -.+++|.|+.|+|||||.+.++.-.
T Consensus        31 Ge~~~iiG~nGsGKSTLl~~l~Gl~   55 (235)
T 3tif_A           31 GEFVSIMGPSGSGKSTMLNIIGCLD   55 (235)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcCC
Confidence            4689999999999999999997654

>2woo_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; 3.01A {Schizosaccharomyces pombe}

Probab=95.99  E-value=0.012  Score=49.12  Aligned_cols=42  Identities=19%  Similarity=0.313  Sum_probs=30.8

Q ss_pred             CCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC
Q 037337          112 NPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQ  155 (247)
Q Consensus       112 ~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~  155 (247)
                      ++...++.+.|.||+||||+|..++..+...+  ..+..+++..
T Consensus        16 ~~~~~i~v~sgkGGvGKTTva~~LA~~lA~~G--~rVllvD~D~   57 (329)
T 2woo_A           16 QTSLKWIFVGGKGGVGKTTTSCSLAIQMSKVR--SSVLLISTDP   57 (329)
T ss_dssp             CTTCCEEEEECSSSSSHHHHHHHHHHHHHTSS--SCEEEEECCT
T ss_pred             CCCCEEEEEeCCCCCcHHHHHHHHHHHHHHCC--CeEEEEECCC
Confidence            34457778899999999999999999887542  2355555543

>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=95.99  E-value=0.0044  Score=47.22  Aligned_cols=25  Identities=24%  Similarity=0.395  Sum_probs=22.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ...++|+|++|+|||||++.+....
T Consensus        29 ~~kv~lvG~~g~GKSTLl~~l~~~~   53 (191)
T 1oix_A           29 LFKVVLIGDSGVGKSNLLSRFTRNE   53 (191)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcCC
Confidence            3578999999999999999998764

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=95.99  E-value=0.0027  Score=54.09  Aligned_cols=51  Identities=14%  Similarity=0.025  Sum_probs=33.8

Q ss_pred             HHHHHhcC-CCccEEEEEcCCCCcHHHHHHHHHHHhccc-CCCCEEEEEEeCCC
Q 037337          105 DILGALRN-PDISMLGICGMGGIGKTMLEKEVARKAKNH-KLFDLVVFSEMSQS  156 (247)
Q Consensus       105 ~L~~~L~~-~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-~~f~~~~wv~~~~~  156 (247)
                      +.++.+.. .+-..+.|.|.+|+|||+|+..+++..... ..+. ++++-++..
T Consensus       164 raID~l~PigrGQR~lIfg~~g~GKT~Ll~~Ia~~i~~~~~dv~-~V~~lIGER  216 (427)
T 3l0o_A          164 RLIDLFAPIGKGQRGMIVAPPKAGKTTILKEIANGIAENHPDTI-RIILLIDER  216 (427)
T ss_dssp             HHHHHHSCCBTTCEEEEEECTTCCHHHHHHHHHHHHHHHCTTSE-EEEEECSCC
T ss_pred             hhhhhcccccCCceEEEecCCCCChhHHHHHHHHHHhhcCCCeE-EEEEEeccC
Confidence            34555542 234678999999999999999999876432 1233 356666654

>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=95.96  E-value=0.01  Score=50.51  Aligned_cols=39  Identities=18%  Similarity=0.252  Sum_probs=30.7

Q ss_pred             CccEEEEEc-CCCCcHHHHHHHHHHHhcccCCCCEEEEEEeC
Q 037337          114 DISMLGICG-MGGIGKTMLEKEVARKAKNHKLFDLVVFSEMS  154 (247)
Q Consensus       114 ~~~~v~I~G-~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~  154 (247)
                      +.++|+|+| -||+||||+|..++..+...  -..+..+++.
T Consensus       142 ~~kvIav~s~KGGvGKTT~a~nLA~~La~~--g~rVlliD~D  181 (373)
T 3fkq_A          142 KSSVVIFTSPCGGVGTSTVAAACAIAHANM--GKKVFYLNIE  181 (373)
T ss_dssp             SCEEEEEECSSTTSSHHHHHHHHHHHHHHH--TCCEEEEECC
T ss_pred             CceEEEEECCCCCChHHHHHHHHHHHHHhC--CCCEEEEECC
Confidence            467888875 99999999999999987654  2347778765

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=95.96  E-value=0.0049  Score=48.93  Aligned_cols=26  Identities=23%  Similarity=0.233  Sum_probs=23.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ...|+|.|..|+||||+++.++..+.
T Consensus         2 ~~~i~~~G~~g~GKtt~~~~l~~~l~   27 (241)
T 2ocp_A            2 PRRLSIEGNIAVGKSTFVKLLTKTYP   27 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHCT
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            36799999999999999999999864

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=95.94  E-value=0.0042  Score=50.48  Aligned_cols=42  Identities=21%  Similarity=0.309  Sum_probs=30.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccC-C-------CCEEEEEEeCCC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHK-L-------FDLVVFSEMSQS  156 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~-~-------f~~~~wv~~~~~  156 (247)
                      -.++.|+|++|+|||||+..++....... .       -..++|++....
T Consensus        30 G~i~~i~G~~GsGKTtl~~~l~~~~~~g~~~~g~~~~~~~~v~~~~~e~~   79 (279)
T 1nlf_A           30 GTVGALVSPGGAGKSMLALQLAAQIAGGPDLLEVGELPTGPVIYLPAEDP   79 (279)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHTCCCTTCCCCCCCCCEEEEESSSC
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHhcCCCcCCCccCCCccEEEEECCCC
Confidence            37899999999999999999997654310 0       124667766554

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=95.94  E-value=0.0062  Score=48.17  Aligned_cols=27  Identities=22%  Similarity=0.283  Sum_probs=23.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ...+|+|.|+.|+||||+++.++..+.
T Consensus        15 ~~~~i~i~G~~gsGKst~~~~l~~~lg   41 (236)
T 1q3t_A           15 KTIQIAIDGPASSGKSTVAKIIAKDFG   41 (236)
T ss_dssp             CCCEEEEECSSCSSHHHHHHHHHHHHC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHcC
Confidence            356899999999999999999988653

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=95.93  E-value=0.0025  Score=57.78  Aligned_cols=47  Identities=17%  Similarity=0.054  Sum_probs=34.7

Q ss_pred             CcccccchHHHHHHHHHhcCCCcc-----------EEEEEcCCCCcHHHHHHHHHHHh
Q 037337           93 YEAFESRMSTLNDILGALRNPDIS-----------MLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L~~~~~~-----------~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ...++|.+.....+.-.+.....+           -+.++|++|+|||+||+.+++..
T Consensus       294 ~~~I~G~e~vk~al~~~l~~g~~~~~~~~~~r~~~~vLL~GppGtGKT~LAr~la~~~  351 (595)
T 3f9v_A          294 APSIYGHWELKEALALALFGGVPKVLEDTRIRGDIHILIIGDPGTAKSQMLQFISRVA  351 (595)
T ss_dssp             SSTTSCCHHHHHHHTTTTTCCCCEETTTTEECCSCCEEEEESSCCTHHHHHHSSSTTC
T ss_pred             cchhcChHHHHHHHHHHHhCCCcccccCCCcCCCcceEEECCCchHHHHHHHHHHHhC
Confidence            355788887776665555544211           58899999999999999998654

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=95.92  E-value=0.0047  Score=47.29  Aligned_cols=23  Identities=26%  Similarity=0.388  Sum_probs=20.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      ..++|.|.+|+|||||.+.+...
T Consensus         6 ~kv~lvG~~g~GKSTLl~~l~~~   28 (199)
T 2f9l_A            6 FKVVLIGDSGVGKSNLLSRFTRN   28 (199)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECcCCCCHHHHHHHHhcC
Confidence            46889999999999999999875

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=95.92  E-value=0.0037  Score=49.30  Aligned_cols=25  Identities=24%  Similarity=0.246  Sum_probs=21.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      -.+++|.|+.|+|||||.+.++.-.
T Consensus        30 Ge~~~iiG~nGsGKSTLl~~l~Gl~   54 (224)
T 2pcj_A           30 GEFVSIIGASGSGKSTLLYILGLLD   54 (224)
T ss_dssp             TCEEEEEECTTSCHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3689999999999999999997654

>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=95.91  E-value=0.015  Score=51.73  Aligned_cols=37  Identities=22%  Similarity=0.252  Sum_probs=27.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEe
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEM  153 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~  153 (247)
                      -.+++|.|++|+|||||++.++......  -..++|+..
T Consensus       281 G~i~~i~G~~GsGKSTLl~~l~g~~~~~--G~~vi~~~~  317 (525)
T 1tf7_A          281 DSIILATGATGTGKTLLVSRFVENACAN--KERAILFAY  317 (525)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHHHTT--TCCEEEEES
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHHHhC--CCCEEEEEE
Confidence            4789999999999999999999876543  122455543

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=95.89  E-value=0.0043  Score=53.94  Aligned_cols=38  Identities=18%  Similarity=0.229  Sum_probs=28.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMS  154 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~  154 (247)
                      ..+|+++|++|+||||++..++..+...+  ..+..+++.
T Consensus        99 ~~vI~ivG~~GvGKTTla~~La~~l~~~G--~kVllv~~D  136 (432)
T 2v3c_C           99 QNVILLVGIQGSGKTTTAAKLARYIQKRG--LKPALIAAD  136 (432)
T ss_dssp             CCCEEEECCSSSSTTHHHHHHHHHHHHHH--CCEEEECCS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcC--CeEEEEecc
Confidence            46899999999999999999998876431  124455443

>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=95.87  E-value=0.0057  Score=45.30  Aligned_cols=23  Identities=13%  Similarity=0.297  Sum_probs=20.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      ..|+|.|.+|+|||||...+...
T Consensus         4 ~~v~lvG~~gvGKStL~~~l~~~   26 (165)
T 2wji_A            4 YEIALIGNPNVGKSTIFNALTGE   26 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            56899999999999999999763

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=95.87  E-value=0.0039  Score=48.19  Aligned_cols=25  Identities=24%  Similarity=0.276  Sum_probs=22.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ...|.|.|++|+||||||..++.+.
T Consensus        34 g~~ilI~GpsGsGKStLA~~La~~g   58 (205)
T 2qmh_A           34 GLGVLITGDSGVGKSETALELVQRG   58 (205)
T ss_dssp             TEEEEEECCCTTTTHHHHHHHHTTT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhC
Confidence            4678999999999999999998764

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=95.86  E-value=0.0059  Score=50.49  Aligned_cols=26  Identities=23%  Similarity=0.257  Sum_probs=23.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      +..+++|+|+.|+|||||++.+..-+
T Consensus       125 ~Ge~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          125 KKNCLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             TCSEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhhhc
Confidence            44789999999999999999999876

>1ihu_A Arsenical pump-driving ATPase; aluminum fluoride, ADP, ARSA ATPase, ATP binding site, hydro; HET: ADP; 2.15A {Escherichia coli} SCOP: c.37.1.10 c.37.1.10 PDB: 1f48_A* 1ii0_A* 1ii9_A*

Probab=95.86  E-value=0.014  Score=52.65  Aligned_cols=44  Identities=20%  Similarity=0.267  Sum_probs=33.7

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCC
Q 037337          113 PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPD  158 (247)
Q Consensus       113 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~  158 (247)
                      ...+++.+.|.||+||||+|..++......+  ..+..|+.....+
T Consensus         6 ~~~~i~~~sgkGGvGKTT~a~~lA~~lA~~G--~rVLlvd~D~~~~   49 (589)
T 1ihu_A            6 NIPPYLFFTGKGGVGKTSISCATAIRLAEQG--KRVLLVSTDPASN   49 (589)
T ss_dssp             SCCSEEEEECSTTSSHHHHHHHHHHHHHHTT--CCEEEEECCTTCC
T ss_pred             CCCEEEEEeCCCcCHHHHHHHHHHHHHHHCC--CcEEEEECCCCcC
Confidence            4467889999999999999999999887552  2467777764443

>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=95.83  E-value=0.0041  Score=46.98  Aligned_cols=21  Identities=38%  Similarity=0.495  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 037337          117 MLGICGMGGIGKTMLEKEVAR  137 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~  137 (247)
                      -|+|+|.+|+|||||+..++.
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            578999999999999999976

>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=95.83  E-value=0.0044  Score=49.33  Aligned_cols=26  Identities=19%  Similarity=0.319  Sum_probs=22.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      -.+++|+|+.|+|||||++.++.-..
T Consensus        31 Ge~~~i~G~nGsGKSTLl~~l~Gl~~   56 (237)
T 2cbz_A           31 GALVAVVGQVGCGKSSLLSALLAEMD   56 (237)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTCSE
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            46899999999999999999987654

>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=95.83  E-value=0.011  Score=44.66  Aligned_cols=34  Identities=24%  Similarity=0.243  Sum_probs=26.1

Q ss_pred             HHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          104 NDILGALRNPDISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       104 ~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      ..+.+ +...+...|+|+|.+|+|||||...+...
T Consensus         6 ~~~~~-~~~~~~~~i~v~G~~~~GKssl~~~l~~~   39 (187)
T 1zj6_A            6 TRIWR-LFNHQEHKVIIVGLDNAGKTTILYQFSMN   39 (187)
T ss_dssp             HHHHH-HHTTSCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHHH-hcCCCccEEEEECCCCCCHHHHHHHHhcC
Confidence            34555 33445577899999999999999999854

>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=95.82  E-value=0.0061  Score=45.61  Aligned_cols=34  Identities=21%  Similarity=0.265  Sum_probs=25.5

Q ss_pred             HHHHHHhcC-CCccEEEEEcCCCCcHHHHHHHHHH
Q 037337          104 NDILGALRN-PDISMLGICGMGGIGKTMLEKEVAR  137 (247)
Q Consensus       104 ~~L~~~L~~-~~~~~v~I~G~~GiGKTtLa~~~~~  137 (247)
                      ..+.+.+.. .....|+|+|.+|+|||||...+..
T Consensus         6 ~~~~~~~~~~~~~~~i~v~G~~~~GKssli~~l~~   40 (183)
T 1moz_A            6 SSMFDKLWGSNKELRILILGLDGAGKTTILYRLQI   40 (183)
T ss_dssp             HHHHGGGTTCSSCEEEEEEEETTSSHHHHHHHTCC
T ss_pred             HHHHHHhcCCCCccEEEEECCCCCCHHHHHHHHhc
Confidence            334444444 4567889999999999999999874

>3zq6_A Putative arsenical pump-driving ATPase; tail-anchored, membrane protein; HET: ADP; 2.11A {Methanothermobacter thermautotrophicusorganism_taxid}

Probab=95.81  E-value=0.017  Score=48.11  Aligned_cols=43  Identities=19%  Similarity=0.227  Sum_probs=31.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDI  159 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~  159 (247)
                      ..++...|.||+||||+|..++..+...  -..+..++.....+.
T Consensus        14 ~~i~v~sgKGGvGKTTvA~~LA~~lA~~--G~rVLlvD~D~~~~l   56 (324)
T 3zq6_A           14 TTFVFIGGKGGVGKTTISAATALWMARS--GKKTLVISTDPAHSL   56 (324)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHHHT--TCCEEEEECCSSCCH
T ss_pred             eEEEEEeCCCCchHHHHHHHHHHHHHHC--CCcEEEEeCCCCcCH
Confidence            3677778999999999999999887654  224566666554433

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=95.81  E-value=0.0063  Score=51.88  Aligned_cols=28  Identities=21%  Similarity=0.125  Sum_probs=24.0

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          113 PDISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       113 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .....++|+|++|+|||||++.++....
T Consensus       167 ~~~~~i~l~G~~GsGKSTl~~~l~~~~~  194 (377)
T 1svm_A          167 PKKRYWLFKGPIDSGKTTLAAALLELCG  194 (377)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhcC
Confidence            3457999999999999999999997643

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=95.80  E-value=0.0089  Score=53.56  Aligned_cols=46  Identities=17%  Similarity=0.179  Sum_probs=31.9

Q ss_pred             ccchHHHHHHHHHhc--CCCccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337           97 ESRMSTLNDILGALR--NPDISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus        97 ~gR~~~~~~L~~~L~--~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      +.+.+..+.+.....  -.+..+++|.|+.|+|||||++.++..+...
T Consensus       349 f~~peV~~vLR~~~~~~~~~G~iI~LiG~sGSGKSTLar~La~~L~~~  396 (552)
T 3cr8_A          349 YSFPEVLAELHRQTPPRERQGFTVFFTGLSGAGKSTLARALAARLMEM  396 (552)
T ss_dssp             TSCHHHHHHHHHHSCCGGGSCEEEEEEESSCHHHHHHHHHHHHHHHTT
T ss_pred             ccccchhhhhhhhcccccccceEEEEECCCCChHHHHHHHHHHhhccc
Confidence            344444444444331  1234789999999999999999999988643

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=95.80  E-value=0.0064  Score=52.13  Aligned_cols=25  Identities=32%  Similarity=0.558  Sum_probs=22.7

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .+|+|.|+.|+||||||..++..+.
T Consensus         3 ~~i~i~GptgsGKttla~~La~~~~   27 (409)
T 3eph_A            3 KVIVIAGTTGVGKSQLSIQLAQKFN   27 (409)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHHHHT
T ss_pred             cEEEEECcchhhHHHHHHHHHHHCC
Confidence            5789999999999999999998764

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=95.80  E-value=0.0065  Score=44.32  Aligned_cols=23  Identities=26%  Similarity=0.369  Sum_probs=20.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      ..|++.|.+|+|||||+..+...
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            45889999999999999999875

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=95.79  E-value=0.0046  Score=50.00  Aligned_cols=25  Identities=20%  Similarity=0.284  Sum_probs=22.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      -.+++|.|+.|+|||||.+.++.-.
T Consensus        32 Ge~~~liG~nGsGKSTLlk~l~Gl~   56 (262)
T 1b0u_A           32 GDVISIIGSSGSGKSTFLRCINFLE   56 (262)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            4689999999999999999997654

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=95.78  E-value=0.014  Score=44.11  Aligned_cols=26  Identities=23%  Similarity=0.157  Sum_probs=22.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ....|+|+|.+|+|||||+..+....
T Consensus        47 ~~~~i~vvG~~g~GKSsll~~l~~~~   72 (193)
T 2ged_A           47 YQPSIIIAGPQNSGKTSLLTLLTTDS   72 (193)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            35688999999999999999998753

>3ug7_A Arsenical pump-driving ATPase; tail-anchored, membrane protein, targeting factor, ATP-bindi TRC40, ARSA, nucleotide-binding; HET: ADP; 2.90A {Methanocaldococcus jannaschii} PDB: 3ug6_A*

Probab=95.78  E-value=0.016  Score=48.88  Aligned_cols=41  Identities=20%  Similarity=0.249  Sum_probs=30.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCC
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQS  156 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~  156 (247)
                      ...++...|.||+||||+|..++..+...+  ..+..+++...
T Consensus        25 ~~~i~v~sgKGGvGKTTvA~~LA~~lA~~G--~rVLlvD~D~~   65 (349)
T 3ug7_A           25 GTKYIMFGGKGGVGKTTMSAATGVYLAEKG--LKVVIVSTDPA   65 (349)
T ss_dssp             SCEEEEEECSSSTTHHHHHHHHHHHHHHSS--CCEEEEECCTT
T ss_pred             CCEEEEEeCCCCccHHHHHHHHHHHHHHCC--CeEEEEeCCCC
Confidence            456677789999999999999998876542  24566665543

>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=95.78  E-value=0.0046  Score=50.38  Aligned_cols=25  Identities=24%  Similarity=0.280  Sum_probs=22.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      -.+++|.|+.|+|||||++.++.-.
T Consensus        34 Ge~~~iiGpnGsGKSTLl~~l~Gl~   58 (275)
T 3gfo_A           34 GEVTAILGGNGVGKSTLFQNFNGIL   58 (275)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHcCC
Confidence            4789999999999999999997654

>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=95.78  E-value=0.0058  Score=49.03  Aligned_cols=24  Identities=29%  Similarity=0.367  Sum_probs=21.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      -.+++|.|+.|+|||||++.++.-
T Consensus        29 Ge~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           29 GEVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            368999999999999999999874

>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=95.76  E-value=0.0061  Score=44.50  Aligned_cols=23  Identities=30%  Similarity=0.598  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 037337          117 MLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      .|++.|.+|+|||||+..+....
T Consensus         5 ~i~v~G~~~~GKssl~~~l~~~~   27 (166)
T 2ce2_X            5 KLVVVGAGGVGKSALTIQLIQNH   27 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            57899999999999999998753

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=95.75  E-value=0.0059  Score=49.49  Aligned_cols=24  Identities=29%  Similarity=0.400  Sum_probs=21.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      -.+++|.|+.|+|||||++.++.-
T Consensus        46 Ge~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           46 GEVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            468999999999999999999885

>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=95.73  E-value=0.013  Score=52.67  Aligned_cols=29  Identities=10%  Similarity=0.107  Sum_probs=25.1

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          113 PDISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       113 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      +...+|.|.|++|+||||+|+.+.+.+..
T Consensus       394 q~~~~I~l~GlsGSGKSTiA~~La~~L~~  422 (573)
T 1m8p_A          394 TQGFTIFLTGYMNSGKDAIARALQVTLNQ  422 (573)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             ccceEEEeecCCCCCHHHHHHHHHHHhcc
Confidence            34578999999999999999999998764

>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=95.73  E-value=0.0051  Score=49.02  Aligned_cols=25  Identities=24%  Similarity=0.307  Sum_probs=22.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      -.+++|.|+.|+|||||.+.++.-.
T Consensus        32 Ge~~~l~G~nGsGKSTLl~~l~Gl~   56 (240)
T 1ji0_A           32 GQIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3689999999999999999997654

>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=95.72  E-value=0.0051  Score=49.88  Aligned_cols=25  Identities=28%  Similarity=0.341  Sum_probs=22.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      -.+++|.|+.|+|||||++.++.-.
T Consensus        37 Ge~~~liG~nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           37 GEMVAIIGPNGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             TCEEEEECCTTSCHHHHHHHHTSSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcCC
Confidence            4789999999999999999997654

>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=95.72  E-value=0.0051  Score=49.54  Aligned_cols=25  Identities=24%  Similarity=0.179  Sum_probs=22.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      -.+++|.|+.|+|||||.+.++.-.
T Consensus        33 Ge~~~liG~nGsGKSTLlk~l~Gl~   57 (257)
T 1g6h_A           33 GDVTLIIGPNGSGKSTLINVITGFL   57 (257)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3689999999999999999997654

>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=95.71  E-value=0.0067  Score=44.52  Aligned_cols=25  Identities=16%  Similarity=0.339  Sum_probs=21.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      .-.|+|+|.+|+|||||+..+....
T Consensus         5 ~~~i~v~G~~~~GKssl~~~l~~~~   29 (168)
T 1z2a_A            5 AIKMVVVGNGAVGKSSMIQRYCKGI   29 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHCC
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcCC
Confidence            3468899999999999999998753

>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=95.69  E-value=0.0095  Score=44.83  Aligned_cols=26  Identities=27%  Similarity=0.342  Sum_probs=22.2

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          113 PDISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       113 ~~~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      .....|+|+|.+|+|||||...+...
T Consensus        14 ~~~~ki~ivG~~~vGKSsL~~~l~~~   39 (181)
T 1fzq_A           14 DQEVRILLLGLDNAGKTTLLKQLASE   39 (181)
T ss_dssp             SSCEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhcC
Confidence            34567899999999999999999764

>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=95.68  E-value=0.0054  Score=49.12  Aligned_cols=26  Identities=35%  Similarity=0.460  Sum_probs=22.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      -.+++|.|+.|+|||||++.++.-..
T Consensus        35 Ge~~~i~G~nGsGKSTLl~~l~Gl~~   60 (247)
T 2ff7_A           35 GEVIGIVGRSGSGKSTLTKLIQRFYI   60 (247)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            36899999999999999999976543

>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=95.67  E-value=0.0054  Score=49.62  Aligned_cols=27  Identities=15%  Similarity=0.214  Sum_probs=22.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .-.+++|.|+.|+|||||++.++.-..
T Consensus        49 ~Gei~~liG~NGsGKSTLlk~l~Gl~~   75 (263)
T 2olj_A           49 EGEVVVVIGPSGSGKSTFLRCLNLLED   75 (263)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEEcCCCCcHHHHHHHHHcCCC
Confidence            347899999999999999999976543

>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=95.67  E-value=0.0055  Score=48.92  Aligned_cols=25  Identities=24%  Similarity=0.285  Sum_probs=22.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      -.+++|+|+.|+|||||.+.++.-.
T Consensus        28 Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (243)
T 1mv5_A           28 NSIIAFAGPSGGGKSTIFSLLERFY   52 (243)
T ss_dssp             TEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            4789999999999999999997654

>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=95.65  E-value=0.0057  Score=48.39  Aligned_cols=26  Identities=27%  Similarity=0.358  Sum_probs=22.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      -.+++|.|+.|+|||||.+.++.-..
T Consensus        34 Ge~~~i~G~nGsGKSTLl~~l~Gl~~   59 (229)
T 2pze_A           34 GQLLAVAGSTGAGKTSLLMMIMGELE   59 (229)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCc
Confidence            36899999999999999999987654

>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=95.65  E-value=0.0049  Score=48.30  Aligned_cols=26  Identities=35%  Similarity=0.450  Sum_probs=22.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      -.+++|.|+.|+|||||.+.++.-..
T Consensus        35 Ge~~~iiG~NGsGKSTLlk~l~Gl~~   60 (214)
T 1sgw_A           35 GNVVNFHGPNGIGKTTLLKTISTYLK   60 (214)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            36899999999999999999977543

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=95.64  E-value=0.021  Score=45.03  Aligned_cols=28  Identities=18%  Similarity=0.251  Sum_probs=21.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      ...|++.|+.|+||||+++.++..+...
T Consensus        25 g~~I~~eG~~GsGKsT~~~~l~~~l~~~   52 (227)
T 3v9p_A           25 GKFITFEGIDGAGKTTHLQWFCDRLQER   52 (227)
T ss_dssp             CCEEEEECCC---CHHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhh
Confidence            4689999999999999999999988653

>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=95.64  E-value=0.023  Score=49.35  Aligned_cols=90  Identities=22%  Similarity=0.273  Sum_probs=54.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhccc--------CCCC-EEEEEEeCCCC-CHHHHHHHHHHH--hC-----CC-CCCC
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNH--------KLFD-LVVFSEMSQSP-DIRKVQGEIADK--LG-----LT-FREE  177 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~--------~~f~-~~~wv~~~~~~-~~~~l~~~i~~~--l~-----~~-~~~~  177 (247)
                      ..++|.|.+|+|||+|+.++++.....        ++-+ ..+|+-++... .+.++...+...  +.     .. .+..
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            466789999999999999998876542        1122 46677776553 345555554332  11     01 1111


Q ss_pred             ChH-----HHHHHHHHHHc--CCCcEEEEEeCCCC
Q 037337          178 SES-----GRARSLFSRLN--REKRILVILDNIWE  205 (247)
Q Consensus       178 ~~~-----~~~~~l~~~l~--~~kr~LlvlDdv~~  205 (247)
                      ...     ...-.+.+++.  .++.+||++||+..
T Consensus       228 ~~~r~~~~~~a~tiAEyfrd~~G~~VLl~~DdlTr  262 (464)
T 3gqb_B          228 TIERILTPRMALTVAEYLAFEHDYHVLVILTDMTN  262 (464)
T ss_dssp             THHHHHHHHHHHHHHHHHHHTTCCEEEEEEETHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHhcCCeEEEEEcChHH
Confidence            111     12235667775  36889999999853

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=95.63  E-value=0.0072  Score=47.03  Aligned_cols=25  Identities=24%  Similarity=0.349  Sum_probs=22.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .+|+|.|+.|+||||+++.++..+.
T Consensus         4 ~~i~i~G~~gsGkst~~~~l~~~~g   28 (219)
T 2h92_A            4 INIALDGPAAAGKSTIAKRVASELS   28 (219)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcC
Confidence            4789999999999999999987653

>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=95.63  E-value=0.043  Score=45.80  Aligned_cols=97  Identities=10%  Similarity=-0.045  Sum_probs=57.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCC
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNRE  193 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  193 (247)
                      -.++..++|+.|.||++.+..+........ |+....+......+..++...+. ..                  -+.+ 
T Consensus        17 ~~~~yl~~G~e~~~~~~~~~~l~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~-~~------------------plf~-   75 (343)
T 1jr3_D           17 LRAAYLLLGNDPLLLQESQDAVRQVAAAQG-FEEHHTFSIDPNTDWNAIFSLCQ-AM------------------SLFA-   75 (343)
T ss_dssp             CCSEEEEEESCHHHHHHHHHHHHHHHHHHT-CCEEEEEECCTTCCHHHHHHHHH-HH------------------HHCC-
T ss_pred             CCcEEEEECCcHHHHHHHHHHHHHHHHhCC-CCeeEEEEecCCCCHHHHHHHhc-Cc------------------CCcc-
Confidence            457888999999999999999998765432 43222223333445544433321 10                  0112 


Q ss_pred             CcEEEEEeCCCC-c--cchhhhcccCCCCCCCeEEEEeeCc
Q 037337          194 KRILVILDNIWE-H--LDLQVVGIPHGDDHKGCKVLFTARS  231 (247)
Q Consensus       194 kr~LlvlDdv~~-~--~~~~~l~~~~~~~~~~s~iiiTtR~  231 (247)
                      ++-++|+|+++. .  ..++.+...+.....++.+|+++-.
T Consensus        76 ~~kvvii~~~~~kl~~~~~~aLl~~le~p~~~~~~il~~~~  116 (343)
T 1jr3_D           76 SRQTLLLLLPENGPNAAINEQLLTLTGLLHDDLLLIVRGNK  116 (343)
T ss_dssp             SCEEEEEECCSSCCCTTHHHHHHHHHTTCBTTEEEEEEESC
T ss_pred             CCeEEEEECCCCCCChHHHHHHHHHHhcCCCCeEEEEEcCC
Confidence            457888999876 3  3445554444444567777777643

>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=95.62  E-value=0.014  Score=51.00  Aligned_cols=89  Identities=20%  Similarity=0.232  Sum_probs=55.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCC--CCEEEEEEeCCCC-CHHHHHHHHHHHhCC-------CCCCCChH-----
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKL--FDLVVFSEMSQSP-DIRKVQGEIADKLGL-------TFREESES-----  180 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~--f~~~~wv~~~~~~-~~~~l~~~i~~~l~~-------~~~~~~~~-----  180 (247)
                      ..++|.|.+|+|||+|+.++++.....+.  -+..+|+-++... .+.++...+...=..       +..+.+..     
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            56678899999999999999998764211  1356777777554 355666666543111       11112221     


Q ss_pred             -HHHHHHHHHHc--CCCcEEEEEeCCC
Q 037337          181 -GRARSLFSRLN--REKRILVILDNIW  204 (247)
Q Consensus       181 -~~~~~l~~~l~--~~kr~LlvlDdv~  204 (247)
                       ...-.+.+++.  .++.+||++||+.
T Consensus       233 ~~~a~tiAEyfrdd~G~dVLl~~Dslt  259 (469)
T 2c61_A          233 PRMALTAAEYLAYEHGMHVLVILTDIT  259 (469)
T ss_dssp             HHHHHHHHHHHHHHHCCEEEEEEECHH
T ss_pred             HHHHHHHHHHHHHhcCCeEEEEEeCHH
Confidence             12234556665  4688999999964

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=95.60  E-value=0.0082  Score=48.74  Aligned_cols=24  Identities=21%  Similarity=0.411  Sum_probs=21.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .++|+|+.|+|||||.+.++....
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g~~~   27 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFKSQV   27 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            578999999999999999998654

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=95.60  E-value=0.006  Score=49.25  Aligned_cols=25  Identities=24%  Similarity=0.267  Sum_probs=22.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      -.+++|+|+.|+|||||++.++.-.
T Consensus        46 Ge~~~i~G~nGsGKSTLl~~l~Gl~   70 (260)
T 2ghi_A           46 GTTCALVGHTGSGKSTIAKLLYRFY   70 (260)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhccC
Confidence            4689999999999999999997654

>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=95.60  E-value=0.006  Score=49.15  Aligned_cols=25  Identities=24%  Similarity=0.369  Sum_probs=22.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      -.+++|.|+.|+|||||.+.++.-.
T Consensus        41 Gei~~l~G~NGsGKSTLlk~l~Gl~   65 (256)
T 1vpl_A           41 GEIFGLIGPNGAGKTTTLRIISTLI   65 (256)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CcEEEEECCCCCCHHHHHHHHhcCC
Confidence            4689999999999999999997654

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=95.60  E-value=0.006  Score=49.57  Aligned_cols=27  Identities=15%  Similarity=0.203  Sum_probs=22.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .-.+++|+|+.|+|||||++.++.-..
T Consensus        44 ~Ge~~~i~G~nGsGKSTLlk~l~Gl~~   70 (271)
T 2ixe_A           44 PGKVTALVGPNGSGKSTVAALLQNLYQ   70 (271)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            346899999999999999999976543

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=95.60  E-value=0.018  Score=51.61  Aligned_cols=47  Identities=11%  Similarity=0.092  Sum_probs=33.5

Q ss_pred             cccchHHHHHHHHHhc--CCCccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337           96 FESRMSTLNDILGALR--NPDISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus        96 ~~gR~~~~~~L~~~L~--~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      .+.|.+..+.+.+...  .+...+|.+.|++|+||||+|+.+...+...
T Consensus       351 ~~~r~eV~~~lr~~~~~~~~~~~~I~l~G~~GsGKSTia~~La~~L~~~  399 (546)
T 2gks_A          351 WFTRPEVAEILAETYVPKHKQGFCVWLTGLPCAGKSTIAEILATMLQAR  399 (546)
T ss_dssp             TTSCHHHHHHHHHHSCCGGGCCEEEEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             cccchhHHHHHHHhhccccccceEEEccCCCCCCHHHHHHHHHHHhhhc
Confidence            3344455555555552  2335789999999999999999999887643

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=95.59  E-value=0.0083  Score=45.15  Aligned_cols=23  Identities=13%  Similarity=0.297  Sum_probs=20.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      ..|+|+|.+|+|||||...+...
T Consensus         8 ~~i~lvG~~gvGKStL~~~l~~~   30 (188)
T 2wjg_A            8 YEIALIGNPNVGKSTIFNALTGE   30 (188)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            57899999999999999999874

>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=95.59  E-value=0.0097  Score=46.06  Aligned_cols=26  Identities=23%  Similarity=0.157  Sum_probs=22.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ....|+|+|++|+|||||+..+....
T Consensus        11 ~~~~i~~~G~~g~GKTsl~~~l~~~~   36 (218)
T 1nrj_B           11 YQPSIIIAGPQNSGKTSLLTLLTTDS   36 (218)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45678999999999999999998764

>2axn_A 6-phosphofructo-2-kinase/fructose-2,6- biphosphatase 3 (6PF-2-K/FRU- 2,6-P2ASE brain/placenta-type...; bifunctional enzyme, EDTA complex; HET: F6P EDT ADP; 2.10A {Homo sapiens} PDB: 2dwo_A* 2dwp_A* 2i1v_B* 3qpu_A* 3qpv_A* 3qpw_A*

Probab=95.58  E-value=0.0091  Score=53.14  Aligned_cols=29  Identities=21%  Similarity=0.314  Sum_probs=24.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      ...+|.++|++|+||||+|+.++..+...
T Consensus        34 ~~~lIvlvGlpGSGKSTia~~La~~L~~~   62 (520)
T 2axn_A           34 SPTVIVMVGLPARGKTYISKKLTRYLNWI   62 (520)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhhc
Confidence            34689999999999999999999887543

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=95.58  E-value=0.016  Score=48.84  Aligned_cols=27  Identities=19%  Similarity=0.245  Sum_probs=23.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      +..+|+|+|++|+|||||...+.....
T Consensus        73 ~~~~v~lvG~pgaGKSTLln~L~~~~~   99 (349)
T 2www_A           73 LAFRVGLSGPPGAGKSTFIEYFGKMLT   99 (349)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHHhh
Confidence            367899999999999999999997654

>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=95.58  E-value=0.013  Score=48.25  Aligned_cols=34  Identities=15%  Similarity=0.386  Sum_probs=26.8

Q ss_pred             HHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          103 LNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       103 ~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      +++|.+.+..   .++++.|++|+|||||.+.+. ...
T Consensus       156 i~~L~~~l~G---~i~~l~G~sG~GKSTLln~l~-~~~  189 (302)
T 2yv5_A          156 IDELVDYLEG---FICILAGPSGVGKSSILSRLT-GEE  189 (302)
T ss_dssp             HHHHHHHTTT---CEEEEECSTTSSHHHHHHHHH-SCC
T ss_pred             HHHHHhhccC---cEEEEECCCCCCHHHHHHHHH-Hhh
Confidence            4556665542   588999999999999999999 543

>4hlc_A DTMP kinase, thymidylate kinase; TMK, MRSA, pipiridine, transfera transferase inhibitor complex; HET: T05; 1.55A {Staphylococcus aureus subsp} PDB: 2cck_A 4gfd_A* 4gsy_A* 4hdc_A* 4hej_A* 2ccj_A* 4hld_A* 2ccg_A*

Probab=95.57  E-value=0.028  Score=43.54  Aligned_cols=26  Identities=27%  Similarity=0.363  Sum_probs=23.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ..|++-|..|+||||+++.+++.+..
T Consensus         3 kFI~~EG~dGsGKsTq~~~L~~~L~~   28 (205)
T 4hlc_A            3 AFITFEGPEGSGKTTVINEVYHRLVK   28 (205)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHTT
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHHHC
Confidence            47899999999999999999999863

>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=95.57  E-value=0.0087  Score=43.82  Aligned_cols=23  Identities=17%  Similarity=0.252  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 037337          117 MLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      -|++.|.+|+|||||+..+....
T Consensus         2 ki~~~G~~~~GKssl~~~l~~~~   24 (164)
T 1r8s_A            2 RILMVGLDAAGKTTILYKLKLGE   24 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            37899999999999999998753

>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=95.56  E-value=0.0083  Score=43.91  Aligned_cols=24  Identities=25%  Similarity=0.444  Sum_probs=21.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      .-|++.|.+|+|||||+..+....
T Consensus         5 ~~i~v~G~~~~GKssl~~~l~~~~   28 (168)
T 1u8z_A            5 HKVIMVGSGGVGKSALTLQFMYDE   28 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCc
Confidence            468899999999999999998753

>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=95.55  E-value=0.0081  Score=45.33  Aligned_cols=24  Identities=29%  Similarity=0.547  Sum_probs=21.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      -.|+++|.+|+|||||+..+....
T Consensus        22 ~ki~vvG~~~~GKSsli~~l~~~~   45 (190)
T 3con_A           22 YKLVVVGAGGVGKSALTIQLIQNH   45 (190)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            468899999999999999998763

>2gk6_A Regulator of nonsense transcripts 1; UPF1, helicase, NMD, hydrolase; HET: ADP; 2.40A {Homo sapiens} PDB: 2gjk_A* 2gk7_A 2xzo_A* 2xzp_A

Probab=95.55  E-value=0.025  Score=51.52  Aligned_cols=50  Identities=16%  Similarity=0.141  Sum_probs=36.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIA  167 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~  167 (247)
                      ....|+|++|+|||+++..+...+...  -...+.+++.......++...+.
T Consensus       196 ~~~li~GppGTGKT~~~~~~i~~l~~~--~~~~ilv~a~tn~A~~~l~~~l~  245 (624)
T 2gk6_A          196 PLSLIQGPPGTGKTVTSATIVYHLARQ--GNGPVLVCAPSNIAVDQLTEKIH  245 (624)
T ss_dssp             SEEEEECCTTSCHHHHHHHHHHHHHTS--SSCCEEEEESSHHHHHHHHHHHH
T ss_pred             CCeEEECCCCCCHHHHHHHHHHHHHHc--CCCeEEEEeCcHHHHHHHHHHHH
Confidence            578899999999999988887766432  23456777777666666666654

>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=95.55  E-value=0.0083  Score=43.84  Aligned_cols=24  Identities=25%  Similarity=0.450  Sum_probs=20.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      -.|+|.|.+|+|||||+..+....
T Consensus         4 ~~i~v~G~~~~GKSsli~~l~~~~   27 (167)
T 1kao_A            4 YKVVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCC
Confidence            458899999999999999998753

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=95.55  E-value=0.0073  Score=51.07  Aligned_cols=26  Identities=35%  Similarity=0.331  Sum_probs=22.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      -.+++|.|+.|+|||||.+.++.-..
T Consensus        30 Ge~~~llGpsGsGKSTLLr~iaGl~~   55 (359)
T 3fvq_A           30 GEILFIIGASGCGKTTLLRCLAGFEQ   55 (359)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHTSSC
T ss_pred             CCEEEEECCCCchHHHHHHHHhcCCC
Confidence            36899999999999999999987543

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=95.55  E-value=0.0065  Score=48.75  Aligned_cols=25  Identities=28%  Similarity=0.376  Sum_probs=21.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      -.+++|.|+.|+|||||.+.++.-.
T Consensus        26 Ge~~~liG~NGsGKSTLlk~l~Gl~   50 (249)
T 2qi9_C           26 GEILHLVGPNGAGKSTLLARMAGMT   50 (249)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCC
Confidence            3689999999999999999987654

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=95.53  E-value=0.0066  Score=49.19  Aligned_cols=25  Identities=32%  Similarity=0.251  Sum_probs=22.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      -.+++|.|+.|+|||||.+.++.-.
T Consensus        33 Ge~~~liG~nGsGKSTLl~~i~Gl~   57 (266)
T 2yz2_A           33 GECLLVAGNTGSGKSTLLQIVAGLI   57 (266)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCC
Confidence            4689999999999999999997654

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=95.53  E-value=0.0099  Score=47.03  Aligned_cols=26  Identities=23%  Similarity=0.155  Sum_probs=22.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ...++|.|++|+||||+|+.++..+.
T Consensus         8 ~~~~~~~G~pGsGKsT~a~~L~~~~g   33 (230)
T 3gmt_A            8 HMRLILLGAPGAGKGTQANFIKEKFG   33 (230)
T ss_dssp             -CEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             ccceeeECCCCCCHHHHHHHHHHHhC
Confidence            35689999999999999999998875

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=95.52  E-value=0.0066  Score=49.56  Aligned_cols=25  Identities=24%  Similarity=0.230  Sum_probs=22.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      -.+++|.|+.|+|||||.+.++.-.
T Consensus        47 Ge~~~liG~NGsGKSTLlk~l~Gl~   71 (279)
T 2ihy_A           47 GDKWILYGLNGAGKTTLLNILNAYE   71 (279)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCC
Confidence            4689999999999999999997654

>1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A*

Probab=95.51  E-value=0.027  Score=48.68  Aligned_cols=29  Identities=14%  Similarity=0.131  Sum_probs=25.0

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          113 PDISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       113 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ....+++|+|+.|+|||||.+.+......
T Consensus       165 ~~ggii~I~GpnGSGKTTlL~allg~l~~  193 (418)
T 1p9r_A          165 RPHGIILVTGPTGSGKSTTLYAGLQELNS  193 (418)
T ss_dssp             SSSEEEEEECSTTSCHHHHHHHHHHHHCC
T ss_pred             hcCCeEEEECCCCCCHHHHHHHHHhhcCC
Confidence            44578999999999999999999887653

>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=95.51  E-value=0.0088  Score=44.04  Aligned_cols=23  Identities=26%  Similarity=0.289  Sum_probs=20.7

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      -.|+|+|.+|+|||||...+...
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1z08_A            7 FKVVLLGEGCVGKTSLVLRYCEN   29 (170)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            46889999999999999999875

>2oze_A ORF delta'; para, walker type atpases, DNA segregation, PSM19035, plasmid, DNA binding protein; HET: AGS EPE; 1.83A {Streptococcus pyogenes}

Probab=95.51  E-value=0.027  Score=46.02  Aligned_cols=54  Identities=20%  Similarity=0.243  Sum_probs=35.7

Q ss_pred             HHHHHHHHhcCCCccEEEEEc---CCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCC
Q 037337          102 TLNDILGALRNPDISMLGICG---MGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPD  158 (247)
Q Consensus       102 ~~~~L~~~L~~~~~~~v~I~G---~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~  158 (247)
                      .+..+.+.+.. +.++++|++   -||+||||+|..++..+...+  ..+..+++....+
T Consensus        22 ~~~~~~r~~~~-~~~~i~v~~~s~KGGvGKTT~a~nLA~~la~~G--~rVlliD~D~q~~   78 (298)
T 2oze_A           22 ILEELRRILSN-KNEAIVILNNYFKGGVGKSKLSTMFAYLTDKLN--LKVLMIDKDLQAT   78 (298)
T ss_dssp             HHHHHHHHHHH-HCSCEEEEECCSSSSSSHHHHHHHHHHHHHHTT--CCEEEEEECTTCH
T ss_pred             HHHHHHHHhcC-CCcEEEEEeccCCCCchHHHHHHHHHHHHHhCC--CeEEEEeCCCCCC
Confidence            33444444432 235677765   999999999999999876542  2466777766543

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=95.50  E-value=0.0099  Score=44.17  Aligned_cols=25  Identities=24%  Similarity=0.260  Sum_probs=21.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      +...|+|+|.+|+|||||+..+...
T Consensus         7 ~~~~i~v~G~~~~GKssl~~~l~~~   31 (178)
T 2lkc_A            7 RPPVVTIMGHVDHGKTTLLDAIRHS   31 (178)
T ss_dssp             CCCEEEEESCTTTTHHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4567899999999999999999764

>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=95.50  E-value=0.009  Score=43.78  Aligned_cols=23  Identities=30%  Similarity=0.517  Sum_probs=20.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      --|+|.|.+|+|||||...+...
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            35789999999999999999875

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=95.49  E-value=0.0068  Score=48.72  Aligned_cols=26  Identities=23%  Similarity=0.323  Sum_probs=22.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ..+++|.|+.|+|||||.+.++.-..
T Consensus        31 Ge~~~l~G~nGsGKSTLl~~l~Gl~~   56 (253)
T 2nq2_C           31 GDILAVLGQNGCGKSTLLDLLLGIHR   56 (253)
T ss_dssp             TCEEEEECCSSSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            36899999999999999999987653

>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=95.48  E-value=0.0091  Score=43.83  Aligned_cols=23  Identities=17%  Similarity=0.276  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 037337          117 MLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      -|++.|.+|+|||||...+....
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~~   27 (170)
T 1ek0_A            5 KLVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            57899999999999999998754

>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=95.47  E-value=0.01  Score=43.87  Aligned_cols=24  Identities=33%  Similarity=0.385  Sum_probs=20.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      ..-|+|+|.+|+|||||+..+...
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            356889999999999999999764

>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=95.47  E-value=0.0087  Score=45.03  Aligned_cols=25  Identities=24%  Similarity=0.252  Sum_probs=21.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ..-|+|+|.+|+|||||+..+....
T Consensus         7 ~~ki~v~G~~~vGKSsli~~l~~~~   31 (184)
T 1m7b_A            7 KCKIVVVGDSQCGKTALLHVFAKDC   31 (184)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEEEECCCCCCHHHHHHHHhcCC
Confidence            3568899999999999999998753

>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=95.45  E-value=0.0094  Score=43.80  Aligned_cols=24  Identities=17%  Similarity=0.274  Sum_probs=21.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      --|+|.|.+|+|||||+..+....
T Consensus         7 ~~i~v~G~~~~GKSsli~~l~~~~   30 (170)
T 1z0j_A            7 LKVCLLGDTGVGKSSIMWRFVEDS   30 (170)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            458899999999999999998764

>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=95.45  E-value=0.0093  Score=44.38  Aligned_cols=26  Identities=31%  Similarity=0.379  Sum_probs=22.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ....|+|+|.+|+|||||+..+....
T Consensus         7 ~~~~i~v~G~~~~GKSsli~~l~~~~   32 (182)
T 1ky3_A            7 NILKVIILGDSGVGKTSLMHRYVNDK   32 (182)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhCc
Confidence            34578999999999999999998753

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=95.44  E-value=0.032  Score=43.62  Aligned_cols=27  Identities=22%  Similarity=0.197  Sum_probs=24.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ...|++.|+.|+||||++..++..+..
T Consensus         5 g~~i~~eG~~g~GKst~~~~l~~~l~~   31 (216)
T 3tmk_A            5 GKLILIEGLDRTGKTTQCNILYKKLQP   31 (216)
T ss_dssp             CCEEEEEECSSSSHHHHHHHHHHHHCS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhcc
Confidence            368999999999999999999998875

>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=95.44  E-value=0.0089  Score=44.00  Aligned_cols=22  Identities=23%  Similarity=0.376  Sum_probs=19.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVAR  137 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~  137 (247)
                      --|+|+|.+|+|||||+..+..
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            3578999999999999999863

>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=95.43  E-value=0.0094  Score=45.05  Aligned_cols=25  Identities=24%  Similarity=0.209  Sum_probs=21.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      .--|+|+|.+|+|||||+..+....
T Consensus        20 ~~ki~ivG~~~vGKSsL~~~~~~~~   44 (184)
T 3ihw_A           20 ELKVGIVGNLSSGKSALVHRYLTGT   44 (184)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHSS
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcCC
Confidence            4568899999999999999888753

>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=95.43  E-value=0.0096  Score=44.20  Aligned_cols=24  Identities=25%  Similarity=0.415  Sum_probs=21.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      ..-|+|+|.+|+|||||...+...
T Consensus         7 ~~~i~v~G~~~~GKSsli~~l~~~   30 (177)
T 1wms_A            7 LFKVILLGDGGVGKSSLMNRYVTN   30 (177)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcC
Confidence            356889999999999999999865

>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=95.43  E-value=0.0097  Score=46.47  Aligned_cols=109  Identities=17%  Similarity=0.230  Sum_probs=55.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCC---CChHHHHHHHHHHHc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFRE---ESESGRARSLFSRLN  191 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~---~~~~~~~~~l~~~l~  191 (247)
                      ..+..++|+.|.||||.+...+++..... ....++ ....+.  +.-...++..++.....   .+.    ..+.+.+.
T Consensus        28 G~l~vitG~MgsGKTT~lL~~a~r~~~~g-~kVli~-k~~~d~--R~ge~~i~s~~g~~~~a~~~~~~----~~~~~~~~   99 (214)
T 2j9r_A           28 GWIEVICGSMFSGKSEELIRRVRRTQFAK-QHAIVF-KPCIDN--RYSEEDVVSHNGLKVKAVPVSAS----KDIFKHIT   99 (214)
T ss_dssp             CEEEEEECSTTSCHHHHHHHHHHHHHHTT-CCEEEE-ECC-------------------CCEEECSSG----GGGGGGCC
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHHHHCC-CEEEEE-EeccCC--cchHHHHHhhcCCeeEEeecCCH----HHHHHHHh
Confidence            46888999999999999999999887653 333333 322111  11112344444433221   111    12333232


Q ss_pred             CCCcEEEEEeCCCCc--cchhhhcccCCCCCCCeEEEEeeCchhhh
Q 037337          192 REKRILVILDNIWEH--LDLQVVGIPHGDDHKGCKVLFTARSLDVL  235 (247)
Q Consensus       192 ~~kr~LlvlDdv~~~--~~~~~l~~~~~~~~~~s~iiiTtR~~~va  235 (247)
                      . +--+|++|++.-.  ++++.+ ..+.  ..|..||+|-++.+.-
T Consensus       100 ~-~~dvViIDEaQF~~~~~V~~l-~~l~--~~~~~Vi~~Gl~~DF~  141 (214)
T 2j9r_A          100 E-EMDVIAIDEVQFFDGDIVEVV-QVLA--NRGYRVIVAGLDQDFR  141 (214)
T ss_dssp             S-SCCEEEECCGGGSCTTHHHHH-HHHH--HTTCEEEEEECSBCTT
T ss_pred             c-CCCEEEEECcccCCHHHHHHH-HHHh--hCCCEEEEEecccccc
Confidence            2 2248999998754  334333 2211  2377899999965543

>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=95.42  E-value=0.011  Score=44.67  Aligned_cols=25  Identities=12%  Similarity=0.413  Sum_probs=21.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      +...|+|+|.+|+|||||...+...
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            4577899999999999999999764

>3k9g_A PF-32 protein; ssgcid, SBRI, decode biostructures, UW, NIH, niaid, borellia burgdorferi, plasmid partition protein, iodide; 2.25A {Borrelia burgdorferi} PDB: 3k9h_A

Probab=95.42  E-value=0.059  Score=43.13  Aligned_cols=47  Identities=19%  Similarity=0.277  Sum_probs=34.6

Q ss_pred             CCccEEEE-EcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHH
Q 037337          113 PDISMLGI-CGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKV  162 (247)
Q Consensus       113 ~~~~~v~I-~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l  162 (247)
                      ...++|+| .+-||+||||+|..++..+. .+  ..+..+++....+....
T Consensus        25 ~~~~vI~v~s~kGGvGKTT~a~~LA~~la-~g--~~VlliD~D~~~~~~~~   72 (267)
T 3k9g_A           25 KKPKIITIASIKGGVGKSTSAIILATLLS-KN--NKVLLIDMDTQASITSY   72 (267)
T ss_dssp             -CCEEEEECCSSSSSCHHHHHHHHHHHHT-TT--SCEEEEEECTTCHHHHH
T ss_pred             CCCeEEEEEeCCCCchHHHHHHHHHHHHH-CC--CCEEEEECCCCCCHHHH
Confidence            34567777 57899999999999999988 52  45777888776544433

>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=95.40  E-value=0.0097  Score=43.74  Aligned_cols=23  Identities=22%  Similarity=0.326  Sum_probs=20.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      --|+|+|.+|+|||||...+...
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1g16_A            4 MKILLIGDSGVGKSCLLVRFVED   26 (170)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHhC
Confidence            45889999999999999999864

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=95.40  E-value=0.025  Score=47.39  Aligned_cols=29  Identities=21%  Similarity=0.321  Sum_probs=24.9

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          113 PDISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       113 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      .+..+++|.|++|+|||||.+.+......
T Consensus        53 ~~g~~v~i~G~~GaGKSTLl~~l~g~~~~   81 (337)
T 2qm8_A           53 GRAIRVGITGVPGVGKSTTIDALGSLLTA   81 (337)
T ss_dssp             CCSEEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHhhhh
Confidence            45689999999999999999999876653

>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=95.39  E-value=0.01  Score=43.54  Aligned_cols=23  Identities=22%  Similarity=0.270  Sum_probs=20.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      --|+|+|.+|+|||||+..+...
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1r2q_A            7 FKLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            45889999999999999999874

>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=95.39  E-value=0.0086  Score=43.95  Aligned_cols=21  Identities=24%  Similarity=0.406  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 037337          117 MLGICGMGGIGKTMLEKEVAR  137 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~  137 (247)
                      -|+|+|.+|+|||||...+..
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            578999999999999999854

>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=95.38  E-value=0.015  Score=44.51  Aligned_cols=24  Identities=25%  Similarity=0.290  Sum_probs=20.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHH
Q 037337          114 DISMLGICGMGGIGKTMLEKEVAR  137 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~  137 (247)
                      +...|+++|.+|+|||||...+..
T Consensus        24 ~~~ki~lvG~~~vGKSsLi~~l~~   47 (198)
T 1f6b_A           24 KTGKLVFLGLDNAGKTTLLHMLKD   47 (198)
T ss_dssp             CCEEEEEEEETTSSHHHHHHHHSC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhc
Confidence            345688999999999999999964

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=95.38  E-value=0.0096  Score=43.80  Aligned_cols=23  Identities=26%  Similarity=0.512  Sum_probs=20.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      --|+|+|.+|+|||||+..+...
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~   26 (172)
T 2erx_A            4 YRVAVFGAGGVGKSSLVLRFVKG   26 (172)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            45789999999999999999864

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=95.35  E-value=0.0097  Score=50.27  Aligned_cols=26  Identities=31%  Similarity=0.460  Sum_probs=22.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      -.+++|.|+.|+|||||.+.++.-..
T Consensus        41 Ge~~~llGpnGsGKSTLLr~iaGl~~   66 (355)
T 1z47_A           41 GEMVGLLGPSGSGKTTILRLIAGLER   66 (355)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTSSC
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCCC
Confidence            37899999999999999999986543

>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=95.35  E-value=0.0044  Score=49.91  Aligned_cols=27  Identities=19%  Similarity=0.219  Sum_probs=23.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      +...|+|.|..|+||||+++.+++.+.
T Consensus        23 ~~~~I~ieG~~GsGKST~~~~L~~~l~   49 (263)
T 1p5z_B           23 RIKKISIEGNIAAGKSTFVNILKQLCE   49 (263)
T ss_dssp             CCEEEEEECSTTSSHHHHHTTTGGGCT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHhcC
Confidence            357899999999999999999987753

>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=95.34  E-value=0.01  Score=44.11  Aligned_cols=24  Identities=29%  Similarity=0.501  Sum_probs=21.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      ...|+|+|.+|+|||||...+...
T Consensus         9 ~~~i~v~G~~~~GKssli~~l~~~   32 (181)
T 2fn4_A            9 THKLVVVGGGGVGKSALTIQFIQS   32 (181)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            457899999999999999999876

>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=95.33  E-value=0.011  Score=44.81  Aligned_cols=25  Identities=32%  Similarity=0.349  Sum_probs=21.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      .--|+|+|.+|+|||||+..+....
T Consensus        21 ~~ki~vvG~~~vGKTsLi~~l~~~~   45 (187)
T 3c5c_A           21 EVNLAILGRRGAGKSALTVKFLTKR   45 (187)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             eEEEEEECCCCCcHHHHHHHHHhCC
Confidence            4568899999999999999998753

>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=95.33  E-value=0.017  Score=49.19  Aligned_cols=110  Identities=12%  Similarity=0.103  Sum_probs=57.1

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEE-EEEeCCCCCHHHHHHHHHHH--hCCCCCCCChHHHHHHHHHH
Q 037337          113 PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVV-FSEMSQSPDIRKVQGEIADK--LGLTFREESESGRARSLFSR  189 (247)
Q Consensus       113 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~-wv~~~~~~~~~~l~~~i~~~--l~~~~~~~~~~~~~~~l~~~  189 (247)
                      .....++|+|+.|+|||||++.++..+...  ..+.+ ++.-.-......- ..+..+  ++.     +.......+...
T Consensus       134 ~~g~~i~ivG~~GsGKTTll~~l~~~~~~~--~~g~I~~~e~~~e~~~~~~-~~~v~Q~~~g~-----~~~~~~~~l~~~  205 (372)
T 2ewv_A          134 RKMGLILVTGPTGSGKSTTIASMIDYINQT--KSYHIITIEDPIEYVFKHK-KSIVNQREVGE-----DTKSFADALRAA  205 (372)
T ss_dssp             SSSEEEEEECSSSSSHHHHHHHHHHHHHHH--SCCEEEEEESSCCSCCCCS-SSEEEEEEBTT-----TBSCSHHHHHHH
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhhcCcC--CCcEEEEecccHhhhhccC-ceEEEeeecCC-----CHHHHHHHHHHH
Confidence            345789999999999999999999876543  12333 3321111000000 000000  000     111223455666


Q ss_pred             HcCCCcEEEEEeCCCCccchhhhcccCCCCCCCeEEEEeeCchhh
Q 037337          190 LNREKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTARSLDV  234 (247)
Q Consensus       190 l~~~kr~LlvlDdv~~~~~~~~l~~~~~~~~~~s~iiiTtR~~~v  234 (247)
                      |.. .+-+|++|+..+.+.+.......   ..|..|+.|+...++
T Consensus       206 L~~-~pd~illdE~~d~e~~~~~l~~~---~~g~~vi~t~H~~~~  246 (372)
T 2ewv_A          206 LRE-DPDVIFVGEMRDLETVETALRAA---ETGHLVFGTLHTNTA  246 (372)
T ss_dssp             TTS-CCSEEEESCCCSHHHHHHHHHHH---TTTCEEEECCCCCSH
T ss_pred             hhh-CcCEEEECCCCCHHHHHHHHHHH---hcCCEEEEEECcchH
Confidence            655 35678889887654433321221   235567788776654

>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein structure initiative, NEW YORK SGX research for structural genomics; 1.80A {Escherichia coli} SCOP: c.37.1.10

Probab=95.33  E-value=0.029  Score=47.07  Aligned_cols=29  Identities=21%  Similarity=0.259  Sum_probs=24.8

Q ss_pred             CCCccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          112 NPDISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       112 ~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ..+..+++|.|.+|+|||||+..++....
T Consensus        53 ~~~~~~i~i~G~~g~GKSTl~~~l~~~~~   81 (341)
T 2p67_A           53 CGNTLRLGVTGTPGAGKSTFLEAFGMLLI   81 (341)
T ss_dssp             CSCSEEEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             cCCCEEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            34568899999999999999999987664

>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=95.33  E-value=0.0098  Score=44.42  Aligned_cols=23  Identities=26%  Similarity=0.305  Sum_probs=20.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      ..|+|+|.+|+|||||...+...
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            46889999999999999999865

>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=95.33  E-value=0.011  Score=44.96  Aligned_cols=24  Identities=25%  Similarity=0.304  Sum_probs=20.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      ..-|+|+|.+|+|||||...+...
T Consensus         6 ~~kv~lvG~~~vGKSsL~~~~~~~   29 (192)
T 2cjw_A            6 YYRVVLIGEQGVGKSTLANIFAGV   29 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            346889999999999999999853

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=95.32  E-value=0.0099  Score=50.66  Aligned_cols=26  Identities=23%  Similarity=0.284  Sum_probs=22.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      -.+++|.|+.|+|||||.+.++.-..
T Consensus        29 Ge~~~llGpsGsGKSTLLr~iaGl~~   54 (381)
T 3rlf_A           29 GEFVVFVGPSGCGKSTLLRMIAGLET   54 (381)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             CCEEEEEcCCCchHHHHHHHHHcCCC
Confidence            46899999999999999999987553

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=95.31  E-value=0.0086  Score=48.43  Aligned_cols=25  Identities=28%  Similarity=0.255  Sum_probs=22.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      -.+++|.|+.|+|||||.+.++.-.
T Consensus        30 Ge~~~i~G~NGsGKSTLlk~l~Gl~   54 (263)
T 2pjz_A           30 GEKVIILGPNGSGKTTLLRAISGLL   54 (263)
T ss_dssp             SSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEEECCCCCCHHHHHHHHhCCC
Confidence            3689999999999999999998654

>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=95.31  E-value=0.0075  Score=47.57  Aligned_cols=25  Identities=24%  Similarity=0.120  Sum_probs=22.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      ...+++|.|+.|+|||||++.++..
T Consensus        19 ~g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           19 QPFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhc
Confidence            3478999999999999999998765

>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=95.31  E-value=0.011  Score=43.48  Aligned_cols=25  Identities=24%  Similarity=0.254  Sum_probs=21.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ...|+|.|.+|+|||||...+....
T Consensus         7 ~~~i~v~G~~~~GKssl~~~l~~~~   31 (171)
T 1upt_A            7 EMRILILGLDGAGKTTILYRLQVGE   31 (171)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcCC
Confidence            3568899999999999999997653

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=95.30  E-value=0.0095  Score=44.27  Aligned_cols=24  Identities=29%  Similarity=0.303  Sum_probs=20.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      .--|+|+|.+|+|||||+..+...
T Consensus         6 ~~ki~v~G~~~~GKssl~~~l~~~   29 (178)
T 2hxs_A            6 QLKIVVLGDGASGKTSLTTCFAQE   29 (178)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHGG
T ss_pred             eEEEEEECcCCCCHHHHHHHHHhC
Confidence            356889999999999999999754

>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=95.30  E-value=0.011  Score=44.95  Aligned_cols=24  Identities=25%  Similarity=0.261  Sum_probs=20.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      ...|+++|.+|+|||||...+...
T Consensus        23 ~~ki~~vG~~~vGKSsli~~l~~~   46 (190)
T 1m2o_B           23 HGKLLFLGLDNAGKTTLLHMLKND   46 (190)
T ss_dssp             -CEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcC
Confidence            457899999999999999999874

>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=95.29  E-value=0.013  Score=44.50  Aligned_cols=26  Identities=31%  Similarity=0.400  Sum_probs=21.9

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          113 PDISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       113 ~~~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      ....-|+|+|.+|+|||||+..+...
T Consensus        26 ~~~~ki~v~G~~~vGKSsli~~l~~~   51 (196)
T 2atv_A           26 SAEVKLAIFGRAGVGKSALVVRFLTK   51 (196)
T ss_dssp             -CCEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhC
Confidence            34467889999999999999999875

>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=95.29  E-value=0.01  Score=50.18  Aligned_cols=26  Identities=27%  Similarity=0.215  Sum_probs=22.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      -.+++|.|+.|+|||||.+.++.-..
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaGl~~   54 (359)
T 2yyz_A           29 GEFVALLGPSGCGKTTTLLMLAGIYK   54 (359)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTSSC
T ss_pred             CCEEEEEcCCCchHHHHHHHHHCCCC
Confidence            46899999999999999999987543

>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=95.29  E-value=0.011  Score=43.75  Aligned_cols=25  Identities=32%  Similarity=0.345  Sum_probs=21.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ...|+|+|.+|+|||||+..+....
T Consensus        15 ~~~i~v~G~~~~GKSsli~~l~~~~   39 (179)
T 1z0f_A           15 IFKYIIIGDMGVGKSCLLHQFTEKK   39 (179)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCC
Confidence            4568899999999999999998764

>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=95.29  E-value=0.0096  Score=45.31  Aligned_cols=26  Identities=15%  Similarity=0.199  Sum_probs=21.8

Q ss_pred             CCCccEEEEEcCCCCcHHHHHHHHHH
Q 037337          112 NPDISMLGICGMGGIGKTMLEKEVAR  137 (247)
Q Consensus       112 ~~~~~~v~I~G~~GiGKTtLa~~~~~  137 (247)
                      ..+...|+|+|.+|+|||||+..+..
T Consensus        26 ~~~~~ki~v~G~~~vGKSsLi~~l~~   51 (192)
T 2b6h_A           26 GKKQMRILMVGLDAAGKTTILYKLKL   51 (192)
T ss_dssp             TTSCEEEEEEESTTSSHHHHHHHHCS
T ss_pred             cCCccEEEEECCCCCCHHHHHHHHHh
Confidence            34456789999999999999999864

>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=95.28  E-value=0.028  Score=50.57  Aligned_cols=39  Identities=26%  Similarity=0.323  Sum_probs=29.1

Q ss_pred             HHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          102 TLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       102 ~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      +....+.....+  .++.|.|++|+||||++..+...+...
T Consensus       193 ~Q~~Av~~~~~~--~~~~I~G~pGTGKTt~i~~l~~~l~~~  231 (574)
T 3e1s_A          193 EQASVLDQLAGH--RLVVLTGGPGTGKSTTTKAVADLAESL  231 (574)
T ss_dssp             HHHHHHHHHTTC--SEEEEECCTTSCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhC--CEEEEEcCCCCCHHHHHHHHHHHHHhc
Confidence            334444444433  788999999999999999999887654

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=95.28  E-value=0.013  Score=45.29  Aligned_cols=27  Identities=19%  Similarity=0.198  Sum_probs=24.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ..+|.|.|+.|+||||+++.++..+..
T Consensus         6 ~~iI~i~g~~GsGk~ti~~~la~~lg~   32 (201)
T 3fdi_A            6 QIIIAIGREFGSGGHLVAKKLAEHYNI   32 (201)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHTTC
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHhCc
Confidence            368999999999999999999998764

>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=95.28  E-value=0.011  Score=44.37  Aligned_cols=24  Identities=21%  Similarity=0.227  Sum_probs=21.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      ..-|+|+|.+|+|||||+..+...
T Consensus        11 ~~ki~v~G~~~~GKSsli~~l~~~   34 (195)
T 3bc1_A           11 LIKFLALGDSGVGKTSVLYQYTDG   34 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            356889999999999999999874

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B

Probab=95.27  E-value=0.023  Score=49.94  Aligned_cols=87  Identities=16%  Similarity=0.168  Sum_probs=51.7

Q ss_pred             ccEEEEEcCCCCcHHHHHH-HHHHHhcccCCCCE-EEEEEeCCCC-CHHHHHHHHHHHhCCC-------CCCCChHH---
Q 037337          115 ISMLGICGMGGIGKTMLEK-EVARKAKNHKLFDL-VVFSEMSQSP-DIRKVQGEIADKLGLT-------FREESESG---  181 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~-~~~~~~~~~~~f~~-~~wv~~~~~~-~~~~l~~~i~~~l~~~-------~~~~~~~~---  181 (247)
                      -..++|.|.+|+|||+||. .+++...    .+. .+|+-++... .+.++...+...=...       ..+.+...   
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 GQRELIIGDRQTGKTTIAIDTIINQKG----QDVICIYVAIGQKQSTVAGVVETLRQHDALDYTIVVTASASEPAPLLYL  237 (502)
T ss_dssp             TCBCEEEECSSSCHHHHHHHHHHGGGS----CSEEEEEEEESCCHHHHHHHHHHHHHTTCSTTEEEEEECTTSCHHHHHH
T ss_pred             CCEEEEECCCCCCchHHHHHHHHHhhc----CCcEEEEEECCCcchHHHHHHHHHhhCCCcceeEEEEECCCCCHHHHHH
Confidence            3567899999999999965 5655432    343 5777777664 3455555554422111       11122211   


Q ss_pred             ---HHHHHHHHHc-CCCcEEEEEeCCCC
Q 037337          182 ---RARSLFSRLN-REKRILVILDNIWE  205 (247)
Q Consensus       182 ---~~~~l~~~l~-~~kr~LlvlDdv~~  205 (247)
                         ..-.+.+++. .++.+||++||+..
T Consensus       238 a~~~a~tiAEyfrd~G~dVLl~~Dsltr  265 (502)
T 2qe7_A          238 APYAGCAMGEYFMYKGKHALVVYDDLSK  265 (502)
T ss_dssp             HHHHHHHHHHHHHTTTCEEEEEEECHHH
T ss_pred             HHHHHHHHHHHHHHcCCcEEEEEecHHH
Confidence               1234555553 35789999999753

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=95.26  E-value=0.011  Score=50.17  Aligned_cols=26  Identities=27%  Similarity=0.314  Sum_probs=22.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      -.+++|.|+.|+|||||.+.++.-..
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaGl~~   54 (362)
T 2it1_A           29 GEFMALLGPSGSGKSTLLYTIAGIYK   54 (362)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             CCEEEEECCCCchHHHHHHHHhcCCC
Confidence            46899999999999999999987543

>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=95.26  E-value=0.023  Score=50.04  Aligned_cols=86  Identities=13%  Similarity=0.170  Sum_probs=51.4

Q ss_pred             cEEEEEcCCCCcHHHHHH-HHHHHhcccCCCCE-EEEEEeCCCC-CHHHHHHHHHHHhCC-------CCCCCChHH----
Q 037337          116 SMLGICGMGGIGKTMLEK-EVARKAKNHKLFDL-VVFSEMSQSP-DIRKVQGEIADKLGL-------TFREESESG----  181 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~-~~~~~~~~~~~f~~-~~wv~~~~~~-~~~~l~~~i~~~l~~-------~~~~~~~~~----  181 (247)
                      ..++|.|.+|+|||+||. .+++...    .+. .+|+-+++.. .+.++...+...=..       ...+.+...    
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 QRELIIGDRQTGKTAIAIDTIINQKG----QGVYCIYVAIGQKKSAIARIIDKLRQYGAMEYTTVVVASASDPASLQYIA  251 (515)
T ss_dssp             CBEEEEEETTSSHHHHHHHHHHTTTT----TTEEEEEEEESCCHHHHHHHHHHHHHTTGGGGEEEEEECTTSCHHHHHHH
T ss_pred             CEEEEEcCCCCCccHHHHHHHHHhhc----CCcEEEEEEcCCCcHHHHHHHHHHHhCCCcceeEEEEECCCCCHHHHHHH
Confidence            577899999999999965 5655432    453 5777777664 345555555442111       111122211    


Q ss_pred             --HHHHHHHHHc-CCCcEEEEEeCCCC
Q 037337          182 --RARSLFSRLN-REKRILVILDNIWE  205 (247)
Q Consensus       182 --~~~~l~~~l~-~~kr~LlvlDdv~~  205 (247)
                        ..-.+.+++. .++.+||++||+..
T Consensus       252 ~~~a~tiAEyfrd~G~dVLli~DslTr  278 (515)
T 2r9v_A          252 PYAGCAMGEYFAYSGRDALVVYDDLSK  278 (515)
T ss_dssp             HHHHHHHHHHHHTTTCEEEEEEETHHH
T ss_pred             HHHHHHHHHHHHHcCCcEEEEeccHHH
Confidence              1234555553 35789999999854

>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=95.25  E-value=0.013  Score=51.40  Aligned_cols=29  Identities=21%  Similarity=0.291  Sum_probs=24.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      ....|.++|++|+||||+++.++..+...
T Consensus        38 ~~~~IvlvGlpGsGKSTia~~La~~l~~~   66 (469)
T 1bif_A           38 CPTLIVMVGLPARGKTYISKKLTRYLNFI   66 (469)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHHhcc
Confidence            34688999999999999999999887643

>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=95.25  E-value=0.07  Score=47.48  Aligned_cols=88  Identities=15%  Similarity=0.211  Sum_probs=54.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCC-HHHHHHHHHH----HhC----------CCCCCCCh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPD-IRKVQGEIAD----KLG----------LTFREESE  179 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~-~~~l~~~i~~----~l~----------~~~~~~~~  179 (247)
                      -..++|.|..|+|||+|+.++++...    -+..+|+-++...+ +.+++..+-+    ..+          ....+.+.
T Consensus       227 Gqr~~I~g~~g~GKT~L~~~ia~~~~----~~~~V~~~iGER~~Ev~e~~~~~~el~d~~~g~~~m~rtvvV~~tsd~p~  302 (588)
T 3mfy_A          227 GGTAAIPGPAGSGKTVTQHQLAKWSD----AQVVIYIGCGERGNEMTDVLEEFPKLKDPKTGKPLMERTVLIANTSNMPV  302 (588)
T ss_dssp             TCEEEECSCCSHHHHHHHHHHHHHSS----CSEEEEEECCSSSSHHHHHHHHTTTCEETTTTEEGGGGEEEEECCTTSCH
T ss_pred             CCeEEeecCCCCCHHHHHHHHHhccC----CCEEEEEEecccHHHHHHHHHHHHHhcccccccccccceEEEEECCCCCH
Confidence            46789999999999999999877532    35788888887665 4455444322    011          01111222


Q ss_pred             HH------HHHHHHHHH-cCCCcEEEEEeCCCCc
Q 037337          180 SG------RARSLFSRL-NREKRILVILDNIWEH  206 (247)
Q Consensus       180 ~~------~~~~l~~~l-~~~kr~LlvlDdv~~~  206 (247)
                      ..      ..-.+.+++ ..++.+||++|++...
T Consensus       303 ~~r~~~~~~a~tiAEyfrd~G~dVLl~~DsltR~  336 (588)
T 3mfy_A          303 AAREASIYTGITIAEYFRDMGYDVALMADSTSRW  336 (588)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCEEEEEEECTTTC
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCCEEEeecchHHH
Confidence            11      122344555 2357899999998743

>1wcv_1 SOJ, segregation protein; ATPase, bacterial, chromosome segregation; 1.6A {Thermus thermophilus} PDB: 2bej_A* 2bek_A*

Probab=95.24  E-value=0.016  Score=46.39  Aligned_cols=42  Identities=17%  Similarity=0.299  Sum_probs=31.9

Q ss_pred             CccEEEEE-cCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCC
Q 037337          114 DISMLGIC-GMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSP  157 (247)
Q Consensus       114 ~~~~v~I~-G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~  157 (247)
                      +.++|+|+ +-||+||||+|..++..+...+  ..+..+++....
T Consensus         5 ~~~vI~v~s~kGGvGKTt~a~~LA~~la~~g--~~VlliD~D~~~   47 (257)
T 1wcv_1            5 KVRRIALANQKGGVGKTTTAINLAAYLARLG--KRVLLVDLDPQG   47 (257)
T ss_dssp             CCCEEEECCSSCCHHHHHHHHHHHHHHHHTT--CCEEEEECCTTC
T ss_pred             CCEEEEEEeCCCCchHHHHHHHHHHHHHHCC--CCEEEEECCCCc
Confidence            45778886 7899999999999999887542  346777776553

>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=95.24  E-value=0.011  Score=50.03  Aligned_cols=27  Identities=22%  Similarity=0.277  Sum_probs=23.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ...++|+|+.|+|||||++.++..+..
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl~~~  196 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAVFNT  196 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHTTC
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHHhCC
Confidence            468899999999999999999987654

>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=95.24  E-value=0.011  Score=50.31  Aligned_cols=26  Identities=23%  Similarity=0.244  Sum_probs=22.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      -.+++|.|+.|+|||||.+.++.-..
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaGl~~   54 (372)
T 1g29_1           29 GEFMILLGPSGCGKTTTLRMIAGLEE   54 (372)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTSSC
T ss_pred             CCEEEEECCCCcHHHHHHHHHHcCCC
Confidence            36899999999999999999987543

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=95.23  E-value=0.019  Score=47.30  Aligned_cols=35  Identities=20%  Similarity=0.456  Sum_probs=27.2

Q ss_pred             HHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          103 LNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       103 ~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ++++..++..   .+++|.|++|+|||||.+.+.....
T Consensus       160 v~~lf~~l~g---eiv~l~G~sG~GKSTll~~l~g~~~  194 (301)
T 1u0l_A          160 IEELKEYLKG---KISTMAGLSGVGKSSLLNAINPGLK  194 (301)
T ss_dssp             HHHHHHHHSS---SEEEEECSTTSSHHHHHHHHSTTCC
T ss_pred             HHHHHHHhcC---CeEEEECCCCCcHHHHHHHhccccc
Confidence            4556665543   5889999999999999999986544

>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=95.22  E-value=0.0084  Score=44.66  Aligned_cols=24  Identities=25%  Similarity=0.235  Sum_probs=21.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      .--|+++|.+|+|||||+..+...
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            346889999999999999999875

>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=95.22  E-value=0.012  Score=44.08  Aligned_cols=24  Identities=25%  Similarity=0.457  Sum_probs=21.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      --|+|+|.+|+|||||+..+....
T Consensus         5 ~ki~v~G~~~~GKSsli~~l~~~~   28 (189)
T 4dsu_A            5 YKLVVVGADGVGKSALTIQLIQNH   28 (189)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCC
Confidence            458899999999999999998754

>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=95.21  E-value=0.012  Score=43.63  Aligned_cols=23  Identities=26%  Similarity=0.203  Sum_probs=20.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      ..|+|+|.+|+|||||+..+...
T Consensus        15 ~~i~v~G~~~~GKssli~~l~~~   37 (179)
T 2y8e_A           15 FKLVFLGEQSVGKTSLITRFMYD   37 (179)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            46889999999999999999865

>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=95.21  E-value=0.011  Score=50.22  Aligned_cols=25  Identities=28%  Similarity=0.270  Sum_probs=22.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      -.+++|.|+.|+|||||.+.++.-.
T Consensus        37 Ge~~~llGpnGsGKSTLLr~iaGl~   61 (372)
T 1v43_A           37 GEFLVLLGPSGCGKTTTLRMIAGLE   61 (372)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCChHHHHHHHHHcCC
Confidence            4789999999999999999998654

>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=95.21  E-value=0.012  Score=43.93  Aligned_cols=25  Identities=32%  Similarity=0.476  Sum_probs=21.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      .-.|+|+|.+|+|||||+..+....
T Consensus        18 ~~ki~v~G~~~~GKSsl~~~l~~~~   42 (183)
T 3kkq_A           18 TYKLVVVGDGGVGKSALTIQFFQKI   42 (183)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCC
Confidence            4568899999999999999998753

>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=95.20  E-value=0.012  Score=44.46  Aligned_cols=25  Identities=28%  Similarity=0.425  Sum_probs=21.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ..-|+|+|.+|+|||||+..+....
T Consensus        25 ~~ki~v~G~~~~GKSsLi~~l~~~~   49 (193)
T 2oil_A           25 VFKVVLIGESGVGKTNLLSRFTRNE   49 (193)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcCC
Confidence            3568899999999999999998753

>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=95.19  E-value=0.013  Score=43.86  Aligned_cols=23  Identities=26%  Similarity=0.287  Sum_probs=20.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      --|+|+|.+|+|||||+..+...
T Consensus         6 ~~i~~~G~~~~GKssl~~~l~~~   28 (186)
T 1mh1_A            6 IKCVVVGDGAVGKTCLLISYTTN   28 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            45889999999999999999865

>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=95.19  E-value=0.013  Score=44.36  Aligned_cols=24  Identities=29%  Similarity=0.223  Sum_probs=21.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      --|+|+|.+|+|||||+..+....
T Consensus        24 ~ki~v~G~~~~GKSsli~~l~~~~   47 (191)
T 3dz8_A           24 FKLLIIGNSSVGKTSFLFRYADDT   47 (191)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             eEEEEECCCCcCHHHHHHHHhcCC
Confidence            568899999999999999998764

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=95.18  E-value=0.013  Score=44.16  Aligned_cols=25  Identities=16%  Similarity=0.300  Sum_probs=21.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ...|+|+|.+|+|||||+..+....
T Consensus        23 ~~~i~v~G~~~~GKSsli~~l~~~~   47 (195)
T 3pqc_A           23 KGEVAFVGRSNVGKSSLLNALFNRK   47 (195)
T ss_dssp             TCEEEEEEBTTSSHHHHHHHHHTSC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCc
Confidence            4578899999999999999998763

>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=95.18  E-value=0.012  Score=44.03  Aligned_cols=25  Identities=24%  Similarity=0.341  Sum_probs=21.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ..-|+|.|.+|+|||||+..+....
T Consensus        10 ~~ki~v~G~~~~GKSsli~~l~~~~   34 (186)
T 2bme_A           10 LFKFLVIGNAGTGKSCLLHQFIEKK   34 (186)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCC
Confidence            3568899999999999999998753

>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=95.17  E-value=0.011  Score=49.14  Aligned_cols=26  Identities=27%  Similarity=0.404  Sum_probs=22.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      +..+++|.|+.|+|||||.+.+....
T Consensus         3 ~i~v~~i~G~~GaGKTTll~~l~~~~   28 (318)
T 1nij_A            3 PIAVTLLTGFLGAGKTTLLRHILNEQ   28 (318)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHSC
T ss_pred             cccEEEEEecCCCCHHHHHHHHHhhc
Confidence            35789999999999999999998764

>3bfv_A CAPA1, CAPB2, membrane protein CAPA1, protein tyrosine kinase; chimerical protein, P-loop protein, capsule biogenesis/degradation; HET: ADP; 1.80A {Staphylococcus aureus} PDB: 2ved_A*

Probab=95.16  E-value=0.051  Score=43.97  Aligned_cols=53  Identities=11%  Similarity=0.122  Sum_probs=36.8

Q ss_pred             HHHHHHHHHhc----CCCccEEEEEcC-CCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC
Q 037337          101 STLNDILGALR----NPDISMLGICGM-GGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQ  155 (247)
Q Consensus       101 ~~~~~L~~~L~----~~~~~~v~I~G~-~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~  155 (247)
                      +.+..|...|.    +.+.++|.|+|. ||+||||+|..++..+...  -..++.|++..
T Consensus        64 Ea~r~lrt~l~~~~~~~~~kvI~vts~kgG~GKTt~a~nLA~~lA~~--G~rVLLID~D~  121 (271)
T 3bfv_A           64 EKFRGIRSNIMFANPDSAVQSIVITSEAPGAGKSTIAANLAVAYAQA--GYKTLIVDGDM  121 (271)
T ss_dssp             HHHHHHHHHHHHSSTTCCCCEEEEECSSTTSSHHHHHHHHHHHHHHT--TCCEEEEECCS
T ss_pred             HHHHHHHHHHHhhccCCCCeEEEEECCCCCCcHHHHHHHHHHHHHhC--CCeEEEEeCCC
Confidence            44455544332    345688999875 8999999999999988754  23467777763

>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=95.16  E-value=0.033  Score=49.00  Aligned_cols=91  Identities=13%  Similarity=0.167  Sum_probs=52.9

Q ss_pred             ccEEEEEcCCCCcHHHHH-HHHHHHhcc----cCCCC-EEEEEEeCCCC-CHHHHHHHHHHHhCC-------CCCCCChH
Q 037337          115 ISMLGICGMGGIGKTMLE-KEVARKAKN----HKLFD-LVVFSEMSQSP-DIRKVQGEIADKLGL-------TFREESES  180 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa-~~~~~~~~~----~~~f~-~~~wv~~~~~~-~~~~l~~~i~~~l~~-------~~~~~~~~  180 (247)
                      -..++|.|.+|+|||+|| ..+++....    .++.+ ..+|+-++... .+.++...+...=..       ...+.+..
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            356789999999999995 466665542    11233 46788887664 345555555442111       11112221


Q ss_pred             H------HHHHHHHHHc-CCCcEEEEEeCCCC
Q 037337          181 G------RARSLFSRLN-REKRILVILDNIWE  205 (247)
Q Consensus       181 ~------~~~~l~~~l~-~~kr~LlvlDdv~~  205 (247)
                      .      ..-.+.+++. .++.+||++||+..
T Consensus       242 ~r~~a~~~a~tiAEyfrd~G~dVLli~Dsltr  273 (510)
T 2ck3_A          242 LQYLAPYSGCSMGEYFRDNGKHALIIYDDLSK  273 (510)
T ss_dssp             HHHHHHHHHHHHHHHHHTTTCEEEEEEETHHH
T ss_pred             HHHHHHHHHHHHHHHHHHcCCcEEEEEcCHHH
Confidence            1      1224555553 35789999999854

>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=95.16  E-value=0.011  Score=44.34  Aligned_cols=22  Identities=23%  Similarity=0.348  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037337          117 MLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      .|+|.|.+|+|||||...+...
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            4789999999999999999865

>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=95.16  E-value=0.013  Score=43.76  Aligned_cols=25  Identities=24%  Similarity=0.464  Sum_probs=21.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ...|+|+|.+|+|||||+..+....
T Consensus        18 ~~ki~v~G~~~~GKSsli~~l~~~~   42 (187)
T 2a9k_A           18 LHKVIMVGSGGVGKSALTLQFMYDE   42 (187)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHhhCC
Confidence            4568899999999999999998753

>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=95.16  E-value=0.013  Score=43.63  Aligned_cols=24  Identities=25%  Similarity=0.238  Sum_probs=20.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      .--|+|+|.+|+|||||...+...
T Consensus         8 ~~ki~v~G~~~~GKssl~~~~~~~   31 (182)
T 3bwd_D            8 FIKCVTVGDGAVGKTCLLISYTSN   31 (182)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            456889999999999999999864

>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=95.16  E-value=0.013  Score=44.21  Aligned_cols=24  Identities=29%  Similarity=0.066  Sum_probs=19.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      .--|+|+|.+|+|||||++.+...
T Consensus        14 ~~ki~vvG~~~~GKssL~~~l~~~   37 (198)
T 3t1o_A           14 NFKIVYYGPGLSGKTTNLKWIYSK   37 (198)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHT
T ss_pred             ccEEEEECCCCCCHHHHHHHHHhh
Confidence            356889999999999999766654

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=95.15  E-value=0.039  Score=42.71  Aligned_cols=43  Identities=12%  Similarity=0.098  Sum_probs=32.7

Q ss_pred             EEEE-EcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHH
Q 037337          117 MLGI-CGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKV  162 (247)
Q Consensus       117 ~v~I-~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l  162 (247)
                      +|+| .+-||+||||+|..++..+...  - .+..+++....+....
T Consensus         2 vI~v~s~KGGvGKTT~a~~LA~~la~~--g-~VlliD~D~q~~~~~~   45 (209)
T 3cwq_A            2 IITVASFKGGVGKTTTAVHLSAYLALQ--G-ETLLIDGDPNRSATGW   45 (209)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHTT--S-CEEEEEECTTCHHHHH
T ss_pred             EEEEEcCCCCCcHHHHHHHHHHHHHhc--C-CEEEEECCCCCCHHHH
Confidence            4455 5889999999999999998765  2 6778888877655443

>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=95.15  E-value=0.012  Score=49.83  Aligned_cols=27  Identities=26%  Similarity=0.394  Sum_probs=22.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .-.+++|.|+.|+|||||.+.++.-..
T Consensus        53 ~Gei~~IiGpnGaGKSTLlr~i~GL~~   79 (366)
T 3tui_C           53 AGQIYGVIGASGAGKSTLIRCVNLLER   79 (366)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             CCCEEEEEcCCCchHHHHHHHHhcCCC
Confidence            347899999999999999999976543

>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=95.14  E-value=0.013  Score=43.58  Aligned_cols=23  Identities=26%  Similarity=0.313  Sum_probs=20.7

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      .-|+|+|.+|+|||||+..+...
T Consensus        13 ~ki~v~G~~~~GKSsli~~l~~~   35 (181)
T 2efe_B           13 AKLVLLGDVGAGKSSLVLRFVKD   35 (181)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            46889999999999999999875

>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=95.13  E-value=0.014  Score=43.79  Aligned_cols=27  Identities=22%  Similarity=0.226  Sum_probs=22.5

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          113 PDISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       113 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      .+...|+|.|.+|+|||||...+....
T Consensus        16 ~~~~~i~v~G~~~~GKssl~~~l~~~~   42 (186)
T 1ksh_A           16 ERELRLLMLGLDNAGKTTILKKFNGED   42 (186)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHTTCC
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHhcCC
Confidence            445678999999999999999998654

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=95.13  E-value=0.017  Score=43.63  Aligned_cols=25  Identities=12%  Similarity=0.207  Sum_probs=21.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      .-.|+|+|.+|+|||||+..+....
T Consensus         7 ~~ki~v~G~~~~GKSsli~~l~~~~   31 (208)
T 3clv_A            7 SYKTVLLGESSVGKSSIVLRLTKDT   31 (208)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCc
Confidence            4568899999999999999998863

>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=95.13  E-value=0.028  Score=44.37  Aligned_cols=106  Identities=11%  Similarity=-0.029  Sum_probs=56.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCC-CCHHHHHHHHHHHhCCCCCC---CChHHHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQS-PDIRKVQGEIADKLGLTFRE---ESESGRARSLFSRL  190 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~-~~~~~l~~~i~~~l~~~~~~---~~~~~~~~~l~~~l  190 (247)
                      ..+..++|.-|.||||-+...+++....+ ....++-..... .. .    .+...++.....   .+..+    +.+.+
T Consensus        19 g~l~v~~G~MgsGKTT~lL~~~~r~~~~g-~kvli~kp~~D~Ryg-~----~i~sr~G~~~~a~~i~~~~d----i~~~~   88 (234)
T 2orv_A           19 GQIQVILGPMFSGKSTELMRRVRRFQIAQ-YKCLVIKYAKDTRYS-S----SFCTHDRNTMEALPACLLRD----VAQEA   88 (234)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHHHTTT-CCEEEEEETTCCCC----------------CEEEEESSGGG----GHHHH
T ss_pred             eEEEEEECCCCCcHHHHHHHHHHHHHHCC-CeEEEEeecCCccch-H----HHHhhcCCeeEEEecCCHHH----HHHHh
Confidence            36888999999999998888888877653 334443322222 22 2    344444433221   11222    33333


Q ss_pred             cCCCcEEEEEeCCCCccchhhhcccCCCCCCCeEEEEeeCchhh
Q 037337          191 NREKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTARSLDV  234 (247)
Q Consensus       191 ~~~kr~LlvlDdv~~~~~~~~l~~~~~~~~~~s~iiiTtR~~~v  234 (247)
                       . +--+|++|++.-.....++...+..  .|..||+|.++.+.
T Consensus        89 -~-~~dvViIDEaQF~~~v~el~~~l~~--~gi~VI~~GL~~DF  128 (234)
T 2orv_A           89 -L-GVAVIGIDEGQFFPDIVEFCEAMAN--AGKTVIVAALDGTF  128 (234)
T ss_dssp             -T-TCSEEEESSGGGCTTHHHHHHHHHH--TTCEEEEECCSBCT
T ss_pred             -c-cCCEEEEEchhhhhhHHHHHHHHHh--CCCEEEEEeccccc
Confidence             2 2248999998755434444333322  57899999998554

>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=95.12  E-value=0.013  Score=43.68  Aligned_cols=25  Identities=20%  Similarity=0.321  Sum_probs=21.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ...|+|+|.+|+|||||+..+....
T Consensus         6 ~~ki~~~G~~~~GKSsli~~l~~~~   30 (181)
T 3t5g_A            6 SRKIAILGYRSVGKSSLTIQFVEGQ   30 (181)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSS
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcCC
Confidence            4578899999999999999998643

>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=95.10  E-value=0.014  Score=43.40  Aligned_cols=25  Identities=28%  Similarity=0.292  Sum_probs=21.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ..-|+|+|.+|+|||||+..+....
T Consensus        10 ~~~i~v~G~~~~GKssli~~l~~~~   34 (180)
T 2g6b_A           10 AFKVMLVGDSGVGKTCLLVRFKDGA   34 (180)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhCC
Confidence            3568899999999999999998754

>3la6_A Tyrosine-protein kinase WZC; P-loop protein, nucleotide binding domain, walker A motif, B protein kinase, oligomerization; HET: ADP; 3.20A {Escherichia coli}

Probab=95.10  E-value=0.09  Score=42.90  Aligned_cols=54  Identities=15%  Similarity=0.195  Sum_probs=37.2

Q ss_pred             HHHHHHHHHh----cCCCccEEEEEc-CCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCC
Q 037337          101 STLNDILGAL----RNPDISMLGICG-MGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQS  156 (247)
Q Consensus       101 ~~~~~L~~~L----~~~~~~~v~I~G-~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~  156 (247)
                      +.+..|...|    .+.+.++|.|+| .||+||||+|..++..+...  -..++.|++...
T Consensus        74 Ea~r~lrt~l~~~~~~~~~kvI~vts~kgG~GKTtva~nLA~~lA~~--G~rVLLID~D~~  132 (286)
T 3la6_A           74 EAIRSLRTSLHFAMMQAQNNVLMMTGVSPSIGMTFVCANLAAVISQT--NKRVLLIDCDMR  132 (286)
T ss_dssp             HHHHHHHHHHHHHSTTTTCCEEEEEESSSSSSHHHHHHHHHHHHHTT--TCCEEEEECCTT
T ss_pred             HHHHHHHHHHhhhccCCCCeEEEEECCCCCCcHHHHHHHHHHHHHhC--CCCEEEEeccCC
Confidence            4444444433    234567888876 58999999999999988754  235777877654

>3cio_A ETK, tyrosine-protein kinase ETK; WZC, escherichia coli tyrosine kinase domain, signaling protein, transferase, inner membrane, membrane; 2.50A {Escherichia coli}

Probab=95.09  E-value=0.079  Score=43.52  Aligned_cols=42  Identities=21%  Similarity=0.268  Sum_probs=32.6

Q ss_pred             CCCccEEEEEcC-CCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC
Q 037337          112 NPDISMLGICGM-GGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQ  155 (247)
Q Consensus       112 ~~~~~~v~I~G~-~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~  155 (247)
                      +.+.++|.|+|. ||+||||+|..++..+...  -..++.|++..
T Consensus       101 ~~~~kvI~vts~kgG~GKTtva~nLA~~lA~~--G~rVLLID~D~  143 (299)
T 3cio_A          101 ETENNILMITGATPDSGKTFVSSTLAAVIAQS--DQKVLFIDADL  143 (299)
T ss_dssp             SCSCCEEEEEESSSSSCHHHHHHHHHHHHHHT--TCCEEEEECCT
T ss_pred             CCCCeEEEEECCCCCCChHHHHHHHHHHHHhC--CCcEEEEECCC
Confidence            345688999886 8999999999999988754  23477777765

>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=95.07  E-value=0.0077  Score=49.83  Aligned_cols=27  Identities=22%  Similarity=0.272  Sum_probs=22.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .-.+++|+|+.|+|||||++.++.-+.
T Consensus        79 ~Ge~vaivG~sGsGKSTLl~ll~gl~~  105 (306)
T 3nh6_A           79 PGQTLALVGPSGAGKSTILRLLFRFYD  105 (306)
T ss_dssp             TTCEEEEESSSCHHHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCchHHHHHHHHHcCCC
Confidence            347899999999999999999976543

>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=95.07  E-value=0.014  Score=43.89  Aligned_cols=24  Identities=21%  Similarity=0.331  Sum_probs=21.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      .+.+|+|+.|+|||||+..++.-+
T Consensus        27 g~~~i~G~NGsGKStll~ai~~~l   50 (182)
T 3kta_A           27 GFTAIVGANGSGKSNIGDAILFVL   50 (182)
T ss_dssp             SEEEEEECTTSSHHHHHHHHHHHT
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHH
Confidence            488999999999999999997643

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=95.06  E-value=0.0094  Score=50.24  Aligned_cols=26  Identities=27%  Similarity=0.220  Sum_probs=22.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      -.+++|.|+.|+|||||.+.++.-..
T Consensus        26 Ge~~~llGpnGsGKSTLLr~iaGl~~   51 (348)
T 3d31_A           26 GEYFVILGPTGAGKTLFLELIAGFHV   51 (348)
T ss_dssp             TCEEEEECCCTHHHHHHHHHHHTSSC
T ss_pred             CCEEEEECCCCccHHHHHHHHHcCCC
Confidence            36899999999999999999987543

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=95.06  E-value=0.013  Score=43.59  Aligned_cols=24  Identities=33%  Similarity=0.379  Sum_probs=20.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      ..-|+|+|.+|+|||||+..+...
T Consensus         9 ~~~i~v~G~~~~GKssl~~~l~~~   32 (181)
T 3tw8_B            9 LFKLLIIGDSGVGKSSLLLRFADN   32 (181)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHCSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcC
Confidence            456889999999999999998754

>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=95.06  E-value=0.014  Score=44.46  Aligned_cols=25  Identities=24%  Similarity=0.464  Sum_probs=21.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ..-|+|+|.+|+|||||+..+....
T Consensus        14 ~~ki~v~G~~~~GKSsli~~l~~~~   38 (206)
T 2bov_A           14 LHKVIMVGSGGVGKSALTLQFMYDE   38 (206)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhCC
Confidence            4578899999999999999998653

>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=95.05  E-value=0.014  Score=44.55  Aligned_cols=25  Identities=32%  Similarity=0.405  Sum_probs=21.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ...|+|+|.+|+|||||+..+....
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~~   32 (207)
T 1vg8_A            8 LLKVIILGDSGVGKTSLMNQYVNKK   32 (207)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcCC
Confidence            4568999999999999999998754

>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=95.05  E-value=0.01  Score=45.33  Aligned_cols=22  Identities=27%  Similarity=0.451  Sum_probs=19.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVA  136 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~  136 (247)
                      ...|+|+|.+|+|||||+..+.
T Consensus        23 ~~ki~vvG~~~vGKSsLi~~l~   44 (195)
T 3cbq_A           23 IFKVMLVGESGVGKSTLAGTFG   44 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHTC
T ss_pred             EEEEEEECCCCCCHHHHHHHHH
Confidence            4578999999999999999985

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=95.04  E-value=0.015  Score=43.84  Aligned_cols=23  Identities=26%  Similarity=0.296  Sum_probs=21.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      ..+.|.|.+|+||||||..+..+
T Consensus        17 ~gvli~G~SGaGKStlal~L~~r   39 (181)
T 3tqf_A           17 MGVLITGEANIGKSELSLALIDR   39 (181)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHHT
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHc
Confidence            57889999999999999999874

>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=95.04  E-value=0.014  Score=44.91  Aligned_cols=25  Identities=20%  Similarity=0.193  Sum_probs=21.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ...|+|+|.+|+|||||...+....
T Consensus         7 ~~ki~vvG~~~~GKTsli~~l~~~~   31 (214)
T 2fh5_B            7 QRAVLFVGLCDSGKTLLFVRLLTGQ   31 (214)
T ss_dssp             -CEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4678899999999999999998754

>2bbs_A Cystic fibrosis transmembrane conductance regulator; ATP binding cassette, transport protein; HET: ATP; 2.05A {Homo sapiens} PDB: 2bbt_A* 1xmi_A* 1xmj_A* 2bbo_A* 3si7_A* 1r0w_A 1q3h_A 1r0x_A* 1r0y_A* 1r0z_A* 1r10_A* 1xf9_A* 1xfa_A*

Probab=95.04  E-value=0.013  Score=48.12  Aligned_cols=26  Identities=27%  Similarity=0.358  Sum_probs=22.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ..+++|.|+.|+|||||.+.++.-..
T Consensus        64 Ge~~~i~G~NGsGKSTLlk~l~Gl~~   89 (290)
T 2bbs_A           64 GQLLAVAGSTGAGKTSLLMMIMGELE   89 (290)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcCCC
Confidence            46899999999999999999987654

>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=95.03  E-value=0.014  Score=45.00  Aligned_cols=25  Identities=24%  Similarity=0.252  Sum_probs=21.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ..-|+|+|.+|+|||||+..+....
T Consensus        28 ~~ki~vvG~~~vGKSsLi~~l~~~~   52 (205)
T 1gwn_A           28 KCKIVVVGDSQCGKTALLHVFAKDC   52 (205)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcCC
Confidence            4568899999999999999998753

>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=95.03  E-value=0.11  Score=45.70  Aligned_cols=87  Identities=18%  Similarity=0.229  Sum_probs=51.2

Q ss_pred             ccEEEEEcCCCCcHHHHH-HHHHHHhcccCCCC-EEEEEEeCCCC-CHHHHHHHHHHHhCCC-------CCCCChHH---
Q 037337          115 ISMLGICGMGGIGKTMLE-KEVARKAKNHKLFD-LVVFSEMSQSP-DIRKVQGEIADKLGLT-------FREESESG---  181 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa-~~~~~~~~~~~~f~-~~~wv~~~~~~-~~~~l~~~i~~~l~~~-------~~~~~~~~---  181 (247)
                      -..++|.|..|+|||+|+ ..+++. ..   .+ .++|+-+++.. .+.++...+...=...       ..+.+...   
T Consensus       162 GQR~~Ifg~~g~GKT~l~l~~I~n~-~~---~dv~~V~~~IGeR~~ev~e~~~~l~~~g~m~~tvvV~atad~p~~~r~~  237 (513)
T 3oaa_A          162 GQRELIIGDRQTGKTALAIDAIINQ-RD---SGIKCIYVAIGQKASTISNVVRKLEEHGALANTIVVVATASESAALQYL  237 (513)
T ss_dssp             TCBCEEEESSSSSHHHHHHHHHHTT-SS---SSCEEEEEEESCCHHHHHHHHHHHHHHSCSTTEEEEEECTTSCHHHHHH
T ss_pred             CCEEEeecCCCCCcchHHHHHHHhh-cc---CCceEEEEEecCChHHHHHHHHHHhhcCcccceEEEEECCCCChHHHHH
Confidence            356789999999999996 455553 22   23 35788888764 3556666654431111       11122211   


Q ss_pred             ---HHHHHHHHH-cCCCcEEEEEeCCCC
Q 037337          182 ---RARSLFSRL-NREKRILVILDNIWE  205 (247)
Q Consensus       182 ---~~~~l~~~l-~~~kr~LlvlDdv~~  205 (247)
                         ..-.+.+++ ..++.+||++||+..
T Consensus       238 a~~~a~tiAEyfrd~G~dVLli~Dsltr  265 (513)
T 3oaa_A          238 APYAGCAMGEYFRDRGEDALIIYDDLSK  265 (513)
T ss_dssp             HHHHHHHHHHHHHHTTCEEEEEEETHHH
T ss_pred             HHHHHHHHHHHHHhcCCCEEEEecChHH
Confidence               122344555 245789999999864

>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=95.02  E-value=0.015  Score=43.90  Aligned_cols=25  Identities=24%  Similarity=0.227  Sum_probs=21.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ..-|+|+|.+|+|||||...+....
T Consensus        22 ~~ki~v~G~~~~GKSsli~~l~~~~   46 (188)
T 1zd9_A           22 EMELTLVGLQYSGKTTFVNVIASGQ   46 (188)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ccEEEEECCCCCCHHHHHHHHHcCC
Confidence            3568899999999999999998753

>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=95.02  E-value=0.013  Score=50.08  Aligned_cols=26  Identities=27%  Similarity=0.308  Sum_probs=22.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      .-.+++|.|+.|+|||||.+.++.-.
T Consensus        46 ~Ge~~~llGpsGsGKSTLLr~iaGl~   71 (390)
T 3gd7_A           46 PGQRVGLLGRTGSGKSTLLSAFLRLL   71 (390)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHTCS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhCCC
Confidence            34789999999999999999998643

>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=95.01  E-value=0.014  Score=44.81  Aligned_cols=25  Identities=24%  Similarity=0.413  Sum_probs=21.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ..-|+|+|.+|+|||||+..+....
T Consensus        26 ~~ki~lvG~~~vGKSsLi~~l~~~~   50 (201)
T 2ew1_A           26 LFKIVLIGNAGVGKTCLVRRFTQGL   50 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSS
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhCC
Confidence            3568899999999999999998753

>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=95.00  E-value=0.015  Score=44.02  Aligned_cols=25  Identities=24%  Similarity=0.340  Sum_probs=21.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      .--|+|+|.+|+|||||...+....
T Consensus        23 ~~ki~~vG~~~~GKSsl~~~l~~~~   47 (194)
T 3reg_A           23 ALKIVVVGDGAVGKTCLLLAFSKGE   47 (194)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eeEEEEECcCCCCHHHHHHHHhcCC
Confidence            4568899999999999999998764

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=95.00  E-value=0.015  Score=44.47  Aligned_cols=26  Identities=23%  Similarity=0.279  Sum_probs=22.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      +..-|+|+|.+|+|||||+..+....
T Consensus        23 ~~~ki~vvG~~~~GKSsli~~l~~~~   48 (201)
T 3oes_A           23 RYRKVVILGYRCVGKTSLAHQFVEGE   48 (201)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             CcEEEEEECCCCcCHHHHHHHHHhCC
Confidence            34678999999999999999998754

>1x6v_B Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthethase 1; transferase, ATP sulfurylase, APS kinase, PAPS; HET: ADP; 1.75A {Homo sapiens} SCOP: b.122.1.3 c.26.1.5 c.37.1.4 PDB: 1xjq_B* 1xnj_B* 2qjf_A* 2ofx_A* 2ofw_A*

Probab=94.99  E-value=0.017  Score=52.41  Aligned_cols=28  Identities=18%  Similarity=0.217  Sum_probs=24.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ...+|.+.|++|+||||+|+.+...+..
T Consensus        51 ~g~lIvLtGlsGSGKSTlAr~La~~L~~   78 (630)
T 1x6v_B           51 RGCTVWLTGLSGAGKTTVSMALEEYLVC   78 (630)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHHHh
Confidence            4578999999999999999999998743

>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=94.99  E-value=0.015  Score=44.11  Aligned_cols=25  Identities=16%  Similarity=0.227  Sum_probs=21.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      .--|+|+|.+|+|||||+..+....
T Consensus        23 ~~ki~vvG~~~~GKSsli~~l~~~~   47 (192)
T 2fg5_A           23 ELKVCLLGDTGVGKSSIVCRFVQDH   47 (192)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHCC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcCC
Confidence            3568899999999999999998754

>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=94.98  E-value=0.016  Score=43.75  Aligned_cols=24  Identities=25%  Similarity=0.213  Sum_probs=21.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      .-|+|+|.+|+|||||+..+....
T Consensus        23 ~ki~vvG~~~~GKSsli~~l~~~~   46 (189)
T 2gf9_A           23 FKLLLIGNSSVGKTSFLFRYADDS   46 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            568899999999999999998754

>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=94.97  E-value=0.016  Score=43.85  Aligned_cols=24  Identities=29%  Similarity=0.288  Sum_probs=20.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      --|+|+|.+|+|||||+..+....
T Consensus        22 ~ki~v~G~~~~GKSsli~~l~~~~   45 (191)
T 2a5j_A           22 FKYIIIGDTGVGKSCLLLQFTDKR   45 (191)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCC
Confidence            468899999999999999998653

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=94.94  E-value=0.016  Score=43.75  Aligned_cols=25  Identities=28%  Similarity=0.359  Sum_probs=21.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ...|+|+|.+|+|||||+..+....
T Consensus        16 ~~ki~v~G~~~~GKSsli~~l~~~~   40 (196)
T 3tkl_A           16 LFKLLLIGDSGVGKSCLLLRFADDT   40 (196)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcCC
Confidence            3568999999999999999998754

>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=94.92  E-value=0.0098  Score=45.70  Aligned_cols=26  Identities=12%  Similarity=0.137  Sum_probs=21.8

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          113 PDISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       113 ~~~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      .....++|+|.+|+|||||.+.+...
T Consensus        24 ~~~~~v~lvG~~g~GKSTLl~~l~g~   49 (210)
T 1pui_A           24 DTGIEVAFAGRSNAGKSSALNTLTNQ   49 (210)
T ss_dssp             SCSEEEEEEECTTSSHHHHHTTTCCC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            34467999999999999999988654

>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=94.92  E-value=0.017  Score=43.62  Aligned_cols=25  Identities=24%  Similarity=0.262  Sum_probs=21.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ..-|+|+|.+|+|||||...+....
T Consensus        20 ~~ki~v~G~~~~GKSsli~~l~~~~   44 (189)
T 1z06_A           20 IFKIIVIGDSNVGKTCLTYRFCAGR   44 (189)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHcCC
Confidence            4578999999999999999998653

>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=94.91  E-value=0.016  Score=45.26  Aligned_cols=22  Identities=27%  Similarity=0.255  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037337          117 MLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      -|+|+|.+|+|||+|+..+.+.
T Consensus        15 KivlvGd~~VGKTsLi~r~~~~   36 (216)
T 4dkx_A           15 KLVFLGEQSVGKTSLITRFMYD   36 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCcCHHHHHHHHHhC
Confidence            4789999999999999999764

>3ez2_A Plasmid partition protein A; type IA, DNA binding, winged-HTH, DNA bindin; HET: ADP EPE; 2.05A {Escherichia coli} PDB: 3ez6_A* 3ez7_A

Probab=94.91  E-value=0.079  Score=45.25  Aligned_cols=46  Identities=15%  Similarity=0.178  Sum_probs=32.5

Q ss_pred             CccEEEEE-cCCCCcHHHHHHHHHHHhccc----CCCCEEEEEEeCCCCCH
Q 037337          114 DISMLGIC-GMGGIGKTMLEKEVARKAKNH----KLFDLVVFSEMSQSPDI  159 (247)
Q Consensus       114 ~~~~v~I~-G~~GiGKTtLa~~~~~~~~~~----~~f~~~~wv~~~~~~~~  159 (247)
                      ..++|+|+ |-||+||||+|..++..+...    ..-..+..+++....+.
T Consensus       107 ~~~vIav~s~KGGvGKTT~a~nLA~~La~~~~~~~~g~rVlliD~D~q~~l  157 (398)
T 3ez2_A          107 EAYVIFISNLKGGVSKTVSTVSLAHAMRAHPHLLMEDLRILVIDLDPQSSA  157 (398)
T ss_dssp             SCEEEEECCSSSSSSHHHHHHHHHHHHHHCTTTGGGCCCEEEEEECTTCHH
T ss_pred             CCeEEEEEeCCCCccHHHHHHHHHHHHHhcchhhcCCCeEEEEeCCCCCCh
Confidence            35677776 899999999999999987631    00124777888765443

>2xj4_A MIPZ; replication, cell division, ATPase, WACA; 1.60A {Caulobacter vibrioides} PDB: 2xj9_A* 2xit_A

Probab=94.91  E-value=0.037  Score=45.02  Aligned_cols=46  Identities=11%  Similarity=0.143  Sum_probs=33.9

Q ss_pred             cEEEEE-cCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC-CCCHHHHH
Q 037337          116 SMLGIC-GMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQ-SPDIRKVQ  163 (247)
Q Consensus       116 ~~v~I~-G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~-~~~~~~l~  163 (247)
                      ++|+|+ +-||+||||+|..++..+...+  ..+..+++.. ..+....+
T Consensus         5 kvI~v~s~KGGvGKTT~a~nLA~~La~~G--~~VlliD~D~~q~~l~~~l   52 (286)
T 2xj4_A            5 RVIVVGNEKGGAGKSTIAVHLVTALLYGG--AKVAVIDLDLRQRTSARFF   52 (286)
T ss_dssp             EEEEECCSSSCTTHHHHHHHHHHHHHHTT--CCEEEEECCTTTCHHHHHH
T ss_pred             eEEEEEcCCCCCCHHHHHHHHHHHHHHCC--CcEEEEECCCCCCCHHHHh
Confidence            467775 7899999999999999887552  2467788877 65555443

>3igf_A ALL4481 protein; two-domained protein consisting of the N-terminal alpha-beta the C-terminal all beta domain., structural genomics; 2.00A {Nostoc SP}

Probab=94.91  E-value=0.018  Score=48.92  Aligned_cols=40  Identities=18%  Similarity=0.326  Sum_probs=30.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCC
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPD  158 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~  158 (247)
                      +++.+.|.||+||||+|..++......+  ..+..+++ ...+
T Consensus         3 ~i~~~~gkGG~GKTt~a~~la~~la~~g--~~vllvd~-~~~~   42 (374)
T 3igf_A            3 LILTFLGKSGVARTKIAIAAAKLLASQG--KRVLLAGL-AEPV   42 (374)
T ss_dssp             EEEEEECSBHHHHHHHHHHHHHHHHHTT--CCEEEEEC-SCSH
T ss_pred             EEEEEeCCCCCcHHHHHHHHHHHHHHCC--CCeEEEeC-CCCC
Confidence            5778899999999999999998876542  24666776 4443

>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=94.90  E-value=0.016  Score=43.89  Aligned_cols=24  Identities=25%  Similarity=0.386  Sum_probs=21.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      ..-|+|+|.+|+|||||...+...
T Consensus         8 ~~ki~vvG~~~~GKSsli~~l~~~   31 (199)
T 2gf0_A            8 DYRVVVFGAGGVGKSSLVLRFVKG   31 (199)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCcHHHHHHHHHcC
Confidence            456889999999999999999874

>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=94.88  E-value=0.016  Score=45.16  Aligned_cols=23  Identities=26%  Similarity=0.342  Sum_probs=20.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVAR  137 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~  137 (247)
                      ..-|+|+|.+|+|||||...+..
T Consensus        37 ~~kVvlvG~~~vGKSSLl~r~~~   59 (211)
T 2g3y_A           37 YYRVVLIGEQGVGKSTLANIFAG   59 (211)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHh
Confidence            35689999999999999999874

>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=94.88  E-value=0.017  Score=43.49  Aligned_cols=24  Identities=25%  Similarity=0.327  Sum_probs=21.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ..|+|+|.+|+|||||+..+....
T Consensus        16 ~~i~v~G~~~~GKssli~~l~~~~   39 (195)
T 1x3s_A           16 LKILIIGESGVGKSSLLLRFTDDT   39 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            568899999999999999998753

>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=94.86  E-value=0.017  Score=43.97  Aligned_cols=25  Identities=12%  Similarity=0.279  Sum_probs=21.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      ...-|+|+|.+|+|||||+..+...
T Consensus        27 ~~~ki~v~G~~~~GKSsli~~l~~~   51 (199)
T 2p5s_A           27 KAYKIVLAGDAAVGKSSFLMRLCKN   51 (199)
T ss_dssp             -CEEEEEESSTTSSHHHHHHHHHHC
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHhC
Confidence            3467899999999999999999764

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=94.85  E-value=0.0089  Score=50.48  Aligned_cols=25  Identities=32%  Similarity=0.392  Sum_probs=22.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      -.+++|.|+.|+|||||.+.++.-.
T Consensus        31 Ge~~~llGpnGsGKSTLLr~iaGl~   55 (353)
T 1oxx_K           31 GERFGILGPSGAGKTTFMRIIAGLD   55 (353)
T ss_dssp             TCEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCC
Confidence            4689999999999999999998654

>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=94.82  E-value=0.017  Score=44.14  Aligned_cols=25  Identities=24%  Similarity=0.352  Sum_probs=21.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ..-|+|+|.+|+|||||+..+....
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~~   32 (206)
T 2bcg_Y            8 LFKLLLIGNSGVGKSCLLLRFSDDT   32 (206)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHCC
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCC
Confidence            3568899999999999999998753

>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=94.81  E-value=0.017  Score=44.05  Aligned_cols=24  Identities=25%  Similarity=0.213  Sum_probs=20.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      .-|+|+|.+|+|||||+..+....
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~~   32 (203)
T 1zbd_A            9 FKILIIGNSSVGKTSFLFRYADDS   32 (203)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTCC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCC
Confidence            468899999999999999998653

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=94.81  E-value=0.031  Score=47.24  Aligned_cols=25  Identities=20%  Similarity=0.307  Sum_probs=22.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .+++|.|++|+|||||++.+.....
T Consensus       216 ~~~~lvG~sG~GKSTLln~L~g~~~  240 (358)
T 2rcn_A          216 RISIFAGQSGVGKSSLLNALLGLQN  240 (358)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHCCSS
T ss_pred             CEEEEECCCCccHHHHHHHHhcccc
Confidence            5889999999999999999986544

>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=94.81  E-value=0.02  Score=49.38  Aligned_cols=24  Identities=17%  Similarity=0.279  Sum_probs=21.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      ..+++|.|+.|+|||||.+.++..
T Consensus        69 ~~~valvG~nGaGKSTLln~L~Gl   92 (413)
T 1tq4_A           69 VLNVAVTGETGSGKSSFINTLRGI   92 (413)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHTC
T ss_pred             CeEEEEECCCCCcHHHHHHHHhCC
Confidence            458999999999999999999873

>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=94.79  E-value=0.014  Score=48.12  Aligned_cols=22  Identities=27%  Similarity=0.379  Sum_probs=19.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVAR  137 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~  137 (247)
                      --|+|+|++|+|||||.+.++.
T Consensus        19 ~~I~lvG~nG~GKSTLl~~L~g   40 (301)
T 2qnr_A           19 FTLMVVGESGLGKSTLINSLFL   40 (301)
T ss_dssp             EEEEEEEETTSSHHHHHHHHHC
T ss_pred             EEEEEECCCCCCHHHHHHHHhC
Confidence            3458999999999999999764

>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=94.78  E-value=0.098  Score=46.72  Aligned_cols=86  Identities=16%  Similarity=0.250  Sum_probs=51.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCC-CHHHHHHHHHH----HhCCC----------CCCCCh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSP-DIRKVQGEIAD----KLGLT----------FREESE  179 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~l~~~i~~----~l~~~----------~~~~~~  179 (247)
                      -..++|.|..|+|||+|+.++++...    -+.++|+-++... .+.+++..+-+    .++..          ..+.+.
T Consensus       232 Gqr~~Ifgg~g~GKT~L~~~ia~~~~----~~v~V~~~iGER~~Ev~e~~~~~~el~d~~~G~~~m~rtvvV~~tsd~p~  307 (600)
T 3vr4_A          232 GGAAAVPGPFGAGKTVVQHQIAKWSD----VDLVVYVGCGERGNEMTDVVNEFPELIDPNTGESLMERTVLIANTSNMPV  307 (600)
T ss_dssp             TCEEEEECCTTSCHHHHHHHHHHHSS----CSEEEEEEEEECHHHHHHHHHHTTTCBCTTTCSBGGGGEEEEEEETTSCH
T ss_pred             CCEEeeecCCCccHHHHHHHHHhccC----CCEEEEEEecccHHHHHHHHHHHHhhcccccccccccceEEEEECCCCCH
Confidence            46789999999999999999987633    3567888887663 33344433221    01110          011121


Q ss_pred             HH------HHHHHHHHHc-CCCcEEEEEeCCC
Q 037337          180 SG------RARSLFSRLN-REKRILVILDNIW  204 (247)
Q Consensus       180 ~~------~~~~l~~~l~-~~kr~LlvlDdv~  204 (247)
                      ..      ..-.+.+++. .++.+||++|++.
T Consensus       308 ~~R~~~~~~altiAEyfrd~G~dVLl~~Ds~t  339 (600)
T 3vr4_A          308 AAREASIYTGITIAEYFRDMGYDVAIMADSTS  339 (600)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTTCEEEEEEECHH
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCCEEEEecchH
Confidence            11      1234455553 3578999999985

>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=94.75  E-value=0.022  Score=44.17  Aligned_cols=25  Identities=24%  Similarity=0.230  Sum_probs=21.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      .--|+|+|.+|+|||||+..+....
T Consensus        27 ~~ki~vvG~~~vGKSsL~~~l~~~~   51 (214)
T 3q3j_B           27 RCKLVLVGDVQCGKTAMLQVLAKDC   51 (214)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcCC
Confidence            3568899999999999999998753

>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=94.70  E-value=0.02  Score=43.90  Aligned_cols=25  Identities=24%  Similarity=0.348  Sum_probs=21.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ..-|+|+|.+|+|||||+..+....
T Consensus        20 ~~~i~v~G~~~~GKSsli~~l~~~~   44 (213)
T 3cph_A           20 IMKILLIGDSGVGKSCLLVRFVEDK   44 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHCC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCC
Confidence            4578899999999999999998653

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=94.69  E-value=0.02  Score=44.07  Aligned_cols=25  Identities=20%  Similarity=0.165  Sum_probs=21.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      .--|+|+|.+|+|||||+..+....
T Consensus         9 ~~ki~i~G~~~~GKTsli~~l~~~~   33 (212)
T 2j0v_A            9 FIKCVTVGDGAVGKTCMLICYTSNK   33 (212)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCC
Confidence            4568899999999999999998653

>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=94.69  E-value=0.019  Score=44.03  Aligned_cols=24  Identities=29%  Similarity=0.317  Sum_probs=21.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      ..-|+|+|.+|+|||||+..+...
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            356889999999999999999874

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=94.68  E-value=0.019  Score=43.66  Aligned_cols=24  Identities=25%  Similarity=0.231  Sum_probs=20.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      ..-|+|+|.+|+|||||...+...
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            456889999999999999999754

>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA degradation, allosteric REGU; HET: ADP 1PE; 2.40A {Saccharomyces cerevisiae}

Probab=94.68  E-value=0.048  Score=51.11  Aligned_cols=51  Identities=14%  Similarity=0.175  Sum_probs=36.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIAD  168 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~  168 (247)
                      ....|.|++|+|||+++..+...+...  -...+.+.+.......++...+..
T Consensus       376 ~~~lI~GppGTGKT~~i~~~i~~l~~~--~~~~ILv~a~tn~A~d~l~~rL~~  426 (802)
T 2xzl_A          376 PLSLIQGPPGTGKTVTSATIVYHLSKI--HKDRILVCAPSNVAVDHLAAKLRD  426 (802)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHHHHH--HCCCEEEEESSHHHHHHHHHHHHH
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHHHhC--CCCeEEEEcCcHHHHHHHHHHHHh
Confidence            578899999999998888777655321  123566777776667777776654

>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=94.67  E-value=0.02  Score=43.30  Aligned_cols=23  Identities=30%  Similarity=0.322  Sum_probs=20.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      .-|+|+|.+|+|||||+..+...
T Consensus        19 ~ki~v~G~~~~GKssli~~l~~~   41 (194)
T 2atx_A           19 LKCVVVGDGAVGKTCLLMSYAND   41 (194)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            46889999999999999999876

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=94.66  E-value=0.021  Score=43.25  Aligned_cols=25  Identities=24%  Similarity=0.420  Sum_probs=21.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      ....|+|+|.+|+|||||...+...
T Consensus        16 ~~~ki~v~G~~~~GKSsl~~~l~~~   40 (199)
T 4bas_A           16 TKLQVVMCGLDNSGKTTIINQVKPA   40 (199)
T ss_dssp             CEEEEEEECCTTSCHHHHHHHHSCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcC
Confidence            3467899999999999999999764

>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=94.66  E-value=0.12  Score=48.25  Aligned_cols=23  Identities=22%  Similarity=0.215  Sum_probs=18.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      ..+.|.|+.|+||||++..+...
T Consensus       110 ~~vii~gpTGSGKTtllp~ll~~  132 (773)
T 2xau_A          110 QIMVFVGETGSGKTTQIPQFVLF  132 (773)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            68899999999999976666544

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=94.64  E-value=0.016  Score=49.03  Aligned_cols=26  Identities=27%  Similarity=0.373  Sum_probs=22.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ..++|+|+.|+|||||++.++..+..
T Consensus       176 ~~i~ivG~sGsGKSTll~~l~~~~~~  201 (361)
T 2gza_A          176 RVIVVAGETGSGKTTLMKALMQEIPF  201 (361)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHTTSCT
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcCCC
Confidence            68999999999999999999876543

>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=94.64  E-value=0.011  Score=44.22  Aligned_cols=24  Identities=25%  Similarity=0.324  Sum_probs=10.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      ..-|+|+|.+|+|||||+..+.+.
T Consensus         8 ~~ki~v~G~~~~GKssl~~~l~~~   31 (183)
T 2fu5_C            8 LFKLLLIGDSGVGKTCVLFRFSED   31 (183)
T ss_dssp             EEEEEEECCCCC------------
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            356889999999999999998754

>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=94.64  E-value=0.019  Score=43.83  Aligned_cols=24  Identities=21%  Similarity=0.339  Sum_probs=20.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      ..-|+|+|.+|+|||||+..+...
T Consensus        25 ~~ki~v~G~~~~GKSsLi~~l~~~   48 (200)
T 2o52_A           25 LFKFLVIGSAGTGKSCLLHQFIEN   48 (200)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHC-
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhC
Confidence            456889999999999999999754

>2wjy_A Regulator of nonsense transcripts 1; nonsense mediated decay, zinc-finger, ATP-binding, metal-BIN UPF2, UPF1, helicase, hydrolase; 2.50A {Homo sapiens} PDB: 2wjv_A 2iyk_A

Probab=94.62  E-value=0.06  Score=50.39  Aligned_cols=50  Identities=16%  Similarity=0.141  Sum_probs=34.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIA  167 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~  167 (247)
                      ....|.|++|+|||+++..+...+...  -...+.+.+.......++...+.
T Consensus       372 ~~~lI~GppGTGKT~ti~~~i~~l~~~--~~~~ilv~a~tn~A~~~l~~~l~  421 (800)
T 2wjy_A          372 PLSLIQGPPGTGKTVTSATIVYHLARQ--GNGPVLVCAPSNIAVDQLTEKIH  421 (800)
T ss_dssp             SEEEEECCTTSCHHHHHHHHHHHHHTT--CSSCEEEEESSHHHHHHHHHHHH
T ss_pred             CeEEEEcCCCCCHHHHHHHHHHHHHHc--CCCcEEEEcCcHHHHHHHHHHHH
Confidence            578899999999999988887776542  12356666666655556555543

>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=94.62  E-value=0.021  Score=43.72  Aligned_cols=24  Identities=21%  Similarity=0.297  Sum_probs=21.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      ..-|+|+|.+|+|||||+..+...
T Consensus        29 ~~ki~vvG~~~vGKSsli~~l~~~   52 (201)
T 2hup_A           29 LFKLVLVGDASVGKTCVVQRFKTG   52 (201)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHhhC
Confidence            456889999999999999999764

>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=94.61  E-value=0.016  Score=44.10  Aligned_cols=24  Identities=25%  Similarity=0.322  Sum_probs=20.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      ..-|+|+|.+|+|||+|+..+.+.
T Consensus        20 ~~ki~~vG~~~vGKTsLi~~l~~~   43 (196)
T 3llu_A           20 KPRILLMGLRRSGKSSIQKVVFHK   43 (196)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhc
Confidence            457889999999999999977664

>3hdt_A Putative kinase; structura genomics, PSI-2, protein structure initiative, midwest CENT structural genomics, MCSG; 2.79A {Clostridium symbiosum atcc 14940}

Probab=94.61  E-value=0.028  Score=44.23  Aligned_cols=26  Identities=19%  Similarity=0.192  Sum_probs=23.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ..+|.|.|+.|+||||+|+.++..+.
T Consensus        14 ~~iI~i~g~~gsGk~~i~~~la~~lg   39 (223)
T 3hdt_A           14 NLIITIEREYGSGGRIVGKKLAEELG   39 (223)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHcC
Confidence            46899999999999999999998875

>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=94.60  E-value=0.021  Score=43.59  Aligned_cols=25  Identities=32%  Similarity=0.313  Sum_probs=21.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ..-|+|+|.+|+|||||+..+....
T Consensus        25 ~~ki~vvG~~~~GKSsli~~l~~~~   49 (201)
T 2gco_A           25 RKKLVIVGDGACGKTCLLIVFSKDQ   49 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCc
Confidence            3568899999999999999998753

>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=94.59  E-value=0.025  Score=44.19  Aligned_cols=25  Identities=20%  Similarity=0.316  Sum_probs=21.8

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      ....|+|+|.+|+|||||+..+...
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            3467899999999999999999765

>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=94.59  E-value=0.023  Score=44.85  Aligned_cols=26  Identities=15%  Similarity=0.254  Sum_probs=22.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ....|+|+|.+|+|||||...+....
T Consensus        28 ~~~~i~lvG~~g~GKStlin~l~g~~   53 (239)
T 3lxx_A           28 SQLRIVLVGKTGAGKSATGNSILGRK   53 (239)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHTSC
T ss_pred             CceEEEEECCCCCCHHHHHHHHcCCC
Confidence            45678999999999999999998653

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=94.58  E-value=0.023  Score=47.81  Aligned_cols=27  Identities=26%  Similarity=0.341  Sum_probs=24.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      -.+++|.|+.|+|||||.+.++.....
T Consensus        71 Gq~~gIiG~nGaGKTTLl~~I~g~~~~   97 (347)
T 2obl_A           71 GQRIGIFAGSGVGKSTLLGMICNGASA   97 (347)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHHSCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            478999999999999999999998653

>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=94.57  E-value=0.02  Score=44.30  Aligned_cols=24  Identities=33%  Similarity=0.317  Sum_probs=20.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      ..-|+|+|.+|+|||||+..+...
T Consensus        34 ~~ki~vvG~~~vGKSsli~~l~~~   57 (214)
T 2j1l_A           34 SVKVVLVGDGGCGKTSLLMVFADG   57 (214)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHC-
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcC
Confidence            456889999999999999999754

---

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	247
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	1e-11
d1qp8a2	121	c.23.12.1 (A:1-82,A:264-302) Putative formate dehy	0.002

>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 = 61.0 bits (147), Expect = 1e-11
 Identities = 22/163 (13%), Positives = 53/163 (32%), Gaps = 18/163 (11%)

Query: 97  ESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNH--KLFDLVVFSEMS 154
           E  +  +   L  + + D   L + G  G GK+++  +   K+       +D +V+ + S
Sbjct: 26  EYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDS 85

Query: 155 QSPDIRKVQGEIADKLGLTFREESESGR----------ARSLFSRLNREKRILVILDNIW 204
            +             L L   ++  +             R + + L      L + D++ 
Sbjct: 86  GTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVV 145

Query: 205 EHLDLQVVGIPHGDDHKGCKVLFTARSLDVLSRKMDSQQNFLV 247
           +                  + L T R +++ +    + +   V
Sbjct: 146 QEET------IRWAQELRLRCLVTTRDVEISNAASQTCEFIEV 182

>d1qp8a2 c.23.12.1 (A:1-82,A:264-302) Putative formate dehydrogenase {Archaeon Pyrobaculum aerophilum [TaxId: 13773]} Length = 121

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Formate/glycerate dehydrogenase catalytic domain-like
family: Formate/glycerate dehydrogenases, substrate-binding domain
domain: Putative formate dehydrogenase
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

 Score = 34.6 bits (79), Expect = 0.002
 Identities = 11/69 (15%), Positives = 23/69 (33%), Gaps = 10/69 (14%)

Query: 72  RFERISHSIIPEDTLLMSNKGYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTML 131
             + +    IP    +  N G   + +       ++ A+RN     L     GG      
Sbjct: 60  GLDHLPWESIPPHVTVAGNAGSNGYGNERVWRQMVMEAVRN-----LITYATGGRP---- 110

Query: 132 EKEVARKAK 140
            + +A++  
Sbjct: 111 -RNIAKRED 118

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	247
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	99.94
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	99.1
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	99.07
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	99.01
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	99.01
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.0
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	98.96
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	98.93
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	98.92
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.87
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.76
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	98.72
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	98.7
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	98.64
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	98.61
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	98.55
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	98.48
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	98.45
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	98.42
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	98.42
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	98.38
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.32
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	98.31
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.1
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	98.07
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	97.99
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	97.94
d2qy9a2	211	GTPase domain of the signal recognition particle r	97.83
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.8
d1okkd2	207	GTPase domain of the signal recognition particle r	97.79
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.78
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.75
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	97.75
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.75
d1ls1a2	207	GTPase domain of the signal sequence recognition p	97.75
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.74
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.73
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.72
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.71
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.7
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.68
d1vmaa2	213	GTPase domain of the signal recognition particle r	97.68
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	97.67
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.67
d1j8yf2	211	GTPase domain of the signal sequence recognition p	97.66
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.65
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	97.65
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.64
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.63
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.55
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.54
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.52
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	97.51
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.5
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	97.48
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.46
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.45
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.45
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.44
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	97.42
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.41
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	97.39
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	97.38
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	97.37
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	97.37
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	97.33
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	97.29
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	97.25
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.25
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	97.25
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	97.24
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	97.23
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	97.21
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	97.19
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	97.14
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	97.12
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	97.11
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	97.1
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	97.08
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	97.07
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	97.07
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	97.06
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.03
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	97.03
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.98
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	96.97
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	96.96
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.96
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	96.91
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	96.9
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	96.83
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	96.77
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	96.76
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	96.76
d1xpua3	289	Transcription termination factor Rho, ATPase domai	96.73
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	96.69
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	96.68
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	96.63
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	96.63
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	96.58
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	96.56
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	96.54
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	96.54
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	96.53
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	96.51
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	96.49
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	96.49
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	96.47
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	96.42
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	96.4
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	96.4
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	96.4
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	96.4
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	96.39
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	96.38
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	96.37
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	96.33
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	96.29
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	96.29
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	96.18
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	96.18
d2awna2	232	Maltose transport protein MalK, N-terminal domain	96.14
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	96.13
d1g2912	240	Maltose transport protein MalK, N-terminal domain	96.1
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	96.09
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	96.07
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	96.06
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	96.04
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	96.03
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	96.03
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	96.01
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	96.0
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	95.99
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	95.97
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	95.95
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	95.89
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	95.89
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	95.88
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	95.88
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	95.88
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	95.87
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	95.86
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	95.85
d1nrjb_	209	Signal recognition particle receptor beta-subunit	95.82
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	95.81
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	95.8
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	95.8
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	95.79
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	95.79
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	95.78
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	95.78
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	95.78
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	95.77
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	95.77
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	95.76
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	95.76
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	95.76
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	95.75
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	95.74
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	95.73
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	95.73
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	95.73
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	95.72
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	95.7
d2fh5b1	207	Signal recognition particle receptor beta-subunit	95.7
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	95.67
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	95.65
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	95.65
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	95.64
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	95.64
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	95.63
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	95.62
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	95.62
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	95.58
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	95.58
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	95.57
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	95.55
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	95.55
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	95.55
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	95.54
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	95.54
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	95.53
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	95.52
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	95.51
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	95.51
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	95.49
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	95.46
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	95.43
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	95.42
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.41
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	95.4
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	95.38
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	95.31
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	95.3
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	95.3
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	95.29
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	95.29
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	95.28
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	95.28
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	95.27
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	95.26
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	95.25
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	95.15
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	95.14
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	95.14
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	95.1
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	95.03
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	95.03
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	95.0
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	94.99
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	94.97
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	94.93
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	94.92
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	94.91
d1tuea_	205	Replication protein E1 helicase domain {Human papi	94.9
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	94.79
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	94.78
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	94.77
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	94.71
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	94.67
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	94.64
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	94.61
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	94.49
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	94.47
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	94.0
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	93.95
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	93.85
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	93.65
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	93.51
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	93.02
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	92.7
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	92.65
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	92.54
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	92.1
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	91.88
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	91.88
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	91.84
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	91.77
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	90.66
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	90.02
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	89.88
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	89.72
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	89.54
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	89.44
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	89.39
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	89.14
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	88.93
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	88.19
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	88.11
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	88.06
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	87.81
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	87.74
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	87.18
d1j3ba1	318	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	87.17
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	86.98
d2olra1	313	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	86.94
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	86.53
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	86.37
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	86.35
d1p3da1	96	UDP-N-acetylmuramate-alanine ligase MurC {Haemophi	85.61
d1ii2a1	323	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	85.51
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	85.37
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	83.56
d1d0xa2	712	Myosin S1, motor domain {Dictyostelium discoideum	81.65
d1t5la1	413	Nucleotide excision repair enzyme UvrB {Bacillus c	81.53
d1lkxa_	684	Myosin S1, motor domain {Dictyostelium discoideum,	81.47
d1br2a2	710	Myosin S1, motor domain {Chicken (Gallus gallus),	80.98
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	80.73
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	80.63

>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=99.94  E-value=6.6e-26  Score=185.83  Aligned_cols=148  Identities=14%  Similarity=0.118  Sum_probs=108.8

Q ss_pred             CcccccchHHHHHHHHHhc---CCCccEEEEEcCCCCcHHHHHHHHHHHhc--ccCCCCEEEEEEeCCCCCHHHHHHHHH
Q 037337           93 YEAFESRMSTLNDILGALR---NPDISMLGICGMGGIGKTMLEKEVARKAK--NHKLFDLVVFSEMSQSPDIRKVQGEIA  167 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L~---~~~~~~v~I~G~~GiGKTtLa~~~~~~~~--~~~~f~~~~wv~~~~~~~~~~l~~~i~  167 (247)
                      ...++||+.++++|.++|.   +.+..+|+|+||||+||||||+++|++..  ...+|++++|++++..++...+...+.
T Consensus        19 ~~~~~gR~~~~~~i~~~L~~~~~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~~l~~~~~   98 (277)
T d2a5yb3          19 QMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTD   98 (277)
T ss_dssp             CCCSCCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHH
T ss_pred             CCceeCcHHHHHHHHHHHHhccCCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCCHHHHHHHHH
Confidence            3446799999999999885   34578999999999999999999999854  456799999999999988777666554


Q ss_pred             HH---hCCCCC------CC-ChHH-HHHHHHHHHcCCCcEEEEEeCCCCccchhhhcccCCCCCCCeEEEEeeCchhhhh
Q 037337          168 DK---LGLTFR------EE-SESG-RARSLFSRLNREKRILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTARSLDVLS  236 (247)
Q Consensus       168 ~~---l~~~~~------~~-~~~~-~~~~l~~~l~~~kr~LlvlDdv~~~~~~~~l~~~~~~~~~~s~iiiTtR~~~va~  236 (247)
                      ..   ++....      .. .... ....+.+.+.. +|+|+||||+|+..++..+.      ..||+||+|||+.+|+.
T Consensus        99 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~-kr~LlVLDDv~~~~~~~~~~------~~~srilvTTR~~~v~~  171 (277)
T d2a5yb3          99 ILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDR-PNTLFVFDDVVQEETIRWAQ------ELRLRCLVTTRDVEISN  171 (277)
T ss_dssp             HHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTS-TTEEEEEEEECCHHHHHHHH------HTTCEEEEEESBGGGGG
T ss_pred             HHHHHhcchhhcCCccchhhhhHHHHHHHHHHHhcc-CCeeEecchhhHHhhhhhhc------ccCceEEEEeehHHHHH
Confidence            43   322111      11 1111 22334555655 78999999999998887653      24799999999999987


Q ss_pred             ccCCCccceeC
Q 037337          237 RKMDSQQNFLV  247 (247)
Q Consensus       237 ~~~~~~~~~~~  247 (247)
                      ......+.|++
T Consensus       172 ~~~~~~~~~~l  182 (277)
T d2a5yb3         172 AASQTCEFIEV  182 (277)
T ss_dssp             GCCSCEEEEEC
T ss_pred             hcCCCCceEEC
Confidence            55555455553

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=99.10  E-value=1.4e-09  Score=86.53  Aligned_cols=114  Identities=20%  Similarity=0.225  Sum_probs=85.5

Q ss_pred             CCcccccchHHHHHHHHHhcC------CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHH
Q 037337           92 GYEAFESRMSTLNDILGALRN------PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGE  165 (247)
Q Consensus        92 ~~~~~~gR~~~~~~L~~~L~~------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~  165 (247)
                      .|..++||+.+++.|.++|..      ...+.+.|+|++|+|||++|+.+++.+..... ...+|+++.........+..
T Consensus        14 ~p~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l~~~~~-~~~~~~~~~~~~~~~~~~~~   92 (276)
T d1fnna2          14 VPKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTT-ARFVYINGFIYRNFTAIIGE   92 (276)
T ss_dssp             CCSCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCC-CEEEEEETTTCCSHHHHHHH
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHHhcccC-CcEEEecchhhhhhhhhhhh
Confidence            456789999999999888752      24578999999999999999999999876532 34678888888899999999


Q ss_pred             HHHHhCCCCC--CCChHHHHHHHHHHHc-CCCcEEEEEeCCCCc
Q 037337          166 IADKLGLTFR--EESESGRARSLFSRLN-REKRILVILDNIWEH  206 (247)
Q Consensus       166 i~~~l~~~~~--~~~~~~~~~~l~~~l~-~~kr~LlvlDdv~~~  206 (247)
                      ++...+....  ..........+.+.+. .....++++|++++.
T Consensus        93 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~  136 (276)
T d1fnna2          93 IARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNL  136 (276)
T ss_dssp             HHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGS
T ss_pred             hHHhhhhhhhhhccchhHHHHHHHHHHhhcccccccchhHHHHh
Confidence            9988875543  2344555555665552 334577778888765

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.07  E-value=1.5e-10  Score=90.37  Aligned_cols=130  Identities=18%  Similarity=0.142  Sum_probs=82.5

Q ss_pred             ccCCCcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHH
Q 037337           89 SNKGYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIAD  168 (247)
Q Consensus        89 ~~~~~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~  168 (247)
                      .|....+++|.++.++.|..|+.+.....+.++|++|+||||+|+.+++.+.....-..+..++.+.......+...+..
T Consensus        10 rP~~~~d~ig~~~~~~~L~~~~~~~~~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n~~~~~~~~~i~~~~~~   89 (224)
T d1sxjb2          10 RPQVLSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGIDVVRNQIKH   89 (224)
T ss_dssp             CCSSGGGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSHHHHHTHHHH
T ss_pred             CCCCHHHhcCCHHHHHHHHHHHHcCCCCeEEEECCCCCCchhhHHHHHHHHhccccccccccccccccCCceehhhHHHH
Confidence            45566889999999999999998887777889999999999999999998765421122455666666555544433332


Q ss_pred             HhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCccc--hhhhcccCCCCCCCeEEEEeeCch
Q 037337          169 KLGLTFREESESGRARSLFSRLNREKRILVILDNIWEHLD--LQVVGIPHGDDHKGCKVLFTARSL  232 (247)
Q Consensus       169 ~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~~~--~~~l~~~~~~~~~~s~iiiTtR~~  232 (247)
                      ........              ...+.-++|+|+++....  ...+...+......+++++++.+.
T Consensus        90 ~~~~~~~~--------------~~~~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~  141 (224)
T d1sxjb2          90 FAQKKLHL--------------PPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQS  141 (224)
T ss_dssp             HHHBCCCC--------------CTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCG
T ss_pred             HHHhhccC--------------CCcceEEEEEecccccchhHHHHHhhhccccccceeeeeccCch
Confidence            22111110              122456888999987632  222322223345566666666543

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=99.01  E-value=6.7e-10  Score=88.56  Aligned_cols=50  Identities=14%  Similarity=0.171  Sum_probs=41.4

Q ss_pred             cccCCCcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           88 MSNKGYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        88 ~~~~~~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      .+...+..|+||+++++.|.+.    ..+.+.|+|++|+|||+|++++++....
T Consensus         6 ~p~~~~~~f~GR~~el~~l~~~----~~~~i~i~G~~G~GKTsLl~~~~~~~~~   55 (283)
T d2fnaa2           6 SPKDNRKDFFDREKEIEKLKGL----RAPITLVLGLRRTGKSSIIKIGINELNL   55 (283)
T ss_dssp             SCCCSGGGSCCCHHHHHHHHHT----CSSEEEEEESTTSSHHHHHHHHHHHHTC
T ss_pred             CCCCChhhCCChHHHHHHHHhc----cCCEEEEEcCCCCcHHHHHHHHHHHCCC
Confidence            3334578999999999998774    3478899999999999999999887654

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.01  E-value=3.4e-10  Score=88.38  Aligned_cols=129  Identities=16%  Similarity=0.110  Sum_probs=80.2

Q ss_pred             ccCCCcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHH
Q 037337           89 SNKGYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIAD  168 (247)
Q Consensus        89 ~~~~~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~  168 (247)
                      .|....+++|.++.++.|..|+.......+.++|++|+||||+|+.+++..........+.-.+.+...+..........
T Consensus         9 rP~~~~divg~~~~~~~L~~~i~~~~~~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~~~~~~~~~~~~~~~~~   88 (227)
T d1sxjc2           9 RPETLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGIDVVRNQIKD   88 (227)
T ss_dssp             CCSSGGGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCSHHHHHTHHHH
T ss_pred             CCCCHHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEecccccCCeeeeecchhh
Confidence            34566889999999999999998877666789999999999999999998765422222344444444443332222111


Q ss_pred             HhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCcc--chhhhcccCCCCCCCeEEEEeeCch
Q 037337          169 KLGLTFREESESGRARSLFSRLNREKRILVILDNIWEHL--DLQVVGIPHGDDHKGCKVLFTARSL  232 (247)
Q Consensus       169 ~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~~--~~~~l~~~~~~~~~~s~iiiTtR~~  232 (247)
                      .....               .+..+++-++|+|+++...  ....+...+......+.++++|...
T Consensus        89 ~~~~~---------------~~~~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~  139 (227)
T d1sxjc2          89 FASTR---------------QIFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYA  139 (227)
T ss_dssp             HHHBC---------------CSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCG
T ss_pred             ccccc---------------cccCCCeEEEEEeccccchhhHHHHHHHHhhhcccceeeccccCcH
Confidence            11000               0112234688899998762  2233333333445678788877654

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=99.00  E-value=5.3e-09  Score=83.32  Aligned_cols=130  Identities=15%  Similarity=0.207  Sum_probs=85.4

Q ss_pred             CcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccC----CCCEEEE-EEeCCCCCHHHHHHHHH
Q 037337           93 YEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHK----LFDLVVF-SEMSQSPDIRKVQGEIA  167 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~----~f~~~~w-v~~~~~~~~~~l~~~i~  167 (247)
                      ....+||+++++++...|......-+.++|++|+|||+++..++++....+    .....+| ++++.-           
T Consensus        17 ld~~igRd~Ei~~l~~iL~r~~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~l-----------   85 (268)
T d1r6bx2          17 IDPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSL-----------   85 (268)
T ss_dssp             SCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC-------------
T ss_pred             CCcccChHHHHHHHHHHHhcCccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechH-----------
Confidence            346899999999999999877777788999999999999999999865432    1223444 332211           


Q ss_pred             HHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCcc----------chhhhcccCCCCCCCeEEEEeeCchhhhh
Q 037337          168 DKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEHL----------DLQVVGIPHGDDHKGCKVLFTARSLDVLS  236 (247)
Q Consensus       168 ~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~~----------~~~~l~~~~~~~~~~s~iiiTtR~~~va~  236 (247)
                        +........-++....+.+.+...+..++++|++....          +...+..|... ...-++|.||..++...
T Consensus        86 --iag~~~~g~~e~r~~~i~~~~~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~-rg~i~vIgatT~eey~~  161 (268)
T d1r6bx2          86 --LAGTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS-SGKIRVIGSTTYQEFSN  161 (268)
T ss_dssp             ---CCCCCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS-SCCCEEEEEECHHHHHC
T ss_pred             --hccCccchhHHHHHHHHHHHhhccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHh-CCCCeEEEeCCHHHHHH
Confidence              00111123344555566666655467999999987551          22334344332 44678999998888764

>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=98.96  E-value=2.5e-10  Score=89.40  Aligned_cols=128  Identities=10%  Similarity=0.095  Sum_probs=76.1

Q ss_pred             ccCCCcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCC-EEEEEEeCCCCCHHHHHHHHH
Q 037337           89 SNKGYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFD-LVVFSEMSQSPDIRKVQGEIA  167 (247)
Q Consensus        89 ~~~~~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~-~~~wv~~~~~~~~~~l~~~i~  167 (247)
                      .|....+++|.++..+.|..|+.....+.+.++|++|+||||+|+.+++...... +. ..+.++++...+...+...+.
T Consensus        19 ~P~~~~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtla~~iak~l~~~~-~~~~~~e~n~s~~~~~~~~~~~~~   97 (231)
T d1iqpa2          19 RPQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGEN-WRHNFLELNASDERGINVIREKVK   97 (231)
T ss_dssp             CCCSTTTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHHGGG-HHHHEEEEETTCHHHHHTTHHHHH
T ss_pred             CCCCHHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCcHHHHHHHHHHHHHhcc-cCCCeeEEecCcccchhHHHHHHH
Confidence            3445688999999999999999887777889999999999999999999865431 11 134455443322211111111


Q ss_pred             HHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc--cchhhhcccCCCCCCCeEEEEeeCch
Q 037337          168 DKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH--LDLQVVGIPHGDDHKGCKVLFTARSL  232 (247)
Q Consensus       168 ~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~--~~~~~l~~~~~~~~~~s~iiiTtR~~  232 (247)
                      ......               .....+..++++|+++..  .....+...+......+.+|.||...
T Consensus        98 ~~~~~~---------------~~~~~~~~iilide~d~~~~~~~~~ll~~l~~~~~~~~~i~~~n~~  149 (231)
T d1iqpa2          98 EFARTK---------------PIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYS  149 (231)
T ss_dssp             HHHHSC---------------CGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCG
T ss_pred             HHHhhh---------------hccCCCceEEeehhhhhcchhHHHHHhhhcccCCcceEEEeccCCh
Confidence            111000               011235688899999865  22333323332233445566665443

>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=98.93  E-value=4.1e-09  Score=82.93  Aligned_cols=123  Identities=11%  Similarity=0.175  Sum_probs=76.9

Q ss_pred             cCCCcccccchHHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCC-------------------EEE
Q 037337           90 NKGYEAFESRMSTLNDILGALRNPD-ISMLGICGMGGIGKTMLEKEVARKAKNHKLFD-------------------LVV  149 (247)
Q Consensus        90 ~~~~~~~~gR~~~~~~L~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~-------------------~~~  149 (247)
                      |....+++|.++..+.|..++...+ ...+.++|++|+|||++|+.+++.+.......                   .++
T Consensus         8 P~~~~dlig~~~~~~~L~~~i~~~~~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~   87 (239)
T d1njfa_           8 PQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLI   87 (239)
T ss_dssp             CSSGGGSCSCHHHHHHHHHHHHTTCCCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHHTCCTTEE
T ss_pred             CCCHHHccChHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcCccccccCccccchHHHHHHcCCCCeEE
Confidence            3455789999999999999998665 45688999999999999999998865432111                   122


Q ss_pred             EEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHc----CCCcEEEEEeCCCCcc--chhhhcccCCCCCCCe
Q 037337          150 FSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLN----REKRILVILDNIWEHL--DLQVVGIPHGDDHKGC  223 (247)
Q Consensus       150 wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~----~~kr~LlvlDdv~~~~--~~~~l~~~~~~~~~~s  223 (247)
                      +++.+.......                     ...+.+.+.    .+++.++|||+++...  ....+...+...+.++
T Consensus        88 ~~~~~~~~~i~~---------------------ir~~~~~~~~~~~~~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~  146 (239)
T d1njfa_          88 EIDAASRTKVED---------------------TRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHV  146 (239)
T ss_dssp             EEETTCSSSHHH---------------------HHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTE
T ss_pred             EecchhcCCHHH---------------------HHHHHHHHHhccccCCCEEEEEECcccCCHHHHHHHHHHHhcCCCCe
Confidence            333222222211                     222222221    2345688999998762  2333444444445678


Q ss_pred             EEEEeeCchh
Q 037337          224 KVLFTARSLD  233 (247)
Q Consensus       224 ~iiiTtR~~~  233 (247)
                      ++|++|.+.+
T Consensus       147 ~~il~tn~~~  156 (239)
T d1njfa_         147 KFLLATTDPQ  156 (239)
T ss_dssp             EEEEEESCGG
T ss_pred             EEEEEcCCcc
Confidence            8888886644

>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=98.92  E-value=8.8e-10  Score=86.32  Aligned_cols=138  Identities=12%  Similarity=0.116  Sum_probs=81.6

Q ss_pred             cCCCcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccC-CCCEEEEEEeCCCCCHHHHHHHHHH
Q 037337           90 NKGYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHK-LFDLVVFSEMSQSPDIRKVQGEIAD  168 (247)
Q Consensus        90 ~~~~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~-~f~~~~wv~~~~~~~~~~l~~~i~~  168 (247)
                      |....+++|+++.++.|..|+.....+.+.++|++|+||||+|+.+++.+.... .......++.+...........+-.
T Consensus         8 P~~~~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (237)
T d1sxjd2           8 PKNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKVKN   87 (237)
T ss_dssp             CSSTTTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHTTHHHH
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheeccccccchHHHHHHHH
Confidence            445677999999999999999887777788999999999999999999864321 1223455666666555444333322


Q ss_pred             HhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCcc--chhhhcccCCCCCCCeEEEEeeCch
Q 037337          169 KLGLTFREESESGRARSLFSRLNREKRILVILDNIWEHL--DLQVVGIPHGDDHKGCKVLFTARSL  232 (247)
Q Consensus       169 ~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~~--~~~~l~~~~~~~~~~s~iiiTtR~~  232 (247)
                      ...........    ..+ +.....+.-++|+|+++...  ....+...+......+++++|+.+.
T Consensus        88 ~~~~~~~~~~~----~~~-~~~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~~~~~~~i~~~~~~  148 (237)
T d1sxjd2          88 FARLTVSKPSK----HDL-ENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYV  148 (237)
T ss_dssp             HHHSCCCCCCT----THH-HHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCG
T ss_pred             HhhhhhhhhhH----HHH-hhccccCceEEEEecccccCHHHHHHHhhcccccccccccccccccc
Confidence            22111111111    011 11222234578999998662  2223322222334566677766543

>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=98.87  E-value=1e-08  Score=81.80  Aligned_cols=115  Identities=18%  Similarity=0.225  Sum_probs=80.6

Q ss_pred             CCcccccchHHHHHHHHHhc----C-CC----ccEEEEEcCCCCcHHHHHHHHHHHhccc----CCCCEEEEEEeCCCCC
Q 037337           92 GYEAFESRMSTLNDILGALR----N-PD----ISMLGICGMGGIGKTMLEKEVARKAKNH----KLFDLVVFSEMSQSPD  158 (247)
Q Consensus        92 ~~~~~~gR~~~~~~L~~~L~----~-~~----~~~v~I~G~~GiGKTtLa~~~~~~~~~~----~~f~~~~wv~~~~~~~  158 (247)
                      .|..+.||+.+++.|.+++.    . ..    ..++.++|++|+|||++++.+++.+...    .......|+++....+
T Consensus        14 ~P~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~   93 (287)
T d1w5sa2          14 IPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPN   93 (287)
T ss_dssp             CCSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCS
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeeccccccc
Confidence            46778999999999988663    1 11    2245678999999999999999986431    1123477888888889


Q ss_pred             HHHHHHHHHHHhCCCCC--CCChHHHHHHHHHHHc-CCCcEEEEEeCCCCc
Q 037337          159 IRKVQGEIADKLGLTFR--EESESGRARSLFSRLN-REKRILVILDNIWEH  206 (247)
Q Consensus       159 ~~~l~~~i~~~l~~~~~--~~~~~~~~~~l~~~l~-~~kr~LlvlDdv~~~  206 (247)
                      ....+..+...++....  ..........+.+... .+...++++|.++..
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iide~d~l  144 (287)
T d1w5sa2          94 LYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSM  144 (287)
T ss_dssp             HHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHH
T ss_pred             hhhHHHHHhhhcccccccccchHHHHHHHHHHHHHhccCccccceeEEEEe
Confidence            88888888888775433  3444555555555552 234578888887643

>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=98.76  E-value=1.9e-08  Score=75.95  Aligned_cols=130  Identities=14%  Similarity=0.152  Sum_probs=78.8

Q ss_pred             cccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccC----CCCEEEEEEeCCCCCHHHHHHHHHHH
Q 037337           94 EAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHK----LFDLVVFSEMSQSPDIRKVQGEIADK  169 (247)
Q Consensus        94 ~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~----~f~~~~wv~~~~~~~~~~l~~~i~~~  169 (247)
                      ...+||+++++++...|......-+.++|++|+|||+++..++.+....+    ..+..+|.-     +...++.     
T Consensus        22 d~~igRd~Ei~~l~~iL~r~~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~l-----d~~~LiA-----   91 (195)
T d1jbka_          22 DPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLAL-----DMGALVA-----   91 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEE-----CHHHHHT-----
T ss_pred             CCCcCcHHHHHHHHHHHhccCCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEe-----eHHHHhc-----
Confidence            45789999999999999877777888999999999999999999875432    123444421     2222111     


Q ss_pred             hCCCCCCCChHHHHHHHHHHH-cCCCcEEEEEeCCCCcc---------chhhhcccCCCCCCCeEEEEeeCchhhhh
Q 037337          170 LGLTFREESESGRARSLFSRL-NREKRILVILDNIWEHL---------DLQVVGIPHGDDHKGCKVLFTARSLDVLS  236 (247)
Q Consensus       170 l~~~~~~~~~~~~~~~l~~~l-~~~kr~LlvlDdv~~~~---------~~~~l~~~~~~~~~~s~iiiTtR~~~va~  236 (247)
                        .......-++....+.+.+ ....+++|++|++....         +...+..|... ....++|.||-.++...
T Consensus        92 --g~~~rG~~E~rl~~il~e~~~~~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~-rg~l~~IgatT~eey~~  165 (195)
T d1jbka_          92 --GAKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALA-RGELHCVGATTLDEYRQ  165 (195)
T ss_dssp             --TTCSHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHH-TTSCCEEEEECHHHHHH
T ss_pred             --cCCccHHHHHHHHHHHHHHhcCCCcEEEEcchHHHHhcCCCCCCcccHHHHHHHHHh-CCCceEEecCCHHHHHH
Confidence              0000011222333444443 33346999999987541         12222222211 24567888887777654

>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=98.72  E-value=7.2e-09  Score=81.71  Aligned_cols=51  Identities=20%  Similarity=0.184  Sum_probs=42.0

Q ss_pred             cCCCcccccchHHHHHHHHHhcCC-CccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337           90 NKGYEAFESRMSTLNDILGALRNP-DISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus        90 ~~~~~~~~gR~~~~~~L~~~L~~~-~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      |....+++|+++..+.|..++... ....+.++|++|+||||+|+.+++.+.
T Consensus         7 P~~~~diig~~~~~~~L~~~~~~~~~~~~lll~Gp~G~GKTt~~~~la~~l~   58 (252)
T d1sxje2           7 PKSLNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIF   58 (252)
T ss_dssp             CCSGGGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHHS
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHhhc
Confidence            445678999999999998888654 345678999999999999999999863

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=98.70  E-value=3.6e-08  Score=77.76  Aligned_cols=50  Identities=14%  Similarity=0.122  Sum_probs=36.3

Q ss_pred             CcccccchHHHHHHHHHhc----------CCCccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337           93 YEAFESRMSTLNDILGALR----------NPDISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L~----------~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      ..+++|..+.++.+++...          ..+.+-|.++|++|+|||++|+.+++.....
T Consensus         8 ~~~~i~~~~~i~~i~~~~~~~~~~~~~~~~~p~~~vLL~GppGtGKT~la~alA~~~~~~   67 (246)
T d1d2na_           8 MNGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFP   67 (246)
T ss_dssp             TTCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTCS
T ss_pred             ccCCcCcCHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECcCCCCHHHHHHHHhhccccc
Confidence            3457777776666554432          1235668899999999999999999987643

>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=98.64  E-value=5.1e-08  Score=81.65  Aligned_cols=129  Identities=11%  Similarity=0.124  Sum_probs=72.2

Q ss_pred             CcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccC----CCCEEEE-EEeCCCCCHHHHHHHHH
Q 037337           93 YEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHK----LFDLVVF-SEMSQSPDIRKVQGEIA  167 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~----~f~~~~w-v~~~~~~~~~~l~~~i~  167 (247)
                      ..+++||+.+++++++.|......-+.++|++|+|||+++..++.+.....    ..+..+| ++++.-.          
T Consensus        21 ld~~~gr~~ei~~~~~~L~r~~k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l~----------   90 (387)
T d1qvra2          21 LDPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLL----------   90 (387)
T ss_dssp             SCCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC--------------
T ss_pred             CCCCcCcHHHHHHHHHHHhcCCCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhhh----------
Confidence            345889999999999999876666677889999999999998888764432    2234444 4333211          


Q ss_pred             HHhCCCCCCCChHHHHHHHHHHHcC-CCcEEEEEeCCCCcc---------chhhhcccCCCCCCCeEEEEeeCchhhh
Q 037337          168 DKLGLTFREESESGRARSLFSRLNR-EKRILVILDNIWEHL---------DLQVVGIPHGDDHKGCKVLFTARSLDVL  235 (247)
Q Consensus       168 ~~l~~~~~~~~~~~~~~~l~~~l~~-~kr~LlvlDdv~~~~---------~~~~l~~~~~~~~~~s~iiiTtR~~~va  235 (247)
                      ....   ....-++....+...+.. ..+++|++|++....         +...+..|.. .....++|.+|-..+..
T Consensus        91 ag~~---~~g~~e~r~~~i~~~~~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L-~rg~~~~I~~tT~~ey~  164 (387)
T d1qvra2          91 AGAK---YRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPAL-ARGELRLIGATTLDEYR  164 (387)
T ss_dssp             ----------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHH-HTTCCCEEEEECHHHHH
T ss_pred             cccC---cchhHHHHHHHHHHHhccCCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHH-hCCCcceeeecCHHHHH
Confidence            0000   011223334444444433 246999999998652         1222222221 12346677777766664

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=98.61  E-value=9.4e-08  Score=74.70  Aligned_cols=53  Identities=19%  Similarity=0.232  Sum_probs=42.2

Q ss_pred             cCCCcccccchHHHHHHHHHhc-----CCCccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337           90 NKGYEAFESRMSTLNDILGALR-----NPDISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus        90 ~~~~~~~~gR~~~~~~L~~~L~-----~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      |....+++|.++..+.|..++.     ....+-+.++||+|+||||+|+.+++.....
T Consensus         5 P~~~ddivGq~~~~~~L~~~i~~~~~~~~~~~~~Ll~GPpG~GKTtla~~la~~~~~~   62 (239)
T d1ixsb2           5 PKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVN   62 (239)
T ss_dssp             CCSGGGSCSCHHHHHHHHHHHHHHTTSSSCCCCEEEECCTTSCHHHHHHHHHHHHTCC
T ss_pred             CCCHHHhCCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            4456789999988888877764     2235678899999999999999999887643

>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=98.55  E-value=9e-08  Score=75.28  Aligned_cols=68  Identities=16%  Similarity=0.123  Sum_probs=51.6

Q ss_pred             cCCCcccccchHHHHHHHHHhcC-----------------CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEE
Q 037337           90 NKGYEAFESRMSTLNDILGALRN-----------------PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSE  152 (247)
Q Consensus        90 ~~~~~~~~gR~~~~~~L~~~L~~-----------------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~  152 (247)
                      |....+++|.+..++.|.+|+..                 ...+.+.++|++|+||||+|+.+++.....     +.+++
T Consensus        10 P~~~~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~~~-----~~~~~   84 (253)
T d1sxja2          10 PTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYD-----ILEQN   84 (253)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTCE-----EEEEC
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHHHhh-----hhccc
Confidence            34467899999999999998742                 234689999999999999999999876533     55677


Q ss_pred             eCCCCCHHHH
Q 037337          153 MSQSPDIRKV  162 (247)
Q Consensus       153 ~~~~~~~~~l  162 (247)
                      .+...+...+
T Consensus        85 ~~~~~~~~~~   94 (253)
T d1sxja2          85 ASDVRSKTLL   94 (253)
T ss_dssp             TTSCCCHHHH
T ss_pred             cccchhhHHH
Confidence            7666555443

>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=98.48  E-value=5.3e-07  Score=68.97  Aligned_cols=128  Identities=9%  Similarity=0.022  Sum_probs=70.5

Q ss_pred             chHHHHHHHHHhcCCC-ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCC----
Q 037337           99 RMSTLNDILGALRNPD-ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLT----  173 (247)
Q Consensus        99 R~~~~~~L~~~L~~~~-~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~----  173 (247)
                      .+...+.|...+..++ ...+.++|++|+||||+|+.+++.+-......   +-.+....+    ...+.......    
T Consensus         7 ~~~~~~~l~~~~~~~~l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~---~~~~~~~~~----~~~i~~~~~~~~~~~   79 (207)
T d1a5ta2           7 LRPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQG---HKSCGHCRG----CQLMQAGTHPDYYTL   79 (207)
T ss_dssp             GHHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBT---TBCCSCSHH----HHHHHHTCCTTEEEE
T ss_pred             cHHHHHHHHHHHHcCCcCeEEEEECCCCCcHHHHHHHHHHhcccccccc---cccccccch----hhhhhhccccccchh
Confidence            3566788888887665 45689999999999999999999764221000   000000000    01111111000    


Q ss_pred             -C---CCCChHHHHHHHHHHHc----CCCcEEEEEeCCCCc--cchhhhcccCCCCCCCeEEEEeeCchh
Q 037337          174 -F---REESESGRARSLFSRLN----REKRILVILDNIWEH--LDLQVVGIPHGDDHKGCKVLFTARSLD  233 (247)
Q Consensus       174 -~---~~~~~~~~~~~l~~~l~----~~kr~LlvlDdv~~~--~~~~~l~~~~~~~~~~s~iiiTtR~~~  233 (247)
                       .   ...-..+.+..+.+.+.    .+++-++|+||++..  .....+...+.....++.+|+||++.+
T Consensus        80 ~~~~~~~~i~~~~ir~l~~~~~~~~~~~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~  149 (207)
T d1a5ta2          80 APEKGKNTLGVDAVREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPE  149 (207)
T ss_dssp             CCCTTCSSBCHHHHHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGG
T ss_pred             hhhhcccccccchhhHHhhhhhhccccCccceEEechhhhhhhhhhHHHHHHHHhhcccceeeeeecChh
Confidence             0   00011222334444432    235679999999876  334455455555567888888887754

>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=98.45  E-value=7.1e-07  Score=68.55  Aligned_cols=101  Identities=16%  Similarity=0.098  Sum_probs=63.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNREK  194 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  194 (247)
                      ...+.|||++|+|||.|++.+++.....  ...++|++      ..++...+...+...        ....+.+.+..  
T Consensus        36 ~n~l~l~G~~G~GKTHLl~A~~~~~~~~--~~~~~~~~------~~~~~~~~~~~~~~~--------~~~~~~~~~~~--   97 (213)
T d1l8qa2          36 YNPIFIYGSVGTGKTHLLQAAGNEAKKR--GYRVIYSS------ADDFAQAMVEHLKKG--------TINEFRNMYKS--   97 (213)
T ss_dssp             CSSEEEECSSSSSHHHHHHHHHHHHHHT--TCCEEEEE------HHHHHHHHHHHHHHT--------CHHHHHHHHHT--
T ss_pred             CCcEEEECCCCCcHHHHHHHHHHHhccC--ccceEEec------hHHHHHHHHHHHHcc--------chhhHHHHHhh--
Confidence            3458899999999999999999998765  34566664      344445554444211        12334445544  


Q ss_pred             cEEEEEeCCCCc---cchhh-hcccCC-CCCCCeEEEEeeCchh
Q 037337          195 RILVILDNIWEH---LDLQV-VGIPHG-DDHKGCKVLFTARSLD  233 (247)
Q Consensus       195 r~LlvlDdv~~~---~~~~~-l~~~~~-~~~~~s~iiiTtR~~~  233 (247)
                      --+|+|||++..   ..|+. +...+. ....|.+||+||+...
T Consensus        98 ~dll~iDDi~~i~~~~~~~~~lf~lin~~~~~~~~iiits~~~p  141 (213)
T d1l8qa2          98 VDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHP  141 (213)
T ss_dssp             CSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCG
T ss_pred             ccchhhhhhhhhcCchHHHHHHHHHHHHHhhccceEEEecCCcc
Confidence            369999999854   23322 212221 1245778999998654

>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=98.42  E-value=5.8e-07  Score=69.91  Aligned_cols=53  Identities=21%  Similarity=0.295  Sum_probs=43.1

Q ss_pred             cCCCcccccchHHHHHHHHHhc-----CCCccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337           90 NKGYEAFESRMSTLNDILGALR-----NPDISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus        90 ~~~~~~~~gR~~~~~~L~~~L~-----~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      |....+++|.++.++.|..|+.     ....+.+.++||+|+|||++|+.+++.+...
T Consensus         5 P~~~~divGqe~~~~~l~~~i~~~~~~~~~~~~~L~~GPpGtGKT~lA~~la~~~~~~   62 (238)
T d1in4a2           5 PKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTN   62 (238)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHTCC
T ss_pred             CCcHHHcCChHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHhccCCC
Confidence            3456789999999999988875     2334568899999999999999999987643

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=98.42  E-value=4.3e-07  Score=71.75  Aligned_cols=93  Identities=20%  Similarity=0.264  Sum_probs=58.9

Q ss_pred             CcccccchHHHHHHHHH---hcC---------CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHH
Q 037337           93 YEAFESRMSTLNDILGA---LRN---------PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIR  160 (247)
Q Consensus        93 ~~~~~gR~~~~~~L~~~---L~~---------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~  160 (247)
                      ..++.|-++..+.|.+.   +..         ...+.+.++|++|+|||++|+.+++.+...     .+.++++.-.+  
T Consensus        11 ~~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~~~~-----~~~i~~~~l~~--   83 (256)
T d1lv7a_          11 FADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVP-----FFTISGSDFVE--   83 (256)
T ss_dssp             GGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCC-----EEEECSCSSTT--
T ss_pred             HHHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHcCCC-----EEEEEhHHhhh--
Confidence            46788888777776543   321         235678899999999999999999887643     33444333211  


Q ss_pred             HHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCC
Q 037337          161 KVQGEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWE  205 (247)
Q Consensus       161 ~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~  205 (247)
                                  ...+ ..+..+..+.+......+++|++||++.
T Consensus        84 ------------~~~g-~~~~~l~~~f~~A~~~~P~il~iDeiD~  115 (256)
T d1lv7a_          84 ------------MFVG-VGASRVRDMFEQAKKAAPCIIFIDEIDA  115 (256)
T ss_dssp             ------------SCCC-CCHHHHHHHHHHHHTTCSEEEEETTHHH
T ss_pred             ------------cchh-HHHHHHHHHHHHHHHcCCEEEEEEChhh
Confidence                        0111 1123344555555555679999999863

>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=98.38  E-value=1.4e-06  Score=65.98  Aligned_cols=114  Identities=13%  Similarity=0.054  Sum_probs=72.3

Q ss_pred             HHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhccc--CCCCEEEEEEeCC-CCCHHHHHHHHHHHhCCCCCCCC
Q 037337          102 TLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNH--KLFDLVVFSEMSQ-SPDIRKVQGEIADKLGLTFREES  178 (247)
Q Consensus       102 ~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~--~~f~~~~wv~~~~-~~~~~~l~~~i~~~l~~~~~~~~  178 (247)
                      +++.|.+++..+....+.++|++|+|||++|..+.+.....  .|.| +.++.... .-.++++ +.+...+.....   
T Consensus         2 ~~~~l~~~i~~~~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D-~~~i~~~~~~I~Id~I-R~i~~~~~~~~~---   76 (198)
T d2gnoa2           2 QLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASD-VLEIDPEGENIGIDDI-RTIKDFLNYSPE---   76 (198)
T ss_dssp             HHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTT-EEEECCSSSCBCHHHH-HHHHHHHTSCCS---
T ss_pred             HHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhccccCCCC-EEEEeCCcCCCCHHHH-HHHHHHHhhCcc---
Confidence            45666777777778899999999999999999999876543  2233 44444322 2234433 234444433221   


Q ss_pred             hHHHHHHHHHHHcCCCcEEEEEeCCCCc--cchhhhcccCCCCCCCeEEEEeeCchh
Q 037337          179 ESGRARSLFSRLNREKRILVILDNIWEH--LDLQVVGIPHGDDHKGCKVLFTARSLD  233 (247)
Q Consensus       179 ~~~~~~~l~~~l~~~kr~LlvlDdv~~~--~~~~~l~~~~~~~~~~s~iiiTtR~~~  233 (247)
                                   .+++-++|+|+++..  ....++...+...+.++.+|++|.+.+
T Consensus        77 -------------~~~~KviIId~ad~l~~~aqNaLLK~LEEPp~~t~fiLit~~~~  120 (198)
T d2gnoa2          77 -------------LYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWH  120 (198)
T ss_dssp             -------------SSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGG
T ss_pred             -------------cCCCEEEEEeCccccchhhhhHHHHHHhCCCCCceeeeccCChh
Confidence                         124568999999876  445556555545566788777776654

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.32  E-value=2.9e-06  Score=66.97  Aligned_cols=93  Identities=14%  Similarity=0.219  Sum_probs=56.2

Q ss_pred             cccccchHHHHHHHHHh----cC---------CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHH
Q 037337           94 EAFESRMSTLNDILGAL----RN---------PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIR  160 (247)
Q Consensus        94 ~~~~gR~~~~~~L~~~L----~~---------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~  160 (247)
                      .++.|-+...+.|.+.+    ..         ...+-+.++|++|+|||++|+.+++.....     .+.++.+.     
T Consensus         4 ~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~~~~-----~~~i~~~~-----   73 (258)
T d1e32a2           4 DDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF-----FFLINGPE-----   73 (258)
T ss_dssp             GGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHTTCE-----EEEECHHH-----
T ss_pred             hhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHhCCe-----EEEEEchh-----
Confidence            45678777777776653    21         235678999999999999999999976543     23333211     


Q ss_pred             HHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          161 KVQGEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       161 ~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                               +..... ......+..+.+......+++|++||++..
T Consensus        74 ---------l~~~~~-g~~~~~l~~~f~~A~~~~p~il~iDeid~l  109 (258)
T d1e32a2          74 ---------IMSKLA-GESESNLRKAFEEAEKNAPAIIFIDELDAI  109 (258)
T ss_dssp             ---------HTTSCT-THHHHHHHHHHHHHHHTCSEEEEESSGGGT
T ss_pred             ---------hccccc-ccHHHHHHHHHHHHHhcCCeEEEehhhhhh
Confidence                     111111 111222333333333346799999999864

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=98.31  E-value=6.5e-07  Score=70.34  Aligned_cols=94  Identities=22%  Similarity=0.291  Sum_probs=57.2

Q ss_pred             CCcccccchHHHHHHHHH---hcC---------CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCH
Q 037337           92 GYEAFESRMSTLNDILGA---LRN---------PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDI  159 (247)
Q Consensus        92 ~~~~~~gR~~~~~~L~~~---L~~---------~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~  159 (247)
                      .-.+++|-++..+.|.+.   +..         ...+-+.++|++|+|||+||+.+++.....     .+.++++     
T Consensus         7 ~~~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~~~~-----~~~i~~~-----   76 (247)
T d1ixza_           7 TFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVP-----FITASGS-----   76 (247)
T ss_dssp             CGGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCC-----EEEEEHH-----
T ss_pred             cHHHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHcCCC-----EEEEEhH-----
Confidence            345788877766655443   221         224678999999999999999999876543     3444432     


Q ss_pred             HHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCC
Q 037337          160 RKVQGEIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWE  205 (247)
Q Consensus       160 ~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~  205 (247)
                       ++..    .    . ....+..+..+.+......+++|+|||++.
T Consensus        77 -~l~~----~----~-~g~~~~~l~~~f~~a~~~~p~Ii~iDeid~  112 (247)
T d1ixza_          77 -DFVE----M----F-VGVGAARVRDLFETAKRHAPCIVFIDEIDA  112 (247)
T ss_dssp             -HHHH----S----C-TTHHHHHHHHHHHHHTTSSSEEEEEETHHH
T ss_pred             -Hhhh----c----c-ccHHHHHHHHHHHHHHHcCCEEEEEEChhh
Confidence             2111    0    0 011222344555555555679999999863

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.10  E-value=1.6e-06  Score=68.81  Aligned_cols=72  Identities=15%  Similarity=0.216  Sum_probs=44.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNREK  194 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  194 (247)
                      .+.+.++|++|+|||+||+.+++.....     .+.++      ..++.       + . ...........+........
T Consensus        41 ~~giLL~Gp~GtGKT~l~~ala~~~~~~-----~~~~~------~~~l~-------~-~-~~~~~~~~l~~~f~~A~~~~  100 (265)
T d1r7ra3          41 SKGVLFYGPPGCGKTLLAKAIANECQAN-----FISIK------GPELL-------T-M-WFGESEANVREIFDKARQAA  100 (265)
T ss_dssp             CCEEEEBCCTTSSHHHHHHHHHHHTTCE-----EEEEC------HHHHH-------T-S-CTTTHHHHHHHHHHHHHHTC
T ss_pred             CCeEEEECCCCCcchhHHHHHHHHhCCc-----EEEEE------HHHhh-------h-c-cccchHHHHHHHHHHHHhcC
Confidence            4678899999999999999999988644     22222      11111       1 1 11122333444444443346


Q ss_pred             cEEEEEeCCCCc
Q 037337          195 RILVILDNIWEH  206 (247)
Q Consensus       195 r~LlvlDdv~~~  206 (247)
                      +++|+|||++..
T Consensus       101 p~il~ideid~l  112 (265)
T d1r7ra3         101 PCVLFFDELDSI  112 (265)
T ss_dssp             SEEEEESSGGGT
T ss_pred             CcceeHHhhhhc
Confidence            799999999743

>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=98.07  E-value=1.8e-05  Score=62.44  Aligned_cols=85  Identities=16%  Similarity=0.178  Sum_probs=63.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCC------CChHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFRE------ESESGRARSLFS  188 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~------~~~~~~~~~l~~  188 (247)
                      .+++-++|++|+|||+||.+++...+..+  ..++|++....++.+.     ++++|.+.+.      .+.++..+.+..
T Consensus        60 g~i~e~~G~~~~GKT~l~l~~~~~~q~~g--~~~vyIDtE~~~~~e~-----a~~~GvD~d~il~~~~~~~E~~~~~~~~  132 (269)
T d1mo6a1          60 GRVIEIYGPESSGKTTVALHAVANAQAAG--GVAAFIDAEHALDPDY-----AKKLGVDTDSLLVSQPDTGEQALEIADM  132 (269)
T ss_dssp             SSEEEEECSSSSSHHHHHHHHHHHHHHTT--CEEEEEESSCCCCHHH-----HHHHTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             ceeEEEecCCCcHHHHHHHHHHHHHhcCC--CEEEEEECCccCCHHH-----HHHhCCCHHHeEEecCCCHHHHHHHHHH
Confidence            58999999999999999999998877653  4689999998888664     5667766443      344555554444


Q ss_pred             HHcCCCcEEEEEeCCCCc
Q 037337          189 RLNREKRILVILDNIWEH  206 (247)
Q Consensus       189 ~l~~~kr~LlvlDdv~~~  206 (247)
                      .+..++.-|||+|.+-..
T Consensus       133 l~~~~~~~liIiDSi~al  150 (269)
T d1mo6a1         133 LIRSGALDIVVIDSVAAL  150 (269)
T ss_dssp             HHHTTCEEEEEEECSTTC
T ss_pred             HHhcCCCCEEEEeccccc
Confidence            455666789999998654

>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=97.99  E-value=2.3e-05  Score=61.82  Aligned_cols=85  Identities=18%  Similarity=0.171  Sum_probs=63.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCC------CChHHHHHHHH
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFRE------ESESGRARSLF  187 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~------~~~~~~~~~l~  187 (247)
                      ..+++-|+|++|+|||+||..++.......  ..++|++....++.+     +++.+|.+.+.      .+.++..+.+.
T Consensus        56 ~g~itei~G~~~sGKT~l~l~~~~~aqk~g--~~v~yiDtE~~~~~~-----~a~~~Gvd~d~i~~~~~~~~E~~~~~~~  128 (268)
T d1xp8a1          56 RGRITEIYGPESGGKTTLALAIVAQAQKAG--GTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIME  128 (268)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHTT--CCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             CceEEEEecCCccchHHHHHHHHHHHHhCC--CEEEEEECCccCCHH-----HHHHhCCCchhEEEEcCCCHHHHHHHHH
Confidence            357999999999999999999998877653  358999998888874     57778876543      24455555555


Q ss_pred             HHHcCCCcEEEEEeCCCC
Q 037337          188 SRLNREKRILVILDNIWE  205 (247)
Q Consensus       188 ~~l~~~kr~LlvlDdv~~  205 (247)
                      ..+..++.-|||+|.+-.
T Consensus       129 ~l~~~~~~~liIiDSi~a  146 (268)
T d1xp8a1         129 LLVRSGAIDVVVVDSVAA  146 (268)
T ss_dssp             HHHTTTCCSEEEEECTTT
T ss_pred             HHHhcCCCcEEEEecccc
Confidence            555555567999999864

>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=97.94  E-value=2.4e-05  Score=61.63  Aligned_cols=84  Identities=18%  Similarity=0.190  Sum_probs=60.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCC------CChHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFRE------ESESGRARSLFS  188 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~------~~~~~~~~~l~~  188 (247)
                      -+++-|+|++|+||||||.+++.......  ..++|++....++...     ++.++.+.+.      .+.++..+.+..
T Consensus        54 g~itei~G~~gsGKTtl~l~~~~~~q~~g--~~~vyidtE~~~~~~~-----a~~~Gvd~d~v~~~~~~~~E~~~~~i~~  126 (263)
T d1u94a1          54 GRIVEIYGPESSGKTTLTLQVIAAAQREG--KTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEICDA  126 (263)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHHHHHTT--CCEEEEESSCCCCHHH-----HHHTTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             ceEEEEecCCCcHHHHHHHHHHHHHHcCC--CEEEEEccccccCHHH-----HHHhCCCHHHEEEecCCCHHHHHHHHHH
Confidence            47999999999999999999999887653  3589999888887643     6677766442      234455554444


Q ss_pred             HHcCCCcEEEEEeCCCC
Q 037337          189 RLNREKRILVILDNIWE  205 (247)
Q Consensus       189 ~l~~~kr~LlvlDdv~~  205 (247)
                      ..+.++.-|+|+|.+..
T Consensus       127 l~~~~~~~liViDSi~a  143 (263)
T d1u94a1         127 LARSGAVDVIVVDSVAA  143 (263)
T ss_dssp             HHHHTCCSEEEEECGGG
T ss_pred             HHhcCCCCEEEEECccc
Confidence            44444456899999853

>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=97.83  E-value=9.3e-05  Score=56.07  Aligned_cols=59  Identities=14%  Similarity=0.166  Sum_probs=38.9

Q ss_pred             CCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCH--HHHHHHHHHHhCCC
Q 037337          112 NPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDI--RKVQGEIADKLGLT  173 (247)
Q Consensus       112 ~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~--~~l~~~i~~~l~~~  173 (247)
                      ...+.++.++|+.|+||||.+.+++..+..++  ..+..+++ +.+..  .+-++..++.++.+
T Consensus         6 ~~~p~vi~lvGptGvGKTTTiAKLA~~~~~~g--~kV~lit~-Dt~R~gA~eQL~~~a~~l~v~   66 (211)
T d2qy9a2           6 GKAPFVILMVGVNGVGKTTTIGKLARQFEQQG--KSVMLAAG-DTFRAAAVEQLQVWGQRNNIP   66 (211)
T ss_dssp             SCTTEEEEEECCTTSCHHHHHHHHHHHHHTTT--CCEEEECC-CTTCHHHHHHHHHHHHHTTCC
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHHHCC--CcEEEEec-ccccccchhhhhhhhhhcCCc
Confidence            34568999999999999999999998877442  23444444 33333  33345555666654

>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=97.80  E-value=9.4e-06  Score=59.46  Aligned_cols=36  Identities=11%  Similarity=-0.001  Sum_probs=28.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEE
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFS  151 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv  151 (247)
                      ..+|.|+|++|+||||+|+.++..+... +++...++
T Consensus         6 g~~I~l~G~~GsGKTTia~~La~~L~~~-~~~~~~~~   41 (183)
T d1m8pa3           6 GFTIFLTGYMNSGKDAIARALQVTLNQQ-GGRSVSLL   41 (183)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHH-CSSCEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhhc-CCCchhhh
Confidence            4678899999999999999999998765 24455554

>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=97.79  E-value=9.6e-05  Score=55.88  Aligned_cols=59  Identities=20%  Similarity=0.266  Sum_probs=40.3

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCC-CCHHHHHHHHHHHhCCC
Q 037337          113 PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQS-PDIRKVQGEIADKLGLT  173 (247)
Q Consensus       113 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~-~~~~~l~~~i~~~l~~~  173 (247)
                      ++.+++.++|+.|+||||.+.+++..+...+  ..+..+++... ....+-++..++.++.+
T Consensus         4 ~~~~vi~lvGptGvGKTTTiaKLA~~~~~~g--~kV~lit~Dt~R~gA~eQL~~~a~~l~i~   63 (207)
T d1okkd2           4 PKGRVVLVVGVNGVGKTTTIAKLGRYYQNLG--KKVMFCAGDTFRAAGGTQLSEWGKRLSIP   63 (207)
T ss_dssp             CSSSEEEEECSTTSSHHHHHHHHHHHHHTTT--CCEEEECCCCSSTTHHHHHHHHHHHHTCC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCC--CcEEEEEeccccccchhhHhhcccccCce
Confidence            3468999999999999999999998876542  34777766543 23334455555555543

>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=97.78  E-value=2.1e-05  Score=58.47  Aligned_cols=33  Identities=24%  Similarity=0.488  Sum_probs=27.9

Q ss_pred             hcCCCccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          110 LRNPDISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       110 L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      +...+.-+|+|.|++|+||||||+.+...+...
T Consensus        17 ~~~~~~~iIgI~G~~GSGKSTla~~L~~~l~~~   49 (198)
T d1rz3a_          17 IKTAGRLVLGIDGLSRSGKTTLANQLSQTLREQ   49 (198)
T ss_dssp             SCCSSSEEEEEEECTTSSHHHHHHHHHHHHHHT
T ss_pred             ccCCCCEEEEEECCCCCCHHHHHHHHHHHhccc
Confidence            345566789999999999999999999887765

>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=97.75  E-value=7.1e-06  Score=60.43  Aligned_cols=26  Identities=23%  Similarity=0.281  Sum_probs=23.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .+.|+|.|++|+||||||+.+++.+.
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~~~   32 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAVFN   32 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHTT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhC
Confidence            47899999999999999999999764

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=97.75  E-value=8.1e-05  Score=57.31  Aligned_cols=86  Identities=17%  Similarity=0.185  Sum_probs=56.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCC----------------CCCC
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLT----------------FREE  177 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~----------------~~~~  177 (247)
                      ...++.|+|++|+|||+||.+++......  ...+.|++....  ...+... +..++.+                ....
T Consensus        25 ~gsl~li~G~pGsGKT~l~~qia~~~~~~--~~~~~~is~e~~--~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~   99 (242)
T d1tf7a2          25 KDSIILATGATGTGKTLLVSRFVENACAN--KERAILFAYEES--RAQLLRN-AYSWGMDFEEMERQNLLKIVCAYPESA   99 (242)
T ss_dssp             SSCEEEEEECTTSSHHHHHHHHHHHHHTT--TCCEEEEESSSC--HHHHHHH-HHTTSCCHHHHHHTTSEEECCCCGGGS
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHHHh--ccccceeeccCC--HHHHHHH-HHHcCCChHHHhhcCceEEEEeecchh
Confidence            35799999999999999999999987654  456778776543  3333332 2222211                1123


Q ss_pred             ChHHHHHHHHHHHcCCCcEEEEEeCCC
Q 037337          178 SESGRARSLFSRLNREKRILVILDNIW  204 (247)
Q Consensus       178 ~~~~~~~~l~~~l~~~kr~LlvlDdv~  204 (247)
                      ........+...+...+.-++|+|++.
T Consensus       100 ~~~~~~~~i~~~i~~~~~~~vviDs~~  126 (242)
T d1tf7a2         100 GLEDHLQIIKSEINDFKPARIAIDSLS  126 (242)
T ss_dssp             CHHHHHHHHHHHHHTTCCSEEEEECHH
T ss_pred             hHHHHHHHHHHHHHhcCCceeeeecch
Confidence            445556677777766667888999864

>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=97.75  E-value=1.3e-05  Score=65.02  Aligned_cols=105  Identities=18%  Similarity=0.240  Sum_probs=56.7

Q ss_pred             ccccchHHHHHHHHHhc-------CC--CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHH
Q 037337           95 AFESRMSTLNDILGALR-------NP--DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGE  165 (247)
Q Consensus        95 ~~~gR~~~~~~L~~~L~-------~~--~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~  165 (247)
                      .++|.++.++.+...+.       ++  +..++.++|+.|+|||.||+.+++.+-..  -...+-++++...+...+ ..
T Consensus        24 ~v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l~~~--~~~~~~~~~~~~~~~~~~-~~  100 (315)
T d1qvra3          24 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDT--EEAMIRIDMTEYMEKHAV-SR  100 (315)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSS--GGGEEEECTTTCCSSGGG-GG
T ss_pred             eEeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHHHhcCC--CcceEEEeccccccchhh-hh
Confidence            35677777777655442       11  23477889999999999999999987322  122444555444332111 00


Q ss_pred             HHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          166 IADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       166 i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                         -+|.+..... ......+.+.+......+++||+++..
T Consensus       101 ---L~g~~~gyvG-~~~~~~l~~~~~~~p~~Vvl~DEieK~  137 (315)
T d1qvra3         101 ---LIGAPPGYVG-YEEGGQLTEAVRRRPYSVILFDEIEKA  137 (315)
T ss_dssp             ---C---------------CHHHHHHHCSSEEEEESSGGGS
T ss_pred             ---hcCCCCCCcC-cccCChHHHHHHhCCCcEEEEehHhhc
Confidence               0111100000 000123455554446799999999965

>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=97.75  E-value=0.00011  Score=55.64  Aligned_cols=57  Identities=19%  Similarity=0.253  Sum_probs=36.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCC-CHHHHHHHHHHHhCC
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSP-DIRKVQGEIADKLGL  172 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~l~~~i~~~l~~  172 (247)
                      +.+++.++|+.|+||||.+.+++..+..+.  ..+..+++.... ...+-++..++.++.
T Consensus         9 ~~~vi~lvGp~GvGKTTTiaKLA~~~~~~g--~kV~lit~Dt~R~gA~eQL~~~a~~l~v   66 (207)
T d1ls1a2           9 DRNLWFLVGLQGSGKTTTAAKLALYYKGKG--RRPLLVAADTQRPAAREQLRLLGEKVGV   66 (207)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHHHTT--CCEEEEECCSSCHHHHHHHHHHHHHHTC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHCC--CcEEEEecccccchHHHHHHHHHHhcCC
Confidence            357889999999999999999998887552  245555554321 122334444555544

>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=97.74  E-value=7.2e-06  Score=59.07  Aligned_cols=26  Identities=19%  Similarity=0.337  Sum_probs=22.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      +.|.+.|++|+||||+|+.++..+..
T Consensus         3 k~I~l~G~~GsGKSTvak~La~~L~~   28 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQQLNM   28 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTTC
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhCC
Confidence            46888899999999999999998753

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.73  E-value=1e-05  Score=59.67  Aligned_cols=27  Identities=22%  Similarity=0.372  Sum_probs=22.7

Q ss_pred             CCCccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          112 NPDISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       112 ~~~~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      .+++.+|.++|++|+||||+|+.++..
T Consensus        11 ~~~p~liil~G~pGsGKST~a~~l~~~   37 (172)
T d1yj5a2          11 SPNPEVVVAVGFPGAGKSTFIQEHLVS   37 (172)
T ss_dssp             CSSCCEEEEECCTTSSHHHHHHHHTGG
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHh
Confidence            345689999999999999999988653

>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=97.72  E-value=1.1e-05  Score=58.56  Aligned_cols=28  Identities=29%  Similarity=0.387  Sum_probs=25.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      .+++.|+|++|+|||||+..+.+.+..+
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~~l~~~   29 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIPALCAR   29 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHHHT
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHHC
Confidence            3689999999999999999999987765

>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=97.71  E-value=1.2e-05  Score=59.04  Aligned_cols=27  Identities=26%  Similarity=0.336  Sum_probs=23.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      +.|.|+|++|+|||||++.++..+...
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l~~~   28 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVLKSS   28 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHHHHT
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHHHC
Confidence            568999999999999999999988643

>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=97.70  E-value=1.3e-05  Score=60.06  Aligned_cols=29  Identities=17%  Similarity=0.176  Sum_probs=25.6

Q ss_pred             CCCccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          112 NPDISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       112 ~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .+++.+|.|.|++|+||||+|+.++..+.
T Consensus         3 ~~kp~iI~i~G~pGSGKsT~a~~La~~~g   31 (194)
T d1qf9a_           3 KSKPNVVFVLGGPGSGKGTQCANIVRDFG   31 (194)
T ss_dssp             CCCCEEEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHHHC
Confidence            45678999999999999999999998764

>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=97.68  E-value=1.1e-05  Score=58.64  Aligned_cols=25  Identities=28%  Similarity=0.410  Sum_probs=22.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ++|.|.|++|+||||+|+.++..+.
T Consensus         3 klI~i~G~~GsGKTTva~~L~~~~~   27 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAAQLD   27 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHcC
Confidence            5789999999999999999998654

>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=97.68  E-value=0.00021  Score=54.11  Aligned_cols=58  Identities=16%  Similarity=0.164  Sum_probs=39.4

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCC-CHHHHHHHHHHHhCC
Q 037337          113 PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSP-DIRKVQGEIADKLGL  172 (247)
Q Consensus       113 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~l~~~i~~~l~~  172 (247)
                      .++.++.++|+.|+||||.+.+++.++..++  ..+..+++...- ...+-++..++.++.
T Consensus         9 ~~p~vi~lvGptGvGKTTTiAKLAa~~~~~~--~kV~lit~Dt~R~gA~eQL~~~a~~l~i   67 (213)
T d1vmaa2           9 EPPFVIMVVGVNGTGKTTSCGKLAKMFVDEG--KSVVLAAADTFRAAAIEQLKIWGERVGA   67 (213)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHHHHTT--CCEEEEEECTTCHHHHHHHHHHHHHHTC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCC--CceEEEeecccccchhHHHHHHhhhcCc
Confidence            3567999999999999999999998886552  346777665432 222334555555554

>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=97.67  E-value=3.3e-05  Score=60.99  Aligned_cols=54  Identities=17%  Similarity=0.332  Sum_probs=40.8

Q ss_pred             HHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCC
Q 037337          102 TLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSP  157 (247)
Q Consensus       102 ~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~  157 (247)
                      ++..+.+.+...+.++|.++|-||+||||++..++..+...+  ..+..|++....
T Consensus         7 ~~~~~~~~~~~~~~~iii~sGKGGVGKTT~a~nLA~~lA~~G--~rVllvD~Dp~~   60 (279)
T d1ihua2           7 SLSALVDDIARNEHGLIMLMGKGGVGKTTMAAAIAVRLADMG--FDVHLTTSDPAA   60 (279)
T ss_dssp             CHHHHHHHHHTTSCEEEEEECSTTSSHHHHHHHHHHHHHHTT--CCEEEEESCCC-
T ss_pred             cHHHHHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHHHHCC--CcEEEEeCCCCC
Confidence            345566667778889999999999999999999998876653  236667666543

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.67  E-value=1.7e-05  Score=57.81  Aligned_cols=28  Identities=29%  Similarity=0.466  Sum_probs=25.0

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          113 PDISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       113 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ...++++|.|++|+||||+|+.++..+.
T Consensus         4 ~~~~iivl~G~~GsGKsT~a~~La~~l~   31 (171)
T d1knqa_           4 HDHHIYVLMGVSGSGKSAVASEVAHQLH   31 (171)
T ss_dssp             TTSEEEEEECSTTSCHHHHHHHHHHHHT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4568999999999999999999998874

>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=97.66  E-value=0.00019  Score=54.35  Aligned_cols=41  Identities=17%  Similarity=0.075  Sum_probs=27.5

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC
Q 037337          113 PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQ  155 (247)
Q Consensus       113 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~  155 (247)
                      ..+.++.++|+.|+||||.+.+++..+....  ..+..+++..
T Consensus        10 k~p~vi~lvGptGvGKTTTiAKLA~~~~~~g--~kV~lit~Dt   50 (211)
T d1j8yf2          10 KIPYVIMLVGVQGTGKATTAGKLAYFYKKKG--FKVGLVGADV   50 (211)
T ss_dssp             SSSEEEEEECSCCC----HHHHHHHHHHHTT--CCEEEEECCC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCC--CceEEEEeec
Confidence            3568999999999999999999988877542  2466666653

>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=97.65  E-value=1.3e-05  Score=58.28  Aligned_cols=25  Identities=40%  Similarity=0.559  Sum_probs=22.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ..|+|.|++|+||||+|+.++.++.
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~~l~   29 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELASKSG   29 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHC
Confidence            4577999999999999999998764

>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=97.65  E-value=2.6e-05  Score=61.06  Aligned_cols=29  Identities=21%  Similarity=0.316  Sum_probs=25.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      .++.|.++|++|+|||+||+.++......
T Consensus        31 ~P~~ilL~GpPGtGKT~la~~la~~~~~~   59 (273)
T d1gvnb_          31 SPTAFLLGGQPGSGKTSLRSAIFEETQGN   59 (273)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHTTTC
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHhhcc
Confidence            45678899999999999999999987643

>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=97.64  E-value=1.5e-05  Score=56.98  Aligned_cols=23  Identities=26%  Similarity=0.384  Sum_probs=20.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      .+|.|+|++|+||||||+.+...
T Consensus         3 klIii~G~pGsGKTTla~~L~~~   25 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIAK   25 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            57889999999999999998764

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=97.63  E-value=3.6e-05  Score=62.25  Aligned_cols=103  Identities=13%  Similarity=0.161  Sum_probs=58.4

Q ss_pred             cccccchHHHHHHHHHhc-------C--CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHH
Q 037337           94 EAFESRMSTLNDILGALR-------N--PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQG  164 (247)
Q Consensus        94 ~~~~gR~~~~~~L~~~L~-------~--~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~  164 (247)
                      ..++|.++.++.+...+.       +  ....++.++|++|+|||.||+.++.....     ..+-++++...+...   
T Consensus        22 ~~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l~~-----~~i~~d~s~~~~~~~---   93 (315)
T d1r6bx3          22 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGI-----ELLRFDMSEYMERHT---   93 (315)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHTC-----EEEEEEGGGCSSSSC---
T ss_pred             CeecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhhccC-----CeeEeccccccchhh---
Confidence            457888888888766552       1  12457889999999999999999987542     344555554321110   


Q ss_pred             HHHHHhCCCCCCCChHHHHHHHHHHHcCCCcEEEEEeCCCCc
Q 037337          165 EIADKLGLTFREESESGRARSLFSRLNREKRILVILDNIWEH  206 (247)
Q Consensus       165 ~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr~LlvlDdv~~~  206 (247)
                       +.+.++.+.. ......-..+.+.+......+++||+++..
T Consensus        94 -~~~l~g~~~g-y~g~~~~~~l~~~~~~~~~~vvl~DeieKa  133 (315)
T d1r6bx3          94 -VSRLIGAPPG-YVGFDQGGLLTDAVIKHPHAVLLLDEIEKA  133 (315)
T ss_dssp             -CSSSCCCCSC-SHHHHHTTHHHHHHHHCSSEEEEEETGGGS
T ss_pred             -hhhhcccCCC-ccccccCChhhHHHHhCccchhhhcccccc
Confidence             0001111111 000111122344444445688899999865

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=97.55  E-value=2.5e-05  Score=56.91  Aligned_cols=26  Identities=15%  Similarity=0.158  Sum_probs=23.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .++|.|.|++|+||||+|+.+++.+.
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~l~   28 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSVLP   28 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHSS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHcC
Confidence            47899999999999999999999865

>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=97.54  E-value=2.2e-05  Score=58.35  Aligned_cols=28  Identities=21%  Similarity=0.292  Sum_probs=24.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      ..+|.++|++|+||||+|+.++..+...
T Consensus        19 g~vI~L~G~pGSGKTTiAk~La~~l~~~   46 (195)
T d1x6va3          19 GCTVWLTGLSGAGKTTVSMALEEYLVCH   46 (195)
T ss_dssp             CEEEEEESSCHHHHHHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            4678899999999999999999988755

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=97.52  E-value=3.3e-05  Score=56.23  Aligned_cols=27  Identities=26%  Similarity=0.281  Sum_probs=23.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      +...|.|.|++|+||||+|+.+++.+.
T Consensus         4 k~~~I~i~G~~GsGKTT~~~~La~~l~   30 (174)
T d1y63a_           4 KGINILITGTPGTGKTSMAEMIAAELD   30 (174)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHHST
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHhC
Confidence            445689999999999999999998754

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=97.51  E-value=0.0002  Score=57.60  Aligned_cols=71  Identities=11%  Similarity=0.146  Sum_probs=43.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNREKR  195 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr  195 (247)
                      .++.++|+||+|||.||+.++.....+..|   +-++.+.-.+               ..-...+..+..+.+....  .
T Consensus       124 g~~l~~G~pG~GKT~la~ala~~~~~~~~~---~~~~~~~~~~---------------~~~G~~e~~~~~~f~~a~~--~  183 (321)
T d1w44a_         124 GMVIVTGKGNSGKTPLVHALGEALGGKDKY---ATVRFGEPLS---------------GYNTDFNVFVDDIARAMLQ--H  183 (321)
T ss_dssp             EEEEEECSSSSCHHHHHHHHHHHHHTTSCC---EEEEBSCSST---------------TCBCCHHHHHHHHHHHHHH--C
T ss_pred             ceEEEECCCCccHHHHHHHHHHHhcCCCCe---EEEEhhHhhh---------------cccchHHHHHHHHHHHHhh--c
Confidence            456668999999999999999987644223   2234333221               0112233344445544443  4


Q ss_pred             EEEEEeCCCCc
Q 037337          196 ILVILDNIWEH  206 (247)
Q Consensus       196 ~LlvlDdv~~~  206 (247)
                      ++|++|+++..
T Consensus       184 ~ilf~DEid~~  194 (321)
T d1w44a_         184 RVIVIDSLKNV  194 (321)
T ss_dssp             SEEEEECCTTT
T ss_pred             cEEEeehhhhh
Confidence            79999999864

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=97.50  E-value=3.2e-05  Score=56.77  Aligned_cols=27  Identities=15%  Similarity=0.336  Sum_probs=24.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      ++|+|.|++|+||||+++.++..+...
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l~~~   28 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNLRKE   28 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            689999999999999999999998765

>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=97.48  E-value=5e-05  Score=61.21  Aligned_cols=46  Identities=22%  Similarity=0.273  Sum_probs=34.8

Q ss_pred             ccccchHHHHHHHHHhc--------------CCCccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337           95 AFESRMSTLNDILGALR--------------NPDISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus        95 ~~~gR~~~~~~L~~~L~--------------~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .++|.++.++.|...+.              ....+.+.++||+|+|||.||+.+++...
T Consensus        15 ~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~~   74 (309)
T d1ofha_          15 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLAN   74 (309)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             cccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhccc
Confidence            46788887777765441              11346778999999999999999998764

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.46  E-value=5e-05  Score=55.17  Aligned_cols=28  Identities=21%  Similarity=0.227  Sum_probs=25.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccC
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHK  143 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~  143 (247)
                      ++++|+|..|+|||||+.++...+..+.
T Consensus         2 kii~I~G~~gSGKTTli~~l~~~L~~~g   29 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVAAAVREG   29 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHHTT
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHHhCC
Confidence            5889999999999999999999988763

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=97.45  E-value=4.3e-05  Score=55.62  Aligned_cols=25  Identities=24%  Similarity=0.365  Sum_probs=22.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      .++|.|.|++|+||||+|+.+++.+
T Consensus         4 g~iI~l~G~~GsGKSTia~~La~~l   28 (176)
T d1zp6a1           4 GNILLLSGHPGSGKSTIAEALANLP   28 (176)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHTCS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4789999999999999999997654

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.45  E-value=3.9e-05  Score=57.74  Aligned_cols=28  Identities=21%  Similarity=0.340  Sum_probs=24.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      +.+|.++|.+|+||||+|+++++.....
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~~l~~~   29 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTRYLNFI   29 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            3578999999999999999999877644

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.44  E-value=4.4e-05  Score=57.07  Aligned_cols=28  Identities=18%  Similarity=0.269  Sum_probs=24.8

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          113 PDISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       113 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      +..++|.|.|++|+||||+|+.++..+.
T Consensus         6 ~~~~iI~i~GppGSGKsT~a~~La~~~g   33 (196)
T d1ukza_           6 DQVSVIFVLGGPGAGKGTQCEKLVKDYS   33 (196)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHHHSS
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4578999999999999999999998763

>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=97.42  E-value=0.00012  Score=58.01  Aligned_cols=47  Identities=19%  Similarity=0.261  Sum_probs=35.9

Q ss_pred             cCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCH
Q 037337          111 RNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDI  159 (247)
Q Consensus       111 ~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~  159 (247)
                      .++.++++.+.|-||+||||+|..++..+..++  ..+..|++....+.
T Consensus         4 ~~~~p~~i~~sGKGGVGKTTvaa~lA~~lA~~G--~rVLlvD~Dp~~~l   50 (296)
T d1ihua1           4 LQNIPPYLFFTGKGGVGKTSISCATAIRLAEQG--KRVLLVSTDPASNV   50 (296)
T ss_dssp             GSSCCSEEEEECSTTSSHHHHHHHHHHHHHHTT--CCEEEEECCTTCCH
T ss_pred             CCCCCeEEEEECCCcChHHHHHHHHHHHHHHCC--CCEEEEeCCCCCCH
Confidence            345578999999999999999999999887653  24667777655443

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.41  E-value=3.5e-05  Score=56.09  Aligned_cols=25  Identities=20%  Similarity=0.365  Sum_probs=21.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          118 LGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       118 v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      |++.|++|+||||+++.++..+...
T Consensus         4 IvliG~~G~GKSTig~~La~~l~~~   28 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAKALGVG   28 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHTCC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCC
Confidence            5566999999999999999988644

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=97.39  E-value=4.5e-05  Score=55.75  Aligned_cols=26  Identities=27%  Similarity=0.354  Sum_probs=22.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ..|.+.|++|+||||+|+.++..+..
T Consensus         3 ~~Iil~G~~GsGKSTia~~LA~~Lg~   28 (170)
T d1e6ca_           3 EPIFMVGARGCGMTTVGRELARALGY   28 (170)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHHTC
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHhCC
Confidence            34678899999999999999998764

>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=97.38  E-value=5e-05  Score=55.10  Aligned_cols=24  Identities=25%  Similarity=0.418  Sum_probs=21.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          118 LGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       118 v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      |+|.|++|+||||+++.++.++..
T Consensus         3 I~liG~~GsGKsTi~k~La~~l~~   26 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAKDLDL   26 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCC
Confidence            678899999999999999999853

>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=97.37  E-value=0.00034  Score=53.37  Aligned_cols=89  Identities=13%  Similarity=0.157  Sum_probs=53.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccC----CCCEEEEEEeCCCCCHHHHHHHHHHHhCCC-------------CCCC
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHK----LFDLVVFSEMSQSPDIRKVQGEIADKLGLT-------------FREE  177 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~----~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~-------------~~~~  177 (247)
                      -+++.|+|++|+|||+||.+++.......    .-...+|++.........+ ......++..             ....
T Consensus        34 G~~~li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~  112 (251)
T d1szpa2          34 GSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRL-VSIAQRFGLDPDDALNNVAYARAYNAD  112 (251)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSSCCCGGGG-HHHHHHTCCCHHHHGGGEEEEECCSTT
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHhhhhhhhccCCceEEEEeecchHHHHHH-HHHHHhcCCchhhhhcceEEEeccchh
Confidence            47999999999999999999987643221    1245788887766653332 2222333221             1112


Q ss_pred             ChHHHHHHHHHHHcCCCcEEEEEeCCC
Q 037337          178 SESGRARSLFSRLNREKRILVILDNIW  204 (247)
Q Consensus       178 ~~~~~~~~l~~~l~~~kr~LlvlDdv~  204 (247)
                      ........+.+.+......++++|.+.
T Consensus       113 ~~~~~~~~~~~~~~~~~~~~~~~ds~~  139 (251)
T d1szpa2         113 HQLRLLDAAAQMMSESRFSLIVVDSVM  139 (251)
T ss_dssp             THHHHHHHTHHHHHHSCEEEEEEETGG
T ss_pred             HHHHHHHHHHHHhhccccceeeehhhh
Confidence            223334444455544466888888874

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=97.37  E-value=5.7e-05  Score=55.21  Aligned_cols=24  Identities=33%  Similarity=0.522  Sum_probs=22.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          118 LGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       118 v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      |+|+|++|+|||||++.++..+..
T Consensus         3 i~I~G~~G~GKSTLl~~i~~~l~~   26 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVERLGK   26 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHGG
T ss_pred             EEEECCCCcHHHHHHHHHHhcCCC
Confidence            789999999999999999998764

>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=97.33  E-value=0.00014  Score=57.08  Aligned_cols=39  Identities=18%  Similarity=0.296  Sum_probs=31.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCC
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQS  156 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~  156 (247)
                      +.|+|+|-||+||||+|..++..+...+ + .+.-+++...
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA~~LA~~G-~-rVllID~D~q   40 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLTSGLHAMG-K-TIMVVGCDPK   40 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHTTT-C-CEEEEEECTT
T ss_pred             CEEEEECCCcCCHHHHHHHHHHHHHhCC-C-cEEEEecCCC
Confidence            5789999999999999999999987652 2 4666777643

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=97.29  E-value=0.00013  Score=53.61  Aligned_cols=27  Identities=22%  Similarity=0.367  Sum_probs=24.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      ++|+|.|++|+||||+++.+++.+...
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~L~~~   28 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEILDNQ   28 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            578999999999999999999998755

>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=97.25  E-value=9e-05  Score=56.13  Aligned_cols=26  Identities=31%  Similarity=0.395  Sum_probs=23.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .++|+|.||+|+||||+|+.+++++.
T Consensus         3 ~piI~I~GppGSGKgT~ak~La~~~g   28 (225)
T d1ckea_           3 APVITIDGPSGAGKGTLCKAMAEALQ   28 (225)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhC
Confidence            36899999999999999999999886

>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=97.25  E-value=9.2e-05  Score=55.06  Aligned_cols=25  Identities=20%  Similarity=0.162  Sum_probs=22.7

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .+|.|.|++|+||||+|+.+++.+.
T Consensus         2 ~iI~i~GppGSGKsT~a~~La~~~g   26 (194)
T d1teva_           2 LVVFVLGGPGAGKGTQCARIVEKYG   26 (194)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhC
Confidence            5789999999999999999998763

>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=97.25  E-value=0.001  Score=52.11  Aligned_cols=90  Identities=18%  Similarity=0.285  Sum_probs=58.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCC-CHHHHHHHHHHHhCCC-------------CCCCChH-
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSP-DIRKVQGEIADKLGLT-------------FREESES-  180 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~-~~~~l~~~i~~~l~~~-------------~~~~~~~-  180 (247)
                      ..++|.|.+|+|||+|+..+++..... +-+..+|+-+++.. ...++..++.+.--..             ....+.. 
T Consensus        69 Qr~~If~~~g~GKt~l~~~i~~~~~~~-~~~v~V~~~iGer~~ev~~~~~~~~~~~~~~~~~~~~~tvvv~~~s~~~~~~  147 (276)
T d2jdid3          69 GKIGLFGGAGVGKTVLIMELINNVAKA-HGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSKVALVYGQMNEPPGA  147 (276)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHTTT-CSSEEEEEEESCCHHHHHHHHHHHHHHTSSCSSSSCCCEEEEEECTTSCHHH
T ss_pred             CEEEeeCCCCCCHHHHHHHHHHHHHhh-CCCeEEEEEeccChHHHHHHHHHHHhcCccccccccceEEEEEECCCCCHHH
Confidence            568999999999999999999875432 24567888888764 4556666666531110             1112221 


Q ss_pred             -----HHHHHHHHHHc--CCCcEEEEEeCCCCc
Q 037337          181 -----GRARSLFSRLN--REKRILVILDNIWEH  206 (247)
Q Consensus       181 -----~~~~~l~~~l~--~~kr~LlvlDdv~~~  206 (247)
                           ...-.+.+++.  .++.+|+++||+...
T Consensus       148 r~~~~~~a~~iAEyf~~~~G~~VLv~~Dsltr~  180 (276)
T d2jdid3         148 RARVALTGLTVAEYFRDQEGQDVLLFIDNIFRF  180 (276)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCSCEEEEEECTHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCCeEEEEEcchhHH
Confidence                 12235667774  367899999998643

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=97.24  E-value=0.00027  Score=57.15  Aligned_cols=55  Identities=18%  Similarity=0.234  Sum_probs=37.5

Q ss_pred             HHHHHHHHhc--CCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCC
Q 037337          102 TLNDILGALR--NPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQS  156 (247)
Q Consensus       102 ~~~~L~~~L~--~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~  156 (247)
                      ...+|++.+.  ..+..+|+|.|+||+|||||.-.+...+....+--.++-++.++.
T Consensus        36 ~~~~~~~~~~~~~~~~~~igitG~pGaGKSTli~~l~~~~~~~g~~vaViavDpss~   92 (323)
T d2qm8a1          36 AVRDLIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPSST   92 (323)
T ss_dssp             HHHHHHHHHGGGCCCSEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECGGGG
T ss_pred             HHHHHHHHhhhccCCceEEeeeCCCCCCHHHHHHHHHHHHhhcCCceeeeecccccH
Confidence            3445555553  446788999999999999999999988765432223455544444

>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=97.23  E-value=9.5e-05  Score=54.86  Aligned_cols=26  Identities=19%  Similarity=0.082  Sum_probs=22.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      +..|.|.|++|+||||+|+.+++.+.
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La~~~~   28 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIKTKYQ   28 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHC
Confidence            35678999999999999999998874

>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=97.21  E-value=0.00033  Score=56.67  Aligned_cols=61  Identities=20%  Similarity=0.207  Sum_probs=35.6

Q ss_pred             HHHHHHhc--CCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHH
Q 037337          104 NDILGALR--NPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQG  164 (247)
Q Consensus       104 ~~L~~~L~--~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~  164 (247)
                      .+|+..+.  ..+..+|+|+|++|+|||||...+...+....+--+++-++.+...+-..++.
T Consensus        41 ~~ll~~~~~~~~~~~~IgitG~pGaGKSTLi~~l~~~~~~~g~~vavlavDpss~~~ggailg  103 (327)
T d2p67a1          41 TQLLDAIMPYCGNTLRLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIAVDPSSPVTGGSILG  103 (327)
T ss_dssp             HHHHHHHGGGCSCSEEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC----------
T ss_pred             HHHHHHhhhccCCceEEEeeCCCCCCHHHHHHHHHHHHHhcCCceeeecCCCceeeecccccc
Confidence            44554443  44678999999999999999999998877653222344444444444444443

>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=97.19  E-value=0.00022  Score=53.95  Aligned_cols=32  Identities=25%  Similarity=0.338  Sum_probs=27.0

Q ss_pred             hcCCCccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          110 LRNPDISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       110 L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      +...+..+|-+.|++|+||||||+.+.+.+..
T Consensus        19 ~~~~kg~vIwltGlsGsGKTTia~~L~~~l~~   50 (208)
T d1m7ga_          19 LRNQRGLTIWLTGLSASGKSTLAVELEHQLVR   50 (208)
T ss_dssp             HHTSSCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             HhCCCCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            44566789999999999999999999987643

>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=97.14  E-value=0.00013  Score=53.52  Aligned_cols=24  Identities=21%  Similarity=0.304  Sum_probs=21.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .|.|.|++|+||||+|+.++..+.
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~~   25 (182)
T d1zina1           2 NLVLMGLPGAGKGTQAEKIVAAYG   25 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
Confidence            377999999999999999999874

>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=97.12  E-value=0.00016  Score=54.67  Aligned_cols=27  Identities=15%  Similarity=0.263  Sum_probs=23.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      +-+|+|.|..|+||||||+.+...+..
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~~l~~   28 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQLLGQ   28 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHTTG
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhch
Confidence            458999999999999999999988754

>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=97.11  E-value=0.00016  Score=53.88  Aligned_cols=26  Identities=19%  Similarity=0.236  Sum_probs=23.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .++|.|.|++|+||||+|..++..+.
T Consensus         8 ~~iI~l~G~pGSGKsT~a~~La~~~g   33 (194)
T d3adka_           8 SKIIFVVGGPGSGKGTQCEKIVQKYG   33 (194)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHTC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            47899999999999999999998753

>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=97.10  E-value=0.00016  Score=54.86  Aligned_cols=25  Identities=24%  Similarity=0.307  Sum_probs=22.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      -+|+|-|++|+||||+|+.++.++.
T Consensus         4 i~IaIdGp~GsGKgT~ak~La~~lg   28 (223)
T d1q3ta_           4 IQIAIDGPASSGKSTVAKIIAKDFG   28 (223)
T ss_dssp             CEEEEECSSCSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3678999999999999999999875

>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=97.08  E-value=0.00015  Score=58.81  Aligned_cols=47  Identities=19%  Similarity=0.217  Sum_probs=34.7

Q ss_pred             CCcccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHH
Q 037337           92 GYEAFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus        92 ~~~~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      +...++|.+.....|.-..-..+..-+.+.|++|+|||+||+.+..-
T Consensus         5 ~f~~I~Gq~~~kral~laa~~~~~h~vLl~G~pG~GKT~lar~~~~i   51 (333)
T d1g8pa_           5 PFSAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAAL   51 (333)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHHH
T ss_pred             ChhhccCcHHHHHHHHHHHhccCCCeEEEECCCCccHHHHHHHHHHh
Confidence            34678999877766554333333346889999999999999999864

>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=97.07  E-value=0.00016  Score=53.12  Aligned_cols=24  Identities=25%  Similarity=0.236  Sum_probs=21.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .|+|.|++|+||||+|+.++..+.
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~~g   25 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEKLG   25 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
Confidence            467889999999999999998874

>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=97.07  E-value=0.00034  Score=55.42  Aligned_cols=40  Identities=20%  Similarity=0.267  Sum_probs=31.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCC
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSP  157 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~  157 (247)
                      +.|+|+|-||+||||+|.+++..+...+ + .+.-|++..+.
T Consensus         3 r~IaisgKGGVGKTT~a~NLA~~LA~~G-~-rVLlID~DpQ~   42 (289)
T d2afhe1           3 RQCAIYGKGGIGKSTTTQNLVAALAEMG-K-KVMIVGCDPKA   42 (289)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHHTT-C-CEEEEEECSSS
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHCC-C-CEEEEecCCCC
Confidence            5678899999999999999999887552 2 47777876543

>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=97.06  E-value=0.00017  Score=53.06  Aligned_cols=24  Identities=21%  Similarity=0.331  Sum_probs=21.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .|.|.|++|+||||+|+.++..+.
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~g   25 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEKYG   25 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
Confidence            377899999999999999999874

>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=97.03  E-value=0.00022  Score=52.95  Aligned_cols=26  Identities=19%  Similarity=0.348  Sum_probs=22.0

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .-.|.|.|++|+||||+|+.++..+.
T Consensus         6 ~mrIiliG~PGSGKtT~a~~La~~~g   31 (189)
T d2ak3a1           6 LLRAAIMGAPGSGKGTVSSRITKHFE   31 (189)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHBC
T ss_pred             ceeEEEECCCCCCHHHHHHHHHHHHC
Confidence            34567889999999999999998754

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.03  E-value=0.00017  Score=53.61  Aligned_cols=24  Identities=25%  Similarity=0.379  Sum_probs=21.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .|+|.||+|+|||||++.++....
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~~~   25 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQEHS   25 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHhCC
Confidence            478999999999999999988764

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.98  E-value=0.0002  Score=52.99  Aligned_cols=25  Identities=28%  Similarity=0.337  Sum_probs=22.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      +.|+|+|++|+|||||++.++.+..
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~~~~   26 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFAEYP   26 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhCC
Confidence            4588999999999999999988754

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.97  E-value=0.00023  Score=52.31  Aligned_cols=24  Identities=17%  Similarity=0.248  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .|+|.|++|+||||+|+.++..+.
T Consensus         4 rIvl~G~pGSGKtT~a~~La~~~g   27 (180)
T d1akya1           4 RMVLIGPPGAGKGTQAPNLQERFH   27 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            356789999999999999998764

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=96.96  E-value=0.0011  Score=50.77  Aligned_cols=47  Identities=19%  Similarity=0.195  Sum_probs=35.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhccc----CCCCEEEEEEeCCCCCHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNH----KLFDLVVFSEMSQSPDIRK  161 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~----~~f~~~~wv~~~~~~~~~~  161 (247)
                      -+++.|+|++|+|||+||.+++.....+    ......+|+..........
T Consensus        36 G~~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (254)
T d1pzna2          36 QAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPER   86 (254)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHhhchHHhcCCCceEEEEeccchhHHHH
Confidence            4799999999999999999998875432    1235578888877766544

>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=96.96  E-value=0.0003  Score=51.99  Aligned_cols=24  Identities=21%  Similarity=0.185  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .|+|.|++|+||||+|+.++..+.
T Consensus         5 riil~G~pGSGKsT~a~~La~~~g   28 (190)
T d1ak2a1           5 RAVLLGPPGAGKGTQAPKLAKNFC   28 (190)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            344789999999999999998764

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.91  E-value=0.00027  Score=51.77  Aligned_cols=24  Identities=17%  Similarity=0.070  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .|.|.|++|+||||+|+.++.++.
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~~~~   25 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIMEKYG   25 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            367899999999999999998764

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.90  E-value=0.00029  Score=51.83  Aligned_cols=25  Identities=12%  Similarity=0.324  Sum_probs=22.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ++|+|+|++|+|||||++.+..+..
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~~~~   27 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRERIP   27 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHST
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhCC
Confidence            5789999999999999999987753

>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=96.83  E-value=0.0015  Score=49.31  Aligned_cols=28  Identities=21%  Similarity=0.204  Sum_probs=24.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      ...|+|-|+-|+||||+++.+.+.++.+
T Consensus         3 Gk~I~iEG~DGsGKST~~~~L~~~L~~~   30 (214)
T d1tmka_           3 GKLILIEGLDRTGKTTQCNILYKKLQPN   30 (214)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHTTTS
T ss_pred             eEEEEEECCCCCcHHHHHHHHHHHHHhC
Confidence            4689999999999999999999987653

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.77  E-value=0.0013  Score=49.39  Aligned_cols=27  Identities=11%  Similarity=0.245  Sum_probs=24.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      ..|+|.|+.|+||||+++.+++.+...
T Consensus         4 ~lI~ieG~dGsGKsT~~~~L~~~L~~~   30 (209)
T d1nn5a_           4 ALIVLEGVDRAGKSTQSRKLVEALCAA   30 (209)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            678999999999999999999998776

>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=96.76  E-value=0.0073  Score=46.86  Aligned_cols=38  Identities=13%  Similarity=0.121  Sum_probs=28.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeC
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMS  154 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~  154 (247)
                      .++.|.|.+|+|||+|+.+++........+ .+.|++..
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            688899999999999999999875433222 35566544

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=96.76  E-value=0.0014  Score=49.40  Aligned_cols=41  Identities=17%  Similarity=0.107  Sum_probs=28.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQ  155 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~  155 (247)
                      .-.++.|+|.+|+|||+||.+++....... -..++|++...
T Consensus        25 ~G~~~~I~G~~G~GKT~la~~~~~~~~~~~-~~~~~~~s~e~   65 (242)
T d1tf7a1          25 IGRSTLVSGTSGTGKTLFSIQFLYNGIIEF-DEPGVFVTFEE   65 (242)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHHH-CCCEEEEESSS
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHHHhc-CCCcccccccC
Confidence            348899999999999999988765432221 12356665543

>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=96.73  E-value=0.00077  Score=53.22  Aligned_cols=97  Identities=21%  Similarity=0.211  Sum_probs=53.9

Q ss_pred             HHHHHhcC-CCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEE-EeCCCCCHHHHHHHHHHHhC----CCCCCCC
Q 037337          105 DILGALRN-PDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFS-EMSQSPDIRKVQGEIADKLG----LTFREES  178 (247)
Q Consensus       105 ~L~~~L~~-~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv-~~~~~~~~~~l~~~i~~~l~----~~~~~~~  178 (247)
                      ++++.+.. .+-..++|.|.+|+|||+|+.++++...... .++++++ .+....  ++ ..++.+...    .+....+
T Consensus        32 r~ID~l~PigrGQr~~I~g~~g~GKT~l~~~i~~~~~~~~-~~~v~~~~~iger~--~e-v~~~~~~~~~~vv~~t~d~~  107 (289)
T d1xpua3          32 RVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNH-PDCVLMVLLIDERP--EE-VTEMQRLVKGEVVASTFDEP  107 (289)
T ss_dssp             HHHHHHSCCBTTCEEEEEECSSSSHHHHHHHHHHHHHHHC-TTSEEEEEEEEECH--HH-HHHHHHHCSSEEEEEETTSC
T ss_pred             eeeeecccccCCCeeeEeCCCCCCHHHHHHHHHHHHhhcC-CCeEEEEEeeceeH--HH-HHhHHhhcceEEEeccCCCc
Confidence            45665542 2346788999999999999999998776542 3333333 333322  22 122222221    0111122


Q ss_pred             hH------HHHHHHHHHH-cCCCcEEEEEeCCCC
Q 037337          179 ES------GRARSLFSRL-NREKRILVILDNIWE  205 (247)
Q Consensus       179 ~~------~~~~~l~~~l-~~~kr~LlvlDdv~~  205 (247)
                      ..      ...-.+.+++ ..++.+||++||+..
T Consensus       108 ~~~r~~~~~~a~~iAEyfrd~G~dVLli~Dsltr  141 (289)
T d1xpua3         108 ASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITR  141 (289)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTTCEEEEEESCHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHhccCceeecCcHHH
Confidence            11      2233455666 346789999999854

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.69  E-value=0.00055  Score=50.30  Aligned_cols=25  Identities=20%  Similarity=0.412  Sum_probs=22.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      +.|+|+||+|+|||||++.+..+..
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~~~~   28 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLITKHP   28 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CcEEEECCCCCCHHHHHHHHHHhCC
Confidence            6789999999999999999987643

>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=96.68  E-value=0.0024  Score=50.95  Aligned_cols=42  Identities=12%  Similarity=0.077  Sum_probs=30.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCC
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQ  155 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~  155 (247)
                      .+-+|+|.|.+|+||||+|+.+...+.....-..+.-++...
T Consensus        79 ~P~iIGIaG~sgSGKSTla~~L~~lL~~~~~~~~v~~Is~D~  120 (308)
T d1sq5a_          79 IPYIISIAGSVAVGKSTTARVLQALLSRWPEHRRVELITTDG  120 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGG
T ss_pred             CCEEEEEeCCCCCCCcHHHHHHHHHHhhhcCCCceEEEeeee
Confidence            467999999999999999999998876431112344454443

>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=96.63  E-value=0.0012  Score=50.04  Aligned_cols=39  Identities=18%  Similarity=0.267  Sum_probs=31.0

Q ss_pred             cEEEEE-cCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCC
Q 037337          116 SMLGIC-GMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQS  156 (247)
Q Consensus       116 ~~v~I~-G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~  156 (247)
                      ++|+|+ |-||+||||+|..++..+...  -..+.++++...
T Consensus         2 kvIav~s~KGGvGKTtia~nlA~~la~~--g~~VlliD~D~~   41 (232)
T d1hyqa_           2 RTITVASGKGGTGKTTITANLGVALAQL--GHDVTIVDADIT   41 (232)
T ss_dssp             EEEEEEESSSCSCHHHHHHHHHHHHHHT--TCCEEEEECCCS
T ss_pred             EEEEEECCCCCChHHHHHHHHHHHHHhC--CCCEEEEeCCCC
Confidence            567776 899999999999999998765  335788887643

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=96.63  E-value=0.0019  Score=49.83  Aligned_cols=45  Identities=16%  Similarity=0.324  Sum_probs=34.7

Q ss_pred             ccccchHHHHHHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337           95 AFESRMSTLNDILGALRN--PDISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus        95 ~~~gR~~~~~~L~~~L~~--~~~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      +|||....++++.+.+..  .....|.|+|..|+|||++|+.+...-
T Consensus         1 ~~v~~S~~~~~~~~~~~~~a~~~~pvlI~Ge~GtGK~~~A~~ih~~s   47 (247)
T d1ny5a2           1 EYVFESPKMKEILEKIKKISCAECPVLITGESGVGKEVVARLIHKLS   47 (247)
T ss_dssp             CCCCCSHHHHHHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CeEecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhc
Confidence            478888888888777652  223567899999999999999997643

>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=96.58  E-value=0.0026  Score=47.56  Aligned_cols=35  Identities=26%  Similarity=0.349  Sum_probs=27.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEE
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFS  151 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv  151 (247)
                      +.|+|-|+.|+||||++..+.+.+.... +..+.+.
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~~L~~~g-~~~~~~~   37 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVETLEQLG-IRDMVFT   37 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHHHTT-CCCEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHhCC-CCeEEEe
Confidence            5789999999999999999999887653 4444444

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=96.56  E-value=0.00076  Score=51.44  Aligned_cols=25  Identities=32%  Similarity=0.492  Sum_probs=22.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      +|+|.|+.|+|||||...+.+....
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~~~~   26 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRYLED   26 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHTT
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHHhh
Confidence            6899999999999999999876653

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=96.54  E-value=0.0016  Score=53.20  Aligned_cols=30  Identities=20%  Similarity=0.128  Sum_probs=26.2

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          113 PDISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       113 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      +..+.+.++||+|+|||++|..+++.....
T Consensus       152 ~~~~~~~~~g~~~~gk~~~~~~~~~~~~~~  181 (362)
T d1svma_         152 PKKRYWLFKGPIDSGKTTLAAALLELCGGK  181 (362)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHHCCE
T ss_pred             CCcCeEEEECCCCCCHHHHHHHHHHHcCCC
Confidence            345789999999999999999999988754

>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=96.54  E-value=0.00043  Score=51.31  Aligned_cols=27  Identities=22%  Similarity=0.107  Sum_probs=23.2

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          113 PDISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       113 ~~~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      .++.+|+|-|..|+||||+++.+.+.+
T Consensus         7 ~kp~~I~ieG~~GsGKTTl~~~L~~~l   33 (197)
T d2vp4a1           7 TQPFTVLIEGNIGSGKTTYLNHFEKYK   33 (197)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGGGT
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            345689999999999999999998765

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.53  E-value=0.003  Score=48.11  Aligned_cols=46  Identities=15%  Similarity=0.099  Sum_probs=35.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcc----cCCCCEEEEEEeCCCCCHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKN----HKLFDLVVFSEMSQSPDIR  160 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~----~~~f~~~~wv~~~~~~~~~  160 (247)
                      -+++.|+|++|+|||+||.+++.....    ...+..+.|+.........
T Consensus        37 G~~~~i~G~~GsGKT~lalq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (258)
T d1v5wa_          37 MAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPD   86 (258)
T ss_dssp             SEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHhhhhcccccceEEEechHHHHHHH
Confidence            479999999999999999999986432    1234568888877766644

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.51  E-value=0.0047  Score=45.58  Aligned_cols=45  Identities=13%  Similarity=-0.012  Sum_probs=31.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccC----CCCEEEEEEeCCCCCH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHK----LFDLVVFSEMSQSPDI  159 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~----~f~~~~wv~~~~~~~~  159 (247)
                      -.++.|.|++|+|||+||.+++.......    .+....++........
T Consensus        23 G~v~~i~G~~GsGKT~l~l~la~~~~~~~~~~~~~~~~~~~~~~~~~~~   71 (242)
T d1n0wa_          23 GSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRP   71 (242)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCH
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHHHHHhhccccccceehhhhhhhhhHH
Confidence            47999999999999999999988754321    1234555555544443

>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=96.49  E-value=0.00083  Score=47.53  Aligned_cols=22  Identities=18%  Similarity=0.289  Sum_probs=19.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHh
Q 037337          118 LGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       118 v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      |+|+|.+|+|||||...+....
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~~   24 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLGE   24 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            6799999999999999998764

>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=0.0027  Score=50.02  Aligned_cols=57  Identities=9%  Similarity=0.037  Sum_probs=36.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCC-CEEEEEEeCCCCCHHHHHHHHHHHh
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLF-DLVVFSEMSQSPDIRKVQGEIADKL  170 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f-~~~~wv~~~~~~~~~~l~~~i~~~l  170 (247)
                      .+-+|+|.|..|+|||||+..+...+...... ..+..++...-.-..+-...+....
T Consensus        26 ~P~iIGi~G~qGSGKSTl~~~l~~~L~~~~~~~~~v~~iS~DdfY~t~~~r~~L~~~~   83 (286)
T d1odfa_          26 CPLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDFYLTHEDQLKLNEQF   83 (286)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGGBCCHHHHHHHHHHT
T ss_pred             CCEEEEeECCCCCCHHHHHHHHHHHHHHHhCCCcceEeeccCCCCCCHHHHHHHhhhc
Confidence            35689999999999999999998876543111 2355566555433222234445443

>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=96.47  E-value=0.0009  Score=49.34  Aligned_cols=22  Identities=27%  Similarity=0.398  Sum_probs=19.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVA  136 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~  136 (247)
                      +-+|+|+|..|+||||+|..+.
T Consensus         3 p~IIgitG~~gSGKstva~~l~   24 (191)
T d1uf9a_           3 PIIIGITGNIGSGKSTVAALLR   24 (191)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH
Confidence            4689999999999999998773

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.42  E-value=0.0011  Score=49.74  Aligned_cols=25  Identities=16%  Similarity=0.303  Sum_probs=22.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .+++|+||+|+|||||.+.+.....
T Consensus         3 ~livi~GPSG~GK~tl~~~L~~~~p   27 (205)
T d1s96a_           3 TLYIVSAPSGAGKSSLIQALLKTQP   27 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhCC
Confidence            5788999999999999999988743

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.40  E-value=0.001  Score=50.88  Aligned_cols=28  Identities=21%  Similarity=0.228  Sum_probs=24.7

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      +++.|+|-|.-|+||||+++.+.+.+..
T Consensus         1 ~pk~IviEG~~GsGKST~~~~L~~~l~~   28 (241)
T d2ocpa1           1 GPRRLSIEGNIAVGKSTFVKLLTKTYPE   28 (241)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHCTT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHhh
Confidence            3578999999999999999999987653

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=96.40  E-value=0.00061  Score=53.85  Aligned_cols=29  Identities=10%  Similarity=0.344  Sum_probs=22.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      +..+|+|.|.+|+||||+++.+.+.+...
T Consensus         3 k~pIIgIaG~SGSGKTTva~~l~~i~~~~   31 (288)
T d1a7ja_           3 KHPIISVTGSSGAGTSTVKHTFDQIFRRE   31 (288)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHHhhc
Confidence            46799999999999999999998877654

>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=96.40  E-value=0.0025  Score=48.15  Aligned_cols=37  Identities=22%  Similarity=0.364  Sum_probs=30.0

Q ss_pred             cEEEEE-cCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeC
Q 037337          116 SMLGIC-GMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMS  154 (247)
Q Consensus       116 ~~v~I~-G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~  154 (247)
                      ++|+|+ +-||+||||+|..++..+...+  ..++.+++.
T Consensus         3 ~vIav~~~kGGvGKTtia~nLA~~la~~g--~~VlliD~D   40 (237)
T d1g3qa_           3 RIISIVSGKGGTGKTTVTANLSVALGDRG--RKVLAVDGD   40 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHHHHTT--CCEEEEECC
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHHHHhCC--CCEEEEeCC
Confidence            578888 7899999999999999988652  347777765

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=96.40  E-value=0.0019  Score=52.81  Aligned_cols=46  Identities=17%  Similarity=0.156  Sum_probs=34.7

Q ss_pred             cccccchHHHHHHHHHhc------------------------------CCCccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337           94 EAFESRMSTLNDILGALR------------------------------NPDISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus        94 ~~~~gR~~~~~~L~~~L~------------------------------~~~~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ..++|.++.++.+..++.                              +.....+...||.|+|||.||+.++...
T Consensus        17 ~~ViGQd~Akkava~Avrn~~rR~~~~~~~r~~~~~~~~~~~~~~~~~~~p~~niLfiGPTGvGKTElAk~LA~~~   92 (364)
T d1um8a_          17 NYVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHL   92 (364)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CeecChHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccccccccCCCcceeeeCCCCccHHHHHHHHHhhc
Confidence            457888888777654441                              1234668889999999999999998765

>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=96.39  E-value=0.012  Score=45.37  Aligned_cols=25  Identities=28%  Similarity=0.474  Sum_probs=22.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .+..|+|.+|+|||+|+..++..+.
T Consensus        30 ~~~~i~G~~G~GKS~l~l~la~~ia   54 (274)
T d1nlfa_          30 TVGALVSPGGAGKSMLALQLAAQIA   54 (274)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            5788999999999999999988754

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=96.38  E-value=0.0023  Score=48.50  Aligned_cols=55  Identities=16%  Similarity=0.148  Sum_probs=36.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhcccC--------------CCCEEEEEEeCCCCCHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNHK--------------LFDLVVFSEMSQSPDIRKVQGEIADKL  170 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~~--------------~f~~~~wv~~~~~~~~~~l~~~i~~~l  170 (247)
                      -.++.|.|.+|+|||+||.+++.......              ....+.|++........ ....+...+
T Consensus        34 G~l~~i~G~~G~GKT~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~e~~~~~~-~~~~~~~~~  102 (258)
T d2i1qa2          34 QSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPE-RIMQMAEHA  102 (258)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHH-HHHHHHHHH
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHhcCCCceEEeecccchhcCceEEEEEecCCcCHH-HHHHHHhhc
Confidence            47999999999999999999998754321              11236788776655533 333444444

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.37  E-value=0.0021  Score=47.79  Aligned_cols=26  Identities=23%  Similarity=0.456  Sum_probs=23.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          117 MLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      .|+|.|.-|+||||++..+.+.+..+
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~l~~~   27 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGAFRAA   27 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            58899999999999999999988765

>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=96.33  E-value=0.0045  Score=48.43  Aligned_cols=88  Identities=16%  Similarity=0.247  Sum_probs=51.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCC-HHHHHHHHHHH--hCC-----CCCCCCh------HH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPD-IRKVQGEIADK--LGL-----TFREESE------SG  181 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~-~~~l~~~i~~~--l~~-----~~~~~~~------~~  181 (247)
                      ..+.|.|.+|+|||+|+.........+  .+.++|+.+..... ..++...+...  +..     +..+.+.      ..
T Consensus        68 Qr~~Ifg~~g~GKt~l~~~~~~~~~~~--~~v~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~tsd~p~~~r~~a~~  145 (276)
T d1fx0a3          68 QRELIIGDRQTGKTAVATDTILNQQGQ--NVICVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYLAPY  145 (276)
T ss_dssp             CBCBEEESSSSSHHHHHHHHHHTCCTT--TCEEEEEEESCCHHHHHHHHHHTGGGTGGGSEEEEEECTTSCGGGTTHHHH
T ss_pred             ceEeeccCCCCChHHHHHHHHhhhccc--CceeeeeeecchhHHHHHHHHhhccCCcceeeeecccccCccHHHHHHHHH
Confidence            457889999999999999876554433  45677877776542 23333333221  100     0111111      12


Q ss_pred             HHHHHHHHH-cCCCcEEEEEeCCCC
Q 037337          182 RARSLFSRL-NREKRILVILDNIWE  205 (247)
Q Consensus       182 ~~~~l~~~l-~~~kr~LlvlDdv~~  205 (247)
                      ..-.+.+++ ..+++.|+++||+..
T Consensus       146 ~a~tiAEyfrd~G~~Vlll~Dsltr  170 (276)
T d1fx0a3         146 TGAALAEYFMYRERHTLIIYDDLSK  170 (276)
T ss_dssp             HHHHHHHHHHHTTCEEEEEEECHHH
T ss_pred             HHHHHHHHHHHcCCceeEEeeccHH
Confidence            334556666 345789999999854

>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=96.29  E-value=0.0092  Score=45.16  Aligned_cols=105  Identities=18%  Similarity=0.217  Sum_probs=57.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcc--c-----------CCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKN--H-----------KLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGR  182 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~--~-----------~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~  182 (247)
                      +++.|+|+-..||||+.+.++--.-.  -           ..|+. ++.......++..             ..++-...
T Consensus        36 ~~~iiTGpN~~GKSt~lk~i~l~~ilAq~G~~vpA~~~~i~~~d~-I~~~~~~~d~~~~-------------~~StF~~e  101 (224)
T d1ewqa2          36 ELVLITGPNMAGKSTFLRQTALIALLAQVGSFVPAEEAHLPLFDG-IYTRIGASDDLAG-------------GKSTFMVE  101 (224)
T ss_dssp             CEEEEESCSSSSHHHHHHHHHHHHHHHTTTCCBSSSEEEECCCSE-EEEECCC-------------------CCSHHHHH
T ss_pred             cEEEEECCCccccchhhhhhHHHHHHHhccceeecCceEEeecce-EEEEECCCccccC-------------CccHHHHh
Confidence            57899999999999999988664311  0           12332 3333333322211             01111222


Q ss_pred             HHHHHHHHc-CCCcEEEEEeCCCCccch-------hhhcccCCCCCCCeEEEEeeCchhhhh
Q 037337          183 ARSLFSRLN-REKRILVILDNIWEHLDL-------QVVGIPHGDDHKGCKVLFTARSLDVLS  236 (247)
Q Consensus       183 ~~~l~~~l~-~~kr~LlvlDdv~~~~~~-------~~l~~~~~~~~~~s~iiiTtR~~~va~  236 (247)
                      +.++...+. .+++.|+++|++-...+-       ..+...+  ...++.+++||...++..
T Consensus       102 l~~~~~il~~~~~~sLvliDE~~~gT~~~eg~ala~aile~L--~~~~~~~i~tTH~~eL~~  161 (224)
T d1ewqa2         102 MEEVALILKEATENSLVLLDEVGRGTSSLDGVAIATAVAEAL--HERRAYTLFATHYFELTA  161 (224)
T ss_dssp             HHHHHHHHHHCCTTEEEEEESTTTTSCHHHHHHHHHHHHHHH--HHHTCEEEEECCCHHHHT
T ss_pred             HHHHHHHhccCCCCcEEeecccccCcchhhhcchHHHHHHHH--hhcCcceEEeeechhhhh
Confidence            334444442 246799999999765221       1111222  123678999999888865

>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=96.29  E-value=0.011  Score=45.09  Aligned_cols=108  Identities=18%  Similarity=0.135  Sum_probs=57.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcc--c-----------CCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChH
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKN--H-----------KLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESES  180 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~--~-----------~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~  180 (247)
                      +.+++.|+|+.+.||||+.+.++--.-.  -           ..|+. ++..+....++..-.             ++-.
T Consensus        40 ~~~~~iiTGpN~~GKSt~lk~i~l~~~laq~G~~VpA~~a~~~~~d~-I~~~~~~~d~~~~~~-------------S~F~  105 (234)
T d1wb9a2          40 QRRMLIITGPNMGGKSTYMRQTALIALMAYIGSYVPAQKVEIGPIDR-IFTRVGAADDLASGR-------------STFM  105 (234)
T ss_dssp             SSCEEEEECCTTSSHHHHHHHHHHHHHHHTTTCCBSSSEEEECCCCE-EEEEEC------------------------CH
T ss_pred             CceEEEEeccCchhhHHHHHHHHHHHHHHHcCCeEecCceecccchh-heeEEccCcccccch-------------hHHH
Confidence            4578999999999999999999765311  0           12222 333443333322211             1111


Q ss_pred             HHHHHHHHHH-cCCCcEEEEEeCCCCccch-------hhhcccCCCCCCCeEEEEeeCchhhhh
Q 037337          181 GRARSLFSRL-NREKRILVILDNIWEHLDL-------QVVGIPHGDDHKGCKVLFTARSLDVLS  236 (247)
Q Consensus       181 ~~~~~l~~~l-~~~kr~LlvlDdv~~~~~~-------~~l~~~~~~~~~~s~iiiTtR~~~va~  236 (247)
                      ..+.++.+.+ ..+++.|+++|++-....-       ..+...+ ....++.+++||...++..
T Consensus       106 ~E~~~~~~il~~~~~~sLvliDE~~~gT~~~eg~~l~~a~l~~l-~~~~~~~~i~tTH~~~l~~  168 (234)
T d1wb9a2         106 VEMTETANILHNATEYSLVLMDEIGRGTSTYDGLSLAWACAENL-ANKIKALTLFATHYFELTQ  168 (234)
T ss_dssp             HHHHHHHHHHHHCCTTEEEEEESCCCCSSSSHHHHHHHHHHHHH-HHTTCCEEEEECSCGGGGG
T ss_pred             HHHHHHHHHHHhcccccEEeecccccCCChhhhhHHHHHhhhhh-hccccceEEEecchHHHhh
Confidence            2233344444 1235799999999764221       1111112 1234678999999887764

>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=96.18  E-value=0.0015  Score=46.49  Aligned_cols=23  Identities=26%  Similarity=0.335  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 037337          117 MLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      -|+|+|.+|+|||||...+....
T Consensus         7 kI~ivG~~~vGKSSLi~~~~~~~   29 (169)
T d1upta_           7 RILILGLDGAGKTTILYRLQVGE   29 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999998764

>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=96.18  E-value=0.0021  Score=46.38  Aligned_cols=26  Identities=23%  Similarity=0.267  Sum_probs=21.5

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          113 PDISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       113 ~~~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      ++...|+|+|.+|+|||||...+...
T Consensus        11 ~k~~kI~lvG~~~vGKTsLl~~l~~~   36 (186)
T d1f6ba_          11 KKTGKLVFLGLDNAGKTTLLHMLKDD   36 (186)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHHSCC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            34566889999999999999998554

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=96.14  E-value=0.0015  Score=49.87  Aligned_cols=25  Identities=24%  Similarity=0.294  Sum_probs=21.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      -.+++|.|+.|+|||||.+.++.-.
T Consensus        26 Gei~~liGpsGsGKSTLl~~i~Gl~   50 (232)
T d2awna2          26 GEFVVFVGPSGCGKSTLLRMIAGLE   50 (232)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCChHHHHHHHHhcCC
Confidence            4699999999999999999997654

>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=96.13  E-value=0.0013  Score=50.25  Aligned_cols=25  Identities=20%  Similarity=0.266  Sum_probs=21.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      -.+++|.|+.|+|||||.+.++.-.
T Consensus        31 Ge~~~iiG~sGsGKSTLl~~i~gl~   55 (230)
T d1l2ta_          31 GEFVSIMGPSGSGKSTMLNIIGCLD   55 (230)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCcchhhHhccCCC
Confidence            4789999999999999999886644

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=96.10  E-value=0.0017  Score=49.94  Aligned_cols=26  Identities=23%  Similarity=0.244  Sum_probs=22.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      -.+++|.|+.|+|||||++.++.-..
T Consensus        29 Ge~~~liG~sGaGKSTll~~i~gl~~   54 (240)
T d1g2912          29 GEFMILLGPSGCGKTTTLRMIAGLEE   54 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTSSC
T ss_pred             CCEEEEECCCCChHHHHHHHHhcCCC
Confidence            36899999999999999999976543

>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=96.09  E-value=0.003  Score=45.46  Aligned_cols=34  Identities=18%  Similarity=0.273  Sum_probs=25.5

Q ss_pred             HHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          104 NDILGALRNPDISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       104 ~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      ..+..++.... --|.|+|.+|+|||||..++...
T Consensus         5 ~~~~~~~~~k~-~kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1           5 TRIWRLFNHQE-HKVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             HHHHHHHTTSC-EEEEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHHHHhCCCe-EEEEEECCCCCCHHHHHHHHhcC
Confidence            45555555444 45779999999999999998765

>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=96.07  E-value=0.0018  Score=46.36  Aligned_cols=21  Identities=19%  Similarity=0.479  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 037337          118 LGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       118 v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      |+++|.+|+|||||+..+.+.
T Consensus         5 v~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999998864

>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=96.06  E-value=0.0018  Score=46.84  Aligned_cols=22  Identities=32%  Similarity=0.365  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037337          117 MLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      -|+|+|.+|+|||+|+..+.+.
T Consensus         5 KivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           5 KYIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            3678999999999999998875

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=96.04  E-value=0.0018  Score=49.65  Aligned_cols=26  Identities=27%  Similarity=0.275  Sum_probs=22.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      -.+++|.|+.|+|||||.+.+..-.+
T Consensus        32 Ge~~~liGpsGaGKSTLl~~i~Gl~~   57 (239)
T d1v43a3          32 GEFLVLLGPSGCGKTTTLRMIAGLEE   57 (239)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             CCEEEEECCCCChHHHHHHHHHcCCC
Confidence            46899999999999999999977554

>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=96.03  E-value=0.0061  Score=43.46  Aligned_cols=30  Identities=23%  Similarity=0.272  Sum_probs=25.6

Q ss_pred             CCccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          113 PDISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       113 ~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      .+..+|.+.|.=|+||||+++.+++.+...
T Consensus        31 ~~g~ii~L~G~LGaGKTtfvr~~~~~lg~~   60 (158)
T d1htwa_          31 EKAIMVYLNGDLGAGKTTLTRGMLQGIGHQ   60 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHTTCC
T ss_pred             CCCeEEEEecCCCccHHHHHHHHHhhcccc
Confidence            344689999999999999999999987653

>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=96.03  E-value=0.0015  Score=50.23  Aligned_cols=26  Identities=27%  Similarity=0.413  Sum_probs=22.4

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      -.+++|.|+.|+|||||++.++.-.+
T Consensus        31 Ge~~~iiG~sGsGKSTLl~~i~Gl~~   56 (240)
T d3dhwc1          31 GQIYGVIGASGAGKSTLIRCVNLLER   56 (240)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCCcc
Confidence            47999999999999999999976543

>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=96.01  E-value=0.0013  Score=49.13  Aligned_cols=26  Identities=35%  Similarity=0.450  Sum_probs=22.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      -.+++|.|+.|+|||||.+.++.-.+
T Consensus        27 Gei~~l~G~NGsGKSTLl~~i~gl~~   52 (200)
T d1sgwa_          27 GNVVNFHGPNGIGKTTLLKTISTYLK   52 (200)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCChHHHHHHHHhcccc
Confidence            46899999999999999999987554

>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=96.00  E-value=0.002  Score=46.17  Aligned_cols=22  Identities=32%  Similarity=0.380  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037337          117 MLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      -|+|+|.+|+|||+|+..+.+.
T Consensus         6 KivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3788999999999999999875

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=95.99  E-value=0.0023  Score=53.69  Aligned_cols=49  Identities=20%  Similarity=0.266  Sum_probs=35.6

Q ss_pred             cccccchHHHHHHHHHhc--------CC------CccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337           94 EAFESRMSTLNDILGALR--------NP------DISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus        94 ~~~~gR~~~~~~L~~~L~--------~~------~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      ..++|.++..+.|.-.+.        +.      ..+-|.+.||.|+|||-||+.++..+...
T Consensus        14 ~yVvGQ~~AKk~lsvav~nhyrR~~~~~~~~~ei~ksNILliGPTGvGKTlLAr~LAk~l~VP   76 (443)
T d1g41a_          14 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAP   76 (443)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCC
T ss_pred             CcccCcHHHHHHHHHHHHHHHHHhhcccccccccccccEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            457777777766644331        11      24678899999999999999999977654

>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=95.97  E-value=0.002  Score=49.35  Aligned_cols=25  Identities=24%  Similarity=0.293  Sum_probs=22.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .+++|.|+.|+|||||.+.++.-..
T Consensus        25 e~~~liGpnGaGKSTll~~i~Gl~~   49 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAGIVK   49 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EEEEEECCCCChHHHHHHHHHcCCC
Confidence            4788999999999999999987654

>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=95.95  E-value=0.0022  Score=45.83  Aligned_cols=22  Identities=23%  Similarity=0.288  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037337          117 MLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      -|.+.|.+|+|||+|+..+.+.
T Consensus         4 Kv~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           4 KIIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999999875

>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=95.89  E-value=0.0022  Score=49.35  Aligned_cols=26  Identities=35%  Similarity=0.460  Sum_probs=22.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      -..++|+|+.|+|||||++.+..-+.
T Consensus        29 Ge~vaIvG~sGsGKSTLl~ll~gl~~   54 (241)
T d2pmka1          29 GEVIGIVGRSGSGKSTLTKLIQRFYI   54 (241)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            47899999999999999999977554

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=95.89  E-value=0.0024  Score=45.93  Aligned_cols=22  Identities=27%  Similarity=0.258  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037337          117 MLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      -|+++|.+|+|||||+..+.+.
T Consensus         7 Ki~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           7 KILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            3789999999999999999865

>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=95.88  E-value=0.001  Score=50.66  Aligned_cols=26  Identities=19%  Similarity=0.231  Sum_probs=23.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .+.|+|-|+-|+||||+++.+.+.+.
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L~~~l~   27 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNILKQLCE   27 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGGGCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHh
Confidence            36899999999999999999988764

>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=95.88  E-value=0.0018  Score=50.18  Aligned_cols=26  Identities=19%  Similarity=0.314  Sum_probs=22.5

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      -..++|+|+.|+|||||++.+..-+.
T Consensus        41 Ge~iaivG~sGsGKSTLl~ll~gl~~   66 (253)
T d3b60a1          41 GKTVALVGRSGSGKSTIASLITRFYD   66 (253)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHTTTTC
T ss_pred             CCEEEEECCCCChHHHHHHHHhcccC
Confidence            46899999999999999999976543

>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=95.88  E-value=0.0024  Score=46.05  Aligned_cols=22  Identities=27%  Similarity=0.487  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037337          117 MLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      -|+|+|.+|+|||+|+..+.+.
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999999875

>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=95.87  E-value=0.0025  Score=45.75  Aligned_cols=22  Identities=27%  Similarity=0.344  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037337          117 MLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      -|+|+|.+|+|||+|+..+...
T Consensus         5 KivlvG~~~vGKTsLi~r~~~~   26 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCEN   26 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3689999999999999998864

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.86  E-value=0.0025  Score=45.85  Aligned_cols=22  Identities=36%  Similarity=0.539  Sum_probs=19.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHh
Q 037337          118 LGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       118 v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      |+++|.+|+|||+|...+.+..
T Consensus         5 i~lvG~~~vGKTsli~r~~~~~   26 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTKR   26 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            6789999999999999998753

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.85  E-value=0.0025  Score=45.65  Aligned_cols=22  Identities=27%  Similarity=0.510  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037337          117 MLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      -|+|+|.+|+|||+|+.++.+.
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999999875

>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=95.82  E-value=0.0028  Score=46.92  Aligned_cols=23  Identities=26%  Similarity=0.229  Sum_probs=21.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      +.|+|+|.+|+|||||...+.+.
T Consensus         4 p~V~lvG~~n~GKTSLln~l~~~   26 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLLTTD   26 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            57899999999999999999875

>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=95.81  E-value=0.0026  Score=45.38  Aligned_cols=21  Identities=29%  Similarity=0.289  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 037337          118 LGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       118 v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      |+|+|.+|+|||+|+..+.+.
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~   23 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYD   23 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999999864

>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=95.80  E-value=0.0027  Score=45.63  Aligned_cols=23  Identities=22%  Similarity=0.307  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 037337          117 MLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      -|+++|.+|+|||+|+..+.+..
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~~   30 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVKGQ   30 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36899999999999999998653

>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=95.80  E-value=0.0028  Score=44.62  Aligned_cols=22  Identities=27%  Similarity=0.312  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037337          117 MLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      -|+++|.+|+|||||+..+...
T Consensus         2 KI~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999998875

>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=95.79  E-value=0.0022  Score=49.88  Aligned_cols=25  Identities=20%  Similarity=0.284  Sum_probs=22.1

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      -.+++|.|+.|+|||||++.++.-.
T Consensus        28 GEi~~iiG~sGsGKSTLl~~i~Gl~   52 (258)
T d1b0ua_          28 GDVISIIGSSGSGKSTFLRCINFLE   52 (258)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHHcCc
Confidence            4799999999999999999997644

>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=95.79  E-value=0.0022  Score=46.10  Aligned_cols=21  Identities=29%  Similarity=0.618  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 037337          118 LGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       118 v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      |+|+|.+|+|||||+..+...
T Consensus         5 i~viG~~~vGKTsLi~r~~~~   25 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKG   25 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            678999999999999998864

>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=95.78  E-value=0.0028  Score=45.72  Aligned_cols=22  Identities=32%  Similarity=0.392  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037337          117 MLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      -|+|+|.+|+|||||+..+.+.
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~~~   25 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYVND   25 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            4789999999999999998764

>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=95.78  E-value=0.0025  Score=45.53  Aligned_cols=22  Identities=27%  Similarity=0.366  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037337          117 MLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      -|+|+|.+|+|||||...+...
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~~   25 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNGE   25 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHcCC
Confidence            4779999999999999998664

>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=95.78  E-value=0.0032  Score=46.28  Aligned_cols=24  Identities=13%  Similarity=0.393  Sum_probs=21.2

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHH
Q 037337          114 DISMLGICGMGGIGKTMLEKEVAR  137 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~  137 (247)
                      +.+.|+|+|.+|+|||||...+.+
T Consensus        22 ~~~~I~lvG~~n~GKSTLin~L~g   45 (195)
T d1svia_          22 GLPEIALAGRSNVGKSSFINSLIN   45 (195)
T ss_dssp             CCCEEEEEEBTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHhcC
Confidence            345799999999999999999975

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=95.77  E-value=0.0019  Score=49.15  Aligned_cols=26  Identities=27%  Similarity=0.220  Sum_probs=22.8

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      -.+++|.|+.|+|||||.+.++.-..
T Consensus        26 Ge~~~liGpsGaGKSTll~~l~Gl~~   51 (229)
T d3d31a2          26 GEYFVILGPTGAGKTLFLELIAGFHV   51 (229)
T ss_dssp             TCEEEEECCCTHHHHHHHHHHHTSSC
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcCcC
Confidence            46899999999999999999987554

>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=95.77  E-value=0.0029  Score=45.37  Aligned_cols=23  Identities=17%  Similarity=0.316  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 037337          117 MLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      -|+|+|.+|+|||+|..++.+..
T Consensus         6 Ki~lvG~~~vGKTsli~rl~~~~   28 (167)
T d1z0ja1           6 KVCLLGDTGVGKSSIMWRFVEDS   28 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36789999999999999998753

>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=95.76  E-value=0.0026  Score=49.20  Aligned_cols=27  Identities=15%  Similarity=0.204  Sum_probs=23.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      +-..++|+|+.|+|||||++.+..-++
T Consensus        39 ~Ge~vaivG~sGsGKSTLl~li~gl~~   65 (251)
T d1jj7a_          39 PGEVTALVGPNGSGKSTVAALLQNLYQ   65 (251)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcccC
Confidence            347999999999999999999976544

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.76  E-value=0.0027  Score=50.00  Aligned_cols=28  Identities=32%  Similarity=0.324  Sum_probs=24.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      +-..++|+|+.|+|||||++.++..+..
T Consensus        61 ~Ge~vaivG~nGsGKSTLl~~i~Gl~~p   88 (281)
T d1r0wa_          61 KGEMLAITGSTGSGKTSLLMLILGELEA   88 (281)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHTSSCC
T ss_pred             CCCEEEEECCCCChHHHHHHHHhCCCcC
Confidence            3478999999999999999999876543

>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=95.76  E-value=0.0026  Score=48.89  Aligned_cols=27  Identities=22%  Similarity=0.274  Sum_probs=22.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      +-..++|+|+.|+|||||++.+..-+.
T Consensus        27 ~Ge~vaivG~sGsGKSTLl~ll~gl~~   53 (242)
T d1mv5a_          27 PNSIIAFAGPSGGGKSTIFSLLERFYQ   53 (242)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhhC
Confidence            347899999999999999999976543

>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=95.75  E-value=0.0028  Score=45.78  Aligned_cols=23  Identities=30%  Similarity=0.531  Sum_probs=20.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      --|+|+|.+|+|||+|+..+.+.
T Consensus         7 ~Kv~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           7 HKLVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCcCHHHHHHHHHhC
Confidence            35789999999999999998874

>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=95.74  E-value=0.003  Score=45.38  Aligned_cols=21  Identities=24%  Similarity=0.398  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 037337          117 MLGICGMGGIGKTMLEKEVAR  137 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~  137 (247)
                      .|+|.|.+|+|||||+..+..
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            589999999999999999974

>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=95.73  E-value=0.003  Score=45.23  Aligned_cols=23  Identities=30%  Similarity=0.533  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 037337          117 MLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      -|+++|.+|+|||+|+..+....
T Consensus         5 KivvvG~~~vGKTsli~r~~~~~   27 (167)
T d1c1ya_           5 KLVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            37799999999999999998753

>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=95.73  E-value=0.0032  Score=47.11  Aligned_cols=20  Identities=25%  Similarity=0.439  Sum_probs=18.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q 037337          117 MLGICGMGGIGKTMLEKEVA  136 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~  136 (247)
                      +|+|+|..|+||||+|..+.
T Consensus         5 iIgitG~igSGKStv~~~l~   24 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAFA   24 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHHH
Confidence            89999999999999998663

>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=95.73  E-value=0.0029  Score=45.23  Aligned_cols=22  Identities=23%  Similarity=0.362  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037337          117 MLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      -|+++|.+|+|||||+..++..
T Consensus         4 Ki~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           4 KILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999998875

>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=95.72  E-value=0.0029  Score=45.50  Aligned_cols=22  Identities=32%  Similarity=0.554  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037337          117 MLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      -|+|+|.+|+|||+|...+...
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999998875

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=95.70  E-value=0.0038  Score=46.50  Aligned_cols=35  Identities=17%  Similarity=0.177  Sum_probs=27.7

Q ss_pred             cEEEEEcCC-CCcHHHHHHHHHHHhcccCCCCEEEEEE
Q 037337          116 SMLGICGMG-GIGKTMLEKEVARKAKNHKLFDLVVFSE  152 (247)
Q Consensus       116 ~~v~I~G~~-GiGKTtLa~~~~~~~~~~~~f~~~~wv~  152 (247)
                      +.+.|.|.+ |+||||++..++..+..++ +. +.++.
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aLa~~G-~r-Vl~id   37 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAAKAAG-YR-TAGYK   37 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHHHTT-CC-EEEEC
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHHHHCC-Ce-EEEEC
Confidence            467899998 9999999999999988763 33 44443

>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=95.70  E-value=0.0034  Score=46.65  Aligned_cols=23  Identities=22%  Similarity=0.239  Sum_probs=20.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      +.|+|+|.+|+|||||...+...
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            46899999999999999999875

>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=95.67  E-value=0.0032  Score=45.08  Aligned_cols=23  Identities=22%  Similarity=0.378  Sum_probs=20.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      .-|+|.|.+|+|||+|+..+.+.
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            45789999999999999998764

>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=95.65  E-value=0.0031  Score=47.01  Aligned_cols=20  Identities=30%  Similarity=0.456  Sum_probs=18.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEV  135 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~  135 (247)
                      -+|+|+|..|+||||+|..+
T Consensus         3 ~iIgITG~igSGKStv~~~l   22 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLF   22 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHH
Confidence            47999999999999999876

>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=95.65  E-value=0.0027  Score=45.61  Aligned_cols=21  Identities=24%  Similarity=0.401  Sum_probs=18.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 037337          118 LGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       118 v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      |+++|.+|+|||+|+..+...
T Consensus         4 i~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCcCHHHHHHHHhCC
Confidence            678999999999999998654

>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=95.64  E-value=0.0034  Score=45.34  Aligned_cols=22  Identities=27%  Similarity=0.448  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037337          117 MLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      -|+|+|.+|+|||||+..+.+.
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999998774

>d2eyqa3 c.37.1.19 (A:546-778) Transcription-repair coupling factor, TRCF {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Transcription-repair coupling factor, TRCF
species: Escherichia coli [TaxId: 562]

Probab=95.64  E-value=0.11  Score=39.23  Aligned_cols=47  Identities=23%  Similarity=0.292  Sum_probs=37.9

Q ss_pred             cccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337           96 FESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus        96 ~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      --......+++.+.+..+......|+|..|+|||.++...+...-..
T Consensus        57 t~~Q~~~~~~i~~~~~~~~~~~~LL~GdvGsGKT~V~~~a~~~~~~~  103 (233)
T d2eyqa3          57 TPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVDN  103 (233)
T ss_dssp             CHHHHHHHHHHHHHHHSSSCCEEEEECCCCTTTHHHHHHHHHHHHTT
T ss_pred             chhHHHHHHHHHHHHhccCccCeEEEcCCCCCcHHHHHHHHHHHHHc
Confidence            33466777888888888877888999999999999999888775543

>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=95.63  E-value=0.0034  Score=45.28  Aligned_cols=22  Identities=27%  Similarity=0.394  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037337          117 MLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      -|+++|.+|+|||+|+..+...
T Consensus         7 KI~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           7 KFLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999998764

>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=95.62  E-value=0.0032  Score=45.93  Aligned_cols=22  Identities=27%  Similarity=0.286  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037337          117 MLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      -|+|+|.+|+|||||+..+.+.
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~~   28 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTDN   28 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            3778999999999999988753

>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=95.62  E-value=0.0034  Score=45.45  Aligned_cols=23  Identities=35%  Similarity=0.340  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 037337          117 MLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      -|+|+|.+|+|||+|+..+.+..
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~~   26 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKDQ   26 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            46788999999999999988753

>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=95.58  E-value=0.0036  Score=44.77  Aligned_cols=22  Identities=32%  Similarity=0.637  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037337          117 MLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      -|+++|.+|+|||+|+..+.+.
T Consensus         5 Ki~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           5 KLVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3788999999999999999875

>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=95.58  E-value=0.0033  Score=47.63  Aligned_cols=25  Identities=28%  Similarity=0.422  Sum_probs=22.4

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      +.++..|.|+-|+|||||.+++.+.
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhc
Confidence            4578999999999999999999875

>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=95.57  E-value=0.0038  Score=44.82  Aligned_cols=22  Identities=27%  Similarity=0.350  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037337          117 MLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      -|+|+|.+|+|||+|+.++.+.
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999998775

>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=95.55  E-value=0.0065  Score=49.43  Aligned_cols=62  Identities=13%  Similarity=-0.008  Sum_probs=37.3

Q ss_pred             HHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhccc-CCCCEEEEEEeCCCCCHHHHHHHH
Q 037337          102 TLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNH-KLFDLVVFSEMSQSPDIRKVQGEI  166 (247)
Q Consensus       102 ~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~-~~f~~~~wv~~~~~~~~~~l~~~i  166 (247)
                      ....+...+.   .++..|+|++|+||||++..+...+... ..-...+.+..........+...+
T Consensus       153 Q~~A~~~al~---~~~~vI~G~pGTGKTt~i~~~l~~l~~~~~~~~~~I~l~ApTgkAA~~L~e~~  215 (359)
T d1w36d1         153 QKVAAAVALT---RRISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAAPTGKAAARLTESL  215 (359)
T ss_dssp             HHHHHHHHHT---BSEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEBSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHc---CCeEEEEcCCCCCceehHHHHHHHHHHHHhccCCeEEEecCcHHHHHHHHHHH
Confidence            3444444442   3689999999999999987766554322 112235666666554444444444

>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=95.55  E-value=0.004  Score=45.34  Aligned_cols=23  Identities=26%  Similarity=0.317  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 037337          117 MLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      -|++.|.+|+|||+|.+++....
T Consensus         4 KivllG~~~vGKTsl~~r~~~~~   26 (195)
T d1svsa1           4 KLLLLGAGESGKSTIVKQMKIIH   26 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhhCC
Confidence            46799999999999999987654

>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=95.55  E-value=0.0038  Score=45.46  Aligned_cols=22  Identities=36%  Similarity=0.456  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037337          117 MLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      -|+|+|.+|+|||||+..+.+.
T Consensus         4 Kv~vvG~~~vGKSSLi~~l~~~   25 (184)
T d1vg8a_           4 KVIILGDSGVGKTSLMNQYVNK   25 (184)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3779999999999999999874

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=95.54  E-value=0.002  Score=49.47  Aligned_cols=26  Identities=31%  Similarity=0.355  Sum_probs=22.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      -.+++|.|+.|+|||||++.+..-..
T Consensus        31 Ge~~~iiG~sGsGKSTll~~i~gl~~   56 (242)
T d1oxxk2          31 GERFGILGPSGAGKTTFMRIIAGLDV   56 (242)
T ss_dssp             TCEEEEECSCHHHHHHHHHHHHTSSC
T ss_pred             CCEEEEECCCCCcHHHHHHHHHcCcC
Confidence            47999999999999999999987543

>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=95.54  E-value=0.0042  Score=44.72  Aligned_cols=29  Identities=14%  Similarity=0.132  Sum_probs=22.3

Q ss_pred             hcCCCccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          110 LRNPDISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       110 L~~~~~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      +.+.+.--|.++|.+|+|||||..++.+.
T Consensus         7 ~~~~k~~kIvlvG~~~vGKTSli~rl~~~   35 (173)
T d1e0sa_           7 IFGNKEMRILMLGLDAAGKTTILYKLKLG   35 (173)
T ss_dssp             HHTTCCEEEEEEEETTSSHHHHHHHTTCC
T ss_pred             hhCCCeEEEEEECCCCCCHHHHHHHHhcC
Confidence            33444445779999999999999998754

>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=95.53  E-value=0.004  Score=44.68  Aligned_cols=23  Identities=17%  Similarity=0.276  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 037337          117 MLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      -|+++|.+|+|||+|+.++....
T Consensus         5 Ki~vvG~~~vGKTsLi~~~~~~~   27 (170)
T d1ek0a_           5 KLVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            46789999999999999998753

>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=95.52  E-value=0.004  Score=45.33  Aligned_cols=23  Identities=30%  Similarity=0.348  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 037337          117 MLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      -|+|+|.+|+|||+|+.++....
T Consensus         7 KivviG~~~vGKTsli~~~~~~~   29 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTNA   29 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            47899999999999999998753

>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=95.51  E-value=0.0038  Score=45.96  Aligned_cols=23  Identities=26%  Similarity=0.382  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 037337          117 MLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      -|+|+|.+|+|||||+..+....
T Consensus         8 KivvvG~~~vGKTsli~~l~~~~   30 (194)
T d2bcgy1           8 KLLLIGNSGVGKSCLLLRFSDDT   30 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHhhCC
Confidence            37899999999999999998753

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

Probab=95.51  E-value=0.029  Score=43.83  Aligned_cols=90  Identities=16%  Similarity=0.173  Sum_probs=50.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhccc------CCCCEEEEEEeCCCCC-HHHHHHHHHHHhCCC-------CCCCChHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNH------KLFDLVVFSEMSQSPD-IRKVQGEIADKLGLT-------FREESESG  181 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~------~~f~~~~wv~~~~~~~-~~~l~~~i~~~l~~~-------~~~~~~~~  181 (247)
                      ..+.|.|.+|+|||+|+..+.......      ..-..+++.-++.... ..++...+...-...       ....+...
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            567899999999999998887654211      0112356666665543 344444443321111       11122211


Q ss_pred             ------HHHHHHHHH-cCCCcEEEEEeCCCC
Q 037337          182 ------RARSLFSRL-NREKRILVILDNIWE  205 (247)
Q Consensus       182 ------~~~~l~~~l-~~~kr~LlvlDdv~~  205 (247)
                            ..-.+.+++ ..++++|+++||+..
T Consensus       149 r~~~~~~a~tiAEyfrd~G~~VLll~Dsltr  179 (285)
T d2jdia3         149 QYLAPYSGCSMGEYFRDNGKHALIIYDDLSK  179 (285)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCEEEEEEETHHH
T ss_pred             HHHHHHHHHHHHHHHHHcCCcEEEEEcChHH
Confidence                  122345555 346889999999854

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=95.49  E-value=0.0072  Score=45.71  Aligned_cols=33  Identities=18%  Similarity=0.464  Sum_probs=25.5

Q ss_pred             HHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          103 LNDILGALRNPDISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       103 ~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      ++.|..+|.+   +..++.|.+|+|||||...+..+
T Consensus        86 ~~~L~~~l~~---kt~~~~G~SGVGKSTLiN~L~~~  118 (225)
T d1u0la2          86 IEELKEYLKG---KISTMAGLSGVGKSSLLNAINPG  118 (225)
T ss_dssp             HHHHHHHHSS---SEEEEECSTTSSHHHHHHHHSTT
T ss_pred             HhhHHHHhcC---CeEEEECCCCCCHHHHHHhhcch
Confidence            4556666642   57789999999999999988654

>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=95.46  E-value=0.0036  Score=45.08  Aligned_cols=24  Identities=29%  Similarity=0.368  Sum_probs=20.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      .--|+++|.+|+|||||...+...
T Consensus        16 ~~kI~vvG~~~vGKSsLi~~l~~~   39 (176)
T d1fzqa_          16 EVRILLLGLDNAGKTTLLKQLASE   39 (176)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             EEEEEEECCCCCCHHHHHHHHhcC
Confidence            345889999999999999988653

>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=95.43  E-value=0.0047  Score=47.01  Aligned_cols=24  Identities=13%  Similarity=0.182  Sum_probs=21.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      .+|+|+|..|+||||+|..+.+.+
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e~~   25 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMSNY   25 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhC
Confidence            579999999999999999997753

>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=95.42  E-value=0.0045  Score=44.59  Aligned_cols=22  Identities=27%  Similarity=0.453  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037337          117 MLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      -|+|+|.+|+|||||+..+.+.
T Consensus         8 KI~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           8 KVILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3789999999999999998764

>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=95.41  E-value=0.0047  Score=44.04  Aligned_cols=23  Identities=26%  Similarity=0.306  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 037337          117 MLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      -|++.|.+|+|||||...+....
T Consensus         4 ki~i~G~~~~GKTsLl~~l~~~~   26 (164)
T d1zd9a1           4 ELTLVGLQYSGKTTFVNVIASGQ   26 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            46788999999999999987653

>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=95.40  E-value=0.0044  Score=45.24  Aligned_cols=22  Identities=32%  Similarity=0.368  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037337          117 MLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      -|+|+|.+|+|||+|...+.+.
T Consensus        11 Ki~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1          11 KCVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhhC
Confidence            3789999999999999998875

>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=95.38  E-value=0.0049  Score=44.24  Aligned_cols=23  Identities=26%  Similarity=0.463  Sum_probs=20.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      --|+|+|.+|+|||+|+..+.+.
T Consensus         5 ~KivlvG~~~vGKTsli~~~~~~   27 (168)
T d1u8za_           5 HKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            35789999999999999998764

>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=95.31  E-value=0.0052  Score=44.43  Aligned_cols=21  Identities=29%  Similarity=0.419  Sum_probs=19.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 037337          118 LGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       118 v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      |+++|.+|+|||+|+..+.+.
T Consensus        10 i~vvG~~~vGKTsli~~l~~~   30 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDD   30 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999998764

>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=95.30  E-value=0.0049  Score=44.42  Aligned_cols=22  Identities=27%  Similarity=0.371  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037337          117 MLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      -|++.|.+|+|||+|+..+...
T Consensus         5 Kv~lvG~~~vGKTsLi~~~~~~   26 (172)
T d2g3ya1           5 RVVLIGEQGVGKSTLANIFAGV   26 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4789999999999999988753

>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=95.30  E-value=0.0045  Score=45.43  Aligned_cols=19  Identities=26%  Similarity=0.433  Sum_probs=17.5

Q ss_pred             EEEEEcCCCCcHHHHHHHH
Q 037337          117 MLGICGMGGIGKTMLEKEV  135 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~  135 (247)
                      -|.+.|.+|+|||||+.++
T Consensus         4 KivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4779999999999999999

>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=95.29  E-value=0.0053  Score=44.85  Aligned_cols=23  Identities=26%  Similarity=0.293  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 037337          117 MLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      -|++.|.+|+|||+|..++....
T Consensus         4 Kiv~lG~~~vGKTsll~r~~~~~   26 (200)
T d2bcjq2           4 KLLLLGTGESGKSTFIKQMRIIH   26 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            46799999999999999997653

>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=95.29  E-value=0.0042  Score=47.63  Aligned_cols=26  Identities=23%  Similarity=0.330  Sum_probs=22.6

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      -.+++|.|+.|+|||||.+.++.-..
T Consensus        32 Gei~~liGpnGaGKSTl~~~i~Gl~~   57 (240)
T d1ji0a_          32 GQIVTLIGANGAGKTTTLSAIAGLVR   57 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCCC
Confidence            46999999999999999999976543

>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=95.28  E-value=0.0052  Score=44.65  Aligned_cols=22  Identities=27%  Similarity=0.309  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037337          117 MLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      -|++.|.+|+|||+|+..+.+.
T Consensus         4 KivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           4 KIVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3678999999999999999875

>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=95.28  E-value=0.0055  Score=44.28  Aligned_cols=23  Identities=22%  Similarity=0.391  Sum_probs=21.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      ..|+|+|.+|+|||||...++..
T Consensus         6 ~~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           6 GFVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTS
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            57999999999999999999865

>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=95.27  E-value=0.0051  Score=45.07  Aligned_cols=23  Identities=26%  Similarity=0.307  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 037337          117 MLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      -|++.|.+|+|||+|+..+....
T Consensus         5 KvvllG~~~vGKTSli~r~~~~~   27 (191)
T d2ngra_           5 KCVVVGDGAVGKTCLLISYTTNK   27 (191)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            37789999999999999988753

>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=95.26  E-value=0.0055  Score=43.97  Aligned_cols=23  Identities=35%  Similarity=0.553  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 037337          117 MLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      -|+++|.+|+|||+|+..+.+..
T Consensus         6 Ki~lvG~~~vGKTsll~~~~~~~   28 (169)
T d1x1ra1           6 KLVVVGDGGVGKSALTIQFFQKI   28 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36788999999999999998753

>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=95.25  E-value=0.0047  Score=44.46  Aligned_cols=24  Identities=21%  Similarity=0.418  Sum_probs=21.3

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      ...|+|.|.+|+|||||...+.+.
T Consensus         5 ~~~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           5 CGFIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCC
Confidence            456899999999999999999864

>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=95.15  E-value=0.0049  Score=47.68  Aligned_cols=26  Identities=27%  Similarity=0.213  Sum_probs=22.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      -.+++|.|+.|+|||||++.++.-..
T Consensus        30 Gei~~liG~nGaGKSTLl~~i~Gl~~   55 (254)
T d1g6ha_          30 GDVTLIIGPNGSGKSTLINVITGFLK   55 (254)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCcHHHHHHHHHCCCc
Confidence            36899999999999999999987654

>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=95.14  E-value=0.0078  Score=43.56  Aligned_cols=35  Identities=20%  Similarity=0.258  Sum_probs=24.9

Q ss_pred             HHHHHHh-cCCCccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          104 NDILGAL-RNPDISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       104 ~~L~~~L-~~~~~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      ..+.+.| ...+.--|+++|.+|+|||||...+...
T Consensus         5 ~~~~~~l~~~~k~~KI~lvG~~~vGKTsLi~~l~~~   40 (182)
T d1moza_           5 SSMFDKLWGSNKELRILILGLDGAGKTTILYRLQIG   40 (182)
T ss_dssp             HHHHGGGTTCSSCEEEEEEEETTSSHHHHHHHTCCS
T ss_pred             HHHHHHHhCCCceEEEEEECCCCCCHHHHHHHHhcC
Confidence            3444434 3344556779999999999999998543

>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=95.14  E-value=0.005  Score=47.13  Aligned_cols=26  Identities=27%  Similarity=0.396  Sum_probs=22.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      -.+++|.|+.|+|||||.+.++.-..
T Consensus        28 Gei~glvG~nGaGKSTLl~~l~G~~~   53 (238)
T d1vpla_          28 GEIFGLIGPNGAGKTTTLRIISTLIK   53 (238)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            47999999999999999999976654

>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=95.10  E-value=0.0057  Score=44.21  Aligned_cols=22  Identities=23%  Similarity=0.348  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037337          117 MLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      .|+|+|.+|+|||||...+...
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5889999999999999999764

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=95.03  E-value=0.0074  Score=43.83  Aligned_cols=23  Identities=26%  Similarity=0.358  Sum_probs=20.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      .-|.+.|.+|+||||+|..+..+
T Consensus        15 ~gvl~~G~sG~GKStlal~l~~~   37 (176)
T d1kkma_          15 LGVLITGDSGVGKSETALELVQR   37 (176)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHc
Confidence            57889999999999999998764

>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=95.03  E-value=0.0065  Score=42.91  Aligned_cols=22  Identities=27%  Similarity=0.339  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037337          117 MLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      -|+++|.+|+|||||...+...
T Consensus         3 kI~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3679999999999999999754

>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=95.00  E-value=0.0031  Score=45.42  Aligned_cols=21  Identities=38%  Similarity=0.487  Sum_probs=17.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 037337          118 LGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       118 v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      |+++|.+|+|||+|+..+.+.
T Consensus         6 i~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC--
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678899999999999988664

>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=94.99  E-value=0.0074  Score=43.69  Aligned_cols=24  Identities=25%  Similarity=0.288  Sum_probs=20.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      --|++.|.+|+|||+|+..+.+..
T Consensus         6 ~ki~vlG~~~vGKTsLi~~~~~~~   29 (175)
T d2bmja1           6 LRLGVLGDARSGKSSLIHRFLTGS   29 (175)
T ss_dssp             EEEEEECCTTTTHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCC
Confidence            357899999999999999998753

>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=94.97  E-value=0.0049  Score=44.80  Aligned_cols=21  Identities=29%  Similarity=0.520  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 037337          117 MLGICGMGGIGKTMLEKEVAR  137 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~  137 (247)
                      -|+|+|.+++|||||...+..
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEE
T ss_pred             eEEEECCCCCCHHHHHHHHhC
Confidence            489999999999999998854

>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=94.93  E-value=0.0053  Score=46.76  Aligned_cols=23  Identities=30%  Similarity=0.420  Sum_probs=20.9

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVAR  137 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~  137 (247)
                      -.+++|.|+.|+|||||.+.++.
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            37899999999999999998876

>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=94.92  E-value=0.0051  Score=47.56  Aligned_cols=26  Identities=27%  Similarity=0.321  Sum_probs=22.0

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      +-..++|+|+.|+|||||++.+..-.
T Consensus        43 ~Ge~vaivG~sGsGKSTLl~ll~gl~   68 (255)
T d2hyda1          43 KGETVAFVGMSGGGKSTLINLIPRFY   68 (255)
T ss_dssp             TTCEEEEECSTTSSHHHHHTTTTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHhcC
Confidence            34789999999999999999886544

>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=94.91  E-value=0.0048  Score=44.70  Aligned_cols=20  Identities=30%  Similarity=0.554  Sum_probs=18.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHH
Q 037337          118 LGICGMGGIGKTMLEKEVAR  137 (247)
Q Consensus       118 v~I~G~~GiGKTtLa~~~~~  137 (247)
                      |+|+|.+|+|||||...+..
T Consensus         4 VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCS
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            88999999999999999864

>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=94.90  E-value=0.012  Score=43.59  Aligned_cols=40  Identities=20%  Similarity=0.346  Sum_probs=30.8

Q ss_pred             HHHHHHHHHhcC-CCccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          101 STLNDILGALRN-PDISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       101 ~~~~~L~~~L~~-~~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .-+..|..+|.. ++...+.++|++++|||.+|..+.+-+.
T Consensus        38 ~Fl~~l~~~l~~~PKkn~i~~~GP~~TGKS~f~~sl~~~l~   78 (205)
T d1tuea_          38 TFLGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFIQ   78 (205)
T ss_dssp             HHHHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCCCceEEEEECCCCccHHHHHHHHHHHhC
Confidence            334555555643 4568999999999999999999988764

>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=94.79  E-value=0.024  Score=46.69  Aligned_cols=44  Identities=14%  Similarity=0.073  Sum_probs=31.4

Q ss_pred             ccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337           97 ESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus        97 ~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .|-.......++.+.......|.|.|+.|+||||+...+.+...
T Consensus       140 LG~~~~~~~~l~~l~~~~~GliLvtGpTGSGKSTTl~~~l~~~~  183 (401)
T d1p9ra_         140 LGMTAHNHDNFRRLIKRPHGIILVTGPTGSGKSTTLYAGLQELN  183 (401)
T ss_dssp             SCCCHHHHHHHHHHHTSSSEEEEEECSTTSCHHHHHHHHHHHHC
T ss_pred             hcccHHHHHHHHHHHhhhhceEEEEcCCCCCccHHHHHHhhhhc
Confidence            45444333334445555568999999999999999999988764

>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=94.78  E-value=0.0045  Score=44.57  Aligned_cols=22  Identities=27%  Similarity=0.353  Sum_probs=8.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037337          117 MLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      -|+|+|.+|+|||||+..+...
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           8 KLLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEEECCCCC------------
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3778999999999999988753

>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=94.77  E-value=0.0085  Score=43.24  Aligned_cols=23  Identities=30%  Similarity=0.391  Sum_probs=20.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      .-|.|.|.+|+||||+|..+..+
T Consensus        16 ~gvli~G~sg~GKS~la~~l~~~   38 (169)
T d1ko7a2          16 VGVLITGDSGIGKSETALELIKR   38 (169)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHc
Confidence            57889999999999999988776

>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=94.71  E-value=0.007  Score=44.00  Aligned_cols=23  Identities=26%  Similarity=0.349  Sum_probs=20.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      ..|.|.|++|+||||||..+..+
T Consensus        16 ~gvli~G~sG~GKS~lal~l~~~   38 (177)
T d1knxa2          16 VGVLLTGRSGIGKSECALDLINK   38 (177)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHTT
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHc
Confidence            56889999999999999998754

>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=94.67  E-value=0.014  Score=46.10  Aligned_cols=35  Identities=20%  Similarity=0.120  Sum_probs=21.2

Q ss_pred             HHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHH-HHHHHh
Q 037337          101 STLNDILGALRNPDISMLGICGMGGIGKTMLEK-EVARKA  139 (247)
Q Consensus       101 ~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~-~~~~~~  139 (247)
                      .+..++++..    ...+.|.|.+|+||||.+. .+++-+
T Consensus        14 ~eQ~~~v~~~----~g~~lV~g~aGSGKTt~l~~ri~~ll   49 (318)
T d1pjra1          14 KEQQEAVRTT----EGPLLIMAGAGSGKTRVLTHRIAYLM   49 (318)
T ss_dssp             HHHHHHHHCC----SSCEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCC----CCCEEEEecCCccHHHHHHHHHHHHH
Confidence            4444555532    2346688999999996554 444443

>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=94.64  E-value=0.005  Score=44.42  Aligned_cols=24  Identities=13%  Similarity=0.137  Sum_probs=20.6

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHH
Q 037337          114 DISMLGICGMGGIGKTMLEKEVAR  137 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~  137 (247)
                      ....|+|+|.+++|||||...+..
T Consensus        15 ~~~~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          15 TGIEVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             CSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhC
Confidence            456799999999999999988744

>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=94.61  E-value=0.0095  Score=44.81  Aligned_cols=23  Identities=26%  Similarity=0.319  Sum_probs=19.7

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      .-|.+.|.+|+|||||+.++...
T Consensus         7 ~KilllG~~~vGKTsll~~~~~~   29 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMRIL   29 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            45789999999999999998654

>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=94.49  E-value=0.011  Score=42.81  Aligned_cols=23  Identities=26%  Similarity=0.391  Sum_probs=20.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      -.|+|.|.+|+|||||...+...
T Consensus         9 ~kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2           9 IKVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHHCC
Confidence            35789999999999999998764

>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=94.47  E-value=0.015  Score=45.48  Aligned_cols=24  Identities=21%  Similarity=0.153  Sum_probs=16.5

Q ss_pred             cEEEEEcCCCCcHHHHH-HHHHHHh
Q 037337          116 SMLGICGMGGIGKTMLE-KEVARKA  139 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa-~~~~~~~  139 (247)
                      ..+.|.|.+|+||||++ ..+.+-.
T Consensus        15 ~~~lI~g~aGTGKTt~l~~rv~~ll   39 (306)
T d1uaaa1          15 GPCLVLAGAGSGKTRVITNKIAHLI   39 (306)
T ss_dssp             SEEEECCCTTSCHHHHHHHHHHHHH
T ss_pred             CCEEEEeeCCccHHHHHHHHHHHHH
Confidence            34678899999999654 4444433

>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=94.00  E-value=0.032  Score=42.83  Aligned_cols=38  Identities=24%  Similarity=0.475  Sum_probs=27.4

Q ss_pred             HHHHHHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          101 STLNDILGALRN--PDISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       101 ~~~~~L~~~L~~--~~~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      ..+.++...+..  ...-.|+|+|.+|+|||||...++.+
T Consensus        16 ~~l~e~~~~l~~~~~~~l~I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          16 TKLLELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             HHHHHHHHHHHHTTCCEEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             HHHHHHHHHHhhcCCCCcEEEEECCCCCcHHHHHHHHhCC
Confidence            344444444442  23467889999999999999999865

>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=93.95  E-value=0.005  Score=43.46  Aligned_cols=23  Identities=22%  Similarity=0.346  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 037337          117 MLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      -|++.|.+|+|||||+..+....
T Consensus         2 kI~liG~~n~GKSSLin~l~g~~   24 (160)
T d1xzpa2           2 RMVIVGKPNVGKSTLLNRLLNED   24 (160)
T ss_dssp             EEEEECCHHHHTCHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            37899999999999999998763

>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=93.85  E-value=0.017  Score=46.18  Aligned_cols=106  Identities=19%  Similarity=0.132  Sum_probs=53.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhCCCCCCCChHHHHHHHHHHHcCCCc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLGLTFREESESGRARSLFSRLNREKR  195 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~kr  195 (247)
                      +.+.|.|+.|+||||+.+.++......   ..++-+.-.....+..- .   .....  .........+.+...|+. .+
T Consensus       167 ~nili~G~tgSGKTT~l~al~~~i~~~---~rivtiEd~~El~l~~~-~---~~~~~--~~~~~~~~~~ll~~~lR~-~p  236 (323)
T d1g6oa_         167 KNVIVCGGTGSGKTTYIKSIMEFIPKE---ERIISIEDTEEIVFKHH-K---NYTQL--FFGGNITSADCLKSCLRM-RP  236 (323)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGGGSCTT---CCEEEEESSCCCCCSSC-S---SEEEE--ECBTTBCHHHHHHHHTTS-CC
T ss_pred             CCEEEEeeccccchHHHHHHhhhcccc---cceeeccchhhhhcccc-c---cccee--ccccchhHHHHHHHHhcc-CC
Confidence            447899999999999999998765322   11222211111110000 0   00000  000111233445555655 45


Q ss_pred             EEEEEeCCCCccchhhhcccCCCCCCCeEEEEeeCchhh
Q 037337          196 ILVILDNIWEHLDLQVVGIPHGDDHKGCKVLFTARSLDV  234 (247)
Q Consensus       196 ~LlvlDdv~~~~~~~~l~~~~~~~~~~s~iiiTtR~~~v  234 (247)
                      =.||+.++.+.+.+..+ .....++.|  ++-|....+.
T Consensus       237 d~iivgEiR~~ea~~~l-~a~~tGh~g--~~tT~Ha~s~  272 (323)
T d1g6oa_         237 DRIILGELRSSEAYDFY-NVLCSGHKG--TLTTLHAGSS  272 (323)
T ss_dssp             SEEEESCCCSTHHHHHH-HHHHTTCSC--EEEEECCSSH
T ss_pred             CcccCCccCchhHHHHH-HHHHhcCCc--EEEEECCCCH
Confidence            66899999988777655 333333334  4455554443

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Equine herpesvirus type 4 [TaxId: 10331]

Probab=93.65  E-value=0.03  Score=44.82  Aligned_cols=28  Identities=29%  Similarity=0.344  Sum_probs=24.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      ...|+|-|.-|+||||+++.+.+.+...
T Consensus         6 ~~rI~iEG~iGsGKSTl~~~L~~~l~~~   33 (333)
T d1p6xa_           6 IVRIYLDGVYGIGKSTTGRVMASAASGG   33 (333)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHSGGGCS
T ss_pred             eEEEEEECCccCCHHHHHHHHHHHhccC
Confidence            3568899999999999999999987654

>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=93.51  E-value=0.048  Score=42.15  Aligned_cols=38  Identities=18%  Similarity=0.228  Sum_probs=29.7

Q ss_pred             HHHHHHHHhcC--CCccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          102 TLNDILGALRN--PDISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       102 ~~~~L~~~L~~--~~~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      -+..|..+|..  +....+.++|+|+.|||+++..+.+-+
T Consensus        89 f~~~l~~~L~~~~~k~n~~~l~G~~~tGKS~f~~~i~~~l  128 (267)
T d1u0ja_          89 AASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             HHHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             HHHHHHHHHcCCCCccEEEEEEcCCCCCHHHHHHHHHHHh
Confidence            33455666742  457889999999999999999998865

>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=93.02  E-value=0.066  Score=36.37  Aligned_cols=52  Identities=10%  Similarity=0.023  Sum_probs=33.1

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhC
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLG  171 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~  171 (247)
                      +.++..|+++.|+|||+++-.++..      ....+++.+....-..+....+.+.++
T Consensus         7 ~~~~~ll~apTGsGKT~~~~~~~~~------~~~~vli~~P~~~l~~q~~~~~~~~~~   58 (136)
T d1a1va1           7 SFQVAHLHAPTGSGKSTKVPAAYAA------QGYKVLVLNPSVAATLGFGAYMSKAHG   58 (136)
T ss_dssp             SCEEEEEECCTTSCTTTHHHHHHHT------TTCCEEEEESCHHHHHHHHHHHHHHHS
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHH------cCCcEEEEcChHHHHHHHHHHHHHHhh
Confidence            4578889999999999988766542      223455555554444455555555543

>d1osna_ c.37.1.1 (A:) Thymidine kinase {Varicella-zoster virus [TaxId: 10335]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Varicella-zoster virus [TaxId: 10335]

Probab=92.65  E-value=0.031  Score=44.70  Aligned_cols=27  Identities=26%  Similarity=0.208  Sum_probs=23.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhccc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKNH  142 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~~  142 (247)
                      -.|+|-|.-|+||||+++.+.+.+..+
T Consensus         6 lrI~IEG~iGsGKSTl~~~L~~~l~~~   32 (331)
T d1osna_           6 LRIYLDGAYGIGKTTAAEEFLHHFAIT   32 (331)
T ss_dssp             EEEEEEESSSSCTTHHHHHHHHTTTTS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHhhc
Confidence            358899999999999999999887643

>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=92.54  E-value=0.038  Score=42.97  Aligned_cols=26  Identities=19%  Similarity=0.239  Sum_probs=22.5

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      +.+-|+|+|.+|.|||||+-.+....
T Consensus         5 ~iRni~i~gh~~~GKTtL~e~ll~~~   30 (276)
T d2bv3a2           5 RLRNIGIAAHIDAGKTTTTERILYYT   30 (276)
T ss_dssp             GEEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             hceEEEEEeCCCCCHHHHHHHHHHhc
Confidence            45789999999999999999997653

>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=92.10  E-value=0.051  Score=41.99  Aligned_cols=23  Identities=30%  Similarity=0.489  Sum_probs=20.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      |.|+|.|..|.|||||+-.+...
T Consensus         3 RNv~iiGh~~~GKTtL~e~ll~~   25 (267)
T d2dy1a2           3 RTVALVGHAGSGKTTLTEALLYK   25 (267)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCcHHHHHHHHHHH
Confidence            67899999999999999998653

>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=91.88  E-value=0.019  Score=43.51  Aligned_cols=23  Identities=22%  Similarity=0.414  Sum_probs=18.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      +..++.|.+|+|||||...+..+
T Consensus        98 ~~~vl~G~SGVGKSSLiN~L~~~  120 (231)
T d1t9ha2          98 KTTVFAGQSGVGKSSLLNAISPE  120 (231)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC-
T ss_pred             ceEEEECCCCccHHHHHHhhccH
Confidence            45568899999999999998654

>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=91.88  E-value=0.059  Score=40.36  Aligned_cols=23  Identities=22%  Similarity=0.320  Sum_probs=20.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      ++|+|.|-++.|||||+..+...
T Consensus         6 p~IaIiGh~d~GKSTL~~~L~~~   28 (227)
T d1g7sa4           6 PIVSVLGHVDHGKTTLLDHIRGS   28 (227)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEEeCCCccHHHHHHHHHhh
Confidence            56999999999999999988764

>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=91.84  E-value=0.048  Score=39.17  Aligned_cols=21  Identities=43%  Similarity=0.482  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 037337          117 MLGICGMGGIGKTMLEKEVAR  137 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~  137 (247)
                      -|+|.|.+++|||||...+..
T Consensus         7 nIaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            589999999999999999974

>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=91.77  E-value=0.03  Score=44.72  Aligned_cols=25  Identities=24%  Similarity=0.208  Sum_probs=19.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ..|+|-|.-|+||||+++.+.+...
T Consensus         5 lrI~IEG~iGsGKTTl~~~La~~l~   29 (329)
T d1e2ka_           5 LRVYIDGPHGMGKTTTTQLLVALGS   29 (329)
T ss_dssp             EEEEECSCTTSSHHHHHHHHTC---
T ss_pred             eEEEEECCcCCCHHHHHHHHHHHhC
Confidence            4588999999999999999986654

>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=90.02  E-value=0.57  Score=34.04  Aligned_cols=43  Identities=16%  Similarity=-0.001  Sum_probs=29.6

Q ss_pred             ccccchHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337           95 AFESRMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus        95 ~~~gR~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .+.-|+-+.+.+..++..+   ...|.++.|.|||.+|..++....
T Consensus        68 ~~~Lr~yQ~eav~~~~~~~---~~ll~~~tG~GKT~~a~~~~~~~~  110 (206)
T d2fz4a1          68 EISLRDYQEKALERWLVDK---RGCIVLPTGSGKTHVAMAAINELS  110 (206)
T ss_dssp             CCCCCHHHHHHHHHHTTTS---EEEEEESSSTTHHHHHHHHHHHSC
T ss_pred             CCCcCHHHHHHHHHHHhCC---CcEEEeCCCCCceehHHhHHHHhc
Confidence            4455666666666655432   345778999999999988887653

>d1gm5a3 c.37.1.19 (A:286-549) RecG helicase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: RecG helicase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=89.88  E-value=0.8  Score=34.86  Aligned_cols=43  Identities=14%  Similarity=0.068  Sum_probs=34.3

Q ss_pred             chHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337           99 RMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus        99 R~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      ....++++.+.+.++....-.|.|.-|+|||.+|...+...-.
T Consensus        88 Q~~ai~ei~~d~~~~~~m~rLL~GdvGSGKT~Va~~a~~~~~~  130 (264)
T d1gm5a3          88 QKRAHQEIRNDMISEKPMNRLLQGDVGSGKTVVAQLAILDNYE  130 (264)
T ss_dssp             HHHHHHHHHHHHHSSSCCCCEEECCSSSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhccCcceeeeeccccccccHHHHHHHHHHHh
Confidence            4566777888887777677789999999999999888776543

>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=89.72  E-value=0.12  Score=42.29  Aligned_cols=23  Identities=17%  Similarity=0.322  Sum_probs=20.2

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVAR  137 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~  137 (247)
                      .--|+|.|.+|+|||||...+..
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            35689999999999999999874

>d1wp9a1 c.37.1.19 (A:1-200) putative ATP-dependent RNA helicase PF2015 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: putative ATP-dependent RNA helicase PF2015
species: Pyrococcus furiosus [TaxId: 2261]

Probab=89.54  E-value=0.4  Score=34.37  Aligned_cols=36  Identities=22%  Similarity=0.237  Sum_probs=22.2

Q ss_pred             chHHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHH
Q 037337           99 RMSTLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus        99 R~~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      |+-+.+ +++.+.+.  . +.|+++.|.|||..+..++..
T Consensus        11 r~~Q~~-~~~~~~~~--n-~lv~~pTGsGKT~i~~~~~~~   46 (200)
T d1wp9a1          11 RIYQEV-IYAKCKET--N-CLIVLPTGLGKTLIAMMIAEY   46 (200)
T ss_dssp             CHHHHH-HHHHGGGS--C-EEEECCTTSCHHHHHHHHHHH
T ss_pred             CHHHHH-HHHHHhcC--C-eEEEeCCCCcHHHHHHHHHHH
Confidence            444444 44444433  2 457799999999876666543

>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=89.44  E-value=0.13  Score=39.86  Aligned_cols=33  Identities=30%  Similarity=0.481  Sum_probs=26.3

Q ss_pred             HHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          106 ILGALRNPDISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       106 L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      +++.+ +++..+|+|.|+-++|||+|+..++...
T Consensus        24 ~l~~~-~~~v~vvsi~G~~~sGKS~llN~l~~~~   56 (277)
T d1f5na2          24 ILSAI-TQPMVVVAIVGLYRTGKSYLMNKLAGKK   56 (277)
T ss_dssp             HHHTC-CSBEEEEEEEEBTTSSHHHHHHHHTTCS
T ss_pred             HHHcC-CCCEEEEEEECCCCCCHHHHHHHHcCCC
Confidence            44434 4458899999999999999999998653

>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=89.14  E-value=0.11  Score=40.09  Aligned_cols=22  Identities=27%  Similarity=0.535  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 037337          117 MLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      -|+|+|.|.+|||||-..+-..
T Consensus         4 ~~GivG~Pn~GKSTlf~~lt~~   25 (278)
T d1jala1           4 KCGIVGLPNVGKSTLFNALTKA   25 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHCC
Confidence            5899999999999999988764

>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=88.93  E-value=0.15  Score=37.45  Aligned_cols=21  Identities=29%  Similarity=0.322  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 037337          117 MLGICGMGGIGKTMLEKEVAR  137 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~  137 (247)
                      -|+|.|-.+.|||||+.++..
T Consensus         5 ni~iiGhvd~GKSTL~~~Ll~   25 (204)
T d2c78a3           5 NVGTIGHVDHGKTTLTAALTY   25 (204)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            488999999999999998854

>d1qhla_ c.37.1.12 (A:) Cell division protein MukB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cell division protein MukB
species: Escherichia coli [TaxId: 562]

Probab=88.19  E-value=0.041  Score=39.58  Aligned_cols=25  Identities=16%  Similarity=0.170  Sum_probs=21.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      .+.+|+|+.|+||||+...+.--+-
T Consensus        25 ~~tvi~G~NGsGKStil~Ai~~~L~   49 (222)
T d1qhla_          25 LVTTLSGGNGAGKSTTMAAFVTALI   49 (222)
T ss_dssp             HHHHHHSCCSHHHHHHHHHHHHHHS
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhc
Confidence            4667899999999999999986653

>d1e9ra_ c.37.1.11 (A:) Bacterial conjugative coupling protein TrwB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Bacterial conjugative coupling protein TrwB
species: Escherichia coli [TaxId: 562]

Probab=88.11  E-value=0.31  Score=39.61  Aligned_cols=24  Identities=33%  Similarity=0.468  Sum_probs=19.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      +-+.|.|..|+|||+++..+....
T Consensus        51 ~H~~I~G~tGsGKT~~l~~li~~~   74 (433)
T d1e9ra_          51 RHLLVNGATGTGKSVLLRELAYTG   74 (433)
T ss_dssp             GCEEEEECTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEeCCCCcHHHHHHHHHHHH
Confidence            558899999999999987766554

>d1g8fa3 c.37.1.15 (A:390-511) ATP sulfurylase C-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=88.06  E-value=0.2  Score=33.46  Aligned_cols=26  Identities=4%  Similarity=-0.079  Sum_probs=22.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhcc
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKAKN  141 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~~~  141 (247)
                      -+|.+.|..|+||+|||..+...+-.
T Consensus         7 f~i~~tg~~~~gk~~ia~al~~~l~q   32 (122)
T d1g8fa3           7 FSIVLGNSLTVSREQLSIALLSTFLQ   32 (122)
T ss_dssp             EEEEECTTCCSCHHHHHHHHHHHHTT
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHHHHH
Confidence            46889999999999999999888743

>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=87.74  E-value=0.16  Score=39.61  Aligned_cols=23  Identities=26%  Similarity=0.531  Sum_probs=20.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      --|+|+|.|.+|||||-..+...
T Consensus        11 ~kiGivG~Pn~GKSTlfnalT~~   33 (296)
T d1ni3a1          11 LKTGIVGMPNVGKSTFFRAITKS   33 (296)
T ss_dssp             CEEEEEECSSSSHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHHCC
Confidence            45999999999999999999865

>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=87.18  E-value=0.16  Score=39.92  Aligned_cols=21  Identities=19%  Similarity=0.403  Sum_probs=18.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 037337          118 LGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       118 v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      |+|+|.|.+|||||...+-..
T Consensus         3 v~lvG~pn~GKStlfn~lt~~   23 (319)
T d1wxqa1           3 IGVVGKPNVGKSTFFSAATLV   23 (319)
T ss_dssp             EEEEECTTSSHHHHHHHHHC-
T ss_pred             EeEECCCCCCHHHHHHHHHCC
Confidence            799999999999999999553

>d1j3ba1 c.91.1.1 (A:212-529) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Thermus thermophilus [TaxId: 274]

Probab=87.17  E-value=0.16  Score=39.89  Aligned_cols=19  Identities=32%  Similarity=0.567  Sum_probs=16.2

Q ss_pred             cEEEEEcCCCCcHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKE  134 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~  134 (247)
                      .+....|.+|+|||||...
T Consensus        15 ~valffGLSGTGKTTLs~~   33 (318)
T d1j3ba1          15 DVAVFFGLSGTGKTTLSTD   33 (318)
T ss_dssp             CEEEEEECTTSCHHHHTCB
T ss_pred             CEEEEEccCCCCccccccC
Confidence            5678899999999998753

>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=86.98  E-value=0.42  Score=36.58  Aligned_cols=26  Identities=27%  Similarity=0.344  Sum_probs=22.3

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ..-.++|+|++.+|||||+..+....
T Consensus       111 ~~~~v~vvG~PNvGKSsliN~L~~~~  136 (273)
T d1puja_         111 RAIRALIIGIPNVGKSTLINRLAKKN  136 (273)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             CceEEEEEecCccchhhhhhhhhccc
Confidence            34568999999999999999998754

>d2olra1 c.91.1.1 (A:228-540) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Escherichia coli [TaxId: 562]

Probab=86.94  E-value=0.19  Score=39.34  Aligned_cols=18  Identities=33%  Similarity=0.549  Sum_probs=15.6

Q ss_pred             cEEEEEcCCCCcHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEK  133 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~  133 (247)
                      .+....|.+|+|||||..
T Consensus        15 ~~alfFGLSGTGKTTLs~   32 (313)
T d2olra1          15 DVAVFFGLSGTGKTTLST   32 (313)
T ss_dssp             CEEEEECSTTSSHHHHHC
T ss_pred             CEEEEEccCCCCccccee
Confidence            566789999999999884

>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=86.53  E-value=0.23  Score=39.54  Aligned_cols=25  Identities=12%  Similarity=0.312  Sum_probs=21.9

Q ss_pred             CccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          114 DISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       114 ~~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      ..|-|+|.|..|.|||||+-.+...
T Consensus        16 ~IRNI~iiGhvd~GKTTL~d~Ll~~   40 (341)
T d1n0ua2          16 NVRNMSVIAHVDHGKSTLTDSLVQR   40 (341)
T ss_dssp             GEEEEEEECCGGGTHHHHHHHHHHH
T ss_pred             cCcEEEEEeCCCCcHHHHHHHHHHH
Confidence            4677999999999999999988654

>d2p6ra3 c.37.1.19 (A:1-202) Hel308 helicase {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Hel308 helicase
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=86.37  E-value=0.36  Score=34.90  Aligned_cols=19  Identities=26%  Similarity=0.209  Sum_probs=15.2

Q ss_pred             EEEEEcCCCCcHHHHHHHH
Q 037337          117 MLGICGMGGIGKTMLEKEV  135 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~  135 (247)
                      -+.|.++.|+|||+.|...
T Consensus        42 ~~il~apTGsGKT~~a~l~   60 (202)
T d2p6ra3          42 NLLLAMPTAAGKTLLAEMA   60 (202)
T ss_dssp             CEEEECSSHHHHHHHHHHH
T ss_pred             CEEEEcCCCCchhHHHHHH
Confidence            4669999999999887443

>d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: YFV helicase domain
species: Yellow fever virus [TaxId: 11089]

Probab=86.35  E-value=0.25  Score=32.89  Aligned_cols=20  Identities=20%  Similarity=-0.145  Sum_probs=16.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEV  135 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~  135 (247)
                      ..+.|+++.|+|||..|...
T Consensus         8 ~~~il~~~tGsGKT~~~~~~   27 (140)
T d1yksa1           8 MTTVLDFHPGAGKTRRFLPQ   27 (140)
T ss_dssp             CEEEECCCTTSSTTTTHHHH
T ss_pred             CcEEEEcCCCCChhHHHHHH
Confidence            56788999999999776544

>d1p3da1 c.5.1.1 (A:11-106) UDP-N-acetylmuramate-alanine ligase MurC {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: MurCD N-terminal domain
superfamily: MurCD N-terminal domain
family: MurCD N-terminal domain
domain: UDP-N-acetylmuramate-alanine ligase MurC
species: Haemophilus influenzae [TaxId: 727]

Probab=85.61  E-value=0.45  Score=30.25  Aligned_cols=24  Identities=17%  Similarity=0.441  Sum_probs=20.7

Q ss_pred             ccEEEEEcCCCCcHHHHHHHHHHH
Q 037337          115 ISMLGICGMGGIGKTMLEKEVARK  138 (247)
Q Consensus       115 ~~~v~I~G~~GiGKTtLa~~~~~~  138 (247)
                      .+-+.+.|.||+|.+.||+.+.+.
T Consensus         8 ~~~ihfiGigG~GMs~LA~~L~~~   31 (96)
T d1p3da1           8 VQQIHFIGIGGAGMSGIAEILLNE   31 (96)
T ss_dssp             CCEEEEETTTSTTHHHHHHHHHHH
T ss_pred             CCEEEEEEECHHHHHHHHHHHHhC
Confidence            467899999999999999888764

>d1ii2a1 c.91.1.1 (A:201-523) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Trypanosoma cruzi [TaxId: 5693]

Probab=85.51  E-value=0.21  Score=39.36  Aligned_cols=18  Identities=33%  Similarity=0.538  Sum_probs=15.5

Q ss_pred             cEEEEEcCCCCcHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEK  133 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~  133 (247)
                      .+....|.+|+|||||..
T Consensus        15 d~alfFGLSGTGKTTLs~   32 (323)
T d1ii2a1          15 DVTVFFGLSGTGKTTLSA   32 (323)
T ss_dssp             CEEEEECCTTSSHHHHHC
T ss_pred             CEEEEEccCCCCccccee
Confidence            456789999999999984

>d1e69a_ c.37.1.12 (A:) Smc head domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Thermotoga maritima [TaxId: 2336]

Probab=85.37  E-value=0.22  Score=38.46  Aligned_cols=43  Identities=14%  Similarity=0.122  Sum_probs=27.4

Q ss_pred             CcEEEEEeCCCCccch---hhhcccCCCCCCCeEEEEeeCchhhhh
Q 037337          194 KRILVILDNIWEHLDL---QVVGIPHGDDHKGCKVLFTARSLDVLS  236 (247)
Q Consensus       194 kr~LlvlDdv~~~~~~---~~l~~~~~~~~~~s~iiiTtR~~~va~  236 (247)
                      +.-++++|+++...+.   ..+...+......+.|||||.++.+..
T Consensus       241 ~~~~~~iDEpe~~Lhp~~~~~l~~~l~~~~~~~QviitTHsp~~~~  286 (308)
T d1e69a_         241 PSPFYVLDEVDSPLDDYNAERFKRLLKENSKHTQFIVITHNKIVME  286 (308)
T ss_dssp             CCSEEEEESCCSSCCHHHHHHHHHHHHHHTTTSEEEEECCCTTGGG
T ss_pred             cCchhhhhhccccCCHHHHHHHHHHHHHhccCCEEEEEECCHHHHH
Confidence            4468888999865331   222222222345789999999998864

>d1w1wa_ c.37.1.12 (A:) Smc head domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=83.56  E-value=0.37  Score=38.69  Aligned_cols=21  Identities=24%  Similarity=0.453  Sum_probs=18.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHH
Q 037337          116 SMLGICGMGGIGKTMLEKEVA  136 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~  136 (247)
                      .+-+|+|+-|+|||++.-.++
T Consensus        26 ~l~~i~G~NGsGKS~ileAi~   46 (427)
T d1w1wa_          26 NFTSIIGPNGSGKSNMMDAIS   46 (427)
T ss_dssp             SEEEEECSTTSSHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHH
Confidence            567899999999999988874

>d1d0xa2 c.37.1.9 (A:2-33,A:80-759) Myosin S1, motor domain {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Dictyostelium discoideum [TaxId: 44689]

Probab=81.65  E-value=0.63  Score=40.77  Aligned_cols=30  Identities=33%  Similarity=0.315  Sum_probs=24.4

Q ss_pred             hcCCCccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          110 LRNPDISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       110 L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      +.......|.|.|.+|.|||.-++.+.+.+
T Consensus       120 ~~~~~nQsIiisGeSGaGKTe~~k~il~yL  149 (712)
T d1d0xa2         120 LDDRQNQSLLITGESGAGKTENTKKVIQYL  149 (712)
T ss_dssp             HHHTCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHhCCCceEEEeCCCCCCHHHHHHHHHHHH
Confidence            334456799999999999999999987754

>d1t5la1 c.37.1.19 (A:2-414) Nucleotide excision repair enzyme UvrB {Bacillus caldotenax [TaxId: 1395]}

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: Nucleotide excision repair enzyme UvrB
species: Bacillus caldotenax [TaxId: 1395]

Probab=81.53  E-value=1.5  Score=35.52  Aligned_cols=64  Identities=14%  Similarity=0.226  Sum_probs=42.9

Q ss_pred             HHHHHHHHHhcCCCccEEEEEcCCCCcHHHHHHHHHHHhcccCCCCEEEEEEeCCCCCHHHHHHHHHHHhC
Q 037337          101 STLNDILGALRNPDISMLGICGMGGIGKTMLEKEVARKAKNHKLFDLVVFSEMSQSPDIRKVQGEIADKLG  171 (247)
Q Consensus       101 ~~~~~L~~~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~f~~~~wv~~~~~~~~~~l~~~i~~~l~  171 (247)
                      ..+++|.+.|..+ .+...|.|..|+|||.++..++......      +.|-+.......++..++...++
T Consensus        18 ~aI~~l~~~l~~g-~~~q~l~GltGS~ka~~iA~l~~~~~rp------~LVVt~n~~~A~qL~~dL~~~l~   81 (413)
T d1t5la1          18 QAIAKLVDGLRRG-VKHQTLLGATGTGKTFTISNVIAQVNKP------TLVIAHNKTLAGQLYSELKEFFP   81 (413)
T ss_dssp             HHHHHHHHHHHHT-CSEEEEEECTTSCHHHHHHHHHHHHTCC------EEEECSSHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHhcC-CCcEEEeCCCCcHHHHHHHHHHHHhCCC------EEEEeCCHHHHHHHHHHHHHHcC
Confidence            3477888877643 4667799999999999999998876432      33444444445566666555543

>d1lkxa_ c.37.1.9 (A:) Myosin S1, motor domain {Dictyostelium discoideum, class-I myosin MyoE [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Dictyostelium discoideum, class-I myosin MyoE [TaxId: 44689]

Probab=81.47  E-value=0.65  Score=40.48  Aligned_cols=30  Identities=23%  Similarity=0.274  Sum_probs=24.1

Q ss_pred             hcCCCccEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          110 LRNPDISMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       110 L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      ........|.|.|.+|.|||+-++.+.+.+
T Consensus        81 ~~~~~~QsIiisGeSGsGKTe~~k~il~yL  110 (684)
T d1lkxa_          81 RQSQENQCVIISGESGAGKTEASKKIMQFL  110 (684)
T ss_dssp             HHHCCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHcCCCeEEEEEcCCCCCHHHHHHHHHHHH
Confidence            334445689999999999999999987765

>d1br2a2 c.37.1.9 (A:80-789) Myosin S1, motor domain {Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]

Probab=80.98  E-value=0.68  Score=40.53  Aligned_cols=32  Identities=25%  Similarity=0.246  Sum_probs=25.6

Q ss_pred             HhcCCCccEEEEEcCCCCcHHHHHHHHHHHhc
Q 037337          109 ALRNPDISMLGICGMGGIGKTMLEKEVARKAK  140 (247)
Q Consensus       109 ~L~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~  140 (247)
                      ++.......|.|.|.+|.|||+-++.+.+.+.
T Consensus        85 m~~~~~~Q~IiisGeSGaGKTe~~k~il~yL~  116 (710)
T d1br2a2          85 MLQDREDQSILCTGESGAGKTENTKKVIQYLA  116 (710)
T ss_dssp             HHHHTCCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             HHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            33344557899999999999999999988763

>d1d2ea3 c.37.1.8 (A:55-250) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Cow (Bos taurus), mitochondrial [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: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Cow (Bos taurus), mitochondrial [TaxId: 9913]

Probab=80.73  E-value=0.63  Score=33.69  Aligned_cols=21  Identities=29%  Similarity=0.414  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 037337          117 MLGICGMGGIGKTMLEKEVAR  137 (247)
Q Consensus       117 ~v~I~G~~GiGKTtLa~~~~~  137 (247)
                      -|+|.|-.+.|||||+..+..
T Consensus         5 ni~iiGHvd~GKSTL~~~l~~   25 (196)
T d1d2ea3           5 NVGTIGHVDHGKTTLTAAITK   25 (196)
T ss_dssp             EEEEESSTTSSHHHHHHHHHH
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            488999999999999998864

>d1gkub1 c.37.1.16 (B:1-250) Helicase-like "domain" of reverse gyrase {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Helicase-like "domain" of reverse gyrase
domain: Helicase-like "domain" of reverse gyrase
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=80.63  E-value=1.5  Score=32.17  Aligned_cols=24  Identities=17%  Similarity=0.178  Sum_probs=17.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHh
Q 037337          116 SMLGICGMGGIGKTMLEKEVARKA  139 (247)
Q Consensus       116 ~~v~I~G~~GiGKTtLa~~~~~~~  139 (247)
                      +-+.|+++.|.|||+.+...+-..
T Consensus        59 ~~~~i~apTGsGKT~~~~~~~~~~   82 (237)
T d1gkub1          59 ESFAATAPTGVGKTSFGLAMSLFL   82 (237)
T ss_dssp             CCEECCCCBTSCSHHHHHHHHHHH
T ss_pred             CCEEEEecCCChHHHHHHHHHHHH
Confidence            346688999999998766555443