Citrus Sinensis ID: 036637

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250
Protein Sequence
MVESIVTVVLEVAKCLGRPTERQLSFVRNYRSNFENLKTELEKLKDDGASMQHGVDEGRRKGEEIEKNVEKWLASVNNIITEAEKFTGDADKANKRCFMGLCPNLKTRHRFSKEAVRQQKAIVELGEAGRFDRLSYRKALEDIRLISNKDYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGLIFFEETESGRARSLYNRLKG
Secondary Structure (PSIPRED)
cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccHHHcccccccccccccHHHHHHHHHHccccccEEEEEEcccccHHHHHHHHHHHHcccccccEEEEEEEcccccHHHHHHHHHHHHccccccccHHHHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHccccccEEEcccccccccccccccccccccHHHHHHHHHHHHcccccEEEEEEccccccHHHHHHHHHHHHHHcccccEEEEEEEcccccHHHHHHHHHHHccccEccccHHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
MVESIVTVVLEVAKclgrpterqLSFVRNYRSNFENLKTELEKLkddgasmqhgvdegrRKGEEIEKNVEKWLASVNNIITEAEkftgdadkankrcfmglcpnlktrhrFSKEAVRQQKAIVELgeagrfdrLSYRKALEDIRLISNKDYEAFESRSSTLNNVLRalqdpdvnmvgiygmggigkTTLAKEVAIQFGRDQFFDQVIFVevphipdirKIQGEIADKLGLIFFEETESGRARSLYNRLKG
Flexible Loop (DISEMBL)
MVESIVTVVLEvakclgrpterqlsfvrnYRSNFENLKTELeklkddgasmqhgvdegrrkgeeIEKNVEKWLASVNNIITEAEKFTGDADKANKRCFMGLCPNlktrhrfskeAVRQQKAivelgeagrfdrlsyrKALEDIRLISNKDYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGLIffeetesgrarslynrlkg
Low Complexity Region (SEG)
MVESIVTVVLEVAKCLGRPTERQLSFVRNYRSNFENLKTELEKLKDDGASMQHGVDEGRRKGEEIEKNVEKWLASVNNIITEAEKFTGDADKANKRCFMGLCPNLKTRHRFSKEAVRQQKAIVELGEAGRFDRLSYRKALEDIRLISNKDYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGLIFFEETESGRARSLYNRLKG
Disordered region (IsUnstruct)
****IVTVVLEVAKCLGRPTERQLSFVRNYRSNF**********************************VEKWLASVNNIITEAEKFTGDADKANKRCFMGLCPNLKTRHRFSKEAVRQQKAIVELGEAGRFDRLSYRKALEDIRLISNKDYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGLIFFE****************
Disordered Region (DISOPRED)
MVESIVTVVLEVAKCLGRPTERQLSFVRNYRSNFENLKTELEKLKDDGASMQHGVDEGRRKGEEIEKNVEKWLASVNNIITEAEKFTGDADKANKRCFMGLCPNLKTRHRFSKEAVRQQKAIVELGEAGRFDRLSYRK****************ESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGLIFFE*TE*GRARSLYNRLKG
Disordered Region (DISEMBL)
MVESIVTVVLEVAKCLGRPTERQLSFVRNYRSNFENLKTELEKLKDDGASMQHGVDEGRRKGEEIEKNVEKWLASVNNIITEAEKFTGDADKANKRCFMGLCPNLKTRHRFSKEAVRQQKAIVELGEAGRFDRLSYRKALEDIRLISNKDYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGLIFFEETESGRARSLYNRLKG
Disordered Region (DISPRO)
MVESIVTVVLEVAKCLGRPTERQLSFVRNYRSNFENLKTELEKLKDDGASMQHGVDEGRRKGEEIEKNVEKWLASVNNIITEAEKFTGDADKANKRCFMGLCPNLKTRHRFSKEAVRQQKAIVELGEAGRFDRLSYRKALEDIRLISNKDYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGLIFFEETESGRARSLYNRLKG
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MVESIVTVVLEVAKCLGRPTERQLSFxxxxxxxxxxxxxxxxxxxxxGASMQHGVDEGRRKGEEIEKNVEKWLASVNNIITEAEKFTGDADKANKRCFMGLCPNLKTRHRFSKEAVRQQKAIVELGEAGRFDRLSYRKALEDIRLISNKDYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGLIFFEETESGRARSLYNRLKG
Positional Conservation
no confident homologs detected

---

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	250	2.2.26 [Sep-21-2011]
O22727	967	Probable disease resistan	yes	no	0.888	0.229	0.259	2e-14
P60838	894	Probable disease resistan	no	no	0.88	0.246	0.281	9e-14
O64789	925	Probable disease resistan	no	no	0.892	0.241	0.258	1e-13
Q8L3R3	885	Disease resistance protei	no	no	0.872	0.246	0.261	2e-13
Q940K0	889	Probable disease resistan	no	no	0.892	0.250	0.258	4e-13
O64973	889	Disease resistance protei	no	no	0.844	0.237	0.281	4e-13
Q8RXS5	888	Probable disease resistan	no	no	0.924	0.260	0.241	1e-11
O23317	719	Probable disease resistan	no	no	0.88	0.305	0.232	1e-10
Q9LVT3	948	Probable disease resistan	no	no	0.864	0.227	0.273	1e-10
Q9FLB4	874	Putative disease resistan	no	no	0.844	0.241	0.236	2e-10

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

 Score = 80.1 bits (196), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 60/231 (25%), Positives = 111/231 (48%), Gaps = 9/231 (3%)

Query: 26  FVRNYRSNFENLKTELEKLKDDGASMQHGVDEGRRKGEEIEKNVEKWLASVNNIITEAEK 85
           ++RN   N   L+ E+E L+     +Q+ V     + ++  + V+ WL  VN+I  E + 
Sbjct: 27  YIRNLEKNLRALQREMEDLRATQHEVQNKVAREESRHQQRLEAVQVWLDRVNSIDIECKD 86

Query: 86  FTGDAD-KANKRCFMGLCPN-LKTRHRFSKEAVRQQKAIVELGEAGRFDRLSYRKALEDI 143
               +  +  K C  GLC   + + +++ K      + + +L   G FD +S      ++
Sbjct: 87  LLSVSPVELQKLCLCGLCSKYVCSSYKYGKRVFLLLEEVTKLKSEGNFDEVSQPPPRSEV 146

Query: 144 RLISNKDYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGRD-QF 202
                +  +    +   L      L +  V ++G++GMGG+GKTTL K++  +F      
Sbjct: 147 E---ERPTQPTIGQEEMLKKAWNRLMEDGVGIMGLHGMGGVGKTTLFKKIHNKFAETGGT 203

Query: 203 FDQVIFVEVPHIPDIRKIQGEIADKLGL---IFFEETESGRARSLYNRLKG 250
           FD VI++ V     + K+Q +IA+KL L   ++  + ES +A  ++  LKG
Sbjct: 204 FDIVIWIVVSQGAKLSKLQEDIAEKLHLCDDLWKNKNESDKATDIHRVLKG 254

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 = 77.4 bits (189), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 65/231 (28%), Positives = 108/231 (46%), Gaps = 11/231 (4%)

Query: 26  FVRNYRSNFENLKTELEKLKD--DGASMQHGVDEGRRKGEEIEKNVEKWLASVNNIITE- 82
           ++     N   +K ++E LK   D    +  ++E  R+ E + + V+ WL +V+ +  + 
Sbjct: 28  YICELSKNVVAMKKDMEVLKKKRDDVKRRVDIEEFTRRRERLSQ-VQGWLTNVSTVENKF 86

Query: 83  AEKFTGDADKANKRCFMGLCP-NLKTRHRFSKEAVRQQKAIVELGEAGRFDRLSYRKALE 141
            E  T +  +  + C  G C  N+K  + + K  V   K I  L   G FD ++    + 
Sbjct: 87  NELLTTNDAELQRLCLFGFCSKNVKMSYLYGKRVVLMLKEIESLSSQGDFDTVTLATPIA 146

Query: 142 DIRLISNKDYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFG-RD 200
            I  +  +       + + L  V   L +    +VG+YGMGG+GKTTL   +  +F  + 
Sbjct: 147 RIEEMPIQP--TIVGQETMLERVWTRLTEDGDEIVGLYGMGGVGKTTLLTRINNKFSEKC 204

Query: 201 QFFDQVIFVEVPHIPDIRKIQGEIADKLGL---IFFEETESGRARSLYNRL 248
             F  VI+V V   PDI +IQG+I  +L L    +    E+ RA  +YN L
Sbjct: 205 SGFGVVIWVVVSKSPDIHRIQGDIGKRLDLGGEEWDNVNENQRALDIYNVL 255

Probable 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 = 77.0 bits (188), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 60/232 (25%), Positives = 111/232 (47%), Gaps = 9/232 (3%)

Query: 25  SFVRNYRSNFENLKTELEKLKDDGASMQHGVDEGRRKGEEIEKNVEKWLASVNNIITEAE 84
           S++R    N   L+ E+E L+     +Q+ V     + ++  + V+ WL  VN+I  E +
Sbjct: 27  SYIRTLEKNLRALQREMEDLRATQHEVQNKVAREESRHQQRLEAVQVWLDRVNSIDIECK 86

Query: 85  KFTGDAD-KANKRCFMGLCPN-LKTRHRFSKEAVRQQKAIVELGEAGRFDRLSYRKALED 142
                +  +  K C  GLC   + + +++ K+     + +  L   G FD +S      +
Sbjct: 87  DLLSVSPVELQKLCLCGLCTKYVCSSYKYGKKVFLLLEEVKILKSEGNFDEVSQPPPRSE 146

Query: 143 IRLISNKDYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGR-DQ 201
           +     +  +    +   L      L +  V ++G++GMGG+GKTTL K++  +F     
Sbjct: 147 VE---ERPTQPTIGQEEMLEKAWNRLMEDGVGIMGLHGMGGVGKTTLFKKIHNKFAEIGG 203

Query: 202 FFDQVIFVEVPHIPDIRKIQGEIADKLGL---IFFEETESGRARSLYNRLKG 250
            FD VI++ V     + K+Q +IA+KL L   ++  + ES +A  ++  LKG
Sbjct: 204 TFDIVIWIVVSQGAKLSKLQEDIAEKLHLCDDLWKNKNESDKATDIHRVLKG 255

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score = 75.9 bits (185), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 62/237 (26%), Positives = 109/237 (45%), Gaps = 19/237 (8%)

Query: 25  SFVRNYRSNFENLKTELEKLKDDGASMQHGVDEGRRKGEEIEKN------VEKWLASVNN 78
           S+++N   N  +L+  +  L      +Q     GR   EE   +      V+ WL  +  
Sbjct: 27  SYIQNLSENLASLQKAMGVLNAKRDDVQ-----GRINREEFTGHRRRLAQVQVWLTRIQT 81

Query: 79  IITEAEKFTGDADKANKR-CFMGLCP-NLKTRHRFSKEAVRQQKAIVELGEAGRFDRLSY 136
           I  +        +   +R C  G C  N+K  + + K  +   + +  L   G FD ++ 
Sbjct: 82  IENQFNDLLSTCNAEIQRLCLCGFCSKNVKMSYLYGKRVIVLLREVEGLSSQGVFDIVTE 141

Query: 137 RKALEDIRLISNKDYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQ 196
              + ++  +  +       + S L+ V   L +  V +VG+YGMGG+GKTTL  ++  +
Sbjct: 142 AAPIAEVEELPIQS--TIVGQDSMLDKVWNCLMEDKVWIVGLYGMGGVGKTTLLTQINNK 199

Query: 197 FGR-DQFFDQVIFVEVPHIPDIRKIQGEIADKLGLI---FFEETESGRARSLYNRLK 249
           F +    FD VI+V V     + KIQ  I +KLGL+   + E+ ++ RA  ++N L+
Sbjct: 200 FSKLGGGFDVVIWVVVSKNATVHKIQKSIGEKLGLVGKNWDEKNKNQRALDIHNVLR 256

Disease resistance (R) protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score = 75.5 bits (184), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 60/232 (25%), Positives = 110/232 (47%), Gaps = 9/232 (3%)

Query: 25  SFVRNYRSNFENLKTELEKLKDDGASMQHGVDEGRRKGEEIEKNVEKWLASVNNIITEAE 84
           S++R    N   L+ E+E L+     +Q+ V     + +   + V+ WL  VN++  E +
Sbjct: 25  SYIRTLEKNLRALQREMEDLRAIQHEVQNKVARDEARHQRRLEAVQVWLDRVNSVDIECK 84

Query: 85  KFTGDAD-KANKRCFMGLCPN-LKTRHRFSKEAVRQQKAIVELGEAGRFDRLSYRKALED 142
                   +  K C  GLC   + + +++ K+     + + +L   G FD +S      +
Sbjct: 85  DLLSVTPVELQKLCLCGLCSKYVCSSYKYGKKVFLLLEEVKKLNSEGNFDEVSQPPPRSE 144

Query: 143 IRLISNKDYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGR-DQ 201
           +     +  +    +   L      L +  V ++G++GMGG+GKTTL K++  +F     
Sbjct: 145 VE---ERPTQPTIGQEDMLEKAWNRLMEDGVGIMGLHGMGGVGKTTLFKKIHNKFAEIGG 201

Query: 202 FFDQVIFVEVPHIPDIRKIQGEIADKLGL---IFFEETESGRARSLYNRLKG 250
            FD VI++ V     I K+Q +IA+KL L   ++  + ES +A  ++  LKG
Sbjct: 202 TFDIVIWIVVSKGVMISKLQEDIAEKLHLCDDLWKNKNESDKATDIHRVLKG 253

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 = 75.5 bits (184), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 61/217 (28%), Positives = 99/217 (45%), Gaps = 6/217 (2%)

Query: 25  SFVRNYRSNFENLKTELEKLKDDGASMQHGVDEGRRKG-EEIEKNVEKWLASVNNIITEA 83
           S++ N   N  +L+  +  LK     +   ++     G ++    V+ WL SV  I  + 
Sbjct: 27  SYIHNLSKNLASLQKAMRMLKARQYDVIRRLETEEFTGRQQRLSQVQVWLTSVLIIQNQF 86

Query: 84  EKFTGDADKANKR-CFMGLCP-NLKTRHRFSKEAVRQQKAIVELGEAGRFDRLSYRKALE 141
                  +   +R C  G C  +LK  +R+ K  +   K +  L   G FD +S      
Sbjct: 87  NDLLRSNEVELQRLCLCGFCSKDLKLSYRYGKRVIMMLKEVESLSSQGFFDVVSEATPFA 146

Query: 142 DIRLISNKDYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGR-D 200
           D+  I  +       +   L      L +    ++G+YGMGG+GKTTL  ++  +F + D
Sbjct: 147 DVDEIPFQP--TIVGQEIMLEKAWNRLMEDGSGILGLYGMGGVGKTTLLTKINNKFSKID 204

Query: 201 QFFDQVIFVEVPHIPDIRKIQGEIADKLGLIFFEETE 237
             FD VI+V V     +RKIQ +IA+K+GL   E +E
Sbjct: 205 DRFDVVIWVVVSRSSTVRKIQRDIAEKVGLGGMEWSE 241

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

 Score = 70.1 bits (170), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 59/244 (24%), Positives = 112/244 (45%), Gaps = 13/244 (5%)

Query: 12  VAKCLGRPTERQLSFVRNYRSNFENLKTELEKLKDDGASMQHGVDEGRRKGEEIEKNVEK 71
           V  CL R  +    ++     N   L+  LE+++     +   +    R+G +    V+ 
Sbjct: 18  VCSCLNRNGD----YIHGLEENLTALQRALEQIEQRREDLLRKILSEERRGLQRLSVVQG 73

Query: 72  WLASVNNIITEAEKFT-GDADKANKRCFMGLCP-NLKTRHRFSKEAVRQQKAIVELGEAG 129
           W++ V  I+    +     + +  + C  G C  NL + +R+ K  ++  + +  L   G
Sbjct: 74  WVSKVEAIVPRVNELVRMRSVQVQRLCLCGFCSKNLVSSYRYGKRVMKMIEEVEVLRYQG 133

Query: 130 RFDRLSYRKALEDIRLISNKDYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTL 189
            F  ++ R    D   +  +      +    L +    L + ++ ++G++GMGG+GKTTL
Sbjct: 134 DFAVVAERV---DAARVEERPTRPMVAMDPMLESAWNRLMEDEIGILGLHGMGGVGKTTL 190

Query: 190 AKEVAIQFGR-DQFFDQVIFVEVPHIPDIRKIQGEIADKL---GLIFFEETESGRARSLY 245
              +  +F R    FD VI++ V     I++IQ EI +KL      + ++TE  +A ++Y
Sbjct: 191 LSHINNRFSRVGGEFDIVIWIVVSKELQIQRIQDEIWEKLRSDNEKWKQKTEDIKASNIY 250

Query: 246 NRLK 249
           N LK
Sbjct: 251 NVLK 254

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 = 67.0 bits (162), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 54/232 (23%), Positives = 107/232 (46%), Gaps = 12/232 (5%)

Query: 23  QLSFVRNYRSNFENLKTELEKLKDDGASMQHGVDEGRRKGEEIEKNVEKWLASVNNIITE 82
           +L FV  +       K  +  L ++ A++Q  ++  + K +++++ V+K        +  
Sbjct: 5   KLRFVNQFSQWLCVRKGYIHSLPENLAALQKAIEVLKTKHDDVKRRVDK-----EEFLGR 59

Query: 83  AEKFTGDADKANKRCFMGLCP-NLKTRHRFSKEAVRQQKAIVELGEAGRFDRLSYRKALE 141
             + +    +  + CF G C  +    + + K      K +  L   G FD ++    + 
Sbjct: 60  RHRLSQVQVEIERLCFCGFCSKSFGKSYHYGKMVSVMLKEVENLSSRGVFDVVTEENLVA 119

Query: 142 DIRLISNKDYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGR-D 200
            +  +  +       + + L  V   L      ++G+YGMGG+GKTTL  ++  +F   D
Sbjct: 120 QVEEMPIQS--TVVGQETMLERVWNTLMKDGFKIMGLYGMGGVGKTTLLTQINKKFSETD 177

Query: 201 QFFDQVIFVEVPHIPDIRKIQGEIADKLGLI---FFEETESGRARSLYNRLK 249
             FD V++V V    +I +IQ +IA +LGL    + ++ E+ RA  ++N L+
Sbjct: 178 GGFDIVMWVVVSKTSEIYRIQEDIAKRLGLTGEEWDKKNENKRAVDIHNVLR 229

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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

 Score = 67.0 bits (162), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 63/230 (27%), Positives = 111/230 (48%), Gaps = 14/230 (6%)

Query: 28  RNYRSNFENLKTELEKLKDDGASMQHGVDEGRRKGEEI----EKNVEKWLASVNNIITEA 83
           R Y  N E     L K+  D  +M++ + +   K EEI     + V++W++ V  I  +A
Sbjct: 20  RKYLYNLERNLEALHKVMQDLNAMRNDLLKRLSKEEEIGLQGLQEVKEWISMVEEIEPKA 79

Query: 84  EKF----TGDADKANKRCFMGLCPNLKTRHRFSKEAVRQQKAIVELGEAGRFDRLSYRKA 139
            +       +  + ++  +  L P   + +R+S++ +   + +  L   G F+ + +R A
Sbjct: 80  NRLLDESVSEIQRLSRYGYCSLIP--ASTYRYSEKVLTTMEGVETLRSKGVFEAVVHR-A 136

Query: 140 LEDIRLISNKDYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGR 199
           L  + +I     +   S++  L+     L D +V  +GIYG GG+GKTTL  ++  +   
Sbjct: 137 LPPL-VIKMPPIQLTVSQAKLLDTAWARLMDINVGTLGIYGRGGVGKTTLLTKLRNKLLV 195

Query: 200 DQFFDQVIFVEVPHIPDIRKIQGEIADKLGLIFFEETESGRARSLYNRLK 249
           D  F  VIFV V    ++  IQ EI  +LGL +  ET+  +A  +   LK
Sbjct: 196 DA-FGLVIFVVV-GFEEVESIQDEIGKRLGLQWRRETKERKAAEILAVLK 243

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FLB4|DRL31_ARATH Putative disease resistance protein At5g05400 OS=Arabidopsis thaliana GN=At5g05400 PE=2 SV=1

 Score = 66.6 bits (161), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 53/224 (23%), Positives = 101/224 (45%), Gaps = 13/224 (5%)

Query: 12  VAKCLGRPTERQLSFVRNYRSNFENLKTELEKLKDDGASMQHGVDEGRRKGEEIEKNVEK 71
           +  CL R   R     RN   +   LK  + +L+     +   +     +G  +   V++
Sbjct: 18  LTSCLSRNQNR----FRNLVDHVAALKKTVRQLEARRDDLLKRIKVQEDRGLNLLDEVQQ 73

Query: 72  WLASVNNIITEAEKFTGDADKA--NKRCFMGLCPNLKTRHRFSKEAVRQQKAIVELGEAG 129
           WL+ V + + EA      +D+   N  C        K  + +SK  + + + +  L   G
Sbjct: 74  WLSEVESRVCEAHDILSQSDEEIDNLCCGQYCSKRCKYSYDYSKSVINKLQDVENLLSKG 133

Query: 130 RFDRLSYRKALEDI--RLISNKDYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKT 187
            FD ++ +  +  +  RL     ++    + + + +   ++ +  V ++GIYGMGG+GKT
Sbjct: 134 VFDEVAQKGPIPKVEERLF----HQEIVGQEAIVESTWNSMMEVGVGLLGIYGMGGVGKT 189

Query: 188 TLAKEVAIQF-GRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGL 230
           TL  ++  +F      FD  I+V V   P +++IQ +I  +L L
Sbjct: 190 TLLSQINNKFRTVSNDFDIAIWVVVSKNPTVKRIQEDIGKRLDL 233

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	250
224111296	1315	cc-nbs-lrr resistance protein [Populus t	0.976	0.185	0.5	5e-58
296087869	1711	unnamed protein product [Vitis vinifera]	0.976	0.142	0.467	2e-57
359488025	1781	PREDICTED: uncharacterized protein LOC10	0.976	0.137	0.467	2e-57
224147195	554	cc-nbs resistance protein [Populus trich	0.976	0.440	0.471	1e-56
359488288	1340	PREDICTED: LOW QUALITY PROTEIN: probable	0.992	0.185	0.463	2e-56
147772601	1392	hypothetical protein VITISV_013427 [Viti	0.98	0.176	0.443	3e-55
147865073	1694	hypothetical protein VITISV_021876 [Viti	0.984	0.145	0.453	4e-55
302143590	948	unnamed protein product [Vitis vinifera]	0.98	0.258	0.447	5e-55
147787802	1517	hypothetical protein VITISV_005047 [Viti	0.98	0.161	0.447	5e-55
147802546	1409	hypothetical protein VITISV_007222 [Viti	0.996	0.176	0.441	1e-54

>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 =  230 bits (586), Expect = 5e-58,   Method: Compositional matrix adjust.
 Identities = 124/248 (50%), Positives = 164/248 (66%), Gaps = 4/248 (1%)

Query: 2   VESIVTVVLEVAKCLGRPTERQLSFVRNYRSNFENLKTELEKLKDDGASMQHGVDEGRRK 61
           +E ++++V +VA+ L  P +RQ+ +V N  +N +NLK E+EKL D    + H ++E RR 
Sbjct: 1   MEIVISIVAKVAELLVVPIKRQIGYVLNCNTNIQNLKNEVEKLTDARTRVNHSIEEARRN 60

Query: 62  GEEIEKNVEKWLASVNNIITEAEKFTGDADKANKRCFMGLCPNLKTRHRFSKEAVRQQKA 121
           GEEIE  V  WL SV+          G AD+++K+CFMGLCP+LK R+R  K A ++   
Sbjct: 61  GEEIEVEVFNWLGSVDG--VIDGGGGGVADESSKKCFMGLCPDLKIRYRLGKAAKKELTV 118

Query: 122 IVELGEAGRFDRLSYRKALEDIRLISNKDYEAFESRSSTLNNVLRALQDPDVNMVGIYGM 181
           +V+L E GRFDR+SYR A   I  +  KDYEAFESR S LN ++ AL+D  VNMVG+YGM
Sbjct: 119 VVDLQEKGRFDRVSYRAAPSGIGPV--KDYEAFESRDSVLNAIVDALKDGGVNMVGVYGM 176

Query: 182 GGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGLIFFEETESGRA 241
            G+GKTTL K+VA Q    + FD+ +   V H PDIR+IQGEIAD LGL    ET+ GRA
Sbjct: 177 PGVGKTTLVKKVAEQVKEGRLFDKEVLAVVSHTPDIRRIQGEIADGLGLKLDAETDKGRA 236

Query: 242 RSLYNRLK 249
             LY RLK
Sbjct: 237 SQLYERLK 244

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  228 bits (580), Expect = 2e-57,   Method: Compositional matrix adjust.
 Identities = 116/248 (46%), Positives = 169/248 (68%), Gaps = 4/248 (1%)

Query: 1   MVESIVTVVLEVAKCLGRPTERQLSFVRNYRSNFENLKTELEKLKDDGASMQHGVDEGRR 60
           MVE +V+V  +V++ L  P  RQL ++ NYR+N E+L  ++EKL+   A +QH VDE  R
Sbjct: 1   MVEIVVSVAAKVSEYLVGPVVRQLGYLFNYRTNIEDLSQKVEKLRGARARLQHSVDEAIR 60

Query: 61  KGEEIEKNVEKWLASVNNIITEAEKFTGDADKANKRCFMGLCPNLKTRHRFSKEAVRQQK 120
            G +IE +V KW+   +  I +  KF  D ++A K CF GLCPNLK+R++ S+EA ++  
Sbjct: 61  NGHKIEDDVCKWMTRADGFIQKDCKFLED-EEARKSCFNGLCPNLKSRYQLSREARKKAG 119

Query: 121 AIVELGEAGRFDRLSYRKALEDIRLISNKDYEAFESRSSTLNNVLRALQDPDVNMVGIYG 180
             VE+ EAG+F+R SYR  L++IR   +   EA ESR  TLN V++AL+D  +N +G++G
Sbjct: 120 VAVEIHEAGQFERASYRAPLQEIR---SAPSEALESRMLTLNEVMKALRDAKINKIGVWG 176

Query: 181 MGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGLIFFEETESGR 240
           +GG+GKTTL K+VA Q  +++ FD+V+   V   PD++KIQGE+AD LG+ F EE+E GR
Sbjct: 177 LGGVGKTTLVKQVAEQAAQEKLFDKVVTAAVLETPDLKKIQGELADLLGMKFEEESEQGR 236

Query: 241 ARSLYNRL 248
           A  LY R+
Sbjct: 237 AARLYQRM 244

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 =  228 bits (580), Expect = 2e-57,   Method: Compositional matrix adjust.
 Identities = 116/248 (46%), Positives = 169/248 (68%), Gaps = 4/248 (1%)

Query: 1   MVESIVTVVLEVAKCLGRPTERQLSFVRNYRSNFENLKTELEKLKDDGASMQHGVDEGRR 60
           MVE +V+V  +V++ L  P  RQL ++ NYR+N E+L  ++EKL+   A +QH VDE  R
Sbjct: 1   MVEIVVSVAAKVSEYLVGPVVRQLGYLFNYRTNIEDLSQKVEKLRGARARLQHSVDEAIR 60

Query: 61  KGEEIEKNVEKWLASVNNIITEAEKFTGDADKANKRCFMGLCPNLKTRHRFSKEAVRQQK 120
            G +IE +V KW+   +  I +  KF  D ++A K CF GLCPNLK+R++ S+EA ++  
Sbjct: 61  NGHKIEDDVCKWMTRADGFIQKDCKFLED-EEARKSCFNGLCPNLKSRYQLSREARKKAG 119

Query: 121 AIVELGEAGRFDRLSYRKALEDIRLISNKDYEAFESRSSTLNNVLRALQDPDVNMVGIYG 180
             VE+ EAG+F+R SYR  L++IR   +   EA ESR  TLN V++AL+D  +N +G++G
Sbjct: 120 VAVEIHEAGQFERASYRAPLQEIR---SAPSEALESRMLTLNEVMKALRDAKINKIGVWG 176

Query: 181 MGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGLIFFEETESGR 240
           +GG+GKTTL K+VA Q  +++ FD+V+   V   PD++KIQGE+AD LG+ F EE+E GR
Sbjct: 177 LGGVGKTTLVKQVAEQAAQEKLFDKVVTAAVLETPDLKKIQGELADLLGMKFEEESEQGR 236

Query: 241 ARSLYNRL 248
           A  LY R+
Sbjct: 237 AARLYQRM 244

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  225 bits (574), Expect = 1e-56,   Method: Compositional matrix adjust.
 Identities = 117/248 (47%), Positives = 164/248 (66%), Gaps = 4/248 (1%)

Query: 2   VESIVTVVLEVAKCLGRPTERQLSFVRNYRSNFENLKTELEKLKDDGASMQHGVDEGRRK 61
           +E ++++V +VA+ L  P +RQ+ +V +  SN +NLK E+EKL D    + H ++E +  
Sbjct: 1   MEIVISIVAKVAELLVVPIKRQIGYVLDCNSNIQNLKNEVEKLTDAKTRVIHSIEEAQWN 60

Query: 62  GEEIEKNVEKWLASVNNIITEAEKFTGDADKANKRCFMGLCPNLKTRHRFSKEAVRQQKA 121
           GEEIE  V  WL SV+ +I  A      AD+++K+CFMGLCP+LK R+R  K A ++   
Sbjct: 61  GEEIEVEVLNWLGSVDGVIEGAGGVV--ADESSKKCFMGLCPDLKIRYRLGKAAKKELTV 118

Query: 122 IVELGEAGRFDRLSYRKALEDIRLISNKDYEAFESRSSTLNNVLRALQDPDVNMVGIYGM 181
           +V+L   G+FDR+SYR A   I  +  KDYEAFESR+S LN+++ AL+D D NMVG++GM
Sbjct: 119 VVDLQGKGKFDRVSYRAAPSGIGPV--KDYEAFESRNSVLNDIVGALKDGDENMVGVFGM 176

Query: 182 GGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGLIFFEETESGRA 241
            G+GKTTL K+VA Q    + F++V+   V   PDIR+IQGEIAD LGL    ET+ GRA
Sbjct: 177 AGVGKTTLVKKVAEQVKEGRLFNEVVLAVVSQTPDIRRIQGEIADGLGLKLDAETDKGRA 236

Query: 242 RSLYNRLK 249
             L   LK
Sbjct: 237 SQLCKGLK 244

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

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 =  225 bits (573), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 115/248 (46%), Positives = 161/248 (64%)

Query: 1   MVESIVTVVLEVAKCLGRPTERQLSFVRNYRSNFENLKTELEKLKDDGASMQHGVDEGRR 60
           MVE +V+V  +V++ L  P  RQL  + NYR+N E+L  ++ KL+D  A  QH VDE  R
Sbjct: 1   MVEIVVSVAAKVSEYLVAPVGRQLGHLFNYRTNVEDLSQQVAKLRDARARQQHSVDEAIR 60

Query: 61  KGEEIEKNVEKWLASVNNIITEAEKFTGDADKANKRCFMGLCPNLKTRHRFSKEAVRQQK 120
           KG +IE +V KW    +  I  A KF  +  +A K CF GLCPNLK+R++ SKEA ++  
Sbjct: 61  KGHKIEDDVCKWFTRADGFIQVACKFLEEEKEAQKTCFNGLCPNLKSRYQLSKEARKKAG 120

Query: 121 AIVELGEAGRFDRLSYRKALEDIRLISNKDYEAFESRSSTLNNVLRALQDPDVNMVGIYG 180
             VE+   G+F+R+SYR  L +I     K  +  ESR  TLN V++AL+D D+N +GI+G
Sbjct: 121 VAVEIHGDGQFERVSYRPPLLEIGSAPPKASKVLESRMLTLNEVMKALRDADINTIGIWG 180

Query: 181 MGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGLIFFEETESGR 240
           MGG+GK TL K+VA Q  +++ FD+V+   V   PD R+IQGEIAD LG+ F EE+E GR
Sbjct: 181 MGGVGKNTLVKQVAEQAAQEKLFDKVVMTSVFQTPDFRRIQGEIADMLGMKFEEESEQGR 240

Query: 241 ARSLYNRL 248
           A  L+ ++
Sbjct: 241 AARLHRKI 248

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147772601|emb|CAN62857.1| hypothetical protein VITISV_013427 [Vitis vinifera]

 Score =  221 bits (562), Expect = 3e-55,   Method: Compositional matrix adjust.
 Identities = 110/248 (44%), Positives = 162/248 (65%), Gaps = 3/248 (1%)

Query: 1   MVESIVTVVLEVAKCLGRPTERQLSFVRNYRSNFENLKTELEKLKDDGASMQHGVDEGRR 60
           MVE + +V  +V +CL  P +RQL ++ NYR+N E+L  E+EKL+      QH V+E   
Sbjct: 1   MVEIVASVAAKVLECLVVPVKRQLGYLFNYRTNIEDLSQEVEKLRHARDGHQHSVNEASG 60

Query: 61  KGEEIEKNVEKWLASVNNIITEAEKFTGDADKANKRCFMGLCPNLKTRHRFSKEAVRQQK 120
            G +IE  V KWL   +  I +A KF  D  +A K CF GLCPNLK+R++ S+EA ++ +
Sbjct: 61  NGHKIEDYVCKWLTRADGFIQDACKFLEDEKEAQKSCFNGLCPNLKSRYQLSREARKKAR 120

Query: 121 AIVELGEAGRFDRLSYRKALEDIRLISNKDYEAFESRSSTLNNVLRALQDPDVNMVGIYG 180
             V++   G+F+R+SYR  L++IR   +   EA  SR  TL+ V+ AL+D  +N +G++G
Sbjct: 121 VAVQMLGDGQFERVSYRAPLQEIR---SAPSEALRSRVLTLDEVMEALRDAKINKIGVWG 177

Query: 181 MGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGLIFFEETESGR 240
           +GG+GKTTL K+VA    +++ FD+V+   V   PD++KIQGE+AD LG+ F EE+E GR
Sbjct: 178 LGGVGKTTLVKQVAEHAAQEKLFDKVVTAAVLQTPDLKKIQGELADLLGMKFEEESEQGR 237

Query: 241 ARSLYNRL 248
           A  LY R+
Sbjct: 238 AARLYQRM 245

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147865073|emb|CAN83232.1| hypothetical protein VITISV_021876 [Vitis vinifera]

 Score =  220 bits (561), Expect = 4e-55,   Method: Compositional matrix adjust.
 Identities = 113/249 (45%), Positives = 164/249 (65%), Gaps = 3/249 (1%)

Query: 1   MVESIVTVVLEVAKCLGRPTERQLSFVRNYRSNFENLKTELEKLKDDGASMQHGVDEGRR 60
           MVE +++V  +V++ L  P  RQL ++ NYR+N E+L  ++EKL+D  A +QH VDE   
Sbjct: 1   MVEIVLSVAAKVSEYLVDPAIRQLGYLFNYRANIEDLSQQVEKLRDARARLQHSVDEAIG 60

Query: 61  KGEEIEKNVEKWLASVNNIITEAEKFTGDADKANKRCFMGLCPNLKTRHRFSKEAVRQQK 120
            G  IE +V KW+   +  I  A KF  D  +A K CF GLCPNLK+R++ S+EA ++  
Sbjct: 61  NGHIIEDDVRKWMKRADGFIQNACKFLEDEKEARKSCFNGLCPNLKSRYQLSREARKKAG 120

Query: 121 AIVELGEAGRFDRLSYRKALEDIRLISNKDYEAFESRSSTLNNVLRALQDPDVNMVGIYG 180
             VE+  AG+F+R+SYR  L++IR       EA ESR  TLN V+ AL+D ++N +G++G
Sbjct: 121 VAVEIHGAGQFERVSYRAPLQEIR---TAPSEALESRMLTLNEVMEALRDANINRIGVWG 177

Query: 181 MGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGLIFFEETESGR 240
           MGG+GK+TL K+VA Q  +++ F +V+ V V   PD + IQ +IADKLG+ F E +E GR
Sbjct: 178 MGGVGKSTLVKQVAEQAEQEKLFRKVVMVPVIQTPDFKGIQQQIADKLGMKFEEVSEQGR 237

Query: 241 ARSLYNRLK 249
           A  L+ R+K
Sbjct: 238 ADRLHQRIK 246

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302143590|emb|CBI22343.3| unnamed protein product [Vitis vinifera]

 Score =  220 bits (560), Expect = 5e-55,   Method: Compositional matrix adjust.
 Identities = 111/248 (44%), Positives = 161/248 (64%), Gaps = 3/248 (1%)

Query: 1   MVESIVTVVLEVAKCLGRPTERQLSFVRNYRSNFENLKTELEKLKDDGASMQHGVDEGRR 60
           M E +  V  +V+KCL  P +RQL ++ NYR+N E+L  E+EKL+      QH V+E   
Sbjct: 1   MEEIVAKVAAKVSKCLVVPVKRQLGYLFNYRTNIEDLSQEVEKLRHARDGHQHSVNEAIG 60

Query: 61  KGEEIEKNVEKWLASVNNIITEAEKFTGDADKANKRCFMGLCPNLKTRHRFSKEAVRQQK 120
            G +IE  V KWL   +  I +A KF  D  +A K CF GLCPNLK+R++ S+EA ++ +
Sbjct: 61  NGHKIEDYVCKWLTRADGFIQDACKFLEDEKEAQKSCFNGLCPNLKSRYQLSREARKKAR 120

Query: 121 AIVELGEAGRFDRLSYRKALEDIRLISNKDYEAFESRSSTLNNVLRALQDPDVNMVGIYG 180
             V++   G+F R+SYR  L++IR   +   EA  SR  TL+ V+ AL+D  +N +G++G
Sbjct: 121 VAVQMHGDGQFVRVSYRAPLQEIR---SAPSEALRSRVLTLDEVMEALRDAKINKIGVWG 177

Query: 181 MGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGLIFFEETESGR 240
           +GG+GKTTL K+VA Q  +++ FD+V+   V   PD++KIQGE+AD LG+ F EE+E GR
Sbjct: 178 LGGVGKTTLVKQVAEQAAQEKLFDKVVTAAVLQTPDLKKIQGELADLLGMKFEEESEQGR 237

Query: 241 ARSLYNRL 248
           A  LY R+
Sbjct: 238 AARLYQRM 245

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147787802|emb|CAN71755.1| hypothetical protein VITISV_005047 [Vitis vinifera]

 Score =  220 bits (560), Expect = 5e-55,   Method: Compositional matrix adjust.
 Identities = 111/248 (44%), Positives = 161/248 (64%), Gaps = 3/248 (1%)

Query: 1   MVESIVTVVLEVAKCLGRPTERQLSFVRNYRSNFENLKTELEKLKDDGASMQHGVDEGRR 60
           M E +  V  +V+KCL  P +RQL ++ NYR+N E+L  E+EKL+      QH V+E   
Sbjct: 1   MEEIVAKVAAKVSKCLVVPVKRQLGYLFNYRTNIEDLSQEVEKLRHARDGHQHSVNEAIG 60

Query: 61  KGEEIEKNVEKWLASVNNIITEAEKFTGDADKANKRCFMGLCPNLKTRHRFSKEAVRQQK 120
            G +IE  V KWL   +  I +A KF  D  +A K CF GLCPNLK+R++ S+EA ++ +
Sbjct: 61  NGHKIEDYVCKWLTRADGFIQDACKFLEDEKEAQKSCFNGLCPNLKSRYQLSREARKKAR 120

Query: 121 AIVELGEAGRFDRLSYRKALEDIRLISNKDYEAFESRSSTLNNVLRALQDPDVNMVGIYG 180
             V++   G+F R+SYR  L++IR   +   EA  SR  TL+ V+ AL+D  +N +G++G
Sbjct: 121 VAVQMHGDGQFVRVSYRAPLQEIR---SAPSEALRSRVLTLDEVMEALRDAKINKIGVWG 177

Query: 181 MGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGLIFFEETESGR 240
           +GG+GKTTL K+VA Q  +++ FD+V+   V   PD++KIQGE+AD LG+ F EE+E GR
Sbjct: 178 LGGVGKTTLVKQVAEQAAQEKLFDKVVTAAVLQTPDLKKIQGELADLLGMKFEEESEQGR 237

Query: 241 ARSLYNRL 248
           A  LY R+
Sbjct: 238 AARLYQRM 245

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 =  219 bits (557), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 110/249 (44%), Positives = 164/249 (65%)

Query: 1   MVESIVTVVLEVAKCLGRPTERQLSFVRNYRSNFENLKTELEKLKDDGASMQHGVDEGRR 60
           M E +VT+  +VA+ L  P  R   ++ NYRSN ++L+ ++EKL D  A ++  VDE  R
Sbjct: 1   MEEIVVTIAAKVAEYLVAPIGRSFGYLFNYRSNIDDLRQQVEKLGDARARLERSVDEAIR 60

Query: 61  KGEEIEKNVEKWLASVNNIITEAEKFTGDADKANKRCFMGLCPNLKTRHRFSKEAVRQQK 120
            G+EIE +V+KWL  V+  + EA  F     KAN+ CF G CPNLK++++ S+EA ++ +
Sbjct: 61  NGDEIEADVDKWLLRVSGFMEEAGIFFEVEKKANQSCFNGSCPNLKSQYQLSREAKKRAR 120

Query: 121 AIVELGEAGRFDRLSYRKALEDIRLISNKDYEAFESRSSTLNNVLRALQDPDVNMVGIYG 180
            + E+   G+F+R+SYR  L  I     K +EA ESR +TL+ ++ AL+D  VN++G++G
Sbjct: 121 VVAEIQGDGKFERVSYRAPLPGIGSAPFKGHEALESRMTTLDEIMEALRDAHVNIIGVWG 180

Query: 181 MGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGLIFFEETESGR 240
           M G+GKTTL K+VA Q   ++ FD+V+   +   P+++KIQGE+AD LGL F EE+E GR
Sbjct: 181 MAGVGKTTLMKQVAKQVEEEKLFDKVVMAYISSTPELKKIQGELADMLGLKFEEESEMGR 240

Query: 241 ARSLYNRLK 249
           A  L  RLK
Sbjct: 241 AARLCERLK 249

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	250
TAIR|locus:2008510	967	AT1G61190 "AT1G61190" [Arabido	0.888	0.229	0.259	9.2e-17
TAIR|locus:2034770	894	SUMM2 "AT1G12280" [Arabidopsis	0.884	0.247	0.286	1e-16
TAIR|locus:2008440	899	AT1G61180 [Arabidopsis thalian	0.884	0.245	0.273	2.8e-16
TAIR|locus:2201996	889	RPS5 "AT1G12220" [Arabidopsis	0.844	0.237	0.281	2e-15
TAIR|locus:2201986	885	RFL1 "AT1G12210" [Arabidopsis	0.892	0.251	0.254	5.3e-15
TAIR|locus:2166320	888	AT5G63020 [Arabidopsis thalian	0.924	0.260	0.241	4.9e-14
TAIR|locus:2203881	893	AT1G62630 [Arabidopsis thalian	0.868	0.243	0.292	1.3e-13
TAIR|locus:2171589	948	AT5G47260 [Arabidopsis thalian	0.872	0.229	0.280	1.4e-13
TAIR|locus:2153474	874	AT5G05400 [Arabidopsis thalian	0.932	0.266	0.248	4.4e-13
TAIR|locus:2031366	898	AT1G63350 "AT1G63350" [Arabido	0.82	0.228	0.246	4.6e-13

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

 Score = 219 (82.2 bits), Expect = 9.2e-17, P = 9.2e-17
 Identities = 60/231 (25%), Positives = 111/231 (48%)

Query:    26 FVRNYRSNFENLKTELEKLKDDGASMQHGVDEGRRKGEEIEKNVEKWLASVNNIITEAEK 85
             ++RN   N   L+ E+E L+     +Q+ V     + ++  + V+ WL  VN+I  E + 
Sbjct:    27 YIRNLEKNLRALQREMEDLRATQHEVQNKVAREESRHQQRLEAVQVWLDRVNSIDIECKD 86

Query:    86 FTGDAD-KANKRCFMGLCPN-LKTRHRFSKEAVRQQKAIVELGEAGRFDRLSYRKALEDI 143
                 +  +  K C  GLC   + + +++ K      + + +L   G FD +S      ++
Sbjct:    87 LLSVSPVELQKLCLCGLCSKYVCSSYKYGKRVFLLLEEVTKLKSEGNFDEVSQPPPRSEV 146

Query:   144 RLISNKDYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQ-F 202
                  +  +    +   L      L +  V ++G++GMGG+GKTTL K++  +F      
Sbjct:   147 E---ERPTQPTIGQEEMLKKAWNRLMEDGVGIMGLHGMGGVGKTTLFKKIHNKFAETGGT 203

Query:   203 FDQVIFVEVPHIPDIRKIQGEIADKLGL---IFFEETESGRARSLYNRLKG 250
             FD VI++ V     + K+Q +IA+KL L   ++  + ES +A  ++  LKG
Sbjct:   204 FDIVIWIVVSQGAKLSKLQEDIAEKLHLCDDLWKNKNESDKATDIHRVLKG 254

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 218 (81.8 bits), Expect = 1.0e-16, P = 1.0e-16
 Identities = 67/234 (28%), Positives = 109/234 (46%)

Query:    24 LSFVRNYRSNFENLKTELEKLKD--DGASMQHGVDEGRRKGEEIEKNVEKWLASVNNIIT 81
             + ++     N   +K ++E LK   D    +  ++E  R+ E + + V+ WL +V+ +  
Sbjct:    26 VGYICELSKNVVAMKKDMEVLKKKRDDVKRRVDIEEFTRRRERLSQ-VQGWLTNVSTVEN 84

Query:    82 EAEKF--TGDADKANKRCFMGLCP-NLKTRHRFSKEAVRQQKAIVELGEAGRFDRLSYRK 138
             +  +   T DA+   + C  G C  N+K  + + K  V   K I  L   G FD ++   
Sbjct:    85 KFNELLTTNDAE-LQRLCLFGFCSKNVKMSYLYGKRVVLMLKEIESLSSQGDFDTVTLAT 143

Query:   139 ALEDIRLISNKDYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFG 198
              +  I  +  +       + + L  V   L +    +VG+YGMGG+GKTTL   +  +F 
Sbjct:   144 PIARIEEMPIQP--TIVGQETMLERVWTRLTEDGDEIVGLYGMGGVGKTTLLTRINNKFS 201

Query:   199 RD-QFFDQVIFVEVPHIPDIRKIQGEIADKLGLIFFE---ETESGRARSLYNRL 248
                  F  VI+V V   PDI +IQG+I  +L L   E     E+ RA  +YN L
Sbjct:   202 EKCSGFGVVIWVVVSKSPDIHRIQGDIGKRLDLGGEEWDNVNENQRALDIYNVL 255

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 214 (80.4 bits), Expect = 2.8e-16, P = 2.8e-16
 Identities = 64/234 (27%), Positives = 113/234 (48%)

Query:    25 SFVRNYRSNFENLKTELEKLKDDGASMQHGV--DEGRRKGEEIEKNVEKWLASVNNIITE 82
             S++R    N   L+ E+E L+     +Q+ V  DE R +   +E  V+ WL  VN++  E
Sbjct:    25 SYIRTLEKNLRALQREMEDLRAIQHEVQNKVARDEARHQ-RRLEA-VQVWLDRVNSVDIE 82

Query:    83 AEKFTGDAD-KANKRCFMGLCPN-LKTRHRFSKEAVRQQKAIVELGEAGRFDRLSYRKAL 140
              +        +  K C  GLC   + + +++ K+     + + +L   G FD +S     
Sbjct:    83 CKDLLSVTPVELQKLCLCGLCSKYVCSSYKYGKKVFLLLEEVKKLNSEGNFDEVSQPPPR 142

Query:   141 EDIRLISNKDYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGR- 199
              ++     +  +    +   L      L +  V ++G++GMGG+GKTTL K++  +F   
Sbjct:   143 SEVE---ERPTQPTIGQEDMLEKAWNRLMEDGVGIMGLHGMGGVGKTTLFKKIHNKFAEI 199

Query:   200 DQFFDQVIFVEVPHIPDIRKIQGEIADKLGL---IFFEETESGRARSLYNRLKG 250
                FD VI++ V     I K+Q +IA+KL L   ++  + ES +A  ++  LKG
Sbjct:   200 GGTFDIVIWIVVSKGVMISKLQEDIAEKLHLCDDLWKNKNESDKATDIHRVLKG 253

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

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 206 (77.6 bits), Expect = 2.0e-15, P = 2.0e-15
 Identities = 61/217 (28%), Positives = 98/217 (45%)

Query:    25 SFVRNYRSNFENLKTELEKLKDDGASMQHGVDEGRRKGEEIE-KNVEKWLASVNNIITEA 83
             S++ N   N  +L+  +  LK     +   ++     G +     V+ WL SV  I  + 
Sbjct:    27 SYIHNLSKNLASLQKAMRMLKARQYDVIRRLETEEFTGRQQRLSQVQVWLTSVLIIQNQF 86

Query:    84 EKFTGDADKANKR-CFMGLCP-NLKTRHRFSKEAVRQQKAIVELGEAGRFDRLSYRKALE 141
                    +   +R C  G C  +LK  +R+ K  +   K +  L   G FD +S      
Sbjct:    87 NDLLRSNEVELQRLCLCGFCSKDLKLSYRYGKRVIMMLKEVESLSSQGFFDVVSEATPFA 146

Query:   142 DIRLISNKDYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGR-D 200
             D+  I  +       +   L      L +    ++G+YGMGG+GKTTL  ++  +F + D
Sbjct:   147 DVDEIPFQP--TIVGQEIMLEKAWNRLMEDGSGILGLYGMGGVGKTTLLTKINNKFSKID 204

Query:   201 QFFDQVIFVEVPHIPDIRKIQGEIADKLGLIFFEETE 237
               FD VI+V V     +RKIQ +IA+K+GL   E +E
Sbjct:   205 DRFDVVIWVVVSRSSTVRKIQRDIAEKVGLGGMEWSE 241

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

 Score = 202 (76.2 bits), Expect = 5.3e-15, P = 5.3e-15
 Identities = 59/232 (25%), Positives = 107/232 (46%)

Query:    25 SFVRNYRSNFENLKTELEKLKDDGASMQHGVDEGRRKGEEIE-KNVEKWLASVNNIITEA 83
             S+++N   N  +L+  +  L      +Q  ++     G       V+ WL  +  I  + 
Sbjct:    27 SYIQNLSENLASLQKAMGVLNAKRDDVQGRINREEFTGHRRRLAQVQVWLTRIQTIENQF 86

Query:    84 EKFTGDADKANKR-CFMGLCP-NLKTRHRFSKEAVRQQKAIVELGEAGRFDRLSYRKALE 141
                    +   +R C  G C  N+K  + + K  +   + +  L   G FD ++    + 
Sbjct:    87 NDLLSTCNAEIQRLCLCGFCSKNVKMSYLYGKRVIVLLREVEGLSSQGVFDIVTEAAPIA 146

Query:   142 DIRLISNKDYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGR-D 200
             ++  +  +       + S L+ V   L +  V +VG+YGMGG+GKTTL  ++  +F +  
Sbjct:   147 EVEELPIQS--TIVGQDSMLDKVWNCLMEDKVWIVGLYGMGGVGKTTLLTQINNKFSKLG 204

Query:   201 QFFDQVIFVEVPHIPDIRKIQGEIADKLGLI---FFEETESGRARSLYNRLK 249
               FD VI+V V     + KIQ  I +KLGL+   + E+ ++ RA  ++N L+
Sbjct:   205 GGFDVVIWVVVSKNATVHKIQKSIGEKLGLVGKNWDEKNKNQRALDIHNVLR 256

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:2166320 AT5G63020 [Arabidopsis thaliana (taxid:3702)]

 Score = 193 (73.0 bits), Expect = 4.9e-14, P = 4.9e-14
 Identities = 59/244 (24%), Positives = 111/244 (45%)

Query:    12 VAKCLGRPTERQLSFVRNYRSNFENLKTELEKLKDDGASMQHGVDEGRRKGEEIEKNVEK 71
             V  CL R  +    ++     N   L+  LE+++     +   +    R+G +    V+ 
Sbjct:    18 VCSCLNRNGD----YIHGLEENLTALQRALEQIEQRREDLLRKILSEERRGLQRLSVVQG 73

Query:    72 WLASVNNIITEAEKFTGDAD-KANKRCFMGLCP-NLKTRHRFSKEAVRQQKAIVELGEAG 129
             W++ V  I+    +       +  + C  G C  NL + +R+ K  ++  + +  L   G
Sbjct:    74 WVSKVEAIVPRVNELVRMRSVQVQRLCLCGFCSKNLVSSYRYGKRVMKMIEEVEVLRYQG 133

Query:   130 RFDRLSYRKALEDIRLISNKDYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTL 189
              F  ++ R    D   +  +      +    L +    L + ++ ++G++GMGG+GKTTL
Sbjct:   134 DFAVVAERV---DAARVEERPTRPMVAMDPMLESAWNRLMEDEIGILGLHGMGGVGKTTL 190

Query:   190 AKEVAIQFGR-DQFFDQVIFVEVPHIPDIRKIQGEIADKL---GLIFFEETESGRARSLY 245
                +  +F R    FD VI++ V     I++IQ EI +KL      + ++TE  +A ++Y
Sbjct:   191 LSHINNRFSRVGGEFDIVIWIVVSKELQIQRIQDEIWEKLRSDNEKWKQKTEDIKASNIY 250

Query:   246 NRLK 249
             N LK
Sbjct:   251 NVLK 254

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 189 (71.6 bits), Expect = 1.3e-13, P = 1.3e-13
 Identities = 69/236 (29%), Positives = 108/236 (45%)

Query:    25 SFVRNYRSNFENLKTELEKLKDDGASMQHGVDEGRRKGEEIEKNVEKWL---ASVNNIIT 81
             S+  N   N   L+T +E+LK     +   +     +G +     + WL   A+V +II 
Sbjct:    25 SYTHNLEKNLVALETTMEELKAKRDDLLRRLKREEDRGLQRLSEFQVWLNRVATVEDIII 84

Query:    82 EAEKFTGDADKANKR-CFMGLCP-NLKTRHRFSKEAVRQQKAIVEL-GEA-GRFDRLSYR 137
                +   D D   +R C    C  NL T +R+ K    + + + +L GE  G     +  
Sbjct:    85 TLLR---DRDVEIQRLCLCRFCSKNLTTSYRYGKSVFLRLREVEKLKGEVFGVITEQAST 141

Query:   138 KALEDIRLISNKDYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQF 197
              A E+  L           +   L+   + L +    ++G+YGMGG+GKTTL  ++   F
Sbjct:   142 SAFEERPL-----QPTIVGQKKMLDKAWKHLMEDGTGIMGMYGMGGVGKTTLLTQLFNMF 196

Query:   198 GRDQF-FDQVIFVEVPHIPDIRKIQGEIADKLGLIFFEETE---SGRARSLYNRLK 249
              +D+  FD  I+V V    ++ KIQ EIA KLGL   E T+   S +   L+N LK
Sbjct:   197 NKDKCGFDIGIWVVVSQEVNVEKIQDEIAQKLGLGGHEWTQRDISQKGVHLFNFLK 252

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 189 (71.6 bits), Expect = 1.4e-13, P = 1.4e-13
 Identities = 64/228 (28%), Positives = 111/228 (48%)

Query:    28 RNYRSNFENLKTELEKLKDDGASMQHGVDEGRRKGEEIE----KNVEKWLASVNNIITEA 83
             R Y  N E     L K+  D  +M++ + +   K EEI     + V++W++ V  I  +A
Sbjct:    20 RKYLYNLERNLEALHKVMQDLNAMRNDLLKRLSKEEEIGLQGLQEVKEWISMVEEIEPKA 79

Query:    84 EKFTGDADKANKRCFM-GLCPNLK-TRHRFSKEAVRQQKAIVELGEAGRFDRLSYRKALE 141
              +   ++    +R    G C  +  + +R+S++ +   + +  L   G F+ + +R AL 
Sbjct:    80 NRLLDESVSEIQRLSRYGYCSLIPASTYRYSEKVLTTMEGVETLRSKGVFEAVVHR-ALP 138

Query:   142 DIRLISNKDYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQ 201
              + +I     +   S++  L+     L D +V  +GIYG GG+GKTTL  ++  +   D 
Sbjct:   139 PL-VIKMPPIQLTVSQAKLLDTAWARLMDINVGTLGIYGRGGVGKTTLLTKLRNKLLVDA 197

Query:   202 FFDQVIFVEVPHIPDIRKIQGEIADKLGLIFFEETESGRARSLYNRLK 249
             F   VIFV V    ++  IQ EI  +LGL +  ET+  +A  +   LK
Sbjct:   198 F-GLVIFVVVG-FEEVESIQDEIGKRLGLQWRRETKERKAAEILAVLK 243

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:2153474 AT5G05400 [Arabidopsis thaliana (taxid:3702)]

 Score = 184 (69.8 bits), Expect = 4.4e-13, P = 4.4e-13
 Identities = 62/249 (24%), Positives = 118/249 (47%)

Query:     9 VLEVAKCLGRPTERQLSFVRNYRSNFENLKTELEKLKDDGASMQHGVDEGRRKGEEIEKN 68
             V  +  CL R   R  + V +  +  + ++ +LE  +DD    +  V E R  G  +   
Sbjct:    15 VNNLTSCLSRNQNRFRNLVDHVAALKKTVR-QLEARRDD-LLKRIKVQEDR--GLNLLDE 70

Query:    69 VEKWLASVNNIITEAEKFTGDADKA-NKRCFMGLCPN-LKTRHRFSKEAVRQQKAIVELG 126
             V++WL+ V + + EA      +D+  +  C    C    K  + +SK  + + + +  L 
Sbjct:    71 VQQWLSEVESRVCEAHDILSQSDEEIDNLCCGQYCSKRCKYSYDYSKSVINKLQDVENLL 130

Query:   127 EAGRFDRLSYRKALEDIRLISNKDYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGK 186
               G FD ++ +  +  +       ++    + + + +   ++ +  V ++GIYGMGG+GK
Sbjct:   131 SKGVFDEVAQKGPIPKVE--ERLFHQEIVGQEAIVESTWNSMMEVGVGLLGIYGMGGVGK 188

Query:   187 TTLAKEVAIQFGR-DQFFDQVIFVEVPHIPDIRKIQGEIADKLGLI---FFEETESGRA- 241
             TTL  ++  +F      FD  I+V V   P +++IQ +I  +L L    + ++TE+  A 
Sbjct:   189 TTLLSQINNKFRTVSNDFDIAIWVVVSKNPTVKRIQEDIGKRLDLYNEGWEQKTENEIAS 248

Query:   242 ---RSLYNR 247
                RSL N+
Sbjct:   249 TIKRSLENK 257

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

GO:0006826 "iron ion transport" evidence=RCA

GO:0010106 "cellular response to iron ion starvation" evidence=RCA

GO:0010167 "response to nitrate" evidence=RCA

GO:0015706 "nitrate transport" evidence=RCA

TAIR|locus:2031366 AT1G63350 "AT1G63350" [Arabidopsis thaliana (taxid:3702)]

 Score = 184 (69.8 bits), Expect = 4.6e-13, P = 4.6e-13
 Identities = 52/211 (24%), Positives = 98/211 (46%)

Query:    21 ERQLSFVRNYRSNFENLKTELEKLKDDGASMQHGVDEGRRKGEEIEKNVEKWLASVNNII 80
             + ++S+  N   N   L+T +E+LK     +   +     +G +    ++ WL  V  I 
Sbjct:    21 DMKVSYTHNLEKNLVALETTMEELKAKRDDLLRKLKREEDRGLQTLGEIKVWLNRVETIE 80

Query:    81 TEAEKFTGDADKANKR-CFMGLCP-NLKTRHRFSKEAVRQQKAIVELGEAGRFDRLSYRK 138
             +         +   +R C  G C  +L T +R+ K    + + + +L E   F+ +S + 
Sbjct:    81 SRVNDLLNARNAELQRLCLCGFCSKSLTTSYRYGKSVFLKLREVEKL-ERRVFEVISDQA 139

Query:   139 ALEDIRLISNKDYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFG 198
             +  ++     +       + + L+N    L +  V ++G+YGMGG+GKTTL  ++  +F 
Sbjct:   140 STSEVE--EQQLQPTIVGQETMLDNAWNHLMEDGVGIMGLYGMGGVGKTTLLTQINNKFS 197

Query:   199 RDQF-FDQVIFVEVPHIPDIRKIQGEIADKL 228
             +    FD VI+V V    ++  I  EIA K+
Sbjct:   198 KYMCGFDSVIWVVVSKEVNVENILDEIAQKV 228

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	250
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	2e-11
pfam13401	124	pfam13401, AAA_22, AAA domain	8e-04
PLN03210	1153	PLN03210, PLN03210, Resistant to P	0.001

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

 Score = 62.3 bits (152), Expect = 2e-11
 Identities = 31/99 (31%), Positives = 47/99 (47%), Gaps = 5/99 (5%)

Query: 157 RSSTLNNVLRAL--QDPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHI 214
           R   +  ++  L     ++ +VGI GMGG+GKTTLAK++         FD V +V V   
Sbjct: 1   REDMIEALIEKLLEMSDNLGVVGIVGMGGVGKTTLAKQIYNDDSVGGHFDSVAWVVVSKT 60

Query: 215 PDIRKIQGEIADKLGLIFF---EETESGRARSLYNRLKG 250
               ++Q +I  +LGL      E+ ES  A  +   L  
Sbjct: 61  YTEFRLQKDILQELGLDDSDWVEKNESELAVKIKEALLR 99

Length = 285

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

 Score = 38.0 bits (89), Expect = 8e-04
 Identities = 19/71 (26%), Positives = 30/71 (42%), Gaps = 8/71 (11%)

Query: 178 IYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGLIFFEETE 237
           + G  G GKTTL + +A Q        +V++VE P +   + +  +I   LGL       
Sbjct: 9   LTGESGSGKTTLLRRLARQLPN----RRVVYVEAPSLGTPKDLLRKILRALGL----PLS 60

Query: 238 SGRARSLYNRL 248
            G    L   +
Sbjct: 61  GGTTAELLEAI 71

Length = 124

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

 Score = 39.9 bits (93), Expect = 0.001
 Identities = 25/74 (33%), Positives = 41/74 (55%), Gaps = 8/74 (10%)

Query: 140 LEDIRLISNKDYEAF---ESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAK----E 192
           L  + L  + D+E F   E   + ++++L  L+  +V MVGI+G  GIGKTT+A+     
Sbjct: 172 LGKLNLTPSNDFEDFVGIEDHIAKMSSLLH-LESEEVRMVGIWGSSGIGKTTIARALFSR 230

Query: 193 VAIQFGRDQFFDQV 206
           ++ QF    F D+ 
Sbjct: 231 LSRQFQSSVFIDRA 244

syringae 6; Provisional. Length = 1153

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	250
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	99.95
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	99.68
PLN03210	1153	Resistant to P. syringae 6; Provisional	98.96
PTZ00202	550	tuzin; Provisional	98.67
cd01128	249	rho_factor Transcription termination factor rho is	98.67
PRK09376	416	rho transcription termination factor Rho; Provisio	98.61
PRK00411	394	cdc6 cell division control protein 6; Reviewed	98.61
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	98.49
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.45
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	98.43
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.4
PRK08118	167	topology modulation protein; Reviewed	98.36
TIGR00767	415	rho transcription termination factor Rho. Members	98.25
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	98.09
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	98.06
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.06
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	97.88
PRK07261	171	topology modulation protein; Provisional	97.83
PF05659	147	RPW8: Arabidopsis broad-spectrum mildew resistance	97.8
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	97.75
PRK13342	413	recombination factor protein RarA; Reviewed	97.73
KOG2028	554	consensus ATPase related to the helicase subunit o	97.71
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.7
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	97.7
PF05729	166	NACHT: NACHT domain	97.65
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	97.64
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	97.6
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	97.6
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	97.56
PTZ00112	1164	origin recognition complex 1 protein; Provisional	97.53
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	97.52
COG2256	436	MGS1 ATPase related to the helicase subunit of the	97.46
PRK06696	223	uridine kinase; Validated	97.42
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	97.39
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	97.39
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	97.37
PRK07667	193	uridine kinase; Provisional	97.29
PRK15455	644	PrkA family serine protein kinase; Provisional	97.27
PF13173	128	AAA_14: AAA domain	97.27
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	97.26
PRK00440	319	rfc replication factor C small subunit; Reviewed	97.26
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	97.25
PRK06547	172	hypothetical protein; Provisional	97.24
PRK12402	337	replication factor C small subunit 2; Reviewed	97.24
PLN03025	319	replication factor C subunit; Provisional	97.23
PRK05480	209	uridine/cytidine kinase; Provisional	97.22
PRK04195	482	replication factor C large subunit; Provisional	97.21
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	97.2
PRK05564	313	DNA polymerase III subunit delta'; Validated	97.2
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	97.18
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	97.17
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	97.14
CHL00095	821	clpC Clp protease ATP binding subunit	97.14
PRK08233	182	hypothetical protein; Provisional	97.13
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	97.13
TIGR00235	207	udk uridine kinase. Model contains a number of lon	97.12
PHA00729	226	NTP-binding motif containing protein	97.1
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	97.09
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	97.09
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	97.08
PRK06762	166	hypothetical protein; Provisional	97.08
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	97.05
PRK05541	176	adenylylsulfate kinase; Provisional	97.04
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	97.04
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	96.99
PRK03839	180	putative kinase; Provisional	96.98
PTZ00301	210	uridine kinase; Provisional	96.98
PHA02544	316	44 clamp loader, small subunit; Provisional	96.98
PRK04040	188	adenylate kinase; Provisional	96.95
PRK13341	725	recombination factor protein RarA/unknown domain f	96.95
PRK00771	437	signal recognition particle protein Srp54; Provisi	96.92
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	96.91
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	96.9
PF12061	402	DUF3542: Protein of unknown function (DUF3542); In	96.9
PRK10865	857	protein disaggregation chaperone; Provisional	96.9
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	96.89
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	96.88
PF00004	132	AAA: ATPase family associated with various cellula	96.87
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	96.87
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	96.85
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	96.85
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	96.84
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	96.84
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	96.84
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	96.84
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	96.83
TIGR02237	209	recomb_radB DNA repair and recombination protein R	96.82
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	96.81
PRK12608	380	transcription termination factor Rho; Provisional	96.8
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	96.8
PRK10536	262	hypothetical protein; Provisional	96.79
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	96.78
PRK08903	227	DnaA regulatory inactivator Hda; Validated	96.78
PRK06893	229	DNA replication initiation factor; Validated	96.78
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	96.78
smart00382	148	AAA ATPases associated with a variety of cellular	96.77
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	96.77
PRK03992	389	proteasome-activating nucleotidase; Provisional	96.77
PRK00625	173	shikimate kinase; Provisional	96.75
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	96.75
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	96.74
COG0237	201	CoaE Dephospho-CoA kinase [Coenzyme metabolism]	96.74
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	96.74
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	96.73
PRK04841	903	transcriptional regulator MalT; Provisional	96.73
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	96.72
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	96.7
PRK06217	183	hypothetical protein; Validated	96.7
PRK00889	175	adenylylsulfate kinase; Provisional	96.69
PRK00131	175	aroK shikimate kinase; Reviewed	96.69
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	96.69
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	96.68
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	96.67
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	96.66
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	96.65
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	96.65
PRK09087	226	hypothetical protein; Validated	96.65
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	96.64
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	96.64
TIGR02236	310	recomb_radA DNA repair and recombination protein R	96.64
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	96.63
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	96.62
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	96.62
PRK13975	196	thymidylate kinase; Provisional	96.61
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	96.61
PRK13949	169	shikimate kinase; Provisional	96.59
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	96.59
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	96.59
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	96.58
PRK13765	637	ATP-dependent protease Lon; Provisional	96.57
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	96.56
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	96.55
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	96.55
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	96.54
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	96.54
CHL00181	287	cbbX CbbX; Provisional	96.54
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	96.54
PRK08084	235	DNA replication initiation factor; Provisional	96.53
PRK00300	205	gmk guanylate kinase; Provisional	96.53
PRK03846	198	adenylylsulfate kinase; Provisional	96.53
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	96.52
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	96.52
PTZ00088	229	adenylate kinase 1; Provisional	96.52
PRK13695	174	putative NTPase; Provisional	96.51
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	96.51
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	96.5
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	96.5
PRK08727	233	hypothetical protein; Validated	96.49
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	96.48
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	96.48
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	96.48
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	96.48
cd00983	325	recA RecA is a bacterial enzyme which has roles in	96.47
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	96.47
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	96.46
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	96.45
PRK14527	191	adenylate kinase; Provisional	96.44
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	96.44
PRK13947	171	shikimate kinase; Provisional	96.44
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	96.43
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	96.42
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	96.42
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	96.41
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	96.41
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	96.41
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	96.4
PRK14530	215	adenylate kinase; Provisional	96.4
PRK09354	349	recA recombinase A; Provisional	96.39
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	96.39
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	96.39
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	96.39
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	96.39
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	96.38
TIGR02173	171	cyt_kin_arch cytidylate kinase, putative. Proteins	96.38
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	96.36
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	96.36
cd03115	173	SRP The signal recognition particle (SRP) mediates	96.36
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	96.35
COG2019	189	AdkA Archaeal adenylate kinase [Nucleotide transpo	96.33
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	96.33
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	96.32
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	96.31
PRK04301	317	radA DNA repair and recombination protein RadA; Va	96.31
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	96.3
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	96.29
PRK05057	172	aroK shikimate kinase I; Reviewed	96.29
PRK08533	230	flagellar accessory protein FlaH; Reviewed	96.29
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	96.28
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	96.28
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	96.28
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	96.27
COG1763	161	MobB Molybdopterin-guanine dinucleotide biosynthes	96.26
PRK01184	184	hypothetical protein; Provisional	96.26
COG1100	219	GTPase SAR1 and related small G proteins [General	96.25
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	96.25
PRK04182	180	cytidylate kinase; Provisional	96.25
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	96.25
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	96.24
PRK05439	311	pantothenate kinase; Provisional	96.24
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	96.24
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	96.21
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	96.21
cd01394	218	radB RadB. The archaeal protein radB shares simila	96.2
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	96.2
PRK14974	336	cell division protein FtsY; Provisional	96.19
PRK12339	197	2-phosphoglycerate kinase; Provisional	96.19
TIGR00041	195	DTMP_kinase thymidylate kinase. Function: phosphor	96.18
PF13245	76	AAA_19: Part of AAA domain	96.17
PRK14737	186	gmk guanylate kinase; Provisional	96.17
PLN02200	234	adenylate kinase family protein	96.17
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	96.16
PRK13946	184	shikimate kinase; Provisional	96.16
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	96.16
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	96.15
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	96.15
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	96.14
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	96.14
PF00005	137	ABC_tran: ABC transporter This structure is on hol	96.13
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	96.12
PRK13948	182	shikimate kinase; Provisional	96.12
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	96.12
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	96.11
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	96.11
COG0003	322	ArsA Predicted ATPase involved in chromosome parti	96.09
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	96.09
PRK09825	176	idnK D-gluconate kinase; Provisional	96.09
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	96.09
PRK14738	206	gmk guanylate kinase; Provisional	96.08
PRK00698	205	tmk thymidylate kinase; Validated	96.08
PF02367	123	UPF0079: Uncharacterised P-loop hydrolase UPF0079;	96.08
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	96.08
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	96.07
PTZ00035	337	Rad51 protein; Provisional	96.07
PRK06761	282	hypothetical protein; Provisional	96.07
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	96.07
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	96.06
PRK09112	351	DNA polymerase III subunit delta'; Validated	96.06
COG3899	849	Predicted ATPase [General function prediction only	96.05
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	96.05
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	96.04
PLN02796	347	D-glycerate 3-kinase	96.03
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	96.03
PLN02165	334	adenylate isopentenyltransferase	96.02
PRK14493	274	putative bifunctional molybdopterin-guanine dinucl	96.01
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	96.01
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	96.01
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	96.0
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	96.0
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	96.0
cd02022	179	DPCK Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.2	95.99
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	95.99
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	95.99
PRK05642	234	DNA replication initiation factor; Validated	95.98
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	95.98
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	95.98
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	95.98
cd03116	159	MobB Molybdenum is an essential trace element in t	95.97
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	95.97
PRK06620	214	hypothetical protein; Validated	95.96
PRK09435	332	membrane ATPase/protein kinase; Provisional	95.96
TIGR01287	275	nifH nitrogenase iron protein. This model describe	95.96
COG3638	258	ABC-type phosphate/phosphonate transport system, A	95.96
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	95.96
) proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor" target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF06309">PF06309	127	Torsin: Torsin; InterPro: IPR010448 This family co	95.95
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	95.94
PLN02348	395	phosphoribulokinase	95.93
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	95.93
PRK08356	195	hypothetical protein; Provisional	95.93
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	95.92
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	95.91
PRK14490	369	putative bifunctional molybdopterin-guanine dinucl	95.91
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	95.9
PRK08099	399	bifunctional DNA-binding transcriptional repressor	95.88
PF02374	305	ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_	95.87
PRK14532	188	adenylate kinase; Provisional	95.86
PF00154	322	RecA: recA bacterial DNA recombination protein; In	95.86
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	95.86
PRK13768	253	GTPase; Provisional	95.86
PRK03731	171	aroL shikimate kinase II; Reviewed	95.86
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	95.84
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	95.84
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	95.84
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	95.84
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	95.84
TIGR00064	272	ftsY signal recognition particle-docking protein F	95.83
PRK12377	248	putative replication protein; Provisional	95.83
cd02117	212	NifH_like This family contains the NifH (iron prot	95.82
PLN02318	656	phosphoribulokinase/uridine kinase	95.82
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	95.82
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	95.81
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	95.81
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	95.81
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	95.81
PLN02924	220	thymidylate kinase	95.8
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	95.8
PF07726	131	AAA_3: ATPase family associated with various cellu	95.79
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	95.79
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	95.79
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	95.79
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	95.78
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	95.78
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	95.78
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	95.77
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	95.77
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	95.77
cd02026	273	PRK Phosphoribulokinase (PRK) is an enzyme involve	95.76
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	95.76
PRK13236	296	nitrogenase reductase; Reviewed	95.75
cd01673	193	dNK Deoxyribonucleoside kinase (dNK) catalyzes the	95.75
TIGR00959	428	ffh signal recognition particle protein. This mode	95.74
PRK10867	433	signal recognition particle protein; Provisional	95.74
PRK14531	183	adenylate kinase; Provisional	95.74
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	95.74
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	95.73
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	95.73
PRK13230	279	nitrogenase reductase-like protein; Reviewed	95.73
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	95.73
PTZ00494	664	tuzin-like protein; Provisional	95.73
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	95.72
cd03114	148	ArgK-like The function of this protein family is u	95.72
TIGR00101	199	ureG urease accessory protein UreG. This model rep	95.71
PRK10416	318	signal recognition particle-docking protein FtsY;	95.71
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	95.7
smart00178	184	SAR Sar1p-like members of the Ras-family of small	95.7
PRK06067	234	flagellar accessory protein FlaH; Validated	95.7
PRK14529	223	adenylate kinase; Provisional	95.7
PRK13232	273	nifH nitrogenase reductase; Reviewed	95.7
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	95.69
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	95.69
cd02040	270	NifH NifH gene encodes component II (iron protein)	95.68
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	95.68
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	95.68
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	95.67
PHA02530	300	pseT polynucleotide kinase; Provisional	95.67
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	95.66
PRK15453	290	phosphoribulokinase; Provisional	95.65
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	95.65
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	95.64
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	95.64
PRK13531	498	regulatory ATPase RavA; Provisional	95.64
cd02029	277	PRK_like Phosphoribulokinase-like (PRK-like) is a	95.64
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	95.63
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	95.62
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	95.62
PRK05537	568	bifunctional sulfate adenylyltransferase subunit 1	95.62
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	95.61
cd03269	210	ABC_putative_ATPase This subfamily is involved in	95.61
TIGR00455	184	apsK adenylylsulfate kinase (apsK). Important resi	95.61
TIGR00017	217	cmk cytidylate kinase. This family consists of cyt	95.61
PF05970	364	PIF1: PIF1-like helicase; InterPro: IPR010285 This	95.61
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	95.59
cd03297	214	ABC_ModC_molybdenum_transporter ModC is an ABC-typ	95.59
smart00072	184	GuKc Guanylate kinase homologues. Active enzymes c	95.59
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	95.59
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	95.58
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	95.58
cd03256	241	ABC_PhnC_transporter ABC-type phosphate/phosphonat	95.58
PRK06835	329	DNA replication protein DnaC; Validated	95.57
PF00406	151	ADK: Adenylate kinase; InterPro: IPR000850 Adenyla	95.57
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	95.57
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	95.57
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	95.56
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	95.56
PRK07940	394	DNA polymerase III subunit delta'; Validated	95.55
cd03260	227	ABC_PstB_phosphate_transporter Phosphate uptake is	95.55
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	95.55
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	95.55
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	95.54
PRK08154	309	anaerobic benzoate catabolism transcriptional regu	95.54
PRK10584	228	putative ABC transporter ATP-binding protein YbbA;	95.54
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	95.54
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	95.54
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	95.53
PRK04328	249	hypothetical protein; Provisional	95.53
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	95.53
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	95.53
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	95.53
PRK00279	215	adk adenylate kinase; Reviewed	95.51
TIGR02211	221	LolD_lipo_ex lipoprotein releasing system, ATP-bin	95.51
PRK02496	184	adk adenylate kinase; Provisional	95.51
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	95.51
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	95.51
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	95.5
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	95.5
PRK15177	213	Vi polysaccharide export ATP-binding protein VexC;	95.49
PRK14528	186	adenylate kinase; Provisional	95.49
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	95.49
TIGR03864	236	PQQ_ABC_ATP ABC transporter, ATP-binding subunit,	95.48
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	95.48
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	95.47
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	95.47
cd03296	239	ABC_CysA_sulfate_importer Part of the ABC transpor	95.46
PLN03046	460	D-glycerate 3-kinase; Provisional	95.44
COG4619	223	ABC-type uncharacterized transport system, ATPase	95.44
PRK13538	204	cytochrome c biogenesis protein CcmA; Provisional	95.44
PRK11629	233	lolD lipoprotein transporter ATP-binding subunit;	95.44
PTZ00133	182	ADP-ribosylation factor; Provisional	95.44
PRK13235	274	nifH nitrogenase reductase; Reviewed	95.43
PRK13233	275	nifH nitrogenase reductase; Reviewed	95.43
cd03257	228	ABC_NikE_OppD_transporters The ABC transporter sub	95.43
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	95.43
PRK11248	255	tauB taurine transporter ATP-binding subunit; Prov	95.42
COG4240	300	Predicted kinase [General function prediction only	95.41
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	95.41
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	95.41
PRK10247	225	putative ABC transporter ATP-binding protein YbbL;	95.41
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	95.41
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	95.4
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	95.4
cd03237	246	ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 o	95.39
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	95.39
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	95.39
PRK07429	327	phosphoribulokinase; Provisional	95.37
PRK13976	209	thymidylate kinase; Provisional	95.37
PRK14730	195	coaE dephospho-CoA kinase; Provisional	95.37
cd03258	233	ABC_MetN_methionine_transporter MetN (also known a	95.36
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	95.36
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	95.36
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	95.35
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	95.35
TIGR01184	230	ntrCD nitrate transport ATP-binding subunits C and	95.35
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	95.34
PRK13974	212	thymidylate kinase; Provisional	95.34
cd03219	236	ABC_Mj1267_LivG_branched The Mj1267/LivG ABC trans	95.34
TIGR02770	230	nickel_nikD nickel import ATP-binding protein NikD	95.34
PRK07471	365	DNA polymerase III subunit delta'; Validated	95.33
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	95.33
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	95.33
PRK14489	366	putative bifunctional molybdopterin-guanine dinucl	95.32
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	95.32
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	95.32
COG3842	352	PotA ABC-type spermidine/putrescine transport syst	95.31
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	95.3
PRK13231	264	nitrogenase reductase-like protein; Reviewed	95.3
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	95.29
cd03218	232	ABC_YhbG The ABC transporters belonging to the Yhb	95.29
PRK11124	242	artP arginine transporter ATP-binding subunit; Pro	95.29
cd03273	251	ABC_SMC2_euk Eukaryotic SMC2 proteins; SMC protein	95.28
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	95.27
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	95.27
TIGR01978	243	sufC FeS assembly ATPase SufC. SufC is part of the	95.27
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	95.26
COG1875	436	NYN ribonuclease and ATPase of PhoH family domains	95.26
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	95.26
PRK13540	200	cytochrome c biogenesis protein CcmA; Provisional	95.26
PRK10908	222	cell division protein FtsE; Provisional	95.25
PRK09183	259	transposase/IS protein; Provisional	95.25
PRK06851	367	hypothetical protein; Provisional	95.25
cd03268	208	ABC_BcrA_bacitracin_resist The BcrA subfamily repr	95.25
cd03262	213	ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-	95.25
PRK04220	301	2-phosphoglycerate kinase; Provisional	95.25
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	95.24
TIGR01281	268	DPOR_bchL light-independent protochlorophyllide re	95.24
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	95.24
cd03295	242	ABC_OpuCA_Osmoprotection OpuCA is a the ATP bindin	95.24
PRK07933	213	thymidylate kinase; Validated	95.24
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	95.23
PRK09519	790	recA DNA recombination protein RecA; Reviewed	95.22
cd03246	173	ABCC_Protease_Secretion This family represents the	95.22
TIGR01189	198	ccmA heme ABC exporter, ATP-binding protein CcmA.	95.22
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	95.22
cd03278	197	ABC_SMC_barmotin Barmotin is a tight junction-asso	95.21
PHA02575	227	1 deoxynucleoside monophosphate kinase; Provisiona	95.21
COG1484	254	DnaC DNA replication protein [DNA replication, rec	95.21
PRK11247	257	ssuB aliphatic sulfonates transport ATP-binding su	95.21
cd03266	218	ABC_NatA_sodium_exporter NatA is the ATPase compon	95.2
PHA02244	383	ATPase-like protein	95.2
PRK14088	440	dnaA chromosomal replication initiation protein; P	95.19
PRK07952	244	DNA replication protein DnaC; Validated	95.19
TIGR02324	224	CP_lyasePhnL phosphonate C-P lyase system protein	95.19
PRK14242	253	phosphate transporter ATP-binding protein; Provisi	95.19
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	95.19
cd02034	116	CooC The accessory protein CooC, which contains a	95.18
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	95.18
PRK13973	213	thymidylate kinase; Provisional	95.18
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	95.17
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	95.17
PRK08116	268	hypothetical protein; Validated	95.16
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	95.16
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	95.15
COG4778	235	PhnL ABC-type phosphonate transport system, ATPase	95.15
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	95.15
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	95.14
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	95.14
PRK09544	251	znuC high-affinity zinc transporter ATPase; Review	95.13
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	95.13
PRK05416	288	glmZ(sRNA)-inactivating NTPase; Provisional	95.13
PF11868	192	DUF3388: Protein of unknown function (DUF3388); In	95.12
PRK06526	254	transposase; Provisional	95.12
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	95.12
cd03216	163	ABC_Carb_Monos_I This family represents the domain	95.12
PRK14247	250	phosphate ABC transporter ATP-binding protein; Pro	95.12
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	95.11
cd03252	237	ABCC_Hemolysin The ABC-transporter hemolysin B is	95.11
PRK14245	250	phosphate ABC transporter ATP-binding protein; Pro	95.1
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	95.1
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	95.1
PRK14241	258	phosphate transporter ATP-binding protein; Provisi	95.1
TIGR00972	247	3a0107s01c2 phosphate ABC transporter, ATP-binding	95.09
COG1123	539	ATPase components of various ABC-type transport sy	95.09

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=99.95  E-value=2.6e-26  Score=216.09  Aligned_cols=215  Identities=27%  Similarity=0.425  Sum_probs=170.1

Q ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHHHHHhhhhhhh-----------------hcc
Q 036637           34 FENLKTELEKLKDDGASMQHGVDEGRRKGEEIEKNVEKWLASVNNIITEAEKFTGDADKA-----------------NKR   96 (250)
Q Consensus        34 ~~~l~~~l~~L~~~l~~~~~~l~~a~~~~~~~~~~~~~wl~~l~~~~~d~ed~ld~~~~~-----------------~~~   96 (250)
                      +......+..|+..|..+++++.+++..+ .....+..|...++++.|++||+++.+...                 ...
T Consensus        23 ~~~~~~~i~~Lk~~L~~l~~~l~d~~a~~-~~~~~~~~~~e~~~~~~~~~e~~~~~~~v~~~~~~~~~~l~~~~~~~~~~  101 (889)
T KOG4658|consen   23 LDGKDNYILELKENLKALQSALEDLDAKR-DDLERRVNWEEDVGDLVYLAEDIIWLFLVEEIERKANDLLSTRSVERQRL  101 (889)
T ss_pred             HhchHHHHHHHHHHHHHHHHHHHHHHhhc-chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhhhhHHHHHHH
Confidence            34445578888888888889999998875 457899999999999999999999875311                 122


Q ss_pred             cccccC-cChhHHHHHHHHHHHHHHHHHHHHHcCCCCccccc-cccccccccCCCCcCCCcChHHHHHHHHHHhcCCCce
Q 036637           97 CFMGLC-PNLKTRHRFSKEAVRQQKAIVELGEAGRFDRLSYR-KALEDIRLISNKDYEAFESRSSTLNNVLRALQDPDVN  174 (250)
Q Consensus        97 ~~~~~~-~~~~~~~~~~~~i~~~~~~l~~l~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~gr~~~~~~l~~~L~~~~~~  174 (250)
                      |+.+++ .++...+.+++++..+...++.+.....|..+... .+...+..++..+... +|.+..++++++.|.+++..
T Consensus       102 c~~~~~~~~~~~~~~~~~rv~~~l~~ve~l~~~~~~~~~~~~~~~~~~~e~~~~~~~~~-VG~e~~~~kl~~~L~~d~~~  180 (889)
T KOG4658|consen  102 CLCGFCSKNVSDSYKYGKRVSKVLREVESLGSKGVFEVVGESLDPREKVETRPIQSESD-VGLETMLEKLWNRLMEDDVG  180 (889)
T ss_pred             hhhhhHhHhhhhhHhHHHHHHHHHHHHHHhccccceecccccccchhhcccCCCCcccc-ccHHHHHHHHHHHhccCCCC
Confidence            333333 35667778899999999999999777777665542 2222333333333333 99999999999999988889


Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhc-CCCCCCeEEEEEcCCCCCHHHHHHHHHHHhCCCCC---CCCHHHHHHHHHHHhcC
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFG-RDQFFDQVIFVEVPHIPDIRKIQGEIADKLGLIFF---EETESGRARSLYNRLKG  250 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~-v~~~Fd~~~wv~vs~~~~~~~l~~~i~~~l~~~~~---~~~~~~~~~~l~~~L~~  250 (250)
                      +++|+||||+||||||++|||+.. ++++||.++||+||+.|+..+++.+|+..++....   ..+..+.+..|.+.|++
T Consensus       181 iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~f~~~~iq~~Il~~l~~~~~~~~~~~~~~~~~~i~~~L~~  260 (889)
T KOG4658|consen  181 IVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKEFTTRKIQQTILERLGLLDEEWEDKEEDELASKLLNLLEG  260 (889)
T ss_pred             EEEEECCCcccHHHHHHHHhcccchhcccCceEEEEEEcccccHHhHHHHHHHHhccCCcccchhhHHHHHHHHHHHhcc
Confidence            999999999999999999999998 99999999999999999999999999999988433   33457888899998864

>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=99.68  E-value=2.7e-16  Score=132.36  Aligned_cols=94  Identities=33%  Similarity=0.442  Sum_probs=83.1

Q ss_pred             hHHHHHHHHHHhcC--CCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhCCCC--
Q 036637          157 RSSTLNNVLRALQD--PDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGLIF--  232 (250)
Q Consensus       157 r~~~~~~l~~~L~~--~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~~l~~~~--  232 (250)
                      |+.++++|.++|.+  ++.++|+|+||||+||||||..+|++..++++|+.++|+.++..++...++..|+.+++.+.  
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            68899999999997  78999999999999999999999999778899999999999999999999999999998874  


Q ss_pred             --CCCCHHHHHHHHHHHhcC
Q 036637          233 --FEETESGRARSLYNRLKG  250 (250)
Q Consensus       233 --~~~~~~~~~~~l~~~L~~  250 (250)
                        ...+..+....|++.|++
T Consensus        81 ~~~~~~~~~~~~~l~~~L~~  100 (287)
T PF00931_consen   81 ISDPKDIEELQDQLRELLKD  100 (287)
T ss_dssp             SSCCSSHHHHHHHHHHHHCC
T ss_pred             cccccccccccccchhhhcc
Confidence              345777888899998864

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=98.96  E-value=1.3e-09  Score=107.69  Aligned_cols=60  Identities=32%  Similarity=0.640  Sum_probs=51.7

Q ss_pred             CCcCCCcChHHHHHHHHHHhc--CCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEE
Q 036637          149 KDYEAFESRSSTLNNVLRALQ--DPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVE  210 (250)
Q Consensus       149 ~~~~~~~gr~~~~~~l~~~L~--~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~  210 (250)
                      .+..+++|++..++++..+|.  .++.++|+||||||+||||||+.+|+...  .+|+..+|+.
T Consensus       181 ~~~~~~vG~~~~l~~l~~lL~l~~~~~~vvgI~G~gGiGKTTLA~~l~~~l~--~~F~g~vfv~  242 (1153)
T PLN03210        181 NDFEDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFSRLS--RQFQSSVFID  242 (1153)
T ss_pred             cccccccchHHHHHHHHHHHccccCceEEEEEEcCCCCchHHHHHHHHHHHh--hcCCeEEEee
Confidence            356679999999999998876  56899999999999999999999999765  6799887763

syringae 6; Provisional

>PTZ00202 tuzin; Provisional

Probab=98.67  E-value=4.1e-07  Score=79.37  Aligned_cols=92  Identities=16%  Similarity=0.146  Sum_probs=68.3

Q ss_pred             CCCcCCCcChHHHHHHHHHHhcC---CCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHH
Q 036637          148 NKDYEAFESRSSTLNNVLRALQD---PDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEI  224 (250)
Q Consensus       148 ~~~~~~~~gr~~~~~~l~~~L~~---~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i  224 (250)
                      |.+...|+||+.+...|...|.+   ..+.++.|+|++|+|||||++.+.....      ..+++.-+.  +..++++.|
T Consensus       258 Pa~~~~FVGReaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~l~------~~qL~vNpr--g~eElLr~L  329 (550)
T PTZ00202        258 PAVIRQFVSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRKEG------MPAVFVDVR--GTEDTLRSV  329 (550)
T ss_pred             CCCccCCCCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhcCC------ceEEEECCC--CHHHHHHHH
Confidence            44677899999999999888762   2456889999999999999999996553      123333333  779999999


Q ss_pred             HHHhCCCCCCCCHHHHHHHHHHHh
Q 036637          225 ADKLGLIFFEETESGRARSLYNRL  248 (250)
Q Consensus       225 ~~~l~~~~~~~~~~~~~~~l~~~L  248 (250)
                      +.+||.+.. ....++.+.|.+.|
T Consensus       330 L~ALGV~p~-~~k~dLLrqIqeaL  352 (550)
T PTZ00202        330 VKALGVPNV-EACGDLLDFISEAC  352 (550)
T ss_pred             HHHcCCCCc-ccHHHHHHHHHHHH
Confidence            999998433 23356667776665

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

Probab=98.67  E-value=3.8e-08  Score=80.89  Aligned_cols=60  Identities=17%  Similarity=0.149  Sum_probs=49.8

Q ss_pred             HHHHhcC-CCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCC--CCHHHHHHHH
Q 036637          164 VLRALQD-PDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHI--PDIRKIQGEI  224 (250)
Q Consensus       164 l~~~L~~-~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~--~~~~~l~~~i  224 (250)
                      .++.+.. ..-..++|+|.+|+|||||++.+|++.... +|++++|+++++.  +++.++++.|
T Consensus         6 ~id~~~~i~~Gqr~~I~G~~G~GKTTLlr~I~n~l~~~-~fdv~~~v~vI~er~~ev~el~~~I   68 (249)
T cd01128           6 VVDLFAPIGKGQRGLIVAPPKAGKTTLLQSIANAITKN-HPEVYLIVLLIDERPEEVTDMQRSV   68 (249)
T ss_pred             heeeecccCCCCEEEEECCCCCCHHHHHHHHHhccccc-cCCeEEEEEEccCCCccHHHHHHHh
Confidence            3444432 245578999999999999999999998765 8999999998766  7999999999

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.

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=98.61  E-value=5.8e-08  Score=83.73  Aligned_cols=62  Identities=13%  Similarity=0.121  Sum_probs=50.7

Q ss_pred             HHHHHhcC-CCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCC--CHHHHHHHHH
Q 036637          163 NVLRALQD-PDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIP--DIRKIQGEIA  225 (250)
Q Consensus       163 ~l~~~L~~-~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~--~~~~l~~~i~  225 (250)
                      ++++++.- ..-.-..|+|++|+|||||++.||++.... +||+++||.+++.+  .+.+++++|.
T Consensus       158 rvID~l~PIGkGQR~lIvgppGvGKTTLaK~Ian~I~~n-hFDv~~~VvLIgER~~EVtdiqrsIl  222 (416)
T PRK09376        158 RIIDLIAPIGKGQRGLIVAPPKAGKTVLLQNIANSITTN-HPEVHLIVLLIDERPEEVTDMQRSVK  222 (416)
T ss_pred             eeeeeecccccCceEEEeCCCCCChhHHHHHHHHHHHhh-cCCeEEEEEEeCCchhHHHHHHHHhc
Confidence            34554441 233456899999999999999999999875 89999999999888  8899999986

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=98.61  E-value=7.4e-07  Score=78.48  Aligned_cols=99  Identities=21%  Similarity=0.096  Sum_probs=72.2

Q ss_pred             cCCCcChHHHHHHHHHHhc----CCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHH
Q 036637          151 YEAFESRSSTLNNVLRALQ----DPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIAD  226 (250)
Q Consensus       151 ~~~~~gr~~~~~~l~~~L~----~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~  226 (250)
                      +..++||+.+.++|...|.    +.....+-|+|++|+||||+++.++++.......-..+++......+...++..|++
T Consensus        29 P~~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~~~~~~i~~  108 (394)
T PRK00411         29 PENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRYAIFSEIAR  108 (394)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHHHHHHHHHH
Confidence            4568999999999988874    334556789999999999999999998764332234566776777788899999999


Q ss_pred             HhCC-CC--CCCCHHHHHHHHHHHhc
Q 036637          227 KLGL-IF--FEETESGRARSLYNRLK  249 (250)
Q Consensus       227 ~l~~-~~--~~~~~~~~~~~l~~~L~  249 (250)
                      +++. +.  ...+..+..+.+.+.|+
T Consensus       109 ~l~~~~~~~~~~~~~~~~~~~~~~l~  134 (394)
T PRK00411        109 QLFGHPPPSSGLSFDELFDKIAEYLD  134 (394)
T ss_pred             HhcCCCCCCCCCCHHHHHHHHHHHHH
Confidence            9965 22  22344555666666553

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=98.49  E-value=1.8e-06  Score=75.15  Aligned_cols=98  Identities=23%  Similarity=0.311  Sum_probs=69.5

Q ss_pred             cCCCcChHHHHHHHHHHhc----CCCceEEEEEccCCCCHHHHHHHHHHHhcCC-CCC--C-eEEEEEcCCCCCHHHHHH
Q 036637          151 YEAFESRSSTLNNVLRALQ----DPDVNMVGIYGMGGIGKTTLAKEVAIQFGRD-QFF--D-QVIFVEVPHIPDIRKIQG  222 (250)
Q Consensus       151 ~~~~~gr~~~~~~l~~~L~----~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~-~~F--d-~~~wv~vs~~~~~~~l~~  222 (250)
                      ++.++||+.+++.|..+|.    +.....+-|+|++|+|||++++.+++..... ...  . ..+|+......+...++.
T Consensus        14 p~~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~~~~   93 (365)
T TIGR02928        14 PDRIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQVLV   93 (365)
T ss_pred             CCCCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHHHHH
Confidence            4478999999999999886    3445678999999999999999999875321 111  1 356777777778889999


Q ss_pred             HHHHHh---CCCCC--CCCHHHHHHHHHHHh
Q 036637          223 EIADKL---GLIFF--EETESGRARSLYNRL  248 (250)
Q Consensus       223 ~i~~~l---~~~~~--~~~~~~~~~~l~~~L  248 (250)
                      .|++++   +.+..  +.+..+....+.++|
T Consensus        94 ~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l  124 (365)
T TIGR02928        94 ELANQLRGSGEEVPTTGLSTSEVFRRLYKEL  124 (365)
T ss_pred             HHHHHHhhcCCCCCCCCCCHHHHHHHHHHHH
Confidence            999998   44322  223344445555544

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.

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

Probab=98.45  E-value=1.8e-07  Score=73.32  Aligned_cols=73  Identities=19%  Similarity=0.289  Sum_probs=43.2

Q ss_pred             CcChHHHHHHHHHHhc---CCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCC-----CCHHHHHHHHH
Q 036637          154 FESRSSTLNNVLRALQ---DPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHI-----PDIRKIQGEIA  225 (250)
Q Consensus       154 ~~gr~~~~~~l~~~L~---~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~-----~~~~~l~~~i~  225 (250)
                      |+||+.+.+++...|.   +...+.+.|+|.+|+|||+|++.++........+  .+.+.....     .+...++++|+
T Consensus         2 fvgR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~l~   79 (185)
T PF13191_consen    2 FVGREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRLAERGGY--VISINCDDSERNPYSPFRSALRQLI   79 (185)
T ss_dssp             -TT-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHHHHHT----EEEEEEETTTS-HHHHHHHHHHHHS
T ss_pred             CCCHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCE--EEEEEEeccccchhhHHHHHHHHHH
Confidence            7899999999999993   5567899999999999999999999888755323  222222222     12366666666


Q ss_pred             HHh
Q 036637          226 DKL  228 (250)
Q Consensus       226 ~~l  228 (250)
                      .++
T Consensus        80 ~~~   82 (185)
T PF13191_consen   80 DQL   82 (185)
T ss_dssp             ---
T ss_pred             HHh
Confidence            664

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

Probab=98.43  E-value=3.2e-06  Score=70.39  Aligned_cols=75  Identities=20%  Similarity=0.197  Sum_probs=52.9

Q ss_pred             CCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHH
Q 036637          170 DPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGLIFFEETESGRARSLYNR  247 (250)
Q Consensus       170 ~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~  247 (250)
                      ..+.+++.|+|.+|+|||||++.+++..... .+ ..+|+ +....+..+++..|+..+|.+....+.......|...
T Consensus        40 ~~~~~~~~l~G~~G~GKTtl~~~l~~~l~~~-~~-~~~~~-~~~~~~~~~~l~~i~~~lG~~~~~~~~~~~~~~l~~~  114 (269)
T TIGR03015        40 SQREGFILITGEVGAGKTTLIRNLLKRLDQE-RV-VAAKL-VNTRVDAEDLLRMVAADFGLETEGRDKAALLRELEDF  114 (269)
T ss_pred             hcCCCEEEEEcCCCCCHHHHHHHHHHhcCCC-Ce-EEeee-eCCCCCHHHHHHHHHHHcCCCCCCCCHHHHHHHHHHH
Confidence            4566789999999999999999999887532 11 22333 3334678899999999999876554444444455443

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.

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

Probab=98.40  E-value=1.1e-06  Score=64.87  Aligned_cols=78  Identities=31%  Similarity=0.389  Sum_probs=57.0

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCC---CCCCeEEEEEcCCCCCHHHHHHHHHHHhCCCCCC-CCHHHHHHHHHHH
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRD---QFFDQVIFVEVPHIPDIRKIQGEIADKLGLIFFE-ETESGRARSLYNR  247 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~---~~Fd~~~wv~vs~~~~~~~l~~~i~~~l~~~~~~-~~~~~~~~~l~~~  247 (250)
                      +-+.+.|+|.+|+|||++++.+.++..-.   ..-...+|+.++...+...+...|+.+++.+... .+..+..+.+.+.
T Consensus         3 ~~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~l~~~~~~~   82 (131)
T PF13401_consen    3 SQRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKSRQTSDELRSLLIDA   82 (131)
T ss_dssp             ----EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSSTS-HHHHHHHHHHH
T ss_pred             CCcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccccCCHHHHHHHHHHH
Confidence            35678999999999999999999876321   0023567999998889999999999999988776 5667777777776


Q ss_pred             hc
Q 036637          248 LK  249 (250)
Q Consensus       248 L~  249 (250)
                      +.
T Consensus        83 l~   84 (131)
T PF13401_consen   83 LD   84 (131)
T ss_dssp             HH
T ss_pred             HH
Confidence            64

>PRK08118 topology modulation protein; Reviewed

Probab=98.36  E-value=2.6e-07  Score=71.62  Aligned_cols=53  Identities=25%  Similarity=0.471  Sum_probs=38.9

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhcCC-CCCCeEE----EEEcCCCCCHHHHHHHHHHH
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFGRD-QFFDQVI----FVEVPHIPDIRKIQGEIADK  227 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~v~-~~Fd~~~----wv~vs~~~~~~~l~~~i~~~  227 (250)
                      ..|.|+|++|+||||||+.+++..... -+||..+    |..+++. ....+++.++.+
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~~~~w~~~~~~-~~~~~~~~~~~~   59 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFWKPNWEGVPKE-EQITVQNELVKE   59 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCCceecchhhcccCCcCCCHH-HHHHHHHHHhcC
Confidence            358999999999999999999998765 4688888    5555442 444455555543

>TIGR00767 rho transcription termination factor Rho

Probab=98.25  E-value=3.3e-06  Score=73.36  Aligned_cols=54  Identities=17%  Similarity=0.147  Sum_probs=47.0

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCC--CCHHHHHHHHHH
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHI--PDIRKIQGEIAD  226 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~--~~~~~l~~~i~~  226 (250)
                      .-..++|+|.+|+|||||++.+++..... +|+..+||.+++.  .++.++++.|+.
T Consensus       167 ~Gq~~~IvG~~g~GKTtL~~~i~~~I~~n-hfdv~v~VlLIgER~~EVtDLqrsIlg  222 (415)
T TIGR00767       167 KGQRGLIVAPPKAGKTVLLQKIAQAITRN-HPEVELIVLLIDERPEEVTDMQRSVKG  222 (415)
T ss_pred             CCCEEEEECCCCCChhHHHHHHHHhhccc-CCceEEEEEEcCCCCccHHHHHHHhhc
Confidence            44578999999999999999999998764 8999999999965  799999999943

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

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

Probab=98.09  E-value=1.2e-05  Score=70.85  Aligned_cols=69  Identities=17%  Similarity=0.213  Sum_probs=57.1

Q ss_pred             CCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHH
Q 036637          152 EAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQG  222 (250)
Q Consensus       152 ~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~  222 (250)
                      ..+++.+...+.++..|..  .+.|.++|++|+|||++|+.+++.......|+.+.||++++.++..+++.
T Consensus       175 ~d~~i~e~~le~l~~~L~~--~~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySYeDFI~  243 (459)
T PRK11331        175 NDLFIPETTIETILKRLTI--KKNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSYEDFIQ  243 (459)
T ss_pred             hcccCCHHHHHHHHHHHhc--CCCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccHHHHhc
Confidence            3466778888999888874  34667799999999999999999887666789999999999888777664

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

Probab=98.06  E-value=4.3e-06  Score=67.64  Aligned_cols=60  Identities=23%  Similarity=0.394  Sum_probs=43.6

Q ss_pred             CcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCC
Q 036637          154 FESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIP  215 (250)
Q Consensus       154 ~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~  215 (250)
                      |+||+.+++.|.+++..+....+.|+|+.|+|||+|++.+.+..+.. .+ ..+|+......
T Consensus         1 F~gR~~el~~l~~~l~~~~~~~~~l~G~rg~GKTsLl~~~~~~~~~~-~~-~~~y~~~~~~~   60 (234)
T PF01637_consen    1 FFGREKELEKLKELLESGPSQHILLYGPRGSGKTSLLKEFINELKEK-GY-KVVYIDFLEES   60 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH--SSEEEEEESTTSSHHHHHHHHHHHCT---EE-CCCHHCCTTBS
T ss_pred             CCCHHHHHHHHHHHHHhhcCcEEEEEcCCcCCHHHHHHHHHHHhhhc-CC-cEEEEecccch
Confidence            68999999999998887778899999999999999999999988432 22 34455444443

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

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

Probab=98.06  E-value=2.3e-05  Score=58.21  Aligned_cols=61  Identities=23%  Similarity=0.326  Sum_probs=47.2

Q ss_pred             cChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCH
Q 036637          155 ESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDI  217 (250)
Q Consensus       155 ~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~  217 (250)
                      .|++..+..+...+..+..+.+.|+|.+|+|||||++.+++....  .-..++++..+.....
T Consensus         1 ~~~~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l~~~i~~~~~~--~~~~v~~~~~~~~~~~   61 (151)
T cd00009           1 VGQEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELFR--PGAPFLYLNASDLLEG   61 (151)
T ss_pred             CchHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHhhc--CCCCeEEEehhhhhhh
Confidence            367778888888887777788999999999999999999998752  1235677776655433

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.

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

Probab=97.88  E-value=0.0002  Score=62.36  Aligned_cols=97  Identities=21%  Similarity=0.315  Sum_probs=75.8

Q ss_pred             CCcChHHHHHHHHHHhc----CCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHHHh
Q 036637          153 AFESRSSTLNNVLRALQ----DPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKL  228 (250)
Q Consensus       153 ~~~gr~~~~~~l~~~L~----~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~~l  228 (250)
                      .+.+|+.+.+++...|.    +..+.-+-|.|..|.|||+.++.|.+..+....=...++|..-....+-+++..|+.++
T Consensus        18 ~l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~i~~~~   97 (366)
T COG1474          18 ELPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKILNKL   97 (366)
T ss_pred             cccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHHHHHHHc
Confidence            48899999999988876    33444488999999999999999998887542211278898889999999999999999


Q ss_pred             C-CCCCCCCHHHHHHHHHHHhc
Q 036637          229 G-LIFFEETESGRARSLYNRLK  249 (250)
Q Consensus       229 ~-~~~~~~~~~~~~~~l~~~L~  249 (250)
                      + .|..+.+..+..+.+.+.+.
T Consensus        98 ~~~p~~g~~~~~~~~~l~~~~~  119 (366)
T COG1474          98 GKVPLTGDSSLEILKRLYDNLS  119 (366)
T ss_pred             CCCCCCCCchHHHHHHHHHHHH
Confidence            5 34445666777777777653

>PRK07261 topology modulation protein; Provisional

Probab=97.83  E-value=5e-05  Score=59.06  Aligned_cols=54  Identities=24%  Similarity=0.365  Sum_probs=36.1

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhcCCC-CCCeEEEEEcCCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFGRDQ-FFDQVIFVEVPHIPDIRKIQGEIADKL  228 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~v~~-~Fd~~~wv~vs~~~~~~~l~~~i~~~l  228 (250)
                      .|.|+|++|+||||||+.+........ +.|...|-.-....+..++...+..-+
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~~~~~i~~D~~~~~~~~~~~~~~~~~~~~~~~~   56 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHYNCPVLHLDTLHFQPNWQERDDDDMIADISNFL   56 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhCCCeEecCCEEeccccccCCHHHHHHHHHHHH
Confidence            489999999999999999987765432 467777754333344455555443333

>PF05659 RPW8: Arabidopsis broad-spectrum mildew resistance protein RPW8; InterPro: IPR008808 This entry represents the RPW8 domain found in several broad-spectrum mildew resistance proteins from Arabidopsis thaliana and other dicots

Probab=97.80  E-value=0.00033  Score=52.82  Aligned_cols=110  Identities=12%  Similarity=0.148  Sum_probs=74.7

Q ss_pred             chhH-HHHHHHHHhhhhhchhhhhhhHccchhhHHHHHHHHHHHHHhHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHH
Q 036637            2 VESI-VTVVLEVAKCLGRPTERQLSFVRNYRSNFENLKTELEKLKDDGASMQHGVDEGRRKGEEIEKNVEKWLASVNNII   80 (250)
Q Consensus         2 ae~~-~~~~~~~~~~l~~~~~~~~~~l~~~~~~~~~l~~~l~~L~~~l~~~~~~l~~a~~~~~~~~~~~~~wl~~l~~~~   80 (250)
                      ||.+ +++++.+++.|...+........       ..+.-++.|...++.+..++.+.+..+...|...+.-+.++.+..
T Consensus         3 ~eL~~gaalG~~~~eLlk~v~~~~~k~~-------~fk~~l~~L~sTl~~i~P~i~eI~~~~~eld~~~~ee~e~L~~~L   75 (147)
T PF05659_consen    3 AELVGGAALGAVFGELLKAVIDASKKSL-------SFKSILKRLESTLESIIPIIKEIDKLNVELDRPRQEEIERLKELL   75 (147)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH-------hhhhHHHHHHHHHHHhhhHHHHHHHHhhhcCCchhHHHHHHHHHH
Confidence            3444 34555555555555444444433       345566667777777777777777665555666577799999999


Q ss_pred             HHHHHHhhhhhhhhcccccccCcChhHHHHHHHHHHHHHHHHHHH
Q 036637           81 TEAEKFTGDADKANKRCFMGLCPNLKTRHRFSKEAVRQQKAIVEL  125 (250)
Q Consensus        81 ~d~ed~ld~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~l~~l  125 (250)
                      .++++++.++....       +++++..++.+++|+++.+.+...
T Consensus        76 ~~g~~LV~k~sk~~-------r~n~~kk~~y~~Ki~~le~~l~~f  113 (147)
T PF05659_consen   76 EKGKELVEKCSKVR-------RWNLYKKPRYARKIEELEESLRRF  113 (147)
T ss_pred             HHHHHHHHHhcccc-------HHHHHhhHhHHHHHHHHHHHHHHH
Confidence            99999999986543       345666777888888888887766

Plant disease resistance (R) genes control the recognition of specific pathogens and activate subsequent defence responses. The R protein-mediated defences typically involve a rapid, localized necrosis, or hypersensitive response (HR), at the site of infection, and the localised formation of antimicrobial chemicals and proteins that restrict growth of the pathogen. The A. thaliana locus Resistance to Powdery Mildew 8 (RPW8) contains two naturally polymorphic, dominant R genes: RPW8.1 and RPW8.2, which individually control resistance to a broad range of powdery mildew pathogens. They induce localised, salicylic acid-dependent defences similar to those induced by R genes that control specific resistance. Apparently, broad-spectrum resistance mediated by RPW8 uses the same mechanisms as specific resistance [, ]. RPW8.1 and RPW8.2 share similarity with an ~150 amino acid module forming the N terminus of a group of disease resistance proteins, which have a nucleotide-binding site (NBS) and leucine-rich repeats (LRRs) [, ]. The RPW8 domain sequences contain a predicted N-terminal transmembrane (TM) region or possibly a signal peptide, and a coiled-coil (CC) motif [].

>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=97.75  E-value=7.3e-05  Score=59.99  Aligned_cols=50  Identities=26%  Similarity=0.420  Sum_probs=35.3

Q ss_pred             CcCCCcChHHHHHHHHHHhc-----CCCceEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          150 DYEAFESRSSTLNNVLRALQ-----DPDVNMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~-----~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      ....++|.+.-+..+.-++.     ++.+.-+-.||++|+||||||.-|.+....
T Consensus        22 ~L~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~~~   76 (233)
T PF05496_consen   22 SLDEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANELGV   76 (233)
T ss_dssp             SCCCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHHCT-
T ss_pred             CHHHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhccCC
Confidence            56789998877766544333     356778899999999999999999998874

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.

>PRK13342 recombination factor protein RarA; Reviewed

Probab=97.73  E-value=9.4e-05  Score=65.65  Aligned_cols=49  Identities=22%  Similarity=0.306  Sum_probs=39.2

Q ss_pred             CcCCCcChHHHHHH---HHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          150 DYEAFESRSSTLNN---VLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       150 ~~~~~~gr~~~~~~---l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....++|.+..+..   +.+++.......+-++|++|+||||||+.+.+...
T Consensus        10 ~l~d~vGq~~~v~~~~~L~~~i~~~~~~~ilL~GppGtGKTtLA~~ia~~~~   61 (413)
T PRK13342         10 TLDEVVGQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLARIIAGATD   61 (413)
T ss_pred             CHHHhcCcHHHhCcchHHHHHHHcCCCceEEEECCCCCCHHHHHHHHHHHhC
Confidence            34567888776555   77777777777888999999999999999998764

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

Probab=97.71  E-value=0.0001  Score=62.81  Aligned_cols=58  Identities=22%  Similarity=0.296  Sum_probs=42.1

Q ss_pred             HHhcCCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHHH
Q 036637          166 RALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADK  227 (250)
Q Consensus       166 ~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~~  227 (250)
                      +++..+.+..+.+||++|+||||||+.+.+..+...    ..||..|.+-.-.+-.+.|+++
T Consensus       155 s~ieq~~ipSmIlWGppG~GKTtlArlia~tsk~~S----yrfvelSAt~a~t~dvR~ife~  212 (554)
T KOG2028|consen  155 SLIEQNRIPSMILWGPPGTGKTTLARLIASTSKKHS----YRFVELSATNAKTNDVRDIFEQ  212 (554)
T ss_pred             HHHHcCCCCceEEecCCCCchHHHHHHHHhhcCCCc----eEEEEEeccccchHHHHHHHHH
Confidence            333456778889999999999999999998887543    6678888665444444555544

>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=97.70  E-value=3.8e-05  Score=55.83  Aligned_cols=24  Identities=50%  Similarity=0.671  Sum_probs=22.0

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhc
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      +|.|.|++|+||||+|+.+.+...
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            689999999999999999998764

...

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

Probab=97.70  E-value=0.00061  Score=57.11  Aligned_cols=77  Identities=21%  Similarity=0.258  Sum_probs=56.0

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCCCCC----eEEEEEcCCCCCHHHHHHHHHHHhCCCCCCC-CHHHHHHHHHH
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFD----QVIFVEVPHIPDIRKIQGEIADKLGLIFFEE-TESGRARSLYN  246 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd----~~~wv~vs~~~~~~~l~~~i~~~l~~~~~~~-~~~~~~~~l~~  246 (250)
                      ...-+.|||-.|.|||++++..+...-....=+    .++.|.....++...+...|+.+++.|.... +......++..
T Consensus        60 Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~IL~~lgaP~~~~~~~~~~~~~~~~  139 (302)
T PF05621_consen   60 RMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYSAILEALGAPYRPRDRVAKLEQQVLR  139 (302)
T ss_pred             CCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHHHHHHHhCcccCCCCCHHHHHHHHHH
Confidence            345678999999999999999987664321111    4667788899999999999999999998653 33343434444


Q ss_pred             Hh
Q 036637          247 RL  248 (250)
Q Consensus       247 ~L  248 (250)
                      .|
T Consensus       140 ll  141 (302)
T PF05621_consen  140 LL  141 (302)
T ss_pred             HH
Confidence            43

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

>PF05729 NACHT: NACHT domain

Probab=97.65  E-value=0.0001  Score=56.34  Aligned_cols=55  Identities=27%  Similarity=0.421  Sum_probs=38.9

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhcCCCC----CCeEEEEEcCCCCCHH---HHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFGRDQF----FDQVIFVEVPHIPDIR---KIQGEIADKL  228 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~v~~~----Fd~~~wv~vs~~~~~~---~l~~~i~~~l  228 (250)
                      +++.|+|.+|+||||+++.++........    |...+|...+......   .+...|..+.
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~   62 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQL   62 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhh
Confidence            57899999999999999999988866543    4567777776544332   3444444443

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=97.64  E-value=7.1e-05  Score=63.61  Aligned_cols=48  Identities=25%  Similarity=0.409  Sum_probs=40.0

Q ss_pred             CCCcChHHHHHHHHHHhc-----CCCceEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          152 EAFESRSSTLNNVLRALQ-----DPDVNMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       152 ~~~~gr~~~~~~l~~~L~-----~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      ..|+|++..++.|..++.     ...+..+-++|++|+|||+||+.+.+....
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            468999999999888876     234566789999999999999999987753

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.

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

Probab=97.60  E-value=0.00062  Score=58.41  Aligned_cols=73  Identities=19%  Similarity=0.300  Sum_probs=62.8

Q ss_pred             CCCcChHHHHHHHHHHhcCCC---ceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHHHh
Q 036637          152 EAFESRSSTLNNVLRALQDPD---VNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKL  228 (250)
Q Consensus       152 ~~~~gr~~~~~~l~~~L~~~~---~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~~l  228 (250)
                      +.+.+|+.+...+..++.+.+   +..+-|.|..|.|||.+++++++.....     .+|+++-..|+..-++..|+.++
T Consensus         6 ~~v~~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~n~~-----~vw~n~~ecft~~~lle~IL~~~   80 (438)
T KOG2543|consen    6 PNVPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKLNLE-----NVWLNCVECFTYAILLEKILNKS   80 (438)
T ss_pred             cCccchHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhcCCc-----ceeeehHHhccHHHHHHHHHHHh
Confidence            467889999999999887554   3445688999999999999999988543     68999999999999999999999


Q ss_pred             C
Q 036637          229 G  229 (250)
Q Consensus       229 ~  229 (250)
                      +
T Consensus        81 ~   81 (438)
T KOG2543|consen   81 Q   81 (438)
T ss_pred             c
Confidence            6

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

Probab=97.60  E-value=0.0022  Score=59.26  Aligned_cols=65  Identities=23%  Similarity=0.380  Sum_probs=50.4

Q ss_pred             cCCCcChHHHHHHHHHHhc------CCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHH
Q 036637          151 YEAFESRSSTLNNVLRALQ------DPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKI  220 (250)
Q Consensus       151 ~~~~~gr~~~~~~l~~~L~------~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l  220 (250)
                      .++.+|+++-++.+++++-      +-+-.+++.+|++|+|||++++.|..-.. ++.|.    ++|+.-.|+.+|
T Consensus       410 deDHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~ALn-RkFfR----fSvGG~tDvAeI  480 (906)
T KOG2004|consen  410 DEDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARALN-RKFFR----FSVGGMTDVAEI  480 (906)
T ss_pred             cccccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHHhC-CceEE----EeccccccHHhh
Confidence            4567899999999999987      34778999999999999999999998775 22332    556665555554

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=97.56  E-value=0.00011  Score=63.25  Aligned_cols=50  Identities=28%  Similarity=0.436  Sum_probs=41.1

Q ss_pred             CcCCCcChHHHHHHHHHHhc-----CCCceEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          150 DYEAFESRSSTLNNVLRALQ-----DPDVNMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~-----~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      ....++|++..++.+..++.     ......+-++|++|+||||||+.+.+....
T Consensus        23 ~~~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l~~   77 (328)
T PRK00080         23 SLDEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEMGV   77 (328)
T ss_pred             CHHHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHhCC
Confidence            55679999999888877665     334667889999999999999999988753

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=97.53  E-value=0.0016  Score=61.91  Aligned_cols=97  Identities=15%  Similarity=0.113  Sum_probs=65.7

Q ss_pred             cCCCcChHHHHHHHHHHhc----CCC-ceEEEEEccCCCCHHHHHHHHHHHhcCC---CCCC--eEEEEEcCCCCCHHHH
Q 036637          151 YEAFESRSSTLNNVLRALQ----DPD-VNMVGIYGMGGIGKTTLAKEVAIQFGRD---QFFD--QVIFVEVPHIPDIRKI  220 (250)
Q Consensus       151 ~~~~~gr~~~~~~l~~~L~----~~~-~~vi~I~G~gGvGKTtLa~~v~~~~~v~---~~Fd--~~~wv~vs~~~~~~~l  220 (250)
                      ++.+.||+.+.+.|..+|.    ..+ ..++-|.|.+|.|||+.++.|.+..+..   ....  ..++|....-.+...+
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            4568899999999988877    233 3577899999999999999998776321   1222  2455655555678888


Q ss_pred             HHHHHHHhCC-CC-CCCCHHHHHHHHHHH
Q 036637          221 QGEIADKLGL-IF-FEETESGRARSLYNR  247 (250)
Q Consensus       221 ~~~i~~~l~~-~~-~~~~~~~~~~~l~~~  247 (250)
                      +..|+.+|.. .. ...+..+..+.+...
T Consensus       834 YqvI~qqL~g~~P~~GlsS~evLerLF~~  862 (1164)
T PTZ00112        834 YQVLYKQLFNKKPPNALNSFKILDRLFNQ  862 (1164)
T ss_pred             HHHHHHHHcCCCCCccccHHHHHHHHHhh
Confidence            8889888832 22 233444455555443

>smart00763 AAA_PrkA PrkA AAA domain

Probab=97.52  E-value=0.00017  Score=62.00  Aligned_cols=79  Identities=11%  Similarity=0.157  Sum_probs=55.5

Q ss_pred             CCcChHHHHHHHHHHhcC------CCceEEEEEccCCCCHHHHHHHHHHHhcCC-----CCCCeEEE----EEcCCCC--
Q 036637          153 AFESRSSTLNNVLRALQD------PDVNMVGIYGMGGIGKTTLAKEVAIQFGRD-----QFFDQVIF----VEVPHIP--  215 (250)
Q Consensus       153 ~~~gr~~~~~~l~~~L~~------~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~-----~~Fd~~~w----v~vs~~~--  215 (250)
                      .++|.++.++++++++.+      ...+++.++|++|+||||||+.+.+....-     +.|=..-|    ..+-..|  
T Consensus        52 ~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l~~ys~t~eG~~Y~~~~~~~~sp~~e~Pl~  131 (361)
T smart00763       52 DFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGLEEYSKTPEGRRYTFKWNGEESPMHEDPLH  131 (361)
T ss_pred             hccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHHhhhcccccCceEEEEecCCCCCCccCCcc
Confidence            688999999999999872      346889999999999999999999888642     23334444    2222222  


Q ss_pred             -CHHHHHHHHHHHhCCC
Q 036637          216 -DIRKIQGEIADKLGLI  231 (250)
Q Consensus       216 -~~~~l~~~i~~~l~~~  231 (250)
                       -+.+.-..+.+.++.+
T Consensus       132 l~p~~~r~~~~~~~~~~  148 (361)
T smart00763      132 LFPDELREDLEDEYGIP  148 (361)
T ss_pred             cCCHHHHHHHHHHhCCC
Confidence             3445555566677654

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

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

Probab=97.46  E-value=0.00037  Score=60.16  Aligned_cols=49  Identities=24%  Similarity=0.335  Sum_probs=35.3

Q ss_pred             CcCCCcChHHHH---HHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          150 DYEAFESRSSTL---NNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       150 ~~~~~~gr~~~~---~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....++|.+.-+   .-|-.++...++.-.-.||++|+||||||+.|-....
T Consensus        22 ~lde~vGQ~HLlg~~~~lrr~v~~~~l~SmIl~GPPG~GKTTlA~liA~~~~   73 (436)
T COG2256          22 SLDEVVGQEHLLGEGKPLRRAVEAGHLHSMILWGPPGTGKTTLARLIAGTTN   73 (436)
T ss_pred             CHHHhcChHhhhCCCchHHHHHhcCCCceeEEECCCCCCHHHHHHHHHHhhC
Confidence            344566654322   3344555567888888999999999999999997665

>PRK06696 uridine kinase; Validated

Probab=97.42  E-value=0.00028  Score=57.23  Aligned_cols=42  Identities=26%  Similarity=0.296  Sum_probs=34.0

Q ss_pred             hHHHHHHHHHHhc---CCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          157 RSSTLNNVLRALQ---DPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       157 r~~~~~~l~~~L~---~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      |..-+++|.+.+.   ...+.+|+|.|.+|+||||||+.+.+...
T Consensus         3 ~~~~~~~la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~~~l~   47 (223)
T PRK06696          3 RKQLIKELAEHILTLNLTRPLRVAIDGITASGKTTFADELAEEIK   47 (223)
T ss_pred             HHHHHHHHHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4555667777665   45788999999999999999999998764

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=97.39  E-value=0.00058  Score=55.25  Aligned_cols=55  Identities=13%  Similarity=0.201  Sum_probs=40.4

Q ss_pred             hHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCC
Q 036637          157 RSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPH  213 (250)
Q Consensus       157 r~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~  213 (250)
                      ....++.+.+++.......+-++|..|+||||||+.+++....  .....++++++.
T Consensus        22 ~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la~~~~~~~~~--~~~~~~~i~~~~   76 (226)
T TIGR03420        22 NAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAAEE--RGKSAIYLPLAE   76 (226)
T ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHHHh--cCCcEEEEeHHH
Confidence            4556777777766667788899999999999999999987642  233455665543

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.

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.39  E-value=0.00024  Score=53.80  Aligned_cols=28  Identities=32%  Similarity=0.402  Sum_probs=24.4

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcCC
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGRD  200 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v~  200 (250)
                      ..-|.|.||+|+||||+++.+.+..+..
T Consensus         5 ~mki~ITG~PGvGKtTl~~ki~e~L~~~   32 (179)
T COG1618           5 AMKIFITGRPGVGKTTLVLKIAEKLREK   32 (179)
T ss_pred             ceEEEEeCCCCccHHHHHHHHHHHHHhc
Confidence            3468999999999999999999888754

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=97.37  E-value=0.00032  Score=65.29  Aligned_cols=63  Identities=22%  Similarity=0.328  Sum_probs=48.4

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCC---eEEEEEcC
Q 036637          150 DYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFD---QVIFVEVP  212 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd---~~~wv~vs  212 (250)
                      ..+.++|++.....+++.+.......+.|+|.+|+||||||+.+++.......+.   ..-|+.+.
T Consensus       152 ~~~~iiGqs~~~~~l~~~ia~~~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~  217 (615)
T TIGR02903       152 AFSEIVGQERAIKALLAKVASPFPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVD  217 (615)
T ss_pred             cHHhceeCcHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEEe
Confidence            3456789988888888888767777899999999999999999998875444432   34566654

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.

>PRK07667 uridine kinase; Provisional

Probab=97.29  E-value=0.00044  Score=54.85  Aligned_cols=38  Identities=21%  Similarity=0.399  Sum_probs=30.0

Q ss_pred             HHHHHHHhc--CCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          161 LNNVLRALQ--DPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       161 ~~~l~~~L~--~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .+.+++.+.  ..+..+|+|.|.+|+||||+++.+.....
T Consensus         3 ~~~~~~~~~~~~~~~~iIgI~G~~gsGKStla~~L~~~l~   42 (193)
T PRK07667          3 TNELINIMKKHKENRFILGIDGLSRSGKTTFVANLKENMK   42 (193)
T ss_pred             HHHHHHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            345566665  34567999999999999999999998764

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=97.27  E-value=0.00042  Score=62.98  Aligned_cols=46  Identities=15%  Similarity=0.304  Sum_probs=41.1

Q ss_pred             CCcChHHHHHHHHHHhc------CCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          153 AFESRSSTLNNVLRALQ------DPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       153 ~~~gr~~~~~~l~~~L~------~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .++|.++.++++++.|.      +....++.++|++|+||||||+.+.+-.+
T Consensus        77 d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~le  128 (644)
T PRK15455         77 EFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSLME  128 (644)
T ss_pred             cccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHHHH
Confidence            57899999999999993      56678999999999999999999998775

>PF13173 AAA_14: AAA domain

Probab=97.27  E-value=0.00047  Score=50.80  Aligned_cols=40  Identities=23%  Similarity=0.367  Sum_probs=32.5

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCC
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIP  215 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~  215 (250)
                      .+++.|.|+.|+|||||+++++.+..   ....++|++.....
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~~---~~~~~~yi~~~~~~   41 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDLL---PPENILYINFDDPR   41 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhc---ccccceeeccCCHH
Confidence            46889999999999999999998875   34567888776553

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

Probab=97.26  E-value=0.00046  Score=63.60  Aligned_cols=48  Identities=23%  Similarity=0.331  Sum_probs=41.2

Q ss_pred             cCCCcChHHHHHHHHHHhc----CC--CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          151 YEAFESRSSTLNNVLRALQ----DP--DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       151 ~~~~~gr~~~~~~l~~~L~----~~--~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ..+.+|.+.-+++|+++|-    .+  .-.++++||++|+|||+|++.|.+-..
T Consensus       322 d~dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al~  375 (782)
T COG0466         322 DKDHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKALG  375 (782)
T ss_pred             cccccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHHhC
Confidence            4567899999999999987    22  456999999999999999999998775

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=97.26  E-value=0.0018  Score=55.22  Aligned_cols=49  Identities=16%  Similarity=0.213  Sum_probs=41.5

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          150 DYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....++|++..++.+..++.......+-++|..|+||||+++.+.+...
T Consensus        15 ~~~~~~g~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l~   63 (319)
T PRK00440         15 TLDEIVGQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELY   63 (319)
T ss_pred             cHHHhcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHc
Confidence            3456789999999999988776666679999999999999999988764

>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=97.25  E-value=0.00099  Score=52.95  Aligned_cols=58  Identities=21%  Similarity=0.267  Sum_probs=40.2

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcC-CCCCHHHHHHHHHHHhCCCC
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVP-HIPDIRKIQGEIADKLGLIF  232 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs-~~~~~~~l~~~i~~~l~~~~  232 (250)
                      ++||.++|+.|+||||.+-++......+  =..+..++.. ......+=++..++.++.+.
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~~~~--~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~   59 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARLKLK--GKKVALISADTYRIGAVEQLKTYAEILGVPF   59 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHHHHT--T--EEEEEESTSSTHHHHHHHHHHHHHTEEE
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHHhhc--cccceeecCCCCCccHHHHHHHHHHHhcccc
Confidence            5799999999999999887777777644  2345556543 22344555788888888774

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 ....

>PRK06547 hypothetical protein; Provisional

Probab=97.24  E-value=0.00068  Score=52.72  Aligned_cols=37  Identities=35%  Similarity=0.295  Sum_probs=29.8

Q ss_pred             HHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          163 NVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       163 ~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      .+...+......+|+|.|.+|+||||+++.+.+...+
T Consensus         5 ~~~~~~~~~~~~~i~i~G~~GsGKTt~a~~l~~~~~~   41 (172)
T PRK06547          5 LIAARLCGGGMITVLIDGRSGSGKTTLAGALAARTGF   41 (172)
T ss_pred             HHHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            3444455677889999999999999999999887543

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=97.24  E-value=0.00048  Score=59.20  Aligned_cols=49  Identities=20%  Similarity=0.306  Sum_probs=41.0

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          150 DYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....++|++..++.+..++..+....+-++|..|+||||+|+.+.+...
T Consensus        13 ~~~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l~   61 (337)
T PRK12402         13 LLEDILGQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELY   61 (337)
T ss_pred             cHHHhcCCHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhc
Confidence            3456789999999999988876655678999999999999999987764

>PLN03025 replication factor C subunit; Provisional

Probab=97.23  E-value=0.0015  Score=56.06  Aligned_cols=49  Identities=16%  Similarity=0.182  Sum_probs=39.3

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          150 DYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....++|.+..++.|..++......-+-++|.+|+||||+|+.+.+...
T Consensus        11 ~l~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l~   59 (319)
T PLN03025         11 KLDDIVGNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELL   59 (319)
T ss_pred             CHHHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHh
Confidence            4456788888888888877766555567999999999999999988763

>PRK05480 uridine/cytidine kinase; Provisional

Probab=97.22  E-value=0.0004  Score=55.70  Aligned_cols=28  Identities=32%  Similarity=0.424  Sum_probs=25.0

Q ss_pred             CCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          170 DPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       170 ~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .....+|+|+|.+|+|||||++.++...
T Consensus         3 ~~~~~iI~I~G~sGsGKTTl~~~l~~~l   30 (209)
T PRK05480          3 MKKPIIIGIAGGSGSGKTTVASTIYEEL   30 (209)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            3467899999999999999999999876

>PRK04195 replication factor C large subunit; Provisional

Probab=97.21  E-value=0.00083  Score=60.88  Aligned_cols=49  Identities=20%  Similarity=0.331  Sum_probs=41.1

Q ss_pred             CcCCCcChHHHHHHHHHHhcCC----CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          150 DYEAFESRSSTLNNVLRALQDP----DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~----~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....++|.+..++.|.+|+...    ..+.+-|+|++|+||||+|+.+.+...
T Consensus        12 ~l~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el~   64 (482)
T PRK04195         12 TLSDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDYG   64 (482)
T ss_pred             CHHHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHcC
Confidence            4556889999999998888632    267889999999999999999998874

>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=97.20  E-value=0.00035  Score=51.03  Aligned_cols=22  Identities=55%  Similarity=0.847  Sum_probs=20.1

Q ss_pred             EEEEccCCCCHHHHHHHHHHHh
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      |.|.|..|+||||+|+.+....
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            6899999999999999998873

...

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=97.20  E-value=0.0043  Score=53.03  Aligned_cols=76  Identities=21%  Similarity=0.317  Sum_probs=55.9

Q ss_pred             CCCcChHHHHHHHHHHhcCCC-ceEEEEEccCCCCHHHHHHHHHHHhc----CCCCCCeEEEEE-cCCCCCHHHHHHHHH
Q 036637          152 EAFESRSSTLNNVLRALQDPD-VNMVGIYGMGGIGKTTLAKEVAIQFG----RDQFFDQVIFVE-VPHIPDIRKIQGEIA  225 (250)
Q Consensus       152 ~~~~gr~~~~~~l~~~L~~~~-~~vi~I~G~gGvGKTtLa~~v~~~~~----v~~~Fd~~~wv~-vs~~~~~~~l~~~i~  225 (250)
                      ..++|.+..++.+.+++..+. .+..-++|+.|+||||+|+.++....    ...|+|...|.. -+....+.++ +++.
T Consensus         4 ~~i~g~~~~~~~l~~~~~~~~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~i-r~~~   82 (313)
T PRK05564          4 HTIIGHENIKNRIKNSIIKNRFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDDI-RNII   82 (313)
T ss_pred             hhccCcHHHHHHHHHHHHcCCCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHHH-HHHH
Confidence            357788888999999887554 56778999999999999999988542    235778877776 3455666664 4455


Q ss_pred             HHh
Q 036637          226 DKL  228 (250)
Q Consensus       226 ~~l  228 (250)
                      +.+
T Consensus        83 ~~~   85 (313)
T PRK05564         83 EEV   85 (313)
T ss_pred             HHH
Confidence            544

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

Probab=97.18  E-value=0.00035  Score=55.37  Aligned_cols=25  Identities=48%  Similarity=0.716  Sum_probs=23.1

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      ||+|.|.+|+||||+|+.+..-...
T Consensus         1 IIgI~G~sgSGKTTla~~L~~~L~~   25 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQILNK   25 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHTT
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhCc
Confidence            7999999999999999999988864

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 ....

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

Probab=97.17  E-value=0.00078  Score=55.71  Aligned_cols=51  Identities=24%  Similarity=0.404  Sum_probs=42.3

Q ss_pred             CcCCCcChHHHHHHHHHHhc-----CCCceEEEEEccCCCCHHHHHHHHHHHhcCC
Q 036637          150 DYEAFESRSSTLNNVLRALQ-----DPDVNMVGIYGMGGIGKTTLAKEVAIQFGRD  200 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~-----~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~  200 (250)
                      ....++|.+.-+++|-=++.     ++.+.-+-++|++|.||||||.-|.+...+.
T Consensus        24 ~l~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~Emgvn   79 (332)
T COG2255          24 TLDEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANELGVN   79 (332)
T ss_pred             cHHHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHHhcCC
Confidence            45678999887777665555     5678899999999999999999999998764

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=97.14  E-value=0.0024  Score=53.69  Aligned_cols=61  Identities=20%  Similarity=0.199  Sum_probs=39.0

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCC-CCCCeEEEEEcCC-CCCHHHHHHHHHHHhCCCCC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRD-QFFDQVIFVEVPH-IPDIRKIQGEIADKLGLIFF  233 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~-~~Fd~~~wv~vs~-~~~~~~l~~~i~~~l~~~~~  233 (250)
                      ..+++.++|..|+||||++..+......+ +.+ .+..|+... .....+-+..-...++.+..
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~-~V~li~~D~~r~~a~eql~~~~~~~~~p~~  255 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAARFVLEHGNK-KVALITTDTYRIGAVEQLKTYAKILGVPVK  255 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHHcCCC-eEEEEECCccchhHHHHHHHHHHHhCCcee
Confidence            46799999999999999999988766433 223 344454432 12233444555666777754

>CHL00095 clpC Clp protease ATP binding subunit

Probab=97.14  E-value=0.00068  Score=65.33  Aligned_cols=48  Identities=23%  Similarity=0.327  Sum_probs=40.5

Q ss_pred             cCCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          151 YEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       151 ~~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ...++||+.+.+.+++.|......-+.++|.+|+|||++|+.+.....
T Consensus       178 ~~~~igr~~ei~~~~~~L~r~~~~n~lL~G~pGvGKTal~~~la~~i~  225 (821)
T CHL00095        178 LDPVIGREKEIERVIQILGRRTKNNPILIGEPGVGKTAIAEGLAQRIV  225 (821)
T ss_pred             CCCCCCcHHHHHHHHHHHcccccCCeEEECCCCCCHHHHHHHHHHHHH
Confidence            356899999999999999865555557999999999999999987753

>PRK08233 hypothetical protein; Provisional

Probab=97.13  E-value=0.00047  Score=53.73  Aligned_cols=26  Identities=27%  Similarity=0.454  Sum_probs=23.3

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ..+|+|.|.+|+||||||+.+.....
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~l~   28 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHKLK   28 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhCC
Confidence            47899999999999999999997764

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=97.13  E-value=0.005  Score=50.13  Aligned_cols=29  Identities=34%  Similarity=0.462  Sum_probs=25.4

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      ....+++|.|..|+|||||++.+..-...
T Consensus        31 ~~~~iigi~G~~GsGKTTl~~~L~~~l~~   59 (229)
T PRK09270         31 QRRTIVGIAGPPGAGKSTLAEFLEALLQQ   59 (229)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHhhh
Confidence            56789999999999999999999877653

>TIGR00235 udk uridine kinase

Probab=97.12  E-value=0.00049  Score=55.16  Aligned_cols=27  Identities=41%  Similarity=0.585  Sum_probs=23.9

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ...+|+|+|.+|+|||||++.+.....
T Consensus         5 ~g~vi~I~G~sGsGKSTl~~~l~~~l~   31 (207)
T TIGR00235         5 KGIIIGIGGGSGSGKTTVARKIYEQLG   31 (207)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            457999999999999999999997654

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

>PHA00729 NTP-binding motif containing protein

Probab=97.10  E-value=0.00087  Score=54.12  Aligned_cols=36  Identities=31%  Similarity=0.398  Sum_probs=29.9

Q ss_pred             HHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          162 NNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       162 ~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .++++.+.+.+...|.|+|.+|+||||||..+.+..
T Consensus         6 k~~~~~l~~~~f~nIlItG~pGvGKT~LA~aLa~~l   41 (226)
T PHA00729          6 KKIVSAYNNNGFVSAVIFGKQGSGKTTYALKVARDV   41 (226)
T ss_pred             HHHHHHHhcCCeEEEEEECCCCCCHHHHHHHHHHHH
Confidence            445666667777789999999999999999998874

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=97.09  E-value=0.00093  Score=64.43  Aligned_cols=48  Identities=19%  Similarity=0.337  Sum_probs=41.3

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          150 DYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..+.++||+.++..+++.|......-+-++|.+|+||||+|+.+....
T Consensus       185 ~ld~~iGr~~ei~~~i~~l~r~~~~n~lLvG~pGvGKTal~~~La~~i  232 (852)
T TIGR03345       185 KIDPVLGRDDEIRQMIDILLRRRQNNPILTGEAGVGKTAVVEGLALRI  232 (852)
T ss_pred             CCCcccCCHHHHHHHHHHHhcCCcCceeEECCCCCCHHHHHHHHHHHH
Confidence            356789999999999998886665566799999999999999998875

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.

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=97.09  E-value=0.00089  Score=55.06  Aligned_cols=64  Identities=25%  Similarity=0.232  Sum_probs=43.5

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEE-------EEEcCCCCCHHHH--HHHHHHHhCCCCCC
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVI-------FVEVPHIPDIRKI--QGEIADKLGLIFFE  234 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~-------wv~vs~~~~~~~l--~~~i~~~l~~~~~~  234 (250)
                      +.+.+|-++||+|+||||.++.++.+...++.=..++       =|..+-+.|+++-  .+..++|.++..++
T Consensus        17 ~~p~~ilVvGMAGSGKTTF~QrL~~hl~~~~~ppYviNLDPAv~~vpy~aniDIRDtVkYkEvMkqY~LGPNG   89 (366)
T KOG1532|consen   17 QRPVIILVVGMAGSGKTTFMQRLNSHLHAKKTPPYVINLDPAVRNVPYPANIDIRDTVKYKEVMKQYQLGPNG   89 (366)
T ss_pred             cCCcEEEEEecCCCCchhHHHHHHHHHhhccCCCeEEeCCHHHhcCCCccCCchhhhhhHHHHHHHhCCCCCc
Confidence            3577889999999999999999998887543211111       1122234567766  47888888877663

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=97.08  E-value=0.00099  Score=50.53  Aligned_cols=45  Identities=33%  Similarity=0.521  Sum_probs=37.0

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhCCCC
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGLIF  232 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~~l~~~~  232 (250)
                      +|.|.|.+|+||||+|+.+.++....             -.+--.++++++...|++.
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~gl~-------------~vsaG~iFR~~A~e~gmsl   46 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHLGLK-------------LVSAGTIFREMARERGMSL   46 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHhCCc-------------eeeccHHHHHHHHHcCCCH
Confidence            68999999999999999999998753             1234578889999988874

>PRK06762 hypothetical protein; Provisional

Probab=97.08  E-value=0.00059  Score=52.55  Aligned_cols=25  Identities=36%  Similarity=0.547  Sum_probs=22.4

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      +.+|.|+|++|+||||+|+.+.+..
T Consensus         2 ~~li~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          2 TTLIIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4688999999999999999998775

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

Probab=97.05  E-value=0.0011  Score=63.07  Aligned_cols=78  Identities=17%  Similarity=0.291  Sum_probs=54.4

Q ss_pred             cCCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhc---CCCCC-CeEEEE-EcC-----CCC--CHH
Q 036637          151 YEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFG---RDQFF-DQVIFV-EVP-----HIP--DIR  218 (250)
Q Consensus       151 ~~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~---v~~~F-d~~~wv-~vs-----~~~--~~~  218 (250)
                      .+.++||+.+.+.+++.|......-+.++|.+|+|||++|+.+.....   +...+ ++.+|. ..+     ..+  ..+
T Consensus       181 l~~~igr~~ei~~~~~~L~~~~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~~~~~l~a~~~~~g~~e  260 (731)
T TIGR02639       181 IDPLIGREDELERTIQVLCRRKKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSLDMGSLLAGTKYRGDFE  260 (731)
T ss_pred             CCcccCcHHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEecHHHHhhhccccchHH
Confidence            457899999999999988866555567999999999999999998763   22222 455554 221     111  445


Q ss_pred             HHHHHHHHHh
Q 036637          219 KIQGEIADKL  228 (250)
Q Consensus       219 ~l~~~i~~~l  228 (250)
                      +-++.+++.+
T Consensus       261 ~~l~~i~~~~  270 (731)
T TIGR02639       261 ERLKAVVSEI  270 (731)
T ss_pred             HHHHHHHHHH
Confidence            5666666654

>PRK05541 adenylylsulfate kinase; Provisional

Probab=97.04  E-value=0.001  Score=51.79  Aligned_cols=37  Identities=32%  Similarity=0.543  Sum_probs=28.8

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEE
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFV  209 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv  209 (250)
                      ....+|.++|+.|+||||+++.+++....  .+...+++
T Consensus         5 ~~~~~I~i~G~~GsGKst~a~~l~~~l~~--~~~~~~~~   41 (176)
T PRK05541          5 PNGYVIWITGLAGSGKTTIAKALYERLKL--KYSNVIYL   41 (176)
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHHHHHHH--cCCcEEEE
Confidence            35569999999999999999999988753  34444444

>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=97.04  E-value=0.00068  Score=50.62  Aligned_cols=24  Identities=42%  Similarity=0.654  Sum_probs=21.1

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhc
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      +|-++|++|+||||+|+.+.....
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            578999999999999999986654

...

>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars

Probab=96.99  E-value=0.00078  Score=43.95  Aligned_cols=23  Identities=43%  Similarity=0.654  Sum_probs=20.9

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      +|.|.|..|+||||+++.+.+..
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999999884

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.

>PRK03839 putative kinase; Provisional

Probab=96.98  E-value=0.00082  Score=52.52  Aligned_cols=25  Identities=40%  Similarity=0.670  Sum_probs=22.4

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      .|.|+|++|+||||+++.+.+....
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~~~   26 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKLGY   26 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCC
Confidence            4889999999999999999988753

>PTZ00301 uridine kinase; Provisional

Probab=96.98  E-value=0.00082  Score=53.99  Aligned_cols=25  Identities=28%  Similarity=0.654  Sum_probs=22.0

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..+|+|.|.+|+||||||+.+.+..
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~~l   27 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVSEL   27 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHHHH
Confidence            4689999999999999999887654

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=96.98  E-value=0.0013  Score=56.14  Aligned_cols=48  Identities=19%  Similarity=0.144  Sum_probs=40.5

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCC-ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          150 DYEAFESRSSTLNNVLRALQDPD-VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~-~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ....++|.+...+.+..++.... .+++-++|.+|+||||+|+.+++..
T Consensus        19 ~~~~~~~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~~   67 (316)
T PHA02544         19 TIDECILPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEV   67 (316)
T ss_pred             cHHHhcCcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHHh
Confidence            45678899999999999887554 5677789999999999999999875

>PRK04040 adenylate kinase; Provisional

Probab=96.95  E-value=0.00087  Score=52.91  Aligned_cols=47  Identities=26%  Similarity=0.424  Sum_probs=33.6

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhCC
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGL  230 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~~l~~  230 (250)
                      ..+|.|+|++|+||||+++.+......  .|.+   +      +..+++..++...|+
T Consensus         2 ~~~i~v~G~pG~GKtt~~~~l~~~l~~--~~~~---~------~~g~~~~~~a~~~g~   48 (188)
T PRK04040          2 MKVVVVTGVPGVGKTTVLNKALEKLKE--DYKI---V------NFGDVMLEVAKEEGL   48 (188)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHhcc--CCeE---E------ecchHHHHHHHHcCC
Confidence            468999999999999999999887631  1222   2      335566677766665

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

Probab=96.95  E-value=0.0012  Score=62.44  Aligned_cols=49  Identities=33%  Similarity=0.449  Sum_probs=38.0

Q ss_pred             CcCCCcChHHHHH---HHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          150 DYEAFESRSSTLN---NVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       150 ~~~~~~gr~~~~~---~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....++|.+..+.   .+.+.+..+....+-++|++|+||||||+.+++...
T Consensus        26 tldd~vGQe~ii~~~~~L~~~i~~~~~~slLL~GPpGtGKTTLA~aIA~~~~   77 (725)
T PRK13341         26 TLEEFVGQDHILGEGRLLRRAIKADRVGSLILYGPPGVGKTTLARIIANHTR   77 (725)
T ss_pred             cHHHhcCcHHHhhhhHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHhc
Confidence            4456788877653   455666667777778999999999999999998764

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=96.92  E-value=0.0055  Score=54.59  Aligned_cols=60  Identities=25%  Similarity=0.350  Sum_probs=41.3

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCC--CHHHHHHHHHHHhCCCCC
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIP--DIRKIQGEIADKLGLIFF  233 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~--~~~~l~~~i~~~l~~~~~  233 (250)
                      ..+.+|.++|.+|+||||.+..+....... .+ .+..|+. .++  ...+-++.+..+++.+..
T Consensus        93 ~~p~vI~lvG~~GsGKTTtaakLA~~L~~~-g~-kV~lV~~-D~~R~aa~eQL~~la~~~gvp~~  154 (437)
T PRK00771         93 LKPQTIMLVGLQGSGKTTTAAKLARYFKKK-GL-KVGLVAA-DTYRPAAYDQLKQLAEKIGVPFY  154 (437)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHHHHc-CC-eEEEecC-CCCCHHHHHHHHHHHHHcCCcEE
Confidence            357899999999999999999998777532 23 2333333 233  335557778888887643

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=96.91  E-value=0.00074  Score=53.64  Aligned_cols=23  Identities=48%  Similarity=0.731  Sum_probs=21.0

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      +|+|.|..|+|||||++.+..-.
T Consensus         1 iigi~G~~GsGKSTl~~~l~~~l   23 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIEQL   23 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999998765

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.

>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=96.90  E-value=0.0029  Score=47.12  Aligned_cols=43  Identities=35%  Similarity=0.445  Sum_probs=32.6

Q ss_pred             EEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHH
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGE  223 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~  223 (250)
                      |-++|.+|+|||+||+.+.....     ....-+.++...+..+++..
T Consensus         2 vlL~G~~G~GKt~l~~~la~~~~-----~~~~~i~~~~~~~~~dl~g~   44 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAALLG-----RPVIRINCSSDTTEEDLIGS   44 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHHHT-----CEEEEEE-TTTSTHHHHHCE
T ss_pred             EEEECCCCCCHHHHHHHHHHHhh-----cceEEEEeccccccccceee
Confidence            56899999999999999998873     13445677787888877643

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.

>PF12061 DUF3542: Protein of unknown function (DUF3542); InterPro: IPR021929 R1 is a gene for resistance to late blight, the most destructive disease in potato cultivation worldwide

Probab=96.90  E-value=0.0044  Score=51.85  Aligned_cols=102  Identities=10%  Similarity=-0.004  Sum_probs=68.8

Q ss_pred             hchhhhhhhHccc-hhhHHHHHHHHHHHHHhHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHHHHHhhhhhhhhcc
Q 036637           18 RPTERQLSFVRNY-RSNFENLKTELEKLKDDGASMQHGVDEGRRKGEEIEKNVEKWLASVNNIITEAEKFTGDADKANKR   96 (250)
Q Consensus        18 ~~~~~~~~~l~~~-~~~~~~l~~~l~~L~~~l~~~~~~l~~a~~~~~~~~~~~~~wl~~l~~~~~d~ed~ld~~~~~~~~   96 (250)
                      ..+.+.+..+.++ .+....++.+++-++.+++.++.||...-..+.........+..++...||++|.++|.+.....+
T Consensus       299 dFlL~NLkdfq~rysdSlaflKnQiqvIQ~elesLqpFLk~V~ee~~nkh~~~ed~a~~ii~kAyevEYVVDaCi~k~~P  378 (402)
T PF12061_consen  299 DFLLKNLKDFQGRYSDSLAFLKNQIQVIQTELESLQPFLKHVVEEPHNKHDTNEDCATQIIRKAYEVEYVVDACISKSVP  378 (402)
T ss_pred             HHHHhhHHHHhccccchHHHHHHHHHHHHHHHHHhhHHHHHHHhccchhhhhhhhHHHHHHHHHhheeeeeehhhcCCCc
Confidence            3444445544443 355678899999999999999999998743323344559999999999999999999998655432


Q ss_pred             cccccCcChhHHHHHHHHHHHHHHHHH
Q 036637           97 CFMGLCPNLKTRHRFSKEAVRQQKAIV  123 (250)
Q Consensus        97 ~~~~~~~~~~~~~~~~~~i~~~~~~l~  123 (250)
                      .+.    ..++.+.+..+|.-++++++
T Consensus       379 ~Wc----l~~WL~dIieei~~ik~~i~  401 (402)
T PF12061_consen  379 HWC----LERWLLDIIEEITCIKAKIQ  401 (402)
T ss_pred             HHH----HHHHHHHHHHHHHHHHHHhc
Confidence            211    02334445555555555543

The R1 gene belongs to the class of plant genes for pathogen resistance that have a leucine zipper motif, a putative nucleotide binding domain and a leucine-rich repeat domain []. Most proteins matching this entry are found associated with PF00931 from PFAM.

>PRK10865 protein disaggregation chaperone; Provisional

Probab=96.90  E-value=0.0018  Score=62.65  Aligned_cols=47  Identities=21%  Similarity=0.356  Sum_probs=40.5

Q ss_pred             cCCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          151 YEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       151 ~~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .+.++||+.++..+++.|......-+-++|.+|+||||||+.+....
T Consensus       177 l~~vigr~~ei~~~i~iL~r~~~~n~lL~G~pGvGKT~l~~~la~~i  223 (857)
T PRK10865        177 LDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRI  223 (857)
T ss_pred             CCcCCCCHHHHHHHHHHHhcCCcCceEEECCCCCCHHHHHHHHHHHh
Confidence            45789999999999998886655566699999999999999988776

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.89  E-value=0.0017  Score=58.48  Aligned_cols=49  Identities=20%  Similarity=0.310  Sum_probs=39.7

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCCc-eEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          150 DYEAFESRSSTLNNVLRALQDPDV-NMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~~-~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....++|.+.....|...+.++.+ +.+-++|++|+||||+|+.+.+...
T Consensus        12 ~~~divGq~~i~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~~lA~~l~   61 (472)
T PRK14962         12 TFSEVVGQDHVKKLIINALKKNSISHAYIFAGPRGTGKTTVARILAKSLN   61 (472)
T ss_pred             CHHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            445688988888888887776665 5688999999999999999977653

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=96.88  E-value=0.0011  Score=51.97  Aligned_cols=26  Identities=23%  Similarity=0.392  Sum_probs=22.9

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      +..+|.|+|++|+||||+++.+....
T Consensus         2 ~~~ii~i~G~~GsGKsTl~~~l~~~~   27 (188)
T TIGR01360         2 KCKIIFIVGGPGSGKGTQCEKIVEKY   27 (188)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            35689999999999999999998665

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.

>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=96.87  E-value=0.0011  Score=48.60  Aligned_cols=23  Identities=43%  Similarity=0.595  Sum_probs=21.1

Q ss_pred             EEEEccCCCCHHHHHHHHHHHhc
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      |-++|.+|+||||+|+.+.+...
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~   23 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLG   23 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTT
T ss_pred             CEEECcCCCCeeHHHHHHHhhcc
Confidence            56899999999999999999975

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 ....

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.87  E-value=0.0062  Score=55.75  Aligned_cols=48  Identities=27%  Similarity=0.436  Sum_probs=39.5

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCCc-eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          150 DYEAFESRSSTLNNVLRALQDPDV-NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~~-~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ....++|.+..+..|..++..+.+ +.+-++|+.|+||||+|+.+.+..
T Consensus        14 ~f~diiGq~~~v~~L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~lAk~L   62 (546)
T PRK14957         14 SFAEVAGQQHALNSLVHALETQKVHHAYLFTGTRGVGKTTLGRLLAKCL   62 (546)
T ss_pred             cHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            445688999999999988876544 567899999999999999998754

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=96.85  E-value=0.0019  Score=56.34  Aligned_cols=49  Identities=31%  Similarity=0.400  Sum_probs=39.0

Q ss_pred             CcCCCcChHHHHHHHHHHhc----C---------CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          150 DYEAFESRSSTLNNVLRALQ----D---------PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~----~---------~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....+.|++..++.|.+.+.    .         ..++-+.++|++|+|||+||+.+++...
T Consensus       120 ~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~  181 (364)
T TIGR01242       120 SYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETN  181 (364)
T ss_pred             CHHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCC
Confidence            34568899999999888764    1         1245588999999999999999998765

Many proteins may score above the trusted cutoff because an internal

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=96.85  E-value=0.0013  Score=51.10  Aligned_cols=25  Identities=28%  Similarity=0.360  Sum_probs=22.8

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..++.|.|+.|+|||||++.++++.
T Consensus         4 G~l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           4 GLLIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhc
Confidence            4578999999999999999999887

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.84  E-value=0.0024  Score=55.73  Aligned_cols=49  Identities=18%  Similarity=0.245  Sum_probs=40.6

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCC-ceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          150 DYEAFESRSSTLNNVLRALQDPD-VNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~-~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....++|.+..++.+.+.+..+. .+.+-++|+.|+||||+|+.+.+...
T Consensus        14 ~~~~iiGq~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla~~la~~l~   63 (363)
T PRK14961         14 YFRDIIGQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKSLN   63 (363)
T ss_pred             chhhccChHHHHHHHHHHHHcCCCCeEEEEecCCCCCHHHHHHHHHHHhc
Confidence            44568899999999988887654 46778999999999999999987664

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.84  E-value=0.0015  Score=59.25  Aligned_cols=49  Identities=22%  Similarity=0.338  Sum_probs=40.3

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCCc-eEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          150 DYEAFESRSSTLNNVLRALQDPDV-NMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~~-~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....++|.+..++.|..++..+.+ +.+-++|++|+||||+|+.+.+...
T Consensus        12 ~~~dvvGq~~v~~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~~lA~~l~   61 (504)
T PRK14963         12 TFDEVVGQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARLIAMAVN   61 (504)
T ss_pred             CHHHhcChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            345688999888888888876654 5679999999999999999887764

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=96.84  E-value=0.003  Score=52.48  Aligned_cols=46  Identities=22%  Similarity=0.179  Sum_probs=31.6

Q ss_pred             CCCcChHHHHHHHH---HHhc------------CCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          152 EAFESRSSTLNNVL---RALQ------------DPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       152 ~~~~gr~~~~~~l~---~~L~------------~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..++|.+..++.+.   .++.            .+...-+-++|.+|+||||+|+.+.+..
T Consensus         6 ~~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l   66 (261)
T TIGR02881         6 SRMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLF   66 (261)
T ss_pred             HHhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHH
Confidence            34678776655543   3321            1234567799999999999999998754

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.

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.84  E-value=0.0059  Score=53.21  Aligned_cols=62  Identities=16%  Similarity=0.111  Sum_probs=40.7

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCC-CCCHHHHHHHHHHHhCCCCC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPH-IPDIRKIQGEIADKLGLIFF  233 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~-~~~~~~l~~~i~~~l~~~~~  233 (250)
                      .-+++.++|+.|+||||++..+......+.....+..++... .....+-++...+.++.+..
T Consensus       136 ~g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~  198 (374)
T PRK14722        136 RGGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVH  198 (374)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcCCceE
Confidence            357999999999999999999987753221123445554322 23455556666777777654

>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway

Probab=96.83  E-value=0.0072  Score=48.94  Aligned_cols=24  Identities=29%  Similarity=0.512  Sum_probs=21.7

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhc
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      +|+|.|..|+||||+|+.+.+...
T Consensus         1 IigI~G~sGSGKTTla~~L~~~l~   24 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQALLS   24 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHHHh
Confidence            589999999999999999998764

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=96.82  E-value=0.0038  Score=49.90  Aligned_cols=46  Identities=20%  Similarity=0.353  Sum_probs=35.2

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHH
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQ  221 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~  221 (250)
                      -.++-|+|.+|+|||+++.++.....  ..-..++|++... ++...+.
T Consensus        12 g~i~~i~G~~GsGKT~l~~~~~~~~~--~~g~~v~yi~~e~-~~~~rl~   57 (209)
T TIGR02237        12 GTITQIYGPPGSGKTNICMILAVNAA--RQGKKVVYIDTEG-LSPERFK   57 (209)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH--hCCCeEEEEECCC-CCHHHHH
Confidence            57889999999999999999876654  2346788998875 5554444

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

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=96.81  E-value=0.0037  Score=50.88  Aligned_cols=57  Identities=19%  Similarity=0.343  Sum_probs=40.7

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCCC----CCeEEEEEcCCCCCHHHHHHHHHHHhC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQF----FDQVIFVEVPHIPDIRKIQGEIADKLG  229 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~----Fd~~~wv~vs~~~~~~~l~~~i~~~l~  229 (250)
                      .-.++.|+|.+|+|||||+.++.-.......    ...++|++...+++...+. ++++.++
T Consensus        18 ~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl~-~~~~~~~   78 (235)
T cd01123          18 TGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERLV-QIAERFG   78 (235)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHHH-HHHHHhc
Confidence            3568899999999999999999755433221    3588999988887765543 3344443

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 .

>PRK12608 transcription termination factor Rho; Provisional

Probab=96.80  E-value=0.0078  Score=52.26  Aligned_cols=71  Identities=11%  Similarity=0.118  Sum_probs=52.0

Q ss_pred             HHHHHHHhcC-CCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCe-EEEEEcCCCC-CHHHHHHHHHHHhCCCC
Q 036637          161 LNNVLRALQD-PDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQ-VIFVEVPHIP-DIRKIQGEIADKLGLIF  232 (250)
Q Consensus       161 ~~~l~~~L~~-~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~-~~wv~vs~~~-~~~~l~~~i~~~l~~~~  232 (250)
                      -.++++.+.- ..-.-+.|+|..|+|||||++.+.+..... +=+. ++|+.+.+.. .+.++++.+...+....
T Consensus       120 ~~RvID~l~PiGkGQR~LIvG~pGtGKTTLl~~la~~i~~~-~~dv~~vv~lIgER~~EV~df~~~i~~~Vvast  193 (380)
T PRK12608        120 SMRVVDLVAPIGKGQRGLIVAPPRAGKTVLLQQIAAAVAAN-HPEVHLMVLLIDERPEEVTDMRRSVKGEVYAST  193 (380)
T ss_pred             hHhhhhheeecCCCceEEEECCCCCCHHHHHHHHHHHHHhc-CCCceEEEEEecCCCCCHHHHHHHHhhhEEeec
Confidence            3457777762 222355999999999999999998877432 3344 5888888665 88999999988876654

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=96.80  E-value=0.0015  Score=52.21  Aligned_cols=28  Identities=50%  Similarity=0.699  Sum_probs=25.0

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      .+.+|+|-|.+|+||||+|+.+++....
T Consensus         7 ~~iiIgIaG~SgSGKTTva~~l~~~~~~   34 (218)
T COG0572           7 KVIIIGIAGGSGSGKTTVAKELSEQLGV   34 (218)
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHhCc
Confidence            4579999999999999999999988764

>PRK10536 hypothetical protein; Provisional

Probab=96.79  E-value=0.0043  Score=51.07  Aligned_cols=56  Identities=21%  Similarity=0.273  Sum_probs=41.2

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEE
Q 036637          150 DYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVI  207 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~  207 (250)
                      +...+.++......++.+|.+.  ..+.+.|..|+|||+||..+..+.-..+.|+.++
T Consensus        53 ~~~~i~p~n~~Q~~~l~al~~~--~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIi  108 (262)
T PRK10536         53 DTSPILARNEAQAHYLKAIESK--QLIFATGEAGCGKTWISAAKAAEALIHKDVDRII  108 (262)
T ss_pred             CCccccCCCHHHHHHHHHHhcC--CeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEE
Confidence            3445667777888888888654  4889999999999999999887643234455444

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=96.78  E-value=0.0031  Score=50.83  Aligned_cols=43  Identities=23%  Similarity=0.390  Sum_probs=29.5

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHH
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIR  218 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~  218 (250)
                      .|+|+|-||+||||++..+......++.|+.-+ |...+++|+.
T Consensus         2 kIaI~GKGG~GKTtiaalll~~l~~~~~~~VLv-VDaDpd~nL~   44 (255)
T COG3640           2 KIAITGKGGVGKTTIAALLLKRLLSKGGYNVLV-VDADPDSNLP   44 (255)
T ss_pred             eEEEecCCCccHHHHHHHHHHHHHhcCCceEEE-EeCCCCCChH
Confidence            689999999999999998666555444344332 5555555543

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=96.78  E-value=0.003  Score=51.26  Aligned_cols=27  Identities=15%  Similarity=0.302  Sum_probs=23.6

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .....+.++|..|+|||+||+.+++..
T Consensus        40 ~~~~~~~l~G~~G~GKT~La~ai~~~~   66 (227)
T PRK08903         40 VADRFFYLWGEAGSGRSHLLQALVADA   66 (227)
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            445678899999999999999999875

>PRK06893 DNA replication initiation factor; Validated

Probab=96.78  E-value=0.0054  Score=49.98  Aligned_cols=40  Identities=20%  Similarity=0.287  Sum_probs=29.6

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcC
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVP  212 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs  212 (250)
                      .....+-++|.+|+|||+|++.+++....+  .....|++++
T Consensus        37 ~~~~~l~l~G~~G~GKThL~~ai~~~~~~~--~~~~~y~~~~   76 (229)
T PRK06893         37 LQQPFFYIWGGKSSGKSHLLKAVSNHYLLN--QRTAIYIPLS   76 (229)
T ss_pred             cCCCeEEEECCCCCCHHHHHHHHHHHHHHc--CCCeEEeeHH
Confidence            344568999999999999999999886432  2344666664

>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+)

Probab=96.78  E-value=0.0011  Score=52.25  Aligned_cols=23  Identities=48%  Similarity=0.598  Sum_probs=21.3

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      +|+|.|.+|+||||||+.+....
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~~   23 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRIL   23 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            58999999999999999999875

This enzyme catalyzes the phosphorylation of nicotinamide riboside (NR) to form nicotinamide mononucleotide (NMN). It defines the NR salvage pathway of NAD+ biosynthesis in addition to the pathways through nicotinic acid mononucleotide (NaMN). This enzyme can also phosphorylate the anticancer drug tiazofurin, which is an analog of nicotinamide riboside.

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=96.77  E-value=0.0014  Score=47.94  Aligned_cols=39  Identities=33%  Similarity=0.476  Sum_probs=28.9

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCC
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPH  213 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~  213 (250)
                      ...+.|+|.+|+||||+++.+........  ...+++..+.
T Consensus         2 ~~~~~l~G~~G~GKTtl~~~l~~~~~~~~--~~~~~~~~~~   40 (148)
T smart00382        2 GEVILIVGPPGSGKTTLARALARELGPPG--GGVIYIDGED   40 (148)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHhccCCCC--CCEEEECCEE
Confidence            35789999999999999999998776432  2355555543

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.

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=96.77  E-value=0.0026  Score=61.65  Aligned_cols=47  Identities=19%  Similarity=0.338  Sum_probs=40.1

Q ss_pred             cCCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          151 YEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       151 ~~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .+.++||+.++..+++.|......-+.++|.+|+|||++++.+....
T Consensus       172 ~~~~igr~~ei~~~~~~l~r~~~~n~lL~G~pGvGKT~l~~~la~~i  218 (852)
T TIGR03346       172 LDPVIGRDEEIRRTIQVLSRRTKNNPVLIGEPGVGKTAIVEGLAQRI  218 (852)
T ss_pred             CCcCCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHH
Confidence            45689999999999998886655556689999999999999988775

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.

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=96.77  E-value=0.0019  Score=56.92  Aligned_cols=48  Identities=33%  Similarity=0.407  Sum_probs=38.5

Q ss_pred             cCCCcChHHHHHHHHHHhc----C---------CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          151 YEAFESRSSTLNNVLRALQ----D---------PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       151 ~~~~~gr~~~~~~l~~~L~----~---------~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ...+.|++..++++.+.+.    .         ..++-|-++|.+|+|||++|+.+++...
T Consensus       130 ~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~  190 (389)
T PRK03992        130 YEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETN  190 (389)
T ss_pred             HHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhC
Confidence            3467899999888888653    1         2456688999999999999999998765

>PRK00625 shikimate kinase; Provisional

Probab=96.75  E-value=0.0014  Score=51.01  Aligned_cols=24  Identities=25%  Similarity=0.423  Sum_probs=21.0

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhc
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .|.++||+|+||||+++.+-+...
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l~   25 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFLS   25 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            378999999999999999987754

>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=96.75  E-value=0.0025  Score=52.10  Aligned_cols=38  Identities=29%  Similarity=0.384  Sum_probs=30.6

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcC
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVP  212 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs  212 (250)
                      +-.++|+|..|+|||||+..+..+..  ..|+++++++-.
T Consensus        13 ~fr~viIG~sGSGKT~li~~lL~~~~--~~f~~I~l~t~~   50 (241)
T PF04665_consen   13 PFRMVIIGKSGSGKTTLIKSLLYYLR--HKFDHIFLITPE   50 (241)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHhhc--ccCCEEEEEecC
Confidence            44568999999999999999997765  678888777543

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

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=96.74  E-value=0.0027  Score=53.52  Aligned_cols=28  Identities=21%  Similarity=0.258  Sum_probs=23.3

Q ss_pred             CCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          170 DPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       170 ~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ...+.+|+|.|..|+||||+|+.+..-.
T Consensus        59 ~~~p~IIGIaG~~GSGKSTlar~L~~ll   86 (290)
T TIGR00554        59 AKIPYIISIAGSVAVGKSTTARILQALL   86 (290)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            3467899999999999999998775444

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.

>COG0237 CoaE Dephospho-CoA kinase [Coenzyme metabolism]

Probab=96.74  E-value=0.0058  Score=48.70  Aligned_cols=23  Identities=39%  Similarity=0.509  Sum_probs=20.3

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHH
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~  195 (250)
                      ..+|+++|+.|+||||.++.+-+
T Consensus         2 ~~iIglTG~igsGKStva~~~~~   24 (201)
T COG0237           2 MLIIGLTGGIGSGKSTVAKILAE   24 (201)
T ss_pred             ceEEEEecCCCCCHHHHHHHHHH
Confidence            46899999999999999997665

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=96.74  E-value=0.02  Score=50.05  Aligned_cols=74  Identities=24%  Similarity=0.261  Sum_probs=44.6

Q ss_pred             HHHHHHHHHHhcCC----CceEEEEEccCCCCHHH-HHHHHHHHhcCCCCCCeEEEEEcCCCC--CHHHHHHHHHHHhCC
Q 036637          158 SSTLNNVLRALQDP----DVNMVGIYGMGGIGKTT-LAKEVAIQFGRDQFFDQVIFVEVPHIP--DIRKIQGEIADKLGL  230 (250)
Q Consensus       158 ~~~~~~l~~~L~~~----~~~vi~I~G~gGvGKTt-La~~v~~~~~v~~~Fd~~~wv~vs~~~--~~~~l~~~i~~~l~~  230 (250)
                      ......+..++.++    +-++|.+||+.|+|||| ||+....-.-..+ =..+..++.. +|  ...+=++.-++-+++
T Consensus       184 ~~~l~~~~~~~~~~~~~~~~~vi~LVGPTGVGKTTTlAKLAar~~~~~~-~~kVaiITtD-tYRIGA~EQLk~Ya~im~v  261 (407)
T COG1419         184 SEKLRKLLLSLIENLIVEQKRVIALVGPTGVGKTTTLAKLAARYVMLKK-KKKVAIITTD-TYRIGAVEQLKTYADIMGV  261 (407)
T ss_pred             HHHHHHHHHhhccccccccCcEEEEECCCCCcHHHHHHHHHHHHHhhcc-CcceEEEEec-cchhhHHHHHHHHHHHhCC
Confidence            34455555555544    48999999999999998 7766544441111 1345555553 33  333335556777777


Q ss_pred             CCC
Q 036637          231 IFF  233 (250)
Q Consensus       231 ~~~  233 (250)
                      |..
T Consensus       262 p~~  264 (407)
T COG1419         262 PLE  264 (407)
T ss_pred             ceE
Confidence            755

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.73  E-value=0.0077  Score=57.70  Aligned_cols=49  Identities=27%  Similarity=0.390  Sum_probs=40.7

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCCce-EEEEEccCCCCHHHHHHHHHHHhc
Q 036637          150 DYEAFESRSSTLNNVLRALQDPDVN-MVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~~~-vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....++|.+..++.|.+++..+.+. .+-++|..|+||||+|+.+.+...
T Consensus        14 tFddIIGQe~Iv~~LknaI~~~rl~HAyLFtGPpGtGKTTLARiLAk~Ln   63 (944)
T PRK14949         14 TFEQMVGQSHVLHALTNALTQQRLHHAYLFTGTRGVGKTSLARLFAKGLN   63 (944)
T ss_pred             CHHHhcCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHhcc
Confidence            4457889999999999988866554 558999999999999999987764

>PRK04841 transcriptional regulator MalT; Provisional

Probab=96.73  E-value=0.0071  Score=58.97  Aligned_cols=68  Identities=18%  Similarity=0.172  Sum_probs=48.5

Q ss_pred             CCCcChHHHHHHHHHHhc-CCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcC-CCCCHHHHHHHHHHHhC
Q 036637          152 EAFESRSSTLNNVLRALQ-DPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVP-HIPDIRKIQGEIADKLG  229 (250)
Q Consensus       152 ~~~~gr~~~~~~l~~~L~-~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs-~~~~~~~l~~~i~~~l~  229 (250)
                      ..++-|.    .|.+.|. ..+.+++.|+|++|.||||++.+....      ++.++|+++. .+-++..+...++..++
T Consensus        14 ~~~~~R~----rl~~~l~~~~~~~~~~v~apaG~GKTtl~~~~~~~------~~~~~w~~l~~~d~~~~~f~~~l~~~l~   83 (903)
T PRK04841         14 HNTVVRE----RLLAKLSGANNYRLVLVTSPAGYGKTTLISQWAAG------KNNLGWYSLDESDNQPERFASYLIAALQ   83 (903)
T ss_pred             cccCcch----HHHHHHhcccCCCeEEEECCCCCCHHHHHHHHHHh------CCCeEEEecCcccCCHHHHHHHHHHHHH
Confidence            3455555    3444343 246789999999999999999997742      3369999997 44566777777777774

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=96.72  E-value=0.002  Score=51.59  Aligned_cols=32  Identities=22%  Similarity=0.323  Sum_probs=27.6

Q ss_pred             HHhcCCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          166 RALQDPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       166 ~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      +.+...++.+|+++|..|+|||||...+....
T Consensus        15 ~~~~~~~~~~i~~~G~~gsGKTTli~~l~~~~   46 (207)
T TIGR00073        15 ERLDKHGLVVLNFMSSPGSGKTTLIEKLIDNL   46 (207)
T ss_pred             HHhhhcCcEEEEEECCCCCCHHHHHHHHHHHH
Confidence            34456789999999999999999999998765

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=96.70  E-value=0.0016  Score=50.76  Aligned_cols=25  Identities=24%  Similarity=0.404  Sum_probs=21.9

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .++.|+|+.|+|||||++.+.....
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~~~   26 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARARLA   26 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcC
Confidence            4789999999999999999987654

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=96.70  E-value=0.0015  Score=51.20  Aligned_cols=35  Identities=26%  Similarity=0.418  Sum_probs=28.5

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhcCCCCC--CeEEEEE
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFGRDQFF--DQVIFVE  210 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~v~~~F--d~~~wv~  210 (250)
                      .|.|.|++|+||||+++.+...... .+|  |..+|-.
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l~~-~~~~~D~~~~~~   39 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERLDI-PHLDTDDYFWLP   39 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCC-cEEEcCceeecc
Confidence            4899999999999999999988765 345  5677754

>PRK00889 adenylylsulfate kinase; Provisional

Probab=96.69  E-value=0.002  Score=50.11  Aligned_cols=27  Identities=33%  Similarity=0.426  Sum_probs=23.9

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ...+|.++|.+|+||||+++.+.....
T Consensus         3 ~g~~i~~~G~~GsGKST~a~~la~~l~   29 (175)
T PRK00889          3 RGVTVWFTGLSGAGKTTIARALAEKLR   29 (175)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            456999999999999999999998764

>PRK00131 aroK shikimate kinase; Reviewed

Probab=96.69  E-value=0.0019  Score=49.76  Aligned_cols=27  Identities=26%  Similarity=0.442  Sum_probs=23.6

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....|.++|++|+||||+|+.+.....
T Consensus         3 ~~~~i~l~G~~GsGKstla~~La~~l~   29 (175)
T PRK00131          3 KGPNIVLIGFMGAGKSTIGRLLAKRLG   29 (175)
T ss_pred             CCCeEEEEcCCCCCHHHHHHHHHHHhC
Confidence            345889999999999999999998874

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.69  E-value=0.013  Score=51.89  Aligned_cols=62  Identities=18%  Similarity=0.118  Sum_probs=38.3

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCC-CCCHHHHHHHHHHHhCCCCC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPH-IPDIRKIQGEIADKLGLIFF  233 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~-~~~~~~l~~~i~~~l~~~~~  233 (250)
                      +..+++++|..|+||||++..+.........-+.+.+++... .....+-+....+.+|.+..
T Consensus       190 ~g~vi~lvGpnG~GKTTtlakLA~~~~~~~~~~~v~~i~~d~~rigalEQL~~~a~ilGvp~~  252 (420)
T PRK14721        190 QGGVYALIGPTGVGKTTTTAKLAARAVIRHGADKVALLTTDSYRIGGHEQLRIYGKLLGVSVR  252 (420)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecCCcchhHHHHHHHHHHHcCCcee
Confidence            457999999999999999998876532222223444444322 12333335566677777754

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=96.68  E-value=0.0071  Score=53.27  Aligned_cols=74  Identities=22%  Similarity=0.344  Sum_probs=48.4

Q ss_pred             CCcChHHHHHHHHHHhcCC--------------CceEEEEEccCCCCHHHHHHHHHHHhcCCCCC--CeEEEEEcCCC-C
Q 036637          153 AFESRSSTLNNVLRALQDP--------------DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFF--DQVIFVEVPHI-P  215 (250)
Q Consensus       153 ~~~gr~~~~~~l~~~L~~~--------------~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~F--d~~~wv~vs~~-~  215 (250)
                      .++|.+..++.+.-.+.+.              .++-|-++|++|+||||||+.+....... .+  |..-|+..+.. .
T Consensus        13 ~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l~~~-fi~vdat~~~e~g~vG~   91 (441)
T TIGR00390        13 YIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLANAP-FIKVEATKFTEVGYVGR   91 (441)
T ss_pred             hccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHhCCe-EEEeecceeecCCcccC
Confidence            4778888877776555521              24678899999999999999999887642 22  33333333322 2


Q ss_pred             CHHHHHHHHHHH
Q 036637          216 DIRKIQGEIADK  227 (250)
Q Consensus       216 ~~~~l~~~i~~~  227 (250)
                      +.+++++.++..
T Consensus        92 dvE~i~r~l~e~  103 (441)
T TIGR00390        92 DVESMVRDLTDA  103 (441)
T ss_pred             CHHHHHHHHHHH
Confidence            566666665444

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.

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=96.67  E-value=0.0017  Score=50.82  Aligned_cols=24  Identities=33%  Similarity=0.486  Sum_probs=21.6

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhc
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ||.|+|++|+||||+++.+.....
T Consensus         1 ~i~i~G~pGsGKst~a~~la~~~~   24 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVENFG   24 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHcC
Confidence            578999999999999999988764

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.

>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=96.66  E-value=0.0016  Score=48.67  Aligned_cols=24  Identities=42%  Similarity=0.659  Sum_probs=21.4

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhc
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      +|.|+|..|+||||+|+.+.....
T Consensus         1 ~I~i~G~~GsGKst~a~~la~~~~   24 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAKKLG   24 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhC
Confidence            589999999999999999987654

>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=96.65  E-value=0.0019  Score=46.51  Aligned_cols=24  Identities=25%  Similarity=0.328  Sum_probs=20.4

Q ss_pred             EEEEccCCCCHHHHHHHHHHHhcC
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      |.|+|..|+|||||.+.+.+....
T Consensus         2 I~V~G~~g~GKTsLi~~l~~~~~~   25 (119)
T PF08477_consen    2 IVVLGDSGVGKTSLIRRLCGGEFP   25 (119)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS--
T ss_pred             EEEECcCCCCHHHHHHHHhcCCCc
Confidence            789999999999999999977654

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.

>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=96.65  E-value=0.0015  Score=51.06  Aligned_cols=24  Identities=50%  Similarity=0.697  Sum_probs=21.8

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhc
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      +|+|.|..|+||||||+.+.....
T Consensus         1 ii~i~G~sgsGKttla~~l~~~l~   24 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQLR   24 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHH
Confidence            589999999999999999998864

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>PRK09087 hypothetical protein; Validated

Probab=96.65  E-value=0.0054  Score=49.90  Aligned_cols=35  Identities=23%  Similarity=0.125  Sum_probs=26.4

Q ss_pred             HHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          164 VLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       164 l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      +++.+.+.....+.|||..|+|||+|++.+++...
T Consensus        35 ~l~~~~~~~~~~l~l~G~~GsGKThLl~~~~~~~~   69 (226)
T PRK09087         35 LVDHWPNWPSPVVVLAGPVGSGKTHLASIWREKSD   69 (226)
T ss_pred             HHHhcccCCCCeEEEECCCCCCHHHHHHHHHHhcC
Confidence            44433344456789999999999999999987653

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=96.64  E-value=0.0038  Score=46.79  Aligned_cols=39  Identities=23%  Similarity=0.345  Sum_probs=28.4

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCC
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPH  213 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~  213 (250)
                      .+|.|+|..|+|||||++.+.+....+ .+...+..+..+
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~l~~~-g~~v~~ik~~~~   39 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINELKRR-GYRVAVIKHTDH   39 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHHHHT-T--EEEEEE-ST
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHhHc-CCceEEEEEccC
Confidence            478999999999999999999988643 455555565555

>TIGR00763 lon ATP-dependent protease La

Probab=96.64  E-value=0.0099  Score=57.08  Aligned_cols=47  Identities=23%  Similarity=0.321  Sum_probs=37.9

Q ss_pred             CCCcChHHHHHHHHHHhc------CCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          152 EAFESRSSTLNNVLRALQ------DPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       152 ~~~~gr~~~~~~l~~~L~------~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ..++|.+..++.+.+++.      .....++.++|++|+|||++|+.+.+...
T Consensus       320 ~~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~l~  372 (775)
T TIGR00763       320 EDHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKALN  372 (775)
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHHhc
Confidence            357898888888888764      12344789999999999999999998874

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.

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=96.64  E-value=0.0093  Score=50.86  Aligned_cols=59  Identities=17%  Similarity=0.316  Sum_probs=44.3

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCCC----CCeEEEEEcCCCCCHHHHHHHHHHHhCCC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQF----FDQVIFVEVPHIPDIRKIQGEIADKLGLI  231 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~----Fd~~~wv~vs~~~~~~~l~~~i~~~l~~~  231 (250)
                      ...++-|+|.+|+||||++-+++-.......    =..++||+...+|+...+. ++++.++.+
T Consensus        94 ~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~-~~~~~~gl~  156 (310)
T TIGR02236        94 TQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIM-QMAEARGLD  156 (310)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHH-HHHHHcCCC
Confidence            3578889999999999999999877643211    1279999999999888765 455666654

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.

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=96.63  E-value=0.0035  Score=49.14  Aligned_cols=39  Identities=28%  Similarity=0.365  Sum_probs=31.1

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCC
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPH  213 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~  213 (250)
                      .++|.|+|+.|+|||||++.+.....  .+|...++.+-.+
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~~~~--~~~~~~v~~TTR~   40 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQEFP--DKFGRVVSHTTRP   40 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHHHST--TTEEEEEEEESS-
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcc--cccccceeecccC
Confidence            57899999999999999999998765  4586666665543

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 ....

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

Probab=96.62  E-value=0.0047  Score=51.45  Aligned_cols=54  Identities=20%  Similarity=0.368  Sum_probs=42.2

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCCCC-CeEEEEEcCCCC-CHHHHHHHHHHH
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFF-DQVIFVEVPHIP-DIRKIQGEIADK  227 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~F-d~~~wv~vs~~~-~~~~l~~~i~~~  227 (250)
                      .-.-++|.|..|+|||||++.+++....  +| +.++++-+++.. .+.++.+.+...
T Consensus        68 ~GQr~~If~~~G~GKTtLa~~i~~~i~~--~~~~~~V~~~iGer~~Ev~e~~~~~~~~  123 (274)
T cd01133          68 KGGKIGLFGGAGVGKTVLIMELINNIAK--AHGGYSVFAGVGERTREGNDLYHEMKES  123 (274)
T ss_pred             cCCEEEEecCCCCChhHHHHHHHHHHHh--cCCCEEEEEEeccCcHHHHHHHHHHHhc
Confidence            3456799999999999999999999874  35 578888888775 556677776543

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.

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=96.62  E-value=0.0021  Score=50.06  Aligned_cols=24  Identities=17%  Similarity=0.375  Sum_probs=21.9

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ++|.+.|++|+||||+|+.+....
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~~   26 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSVL   26 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhh
Confidence            589999999999999999998775

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>PRK13975 thymidylate kinase; Provisional

Probab=96.61  E-value=0.0057  Score=48.32  Aligned_cols=26  Identities=35%  Similarity=0.454  Sum_probs=23.4

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      ..|.|.|+.|+||||+++.+.+....
T Consensus         3 ~~I~ieG~~GsGKtT~~~~L~~~l~~   28 (196)
T PRK13975          3 KFIVFEGIDGSGKTTQAKLLAEKLNA   28 (196)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            47899999999999999999988763

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

Probab=96.61  E-value=0.014  Score=55.97  Aligned_cols=48  Identities=21%  Similarity=0.254  Sum_probs=39.9

Q ss_pred             cCCCcChHHHHHHHHHHhcC------CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          151 YEAFESRSSTLNNVLRALQD------PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       151 ~~~~~gr~~~~~~l~~~L~~------~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....+|.+.-++.++++|..      ....++.++|++|+||||+++.+.....
T Consensus       321 ~~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~l~  374 (784)
T PRK10787        321 DTDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKATG  374 (784)
T ss_pred             hhhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHHhC
Confidence            34588999999999988771      2456899999999999999999997654

>PRK13949 shikimate kinase; Provisional

Probab=96.59  E-value=0.0021  Score=49.87  Aligned_cols=24  Identities=42%  Similarity=0.573  Sum_probs=21.4

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhc
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      -|.|+|++|+||||+++.+.+...
T Consensus         3 ~I~liG~~GsGKstl~~~La~~l~   26 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALARELG   26 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            589999999999999999887764

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=96.59  E-value=0.0022  Score=49.81  Aligned_cols=28  Identities=29%  Similarity=0.377  Sum_probs=24.3

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      ...+++|+|..|+|||||++.+......
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~~l~~   32 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIPALCA   32 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHHHHhh
Confidence            4569999999999999999999977653

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=96.59  E-value=0.0043  Score=52.07  Aligned_cols=36  Identities=19%  Similarity=0.224  Sum_probs=29.9

Q ss_pred             HHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          163 NVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       163 ~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ...+++...+..++.|+|.+|+|||||+..+.+...
T Consensus        94 ~~r~~~~~~~~~~v~l~G~pGsGKTTLl~~l~~~l~  129 (290)
T PRK10463         94 RNRARFAARKQLVLNLVSSPGSGKTTLLTETLMRLK  129 (290)
T ss_pred             HHHHHHHhcCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            344445567899999999999999999999998865

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=96.58  E-value=0.0084  Score=51.77  Aligned_cols=58  Identities=19%  Similarity=0.212  Sum_probs=44.6

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcCC---CC-CCeEEEEEcCCCCCHHHHHHHHHHHhCCC
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGRD---QF-FDQVIFVEVPHIPDIRKIQGEIADKLGLI  231 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v~---~~-Fd~~~wv~vs~~~~~~~l~~~i~~~l~~~  231 (250)
                      -.++-|+|.+|+|||+|+-+++-..+..   .. -...+|++...+|+++.+.+ ++++++.+
T Consensus       126 G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~~-ia~~~g~d  187 (344)
T PLN03187        126 RCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVP-IAERFGMD  187 (344)
T ss_pred             CeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHHH-HHHHcCCC
Confidence            4577799999999999999987554432   11 24789999999999988765 56777765

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=96.57  E-value=0.0068  Score=56.53  Aligned_cols=79  Identities=14%  Similarity=0.127  Sum_probs=59.8

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhC
Q 036637          150 DYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLG  229 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~~l~  229 (250)
                      ....++|++..++.|...+...  +-+-++|.+|+||||+++.+.+... +.+|+..+|..- ..-+...+++.++.++|
T Consensus        29 ~~~~vigq~~a~~~L~~~~~~~--~~~l~~G~~G~GKttla~~l~~~l~-~~~~~~~~~~~n-p~~~~~~~~~~v~~~~G  104 (637)
T PRK13765         29 LIDQVIGQEHAVEVIKKAAKQR--RHVMMIGSPGTGKSMLAKAMAELLP-KEELQDILVYPN-PEDPNNPKIRTVPAGKG  104 (637)
T ss_pred             cHHHcCChHHHHHHHHHHHHhC--CeEEEECCCCCcHHHHHHHHHHHcC-hHhHHHheEeeC-CCcchHHHHHHHHHhcC
Confidence            4456889888888777766544  3678999999999999999987753 345688888655 44588888999988877


Q ss_pred             CCC
Q 036637          230 LIF  232 (250)
Q Consensus       230 ~~~  232 (250)
                      ...
T Consensus       105 ~~~  107 (637)
T PRK13765        105 KQI  107 (637)
T ss_pred             HHH
Confidence            654

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=96.56  E-value=0.0051  Score=52.99  Aligned_cols=47  Identities=23%  Similarity=0.354  Sum_probs=40.1

Q ss_pred             cCCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          151 YEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       151 ~~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ...++|.+..+..|+-.+.++..+-+.|.|..|+|||||++.+..-.
T Consensus         3 f~~ivgq~~~~~al~~~~~~~~~g~vli~G~~G~gKttl~r~~~~~~   49 (337)
T TIGR02030         3 FTAIVGQDEMKLALLLNVIDPKIGGVMVMGDRGTGKSTAVRALAALL   49 (337)
T ss_pred             ccccccHHHHHHHHHHHhcCCCCCeEEEEcCCCCCHHHHHHHHHHhh
Confidence            35688999999998888888877778899999999999999997544

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.

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=96.55  E-value=0.0041  Score=53.72  Aligned_cols=48  Identities=21%  Similarity=0.294  Sum_probs=41.9

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          150 DYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      +...++|.+..+..|+..+.++.++-+-|.|..|+||||+|+.+++-.
T Consensus        15 pf~~ivGq~~~k~al~~~~~~p~~~~vli~G~~GtGKs~~ar~~~~~l   62 (350)
T CHL00081         15 PFTAIVGQEEMKLALILNVIDPKIGGVMIMGDRGTGKSTTIRALVDLL   62 (350)
T ss_pred             CHHHHhChHHHHHHHHHhccCCCCCeEEEEcCCCCCHHHHHHHHHHHH
Confidence            556789999999999988888888877799999999999999997654

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=96.55  E-value=0.0079  Score=51.35  Aligned_cols=59  Identities=17%  Similarity=0.290  Sum_probs=45.0

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCC---CC-CeEEEEEcCCCCCHHHHHHHHHHHhCCC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQ---FF-DQVIFVEVPHIPDIRKIQGEIADKLGLI  231 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~---~F-d~~~wv~vs~~~~~~~l~~~i~~~l~~~  231 (250)
                      .-.++-|+|.+|+|||||+.+++-..+...   .- ..++|++...+|+++.+.+ ++++++.+
T Consensus        95 ~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~~-~a~~~g~d  157 (313)
T TIGR02238        95 SMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIRA-IAERFGVD  157 (313)
T ss_pred             CCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHHH-HHHHcCCC
Confidence            346888999999999999998775544321   11 3789999999999988764 57777765

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.

>TIGR03263 guanyl_kin guanylate kinase

Probab=96.54  E-value=0.002  Score=50.21  Aligned_cols=23  Identities=35%  Similarity=0.533  Sum_probs=21.1

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHH
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      ++|.|+|+.|+|||||++.+.+.
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~~   24 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLEE   24 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHcc
Confidence            57899999999999999999874

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.

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=96.54  E-value=0.01  Score=49.25  Aligned_cols=50  Identities=22%  Similarity=0.232  Sum_probs=39.5

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHH
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEI  224 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i  224 (250)
                      +..+++.|.|.+|+|||+++.+.-..-.  ++...++||+..++  ..++.+..
T Consensus        21 p~g~~~lI~G~pGsGKT~f~~qfl~~~~--~~ge~vlyvs~~e~--~~~l~~~~   70 (260)
T COG0467          21 PRGSVVLITGPPGTGKTIFALQFLYEGA--REGEPVLYVSTEES--PEELLENA   70 (260)
T ss_pred             cCCcEEEEEcCCCCcHHHHHHHHHHHHH--hcCCcEEEEEecCC--HHHHHHHH
Confidence            4678999999999999999998776665  34889999999886  44444444

>CHL00181 cbbX CbbX; Provisional

Probab=96.54  E-value=0.0067  Score=51.17  Aligned_cols=23  Identities=35%  Similarity=0.404  Sum_probs=20.3

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .+-++|.+|+||||+|+.+++..
T Consensus        61 ~ill~G~pGtGKT~lAr~la~~~   83 (287)
T CHL00181         61 HMSFTGSPGTGKTTVALKMADIL   83 (287)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH
Confidence            47789999999999999997764

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.54  E-value=0.012  Score=53.38  Aligned_cols=27  Identities=30%  Similarity=0.463  Sum_probs=22.9

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ..++|+++|.+|+||||++..+.....
T Consensus       349 ~G~vIaLVGPtGvGKTTtaakLAa~la  375 (559)
T PRK12727        349 RGGVIALVGPTGAGKTTTIAKLAQRFA  375 (559)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHH
Confidence            457999999999999999988876543

>PRK08084 DNA replication initiation factor; Provisional

Probab=96.53  E-value=0.0053  Score=50.21  Aligned_cols=51  Identities=16%  Similarity=0.273  Sum_probs=33.9

Q ss_pred             HHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcC
Q 036637          160 TLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVP  212 (250)
Q Consensus       160 ~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs  212 (250)
                      .+..+-++...+....+.++|+.|+|||+|++.+++.....  -..+.++++.
T Consensus        32 a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~--~~~v~y~~~~   82 (235)
T PRK08084         32 LLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAELSQR--GRAVGYVPLD   82 (235)
T ss_pred             HHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHhC--CCeEEEEEHH
Confidence            34444444445555688999999999999999999865422  2234555554

>PRK00300 gmk guanylate kinase; Provisional

Probab=96.53  E-value=0.0026  Score=50.70  Aligned_cols=26  Identities=27%  Similarity=0.300  Sum_probs=23.1

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ...+|+|+|..|+|||||++.+....
T Consensus         4 ~g~~i~i~G~sGsGKstl~~~l~~~~   29 (205)
T PRK00300          4 RGLLIVLSGPSGAGKSTLVKALLERD   29 (205)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            45689999999999999999999764

>PRK03846 adenylylsulfate kinase; Provisional

Probab=96.53  E-value=0.0029  Score=50.33  Aligned_cols=28  Identities=21%  Similarity=0.298  Sum_probs=25.0

Q ss_pred             CCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          170 DPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       170 ~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .....+|.|+|++|+|||||++.+....
T Consensus        21 ~~~~~~i~i~G~~GsGKSTla~~l~~~l   48 (198)
T PRK03846         21 GHKGVVLWFTGLSGSGKSTVAGALEEAL   48 (198)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            4677899999999999999999998865

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=96.52  E-value=0.0041  Score=47.51  Aligned_cols=34  Identities=21%  Similarity=0.228  Sum_probs=25.6

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEE
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFV  209 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv  209 (250)
                      |++|+|..|+|||||+..+....+.+ .+...+.-
T Consensus         1 vi~i~G~~gsGKTtl~~~l~~~l~~~-G~~V~viK   34 (155)
T TIGR00176         1 VLQIVGPKNSGKTTLIERLVKALKAR-GYRVATIK   34 (155)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHhc-CCeEEEEe
Confidence            58999999999999999999876532 34443333

This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=96.52  E-value=0.01  Score=55.28  Aligned_cols=77  Identities=16%  Similarity=0.158  Sum_probs=52.3

Q ss_pred             cCCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhCC
Q 036637          151 YEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGL  230 (250)
Q Consensus       151 ~~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~~l~~  230 (250)
                      ...++|++..++.+...+... ..+ -++|++|+||||+++.+.+...- ..|...+++. ...-+..++++.++.++|.
T Consensus        17 ~~~viG~~~a~~~l~~a~~~~-~~~-ll~G~pG~GKT~la~~la~~l~~-~~~~~~~~~~-n~~~~~~~~~~~v~~~~g~   92 (608)
T TIGR00764        17 IDQVIGQEEAVEIIKKAAKQK-RNV-LLIGEPGVGKSMLAKAMAELLPD-EELEDILVYP-NPEDPNMPRIVEVPAGEGR   92 (608)
T ss_pred             HhhccCHHHHHHHHHHHHHcC-CCE-EEECCCCCCHHHHHHHHHHHcCc-hhheeEEEEe-CCCCCchHHHHHHHHhhch
Confidence            346788888777766666544 344 49999999999999999977643 2333333332 2233666778999888875


Q ss_pred             C
Q 036637          231 I  231 (250)
Q Consensus       231 ~  231 (250)
                      .
T Consensus        93 ~   93 (608)
T TIGR00764        93 E   93 (608)
T ss_pred             H
Confidence            5

Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.

>PTZ00088 adenylate kinase 1; Provisional

Probab=96.52  E-value=0.0045  Score=50.42  Aligned_cols=25  Identities=24%  Similarity=0.414  Sum_probs=22.1

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      -|.|+|++|+||||+|+.+.+....
T Consensus         8 rIvl~G~PGsGK~T~a~~La~~~g~   32 (229)
T PTZ00088          8 KIVLFGAPGVGKGTFAEILSKKENL   32 (229)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCC
Confidence            3889999999999999999888753

>PRK13695 putative NTPase; Provisional

Probab=96.51  E-value=0.0037  Score=48.52  Aligned_cols=24  Identities=42%  Similarity=0.595  Sum_probs=21.1

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhc
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .|.|+|.+|+|||||++.+++...
T Consensus         2 ~i~ltG~~G~GKTTll~~i~~~l~   25 (174)
T PRK13695          2 KIGITGPPGVGKTTLVLKIAELLK   25 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            478999999999999999987754

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.51  E-value=0.0045  Score=54.73  Aligned_cols=49  Identities=20%  Similarity=0.283  Sum_probs=39.7

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCCc-eEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          150 DYEAFESRSSTLNNVLRALQDPDV-NMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~~-~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....++|.+..++.|..++.++.+ +.+-++|+.|+||||+|+.+.+...
T Consensus        14 ~~~eiiGq~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~a~~l~   63 (397)
T PRK14955         14 KFADITAQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAVN   63 (397)
T ss_pred             cHhhccChHHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHHHHHHHHhc
Confidence            445788999888888888876554 5588999999999999998877663

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=96.50  E-value=0.0023  Score=48.33  Aligned_cols=24  Identities=33%  Similarity=0.688  Sum_probs=21.0

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhc
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ++.++|++|+||||+|+.+.+...
T Consensus         1 li~l~G~~GsGKST~a~~l~~~~~   24 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAERLG   24 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhhcC
Confidence            467999999999999999988753

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=96.50  E-value=0.0022  Score=49.25  Aligned_cols=20  Identities=40%  Similarity=0.689  Sum_probs=18.6

Q ss_pred             EEEEEccCCCCHHHHHHHHH
Q 036637          175 MVGIYGMGGIGKTTLAKEVA  194 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~  194 (250)
                      .|+|.|.+|+||||+++.+-
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            58999999999999999987

>PRK08727 hypothetical protein; Validated

Probab=96.49  E-value=0.011  Score=48.27  Aligned_cols=56  Identities=14%  Similarity=0.163  Sum_probs=37.1

Q ss_pred             ChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCC
Q 036637          156 SRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPH  213 (250)
Q Consensus       156 gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~  213 (250)
                      |-......+...........+.++|..|+|||+|++.+++....+  ....+|+++.+
T Consensus        24 ~~~n~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~a~~~~~~~~--~~~~~y~~~~~   79 (233)
T PRK08727         24 APDGLLAQLQALAAGQSSDWLYLSGPAGTGKTHLALALCAAAEQA--GRSSAYLPLQA   79 (233)
T ss_pred             CcHHHHHHHHHHHhccCCCeEEEECCCCCCHHHHHHHHHHHHHHc--CCcEEEEeHHH
Confidence            333444444443334444569999999999999999999876533  33556776654

>TIGR02012 tigrfam_recA protein RecA

Probab=96.48  E-value=0.011  Score=50.58  Aligned_cols=53  Identities=30%  Similarity=0.347  Sum_probs=39.4

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhCCC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGLI  231 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~~l~~~  231 (250)
                      .-+++-|.|.+|+|||||+-++......  .=..++|+...+.++..     .++++|.+
T Consensus        54 ~G~iteI~G~~GsGKTtLaL~~~~~~~~--~g~~v~yId~E~~~~~~-----~a~~lGvd  106 (321)
T TIGR02012        54 RGRIIEIYGPESSGKTTLALHAIAEAQK--AGGTAAFIDAEHALDPV-----YARKLGVD  106 (321)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH--cCCcEEEEcccchhHHH-----HHHHcCCC
Confidence            3468889999999999999987766642  23567899888777763     35666655

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.

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.48  E-value=0.018  Score=52.53  Aligned_cols=48  Identities=19%  Similarity=0.296  Sum_probs=40.0

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCCc-eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          150 DYEAFESRSSTLNNVLRALQDPDV-NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~~-~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ....++|.+..++.|.+++..+.+ +.+-++|+.|+||||+|+.+.+..
T Consensus        14 ~f~divGq~~v~~~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l   62 (509)
T PRK14958         14 CFQEVIGQAPVVRALSNALDQQYLHHAYLFTGTRGVGKTTISRILAKCL   62 (509)
T ss_pred             CHHHhcCCHHHHHHHHHHHHhCCCCeeEEEECCCCCCHHHHHHHHHHHh
Confidence            445789999999999999986654 467899999999999999887755

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.48  E-value=0.016  Score=52.27  Aligned_cols=60  Identities=17%  Similarity=0.136  Sum_probs=38.8

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCC--CHHHHHHHHHHHhCCCCC
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIP--DIRKIQGEIADKLGLIFF  233 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~--~~~~l~~~i~~~l~~~~~  233 (250)
                      .+|++++|..|+||||++.++......+..-..+..++. .++  ...+-++...+.++++..
T Consensus       256 g~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~~-Dt~RigA~EQLr~~AeilGVpv~  317 (484)
T PRK06995        256 GGVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLTT-DSYRIGGHEQLRIYGKILGVPVH  317 (484)
T ss_pred             CcEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEeC-CccchhHHHHHHHHHHHhCCCee
Confidence            479999999999999999999976643322223444443 334  333335555677776643

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.48  E-value=0.013  Score=54.47  Aligned_cols=47  Identities=19%  Similarity=0.340  Sum_probs=38.6

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCCc-eEEEEEccCCCCHHHHHHHHHHH
Q 036637          150 DYEAFESRSSTLNNVLRALQDPDV-NMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~~-~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      ....++|.+..+..|.+++..+.+ +.+-++|..|+||||+|+.+.+.
T Consensus        14 ~f~dviGQe~vv~~L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~lAk~   61 (618)
T PRK14951         14 SFSEMVGQEHVVQALTNALTQQRLHHAYLFTGTRGVGKTTVSRILAKS   61 (618)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            445678999889999998886655 67789999999999999988443

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

Probab=96.47  E-value=0.01  Score=50.69  Aligned_cols=52  Identities=33%  Similarity=0.409  Sum_probs=39.6

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhCCC
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGLI  231 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~~l~~~  231 (250)
                      -+++-|.|.+|+|||||+-+++-....  .-..++|++..+.+++.     .++++|.+
T Consensus        55 G~iteI~Gp~GsGKTtLal~~~~~~~~--~g~~~vyId~E~~~~~~-----~a~~lGvd  106 (325)
T cd00983          55 GRIIEIYGPESSGKTTLALHAIAEAQK--LGGTVAFIDAEHALDPV-----YAKKLGVD  106 (325)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHH--cCCCEEEECccccHHHH-----HHHHcCCC
Confidence            568889999999999999998866642  23578899988877763     45566655

RecA couples ATP hydrolysis to DNA strand exchange.

>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases

Probab=96.47  E-value=0.0037  Score=47.63  Aligned_cols=28  Identities=29%  Similarity=0.364  Sum_probs=24.2

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcCC
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGRD  200 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v~  200 (250)
                      ..+|=++|.+|+||||||+.+.......
T Consensus         2 g~vIwltGlsGsGKtTlA~~L~~~L~~~   29 (156)
T PF01583_consen    2 GFVIWLTGLSGSGKTTLARALERRLFAR   29 (156)
T ss_dssp             -EEEEEESSTTSSHHHHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            4688899999999999999999988643

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 ....

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

Probab=96.46  E-value=0.0025  Score=45.40  Aligned_cols=23  Identities=57%  Similarity=0.749  Sum_probs=19.3

Q ss_pred             EEEEccCCCCHHHHHHHHHHHhc
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      |-|+|.+|+|||+||+.+..+..
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~   23 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLL   23 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHH
Confidence            45899999999999999776654

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

>PF08298 AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 This is entry is found at the N terminus of PrkA proteins - bacterial and archaeal serine kinases approximately 630 residues in length

Probab=96.45  E-value=0.045  Score=47.10  Aligned_cols=78  Identities=18%  Similarity=0.304  Sum_probs=57.7

Q ss_pred             CCCcChHHHHHHHHHHhc------CCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcC----CCC---CHH
Q 036637          152 EAFESRSSTLNNVLRALQ------DPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVP----HIP---DIR  218 (250)
Q Consensus       152 ~~~~gr~~~~~~l~~~L~------~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs----~~~---~~~  218 (250)
                      ..++|.++.++++++.+.      +..-+++-++|+.|.|||||++.+.+-.+.   +  .+|+-..    ..|   =+.
T Consensus        61 ~~~~G~~~~i~~lV~~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~Lk~~le~---y--~~Y~l~~~Pm~e~PL~L~P~  135 (358)
T PF08298_consen   61 DEFYGMEETIERLVNYFKSAAQGLEERKRILLLLGPVGGGKSSLAELLKRGLEE---Y--PIYTLKGCPMHEEPLHLFPK  135 (358)
T ss_pred             ccccCcHHHHHHHHHHHHHHHhccCccceEEEEECCCCCCHHHHHHHHHHHhhe---E--EEEEecCCccccChhhhCCH
Confidence            478999999999999887      346789999999999999999999987763   2  5555332    111   145


Q ss_pred             HHHHHHHHHhCCCCCC
Q 036637          219 KIQGEIADKLGLIFFE  234 (250)
Q Consensus       219 ~l~~~i~~~l~~~~~~  234 (250)
                      ++-+.+.+.++...++
T Consensus       136 ~~r~~~~~~~~~~i~g  151 (358)
T PF08298_consen  136 ELRREFEDELGIRIEG  151 (358)
T ss_pred             hHHHHHHHHhCcccCC
Confidence            5556677777775543

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

>PRK14527 adenylate kinase; Provisional

Probab=96.44  E-value=0.0041  Score=49.13  Aligned_cols=29  Identities=31%  Similarity=0.382  Sum_probs=25.0

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      ....+|.|+|.+|+||||+|+.+.+....
T Consensus         4 ~~~~~i~i~G~pGsGKsT~a~~La~~~~~   32 (191)
T PRK14527          4 TKNKVVIFLGPPGAGKGTQAERLAQELGL   32 (191)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            35678999999999999999999877754

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.44  E-value=0.0046  Score=55.46  Aligned_cols=49  Identities=20%  Similarity=0.356  Sum_probs=40.6

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCCc-eEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          150 DYEAFESRSSTLNNVLRALQDPDV-NMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~~-~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....++|.+..+..|..++.++.+ +.+-++|..|+||||+|+.+.+...
T Consensus        16 ~f~dvVGQe~iv~~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriLAk~Ln   65 (484)
T PRK14956         16 FFRDVIHQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRLN   65 (484)
T ss_pred             CHHHHhChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhcC
Confidence            445688999888888888887765 4688999999999999999987653

>PRK13947 shikimate kinase; Provisional

Probab=96.44  E-value=0.0029  Score=48.84  Aligned_cols=25  Identities=36%  Similarity=0.474  Sum_probs=21.9

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      -|.|+|++|+||||+++.+-+....
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~lg~   27 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTLSF   27 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCC
Confidence            3789999999999999999887653

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

Probab=96.43  E-value=0.0044  Score=58.96  Aligned_cols=59  Identities=22%  Similarity=0.331  Sum_probs=44.5

Q ss_pred             cCCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhcCC---CC-CCeEEEE
Q 036637          151 YEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGRD---QF-FDQVIFV  209 (250)
Q Consensus       151 ~~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~---~~-Fd~~~wv  209 (250)
                      ...++||+.++..+++.|......-+-++|.+|+|||++|+.+.......   .. .++.+|.
T Consensus       185 ~~~liGR~~ei~~~i~iL~r~~~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~  247 (758)
T PRK11034        185 IDPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYS  247 (758)
T ss_pred             CCcCcCCCHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEe
Confidence            45689999999999998886544444689999999999999998765221   12 2567765

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=96.42  E-value=0.0053  Score=46.40  Aligned_cols=39  Identities=28%  Similarity=0.479  Sum_probs=29.5

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCC
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIP  215 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~  215 (250)
                      ++.|+|.+|+||||++..+......  .-..++|+.....+
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~~~--~~~~v~~~~~e~~~   39 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNIAT--KGGKVVYVDIEEEI   39 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHHHh--cCCEEEEEECCcch
Confidence            4689999999999999999877743  23467777766554

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.

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=96.42  E-value=0.0027  Score=49.91  Aligned_cols=24  Identities=21%  Similarity=0.353  Sum_probs=21.3

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .++.|+|+.|+|||||++.+....
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~~~   26 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQRE   26 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhccC
Confidence            478999999999999999997654

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A

Probab=96.41  E-value=0.0082  Score=48.30  Aligned_cols=52  Identities=25%  Similarity=0.256  Sum_probs=33.6

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhc-----CCCCCCeEEEEEcCCCCCHHHHHHHHHH
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFG-----RDQFFDQVIFVEVPHIPDIRKIQGEIAD  226 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~-----v~~~Fd~~~wv~vs~~~~~~~l~~~i~~  226 (250)
                      +..|+|++|.||||++..+-....     ....-+..+-++...+..+.+++..+.+
T Consensus        19 ~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~   75 (236)
T PF13086_consen   19 ITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKK   75 (236)
T ss_dssp             -EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC
T ss_pred             CEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHh
Confidence            778999999999986666655551     1123455666666666677888887766

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.41  E-value=0.016  Score=50.84  Aligned_cols=27  Identities=37%  Similarity=0.597  Sum_probs=23.6

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      +.++|+++|.+|+||||++..+.....
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~~L~  266 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAWQFH  266 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHHHHH
Confidence            458999999999999999999987654

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=96.41  E-value=0.01  Score=43.96  Aligned_cols=30  Identities=30%  Similarity=0.254  Sum_probs=25.7

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhcCC
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFGRD  200 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~  200 (250)
                      ..-.+|.+.|.-|+||||+++.+.......
T Consensus        20 ~~~~~i~l~G~lGaGKTtl~~~l~~~lg~~   49 (133)
T TIGR00150        20 DFGTVVLLKGDLGAGKTTLVQGLLQGLGIQ   49 (133)
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHHHHcCCC
Confidence            345689999999999999999999887654

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.

>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=96.40  E-value=0.01  Score=46.62  Aligned_cols=24  Identities=33%  Similarity=0.491  Sum_probs=22.0

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhc
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      +|+|.|+.|+||||+++.+.+...
T Consensus         2 ~I~ieG~~GsGKtT~~~~L~~~l~   25 (200)
T cd01672           2 FIVFEGIDGAGKTTLIELLAERLE   25 (200)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            689999999999999999998774

TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).

>PRK14530 adenylate kinase; Provisional

Probab=96.40  E-value=0.0034  Score=50.55  Aligned_cols=24  Identities=33%  Similarity=0.534  Sum_probs=21.6

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhc
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .|.|+|++|+||||+++.+.....
T Consensus         5 ~I~i~G~pGsGKsT~~~~La~~~~   28 (215)
T PRK14530          5 RILLLGAPGAGKGTQSSNLAEEFG   28 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            589999999999999999987774

>PRK09354 recA recombinase A; Provisional

Probab=96.39  E-value=0.014  Score=50.44  Aligned_cols=53  Identities=32%  Similarity=0.362  Sum_probs=41.2

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhCCCC
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGLIF  232 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~~l~~~~  232 (250)
                      -+++-|.|.+|+|||||+-++.....-  .-..++|+...+.+++.     .++++|.+.
T Consensus        60 G~IteI~G~~GsGKTtLal~~~~~~~~--~G~~~~yId~E~s~~~~-----~a~~lGvdl  112 (349)
T PRK09354         60 GRIVEIYGPESSGKTTLALHAIAEAQK--AGGTAAFIDAEHALDPV-----YAKKLGVDI  112 (349)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHH--cCCcEEEECCccchHHH-----HHHHcCCCH
Confidence            568889999999999999998876652  23578999998888863     466677653

>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=96.39  E-value=0.0033  Score=47.46  Aligned_cols=32  Identities=34%  Similarity=0.483  Sum_probs=24.3

Q ss_pred             EEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEE
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIF  208 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~w  208 (250)
                      |.++|++|+||||+|+.+....... .|+.-.|
T Consensus         2 i~l~G~~GsGKstla~~la~~l~~~-~~~~d~~   33 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKALGLP-FVDLDEL   33 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHhCCC-EEEchHH
Confidence            6899999999999999998776432 3443333

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.

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

Probab=96.39  E-value=0.016  Score=47.31  Aligned_cols=74  Identities=15%  Similarity=0.270  Sum_probs=50.8

Q ss_pred             CCCcCCCcChHHHHHHHHHHhc----CCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCC--CCCHHHHH
Q 036637          148 NKDYEAFESRSSTLNNVLRALQ----DPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPH--IPDIRKIQ  221 (250)
Q Consensus       148 ~~~~~~~~gr~~~~~~l~~~L~----~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~--~~~~~~l~  221 (250)
                      +.....++|.+.+++.|++-..    .....-+-+||..|+|||+|++.+.+....++   .+ -|.|+.  -.++.+|+
T Consensus        23 ~~~l~~L~Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y~~~G---LR-lIev~k~~L~~l~~l~   98 (249)
T PF05673_consen   23 PIRLDDLIGIERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEYADQG---LR-LIEVSKEDLGDLPELL   98 (249)
T ss_pred             CCCHHHhcCHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHHhhcC---ce-EEEECHHHhccHHHHH
Confidence            3355678999888877766433    44556667899999999999999998886554   22 244443  24666666


Q ss_pred             HHHH
Q 036637          222 GEIA  225 (250)
Q Consensus       222 ~~i~  225 (250)
                      ..|-
T Consensus        99 ~~l~  102 (249)
T PF05673_consen   99 DLLR  102 (249)
T ss_pred             HHHh
Confidence            5554

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.39  E-value=0.0079  Score=53.05  Aligned_cols=25  Identities=32%  Similarity=0.389  Sum_probs=22.0

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..++.++|.+|+||||++.++....
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA~~~  247 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLAAKY  247 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            5689999999999999999988654

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

Probab=96.39  E-value=0.0063  Score=47.55  Aligned_cols=29  Identities=41%  Similarity=0.574  Sum_probs=24.1

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhcCCCCCC
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFGRDQFFD  204 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd  204 (250)
                      .|.|.|.+|+||||+|+.+.+...+. |.+
T Consensus         2 riiilG~pGaGK~T~A~~La~~~~i~-hls   30 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKLGLP-HLD   30 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCc-EEc
Confidence            47899999999999999999996553 444

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=96.38  E-value=0.012  Score=51.94  Aligned_cols=77  Identities=19%  Similarity=0.248  Sum_probs=49.5

Q ss_pred             CCCcChHHHHHHHHHHhcC--------------CCceEEEEEccCCCCHHHHHHHHHHHhcCC-CCCCeEEEEEcCCC-C
Q 036637          152 EAFESRSSTLNNVLRALQD--------------PDVNMVGIYGMGGIGKTTLAKEVAIQFGRD-QFFDQVIFVEVPHI-P  215 (250)
Q Consensus       152 ~~~~gr~~~~~~l~~~L~~--------------~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~-~~Fd~~~wv~vs~~-~  215 (250)
                      ..++|.+..++.+..++.+              ...+-|-++|+.|+||||||+.+....... -++|..-|...+.. .
T Consensus        15 ~~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l~~~fi~vD~t~f~e~GyvG~   94 (443)
T PRK05201         15 KYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGR   94 (443)
T ss_pred             cccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHhCChheeecchhhccCCcccC
Confidence            3578988888888777642              124678999999999999999998876532 02344434433322 2


Q ss_pred             CHHHHHHHHHHHh
Q 036637          216 DIRKIQGEIADKL  228 (250)
Q Consensus       216 ~~~~l~~~i~~~l  228 (250)
                      +.+.+++.++...
T Consensus        95 d~e~~ir~L~~~A  107 (443)
T PRK05201         95 DVESIIRDLVEIA  107 (443)
T ss_pred             CHHHHHHHHHHHH
Confidence            5555555554443

>TIGR02173 cyt_kin_arch cytidylate kinase, putative

Probab=96.38  E-value=0.0088  Score=45.98  Aligned_cols=24  Identities=42%  Similarity=0.541  Sum_probs=21.6

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhc
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      +|.|.|+.|+||||+|+.+.+...
T Consensus         2 iI~i~G~~GSGKstia~~la~~lg   25 (171)
T TIGR02173         2 IITISGPPGSGKTTVAKILAEKLS   25 (171)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            789999999999999999987654

Proteins in this family are believed to be cytidylate kinase. Members of this family are found in the archaea and in spirochaetes, and differ considerably from the common bacterial form of cytidylate kinase described by TIGR00017.

>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=96.36  E-value=0.0035  Score=48.54  Aligned_cols=23  Identities=43%  Similarity=0.534  Sum_probs=20.0

Q ss_pred             EEEEccCCCCHHHHHHHHHHHhc
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      |.|.|.+|+|||||++.+.+..+
T Consensus         2 i~iTG~pG~GKTTll~k~i~~l~   24 (168)
T PF03266_consen    2 IFITGPPGVGKTTLLKKVIEELK   24 (168)
T ss_dssp             EEEES-TTSSHHHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHHhh
Confidence            67999999999999999998874

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.

>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=96.36  E-value=0.0038  Score=51.20  Aligned_cols=54  Identities=28%  Similarity=0.351  Sum_probs=31.6

Q ss_pred             EEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCC---------CCCHHHHH--HHHHHHhCCCCC
Q 036637          178 IYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPH---------IPDIRKIQ--GEIADKLGLIFF  233 (250)
Q Consensus       178 I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~---------~~~~~~l~--~~i~~~l~~~~~  233 (250)
                      |+|++|+||||+++.+.+.....+  ..++-|..-+         ..|++++.  +++++..++..+
T Consensus         1 ViGpaGSGKTT~~~~~~~~~~~~~--~~~~~vNLDPa~~~~~y~~~iDird~i~~~evm~~~~LGPN   65 (238)
T PF03029_consen    1 VIGPAGSGKTTFCKGLSEWLESNG--RDVYIVNLDPAVENLPYPPDIDIRDLISVEEVMEEYGLGPN   65 (238)
T ss_dssp             -EESTTSSHHHHHHHHHHHHTTT---S-EEEEE--TT-S--SS--SEEGGGT--HHHHHTT-T--HH
T ss_pred             CCCCCCCCHHHHHHHHHHHHHhcc--CCceEEEcchHhcccccCchHHHHhhhhhhhhhhhcCcCCc
Confidence            689999999999999999887543  2344454432         23455553  556666665544

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

Probab=96.36  E-value=0.0086  Score=46.35  Aligned_cols=24  Identities=33%  Similarity=0.598  Sum_probs=21.1

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhc
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ++.++|++|+||||++..+.....
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~~~   25 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALYLK   25 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            688999999999999999887654

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.

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=96.35  E-value=0.01  Score=47.15  Aligned_cols=45  Identities=31%  Similarity=0.375  Sum_probs=32.2

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHH
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQG  222 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~  222 (250)
                      ..+|+|-||=|+||||||+.+-++...+     .++-.|.+++=+..+..
T Consensus         4 ~~~IvI~G~IG~GKSTLa~~La~~l~~~-----~~~E~vednp~L~~FY~   48 (216)
T COG1428           4 AMVIVIEGMIGAGKSTLAQALAEHLGFK-----VFYELVEDNPFLDLFYE   48 (216)
T ss_pred             ccEEEEecccccCHHHHHHHHHHHhCCc-----eeeecccCChHHHHHHH
Confidence            4689999999999999999999988743     33344555544444333

>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]

Probab=96.33  E-value=0.0035  Score=47.85  Aligned_cols=48  Identities=33%  Similarity=0.396  Sum_probs=36.2

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhCCCC
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGLIF  232 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~~l~~~~  232 (250)
                      .+++.|+|.+|+||||+.+.+-... +.   .        +-.|...++-.++...|+..
T Consensus         4 ~kvvvitGVpGvGKTTVl~~~~~~l-~~---~--------~ivNyG~~Mle~A~k~glve   51 (189)
T COG2019           4 RKVVVITGVPGVGKTTVLKIALKEL-VK---H--------KIVNYGDLMLEIAKKKGLVE   51 (189)
T ss_pred             ceEEEEEcCCCCChHHHHHHHHHHH-hh---c--------eeeeHhHHHHHHHHHhCCcc
Confidence            6899999999999999998877655 11   1        11367788888888887764

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=96.33  E-value=0.0035  Score=49.97  Aligned_cols=35  Identities=31%  Similarity=0.259  Sum_probs=27.4

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEE
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFV  209 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv  209 (250)
                      .-.|++|+|+.|+|||||.+.+..-+...   +-.||+
T Consensus        27 ~Gevv~iiGpSGSGKSTlLRclN~LE~~~---~G~I~i   61 (240)
T COG1126          27 KGEVVVIIGPSGSGKSTLLRCLNGLEEPD---SGSITV   61 (240)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCCcCCC---CceEEE
Confidence            45789999999999999999998766543   245555

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=96.32  E-value=0.0032  Score=47.00  Aligned_cols=23  Identities=35%  Similarity=0.647  Sum_probs=20.5

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .|.|+|+.|+|||||++.+....
T Consensus         1 ~i~i~GpsGsGKstl~~~L~~~~   23 (137)
T cd00071           1 LIVLSGPSGVGKSTLLKRLLEEF   23 (137)
T ss_pred             CEEEECCCCCCHHHHHHHHHhcC
Confidence            37899999999999999999764

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.

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=96.31  E-value=0.012  Score=50.78  Aligned_cols=60  Identities=18%  Similarity=0.246  Sum_probs=45.2

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCC---CC-CeEEEEEcCCCCCHHHHHHHHHHHhCCCC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQ---FF-DQVIFVEVPHIPDIRKIQGEIADKLGLIF  232 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~---~F-d~~~wv~vs~~~~~~~l~~~i~~~l~~~~  232 (250)
                      .-.++-|.|.+|+|||+|+..++-......   .- ..++|++...+|.++.+. +|++.++.+.
T Consensus       122 ~g~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~eRl~-qia~~~~~~~  185 (342)
T PLN03186        122 TGSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRLI-QIAERFGLNG  185 (342)
T ss_pred             CceEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHHHHH-HHHHHcCCCh
Confidence            356788999999999999998886544221   11 379999999999988764 5677777653

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=96.31  E-value=0.014  Score=50.02  Aligned_cols=59  Identities=20%  Similarity=0.357  Sum_probs=43.9

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCCCC----CeEEEEEcCCCCCHHHHHHHHHHHhCCC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFF----DQVIFVEVPHIPDIRKIQGEIADKLGLI  231 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~F----d~~~wv~vs~~~~~~~l~~~i~~~l~~~  231 (250)
                      ...++-|+|.+|+|||+++-++.-.......+    ..++|++...+|++..+.+ +++.++.+
T Consensus       101 ~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~-~~~~~g~~  163 (317)
T PRK04301        101 TQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQ-MAEALGLD  163 (317)
T ss_pred             CCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHH-HHHHcCCC
Confidence            46788899999999999999998765432211    4799999999888877653 44556543

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=96.30  E-value=0.013  Score=47.48  Aligned_cols=45  Identities=22%  Similarity=0.363  Sum_probs=34.3

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHH
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRK  219 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~  219 (250)
                      .-.++-|+|.+|+||||++.++......  .-..++|++.. .++.+.
T Consensus        22 ~g~i~~i~G~~GsGKT~l~~~la~~~~~--~~~~v~yi~~e-~~~~~r   66 (225)
T PRK09361         22 RGTITQIYGPPGSGKTNICLQLAVEAAK--NGKKVIYIDTE-GLSPER   66 (225)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH--CCCeEEEEECC-CCCHHH
Confidence            3568999999999999999998876642  24678889887 554443

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=96.29  E-value=0.0091  Score=44.80  Aligned_cols=24  Identities=38%  Similarity=0.519  Sum_probs=20.8

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhc
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      -|-|.|.+|+|||||+..+.....
T Consensus         9 NILvtGTPG~GKstl~~~lae~~~   32 (176)
T KOG3347|consen    9 NILVTGTPGTGKSTLAERLAEKTG   32 (176)
T ss_pred             CEEEeCCCCCCchhHHHHHHHHhC
Confidence            467999999999999999996654

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=96.29  E-value=0.0045  Score=48.07  Aligned_cols=26  Identities=27%  Similarity=0.404  Sum_probs=22.6

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ...|.|+|+.|+||||+++.+.+...
T Consensus         4 ~~~I~liG~~GaGKStl~~~La~~l~   29 (172)
T PRK05057          4 KRNIFLVGPMGAGKSTIGRQLAQQLN   29 (172)
T ss_pred             CCEEEEECCCCcCHHHHHHHHHHHcC
Confidence            34689999999999999999998754

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=96.29  E-value=0.016  Score=47.33  Aligned_cols=55  Identities=20%  Similarity=0.212  Sum_probs=35.6

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhCCC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGLI  231 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~~l~~~  231 (250)
                      .-.++.|.|..|+|||||+.++...... .. ..+++++...  +..++++.+ .++|.+
T Consensus        23 ~g~~~~i~G~~G~GKTtl~~~~~~~~~~-~g-~~~~yi~~e~--~~~~~~~~~-~~~g~~   77 (230)
T PRK08533         23 AGSLILIEGDESTGKSILSQRLAYGFLQ-NG-YSVSYVSTQL--TTTEFIKQM-MSLGYD   77 (230)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHh-CC-CcEEEEeCCC--CHHHHHHHH-HHhCCc
Confidence            3458999999999999997655444321 22 3456776444  456777766 456553

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.28  E-value=0.016  Score=51.70  Aligned_cols=38  Identities=24%  Similarity=0.377  Sum_probs=26.2

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhc-CCCCCCeEEEEEc
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFG-RDQFFDQVIFVEV  211 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~-v~~~Fd~~~wv~v  211 (250)
                      .+++.++|++|+||||++..+..... ... -..+..|+.
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~~~~~~-g~~V~li~~  259 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARYALLYG-KKKVALITL  259 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcC-CCeEEEEEC
Confidence            46999999999999998888765543 222 234445554

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=96.28  E-value=0.01  Score=54.13  Aligned_cols=54  Identities=22%  Similarity=0.368  Sum_probs=40.4

Q ss_pred             CCcChHHHHHHHHHHhcC-----CCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEE
Q 036637          153 AFESRSSTLNNVLRALQD-----PDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVE  210 (250)
Q Consensus       153 ~~~gr~~~~~~l~~~L~~-----~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~  210 (250)
                      .+.-...-++++..||.+     ...+++-+.|++|+||||.++.+.+...    |+.+=|.+
T Consensus        20 eLavhkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~elg----~~v~Ew~n   78 (519)
T PF03215_consen   20 ELAVHKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKELG----FEVQEWIN   78 (519)
T ss_pred             HhhccHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHhC----CeeEEecC
Confidence            344445566777777762     2357899999999999999999998874    77777863

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

Probab=96.28  E-value=0.019  Score=47.56  Aligned_cols=58  Identities=24%  Similarity=0.418  Sum_probs=44.0

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcCCC---CC-CeEEEEEcCCCCCHHHHHHHHHHHhCCC
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGRDQ---FF-DQVIFVEVPHIPDIRKIQGEIADKLGLI  231 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v~~---~F-d~~~wv~vs~~~~~~~l~~~i~~~l~~~  231 (250)
                      -.+.=|+|.+|+|||+|+-+++-......   .. ..++|++-..+|+.+.+. +|+++.+.+
T Consensus        38 g~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~~Rl~-~i~~~~~~~   99 (256)
T PF08423_consen   38 GSITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSPERLQ-QIAERFGLD   99 (256)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-HHHHH-HHHHHTTS-
T ss_pred             CcEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCHHHHH-HHhhccccc
Confidence            45778999999999999999987765532   22 379999999999988875 577776544

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 ....

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=96.27  E-value=0.0072  Score=55.70  Aligned_cols=48  Identities=21%  Similarity=0.277  Sum_probs=39.7

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCC-ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          150 DYEAFESRSSTLNNVLRALQDPD-VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~-~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ....++|++..++.+.+++..+. .+.+-++|+.|+||||+|+.+.+..
T Consensus        14 ~F~dIIGQe~iv~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~lAk~L   62 (605)
T PRK05896         14 NFKQIIGQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAI   62 (605)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            44578899999999999887544 4578899999999999999987665

>COG1763 MobB Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]

Probab=96.26  E-value=0.0047  Score=47.32  Aligned_cols=28  Identities=29%  Similarity=0.495  Sum_probs=23.8

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcCC
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGRD  200 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v~  200 (250)
                      .+|++|+|..|+|||||+..+-...+.+
T Consensus         2 ~~Il~ivG~k~SGKTTLie~lv~~L~~~   29 (161)
T COG1763           2 MKILGIVGYKNSGKTTLIEKLVRKLKAR   29 (161)
T ss_pred             CcEEEEEecCCCChhhHHHHHHHHHHhC
Confidence            4799999999999999999997666433

>PRK01184 hypothetical protein; Provisional

Probab=96.26  E-value=0.014  Score=45.71  Aligned_cols=22  Identities=36%  Similarity=0.739  Sum_probs=18.3

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHH
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      .+|.|+|++|+||||+++ +...
T Consensus         2 ~~i~l~G~~GsGKsT~a~-~~~~   23 (184)
T PRK01184          2 KIIGVVGMPGSGKGEFSK-IARE   23 (184)
T ss_pred             cEEEEECCCCCCHHHHHH-HHHH
Confidence            479999999999999987 4443

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=96.25  E-value=0.0029  Score=50.76  Aligned_cols=26  Identities=31%  Similarity=0.327  Sum_probs=23.0

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      .-|.|+|.+|+|||||+..+..+...
T Consensus         6 ~kivv~G~~g~GKTtl~~~l~~~~~~   31 (219)
T COG1100           6 FKIVVLGDGGVGKTTLLNRLVGDEFP   31 (219)
T ss_pred             EEEEEEcCCCccHHHHHHHHhcCcCc
Confidence            56899999999999999999987754

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=96.25  E-value=0.012  Score=49.31  Aligned_cols=61  Identities=25%  Similarity=0.304  Sum_probs=42.5

Q ss_pred             HHHHHHHhc--CCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHH
Q 036637          161 LNNVLRALQ--DPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQ  221 (250)
Q Consensus       161 ~~~l~~~L~--~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~  221 (250)
                      -.+|+..+.  .....+|+|.|.||+||+||.-.+-.....+++=-.++=|.-|.++.--.|+
T Consensus        37 a~~ll~~l~p~tG~a~viGITG~PGaGKSTli~~L~~~l~~~G~rVaVlAVDPSSp~TGGsiL   99 (323)
T COG1703          37 ARELLRALYPRTGNAHVIGITGVPGAGKSTLIEALGRELRERGHRVAVLAVDPSSPFTGGSIL   99 (323)
T ss_pred             HHHHHHHHhhcCCCCcEEEecCCCCCchHHHHHHHHHHHHHCCcEEEEEEECCCCCCCCcccc
Confidence            355666666  4567899999999999999999988877655443344444445556555554

>PRK04182 cytidylate kinase; Provisional

Probab=96.25  E-value=0.0047  Score=47.94  Aligned_cols=24  Identities=42%  Similarity=0.618  Sum_probs=22.0

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhc
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      +|.|.|+.|+||||+++.+.+...
T Consensus         2 ~I~i~G~~GsGKstia~~la~~lg   25 (180)
T PRK04182          2 IITISGPPGSGKTTVARLLAEKLG   25 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            689999999999999999988764

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

Probab=96.25  E-value=0.014  Score=47.12  Aligned_cols=50  Identities=18%  Similarity=0.284  Sum_probs=36.5

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCC----CCCeEEEEEcCCCCCHHHHH
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQ----FFDQVIFVEVPHIPDIRKIQ  221 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~----~Fd~~~wv~vs~~~~~~~l~  221 (250)
                      .-.++.|+|.+|+|||+|+.++.-......    .=..++|+.....++...+.
T Consensus        18 ~g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~~~~~~rl~   71 (226)
T cd01393          18 TGRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEGAFRPERLV   71 (226)
T ss_pred             CCcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCCCCCHHHHH
Confidence            356899999999999999999876653221    00457888888777765554

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.

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=96.24  E-value=0.0035  Score=48.04  Aligned_cols=22  Identities=32%  Similarity=0.569  Sum_probs=19.7

Q ss_pred             EEEEccCCCCHHHHHHHHHHHh
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      |.++|++|+||||+++.+.+..
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l   22 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRL   22 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999998775

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.

>PRK05439 pantothenate kinase; Provisional

Probab=96.24  E-value=0.0089  Score=50.83  Aligned_cols=27  Identities=26%  Similarity=0.336  Sum_probs=23.6

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..+.+|+|.|.+|+||||+|+.+..-.
T Consensus        84 ~~~~iIgIaG~~gsGKSTla~~L~~~l  110 (311)
T PRK05439         84 KVPFIIGIAGSVAVGKSTTARLLQALL  110 (311)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            467899999999999999999987744

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=96.24  E-value=0.024  Score=53.56  Aligned_cols=49  Identities=22%  Similarity=0.346  Sum_probs=39.9

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCC-ceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          150 DYEAFESRSSTLNNVLRALQDPD-VNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~-~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....++|.+..++.|.+++..+. .+.+-++|..|+||||+++.+.+...
T Consensus        14 tFdEVIGQe~Vv~~L~~aL~~gRL~HAyLFtGPpGvGKTTlAriLAKaLn   63 (830)
T PRK07003         14 DFASLVGQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRIFAKALN   63 (830)
T ss_pred             cHHHHcCcHHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            44578999999999999888655 45667999999999999998776553

>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli []

Probab=96.21  E-value=0.0065  Score=48.46  Aligned_cols=49  Identities=29%  Similarity=0.417  Sum_probs=34.2

Q ss_pred             HHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEE
Q 036637          159 STLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFV  209 (250)
Q Consensus       159 ~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv  209 (250)
                      ..-...++.|.  ...++.+.|++|.|||.||-..--+.-..+.++.++++
T Consensus         7 ~~Q~~~~~al~--~~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~   55 (205)
T PF02562_consen    7 EEQKFALDALL--NNDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIIT   55 (205)
T ss_dssp             HHHHHHHHHHH--H-SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEE
T ss_pred             HHHHHHHHHHH--hCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEE
Confidence            34445566665  56689999999999999999887666555789988877

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

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.21  E-value=0.0041  Score=50.61  Aligned_cols=26  Identities=35%  Similarity=0.382  Sum_probs=22.1

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-..++|+|..|+|||||.+.|..-.
T Consensus        28 ~GEfvsilGpSGcGKSTLLriiAGL~   53 (248)
T COG1116          28 KGEFVAILGPSGCGKSTLLRLIAGLE   53 (248)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45688999999999999999987544

>cd01394 radB RadB

Probab=96.20  E-value=0.017  Score=46.47  Aligned_cols=42  Identities=21%  Similarity=0.425  Sum_probs=30.7

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIP  215 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~  215 (250)
                      .-.++.|.|.+|+||||++.++.......  =..++|++....+
T Consensus        18 ~g~i~~i~G~~GsGKT~l~~~~a~~~~~~--g~~v~yi~~e~~~   59 (218)
T cd01394          18 RGTVTQVYGPPGTGKTNIAIQLAVETAGQ--GKKVAYIDTEGLS   59 (218)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhc--CCeEEEEECCCCC
Confidence            35788999999999999999988765321  2356677665444

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

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=96.20  E-value=0.0043  Score=47.03  Aligned_cols=23  Identities=30%  Similarity=0.486  Sum_probs=20.5

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .|+++|.+|+|||||+..+.++.
T Consensus         2 ki~~~G~~~~GKTsl~~~l~~~~   24 (164)
T cd04139           2 KVIVVGAGGVGKSALTLQFMYDE   24 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            47899999999999999998765

The Ral (Ras-like) subfamily consists of the highly homologous RalA and RalB. Ral proteins are believed to play a crucial role in tumorigenesis, metastasis, endocytosis, and actin cytoskeleton dynamics. Despite their high sequence similarity (80% sequence identity), nonoverlapping and opposing functions have been assigned to RalA and RalBs in tumor migration. In human bladder and prostate cancer cells, RalB promotes migration while RalA inhibits it. A Ral-specific set of GEFs has been identified that are activated by Ras binding. This RalGEF activity is enhanced by Ras binding to another of its target proteins, phosphatidylinositol 3-kinase (PI3K). Ral effectors include RLIP76/RalBP1, a Rac/cdc42 GAP, and the exocyst (Sec6/8) complex, a heterooctomeric protein complex that is involved in tethering vesicles to specific sites on the plasma membrane prior to exocytosis. In rat kidney cells, RalB is required for functional assembly of the exo

>PRK14974 cell division protein FtsY; Provisional

Probab=96.19  E-value=0.015  Score=50.03  Aligned_cols=59  Identities=22%  Similarity=0.271  Sum_probs=38.5

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCH--HHHHHHHHHHhCCCC
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDI--RKIQGEIADKLGLIF  232 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~--~~l~~~i~~~l~~~~  232 (250)
                      ..+.+|.++|+.|+||||++..+...... ..+. ++.+. ..++..  .+-++....+++.+.
T Consensus       138 ~~~~vi~~~G~~GvGKTTtiakLA~~l~~-~g~~-V~li~-~Dt~R~~a~eqL~~~a~~lgv~v  198 (336)
T PRK14974        138 GKPVVIVFVGVNGTGKTTTIAKLAYYLKK-NGFS-VVIAA-GDTFRAGAIEQLEEHAERLGVKV  198 (336)
T ss_pred             CCCeEEEEEcCCCCCHHHHHHHHHHHHHH-cCCe-EEEec-CCcCcHHHHHHHHHHHHHcCCce
Confidence            34789999999999999988888766543 2343 33333 334433  333566777887764

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=96.19  E-value=0.0058  Score=48.57  Aligned_cols=25  Identities=28%  Similarity=0.361  Sum_probs=22.6

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..+|.|.|.+|+||||+++.+....
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~~~   27 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIARHR   27 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999999998875

>TIGR00041 DTMP_kinase thymidylate kinase

Probab=96.18  E-value=0.019  Score=45.22  Aligned_cols=26  Identities=31%  Similarity=0.363  Sum_probs=23.3

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      ..|+|.|..|+||||+++.+.+....
T Consensus         4 ~~IvieG~~GsGKsT~~~~L~~~l~~   29 (195)
T TIGR00041         4 MFIVIEGIDGAGKTTQANLLKKLLQE   29 (195)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            57899999999999999999987764

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.

>PF13245 AAA_19: Part of AAA domain

Probab=96.17  E-value=0.014  Score=38.75  Aligned_cols=26  Identities=35%  Similarity=0.414  Sum_probs=19.4

Q ss_pred             CceEEEEEccCCCCHH-HHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKT-TLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKT-tLa~~v~~~~  197 (250)
                      +.++..|.|.+|.||| |++..+.+-.
T Consensus         9 ~~~~~vv~g~pGtGKT~~~~~~i~~l~   35 (76)
T PF13245_consen    9 GSPLFVVQGPPGTGKTTTLAARIAELL   35 (76)
T ss_pred             hCCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            4567788999999999 5555555555

>PRK14737 gmk guanylate kinase; Provisional

Probab=96.17  E-value=0.0053  Score=48.38  Aligned_cols=26  Identities=19%  Similarity=0.276  Sum_probs=23.0

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ...+|.|+|++|+|||||++.+....
T Consensus         3 ~~~~ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          3 SPKLFIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhcC
Confidence            46789999999999999999998754

>PLN02200 adenylate kinase family protein

Probab=96.17  E-value=0.0065  Score=49.68  Aligned_cols=27  Identities=26%  Similarity=0.352  Sum_probs=23.6

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .+.+|.|.|++|+||||+++.+.....
T Consensus        42 ~~~ii~I~G~PGSGKsT~a~~La~~~g   68 (234)
T PLN02200         42 TPFITFVLGGPGSGKGTQCEKIVETFG   68 (234)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHhC
Confidence            467899999999999999999987664

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.16  E-value=0.01  Score=51.77  Aligned_cols=49  Identities=24%  Similarity=0.407  Sum_probs=40.6

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCCc-eEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          150 DYEAFESRSSTLNNVLRALQDPDV-NMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~~-~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....++|.+...+.+.+.+.+..+ +.+-++|+.|+||||+|+.+.+...
T Consensus        15 ~~~~iig~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~la~~l~   64 (367)
T PRK14970         15 TFDDVVGQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKIN   64 (367)
T ss_pred             cHHhcCCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            445678999999999998886554 5788999999999999999977653

>PRK13946 shikimate kinase; Provisional

Probab=96.16  E-value=0.0057  Score=48.02  Aligned_cols=26  Identities=31%  Similarity=0.538  Sum_probs=23.0

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .+.|.++|+.|+||||+++.+.+...
T Consensus        10 ~~~I~l~G~~GsGKsti~~~LA~~Lg   35 (184)
T PRK13946         10 KRTVVLVGLMGAGKSTVGRRLATMLG   35 (184)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHcC
Confidence            35799999999999999999998764

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

Probab=96.16  E-value=0.011  Score=52.16  Aligned_cols=48  Identities=29%  Similarity=0.299  Sum_probs=37.2

Q ss_pred             cCCCcChHHHHHHHHHHhc----C---------CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          151 YEAFESRSSTLNNVLRALQ----D---------PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       151 ~~~~~gr~~~~~~l~~~L~----~---------~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ..++.|.+..+++|.+.+.    .         ..++-+-++|.+|+|||+||+.+.+...
T Consensus       144 ~~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l~  204 (398)
T PTZ00454        144 YSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTT  204 (398)
T ss_pred             HHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcC
Confidence            4467888888777776553    1         2456788999999999999999998764

>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=96.15  E-value=0.0098  Score=45.55  Aligned_cols=35  Identities=17%  Similarity=0.350  Sum_probs=29.0

Q ss_pred             HHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          160 TLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       160 ~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .++.|.++|.+   +++.++|..|+|||||+..+..+.
T Consensus        25 g~~~l~~~l~~---k~~vl~G~SGvGKSSLiN~L~~~~   59 (161)
T PF03193_consen   25 GIEELKELLKG---KTSVLLGQSGVGKSSLINALLPEA   59 (161)
T ss_dssp             THHHHHHHHTT---SEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CHHHHHHHhcC---CEEEEECCCCCCHHHHHHHHHhhc
Confidence            35677776654   889999999999999999998774

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.

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=96.15  E-value=0.015  Score=47.79  Aligned_cols=40  Identities=25%  Similarity=0.422  Sum_probs=30.2

Q ss_pred             HHHHHHHHhc--CCCceEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          160 TLNNVLRALQ--DPDVNMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       160 ~~~~l~~~L~--~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      ....+++.+.  ..+..+|+|.|.+|+||+||+..+-.....
T Consensus        14 ~~~~ll~~l~~~~g~a~~iGiTG~PGaGKSTli~~l~~~~~~   55 (266)
T PF03308_consen   14 EARELLKRLYPHTGRAHVIGITGPPGAGKSTLIDALIRELRE   55 (266)
T ss_dssp             HHHHHHHHHGGGTT-SEEEEEEE-TTSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhcCCceEEEeeCCCCCcHHHHHHHHHHHHhh
Confidence            4556666666  346789999999999999999998777754

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.

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.14  E-value=0.0087  Score=55.61  Aligned_cols=48  Identities=21%  Similarity=0.298  Sum_probs=40.2

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCC-ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          150 DYEAFESRSSTLNNVLRALQDPD-VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~-~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ....++|.+..++.|..++..+. .+.+-++|..|+||||+|+.+.+..
T Consensus        13 tFddVIGQe~vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlAriLAK~L   61 (702)
T PRK14960         13 NFNELVGQNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCL   61 (702)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            44578999999999999888665 4677899999999999999887665

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=96.14  E-value=0.0047  Score=50.06  Aligned_cols=26  Identities=38%  Similarity=0.413  Sum_probs=21.8

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..=.
T Consensus        32 ~Ge~lgivGeSGsGKSTL~r~l~Gl~   57 (252)
T COG1124          32 RGETLGIVGESGSGKSTLARLLAGLE   57 (252)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhccc
Confidence            45688999999999999999986433

>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems

Probab=96.13  E-value=0.0045  Score=45.82  Aligned_cols=26  Identities=38%  Similarity=0.445  Sum_probs=22.3

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      -.+++|+|..|+|||||.+.++....
T Consensus        11 g~~~~i~G~nGsGKStLl~~l~g~~~   36 (137)
T PF00005_consen   11 GEIVAIVGPNGSGKSTLLKALAGLLP   36 (137)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHTTSSH
T ss_pred             CCEEEEEccCCCccccceeeeccccc
Confidence            35789999999999999999886553

ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....

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

Probab=96.12  E-value=0.0049  Score=46.69  Aligned_cols=24  Identities=25%  Similarity=0.491  Sum_probs=21.2

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhc
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      +|.|+|.+|+|||||++.+.....
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~~l~   24 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEKLF   24 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHH
Confidence            578999999999999999887763

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

>PRK13948 shikimate kinase; Provisional

Probab=96.12  E-value=0.0071  Score=47.45  Aligned_cols=28  Identities=25%  Similarity=0.356  Sum_probs=24.1

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .....|.++||.|+||||+++.+.+...
T Consensus         8 ~~~~~I~LiG~~GsGKSTvg~~La~~lg   35 (182)
T PRK13948          8 RPVTWVALAGFMGTGKSRIGWELSRALM   35 (182)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHcC
Confidence            4567899999999999999999987653

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=96.12  E-value=0.01  Score=51.14  Aligned_cols=48  Identities=21%  Similarity=0.364  Sum_probs=38.7

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          150 DYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      +...++|.+..++.++-.+.+.+.+-+-+.|..|+||||+|+.+-+-.
T Consensus         6 ~f~~i~Gq~~~~~~l~~~~~~~~~~~vLl~G~pG~gKT~lar~la~ll   53 (334)
T PRK13407          6 PFSAIVGQEEMKQAMVLTAIDPGIGGVLVFGDRGTGKSTAVRALAALL   53 (334)
T ss_pred             CHHHhCCHHHHHHHHHHHHhccCCCcEEEEcCCCCCHHHHHHHHHHHC
Confidence            455688999988888876766666668899999999999999985543

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=96.11  E-value=0.019  Score=49.13  Aligned_cols=59  Identities=19%  Similarity=0.246  Sum_probs=42.8

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCC---C-CCCeEEEEEcCCCCCHHHHHHHHHHHhCCC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRD---Q-FFDQVIFVEVPHIPDIRKIQGEIADKLGLI  231 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~---~-~Fd~~~wv~vs~~~~~~~l~~~i~~~l~~~  231 (250)
                      ...++-|.|.+|+|||||+..++......   . .-..++|++....|+...+ ..+++.++.+
T Consensus        95 ~g~i~~i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~~f~~~Rl-~~ia~~~~~~  157 (316)
T TIGR02239        95 TGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPERL-LAIAERYGLN  157 (316)
T ss_pred             CCeEEEEECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCCCCCHHHH-HHHHHHcCCC
Confidence            46788999999999999999988644321   1 1236799999888888764 4456666554

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).

>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse

Probab=96.11  E-value=0.0047  Score=44.37  Aligned_cols=21  Identities=33%  Similarity=0.496  Sum_probs=19.6

Q ss_pred             EEEEccCCCCHHHHHHHHHHH
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~  196 (250)
                      |+|+|+.|+|||||...+.+.
T Consensus         2 V~iiG~~~~GKSTlin~l~~~   22 (116)
T PF01926_consen    2 VAIIGRPNVGKSTLINALTGK   22 (116)
T ss_dssp             EEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhcc
Confidence            789999999999999999974

These proteins represent a new subfamily of GTP-binding proteins that has both prokaryote and eukaryote members [].; GO: 0005525 GTP binding, 0005622 intracellular; PDB: 2DWQ_B 2DBY_A 3CNN_A 3CNO_A 3CNL_A 3IBY_A 1PUI_B 1WXQ_A 1LNZ_A 3GEE_A ....

>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=96.09  E-value=0.014  Score=49.83  Aligned_cols=49  Identities=24%  Similarity=0.390  Sum_probs=36.6

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHH
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGE  223 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~  223 (250)
                      .+++.+.|.||+||||+|-..--.....  .....-|++.+.+++.+++..
T Consensus         2 ~riv~f~GKGGVGKTT~aaA~A~~lA~~--g~kvLlvStDPAhsL~d~f~~   50 (322)
T COG0003           2 TRIVFFTGKGGVGKTTIAAATAVKLAES--GKKVLLVSTDPAHSLGDVFDL   50 (322)
T ss_pred             cEEEEEecCCcccHHHHHHHHHHHHHHc--CCcEEEEEeCCCCchHhhhcc
Confidence            4788999999999999998844333322  244777888888888888765

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=96.09  E-value=0.006  Score=43.37  Aligned_cols=22  Identities=50%  Similarity=0.446  Sum_probs=19.9

Q ss_pred             ceEEEEEccCCCCHHHHHHHHH
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVA  194 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~  194 (250)
                      -..++|+|..|+|||||++.+.
T Consensus        15 ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          15 KVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             CEEEEEEcCCCCCHHHHHHHhh
Confidence            4678999999999999999976

It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural

>PRK09825 idnK D-gluconate kinase; Provisional

Probab=96.09  E-value=0.006  Score=47.60  Aligned_cols=26  Identities=23%  Similarity=0.442  Sum_probs=23.0

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      .++.|+|..|+|||||++.+......
T Consensus         4 e~i~l~G~sGsGKSTl~~~la~~l~~   29 (176)
T PRK09825          4 ESYILMGVSGSGKSLIGSKIAALFSA   29 (176)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhcCC
Confidence            57899999999999999999987653

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.09  E-value=0.032  Score=48.73  Aligned_cols=60  Identities=22%  Similarity=0.298  Sum_probs=39.5

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCC-CCCHHHHHHHHHHHhCCCCC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPH-IPDIRKIQGEIADKLGLIFF  233 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~-~~~~~~l~~~i~~~l~~~~~  233 (250)
                      +.+++.++|..|+||||++..+......++  ..+.+++... .....+-++...+.++.+..
T Consensus       205 ~~~ii~lvGptGvGKTTt~akLA~~l~~~g--~~V~lItaDtyR~gAveQLk~yae~lgvpv~  265 (407)
T PRK12726        205 NHRIISLIGQTGVGKTTTLVKLGWQLLKQN--RTVGFITTDTFRSGAVEQFQGYADKLDVELI  265 (407)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcC--CeEEEEeCCccCccHHHHHHHHhhcCCCCEE
Confidence            567999999999999999999887653322  2455555432 22334445666777776643

>PRK14738 gmk guanylate kinase; Provisional

Probab=96.08  E-value=0.0062  Score=48.77  Aligned_cols=25  Identities=24%  Similarity=0.345  Sum_probs=22.1

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHH
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      ..+.|.|+|.+|+|||||++.+.+.
T Consensus        12 ~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738         12 KPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHhc
Confidence            5678899999999999999999754

>PRK00698 tmk thymidylate kinase; Validated

Probab=96.08  E-value=0.021  Score=45.33  Aligned_cols=26  Identities=23%  Similarity=0.351  Sum_probs=23.1

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      .+|+|.|+.|+||||+++.+.+....
T Consensus         4 ~~I~ieG~~gsGKsT~~~~L~~~l~~   29 (205)
T PRK00698          4 MFITIEGIDGAGKSTQIELLKELLEQ   29 (205)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            68999999999999999999987643

>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop

Probab=96.08  E-value=0.011  Score=43.24  Aligned_cols=30  Identities=30%  Similarity=0.391  Sum_probs=24.6

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhcCC
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFGRD  200 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~  200 (250)
                      .+-.||.+.|.-|+||||+++.+..-..+.
T Consensus        13 ~~g~vi~L~GdLGaGKTtf~r~l~~~lg~~   42 (123)
T PF02367_consen   13 KPGDVILLSGDLGAGKTTFVRGLARALGID   42 (123)
T ss_dssp             SS-EEEEEEESTTSSHHHHHHHHHHHTT--
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHcCCC
Confidence            455899999999999999999999887654

They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=96.08  E-value=0.0088  Score=54.88  Aligned_cols=47  Identities=28%  Similarity=0.406  Sum_probs=38.9

Q ss_pred             cCCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          151 YEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       151 ~~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ...++|.+...+.+...+......-+-|+|..|+||||+|+.+++..
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            34688999888888888776666667899999999999999998753

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.

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.07  E-value=0.0099  Score=53.71  Aligned_cols=46  Identities=17%  Similarity=0.345  Sum_probs=37.9

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCCc-eEEEEEccCCCCHHHHHHHHHH
Q 036637          150 DYEAFESRSSTLNNVLRALQDPDV-NMVGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~~-~vi~I~G~gGvGKTtLa~~v~~  195 (250)
                      ....++|.+..++.|.+.+..+.+ +.+-++|..|+||||+|+.+..
T Consensus        11 ~f~dliGQe~vv~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~ArilAk   57 (491)
T PRK14964         11 SFKDLVGQDVLVRILRNAFTLNKIPQSILLVGASGVGKTTCARIISL   57 (491)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCccHHHHHHHHHH
Confidence            445788999888888888776655 4788999999999999998865

>PTZ00035 Rad51 protein; Provisional

Probab=96.07  E-value=0.03  Score=48.35  Aligned_cols=59  Identities=19%  Similarity=0.276  Sum_probs=42.8

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCC---C-CCCeEEEEEcCCCCCHHHHHHHHHHHhCCC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRD---Q-FFDQVIFVEVPHIPDIRKIQGEIADKLGLI  231 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~---~-~Fd~~~wv~vs~~~~~~~l~~~i~~~l~~~  231 (250)
                      .-.++.|+|.+|+|||||+..++-..+..   . .=..++|+....+|+++.+ ..++++++.+
T Consensus       117 ~G~iteI~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE~~f~~eri-~~ia~~~g~~  179 (337)
T PTZ00035        117 TGSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEGTFRPERI-VQIAERFGLD  179 (337)
T ss_pred             CCeEEEEECCCCCchhHHHHHHHHHhccccccCCCCceEEEEEccCCCCHHHH-HHHHHHhCCC
Confidence            35788899999999999999988665421   1 1136779998888888774 4456666654

>PRK06761 hypothetical protein; Provisional

Probab=96.07  E-value=0.0094  Score=49.97  Aligned_cols=33  Identities=24%  Similarity=0.338  Sum_probs=26.5

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEE
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVI  207 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~  207 (250)
                      .+|.|.|.+|+||||+++.+.+.... ..++...
T Consensus         4 ~lIvI~G~~GsGKTTla~~L~~~L~~-~g~~v~~   36 (282)
T PRK06761          4 KLIIIEGLPGFGKSTTAKMLNDILSQ-NGIEVEL   36 (282)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhcCc-CceEEEE
Confidence            57999999999999999999988753 2444444

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=96.07  E-value=0.005  Score=47.24  Aligned_cols=21  Identities=38%  Similarity=0.434  Sum_probs=17.9

Q ss_pred             EEEEccCCCCHHHHHHHHHHH
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~  196 (250)
                      |+|+|..|+|||||++.+...
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

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=96.06  E-value=0.02  Score=48.25  Aligned_cols=24  Identities=33%  Similarity=0.372  Sum_probs=19.7

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhc
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      -+-++|.+|+||||+|+.+..-..
T Consensus        60 ~vll~G~pGTGKT~lA~~ia~~l~   83 (284)
T TIGR02880        60 HMSFTGNPGTGKTTVALRMAQILH   83 (284)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHHH
Confidence            577999999999999977765543

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.

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=96.06  E-value=0.019  Score=49.84  Aligned_cols=51  Identities=20%  Similarity=0.166  Sum_probs=41.9

Q ss_pred             CCCcCCCcChHHHHHHHHHHhcCCC-ceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          148 NKDYEAFESRSSTLNNVLRALQDPD-VNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       148 ~~~~~~~~gr~~~~~~l~~~L~~~~-~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      |.....++|.+.....+...+.... .+.+-++|..|+||||+|..+.+..-
T Consensus        19 P~~~~~l~Gh~~a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA~~Ll   70 (351)
T PRK09112         19 PSENTRLFGHEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHIL   70 (351)
T ss_pred             CCchhhccCcHHHHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHHHHHc
Confidence            3356678999999999999887654 45788999999999999998777663

>COG3899 Predicted ATPase [General function prediction only]

Probab=96.05  E-value=0.03  Score=54.22  Aligned_cols=75  Identities=21%  Similarity=0.321  Sum_probs=52.0

Q ss_pred             CcChHHHHHHHHHHhc---CCCceEEEEEccCCCCHHHHHHHHHHHhcCC-CCCCeEEEEEcCCC---CCHHHHHHHHHH
Q 036637          154 FESRSSTLNNVLRALQ---DPDVNMVGIYGMGGIGKTTLAKEVAIQFGRD-QFFDQVIFVEVPHI---PDIRKIQGEIAD  226 (250)
Q Consensus       154 ~~gr~~~~~~l~~~L~---~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~-~~Fd~~~wv~vs~~---~~~~~l~~~i~~  226 (250)
                      ++||+.+.+.|...+.   .....++.+.|..|+|||+|++.|.....-+ +.|=.-.+-....+   ....+.+++++.
T Consensus         2 l~GRe~ev~~Ll~~f~~v~~g~~~~~lv~G~sGIGKsalv~ev~~~i~~~~~~~i~~~f~q~~~~ipl~~lvq~~r~l~~   81 (849)
T COG3899           2 LYGRETELAQLLAAFDRVSKGRGEVVLVAGESGIGKSALVNEVHKPITQQRGYFIKGKFDQFERNIPLSPLVQAFRDLMG   81 (849)
T ss_pred             CCchHhHHHHHHHHHHHHhCCCeEEEEEeecCCCcHHHHHHHHHHHHhccceeeeHhhcccccCCCchHHHHHHHHHHHH
Confidence            6899999999988877   4456799999999999999999999877543 22211111111222   245566777777


Q ss_pred             Hh
Q 036637          227 KL  228 (250)
Q Consensus       227 ~l  228 (250)
                      ++
T Consensus        82 ~l   83 (849)
T COG3899          82 QL   83 (849)
T ss_pred             HH
Confidence            77

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=96.05  E-value=0.049  Score=44.53  Aligned_cols=53  Identities=17%  Similarity=0.298  Sum_probs=37.2

Q ss_pred             CceEEEEEccCCCCHHHHHHHHH-HHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhCC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVA-IQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGL  230 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~-~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~~l~~  230 (250)
                      .-.++-|.|.+|+|||+|+.++. +-.+   .-..++||+...+  +.++.+.+ .+++.
T Consensus        20 ~gs~~lI~G~pGsGKT~la~~~l~~~~~---~ge~~lyvs~ee~--~~~i~~~~-~~~g~   73 (237)
T TIGR03877        20 ERNVVLLSGGPGTGKSIFSQQFLWNGLQ---MGEPGIYVALEEH--PVQVRRNM-AQFGW   73 (237)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHHH---cCCcEEEEEeeCC--HHHHHHHH-HHhCC
Confidence            45788999999999999998854 4442   2457889988764  55565553 34443

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.

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

Probab=96.04  E-value=0.0054  Score=50.58  Aligned_cols=24  Identities=33%  Similarity=0.688  Sum_probs=20.9

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhc
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .|.++|++|+||||+|+.+.....
T Consensus         1 LIvl~G~pGSGKST~a~~La~~l~   24 (249)
T TIGR03574         1 LIILTGLPGVGKSTFSKELAKKLS   24 (249)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHH
Confidence            378999999999999999987664

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.

>PLN02796 D-glycerate 3-kinase

Probab=96.03  E-value=0.0068  Score=52.09  Aligned_cols=28  Identities=32%  Similarity=0.388  Sum_probs=24.7

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      .+-+|+|.|..|+|||||++.+..-...
T Consensus        99 ~pliIGI~G~sGSGKSTLa~~L~~lL~~  126 (347)
T PLN02796         99 PPLVIGISAPQGCGKTTLVFALVYLFNA  126 (347)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHhcc
Confidence            5678999999999999999999987753

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.03  E-value=0.029  Score=52.17  Aligned_cols=49  Identities=22%  Similarity=0.402  Sum_probs=40.6

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCCc-eEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          150 DYEAFESRSSTLNNVLRALQDPDV-NMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~~-~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....++|.+..++.|.+++..+.+ +.+-++|..|+||||+|+.+.+...
T Consensus        14 tFddVIGQe~vv~~L~~al~~gRLpHA~LFtGP~GvGKTTLAriLAkaLn   63 (700)
T PRK12323         14 DFTTLVGQEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRILAKSLN   63 (700)
T ss_pred             cHHHHcCcHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhc
Confidence            445789999999999999886654 5668999999999999999876653

>PLN02165 adenylate isopentenyltransferase

Probab=96.02  E-value=0.0093  Score=51.03  Aligned_cols=31  Identities=32%  Similarity=0.433  Sum_probs=26.3

Q ss_pred             hcCCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          168 LQDPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       168 L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      +.+....+|+|+|+.|+|||||+..+.....
T Consensus        38 ~~~~~g~iivIiGPTGSGKStLA~~LA~~l~   68 (334)
T PLN02165         38 EQNCKDKVVVIMGATGSGKSRLSVDLATRFP   68 (334)
T ss_pred             ccCCCCCEEEEECCCCCcHHHHHHHHHHHcC
Confidence            4566667999999999999999999988753

>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional

Probab=96.01  E-value=0.0072  Score=50.57  Aligned_cols=27  Identities=26%  Similarity=0.420  Sum_probs=23.8

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhcCC
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFGRD  200 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~v~  200 (250)
                      ++|+|+|.+|+|||||+..+.....-+
T Consensus         2 ~~i~i~G~~gSGKTTLi~~Li~~L~~~   28 (274)
T PRK14493          2 KVLSIVGYKATGKTTLVERLVDRLSGR   28 (274)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHhC
Confidence            589999999999999999998887644

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=96.01  E-value=0.016  Score=52.72  Aligned_cols=50  Identities=24%  Similarity=0.276  Sum_probs=34.5

Q ss_pred             CcCCCcChHHHHHHHHHHh---cC---------CCceEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          150 DYEAFESRSSTLNNVLRAL---QD---------PDVNMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L---~~---------~~~~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      ...++.|.+..++++.+.+   .+         ..++-+-++|++|+|||+||+.+.+...+
T Consensus        53 ~~~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~~~  114 (495)
T TIGR01241        53 TFKDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGV  114 (495)
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCC
Confidence            3456778776665554433   22         12344779999999999999999987643

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.

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.01  E-value=0.041  Score=48.37  Aligned_cols=61  Identities=20%  Similarity=0.228  Sum_probs=39.1

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCC-CC-CeEEEEEcCCCCCH--HHHHHHHHHHhCCCCC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQ-FF-DQVIFVEVPHIPDI--RKIQGEIADKLGLIFF  233 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~-~F-d~~~wv~vs~~~~~--~~l~~~i~~~l~~~~~  233 (250)
                      ...+|.++|..|+||||.+..+........ +- ..+..++.. ++..  .+-++...+.++.|..
T Consensus       173 ~~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~D-t~R~aa~eQL~~~a~~lgvpv~  237 (388)
T PRK12723        173 KKRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITID-NYRIGAKKQIQTYGDIMGIPVK  237 (388)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEecc-CccHHHHHHHHHHhhcCCcceE
Confidence            467999999999999999988877654321 11 234444443 3332  3336677777777754

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.00  E-value=0.043  Score=50.32  Aligned_cols=48  Identities=23%  Similarity=0.383  Sum_probs=39.5

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCCc-eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          150 DYEAFESRSSTLNNVLRALQDPDV-NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~~-~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ....++|.+..++.|..++..+.+ +.+-++|..|+||||+|+.+....
T Consensus        14 ~f~divGq~~v~~~L~~~i~~~~~~ha~Lf~Gp~G~GKTt~A~~lAk~l   62 (527)
T PRK14969         14 SFSELVGQEHVVRALTNALEQQRLHHAYLFTGTRGVGKTTLARILAKSL   62 (527)
T ss_pred             cHHHhcCcHHHHHHHHHHHHcCCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            345678999999999998887655 466899999999999999987665

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.00  E-value=0.038  Score=52.41  Aligned_cols=71  Identities=17%  Similarity=0.147  Sum_probs=44.5

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCC--HHHHHHHHHHHhCCCCCC-CCHHHHHHHH
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPD--IRKIQGEIADKLGLIFFE-ETESGRARSL  244 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~--~~~l~~~i~~~l~~~~~~-~~~~~~~~~l  244 (250)
                      ..+|.++|..|+||||.+..+.........-+.+..++. .++.  ..+-++...+.++.+... .+..+..+.|
T Consensus       185 g~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~-Dt~RigA~eQL~~~a~~~gvpv~~~~~~~~l~~al  258 (767)
T PRK14723        185 GGVLALVGPTGVGKTTTTAKLAARCVAREGADQLALLTT-DSFRIGALEQLRIYGRILGVPVHAVKDAADLRFAL  258 (767)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecC-cccchHHHHHHHHHHHhCCCCccccCCHHHHHHHH
Confidence            479999999999999999988876632211234444443 3343  455567777888877653 3344433333

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=96.00  E-value=0.015  Score=50.35  Aligned_cols=48  Identities=19%  Similarity=0.291  Sum_probs=39.8

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCC-ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          150 DYEAFESRSSTLNNVLRALQDPD-VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~-~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ....++|.+..++.+.+++.+.. .+.+-++|.+|+||||+|+.+....
T Consensus        12 ~~~~iig~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~l   60 (355)
T TIGR02397        12 TFEDVIGQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKAL   60 (355)
T ss_pred             cHhhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            44567899999999999887655 4567899999999999998887664

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.

>cd02022 DPCK Dephospho-coenzyme A kinase (DPCK, EC 2

Probab=95.99  E-value=0.0058  Score=47.76  Aligned_cols=21  Identities=38%  Similarity=0.534  Sum_probs=19.5

Q ss_pred             EEEEEccCCCCHHHHHHHHHH
Q 036637          175 MVGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~  195 (250)
                      +|+|+|+.|+||||+++.+.+
T Consensus         1 ii~itG~~gsGKst~~~~l~~   21 (179)
T cd02022           1 IIGLTGGIGSGKSTVAKLLKE   21 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999999887

7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis.

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

Probab=95.99  E-value=0.015  Score=51.96  Aligned_cols=48  Identities=29%  Similarity=0.378  Sum_probs=36.6

Q ss_pred             cCCCcChHHHHHHHHHHhc----C---------CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          151 YEAFESRSSTLNNVLRALQ----D---------PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       151 ~~~~~gr~~~~~~l~~~L~----~---------~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ..++.|.+..++++.+.+.    +         ....-+.++|.+|+|||++|+.|.+...
T Consensus       182 ~~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el~  242 (438)
T PTZ00361        182 YADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETS  242 (438)
T ss_pred             HHHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhhC
Confidence            3456788888887777653    1         2345577999999999999999999764

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.99  E-value=0.011  Score=55.02  Aligned_cols=48  Identities=21%  Similarity=0.299  Sum_probs=39.3

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCCc-eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          150 DYEAFESRSSTLNNVLRALQDPDV-NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~~-~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ....++|.+..+..|.+++.++.+ +.+-++|+.|+||||+|+.+.+..
T Consensus        14 ~f~eivGQe~i~~~L~~~i~~~ri~ha~Lf~Gp~GvGKttlA~~lAk~L   62 (620)
T PRK14954         14 KFADITAQEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAARVFAKAV   62 (620)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHh
Confidence            445788999999999888876554 568899999999999998877665

>PRK05642 DNA replication initiation factor; Validated

Probab=95.98  E-value=0.036  Score=45.33  Aligned_cols=38  Identities=13%  Similarity=0.517  Sum_probs=28.7

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcC
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVP  212 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs  212 (250)
                      ...+.|+|..|+|||.|++.+++....+  -..++|++..
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~~~~~~--~~~v~y~~~~   82 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACLRFEQR--GEPAVYLPLA   82 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHhC--CCcEEEeeHH
Confidence            3678999999999999999998865422  1345677664

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=95.98  E-value=0.041  Score=45.76  Aligned_cols=56  Identities=27%  Similarity=0.255  Sum_probs=34.9

Q ss_pred             HHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHH
Q 036637          159 STLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQ  221 (250)
Q Consensus       159 ~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~  221 (250)
                      .-++.++.++... . -+-+.|.+|+|||+||+.+.+...    . ..++++.+...+..+++
T Consensus         9 ~l~~~~l~~l~~g-~-~vLL~G~~GtGKT~lA~~la~~lg----~-~~~~i~~~~~~~~~dll   64 (262)
T TIGR02640         9 RVTSRALRYLKSG-Y-PVHLRGPAGTGKTTLAMHVARKRD----R-PVMLINGDAELTTSDLV   64 (262)
T ss_pred             HHHHHHHHHHhcC-C-eEEEEcCCCCCHHHHHHHHHHHhC----C-CEEEEeCCccCCHHHHh
Confidence            3455566655543 2 345899999999999999986332    1 23445555555555443

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).

>TIGR00602 rad24 checkpoint protein rad24

Probab=95.98  E-value=0.011  Score=55.19  Aligned_cols=51  Identities=20%  Similarity=0.270  Sum_probs=40.9

Q ss_pred             CCCcCCCcChHHHHHHHHHHhcC-----CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          148 NKDYEAFESRSSTLNNVLRALQD-----PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       148 ~~~~~~~~gr~~~~~~l~~~L~~-----~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      |.....++|.+..++++..++.+     ...+++.++|.+|+||||+++.+.+...
T Consensus        80 P~~ldel~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l~  135 (637)
T TIGR00602        80 PETQHELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKELG  135 (637)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHhh
Confidence            34556788988888888888773     2345799999999999999999987653

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

>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP)

Probab=95.98  E-value=0.0068  Score=47.67  Aligned_cols=23  Identities=35%  Similarity=0.548  Sum_probs=20.8

Q ss_pred             EEEEccCCCCHHHHHHHHHHHhc
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      |.|.|++|+||||+++.+.....
T Consensus         2 I~i~G~pGsGKst~a~~La~~~~   24 (194)
T cd01428           2 ILLLGPPGSGKGTQAERLAKKYG   24 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcC
Confidence            78999999999999999988754

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>cd03116 MobB Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes

Probab=95.97  E-value=0.0079  Score=46.12  Aligned_cols=26  Identities=31%  Similarity=0.560  Sum_probs=23.1

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      .+++|+|..|+|||||+..+......
T Consensus         2 ~vi~i~G~~gsGKTTli~~L~~~l~~   27 (159)
T cd03116           2 KVIGFVGYSGSGKTTLLEKLIPALSA   27 (159)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            58999999999999999999987653

In E. coli, the synthesis of Moco involves genes from several loci: moa, mob, mod, moe and mog. The mob locus contains mobA and mobB genes. MobB catalyzes the attachment of the guanine dinucleotide to molybdopterin.

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=95.97  E-value=0.0059  Score=50.35  Aligned_cols=28  Identities=39%  Similarity=0.525  Sum_probs=24.0

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      +.-.+++|+|+.|+|||||.+.++.-.+
T Consensus        26 ~~G~i~~iiGpNG~GKSTLLk~l~g~l~   53 (258)
T COG1120          26 PKGEITGILGPNGSGKSTLLKCLAGLLK   53 (258)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhccCC
Confidence            3567899999999999999999998543

>PRK06620 hypothetical protein; Validated

Probab=95.96  E-value=0.0061  Score=49.13  Aligned_cols=25  Identities=28%  Similarity=0.065  Sum_probs=21.8

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ..+-++|.+|+|||+|++.+++...
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~~   69 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLSN   69 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhccC
Confidence            5689999999999999999877653

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=95.96  E-value=0.015  Score=50.02  Aligned_cols=38  Identities=26%  Similarity=0.479  Sum_probs=29.6

Q ss_pred             HHHHHHHhc--CCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          161 LNNVLRALQ--DPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       161 ~~~l~~~L~--~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ...+++.+.  ..+..+|+|.|.+|+|||||+..+.....
T Consensus        42 ~~~l~~~~~~~~~~~~~igi~G~~GaGKSTl~~~l~~~l~   81 (332)
T PRK09435         42 AQELLDALLPHTGNALRIGITGVPGVGKSTFIEALGMHLI   81 (332)
T ss_pred             HHHHHHHHhhcCCCcEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            345555554  45788999999999999999999776665

>TIGR01287 nifH nitrogenase iron protein

Probab=95.96  E-value=0.0055  Score=51.24  Aligned_cols=26  Identities=38%  Similarity=0.769  Sum_probs=22.0

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      +.|+|.|-||+||||++..+..-..-
T Consensus         1 ~~ia~~gKGGVGKTT~a~nLA~~La~   26 (275)
T TIGR01287         1 RQIAIYGKGGIGKSTTTQNIAAALAE   26 (275)
T ss_pred             CeeEEeCCCcCcHHHHHHHHHHHHHH
Confidence            47899999999999999888766643

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.

>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=95.96  E-value=0.022  Score=46.07  Aligned_cols=26  Identities=35%  Similarity=0.455  Sum_probs=22.5

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      +-..|+|+|..|.|||||.+.+..-.
T Consensus        29 ~GE~VaiIG~SGaGKSTLLR~lngl~   54 (258)
T COG3638          29 QGEMVAIIGPSGAGKSTLLRSLNGLV   54 (258)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHhccc
Confidence            45688999999999999999998733

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=95.96  E-value=0.0065  Score=46.16  Aligned_cols=22  Identities=27%  Similarity=0.309  Sum_probs=19.9

Q ss_pred             EEEEccCCCCHHHHHHHHHHHh
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      |.++|.+|+|||||+..+.+..
T Consensus         3 i~~vG~~~vGKTsli~~l~~~~   24 (168)
T cd04119           3 VISMGNSGVGKSCIIKRYCEGR   24 (168)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7899999999999999988765

RJLs are found in many protists and as chimeras with C-terminal DNAJ domains in deuterostome metazoa. They are not found in plants, fungi, and protostome metazoa, suggesting a horizontal gene transfer between protists and deuterostome metazoa. RJLs lack any known membrane targeting signal and contain a degenerate phosphate/magnesium-binding 3 (PM3) motif, suggesting an impaired ability to hydrolyze GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=95.95  E-value=0.023  Score=41.56  Aligned_cols=45  Identities=16%  Similarity=0.269  Sum_probs=33.5

Q ss_pred             CCCcChHHHHHHHHHHhc----C---CCceEEEEEccCCCCHHHHHHHHHHH
Q 036637          152 EAFESRSSTLNNVLRALQ----D---PDVNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       152 ~~~~gr~~~~~~l~~~L~----~---~~~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      ..++|.+-..+.+++.+.    +   +.+-|++..|..|+|||.+++.|.+.
T Consensus        25 ~~l~GQhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~~   76 (127)
T PF06309_consen   25 RNLFGQHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAEH   76 (127)
T ss_pred             HHccCcHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHHH
Confidence            356777666666665554    2   36779999999999999988877766

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

>cd04155 Arl3 Arl3 subfamily

Probab=95.94  E-value=0.0058  Score=46.97  Aligned_cols=25  Identities=32%  Similarity=0.473  Sum_probs=22.1

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHH
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      ....|+|+|.+|+|||||++.+.+.
T Consensus        13 ~~~~v~i~G~~g~GKStLl~~l~~~   37 (173)
T cd04155          13 EEPRILILGLDNAGKTTILKQLASE   37 (173)
T ss_pred             CccEEEEEccCCCCHHHHHHHHhcC
Confidence            4456899999999999999999985

Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation.

>PLN02348 phosphoribulokinase

Probab=95.93  E-value=0.0088  Score=52.23  Aligned_cols=29  Identities=28%  Similarity=0.554  Sum_probs=25.5

Q ss_pred             CCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          170 DPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       170 ~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .+.+-+|+|.|.+|+||||+|+.+.+...
T Consensus        46 ~~~p~IIGIaG~SGSGKSTfA~~L~~~Lg   74 (395)
T PLN02348         46 DDGTVVIGLAADSGCGKSTFMRRLTSVFG   74 (395)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            35678999999999999999999998764

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=95.93  E-value=0.011  Score=45.79  Aligned_cols=35  Identities=20%  Similarity=0.218  Sum_probs=26.1

Q ss_pred             HHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHH
Q 036637          162 NNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       162 ~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      ..+.+++.......|.++|.+|+|||||...+...
T Consensus         4 ~~~~~~~~~~~~~kv~~~G~~~~GKTsl~~~l~~~   38 (174)
T cd04153           4 SSLWSLFFPRKEYKVIIVGLDNAGKTTILYQFLLG   38 (174)
T ss_pred             hHHHHHhcCCCccEEEEECCCCCCHHHHHHHHccC
Confidence            34455554444567889999999999999999653

Arl5 (Arf-like 5) and Arl8, like Arl4 and Arl7, are localized to the nucleus and nucleolus. Arl5 is developmentally regulated during embryogenesis in mice. Human Arl5 interacts with the heterochromatin protein 1-alpha (HP1alpha), a nonhistone chromosomal protein that is associated with heterochromatin and telomeres, and prevents telomere fusion. Arl5 may also play a role in embryonic nuclear dynamics and/or signaling cascades. Arl8 was identified from a fetal cartilage cDNA library. It is found in brain, heart, lung, cartilage, and kidney. No function has been assigned for Arl8 to date.

>PRK08356 hypothetical protein; Provisional

Probab=95.93  E-value=0.0076  Score=47.77  Aligned_cols=22  Identities=41%  Similarity=0.446  Sum_probs=19.7

Q ss_pred             ceEEEEEccCCCCHHHHHHHHH
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVA  194 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~  194 (250)
                      ..+|.|+|++|+||||+|+.+-
T Consensus         5 ~~~i~~~G~~gsGK~t~a~~l~   26 (195)
T PRK08356          5 KMIVGVVGKIAAGKTTVAKFFE   26 (195)
T ss_pred             cEEEEEECCCCCCHHHHHHHHH
Confidence            3578999999999999999993

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=95.92  E-value=0.013  Score=53.37  Aligned_cols=49  Identities=16%  Similarity=0.281  Sum_probs=39.6

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCC-ceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          150 DYEAFESRSSTLNNVLRALQDPD-VNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~-~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....++|.+..+..|...+..+. .+-+-++|..|+||||+|+.+.+...
T Consensus        19 ~f~dliGq~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKTT~ArilAk~Ln   68 (507)
T PRK06645         19 NFAELQGQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARIIAKAVN   68 (507)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhc
Confidence            44567899988888888776554 46788999999999999999987663

>cd01131 PilT Pilus retraction ATPase PilT

Probab=95.91  E-value=0.014  Score=46.47  Aligned_cols=24  Identities=25%  Similarity=0.259  Sum_probs=20.6

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ++|.|+|..|+||||++..+....
T Consensus         2 GlilI~GptGSGKTTll~~ll~~~   25 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDYI   25 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            578999999999999999866554

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.

>PRK14490 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MobA; Provisional

Probab=95.91  E-value=0.016  Score=50.71  Aligned_cols=28  Identities=25%  Similarity=0.372  Sum_probs=24.8

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      +.-+|+|+|..|+|||||+..+....+.
T Consensus         4 ~~~~i~i~G~~gsGKTTl~~~l~~~l~~   31 (369)
T PRK14490          4 HPFEIAFCGYSGSGKTTLITALVRRLSE   31 (369)
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHHHhh
Confidence            4679999999999999999999988763

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=95.90  E-value=0.0074  Score=45.90  Aligned_cols=23  Identities=26%  Similarity=0.508  Sum_probs=20.1

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|.|+|.+|+|||||+..+.+..
T Consensus         2 ki~v~G~~~~GKTsli~~~~~~~   24 (164)
T smart00173        2 KLVVLGSGGVGKSALTIQFVQGH   24 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            47899999999999999988654

Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades

>PRK08099 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional

Probab=95.88  E-value=0.0087  Score=52.85  Aligned_cols=29  Identities=34%  Similarity=0.343  Sum_probs=25.3

Q ss_pred             CCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          170 DPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       170 ~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ..-.+.|+|+|..|+|||||++.+.+...
T Consensus       216 ~~~~~~IvI~G~~gsGKTTL~~~La~~~g  244 (399)
T PRK08099        216 PFFVRTVAILGGESSGKSTLVNKLANIFN  244 (399)
T ss_pred             hCCCcEEEEEcCCCCCHHHHHHHHHHHhC
Confidence            34688999999999999999999998754

>PF02374 ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_A 3IBG_B 3SJA_A 3H84_B 3SJD_A 3ZS9_A 3A37_A 2WOJ_A 3SJC_B 3A36_B

Probab=95.87  E-value=0.017  Score=49.15  Aligned_cols=48  Identities=25%  Similarity=0.482  Sum_probs=31.7

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHH
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGE  223 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~  223 (250)
                      +++.++|-||+||||+|-..--...-++  ....-++..+.+++.+++..
T Consensus         2 r~~~~~GKGGVGKTT~aaA~A~~~A~~G--~rtLlvS~Dpa~~L~d~l~~   49 (305)
T PF02374_consen    2 RILFFGGKGGVGKTTVAAALALALARRG--KRTLLVSTDPAHSLSDVLGQ   49 (305)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHHHTT--S-EEEEESSTTTHHHHHHTS
T ss_pred             eEEEEecCCCCCcHHHHHHHHHHHhhCC--CCeeEeecCCCccHHHHhCC
Confidence            6789999999999999976554433222  23555666666666666543

...

>PRK14532 adenylate kinase; Provisional

Probab=95.86  E-value=0.0079  Score=47.25  Aligned_cols=23  Identities=30%  Similarity=0.398  Sum_probs=20.3

Q ss_pred             EEEEccCCCCHHHHHHHHHHHhc
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      |.+.|++|+||||+++.+.....
T Consensus         3 i~~~G~pGsGKsT~a~~la~~~g   25 (188)
T PRK14532          3 LILFGPPAAGKGTQAKRLVEERG   25 (188)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcC
Confidence            67899999999999999986653

>PF00154 RecA: recA bacterial DNA recombination protein; InterPro: IPR013765 The recA gene product is a multifunctional enzyme that plays a role in homologous recombination, DNA repair and induction of the SOS response []

Probab=95.86  E-value=0.045  Score=46.77  Aligned_cols=54  Identities=30%  Similarity=0.329  Sum_probs=37.9

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhCCCCC
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGLIFF  233 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~~l~~~~~  233 (250)
                      -+++-|.|..|+|||||+-.+....+-  .-..++|+...+.+++.     .+.++|.+.+
T Consensus        53 G~ivEi~G~~ssGKttLaL~~ia~~q~--~g~~~a~ID~e~~ld~~-----~a~~lGvdl~  106 (322)
T PF00154_consen   53 GRIVEIYGPESSGKTTLALHAIAEAQK--QGGICAFIDAEHALDPE-----YAESLGVDLD  106 (322)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHH--TT-EEEEEESSS---HH-----HHHHTT--GG
T ss_pred             CceEEEeCCCCCchhhhHHHHHHhhhc--ccceeEEecCcccchhh-----HHHhcCcccc
Confidence            468999999999999999999887653  34589999999888764     3456676643

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 ....

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=95.86  E-value=0.024  Score=50.32  Aligned_cols=59  Identities=24%  Similarity=0.238  Sum_probs=36.5

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCC--HHHHHHHHHHHhCCCC
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPD--IRKIQGEIADKLGLIF  232 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~--~~~l~~~i~~~l~~~~  232 (250)
                      ..+.+|.++|..|+||||++..+..-...+ .+ .++.|+. .++.  ..+=++...++.+.|.
T Consensus        98 ~~~~vi~lvG~~GvGKTTtaaKLA~~l~~~-G~-kV~lV~~-D~~R~aA~eQLk~~a~~~~vp~  158 (429)
T TIGR01425        98 GKQNVIMFVGLQGSGKTTTCTKLAYYYQRK-GF-KPCLVCA-DTFRAGAFDQLKQNATKARIPF  158 (429)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHHC-CC-CEEEEcC-cccchhHHHHHHHHhhccCCeE
Confidence            347899999999999999999887666532 23 2333333 2332  2233345566666653

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.

>PRK13768 GTPase; Provisional

Probab=95.86  E-value=0.0095  Score=49.31  Aligned_cols=27  Identities=33%  Similarity=0.418  Sum_probs=22.4

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      ..++.|+|.||+||||++..+..-...
T Consensus         2 ~~~i~v~G~~G~GKTt~~~~~~~~l~~   28 (253)
T PRK13768          2 MYIVFFLGTAGSGKTTLTKALSDWLEE   28 (253)
T ss_pred             cEEEEEECCCCccHHHHHHHHHHHHHh
Confidence            357899999999999999887766643

>PRK03731 aroL shikimate kinase II; Reviewed

Probab=95.86  E-value=0.0093  Score=46.04  Aligned_cols=25  Identities=32%  Similarity=0.446  Sum_probs=21.7

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ..|.|+|+.|+||||+++.+.+...
T Consensus         3 ~~i~~~G~~GsGKst~~~~la~~lg   27 (171)
T PRK03731          3 QPLFLVGARGCGKTTVGMALAQALG   27 (171)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhC
Confidence            3578999999999999999988764

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=95.84  E-value=0.014  Score=46.40  Aligned_cols=38  Identities=29%  Similarity=0.357  Sum_probs=28.8

Q ss_pred             HHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhcCC
Q 036637          163 NVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGRD  200 (250)
Q Consensus       163 ~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~  200 (250)
                      +.+..+...+-++..|.|.+|+||||+++.+.......
T Consensus         8 ~a~~~~l~~~~~~~~l~G~aGtGKT~~l~~~~~~~~~~   45 (196)
T PF13604_consen    8 EAVRAILTSGDRVSVLQGPAGTGKTTLLKALAEALEAA   45 (196)
T ss_dssp             HHHHHHHHCTCSEEEEEESTTSTHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhcCCeEEEEEECCCCCHHHHHHHHHHHHHhC
Confidence            34444544556788899999999999999988777653

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=95.84  E-value=0.014  Score=54.38  Aligned_cols=48  Identities=23%  Similarity=0.316  Sum_probs=39.4

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCCc-eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          150 DYEAFESRSSTLNNVLRALQDPDV-NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~~-~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ....++|.+..+..|...+..+.+ +.+-++|..|+||||+|+.+.+..
T Consensus        14 ~f~divGQe~vv~~L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr~lAk~L   62 (647)
T PRK07994         14 TFAEVVGQEHVLTALANALDLGRLHHAYLFSGTRGVGKTTIARLLAKGL   62 (647)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhh
Confidence            445788999999999888886655 456899999999999999887655

>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE)

Probab=95.84  E-value=0.0079  Score=48.41  Aligned_cols=26  Identities=31%  Similarity=0.287  Sum_probs=22.8

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        29 ~G~~~~l~G~nGsGKSTLl~~i~Gl~   54 (218)
T cd03255          29 KGEFVAIVGPSGSGKSTLLNILGGLD   54 (218)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCCc
Confidence            45689999999999999999998664

They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=95.84  E-value=0.0085  Score=40.97  Aligned_cols=25  Identities=40%  Similarity=0.723  Sum_probs=21.4

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      ++.+.|.+|+||||++..+......
T Consensus         1 ~~~~~g~~G~Gktt~~~~l~~~l~~   25 (99)
T cd01983           1 VIVVTGKGGVGKTTLAANLAAALAK   25 (99)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHH
Confidence            4788999999999999998877753

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.

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

Probab=95.84  E-value=0.12  Score=46.03  Aligned_cols=80  Identities=15%  Similarity=0.186  Sum_probs=57.9

Q ss_pred             CCcCCCcChHHHHHHHHHHhc----CCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHH
Q 036637          149 KDYEAFESRSSTLNNVLRALQ----DPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEI  224 (250)
Q Consensus       149 ~~~~~~~gr~~~~~~l~~~L~----~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i  224 (250)
                      ..+..+.||+.++..+.+|+.    .+..+-+=|.|.+|.|||.+...++.+..--..=-+++++.-..--....++..|
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            356778999999999999877    3567888899999999999999999887532111134555444334566777777


Q ss_pred             HHHh
Q 036637          225 ADKL  228 (250)
Q Consensus       225 ~~~l  228 (250)
                      +..+
T Consensus       227 ~~~~  230 (529)
T KOG2227|consen  227 FSSL  230 (529)
T ss_pred             HHHH
Confidence            7666

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=95.83  E-value=0.012  Score=49.33  Aligned_cols=28  Identities=29%  Similarity=0.446  Sum_probs=23.9

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .+.++|.++|.+|+||||.+..+.....
T Consensus        70 ~~~~vi~l~G~~G~GKTTt~akLA~~l~   97 (272)
T TIGR00064        70 NKPNVILFVGVNGVGKTTTIAKLANKLK   97 (272)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHHH
Confidence            4578999999999999999888876664

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.

>PRK12377 putative replication protein; Provisional

Probab=95.83  E-value=0.021  Score=47.10  Aligned_cols=39  Identities=28%  Similarity=0.311  Sum_probs=30.9

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVP  212 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs  212 (250)
                      +..-+.++|.+|+|||+||..+.+....+  .-.+++++++
T Consensus       100 ~~~~l~l~G~~GtGKThLa~AIa~~l~~~--g~~v~~i~~~  138 (248)
T PRK12377        100 GCTNFVFSGKPGTGKNHLAAAIGNRLLAK--GRSVIVVTVP  138 (248)
T ss_pred             cCCeEEEECCCCCCHHHHHHHHHHHHHHc--CCCeEEEEHH
Confidence            44678999999999999999999988632  3446777775

>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=95.82  E-value=0.0074  Score=48.46  Aligned_cols=25  Identities=36%  Similarity=0.767  Sum_probs=20.9

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ++|+|.|-||+||||++.++-.-..
T Consensus         1 ~~iav~gKGGvGKTt~~~nLA~~la   25 (212)
T cd02117           1 RQIAIYGKGGIGKSTTSQNLSAALA   25 (212)
T ss_pred             CEEEEECCCcCcHHHHHHHHHHHHH
Confidence            4799999999999998888766554

Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.

>PLN02318 phosphoribulokinase/uridine kinase

Probab=95.82  E-value=0.012  Score=54.08  Aligned_cols=28  Identities=29%  Similarity=0.497  Sum_probs=24.7

Q ss_pred             CCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          170 DPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       170 ~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .+++.+|+|.|..|+|||||++.+....
T Consensus        62 ~~~riIIGIaGpSGSGKTTLAk~LaglL   89 (656)
T PLN02318         62 NDGIILVGVAGPSGAGKTVFTEKVLNFM   89 (656)
T ss_pred             CCCeEEEEEECCCCCcHHHHHHHHHhhC
Confidence            4567899999999999999999998764

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=95.82  E-value=0.0085  Score=48.43  Aligned_cols=26  Identities=31%  Similarity=0.276  Sum_probs=22.0

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-..++|+|+.|+|||||...+..-.
T Consensus        30 ~Ge~vaI~GpSGSGKSTLLniig~ld   55 (226)
T COG1136          30 AGEFVAIVGPSGSGKSTLLNLLGGLD   55 (226)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccc
Confidence            45688999999999999999987444

>cd01862 Rab7 Rab7 subfamily

Probab=95.81  E-value=0.0072  Score=46.25  Aligned_cols=22  Identities=36%  Similarity=0.493  Sum_probs=19.6

Q ss_pred             EEEEEccCCCCHHHHHHHHHHH
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      -|.|+|.+|+|||||+..+.+.
T Consensus         2 ki~viG~~~~GKSsl~~~l~~~   23 (172)
T cd01862           2 KVIILGDSGVGKTSLMNQYVNK   23 (172)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3789999999999999988765

Rab7 is a small Rab GTPase that regulates vesicular traffic from early to late endosomal stages of the endocytic pathway. The yeast Ypt7 and mammalian Rab7 are both involved in transport to the vacuole/lysosome, whereas Ypt7 is also required for homotypic vacuole fusion. Mammalian Rab7 is an essential participant in the autophagic pathway for sequestration and targeting of cytoplasmic components to the lytic compartment. Mammalian Rab7 is also proposed to function as a tumor suppressor. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=95.81  E-value=0.05  Score=46.55  Aligned_cols=40  Identities=20%  Similarity=0.282  Sum_probs=29.8

Q ss_pred             hHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          157 RSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       157 r~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .......++.++..  .+-|-+.|.+|+||||+++.+.....
T Consensus        50 ~~~~~~~vl~~l~~--~~~ilL~G~pGtGKTtla~~lA~~l~   89 (327)
T TIGR01650        50 DKATTKAICAGFAY--DRRVMVQGYHGTGKSTHIEQIAARLN   89 (327)
T ss_pred             CHHHHHHHHHHHhc--CCcEEEEeCCCChHHHHHHHHHHHHC
Confidence            33445556666643  34589999999999999999988775

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.

>TIGR00750 lao LAO/AO transport system ATPase

Probab=95.81  E-value=0.024  Score=48.10  Aligned_cols=37  Identities=27%  Similarity=0.505  Sum_probs=28.6

Q ss_pred             HHHHHHhc--CCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          162 NNVLRALQ--DPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       162 ~~l~~~L~--~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ..+++.+.  .....+|+|+|.+|+|||||+..+.....
T Consensus        21 ~~~~~~~~~~~~~~~~i~i~G~~G~GKttl~~~l~~~~~   59 (300)
T TIGR00750        21 KQLLDRIMPYTGNAHRVGITGTPGAGKSTLLEALGMELR   59 (300)
T ss_pred             HHHHHhCCcccCCceEEEEECCCCCCHHHHHHHHHHHHH
Confidence            34444443  35688999999999999999999887654

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.

>cd00876 Ras Ras family

Probab=95.81  E-value=0.0081  Score=45.23  Aligned_cols=21  Identities=29%  Similarity=0.594  Sum_probs=19.1

Q ss_pred             EEEEccCCCCHHHHHHHHHHH
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~  196 (250)
                      |.|+|.+|+|||||+..+.+.
T Consensus         2 i~i~G~~~~GKTsli~~l~~~   22 (160)
T cd00876           2 VVVLGAGGVGKSAITIQFVKG   22 (160)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            689999999999999998764

The Ras family of the Ras superfamily includes classical N-Ras, H-Ras, and K-Ras, as well as R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG, Rin/Rit, RSR1, RRP22, Ras2, Ras-dva, and RGK proteins. Ras proteins regulate cell growth, proliferation and differentiation. Ras is activated by guanine nucleotide exchange factors (GEFs) that release GDP and allow GTP binding. Many RasGEFs have been identified. These are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active GTP-bound Ras interacts with several effector proteins: among the best characterized are the Raf kinases, phosphatidylinositol 3-kinase (PI3K), RalGEFs and NORE/MST1. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of m

>PLN02924 thymidylate kinase

Probab=95.80  E-value=0.032  Score=45.16  Aligned_cols=54  Identities=7%  Similarity=0.051  Sum_probs=37.6

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHHH
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADK  227 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~~  227 (250)
                      ...|+|-|..|+||||+++.+.+....+ .+....+=..+......+.++.++..
T Consensus        16 g~~IviEGiDGsGKsTq~~~L~~~l~~~-g~~v~~~~ep~~~~~~g~~ir~~l~~   69 (220)
T PLN02924         16 GALIVLEGLDRSGKSTQCAKLVSFLKGL-GVAAELWRFPDRTTSVGQMISAYLSN   69 (220)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhc-CCCceeeeCCCCCChHHHHHHHHHhC
Confidence            4589999999999999999999998754 45544332222234466666666553

>TIGR03689 pup_AAA proteasome ATPase

Probab=95.80  E-value=0.015  Score=52.81  Aligned_cols=48  Identities=29%  Similarity=0.396  Sum_probs=37.5

Q ss_pred             cCCCcChHHHHHHHHHHhc----C---------CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          151 YEAFESRSSTLNNVLRALQ----D---------PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       151 ~~~~~gr~~~~~~l~~~L~----~---------~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ...+.|.+..++.+.+.+.    .         ..++-+-++|++|+|||++|+.+++...
T Consensus       181 ~~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~  241 (512)
T TIGR03689       181 YADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLA  241 (512)
T ss_pred             HHHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhc
Confidence            3457788888888877654    1         1345578999999999999999999874

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.

>PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model

Probab=95.79  E-value=0.011  Score=43.47  Aligned_cols=27  Identities=48%  Similarity=0.661  Sum_probs=18.8

Q ss_pred             EEEEccCCCCHHHHHHHHHHHhcCCCCCC
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQFGRDQFFD  204 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~~v~~~Fd  204 (250)
                      +-++|.+|+||||+|+.+.....  ..|.
T Consensus         2 vLleg~PG~GKT~la~~lA~~~~--~~f~   28 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKALARSLG--LSFK   28 (131)
T ss_dssp             EEEES---HHHHHHHHHHHHHTT----EE
T ss_pred             EeeECCCccHHHHHHHHHHHHcC--Ccee
Confidence            46899999999999999998876  3464

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.

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=95.79  E-value=0.0086  Score=47.92  Aligned_cols=26  Identities=31%  Similarity=0.321  Sum_probs=22.8

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        26 ~G~~~~l~G~nGsGKSTLl~~l~G~~   51 (211)
T cd03225          26 KGEFVLIVGPNGSGKSTLLRLLNGLL   51 (211)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            45689999999999999999998754

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily

Probab=95.79  E-value=0.0072  Score=45.60  Aligned_cols=23  Identities=26%  Similarity=0.538  Sum_probs=20.0

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|.++|.+|+|||||+..+.++.
T Consensus         3 ki~iiG~~~vGKTsl~~~~~~~~   25 (162)
T cd04138           3 KLVVVGAGGVGKSALTIQLIQNH   25 (162)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            36899999999999999988654

H-Ras, N-Ras, and K-Ras4A/4B are the prototypical members of the Ras family. These isoforms generate distinct signal outputs despite interacting with a common set of activators and effectors, and are strongly associated with oncogenic progression in tumor initiation. Mutated versions of Ras that are insensitive to GAP stimulation (and are therefore constitutively active) are found in a significant fraction of human cancers. Many Ras guanine nucleotide exchange factors (GEFs) have been identified. They are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active (GTP-bound) Ras interacts with several effector proteins that stimulate a variety of diverse cytoplasmic signaling activities. Some are known to positively mediate the oncogenic properties of Ras, including Raf, phosphatidylinositol 3-kinase (PI3K), RalGEFs, and Tiam1.

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

Probab=95.79  E-value=0.016  Score=46.94  Aligned_cols=77  Identities=17%  Similarity=0.181  Sum_probs=52.3

Q ss_pred             CCCcCCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHH
Q 036637          148 NKDYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEI  224 (250)
Q Consensus       148 ~~~~~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i  224 (250)
                      |....+++|-++..+.+--...+.+..-+-|.||+|+||||-+..+.+..--...=+.+.=...|..-.+.-+-..|
T Consensus        23 P~~l~dIVGNe~tv~rl~via~~gnmP~liisGpPG~GKTTsi~~LAr~LLG~~~ke~vLELNASdeRGIDvVRn~I   99 (333)
T KOG0991|consen   23 PSVLQDIVGNEDTVERLSVIAKEGNMPNLIISGPPGTGKTTSILCLARELLGDSYKEAVLELNASDERGIDVVRNKI   99 (333)
T ss_pred             chHHHHhhCCHHHHHHHHHHHHcCCCCceEeeCCCCCchhhHHHHHHHHHhChhhhhHhhhccCccccccHHHHHHH
Confidence            33456789999888887777677788888999999999999776665554332222445556666665554444333

>cd04159 Arl10_like Arl10-like subfamily

Probab=95.78  E-value=0.0069  Score=45.32  Aligned_cols=21  Identities=33%  Similarity=0.453  Sum_probs=19.6

Q ss_pred             EEEEccCCCCHHHHHHHHHHH
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~  196 (250)
                      |+|+|..|+|||||.+.+.+.
T Consensus         2 i~i~G~~~~GKssl~~~l~~~   22 (159)
T cd04159           2 ITLVGLQNSGKTTLVNVIAGG   22 (159)
T ss_pred             EEEEcCCCCCHHHHHHHHccC
Confidence            689999999999999999876

Arl9/Arl10 was identified from a human cancer-derived EST dataset. No functional information about the subfamily is available at the current time, but crystal structures of human Arl10b and Arl10c have been solved.

>cd01878 HflX HflX subfamily

Probab=95.78  E-value=0.0088  Score=47.52  Aligned_cols=27  Identities=22%  Similarity=0.274  Sum_probs=23.6

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ++...|+|+|.+|+|||||...+.+..
T Consensus        39 ~~~~~I~iiG~~g~GKStLl~~l~~~~   65 (204)
T cd01878          39 SGIPTVALVGYTNAGKSTLFNALTGAD   65 (204)
T ss_pred             cCCCeEEEECCCCCCHHHHHHHHhcch
Confidence            456788999999999999999998775

A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.

>cd04163 Era Era subfamily

Probab=95.78  E-value=0.0095  Score=44.89  Aligned_cols=24  Identities=33%  Similarity=0.447  Sum_probs=21.1

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHH
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      ..+|+++|..|+|||||+..+...
T Consensus         3 ~~~i~~~G~~g~GKttl~~~l~~~   26 (168)
T cd04163           3 SGFVAIVGRPNVGKSTLLNALVGQ   26 (168)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCC
Confidence            457999999999999999998754

Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly by chaperoning the 16S rRNA. It also contacts several assembly elements of the 30S subunit. Era couples cell growth with cytokinesis and plays a role in cell division and energy metabolism. Homologs have also been found in eukaryotes. Era contains two domains: the N-terminal GTPase domain and a C-terminal domain KH domain that is critical for RNA binding. Both domains are important for Era function. Era is functionally able to compensate for deletion of RbfA, a cold-shock adaptation protein that is required for efficient processing of the 16S rRNA.

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=95.77  E-value=0.014  Score=54.53  Aligned_cols=48  Identities=21%  Similarity=0.379  Sum_probs=40.0

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCCc-eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          150 DYEAFESRSSTLNNVLRALQDPDV-NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~~-~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ....++|.+..+..|.+++..+.+ +.+-++|..|+||||+|+.+.+..
T Consensus        14 tFddIIGQe~vv~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAriLAk~L   62 (709)
T PRK08691         14 TFADLVGQEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSL   62 (709)
T ss_pred             CHHHHcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHh
Confidence            445789999999999998886654 578999999999999999887653

>cd00879 Sar1 Sar1 subfamily

Probab=95.77  E-value=0.018  Score=45.07  Aligned_cols=25  Identities=24%  Similarity=0.274  Sum_probs=21.3

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHH
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      ....|.|+|.+|+|||||+..+.++
T Consensus        18 ~~~ki~ilG~~~~GKStLi~~l~~~   42 (190)
T cd00879          18 KEAKILFLGLDNAGKTTLLHMLKDD   42 (190)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3455699999999999999998863

Sar1 is an essential component of COPII vesicle coats involved in export of cargo from the ER. The GTPase activity of Sar1 functions as a molecular switch to control protein-protein and protein-lipid interactions that direct vesicle budding from the ER. Activation of the GDP to the GTP-bound form of Sar1 involves the membrane-associated guanine nucleotide exchange factor (GEF) Sec12. Sar1 is unlike all Ras superfamily GTPases that use either myristoyl or prenyl groups to direct membrane association and function, in that Sar1 lacks such modification. Instead, Sar1 contains a unique nine-amino-acid N-terminal extension. This extension contains an evolutionarily conserved cluster of bulky hydrophobic amino acids, referred to as the Sar1-N-terminal activation recruitment (STAR) motif. The STAR motif mediates the recruitment of Sar1 to ER membranes and facilitates its interaction with mammalian Sec12 GEF leading to activation.

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=95.77  E-value=0.0087  Score=48.12  Aligned_cols=26  Identities=31%  Similarity=0.263  Sum_probs=22.8

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        28 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   53 (216)
T TIGR00960        28 KGEMVFLVGHSGAGKSTFLKLILGIE   53 (216)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45688999999999999999998754

>cd02026 PRK Phosphoribulokinase (PRK) is an enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes

Probab=95.76  E-value=0.008  Score=50.32  Aligned_cols=24  Identities=33%  Similarity=0.735  Sum_probs=21.3

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhc
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      +|+|.|..|+|||||++.+..-..
T Consensus         1 iigI~G~sGsGKSTl~~~L~~ll~   24 (273)
T cd02026           1 IIGVAGDSGCGKSTFLRRLTSLFG   24 (273)
T ss_pred             CEEEECCCCCCHHHHHHHHHHhhC
Confidence            589999999999999999987653

This enzyme catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH produced by the primary reactions of photosynthesis.

>cd00154 Rab Rab family

Probab=95.76  E-value=0.009  Score=44.62  Aligned_cols=23  Identities=26%  Similarity=0.254  Sum_probs=20.5

Q ss_pred             EEEEccCCCCHHHHHHHHHHHhc
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      |.++|.+|+|||||+..+++...
T Consensus         3 i~~~G~~~~GKStl~~~l~~~~~   25 (159)
T cd00154           3 IVLIGDSGVGKTSLLLRFVDGKF   25 (159)
T ss_pred             EEEECCCCCCHHHHHHHHHhCcC
Confidence            68999999999999999987753

Rab GTPases form the largest family within the Ras superfamily. There are at least 60 Rab genes in the human genome, and a number of Rab GTPases are conserved from yeast to humans. Rab GTPases are small, monomeric proteins that function as molecular switches to regulate vesicle trafficking pathways. The different Rab GTPases are localized to the cytosolic face of specific intracellular membranes, where they regulate distinct steps in membrane traffic pathways. In the GTP-bound form, Rab GTPases recruit specific sets of effector proteins onto membranes. Through their effectors, Rab GTPases regulate vesicle formation, actin- and tubulin-dependent vesicle movement, and membrane fusion. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide di

>PRK13236 nitrogenase reductase; Reviewed

Probab=95.75  E-value=0.0096  Score=50.46  Aligned_cols=29  Identities=31%  Similarity=0.684  Sum_probs=24.3

Q ss_pred             CCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          170 DPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       170 ~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      +++.++|++.|-||+||||.+-.+..-..
T Consensus         3 ~~~~~~~~~~GKGGVGKTt~a~NLA~~La   31 (296)
T PRK13236          3 DENIRQIAFYGKGGIGKSTTSQNTLAAMA   31 (296)
T ss_pred             CcCceEEEEECCCcCCHHHHHHHHHHHHH
Confidence            56789999999999999998888665553

>cd01673 dNK Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs)

Probab=95.75  E-value=0.009  Score=47.10  Aligned_cols=23  Identities=43%  Similarity=0.569  Sum_probs=20.8

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      +|+|-|+.|+||||+++.+.+..
T Consensus         1 ~I~ieG~~GsGKSTl~~~L~~~~   23 (193)
T cd01673           1 VIVVEGNIGAGKSTLAKELAEHL   23 (193)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            48899999999999999999864

This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1.113), adenosine (EC 2.7.1.76), and thymidine (EC 2.7.1.21) kinases. They are key enzymes in the salvage of deoxyribonucleosides originating from extra- or intracellular breakdown of DNA.

>TIGR00959 ffh signal recognition particle protein

Probab=95.74  E-value=0.034  Score=49.49  Aligned_cols=27  Identities=26%  Similarity=0.374  Sum_probs=22.9

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..+.++.++|.+|+||||.+..+....
T Consensus        97 ~~p~vi~~vG~~GsGKTTtaakLA~~l  123 (428)
T TIGR00959        97 KPPTVILMVGLQGSGKTTTCGKLAYYL  123 (428)
T ss_pred             CCCEEEEEECCCCCcHHHHHHHHHHHH
Confidence            347899999999999999988877664

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.

>PRK10867 signal recognition particle protein; Provisional

Probab=95.74  E-value=0.033  Score=49.60  Aligned_cols=28  Identities=29%  Similarity=0.376  Sum_probs=22.8

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ..+.+|.++|.+|+||||.+..+.....
T Consensus        98 ~~p~vI~~vG~~GsGKTTtaakLA~~l~  125 (433)
T PRK10867         98 KPPTVIMMVGLQGAGKTTTAGKLAKYLK  125 (433)
T ss_pred             CCCEEEEEECCCCCcHHHHHHHHHHHHH
Confidence            4578999999999999997777765543

>PRK14531 adenylate kinase; Provisional

Probab=95.74  E-value=0.013  Score=45.93  Aligned_cols=26  Identities=27%  Similarity=0.301  Sum_probs=22.5

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      ..|.|+|++|+||||+++.+......
T Consensus         3 ~~i~i~G~pGsGKsT~~~~la~~~g~   28 (183)
T PRK14531          3 QRLLFLGPPGAGKGTQAARLCAAHGL   28 (183)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            35889999999999999999888753

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=95.74  E-value=0.0093  Score=46.95  Aligned_cols=26  Identities=23%  Similarity=0.365  Sum_probs=22.5

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+....
T Consensus        17 ~Ge~~~i~G~nGsGKSTLl~~i~G~~   42 (190)
T TIGR01166        17 RGEVLALLGANGAGKSTLLLHLNGLL   42 (190)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            44588999999999999999998654

This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.

>cd04113 Rab4 Rab4 subfamily

Probab=95.73  E-value=0.0091  Score=45.28  Aligned_cols=22  Identities=27%  Similarity=0.305  Sum_probs=19.7

Q ss_pred             EEEEccCCCCHHHHHHHHHHHh
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      |.|+|.+|+|||||+..+.+..
T Consensus         3 i~v~G~~~vGKTsli~~l~~~~   24 (161)
T cd04113           3 FIIIGSSGTGKSCLLHRFVENK   24 (161)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            6899999999999999987655

Rab4 has been implicated in numerous functions within the cell. It helps regulate endocytosis through the sorting, recycling, and degradation of early endosomes. Mammalian Rab4 is involved in the regulation of many surface proteins including G-protein-coupled receptors, transferrin receptor, integrins, and surfactant protein A. Experimental data implicate Rab4 in regulation of the recycling of internalized receptors back to the plasma membrane. It is also believed to influence receptor-mediated antigen processing in B-lymphocytes, in calcium-dependent exocytosis in platelets, in alpha-amylase secretion in pancreatic cells, and in insulin-induced translocation of Glut4 from internal vesicles to the cell surface. Rab4 is known to share effector proteins with Rab5 and Rab11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to p

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=95.73  E-value=0.0095  Score=45.44  Aligned_cols=21  Identities=33%  Similarity=0.474  Sum_probs=18.6

Q ss_pred             EEEEccCCCCHHHHHHHHHHH
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~  196 (250)
                      |.++|..|+|||||...+...
T Consensus         2 i~~vG~~~~GKstLi~~l~~~   22 (167)
T cd04160           2 VLILGLDNAGKTTFLEQLKTL   22 (167)
T ss_pred             EEEEecCCCCHHHHHHHHhhh
Confidence            689999999999999998653

Arfrp1 (Arf-related protein 1), formerly known as ARP, is a membrane-associated Arf family member that lacks the N-terminal myristoylation motif. Arfrp1 is mainly associated with the trans-Golgi compartment and the trans-Golgi network, where it regulates the targeting of Arl1 and the GRIP domain-containing proteins, golgin-97 and golgin-245, onto Golgi membranes. It is also involved in the anterograde transport of the vesicular stomatitis virus G protein from the Golgi to the plasma membrane, and in the retrograde transport of TGN38 and Shiga toxin from endosomes to the trans-Golgi network. Arfrp1 also inhibits Arf/Sec7-dependent activation of phospholipase D. Deletion of Arfrp1 in mice causes embryonic lethality at the gastrulation stage and apoptosis of mesodermal cells, indicating its importance in development.

>PRK13230 nitrogenase reductase-like protein; Reviewed

Probab=95.73  E-value=0.0083  Score=50.33  Aligned_cols=25  Identities=36%  Similarity=0.612  Sum_probs=21.5

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ++|+|+|-||+||||++-++-.-..
T Consensus         2 ~~i~~~gKGGVGKTT~a~nLA~~La   26 (279)
T PRK13230          2 RKFCFYGKGGIGKSTTVCNIAAALA   26 (279)
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHH
Confidence            5789999999999999988776664

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=95.73  E-value=0.0091  Score=44.38  Aligned_cols=24  Identities=25%  Similarity=0.181  Sum_probs=21.2

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhc
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      -|+++|.+|+|||||+..+.....
T Consensus         3 ki~~~G~~~~GKstl~~~l~~~~~   26 (161)
T TIGR00231         3 KIVIVGDPNVGKSTLLNRLLGNKF   26 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            478999999999999999987763

This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model.

>PTZ00494 tuzin-like protein; Provisional

Probab=95.73  E-value=0.072  Score=47.40  Aligned_cols=75  Identities=15%  Similarity=0.127  Sum_probs=56.8

Q ss_pred             CcCCCcChHHHHHHHHHH---hcCCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHH
Q 036637          150 DYEAFESRSSTLNNVLRA---LQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIAD  226 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~---L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~  226 (250)
                      ....++.|+.+-..+-+.   +...+++++.+.|.-|+||++|.+..-..+.+-     .++|.|..+   ++-+++|.+
T Consensus       369 ~~~~~V~R~~eE~~vRqvL~qld~aHPRIvV~TG~~GcGKSslcRsAvrkE~~p-----aV~VDVRg~---EDtLrsVVK  440 (664)
T PTZ00494        369 AEAFEVRREDEEALVRSVLTQMAPSHPRIVALAGGSGGGRCVPCRRAVRVEGVA-----LVHVDVGGT---EDTLRSVVR  440 (664)
T ss_pred             ccccccchhhHHHHHHHHHhhccCCCCcEEEEecCCCCCchHHHHHHHHHcCCC-----eEEEEecCC---cchHHHHHH
Confidence            445677777654444443   335689999999999999999999988887754     667777764   566889999


Q ss_pred             HhCCCC
Q 036637          227 KLGLIF  232 (250)
Q Consensus       227 ~l~~~~  232 (250)
                      .||.+.
T Consensus       441 ALgV~n  446 (664)
T PTZ00494        441 ALGVSN  446 (664)
T ss_pred             HhCCCC
Confidence            998873

>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=95.72  E-value=0.0094  Score=46.51  Aligned_cols=24  Identities=33%  Similarity=0.365  Sum_probs=21.2

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHH
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~  195 (250)
                      .-.+++|+|..|+|||||.+.+..
T Consensus        20 ~G~~~~l~G~nG~GKSTLl~~il~   43 (176)
T cd03238          20 LNVLVVVTGVSGSGKSTLVNEGLY   43 (176)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhh
Confidence            456889999999999999999864

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.

>cd03114 ArgK-like The function of this protein family is unkown

Probab=95.72  E-value=0.0091  Score=45.20  Aligned_cols=24  Identities=33%  Similarity=0.619  Sum_probs=20.9

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhc
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      +++++|.+|+||||++..+.....
T Consensus         1 ~i~~~G~~GsGKTt~~~~l~~~~~   24 (148)
T cd03114           1 VIGITGVPGAGKSTLIDALITALR   24 (148)
T ss_pred             CEEEECCCCCcHHHHHHHHHHHHH
Confidence            478999999999999999887653

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.

>TIGR00101 ureG urease accessory protein UreG

Probab=95.71  E-value=0.012  Score=46.87  Aligned_cols=25  Identities=28%  Similarity=0.401  Sum_probs=22.1

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ..|+|.|..|+|||||.+.+.+...
T Consensus         2 ~~i~i~G~~GsGKTTll~~l~~~l~   26 (199)
T TIGR00101         2 LKIGVAGPVGSGKTALIEALTRALR   26 (199)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhhC
Confidence            4689999999999999999998754

This model represents UreG, a GTP hydrolase that acts in the assembly of the nickel metallocenter of urease. It is found only in urease-positive species, although some urease-positive species (e.g. Bacillus subtilis) lack this protein. A similar protein, hypB, is an accessory protein for expression of hydrogenase, which also uses nickel.

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=95.71  E-value=0.013  Score=50.15  Aligned_cols=28  Identities=25%  Similarity=0.429  Sum_probs=24.5

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .+..+|.++|++|+||||++..+.....
T Consensus       112 ~~~~vi~lvGpnGsGKTTt~~kLA~~l~  139 (318)
T PRK10416        112 KKPFVILVVGVNGVGKTTTIGKLAHKYK  139 (318)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHHH
Confidence            3578999999999999999999887765

>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases

Probab=95.70  E-value=0.0072  Score=45.70  Aligned_cols=22  Identities=32%  Similarity=0.498  Sum_probs=20.2

Q ss_pred             EEEEccCCCCHHHHHHHHHHHh
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      |+++|.+|+|||||+..+.+..
T Consensus         2 i~iiG~~~~GKssli~~~~~~~   23 (158)
T cd00878           2 ILILGLDGAGKTTILYKLKLGE   23 (158)
T ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Confidence            6899999999999999998775

Arf proteins are activators of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. Arfs are N-terminally myristoylated. Members of the Arf family are regulators of vesicle formation in intracellular traffic that interact reversibly with membranes of the secretory and endocytic compartments in a GTP-dependent manner. They depart from other small GTP-binding proteins by a unique structural device, interswitch toggle, that implements front-back communication from N-terminus to the nucleotide binding site. Arf-like (Arl) proteins are close relatives of the Arf, but only Arl1 has been shown to function in membrane traffic like the Arf proteins. Arl2 has an unrelated function in the folding of native tubulin, and Arl4 may function in the nucleus. Most other Arf family proteins are so far relatively poorly characterized. Thu

>smart00178 SAR Sar1p-like members of the Ras-family of small GTPases

Probab=95.70  E-value=0.018  Score=45.12  Aligned_cols=36  Identities=22%  Similarity=0.278  Sum_probs=27.3

Q ss_pred             HHHHHHHhcC-CCceEEEEEccCCCCHHHHHHHHHHH
Q 036637          161 LNNVLRALQD-PDVNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       161 ~~~l~~~L~~-~~~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      +.+++.++.. +....|.++|.+|+|||||+..+..+
T Consensus         4 ~~~~~~~~~~~~~~~~i~ivG~~~~GKTsli~~l~~~   40 (184)
T smart00178        4 FYDILASLGLWNKHAKILFLGLDNAGKTTLLHMLKND   40 (184)
T ss_pred             HHHHHHHhccccccCEEEEECCCCCCHHHHHHHHhcC
Confidence            4566675532 44566789999999999999998764

Yeast SAR1 is an essential gene required for transport of secretory proteins from the endoplasmic reticulum to the Golgi apparatus.

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=95.70  E-value=0.037  Score=45.06  Aligned_cols=55  Identities=13%  Similarity=0.148  Sum_probs=39.0

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhCCC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGLI  231 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~~l~~~  231 (250)
                      ...++.|+|.+|+|||||+.++...--.  +=..++|++..++  +.++++++ ++++.+
T Consensus        24 ~g~~~~i~G~~GsGKt~l~~~~~~~~~~--~g~~~~y~~~e~~--~~~~~~~~-~~~g~~   78 (234)
T PRK06067         24 FPSLILIEGDHGTGKSVLSQQFVYGALK--QGKKVYVITTENT--SKSYLKQM-ESVKID   78 (234)
T ss_pred             CCcEEEEECCCCCChHHHHHHHHHHHHh--CCCEEEEEEcCCC--HHHHHHHH-HHCCCC
Confidence            4678899999999999999998544321  1247889999775  45666653 556544

>PRK14529 adenylate kinase; Provisional

Probab=95.70  E-value=0.048  Score=44.18  Aligned_cols=24  Identities=29%  Similarity=0.411  Sum_probs=21.9

Q ss_pred             EEEEccCCCCHHHHHHHHHHHhcC
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      |.|.|++|+||||+++.+......
T Consensus         3 I~l~G~PGsGK~T~a~~La~~~~~   26 (223)
T PRK14529          3 ILIFGPNGSGKGTQGALVKKKYDL   26 (223)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCC
Confidence            788999999999999999988864

>PRK13232 nifH nitrogenase reductase; Reviewed

Probab=95.70  E-value=0.0087  Score=50.04  Aligned_cols=25  Identities=36%  Similarity=0.752  Sum_probs=21.1

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ++|+|+|-||+||||++.++-.-..
T Consensus         2 ~~iav~gKGGVGKTT~a~nLA~~La   26 (273)
T PRK13232          2 RQIAIYGKGGIGKSTTTQNLTAALS   26 (273)
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHHH
Confidence            5789999999999999988776553

>PF00071 Ras: Ras family; InterPro: IPR001806 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=95.69  E-value=0.011  Score=44.91  Aligned_cols=22  Identities=27%  Similarity=0.410  Sum_probs=20.1

Q ss_pred             EEEEccCCCCHHHHHHHHHHHh
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      |.++|.+|+|||||+..+.+..
T Consensus         2 i~vvG~~~vGKtsl~~~~~~~~   23 (162)
T PF00071_consen    2 IVVVGDSGVGKTSLINRLINGE   23 (162)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHHhhc
Confidence            7899999999999999988765

This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction; PDB: 1M7B_A 2V55_B 3EG5_C 3LAW_A 1YHN_A 1T91_B 1HE8_B 3SEA_B 3T5G_A 1XTS_A ....

>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor

Probab=95.69  E-value=0.02  Score=44.35  Aligned_cols=43  Identities=21%  Similarity=0.181  Sum_probs=29.0

Q ss_pred             cChHHHHHHHHHHhc--CCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          155 ESRSSTLNNVLRALQ--DPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       155 ~gr~~~~~~l~~~L~--~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      +|.+..+.++++.+.  .....-|-|+|-.|+||+.+|+.|++.-
T Consensus         2 iG~s~~m~~~~~~~~~~a~~~~pVlI~GE~GtGK~~lA~~IH~~s   46 (168)
T PF00158_consen    2 IGESPAMKRLREQAKRAASSDLPVLITGETGTGKELLARAIHNNS   46 (168)
T ss_dssp             S--SHHHHHHHHHHHHHTTSTS-EEEECSTTSSHHHHHHHHHHCS
T ss_pred             EeCCHHHHHHHHHHHHHhCCCCCEEEEcCCCCcHHHHHHHHHHhh
Confidence            565556666666554  2333555699999999999999999843

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 ....

>cd02040 NifH NifH gene encodes component II (iron protein) of nitrogenase

Probab=95.68  E-value=0.0088  Score=49.72  Aligned_cols=25  Identities=36%  Similarity=0.760  Sum_probs=21.5

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ++|+|.|-||+||||++.++..-..
T Consensus         2 ~~iav~~KGGvGKTT~~~nLA~~La   26 (270)
T cd02040           2 RQIAIYGKGGIGKSTTTQNLSAALA   26 (270)
T ss_pred             cEEEEEeCCcCCHHHHHHHHHHHHH
Confidence            5789999999999999998776664

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.

>cd04124 RabL2 RabL2 subfamily

Probab=95.68  E-value=0.0086  Score=45.64  Aligned_cols=22  Identities=18%  Similarity=0.353  Sum_probs=18.9

Q ss_pred             EEEEccCCCCHHHHHHHHHHHh
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      |.++|.+|+|||||+..+.+..
T Consensus         3 i~vvG~~~vGKTsli~~~~~~~   24 (161)
T cd04124           3 IILLGDSAVGKSKLVERFLMDG   24 (161)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            6899999999999998876543

RabL2 (Rab-like2) subfamily. RabL2s are novel Rab proteins identified recently which display features that are distinct from other Rabs, and have been termed Rab-like. RabL2 contains RabL2a and RabL2b, two very similar Rab proteins that share 98% sequence identity in humans. RabL2b maps to the subtelomeric region of chromosome 22q13.3 and RabL2a maps to 2q13, a region that suggests it is also a subtelomeric gene. Both genes are believed to be expressed ubiquitously, suggesting that RabL2s are the first example of duplicated genes in human proximal subtelomeric regions that are both expressed actively. Like other Rab-like proteins, RabL2s lack a prenylation site at the C-terminus. The specific functions of RabL2a and RabL2b remain unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-b

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=95.68  E-value=0.016  Score=45.48  Aligned_cols=37  Identities=24%  Similarity=0.162  Sum_probs=27.7

Q ss_pred             HHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          160 TLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       160 ~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      +...++.+.... -..+.|+|..|+|||||++.+..-.
T Consensus        13 ~~~~~l~~~v~~-g~~i~I~G~tGSGKTTll~aL~~~i   49 (186)
T cd01130          13 LQAAYLWLAVEA-RKNILISGGTGSGKTTLLNALLAFI   49 (186)
T ss_pred             HHHHHHHHHHhC-CCEEEEECCCCCCHHHHHHHHHhhc
Confidence            344555544443 5688999999999999999988654

The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=95.67  E-value=0.0092  Score=45.11  Aligned_cols=19  Identities=21%  Similarity=0.534  Sum_probs=18.2

Q ss_pred             EEEEccCCCCHHHHHHHHH
Q 036637          176 VGIYGMGGIGKTTLAKEVA  194 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~  194 (250)
                      |+++|..|+|||||.+.+.
T Consensus         2 i~l~G~~g~GKTtL~~~l~   20 (170)
T cd01876           2 IAFAGRSNVGKSSLINALT   20 (170)
T ss_pred             EEEEcCCCCCHHHHHHHHh
Confidence            6899999999999999999

This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and consists of the GTPase domain only (some of the eukaryotic homologs contain an N-terminal extension of about 120 residues that might be involved in organellar targeting). Homologs of yihA are found in most Gram-positive and Gram-negative pathogenic bacteria, with the exception of Mycobacterium tuberculosis. The broad-spectrum nature of YihA and its essentiality for cell viability in bacteria make it an attractive antibacterial target.

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=95.67  E-value=0.012  Score=49.90  Aligned_cols=24  Identities=33%  Similarity=0.468  Sum_probs=21.3

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .+|-++|.+|+||||+|+.+....
T Consensus         3 ~liil~G~pGSGKSTla~~L~~~~   26 (300)
T PHA02530          3 KIILTVGVPGSGKSTWAREFAAKN   26 (300)
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHHC
Confidence            578899999999999999998765

>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment

Probab=95.66  E-value=0.011  Score=46.12  Aligned_cols=26  Identities=31%  Similarity=0.356  Sum_probs=22.5

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+....
T Consensus        25 ~G~~~~i~G~nGsGKSTLl~~l~G~~   50 (178)
T cd03229          25 AGEIVALLGPSGSGKSTLLRCIAGLE   50 (178)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45688999999999999999998553

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK15453 phosphoribulokinase; Provisional

Probab=95.65  E-value=0.014  Score=48.78  Aligned_cols=27  Identities=22%  Similarity=0.439  Sum_probs=22.9

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ....+|+|.|.+|+||||+++.+.+..
T Consensus         3 ~k~piI~ItG~SGsGKTTva~~l~~if   29 (290)
T PRK15453          3 AKHPIIAVTGSSGAGTTTVKRAFEKIF   29 (290)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            345789999999999999999887544

>smart00175 RAB Rab subfamily of small GTPases

Probab=95.65  E-value=0.0095  Score=45.15  Aligned_cols=22  Identities=23%  Similarity=0.351  Sum_probs=19.9

Q ss_pred             EEEEccCCCCHHHHHHHHHHHh
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      |.++|.+|+|||||++.+.+..
T Consensus         3 v~v~G~~~~GKTtli~~l~~~~   24 (164)
T smart00175        3 IILIGDSGVGKSSLLSRFTDGK   24 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            6899999999999999998654

Rab GTPases are implicated in vesicle trafficking.

>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=95.64  E-value=0.01  Score=48.37  Aligned_cols=26  Identities=27%  Similarity=0.391  Sum_probs=22.6

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+....
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~l~G~~   50 (235)
T cd03261          25 RGEILAIIGPSGSGKSTLLRLIVGLL   50 (235)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            44688999999999999999998654

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.

>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=95.64  E-value=0.074  Score=45.39  Aligned_cols=72  Identities=15%  Similarity=0.165  Sum_probs=48.4

Q ss_pred             HHHHHHHHhcC---CCceEEEEEccCCCCHHHHHHHHHHHhcCCC--CC---CeEEEEEcCCCCCHHHHHHHHHHHhCCC
Q 036637          160 TLNNVLRALQD---PDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQ--FF---DQVIFVEVPHIPDIRKIQGEIADKLGLI  231 (250)
Q Consensus       160 ~~~~l~~~L~~---~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~--~F---d~~~wv~vs~~~~~~~l~~~i~~~l~~~  231 (250)
                      -.+.|.+.+.+   +...+|+|.|.=|+||||+.+.+.+..+...  .+   ..-.|-.-+..--...++..|..+++..
T Consensus         4 ~a~~la~~I~~~~~~~~~~IgL~G~WGsGKSs~l~~l~~~L~~~~~~~~~~i~fn~w~~~~~~~~~~~~~~~l~~~l~~~   83 (325)
T PF07693_consen    4 YAKALAEIIKNPDSDDPFVIGLYGEWGSGKSSFLNMLKEELKEDNKEKYIFIYFNAWEYDGEDDLWASFLEELFDQLEKH   83 (325)
T ss_pred             HHHHHHHHHhccCCCCCeEEEEECCCCCCHHHHHHHHHHHHhcccccceeeEEEccccCCCcchHHHHHHHHHHHHHHHh
Confidence            34556666664   5788999999999999999999998887541  11   1223333333334566677777777544

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 [].

>PRK13531 regulatory ATPase RavA; Provisional

Probab=95.64  E-value=0.029  Score=50.42  Aligned_cols=51  Identities=24%  Similarity=0.352  Sum_probs=39.6

Q ss_pred             CCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCC
Q 036637          152 EAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFD  204 (250)
Q Consensus       152 ~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd  204 (250)
                      ..++|++..++.+...+..++  -+-+.|.+|+|||+||+.+.....-...|.
T Consensus        20 ~~i~gre~vI~lll~aalag~--hVLL~GpPGTGKT~LAraLa~~~~~~~~F~   70 (498)
T PRK13531         20 KGLYERSHAIRLCLLAALSGE--SVFLLGPPGIAKSLIARRLKFAFQNARAFE   70 (498)
T ss_pred             hhccCcHHHHHHHHHHHccCC--CEEEECCCChhHHHHHHHHHHHhcccCcce
Confidence            367899999998888876443  346899999999999999998665433454

>cd02029 PRK_like Phosphoribulokinase-like (PRK-like) is a family of proteins similar to phosphoribulokinase (PRK), the enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes

Probab=95.64  E-value=0.047  Score=45.37  Aligned_cols=24  Identities=25%  Similarity=0.516  Sum_probs=21.1

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhc
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      +|+|.|..|+||||+++.+.....
T Consensus         1 IIgItG~SGSGKTTv~~~l~~~l~   24 (277)
T cd02029           1 VIAVTGSSGAGTTTVKRAFEHIFA   24 (277)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHH
Confidence            589999999999999998886654

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.

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=95.63  E-value=0.045  Score=44.39  Aligned_cols=54  Identities=28%  Similarity=0.286  Sum_probs=35.7

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhCC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGL  230 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~~l~~  230 (250)
                      .-..+.|.|.+|+|||||+.++....-.  .-+..+|++...++  ..+.+. +.+++.
T Consensus        19 ~G~~~~i~G~~G~GKT~l~~~~~~~~~~--~g~~~~~is~e~~~--~~i~~~-~~~~g~   72 (229)
T TIGR03881        19 RGFFVAVTGEPGTGKTIFCLHFAYKGLR--DGDPVIYVTTEESR--ESIIRQ-AAQFGM   72 (229)
T ss_pred             CCeEEEEECCCCCChHHHHHHHHHHHHh--cCCeEEEEEccCCH--HHHHHH-HHHhCC
Confidence            4578899999999999999986644321  23467888875543  444433 444443

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.

>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs

Probab=95.62  E-value=0.017  Score=45.00  Aligned_cols=43  Identities=19%  Similarity=0.128  Sum_probs=29.4

Q ss_pred             EEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHH
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQG  222 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~  222 (250)
                      +.|.|.+|+|||+|+.++....-. .. ..++|++...+  ..++.+
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~~~~-~g-~~v~~~s~e~~--~~~~~~   44 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGLA-RG-EPGLYVTLEES--PEELIE   44 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHH-CC-CcEEEEECCCC--HHHHHH
Confidence            578999999999999987655431 11 35778877654  444443

A related protein is found in archaea.

>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=95.62  E-value=0.011  Score=46.27  Aligned_cols=28  Identities=39%  Similarity=0.460  Sum_probs=23.7

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      +.-.+++|+|..|+|||||++.+..-..
T Consensus        23 ~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~   50 (177)
T cd03222          23 KEGEVIGIVGPNGTGKTTAVKILAGQLI   50 (177)
T ss_pred             CCCCEEEEECCCCChHHHHHHHHHcCCC
Confidence            3456899999999999999999987543

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.

>PRK05537 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated

Probab=95.62  E-value=0.026  Score=52.21  Aligned_cols=47  Identities=21%  Similarity=0.284  Sum_probs=33.5

Q ss_pred             CCcChHHHHHHHHHHhc--CCCceEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          153 AFESRSSTLNNVLRALQ--DPDVNMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       153 ~~~gr~~~~~~l~~~L~--~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      ..+.|.+-.+.|.++.-  .....+|.++|+.|+||||+++.+......
T Consensus       370 ~~f~rpeV~~iL~~~~~~r~~~g~~Ivl~Gl~GSGKSTia~~La~~L~~  418 (568)
T PRK05537        370 EWFSFPEVVAELRRTYPPRHKQGFTVFFTGLSGAGKSTIAKALMVKLME  418 (568)
T ss_pred             hhhcHHHHHHHHHHHhccccCCCeEEEEECCCCChHHHHHHHHHHHhhh
Confidence            34445554554444433  345669999999999999999999987753

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=95.61  E-value=0.011  Score=48.49  Aligned_cols=26  Identities=31%  Similarity=0.402  Sum_probs=22.6

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        27 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~   52 (243)
T TIGR02315        27 PGEFVAIIGPSGAGKSTLLRCINRLV   52 (243)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            44689999999999999999998654

Phosphonates are a class of phosphorus-containing organic compound with a stable direct C-P bond rather than a C-O-P linkage. A number of bacterial species have operons, typically about 14 genes in size, with genes for ATP-dependent transport of phosphonates, degradation, and regulation of the expression of the system. Members of this protein family are the ATP-binding cassette component of tripartite ABC transporters of phosphonates.

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=95.61  E-value=0.011  Score=47.27  Aligned_cols=26  Identities=27%  Similarity=0.391  Sum_probs=22.8

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+....
T Consensus        25 ~G~~~~i~G~nGsGKSTLl~~l~G~~   50 (210)
T cd03269          25 KGEIFGLLGPNGAGKTTTIRMILGII   50 (210)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            45688999999999999999998754

In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR00455 apsK adenylylsulfate kinase (apsK)

Probab=95.61  E-value=0.015  Score=45.55  Aligned_cols=28  Identities=21%  Similarity=0.376  Sum_probs=24.7

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....+|.+.|.+|+||||+++.+.....
T Consensus        16 ~~~~~i~i~G~~GsGKstla~~l~~~l~   43 (184)
T TIGR00455        16 HRGVVIWLTGLSGSGKSTIANALEKKLE   43 (184)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            5567999999999999999999997764

Important residue (active site in E.coli) is residue 100 of the seed alignment.

>TIGR00017 cmk cytidylate kinase

Probab=95.61  E-value=0.013  Score=47.30  Aligned_cols=25  Identities=44%  Similarity=0.666  Sum_probs=22.6

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .+|+|.|+.|+||||+++.+.....
T Consensus         3 ~~i~i~G~~GsGKst~~~~la~~~~   27 (217)
T TIGR00017         3 MIIAIDGPSGAGKSTVAKAVAEKLG   27 (217)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4799999999999999999997665

This family consists of cytidylate kinase, which catalyzes the phosphorylation of cytidine 5-monophosphate (dCMP) to cytidine 5 -diphosphate (dCDP) in the presence of ATP or GTP. UMP and dCMP can also act as acceptors.

>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins

Probab=95.61  E-value=0.035  Score=48.49  Aligned_cols=71  Identities=18%  Similarity=0.197  Sum_probs=46.5

Q ss_pred             HHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHH--HHHHHHHhCCCCC
Q 036637          160 TLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKI--QGEIADKLGLIFF  233 (250)
Q Consensus       160 ~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l--~~~i~~~l~~~~~  233 (250)
                      -.+.+++.+.......+.|.|.||.|||+|.+.+.+..+..  -+ .+-++.+.......|  -..+-+.++++..
T Consensus         9 ~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~i~~~~~~~--~~-~~~~~a~tg~AA~~i~~G~T~hs~f~i~~~   81 (364)
T PF05970_consen    9 VFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKAIIDYLRSR--GK-KVLVTAPTGIAAFNIPGGRTIHSFFGIPIN   81 (364)
T ss_pred             HHHHHHHHHHccCCcEEEEEcCCCCChhHHHHHHHHHhccc--cc-eEEEecchHHHHHhccCCcchHHhcCcccc
Confidence            45666677777777888999999999999999999888643  22 233333333333333  2455555666644

The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=95.59  E-value=0.011  Score=47.59  Aligned_cols=26  Identities=31%  Similarity=0.471  Sum_probs=22.8

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.++.-.
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (220)
T cd03263          27 KGEIFGLLGHNGAGKTTTLKMLTGEL   52 (220)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            45589999999999999999999754

Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency, degenerative retinopathies, and congenital keratinization disorders. The ABCA1 protein is involved in disorders of cholesterol transport and high-density lipoprotein (HDL) biosynthesis. The ABCA4 (ABCR) protein transports vitamin A derivatives in the outer segments of photoreceptor cells, and therefore, performs a crucial step in the visual cycle. The ABCA genes are not present in yeast. However, evolutionary studies of ABCA genes indicate that they arose as transporters that subsequently duplicated and that certain sets of ABCA genes were lost in different eukaryotic lineages.

>cd03297 ABC_ModC_molybdenum_transporter ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB

Probab=95.59  E-value=0.012  Score=47.20  Aligned_cols=26  Identities=35%  Similarity=0.563  Sum_probs=23.0

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .. .+++|+|..|+|||||++.+..-.
T Consensus        22 ~~-e~~~i~G~nGsGKSTLl~~l~G~~   47 (214)
T cd03297          22 NE-EVTGIFGASGAGKSTLLRCIAGLE   47 (214)
T ss_pred             cc-eeEEEECCCCCCHHHHHHHHhCCC
Confidence            45 899999999999999999998654

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>smart00072 GuKc Guanylate kinase homologues

Probab=95.59  E-value=0.013  Score=46.06  Aligned_cols=25  Identities=28%  Similarity=0.400  Sum_probs=22.5

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .+.|.++|+.|+||+||+..+....
T Consensus         2 ~r~ivl~Gpsg~GK~tl~~~L~~~~   26 (184)
T smart00072        2 RRPIVLSGPSGVGKGTLLAELIQEI   26 (184)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHhcC
Confidence            4689999999999999999998774

Active enzymes catalyze ATP-dependent phosphorylation of GMP to GDP. Structure resembles that of adenylate kinase. So-called membrane-associated guanylate kinase homologues (MAGUKs) do not possess guanylate kinase activities; instead at least some possess protein-binding functions.

>cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively

Probab=95.59  E-value=0.011  Score=47.62  Aligned_cols=26  Identities=31%  Similarity=0.382  Sum_probs=22.8

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        29 ~G~~~~i~G~nGsGKSTLl~~l~Gl~   54 (220)
T cd03293          29 EGEFVALVGPSGCGKSTLLRIIAGLE   54 (220)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999998764

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=95.58  E-value=0.011  Score=47.33  Aligned_cols=26  Identities=31%  Similarity=0.290  Sum_probs=22.6

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        27 ~G~~~~l~G~nGsGKSTLl~~i~Gl~   52 (214)
T TIGR02673        27 KGEFLFLTGPSGAGKTTLLKLLYGAL   52 (214)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45689999999999999999998654

This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=95.58  E-value=0.012  Score=46.63  Aligned_cols=26  Identities=27%  Similarity=0.350  Sum_probs=22.9

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+....
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~l~G~~   50 (195)
T PRK13541         25 PSAITYIKGANGCGKSSLLRMIAGIM   50 (195)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            44588999999999999999998764

>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system

Probab=95.58  E-value=0.011  Score=48.26  Aligned_cols=26  Identities=27%  Similarity=0.344  Sum_probs=22.5

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        26 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   51 (241)
T cd03256          26 PGEFVALIGPSGAGKSTLLRCLNGLV   51 (241)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            45689999999999999999998653

Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all kingdoms of wildlife, but only procaryotic microorganisms are able to cleave this bond. Certain bacteria such as E. coli can use alkylphosphonates as a phosphorus source. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK06835 DNA replication protein DnaC; Validated

Probab=95.57  E-value=0.56  Score=40.40  Aligned_cols=39  Identities=26%  Similarity=0.318  Sum_probs=29.9

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCC
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPH  213 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~  213 (250)
                      ..-+-++|..|+|||+||..|.+..-.++  -.++|++++.
T Consensus       183 ~~~Lll~G~~GtGKThLa~aIa~~l~~~g--~~V~y~t~~~  221 (329)
T PRK06835        183 NENLLFYGNTGTGKTFLSNCIAKELLDRG--KSVIYRTADE  221 (329)
T ss_pred             CCcEEEECCCCCcHHHHHHHHHHHHHHCC--CeEEEEEHHH
Confidence            36789999999999999999998875332  2566776643

>PF00406 ADK: Adenylate kinase; InterPro: IPR000850 Adenylate kinases (ADK) are phosphotransferases that catalyse the reversible reaction AMP + MgATP = ADP + MgADP an essential reaction for many processes in living cells

Probab=95.57  E-value=0.013  Score=44.33  Aligned_cols=21  Identities=48%  Similarity=0.672  Sum_probs=19.4

Q ss_pred             EEccCCCCHHHHHHHHHHHhc
Q 036637          178 IYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       178 I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      |+|++|+||||+++.+.....
T Consensus         1 i~G~PgsGK~t~~~~la~~~~   21 (151)
T PF00406_consen    1 ILGPPGSGKGTQAKRLAKRYG   21 (151)
T ss_dssp             EEESTTSSHHHHHHHHHHHHT
T ss_pred             CcCCCCCChHHHHHHHHHhcC
Confidence            689999999999999999875

Two ADK isozymes have been identified in mammalian cells. These specifically bind AMP and favour binding to ATP over other nucleotide triphosphates (AK1 is cytosolic and AK2 is located in the mitochondria). A third ADK has been identified in bovine heart and human cells [], this is a mitochondrial GTP:AMP phosphotransferase, also specific for the phosphorylation of AMP, but can only use GTP or ITP as a substrate []. ADK has also been identified in different bacterial species and in yeast []. Two further enzymes are known to be related to the ADK family, i.e. yeast uridine monophosphokinase and slime mold UMP-CMP kinase. Within the ADK family there are several conserved regions, including the ATP-binding domains. One of the most conserved areas includes an Arg residue, whose modification inactivates the enzyme, together with an Asp that resides in the catalytic cleft of the enzyme and participates in a salt bridge.; GO: 0005524 ATP binding, 0019205 nucleobase-containing compound kinase activity, 0006139 nucleobase-containing compound metabolic process; PDB: 1ZD8_A 3TLX_D 1TEV_A 1ZAK_B 3CM0_A 3ADK_A 1ZIP_A 1ZIO_A 1ZIN_A 3NDP_A ....

>cd04136 Rap_like Rap-like subfamily

Probab=95.57  E-value=0.01  Score=45.02  Aligned_cols=22  Identities=32%  Similarity=0.563  Sum_probs=19.2

Q ss_pred             EEEEEccCCCCHHHHHHHHHHH
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      .|.|+|.+|+|||||+..+.++
T Consensus         3 ki~i~G~~~vGKTsl~~~~~~~   24 (163)
T cd04136           3 KVVVLGSGGVGKSALTVQFVQG   24 (163)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999887754

The Rap subfamily consists of the Rap1, Rap2, and RSR1. Rap subfamily proteins perform different cellular functions, depending on the isoform and its subcellular localization. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and microsomal membrane of the pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. Rap1 localizes in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines. Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands. In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres.

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=95.57  E-value=0.021  Score=52.98  Aligned_cols=48  Identities=19%  Similarity=0.356  Sum_probs=40.0

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCC-ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          150 DYEAFESRSSTLNNVLRALQDPD-VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~-~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ....++|.+..++.|.+++..+. .+-+-++|..|+||||+|+.+.+..
T Consensus        22 ~f~dliGq~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~lAk~L   70 (598)
T PRK09111         22 TFDDLIGQEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARILARAL   70 (598)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhh
Confidence            45578999999999999888655 4578899999999999999987654

>TIGR01351 adk adenylate kinases

Probab=95.56  E-value=0.013  Score=46.93  Aligned_cols=23  Identities=39%  Similarity=0.585  Sum_probs=20.5

Q ss_pred             EEEEccCCCCHHHHHHHHHHHhc
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      |.|.|++|+||||+|+.+.....
T Consensus         2 I~i~G~pGsGKsT~a~~La~~~g   24 (210)
T TIGR01351         2 LVLLGPPGSGKGTQAKRIAEKYG   24 (210)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcC
Confidence            67999999999999999987664

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.

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.56  E-value=0.021  Score=52.81  Aligned_cols=49  Identities=18%  Similarity=0.226  Sum_probs=40.2

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCCc-eEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          150 DYEAFESRSSTLNNVLRALQDPDV-NMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~~-~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....++|.+..++.|.+++.+..+ +.+-++|..|+||||+|+.+.+...
T Consensus        11 ~f~eivGq~~i~~~L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~   60 (584)
T PRK14952         11 TFAEVVGQEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARILARSLN   60 (584)
T ss_pred             cHHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            445788999999999999886654 5678999999999999998886643

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=95.55  E-value=0.025  Score=49.85  Aligned_cols=46  Identities=13%  Similarity=0.183  Sum_probs=37.6

Q ss_pred             CCCcChHHHHHHHHHHhcCC----------CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          152 EAFESRSSTLNNVLRALQDP----------DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       152 ~~~~gr~~~~~~l~~~L~~~----------~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..++|.+..++.|.+++..+          -.+-+-++|+.|+||||+|+.+....
T Consensus         5 ~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l   60 (394)
T PRK07940          5 DDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAAL   60 (394)
T ss_pred             hhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHh
Confidence            46789999999999988754          25668899999999999999876543

>cd03260 ABC_PstB_phosphate_transporter Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient

Probab=95.55  E-value=0.012  Score=47.70  Aligned_cols=26  Identities=23%  Similarity=0.312  Sum_probs=23.0

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~i~G~~   50 (227)
T cd03260          25 KGEITALIGPSGCGKSTLLRLLNRLN   50 (227)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            45689999999999999999998764

The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein is a phosphate-binding protein located in the periplasmic space. P stA and PstC are hydrophobic and they form the transmembrane portion of the Pst system. PstB is the catalytic subunit, which couples the energy of ATP hydrolysis to the import of phosphate across cellular membranes through the Pst system, often referred as ABC-protein. PstB belongs to one of the largest superfamilies of proteins characterized by a highly conserved adenosine triphosphate (ATP) binding cassette (ABC), which is also a nucleotide binding domain (NBD).

>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]

Probab=95.55  E-value=0.044  Score=45.90  Aligned_cols=49  Identities=24%  Similarity=0.337  Sum_probs=40.5

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHH
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQG  222 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~  222 (250)
                      .-+++=|.|..|+||||+|-+++-..+-.  -..++|+..-+.++++.+..
T Consensus        59 ~g~ItEiyG~~gsGKT~lal~~~~~aq~~--g~~a~fIDtE~~l~p~r~~~  107 (279)
T COG0468          59 RGRITEIYGPESSGKTTLALQLVANAQKP--GGKAAFIDTEHALDPERAKQ  107 (279)
T ss_pred             cceEEEEecCCCcchhhHHHHHHHHhhcC--CCeEEEEeCCCCCCHHHHHH
Confidence            34677799999999999999988777643  44899999999999887653

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=95.55  E-value=0.012  Score=47.19  Aligned_cols=26  Identities=31%  Similarity=0.344  Sum_probs=22.5

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03259          25 PGEFLALLGPSGCGKTTLLRLIAGLE   50 (213)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            45689999999999999999998653

This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

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

Probab=95.54  E-value=0.011  Score=48.79  Aligned_cols=59  Identities=22%  Similarity=0.307  Sum_probs=37.5

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEE--cCC--CCCHHHHHHHHHHHhCCCC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVE--VPH--IPDIRKIQGEIADKLGLIF  232 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~--vs~--~~~~~~l~~~i~~~l~~~~  232 (250)
                      .-.++++||-.|+|||||++.+..-.+-.  +..+.|=-  +..  .....+-..++++.+|++.
T Consensus        38 ~ge~~glVGESG~GKSTlgr~i~~L~~pt--~G~i~f~g~~i~~~~~~~~~~~v~elL~~Vgl~~  100 (268)
T COG4608          38 EGETLGLVGESGCGKSTLGRLILGLEEPT--SGEILFEGKDITKLSKEERRERVLELLEKVGLPE  100 (268)
T ss_pred             CCCEEEEEecCCCCHHHHHHHHHcCcCCC--CceEEEcCcchhhcchhHHHHHHHHHHHHhCCCH
Confidence            56789999999999999999998766522  22222210  111  2234445667778878664

>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed

Probab=95.54  E-value=0.025  Score=48.28  Aligned_cols=27  Identities=30%  Similarity=0.602  Sum_probs=23.2

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....|.++|+.|+||||+++.+.....
T Consensus       132 ~~~~I~l~G~~GsGKStvg~~La~~Lg  158 (309)
T PRK08154        132 RRRRIALIGLRGAGKSTLGRMLAARLG  158 (309)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHcC
Confidence            456899999999999999999986653

>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional

Probab=95.54  E-value=0.012  Score=47.70  Aligned_cols=26  Identities=27%  Similarity=0.249  Sum_probs=23.2

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.++.-.
T Consensus        35 ~Ge~~~i~G~nGsGKSTLl~~i~Gl~   60 (228)
T PRK10584         35 RGETIALIGESGSGKSTLLAILAGLD   60 (228)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHcCC
Confidence            45799999999999999999999764

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=95.54  E-value=0.012  Score=46.91  Aligned_cols=26  Identities=38%  Similarity=0.469  Sum_probs=22.8

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.++.-.
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   50 (205)
T cd03226          25 AGEIIALTGKNGAGKTTLAKILAGLI   50 (205)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45688999999999999999998754

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane

Probab=95.54  E-value=0.012  Score=47.14  Aligned_cols=26  Identities=31%  Similarity=0.294  Sum_probs=22.9

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        26 ~G~~~~i~G~nGsGKSTLl~~l~G~~   51 (214)
T cd03292          26 AGEFVFLVGPSGAGKSTLLKLIYKEE   51 (214)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45688999999999999999998764

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

>cd01864 Rab19 Rab19 subfamily

Probab=95.53  E-value=0.015  Score=44.35  Aligned_cols=24  Identities=17%  Similarity=0.252  Sum_probs=20.4

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHH
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      ..-|.|+|.+|+|||||+..+.+.
T Consensus         3 ~~kv~vvG~~~~GKTsli~~l~~~   26 (165)
T cd01864           3 LFKIILIGDSNVGKTCVVQRFKSG   26 (165)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhhC
Confidence            356789999999999999998654

Rab19 proteins are associated with Golgi stacks. Similarity analysis indicated that Rab41 is closely related to Rab19. However, the function of these Rabs is not yet chracterized. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>PRK04328 hypothetical protein; Provisional

Probab=95.53  E-value=0.034  Score=45.90  Aligned_cols=54  Identities=19%  Similarity=0.276  Sum_probs=37.3

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhCC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGL  230 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~~l~~  230 (250)
                      .-.++-|.|.+|+|||+|+.++...--  ..-..++|++...++  .++.+ .+++++.
T Consensus        22 ~gs~ili~G~pGsGKT~l~~~fl~~~~--~~ge~~lyis~ee~~--~~i~~-~~~~~g~   75 (249)
T PRK04328         22 ERNVVLLSGGPGTGKSIFSQQFLWNGL--QMGEPGVYVALEEHP--VQVRR-NMRQFGW   75 (249)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHH--hcCCcEEEEEeeCCH--HHHHH-HHHHcCC
Confidence            457889999999999999998654432  124578999987754  34433 3455554

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

Probab=95.53  E-value=0.015  Score=50.47  Aligned_cols=29  Identities=28%  Similarity=0.347  Sum_probs=26.4

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      ..+..++|||++|+|||.+|+.|++...+
T Consensus       146 k~PlgllL~GPPGcGKTllAraiA~elg~  174 (413)
T PLN00020        146 KVPLILGIWGGKGQGKSFQCELVFKKMGI  174 (413)
T ss_pred             CCCeEEEeeCCCCCCHHHHHHHHHHHcCC
Confidence            56789999999999999999999999865

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=95.53  E-value=0.011  Score=47.35  Aligned_cols=23  Identities=43%  Similarity=0.593  Sum_probs=21.0

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      +++|+|..|+|||||++.++.-.
T Consensus        27 ~~~i~G~nGsGKSTLl~~l~Gl~   49 (211)
T cd03264          27 MYGLLGPNGAGKTTLMRILATLT   49 (211)
T ss_pred             cEEEECCCCCCHHHHHHHHhCCC
Confidence            88999999999999999998653

The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=95.53  E-value=0.011  Score=47.42  Aligned_cols=26  Identities=31%  Similarity=0.408  Sum_probs=22.8

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+....
T Consensus        24 ~Ge~~~l~G~nGsGKSTLl~~l~G~~   49 (213)
T cd03235          24 PGEFLAIVGPNGAGKSTLLKAILGLL   49 (213)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcCCC
Confidence            45689999999999999999998754

This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-siderophore uptake family suggesting that they share a common ancestor. The best characterized metal-type ABC transporters are the YfeABCD system of Y. pestis, the SitABCD system of Salmonella enterica serovar Typhimurium, and the SitABCD transporter of Shigella flexneri. Moreover other uncharacterized homologs of these metal-type transporters are mainly found in pathogens like Haemophilus or enteroinvasive E. coli isolates.

>PRK00279 adk adenylate kinase; Reviewed

Probab=95.51  E-value=0.015  Score=46.79  Aligned_cols=24  Identities=38%  Similarity=0.474  Sum_probs=21.3

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhc
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .|.|.|++|+||||+++.+.....
T Consensus         2 ~I~v~G~pGsGKsT~a~~la~~~~   25 (215)
T PRK00279          2 RLILLGPPGAGKGTQAKFIAEKYG   25 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            478999999999999999987765

>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein

Probab=95.51  E-value=0.013  Score=47.34  Aligned_cols=26  Identities=31%  Similarity=0.308  Sum_probs=22.7

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.++.-.
T Consensus        30 ~G~~~~i~G~nGsGKSTLl~~i~G~~   55 (221)
T TIGR02211        30 KGEIVAIVGSSGSGKSTLLHLLGGLD   55 (221)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            45689999999999999999998654

This model represents LolD, a member of the ABC transporter family (pfam00005). LolD is involved in localization of lipoproteins in some bacteria. It works with a transmembrane protein LolC, which in some species is a paralogous pair LolC and LolE. Depending on whether the residue immediately following the new, modified N-terminal Cys residue, the nascent lipoprotein may be carried further by LolA and LolB to the outer membrane, or remain at the inner membrane. The top scoring proteins excluded by this model include homologs from the archaeal genus Methanosarcina.

>PRK02496 adk adenylate kinase; Provisional

Probab=95.51  E-value=0.014  Score=45.67  Aligned_cols=24  Identities=29%  Similarity=0.234  Sum_probs=20.9

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhc
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .|.|.|++|+||||+++.+.....
T Consensus         3 ~i~i~G~pGsGKst~a~~la~~~~   26 (184)
T PRK02496          3 RLIFLGPPGAGKGTQAVVLAEHLH   26 (184)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            478999999999999999987653

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.51  E-value=0.18  Score=47.11  Aligned_cols=48  Identities=21%  Similarity=0.290  Sum_probs=39.5

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCCc-eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          150 DYEAFESRSSTLNNVLRALQDPDV-NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~~-~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ....++|.+..++.|..++..+.+ +.+-++|..|+||||+|+.+-...
T Consensus        15 ~f~~viGq~~~~~~L~~~i~~~~l~hayLf~Gp~G~GKtt~A~~lAk~l   63 (614)
T PRK14971         15 TFESVVGQEALTTTLKNAIATNKLAHAYLFCGPRGVGKTTCARIFAKTI   63 (614)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHh
Confidence            345788999999999999887655 568899999999999998876654

>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX

Probab=95.51  E-value=0.033  Score=44.37  Aligned_cols=43  Identities=19%  Similarity=0.225  Sum_probs=31.0

Q ss_pred             cCCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHH
Q 036637          151 YEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       151 ~~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~  195 (250)
                      ...++|.+..+..+.-....  .+=+-++|.+|+|||+||+.+-.
T Consensus         2 f~dI~GQe~aKrAL~iAAaG--~h~lLl~GppGtGKTmlA~~l~~   44 (206)
T PF01078_consen    2 FSDIVGQEEAKRALEIAAAG--GHHLLLIGPPGTGKTMLARRLPS   44 (206)
T ss_dssp             TCCSSSTHHHHHHHHHHHHC--C--EEEES-CCCTHHHHHHHHHH
T ss_pred             hhhhcCcHHHHHHHHHHHcC--CCCeEEECCCCCCHHHHHHHHHH
Confidence            35678888777776655544  45778999999999999998764

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.

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=95.50  E-value=0.012  Score=43.71  Aligned_cols=23  Identities=30%  Similarity=0.312  Sum_probs=20.0

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|.++|.+|+|||||+..+.+..
T Consensus         2 kv~liG~~~vGKSsL~~~l~~~~   24 (142)
T TIGR02528         2 RIMFIGSVGCGKTTLTQALQGEE   24 (142)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCc
Confidence            47899999999999999987654

This protein is found within operons which code for polyhedral organelles containing the enzyme ethanolamine ammonia lyase. The function of this gene is unknown, although the presence of an N-terminal GxxGxGK motif implies a GTP-binding site.

>cd04123 Rab21 Rab21 subfamily

Probab=95.50  E-value=0.013  Score=44.25  Aligned_cols=23  Identities=30%  Similarity=0.359  Sum_probs=20.3

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|.|+|.+|+|||||...+.+..
T Consensus         2 ki~i~G~~~~GKStli~~l~~~~   24 (162)
T cd04123           2 KVVLLGEGRVGKTSLVLRYVENK   24 (162)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            37899999999999999988764

The localization and function of Rab21 are not clearly defined, with conflicting data reported. Rab21 has been reported to localize in the ER in human intestinal epithelial cells, with partial colocalization with alpha-glucosidase, a late endosomal/lysosomal marker. More recently, Rab21 was shown to colocalize with and affect the morphology of early endosomes. In Dictyostelium, GTP-bound Rab21, together with two novel LIM domain proteins, LimF and ChLim, has been shown to regulate phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site

>PRK15177 Vi polysaccharide export ATP-binding protein VexC; Provisional

Probab=95.49  E-value=0.014  Score=46.95  Aligned_cols=26  Identities=31%  Similarity=0.290  Sum_probs=22.7

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||.+.++.-.
T Consensus        12 ~Ge~~~l~G~NGsGKSTLlk~i~Gl~   37 (213)
T PRK15177         12 YHEHIGILAAPGSGKTTLTRLLCGLD   37 (213)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            34689999999999999999999654

>PRK14528 adenylate kinase; Provisional

Probab=95.49  E-value=0.018  Score=45.30  Aligned_cols=25  Identities=28%  Similarity=0.300  Sum_probs=21.7

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      +.|.|.|++|+||||+++.+.....
T Consensus         2 ~~i~i~G~pGsGKtt~a~~la~~~~   26 (186)
T PRK14528          2 KNIIFMGPPGAGKGTQAKILCERLS   26 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4578999999999999999987664

>cd03265 ABC_DrrA DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin

Probab=95.49  E-value=0.013  Score=47.26  Aligned_cols=26  Identities=31%  Similarity=0.460  Sum_probs=22.8

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+....
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~i~G~~   50 (220)
T cd03265          25 RGEIFGLLGPNGAGKTTTIKMLTTLL   50 (220)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45788999999999999999998753

In addition to DrrA, the complex includes an integral membrane protein called DrrB. DrrA belongs to the ABC family of transporters and shares sequence and functional similarities with a protein found in cancer cells called P-glycoprotein. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system

Probab=95.48  E-value=0.013  Score=47.84  Aligned_cols=26  Identities=27%  Similarity=0.410  Sum_probs=22.8

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        26 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   51 (236)
T TIGR03864        26 PGEFVALLGPNGAGKSTLFSLLTRLY   51 (236)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            45689999999999999999998654

Members of this protein family are the ATP-binding subunit of an ABC transporter system that is associated with PQQ biosynthesis and PQQ-dependent alcohol dehydrogenases. While this family shows homology to several efflux ABC transporter subunits, the presence of a periplasmic substrate-binding protein and association with systems for catabolism of alcohols suggests a role in import rather than detoxification.

>cd04177 RSR1 RSR1 subgroup

Probab=95.48  E-value=0.013  Score=44.89  Aligned_cols=23  Identities=26%  Similarity=0.515  Sum_probs=20.0

Q ss_pred             EEEEccCCCCHHHHHHHHHHHhc
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      |.++|.+|+|||||+..+.++..
T Consensus         4 i~liG~~~~GKTsli~~~~~~~~   26 (168)
T cd04177           4 IVVLGAGGVGKSALTVQFVQNVF   26 (168)
T ss_pred             EEEECCCCCCHHHHHHHHHhCCC
Confidence            78999999999999999876554

RSR1/Bud1p is a member of the Rap subfamily of the Ras family that is found in fungi. In budding yeasts, RSR1 is involved in selecting a site for bud growth on the cell cortex, which directs the establishment of cell polarization. The Rho family GTPase cdc42 and its GEF, cdc24, then establish an axis of polarized growth by organizing the actin cytoskeleton and secretory apparatus at the bud site. It is believed that cdc42 interacts directly with RSR1 in vivo. In filamentous fungi, polar growth occurs at the tips of hypha and at novel growth sites along the extending hypha. In Ashbya gossypii, RSR1 is a key regulator of hyphal growth, localizing at the tip region and regulating in apical polarization of the actin cytoskeleton. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key featu

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=95.47  E-value=0.014  Score=43.81  Aligned_cols=24  Identities=33%  Similarity=0.386  Sum_probs=21.0

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      +.|-++|..|+|||||++.+...+
T Consensus         2 krimliG~~g~GKTTL~q~L~~~~   25 (143)
T PF10662_consen    2 KRIMLIGPSGSGKTTLAQALNGEE   25 (143)
T ss_pred             ceEEEECCCCCCHHHHHHHHcCCC
Confidence            457899999999999999988766

Both pathways require coenzyme B12 (adenosylcobalamin, AdoCbl). Bacteria that harbour these pathways can use ethanolamine as a source of carbon and nitrogen, or propanediol as a sole carbon and energy source, respectively. The exact roles of the EutP and PduV proteins in these respective pathways are not yet determined. Members of this family contain P-loop consensus motifs in the N-terminal part, and are distantly related to various GTPases and ATPases, including ATPase components of transport systems. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilisation of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilisation (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and co-regulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR003208 from INTERPRO, IPR009204 from INTERPRO, IPR009191 from INTERPRO, IPR009192 from INTERPRO for more details on the propanediol utilisation pathway and the pdu operon.; GO: 0005524 ATP binding, 0006576 cellular biogenic amine metabolic process

>cd00157 Rho Rho (Ras homology) family

Probab=95.47  E-value=0.013  Score=44.76  Aligned_cols=22  Identities=27%  Similarity=0.348  Sum_probs=19.9

Q ss_pred             EEEEccCCCCHHHHHHHHHHHh
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      |.++|.+|+|||||+..+.+..
T Consensus         3 i~i~G~~~~GKSsli~~l~~~~   24 (171)
T cd00157           3 IVVVGDGAVGKTCLLISYTTGK   24 (171)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            6799999999999999988765

Members of the Rho family include RhoA, Cdc42, Rac, Rnd, Wrch1, RhoBTB, and Rop. There are 22 human Rho family members identified currently. These proteins are all involved in the reorganization of the actin cytoskeleton in response to external stimuli. They also have roles in cell transformation by Ras in cytokinesis, in focal adhesion formation and in the stimulation of stress-activated kinase. These various functions are controlled through distinct effector proteins and mediated through a GTP-binding/GTPase cycle involving three classes of regulating proteins: GAPs (GTPase-activating proteins), GEFs (guanine nucleotide exchange factors), and GDIs (guanine nucleotide dissociation inhibitors). Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho protein

>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import

Probab=95.46  E-value=0.013  Score=47.92  Aligned_cols=26  Identities=35%  Similarity=0.386  Sum_probs=22.9

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (239)
T cd03296          27 SGELVALLGPSGSGKTTLLRLIAGLE   52 (239)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45689999999999999999998764

Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a solute-binding protein (cysP). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PLN03046 D-glycerate 3-kinase; Provisional

Probab=95.44  E-value=0.017  Score=50.84  Aligned_cols=27  Identities=30%  Similarity=0.351  Sum_probs=23.6

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .+-+|+|.|..|+|||||++.+..-.+
T Consensus       211 ~PlIIGIsG~qGSGKSTLa~~L~~lL~  237 (460)
T PLN03046        211 PPLVIGFSAPQGCGKTTLVFALDYLFR  237 (460)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            578999999999999999999975554

>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=95.44  E-value=0.013  Score=45.00  Aligned_cols=26  Identities=38%  Similarity=0.452  Sum_probs=22.3

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-..|+|.|+.|+||+||.+.|++-.
T Consensus        28 ~Ge~iaitGPSG~GKStllk~va~Li   53 (223)
T COG4619          28 AGEFIAITGPSGCGKSTLLKIVASLI   53 (223)
T ss_pred             CCceEEEeCCCCccHHHHHHHHHhcc
Confidence            34568999999999999999999754

>PRK13538 cytochrome c biogenesis protein CcmA; Provisional

Probab=95.44  E-value=0.014  Score=46.57  Aligned_cols=26  Identities=35%  Similarity=0.342  Sum_probs=22.8

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+....
T Consensus        26 ~Ge~~~l~G~nGsGKSTLl~~l~G~~   51 (204)
T PRK13538         26 AGELVQIEGPNGAGKTSLLRILAGLA   51 (204)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            45688999999999999999998754

>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional

Probab=95.44  E-value=0.014  Score=47.60  Aligned_cols=26  Identities=31%  Similarity=0.336  Sum_probs=22.7

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.++.-.
T Consensus        34 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~   59 (233)
T PRK11629         34 EGEMMAIVGSSGSGKSTLLHLLGGLD   59 (233)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            45689999999999999999998754

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=95.44  E-value=0.024  Score=44.31  Aligned_cols=34  Identities=18%  Similarity=0.300  Sum_probs=24.7

Q ss_pred             HHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHH
Q 036637          163 NVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       163 ~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      .+.+.+......-|.++|.+|+|||||+..+...
T Consensus         7 ~~~~~~~~~~~~kv~lvG~~~vGKTsli~~~~~~   40 (182)
T PTZ00133          7 SAFKSLFGKKEVRILMVGLDAAGKTTILYKLKLG   40 (182)
T ss_pred             HHHHHhcCCCccEEEEEcCCCCCHHHHHHHHhcC
Confidence            3444444444455789999999999999998653

>PRK13235 nifH nitrogenase reductase; Reviewed

Probab=95.43  E-value=0.012  Score=49.21  Aligned_cols=24  Identities=42%  Similarity=0.733  Sum_probs=20.6

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ++|+|.|-||+||||++-++-.-.
T Consensus         2 ~~iav~~KGGVGKTT~~~nLA~~L   25 (274)
T PRK13235          2 RKVAIYGKGGIGKSTTTQNTVAGL   25 (274)
T ss_pred             CEEEEeCCCCccHHHHHHHHHHHH
Confidence            589999999999999988876655

>PRK13233 nifH nitrogenase reductase; Reviewed

Probab=95.43  E-value=0.012  Score=49.12  Aligned_cols=25  Identities=40%  Similarity=0.743  Sum_probs=21.0

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ++|+|.|-||+||||++.++..-..
T Consensus         3 ~vIav~~KGGVGKTT~a~nLA~~La   27 (275)
T PRK13233          3 RKIAIYGKGGIGKSTTTQNTAAAMA   27 (275)
T ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHH
Confidence            6899999999999999998665553

>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE)

Probab=95.43  E-value=0.013  Score=47.37  Aligned_cols=26  Identities=31%  Similarity=0.489  Sum_probs=22.8

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||.+.+....
T Consensus        30 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   55 (228)
T cd03257          30 KGETLGLVGESGSGKSTLARAILGLL   55 (228)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45689999999999999999998654

The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane components (NikB and NikC), and two ATPase (NikD and NikE). The NikABCDE transporter is synthesized under anaerobic conditions to meet the increased demand for nickel resulting from hydrogenase synthesis. The molecular mechanism of nickel uptake in many bacteria and most archaea is not known. Many other members of this ABC family are also involved in the uptake of dipeptides and oligopeptides. The oligopeptide transport system (Opp) is a five-component ABC transport composed of a membrane-anchored substrate binding proteins (SRP), OppA, two transmembrane proteins, OppB and OppC, and two ATP-binding domains, OppD and OppF.

>PF00025 Arf: ADP-ribosylation factor family The prints entry specific to Sar1 proteins The Prosite entry specific to Sar1 proteins; InterPro: IPR006689 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=95.43  E-value=0.031  Score=43.45  Aligned_cols=35  Identities=31%  Similarity=0.354  Sum_probs=27.8

Q ss_pred             HHHHHhcC-CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          163 NVLRALQD-PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       163 ~l~~~L~~-~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .+++.+.. ..-..|.+.|+.|+||||+...+.+..
T Consensus         3 ~~~~~~~~~~~~~~ililGl~~sGKTtll~~l~~~~   38 (175)
T PF00025_consen    3 SVLSKLKSKKKEIKILILGLDGSGKTTLLNRLKNGE   38 (175)
T ss_dssp             HHHHHCTTTTSEEEEEEEESTTSSHHHHHHHHHSSS
T ss_pred             HHHHHhcccCcEEEEEEECCCccchHHHHHHhhhcc
Confidence            45566664 566678999999999999999998654

This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. This entry represents a branch of the small GTPase superfamily that includes the ADP ribosylation factor Arf, Arl (Arf-like), Arp (Arf-related proteins) and the remotely related Sar (Secretion-associated and Ras-related) proteins. Arf proteins are major regulators of vesicle biogenesis in intracellular traffic []. They cycle between inactive GDP-bound and active GTP-bound forms that bind selectively to effectors. The classical structural GDP/GTP switch is characterised by conformational changes at the so-called switch 1 and switch 2 regions, which bind tightly to the gamma-phosphate of GTP but poorly or not at all to the GDP nucleotide. Structural studies of Arf1 and Arf6 have revealed that although these proteins feature the switch 1 and 2 conformational changes, they depart from other small GTP-binding proteins in that they use an additional, unique switch to propagate structural information from one side of the protein to the other. The GDP/GTP structural cycles of human Arf1 and Arf6 feature a unique conformational change that affects the beta2-beta3 strands connecting switch 1 and switch 2 (interswitch) and also the amphipathic helical N terminus. In GDP-bound Arf1 and Arf6, the interswitch is retracted and forms a pocket to which the N-terminal helix binds, the latter serving as a molecular hasp to maintain the inactive conformation. In the GTP-bound form of these proteins, the interswitch undergoes a two-residue register shift that pulls switch 1 and switch 2 up, restoring an active conformation that can bind GTP. In this conformation, the interswitch projects out of the protein and extrudes the N-terminal hasp by occluding its binding pocket.; GO: 0005525 GTP binding; PDB: 2H57_B 2W83_B 3N5C_B 2J5X_A 3LVR_E 2BAO_A 3LVQ_E 2A5F_A 3PCR_B 1E0S_A ....

>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional

Probab=95.42  E-value=0.014  Score=48.37  Aligned_cols=26  Identities=31%  Similarity=0.344  Sum_probs=22.7

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        26 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   51 (255)
T PRK11248         26 SGELLVVLGPSGCGKTTLLNLIAGFV   51 (255)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            44689999999999999999998654

>COG4240 Predicted kinase [General function prediction only]

Probab=95.41  E-value=0.062  Score=43.36  Aligned_cols=57  Identities=18%  Similarity=0.213  Sum_probs=40.5

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHHHh
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKL  228 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~~l  228 (250)
                      +.+-+++|.|.-|+||||++..+++...-+.. ..++..++..=+-...-+-.+++|+
T Consensus        48 grPli~gisGpQGSGKStls~~i~~~L~~kg~-ert~~lSLDDlYlthadrl~La~q~  104 (300)
T COG4240          48 GRPLIVGISGPQGSGKSTLSALIVRLLAAKGL-ERTATLSLDDLYLTHADRLRLARQV  104 (300)
T ss_pred             CCceEEEeecCCCCchhhHHHHHHHHHHHhcc-cceEEeehhhhhcchHHHHHHHHhc
Confidence            45789999999999999999999999876643 4566665554443334444455554

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=95.41  E-value=0.014  Score=46.41  Aligned_cols=26  Identities=31%  Similarity=0.391  Sum_probs=22.6

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        23 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   48 (206)
T TIGR03608        23 KGKMYAIIGESGSGKSTLLNIIGLLE   48 (206)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            34688999999999999999998654

A gene pair with a fairly wide distribution consists of a polypeptide related to the lactococcin 972 (see TIGR01653) and multiple-membrane-spanning putative immunity protein (see TIGR01654). This model represents a small clade within the ABC transporters that regularly are found adjacent to these bacteriocin system gene pairs and are likely serve as export proteins.

>cd01898 Obg Obg subfamily

Probab=95.41  E-value=0.012  Score=44.99  Aligned_cols=21  Identities=33%  Similarity=0.588  Sum_probs=19.0

Q ss_pred             EEEEccCCCCHHHHHHHHHHH
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~  196 (250)
                      |+|+|..|+|||||++.+.+.
T Consensus         3 v~ivG~~~~GKStl~~~l~~~   23 (170)
T cd01898           3 VGLVGLPNAGKSTLLSAISNA   23 (170)
T ss_pred             eEEECCCCCCHHHHHHHHhcC
Confidence            689999999999999999753

The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins conserved from bacteria to humans. The E. coli homolog, ObgE is believed to function in ribosomal biogenesis. Members of the subfamily contain two equally and highly conserved domains, a C-terminal GTP binding domain and an N-terminal glycine-rich domain.

>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional

Probab=95.41  E-value=0.014  Score=47.26  Aligned_cols=26  Identities=38%  Similarity=0.328  Sum_probs=23.0

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+....
T Consensus        32 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   57 (225)
T PRK10247         32 AGEFKLITGPSGCGKSTLLKIVASLI   57 (225)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccc
Confidence            45688999999999999999999764

>cd03224 ABC_TM1139_LivF_branched LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids

Probab=95.41  E-value=0.014  Score=47.02  Aligned_cols=26  Identities=35%  Similarity=0.509  Sum_probs=22.6

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   50 (222)
T cd03224          25 EGEIVALLGRNGAGKTTLLKTIMGLL   50 (222)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCCC
Confidence            45689999999999999999988654

The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ). 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.

>cd01860 Rab5_related Rab5-related subfamily

Probab=95.40  E-value=0.011  Score=44.80  Aligned_cols=23  Identities=17%  Similarity=0.255  Sum_probs=20.5

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|.|+|.+|+|||||+..+.++.
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~~   25 (163)
T cd01860           3 KLVLLGDSSVGKSSLVLRFVKNE   25 (163)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            37899999999999999988765

This subfamily includes Rab5 and Rab22 of mammals, Ypt51/Ypt52/Ypt53 of yeast, and RabF of plants. The members of this subfamily are involved in endocytosis and endocytic-sorting pathways. In mammals, Rab5 GTPases localize to early endosomes and regulate fusion of clathrin-coated vesicles to early endosomes and fusion between early endosomes. In yeast, Ypt51p family members similarly regulate membrane trafficking through prevacuolar compartments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence mo

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=95.40  E-value=0.024  Score=47.24  Aligned_cols=42  Identities=19%  Similarity=0.213  Sum_probs=29.2

Q ss_pred             ChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          156 SRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       156 gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      |...+..+.+..+....-++|.|.|..|+||||++..+.+..
T Consensus        63 g~~~~~~~~l~~~~~~~~GlilisG~tGSGKTT~l~all~~i  104 (264)
T cd01129          63 GLKPENLEIFRKLLEKPHGIILVTGPTGSGKTTTLYSALSEL  104 (264)
T ss_pred             CCCHHHHHHHHHHHhcCCCEEEEECCCCCcHHHHHHHHHhhh
Confidence            433333344444555666789999999999999999775443

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.

>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor

Probab=95.39  E-value=0.014  Score=48.04  Aligned_cols=26  Identities=42%  Similarity=0.648  Sum_probs=22.8

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+....
T Consensus        24 ~Ge~~~i~G~NGsGKSTLlk~L~G~~   49 (246)
T cd03237          24 ESEVIGILGPNGIGKTTFIKMLAGVL   49 (246)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999998764

The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI's are not transport proteins and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity of more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>cd04140 ARHI_like ARHI subfamily

Probab=95.39  E-value=0.014  Score=44.52  Aligned_cols=23  Identities=30%  Similarity=0.564  Sum_probs=19.8

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .|.++|.+|+|||||.+.+.+..
T Consensus         3 kv~~vG~~~vGKTsli~~~~~~~   25 (165)
T cd04140           3 RVVVFGAGGVGKSSLVLRFVKGT   25 (165)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            36899999999999999887654

ARHI (A Ras homolog member I) is a member of the Ras family with several unique structural and functional properties. ARHI is expressed in normal human ovarian and breast tissue, but its expression is decreased or eliminated in breast and ovarian cancer. ARHI contains an N-terminal extension of 34 residues (human) that is required to retain its tumor suppressive activity. Unlike most other Ras family members, ARHI is maintained in the constitutively active (GTP-bound) state in resting cells and has modest GTPase activity. ARHI inhibits STAT3 (signal transducers and activators of transcription 3), a latent transcription factor whose abnormal activation plays a critical role in oncogenesis. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to

>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily

Probab=95.39  E-value=0.016  Score=44.88  Aligned_cols=23  Identities=17%  Similarity=0.390  Sum_probs=19.8

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|.|+|.+|+|||||+..+.+..
T Consensus         3 kv~l~G~~g~GKTtl~~~~~~~~   25 (180)
T cd04137           3 KIAVLGSRSVGKSSLTVQFVEGH   25 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            47899999999999999987543

Rheb was initially identified in rat brain, where its expression is elevated by seizures or by long-term potentiation. It is expressed ubiquitously, with elevated levels in muscle and brain. Rheb functions as an important mediator between the tuberous sclerosis complex proteins, TSC1 and TSC2, and the mammalian target of rapamycin (TOR) kinase to stimulate cell growth. TOR kinase regulates cell growth by controlling nutrient availability, growth factors, and the energy status of the cell. TSC1 and TSC2 form a dimeric complex that has tumor suppressor activity, and TSC2 is a GTPase activating protein (GAP) for Rheb. The TSC1/TSC2 complex inhibits the activation of TOR kinase through Rheb. Rheb has also been shown to induce the formation of large cytoplasmic vacuoles in a process that is dependent on the GTPase cycle of Rheb, but independent of the TOR kinase, suggesting Rheb plays a role in endocytic trafficking that le

>PRK07429 phosphoribulokinase; Provisional

Probab=95.37  E-value=0.018  Score=49.42  Aligned_cols=28  Identities=32%  Similarity=0.495  Sum_probs=24.4

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      +.+-+|+|.|..|+||||+++.+..-..
T Consensus         6 ~~~~IIgI~G~SGSGKSTla~~L~~ll~   33 (327)
T PRK07429          6 DRPVLLGVAGDSGCGKTTFLRGLADLLG   33 (327)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHhHhc
Confidence            4567999999999999999999997654

>PRK13976 thymidylate kinase; Provisional

Probab=95.37  E-value=0.051  Score=43.64  Aligned_cols=51  Identities=16%  Similarity=0.175  Sum_probs=32.7

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhcCC-CCCCeEEEEEcCCCCCHHHHHHHHHH
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFGRD-QFFDQVIFVEVPHIPDIRKIQGEIAD  226 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~v~-~~Fd~~~wv~vs~~~~~~~l~~~i~~  226 (250)
                      .|+|-|.-|+||||+++.+++..+.. +...+ ++..-+......+.++.++.
T Consensus         2 fIv~EGiDGsGKsTq~~~L~~~L~~~~g~~~v-~~~~eP~~~~~g~~ir~~l~   53 (209)
T PRK13976          2 FITFEGIDGSGKTTQSRLLAEYLSDIYGENNV-VLTREPGGTSFNELVRGLLL   53 (209)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHhcCCcce-EEeeCCCCCHHHHHHHHHHc
Confidence            47899999999999999999888643 21222 23322223335555555543

>PRK14730 coaE dephospho-CoA kinase; Provisional

Probab=95.37  E-value=0.017  Score=45.77  Aligned_cols=24  Identities=29%  Similarity=0.313  Sum_probs=21.2

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..|+|+|+.|+||||+++.+.+..
T Consensus         2 ~~i~itG~~gsGKst~~~~l~~~~   25 (195)
T PRK14730          2 RRIGLTGGIASGKSTVGNYLAQQK   25 (195)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhh
Confidence            368999999999999999988764

>cd03258 ABC_MetN_methionine_transporter MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport

Probab=95.36  E-value=0.015  Score=47.33  Aligned_cols=26  Identities=31%  Similarity=0.401  Sum_probs=22.8

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        30 ~Ge~~~l~G~nGsGKSTLl~~l~G~~   55 (233)
T cd03258          30 KGEIFGIIGRSGAGKSTLIRCINGLE   55 (233)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45688999999999999999998664

Other members of this system include the MetP permease and the MetQ substrate binding protein. 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.

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=95.36  E-value=0.018  Score=45.20  Aligned_cols=28  Identities=18%  Similarity=0.311  Sum_probs=24.2

Q ss_pred             cCCCceEEEEEccCCCCHHHHHHHHHHH
Q 036637          169 QDPDVNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       169 ~~~~~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      ..+...-|+|+|.+|+|||||+..+++.
T Consensus        20 ~~~~~~~v~ivG~~~~GKSsli~~l~~~   47 (196)
T PRK00454         20 PPDDGPEIAFAGRSNVGKSSLINALTNR   47 (196)
T ss_pred             CCCCCCEEEEEcCCCCCHHHHHHHHhCC
Confidence            3456677999999999999999999975

>cd04171 SelB SelB subfamily

Probab=95.36  E-value=0.015  Score=44.03  Aligned_cols=21  Identities=38%  Similarity=0.433  Sum_probs=19.4

Q ss_pred             EEEEEccCCCCHHHHHHHHHH
Q 036637          175 MVGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~  195 (250)
                      +|+|+|.+|+|||||...+.+
T Consensus         2 ~i~i~G~~~~GKssl~~~l~~   22 (164)
T cd04171           2 IIGTAGHIDHGKTTLIKALTG   22 (164)
T ss_pred             EEEEEecCCCCHHHHHHHHhC
Confidence            789999999999999999874

SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec, and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and eukaryo

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=95.35  E-value=0.031  Score=50.21  Aligned_cols=48  Identities=23%  Similarity=0.281  Sum_probs=39.7

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCCc-eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          150 DYEAFESRSSTLNNVLRALQDPDV-NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~~-~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ....++|.+..+..|.+++..+.+ +.+-++|..|+||||+|+.+.+..
T Consensus        15 ~~~diiGq~~~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l   63 (451)
T PRK06305         15 TFSEILGQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARIFAKAL   63 (451)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCCCceEEEEEcCCCCCHHHHHHHHHHHh
Confidence            445788999999999998876654 678899999999999999887654

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.35  E-value=0.031  Score=51.98  Aligned_cols=49  Identities=18%  Similarity=0.297  Sum_probs=39.9

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCCc-eEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          150 DYEAFESRSSTLNNVLRALQDPDV-NMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~~-~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....++|.+..++.|..++....+ +.+-++|..|+||||+|+.+.+...
T Consensus        14 ~~~eiiGq~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~   63 (585)
T PRK14950         14 TFAELVGQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAVN   63 (585)
T ss_pred             CHHHhcCCHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhc
Confidence            345788999999999888876544 5678999999999999999887653

>TIGR01184 ntrCD nitrate transport ATP-binding subunits C and D

Probab=95.35  E-value=0.015  Score=47.26  Aligned_cols=25  Identities=24%  Similarity=0.353  Sum_probs=22.2

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -.+++|+|..|+|||||++.+..-.
T Consensus        11 Ge~~~i~G~nGsGKSTLl~~l~Gl~   35 (230)
T TIGR01184        11 GEFISLIGHSGCGKSTLLNLISGLA   35 (230)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4588999999999999999998664

This model describes the ATP binding subunits of nitrate transport in bacteria and archaea. This protein belongs to the ATP-binding cassette (ABC) superfamily. It is thought that the two subunits encoded by ntrC and ntrD form the binding surface for interaction with ATP. This model is restricted in identifying ATP binding subunit associated with the nitrate transport. Nitrate assimilation is aided by other proteins derived from the operon which among others include products of ntrA - a regulatory protein; ntrB - a hydropbobic transmembrane permease and narB - a reductase.

>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK

Probab=95.34  E-value=0.016  Score=46.49  Aligned_cols=26  Identities=35%  Similarity=0.327  Sum_probs=22.7

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+....
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03301          25 DGEFVVLLGPSGCGKTTTLRMIAGLE   50 (213)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            44578999999999999999999764

ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two transmembrane-spanning domains (TMDs) or subunits and two nucleotide binding domains (NBDs) or subunits that couple transport to the hydrolysis of ATP. In the maltose transport system, the periplasmic maltose binding protein (MBP) stimulates the ATPase activity of the membrane-associated transporter, which consists of two transmembrane subunits, MalF and MalG, and two copies of the ATP binding subunit, MalK, and becomes tightly bound to the transporter in the catalytic transition state, ensuring that maltose is passed to the transporter as ATP is hydrolyzed.

>PRK13974 thymidylate kinase; Provisional

Probab=95.34  E-value=0.064  Score=43.09  Aligned_cols=53  Identities=19%  Similarity=0.237  Sum_probs=34.5

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhcCCCCCC---eEEEEEcCCCCCHHHHHHHHHH
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFGRDQFFD---QVIFVEVPHIPDIRKIQGEIAD  226 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd---~~~wv~vs~~~~~~~l~~~i~~  226 (250)
                      .+|++.|..|+||||+++.++......+...   .++...-+......+.+++++.
T Consensus         4 ~~i~~eG~dGsGKsT~~~~l~~~l~~~g~~~~~~~~~~~~~p~~~~~g~~ir~~l~   59 (212)
T PRK13974          4 KFIVLEGIDGCGKTTQIDHLSKWLPSSGLMPKGAKLIITREPGGTLLGKSLRELLL   59 (212)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHhcCccccCCeeeeeeCCCCCchHHHHHHHHc
Confidence            5799999999999999999998876443321   1222222223345666666654

>cd03219 ABC_Mj1267_LivG_branched The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine

Probab=95.34  E-value=0.014  Score=47.58  Aligned_cols=26  Identities=31%  Similarity=0.387  Sum_probs=22.6

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~   50 (236)
T cd03219          25 PGEIHGLIGPNGAGKTTLFNLISGFL   50 (236)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHcCCC
Confidence            44689999999999999999998653

MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E. coli branched-chain amino acid transporter. MJ1267 contains an insertion from residues 114 to 123 characteristic of LivG (Leucine-Isoleucine-Valine) homologs. The branched-chain amino acid transporter from E. coli comprises a heterodimer of ABCs (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ).

>TIGR02770 nickel_nikD nickel import ATP-binding protein NikD

Probab=95.34  E-value=0.015  Score=47.32  Aligned_cols=27  Identities=15%  Similarity=0.199  Sum_probs=23.3

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .-.+++|+|..|+|||||++.++.-..
T Consensus        11 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   37 (230)
T TIGR02770        11 RGEVLALVGESGSGKSLTCLAILGLLP   37 (230)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            456889999999999999999997654

This family represents the NikD subunit of a multisubunit nickel import ABC transporter complex. Nickel, once imported, may be used in urease and in certain classes of hydrogenase and superoxide dismutase. NikD and NikE are homologous.

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=95.33  E-value=0.039  Score=48.20  Aligned_cols=48  Identities=27%  Similarity=0.234  Sum_probs=39.3

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCC-ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          150 DYEAFESRSSTLNNVLRALQDPD-VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~-~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ....++|.+..++.|.+.+..+. .+.+-++|+.|+||+|+|..+-...
T Consensus        17 ~~~~iiGq~~~~~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~~A~~L   65 (365)
T PRK07471         17 ETTALFGHAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMARFL   65 (365)
T ss_pred             chhhccChHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            45678999999999999888665 4568899999999999997755544

>cd01858 NGP_1 NGP-1

Probab=95.33  E-value=0.03  Score=42.63  Aligned_cols=26  Identities=19%  Similarity=0.293  Sum_probs=22.1

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ...++++|++|+|||||...+..+..
T Consensus       102 ~~~v~~~G~~nvGKStliN~l~~~~~  127 (157)
T cd01858         102 QISVGFIGYPNVGKSSIINTLRSKKV  127 (157)
T ss_pred             ceEEEEEeCCCCChHHHHHHHhcCCc
Confidence            45678999999999999999987554

Autoantigen NGP-1 (Nucleolar G-protein gene 1) has been shown to localize in the nucleolus and nucleolar organizers in all cell types analyzed, which is indicative of a function in ribosomal assembly. NGP-1 and its homologs show a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with NKXD motif) are relocated to the N terminus.

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=95.33  E-value=0.025  Score=54.02  Aligned_cols=48  Identities=31%  Similarity=0.364  Sum_probs=36.9

Q ss_pred             cCCCcChHHHHHHHHHHhcC-------------CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          151 YEAFESRSSTLNNVLRALQD-------------PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       151 ~~~~~gr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ..++.|.+..++.+.+++..             ...+-+-++|.+|+||||||+.+.+...
T Consensus       177 ~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~~  237 (733)
T TIGR01243       177 YEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAG  237 (733)
T ss_pred             HHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHhC
Confidence            34577888888887776531             2345678999999999999999998764

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.

>PRK14489 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional

Probab=95.32  E-value=0.035  Score=48.52  Aligned_cols=43  Identities=21%  Similarity=0.321  Sum_probs=32.0

Q ss_pred             hHHHHHHHHHHhc---CCCceEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          157 RSSTLNNVLRALQ---DPDVNMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       157 r~~~~~~l~~~L~---~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      ..++++.+...+.   .....+|+|+|..|+|||||+..+....+.
T Consensus       186 TpeDl~~l~~~~~~~~~~~~~~~~~~g~~~~GKtt~~~~l~~~l~~  231 (366)
T PRK14489        186 TPEDLEQLRAIPDGTTTGAPPLLGVVGYSGTGKTTLLEKLIPELIA  231 (366)
T ss_pred             CHHHHHHHhhhhhcccCCCccEEEEecCCCCCHHHHHHHHHHHHHH
Confidence            3455666555432   225779999999999999999999987754

>PF10443 RNA12: RNA12 protein; InterPro: IPR018850 Mitochondrial escape protein 2 (also known as RNA12) plays a role in maintaining the mitochondrial genome and in controlling mtDNA escape [, ]

Probab=95.32  E-value=0.026  Score=49.68  Aligned_cols=68  Identities=16%  Similarity=0.259  Sum_probs=51.8

Q ss_pred             hHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHH-HHHHHHhcCCCCCCeEEEEEcC---CCCCHHHHHHHHHHHhCC
Q 036637          157 RSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLA-KEVAIQFGRDQFFDQVIFVEVP---HIPDIRKIQGEIADKLGL  230 (250)
Q Consensus       157 r~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa-~~v~~~~~v~~~Fd~~~wv~vs---~~~~~~~l~~~i~~~l~~  230 (250)
                      |.+..+.|..||.+..-..|.|.|+-|+||+.|+ .++.++.+-      +..+...   ..-+-..+++.++.|+|.
T Consensus         1 R~e~~~~L~~wL~e~~~TFIvV~GPrGSGK~elV~d~~L~~r~~------vL~IDC~~i~~ar~D~~~I~~lA~qvGY   72 (431)
T PF10443_consen    1 RKEAIEQLKSWLNENPNTFIVVQGPRGSGKRELVMDHVLKDRKN------VLVIDCDQIVKARGDAAFIKNLASQVGY   72 (431)
T ss_pred             CchHHHHHHHHHhcCCCeEEEEECCCCCCccHHHHHHHHhCCCC------EEEEEChHhhhccChHHHHHHHHHhcCC
Confidence            3456788999999888889999999999999999 777766542      3444333   234677888888888875

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 [].

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=95.32  E-value=0.13  Score=40.42  Aligned_cols=36  Identities=28%  Similarity=0.304  Sum_probs=27.9

Q ss_pred             HHHHHhcCCCc-eEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          163 NVLRALQDPDV-NMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       163 ~l~~~L~~~~~-~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .+.+.+..+.+ +.+-++|..|+||||+|+.+-+...
T Consensus         3 ~l~~~i~~~~~~~~~L~~G~~G~gkt~~a~~~~~~l~   39 (188)
T TIGR00678         3 QLKRALEKGRLAHAYLFAGPEGVGKELLALALAKALL   39 (188)
T ss_pred             HHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHc
Confidence            45555555555 6788999999999999998877764

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.

>COG3842 PotA ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=95.31  E-value=0.015  Score=50.26  Aligned_cols=27  Identities=33%  Similarity=0.314  Sum_probs=22.6

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      -..+++.|+.|+|||||.+.|.--..-
T Consensus        31 Gef~~lLGPSGcGKTTlLR~IAGfe~p   57 (352)
T COG3842          31 GEFVTLLGPSGCGKTTLLRMIAGFEQP   57 (352)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            367899999999999999999865543

>cd04103 Centaurin_gamma Centaurin gamma

Probab=95.30  E-value=0.014  Score=44.52  Aligned_cols=20  Identities=30%  Similarity=0.378  Sum_probs=17.5

Q ss_pred             EEEEccCCCCHHHHHHHHHH
Q 036637          176 VGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~  195 (250)
                      |.++|.+|+|||||......
T Consensus         3 i~vvG~~gvGKTsli~~~~~   22 (158)
T cd04103           3 LGIVGNLQSGKSALVHRYLT   22 (158)
T ss_pred             EEEECCCCCcHHHHHHHHHh
Confidence            68999999999999987643

The centaurins (alpha, beta, gamma, and delta) are large, multi-domain proteins that all contain an ArfGAP domain and ankyrin repeats, and in some cases, numerous additional domains. Centaurin gamma contains an additional GTPase domain near its N-terminus. The specific function of this GTPase domain has not been well characterized, but centaurin gamma 2 (CENTG2) may play a role in the development of autism. Centaurin gamma 1 is also called PIKE (phosphatidyl inositol (PI) 3-kinase enhancer) and centaurin gamma 2 is also known as AGAP (ArfGAP protein with a GTPase-like domain, ankyrin repeats and a Pleckstrin homology domain) or GGAP. Three isoforms of PIKE have been identified. PIKE-S (short) and PIKE-L (long) are brain-specific isoforms, with PIKE-S restricted to the nucleus and PIKE-L found in multiple cellular compartments. A third isoform, PIKE-A was identified in human glioblastoma brain cancers and has been found in various tissues.

>PRK13231 nitrogenase reductase-like protein; Reviewed

Probab=95.30  E-value=0.015  Score=48.26  Aligned_cols=26  Identities=38%  Similarity=0.764  Sum_probs=22.5

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      ++|+|.|-||+||||++.++......
T Consensus         3 ~~iav~~KGGvGKTT~a~nLA~~La~   28 (264)
T PRK13231          3 KKIAIYGKGGIGKSTTVSNMAAAYSN   28 (264)
T ss_pred             eEEEEECCCCCcHHHHHHHHhcccCC
Confidence            68999999999999999998876653

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=95.29  E-value=0.014  Score=44.76  Aligned_cols=21  Identities=29%  Similarity=0.593  Sum_probs=19.1

Q ss_pred             EEEEccCCCCHHHHHHHHHHH
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~  196 (250)
                      |.|+|.+|+|||||...+.+.
T Consensus         2 i~ivG~~~vGKTsli~~~~~~   22 (164)
T cd04162           2 ILVLGLDGAGKTSLLHSLSSE   22 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            689999999999999998865

Arl9 (Arf-like 9) was first identified as part of the Human Cancer Genome Project. It maps to chromosome 4q12 and is sometimes referred to as Arfrp2 (Arf-related protein 2). This is a novel subfamily identified in human cancers that is uncharacterized to date.

>cd03218 ABC_YhbG The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids

Probab=95.29  E-value=0.016  Score=47.06  Aligned_cols=26  Identities=31%  Similarity=0.367  Sum_probs=22.6

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~   50 (232)
T cd03218          25 QGEIVGLLGPNGAGKTTTFYMIVGLV   50 (232)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            45689999999999999999998653

The genes yhbG and yhbN are located in a single operon and may function together in cell envelope during biogenesis. YhbG is the putative ATP-binding cassette component and YhbN is the putative periplasmic-binding protein. Depletion of each gene product leads to growth arrest, irreversible cell damage and loss of viability in E. coli. The YhbG homolog (NtrA) is essential in Rhizobium meliloti, a symbiotic nitrogen-fixing bacterium.

>PRK11124 artP arginine transporter ATP-binding subunit; Provisional

Probab=95.29  E-value=0.016  Score=47.43  Aligned_cols=27  Identities=19%  Similarity=0.265  Sum_probs=23.3

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .-.+++|+|..|+|||||++.+..-..
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~G~~~   53 (242)
T PRK11124         27 QGETLVLLGPSGAGKSSLLRVLNLLEM   53 (242)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            456899999999999999999987643

>cd03273 ABC_SMC2_euk Eukaryotic SMC2 proteins; SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains

Probab=95.28  E-value=0.017  Score=47.61  Aligned_cols=25  Identities=24%  Similarity=0.497  Sum_probs=21.9

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHH
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      +.++.+|+|..|+|||||+..++.-
T Consensus        24 ~~~~~~IvG~NGsGKStll~Ai~~l   48 (251)
T cd03273          24 DPQFNAITGLNGSGKSNILDAICFV   48 (251)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHH
Confidence            4678899999999999999999733

Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences. In eukaryotic cells, the proteins are found as heterodimers of SMC1 paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6 (fo

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=95.27  E-value=0.016  Score=44.49  Aligned_cols=24  Identities=21%  Similarity=0.200  Sum_probs=20.6

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-|.++|.+|+|||||...+....
T Consensus         3 ~ki~vvG~~~vGKTsli~~~~~~~   26 (170)
T cd04115           3 FKIIVIGDSNVGKTCLTYRFCAGR   26 (170)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCC
Confidence            358999999999999999987654

Rab33B is ubiquitously expressed in mouse tissues and cells, where it is localized to the medial Golgi cisternae. It colocalizes with alpha-mannose II. Together with the other cisternal Rabs, Rab6A and Rab6A', it is believed to regulate the Golgi response to stress and is likely a molecular target in stress-activated signaling pathways. Rab33A (previously known as S10) is expressed primarily in the brain and immune system cells. In humans, it is located on the X chromosome at Xq26 and its expression is down-regulated in tuberculosis patients. Experimental evidence suggests that Rab33A is a novel CD8+ T cell factor that likely plays a role in tuberculosis disease processes. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine

>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=95.27  E-value=0.03  Score=45.28  Aligned_cols=40  Identities=25%  Similarity=0.418  Sum_probs=28.3

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEV  211 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~v  211 (250)
                      ....+-|+|..|+|||.|++.+++.......=..++|++.
T Consensus        33 ~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~   72 (219)
T PF00308_consen   33 RYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSA   72 (219)
T ss_dssp             SSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEH
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHHHHhccccccceeecH
Confidence            3456889999999999999999998753222124556643

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.

>TIGR01978 sufC FeS assembly ATPase SufC

Probab=95.27  E-value=0.016  Score=47.40  Aligned_cols=25  Identities=36%  Similarity=0.488  Sum_probs=22.3

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHH
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      .-.+++|+|..|+|||||++.+...
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~Gl   49 (243)
T TIGR01978        25 KGEIHAIMGPNGSGKSTLSKTIAGH   49 (243)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4468899999999999999999875

SufC is part of the SUF system, shown in E. coli to consist of six proteins and believed to act in Fe-S cluster formation during oxidative stress. SufC forms a complex with SufB and SufD. SufC belongs to the ATP-binding cassette transporter family (pfam00005) but is no longer thought to be part of a transporter. The complex is reported as cytosolic (PubMed:12554644) or associated with the membrane (PubMed:11943156). The SUF system also includes a cysteine desulfurase (SufS, enhanced by SufE) and a probable iron-sulfur cluster assembly scaffold protein, SufA.

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=95.26  E-value=0.016  Score=44.25  Aligned_cols=23  Identities=26%  Similarity=0.307  Sum_probs=20.0

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|.|+|.+|+|||||...+.+..
T Consensus         4 ki~i~G~~~vGKSsli~~~~~~~   26 (166)
T cd01869           4 KLLLIGDSGVGKSCLLLRFADDT   26 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47899999999999999987654

Rab1 is found in every eukaryote and is a key regulatory component for the transport of vesicles from the ER to the Golgi apparatus. Studies on mutations of Ypt1, the yeast homolog of Rab1, showed that this protein is necessary for the budding of vesicles of the ER as well as for their transport to, and fusion with, the Golgi apparatus. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to t

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

Probab=95.26  E-value=0.024  Score=48.71  Aligned_cols=39  Identities=33%  Similarity=0.482  Sum_probs=33.5

Q ss_pred             CcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHH
Q 036637          154 FESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKE  192 (250)
Q Consensus       154 ~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~  192 (250)
                      +-+|..+-.--+++|+++++..+++.|.+|.|||-||-.
T Consensus       226 i~prn~eQ~~ALdlLld~dI~lV~L~G~AGtGKTlLALa  264 (436)
T COG1875         226 IRPRNAEQRVALDLLLDDDIDLVSLGGKAGTGKTLLALA  264 (436)
T ss_pred             cCcccHHHHHHHHHhcCCCCCeEEeeccCCccHhHHHHH
Confidence            445677777788999999999999999999999998764

>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters

Probab=95.26  E-value=0.017  Score=45.58  Aligned_cols=25  Identities=32%  Similarity=0.409  Sum_probs=22.2

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHH
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      .-.+++|+|..|+|||||++.+...
T Consensus        32 ~Ge~~~l~G~nGsGKSTLl~~l~G~   56 (192)
T cd03232          32 PGTLTALMGESGAGKTTLLDVLAGR   56 (192)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCC
Confidence            4568999999999999999999964

PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK13540 cytochrome c biogenesis protein CcmA; Provisional

Probab=95.26  E-value=0.017  Score=45.82  Aligned_cols=27  Identities=33%  Similarity=0.395  Sum_probs=23.5

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .-.+++|+|..|+|||||++.+.....
T Consensus        26 ~Ge~~~l~G~nGsGKSTLl~~i~G~~~   52 (200)
T PRK13540         26 AGGLLHLKGSNGAGKTTLLKLIAGLLN   52 (200)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            556889999999999999999987653

>PRK10908 cell division protein FtsE; Provisional

Probab=95.25  E-value=0.017  Score=46.63  Aligned_cols=26  Identities=31%  Similarity=0.243  Sum_probs=23.0

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   52 (222)
T PRK10908         27 PGEMAFLTGHSGAGKSTLLKLICGIE   52 (222)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            55788999999999999999998654

>PRK09183 transposase/IS protein; Provisional

Probab=95.25  E-value=0.016  Score=48.08  Aligned_cols=25  Identities=28%  Similarity=0.396  Sum_probs=21.2

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ..+.|+|.+|+|||+||..+.+...
T Consensus       103 ~~v~l~Gp~GtGKThLa~al~~~a~  127 (259)
T PRK09183        103 ENIVLLGPSGVGKTHLAIALGYEAV  127 (259)
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHHHH
Confidence            4567999999999999999977643

>PRK06851 hypothetical protein; Provisional

Probab=95.25  E-value=0.044  Score=47.68  Aligned_cols=43  Identities=23%  Similarity=0.264  Sum_probs=32.9

Q ss_pred             CCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCC
Q 036637          170 DPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPH  213 (250)
Q Consensus       170 ~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~  213 (250)
                      ...-+++.|.|.+|+|||||++.+.+....+ .|+...+.|-+.
T Consensus        27 ~~~~~~~il~G~pGtGKStl~~~i~~~~~~~-g~~Ve~~~~~~d   69 (367)
T PRK06851         27 DGANRIFILKGGPGTGKSTLMKKIGEEFLEK-GYDVEFLHCSSD   69 (367)
T ss_pred             cccceEEEEECCCCCCHHHHHHHHHHHHHHc-CCeEEEEEcCCC
Confidence            4567899999999999999999999888643 466555554443

>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance

Probab=95.25  E-value=0.017  Score=46.07  Aligned_cols=26  Identities=31%  Similarity=0.355  Sum_probs=22.6

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        25 ~G~~~~i~G~nGsGKSTLl~~l~Gl~   50 (208)
T cd03268          25 KGEIYGFLGPNGAGKTTTMKIILGLI   50 (208)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCc
Confidence            45688999999999999999998643

Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme complex BcrABC. Bacitracin has potent antibiotic activity against gram-positive bacteria. The inhibition of peptidoglycan biosynthesis is the best characterized bacterial effect of bacitracin. The bacitracin resistance of B. licheniformis is mediated by the ABC transporter Bcr which is composed of two identical BcrA ATP-binding subunits and one each of the integral membrane proteins, BcrB and BcrC. B. subtilis cells carrying bcr genes on high-copy number plasmids develop collateral detergent sensitivity, a similar phenomenon in human cells with overexpressed multi-drug resistance P-glycoprotein.

>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively

Probab=95.25  E-value=0.017  Score=46.22  Aligned_cols=26  Identities=31%  Similarity=0.372  Sum_probs=22.8

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        25 ~G~~~~l~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03262          25 KGEVVVIIGPSGSGKSTLLRCINLLE   50 (213)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45689999999999999999998654

Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP has properties intermediate between those of integral and peripheral membrane proteins and is accessible from both sides of the membrane, presumably by its interaction with HisQ and HisM. The two HisP subunits form a homodimer within the complex. The domain structure of the amino acid uptake systems is typical for prokaryote extracellular solute binding protein-dependent uptake systems. All of the amino acid uptake systems also have at least one, and in a few cases, two extracellular solute binding proteins located in the periplasm of Gram-negative bacteria, or attached to the cell membrane of Gram-positive bacteria. The best-studied member of the PAAT (polar amino acid transport) family is the HisJQM

>PRK04220 2-phosphoglycerate kinase; Provisional

Probab=95.25  E-value=0.032  Score=47.12  Aligned_cols=35  Identities=29%  Similarity=0.509  Sum_probs=27.7

Q ss_pred             HHHHhcC-CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          164 VLRALQD-PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       164 l~~~L~~-~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ++..+.. ..+-+|.|.|..|+||||+|..+.+...
T Consensus        82 ~~~~i~~~~~p~iIlI~G~sgsGKStlA~~La~~l~  117 (301)
T PRK04220         82 LWRRIRKSKEPIIILIGGASGVGTSTIAFELASRLG  117 (301)
T ss_pred             HHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3444443 4567899999999999999999998774

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=95.24  E-value=0.017  Score=44.05  Aligned_cols=20  Identities=25%  Similarity=0.596  Sum_probs=17.7

Q ss_pred             EEEEccCCCCHHHHHHHHHH
Q 036637          176 VGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~  195 (250)
                      |.|+|.+|+|||||+....+
T Consensus         2 i~vvG~~~~GKtsli~~~~~   21 (165)
T cd04146           2 IAVLGASGVGKSALVVRFLT   21 (165)
T ss_pred             EEEECCCCCcHHHHHHHHHh
Confidence            68999999999999977754

RERG (Ras-related and Estrogen- Regulated Growth inhibitor) and Ras-like 11 are members of a novel subfamily of Ras that were identified based on their behavior in breast and prostate tumors, respectively. RERG expression was decreased or lost in a significant fraction of primary human breast tumors that lack estrogen receptor and are correlated with poor clinical prognosis. Elevated RERG expression correlated with favorable patient outcome in a breast tumor subtype that is positive for estrogen receptor expression. In contrast to most Ras proteins, RERG overexpression inhibited the growth of breast tumor cells in vitro and in vivo. RasL11 was found to be ubiquitously expressed in human tissue, but down-regulated in prostate tumors. Both RERG and RasL11 lack the C-terminal CaaX prenylation motif, where a = an aliphatic amino acid and X = any amino acid, and are localized primarily in the cytoplasm. Both are believed to have tu

>TIGR01281 DPOR_bchL light-independent protochlorophyllide reductase, iron-sulfur ATP-binding protein

Probab=95.24  E-value=0.015  Score=48.35  Aligned_cols=23  Identities=39%  Similarity=0.949  Sum_probs=19.3

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      +|++.|-||+||||++.++-.-.
T Consensus         2 ~i~~~gKGGVGKTT~~~nLA~~L   24 (268)
T TIGR01281         2 ILAVYGKGGIGKSTTSSNLSVAF   24 (268)
T ss_pred             EEEEEcCCcCcHHHHHHHHHHHH
Confidence            58888999999999888866544

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.

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.24  E-value=0.036  Score=50.30  Aligned_cols=48  Identities=19%  Similarity=0.172  Sum_probs=38.8

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCC-ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          150 DYEAFESRSSTLNNVLRALQDPD-VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~-~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ....++|.+..+..|.+++.... .+..-++|..|+||||+|+.+....
T Consensus        14 ~f~diiGq~~i~~~L~~~i~~~~i~hayLf~Gp~G~GKTtlAr~lAk~L   62 (486)
T PRK14953         14 FFKEVIGQEIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTIARILAKVL   62 (486)
T ss_pred             cHHHccChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            44567899999999999888654 4556789999999999999877654

>cd03295 ABC_OpuCA_Osmoprotection OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment

Probab=95.24  E-value=0.017  Score=47.29  Aligned_cols=26  Identities=27%  Similarity=0.303  Sum_probs=22.6

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|.|||||++.++...
T Consensus        26 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   51 (242)
T cd03295          26 KGEFLVLIGPSGSGKTTTMKMINRLI   51 (242)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45678999999999999999998654

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. 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.

>PRK07933 thymidylate kinase; Validated

Probab=95.24  E-value=0.057  Score=43.46  Aligned_cols=26  Identities=27%  Similarity=0.516  Sum_probs=23.6

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhcCC
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFGRD  200 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~v~  200 (250)
                      .|+|-|+-|+||||+++.+.+..+.+
T Consensus         2 ~IviEG~dGsGKST~~~~L~~~L~~~   27 (213)
T PRK07933          2 LIAIEGVDGAGKRTLTEALRAALEAR   27 (213)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHC
Confidence            68999999999999999999988754

>PRK13539 cytochrome c biogenesis protein CcmA; Provisional

Probab=95.23  E-value=0.018  Score=46.04  Aligned_cols=26  Identities=31%  Similarity=0.313  Sum_probs=23.1

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+....
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   52 (207)
T PRK13539         27 AGEALVLTGPNGSGKTTLLRLIAGLL   52 (207)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45688999999999999999998764

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=95.22  E-value=0.081  Score=50.41  Aligned_cols=54  Identities=28%  Similarity=0.267  Sum_probs=41.3

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhCCCCC
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGLIFF  233 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~~l~~~~~  233 (250)
                      -+++-|.|.+|+|||||+-+++-...-  .=..++|+...++++..     .++++|++.+
T Consensus        60 GsiteI~G~~GsGKTtLal~~~~~a~~--~G~~v~yId~E~t~~~~-----~A~~lGvDl~  113 (790)
T PRK09519         60 GRVIEIYGPESSGKTTVALHAVANAQA--AGGVAAFIDAEHALDPD-----YAKKLGVDTD  113 (790)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHH--cCCcEEEECCccchhHH-----HHHHcCCChh
Confidence            567789999999999999876654432  22568999999888853     7788888743

>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=95.22  E-value=0.019  Score=44.50  Aligned_cols=26  Identities=31%  Similarity=0.365  Sum_probs=22.8

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||.+.+..-.
T Consensus        27 ~Ge~~~i~G~nGsGKStLl~~l~G~~   52 (173)
T cd03246          27 PGESLAIIGPSGSGKSTLARLILGLL   52 (173)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            45688999999999999999999764

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

>TIGR01189 ccmA heme ABC exporter, ATP-binding protein CcmA

Probab=95.22  E-value=0.018  Score=45.60  Aligned_cols=26  Identities=35%  Similarity=0.405  Sum_probs=22.9

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+....
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   50 (198)
T TIGR01189        25 AGEALQVTGPNGIGKTTLLRILAGLL   50 (198)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            45688999999999999999998764

This model describes the cyt c biogenesis protein encoded by ccmA in bacteria. An exception is, an arabidopsis protein. Quite likely this is encoded by an organelle. Bacterial c-type cytocromes are located on the periplasmic side of the cytoplasmic membrane. Several gene products encoded in a locus designated as 'ccm' are implicated in the transport and assembly of the functional cytochrome C. This cluster includes genes: ccmA;B;C;D;E;F;G and H. The posttranslational pathway includes the transport of heme moiety, the secretion of the apoprotein and the covalent attachment of the heme with the apoprotein. The proteins ccmA and B represent an ABC transporter; ccmC and D participate in heme transfer to ccmE, which function as a periplasmic heme chaperone. The presence of ccmF, G and H is suggested to be obligatory for the final functional assembly of cytochrome c.

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=95.22  E-value=0.013  Score=44.45  Aligned_cols=21  Identities=19%  Similarity=0.332  Sum_probs=18.5

Q ss_pred             EEEEccCCCCHHHHHHHHHHH
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~  196 (250)
                      |.|+|.+|+|||||+..+.++
T Consensus         3 i~vvG~~~~GKtsl~~~l~~~   23 (164)
T cd04101           3 CAVVGDPAVGKTAFVQMFHSN   23 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            689999999999999988643

RabL4s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL4 lacks a prenylation site at the C-terminus. The specific function of RabL4 remains unknown.

>cd03278 ABC_SMC_barmotin Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function

Probab=95.21  E-value=0.017  Score=45.90  Aligned_cols=22  Identities=23%  Similarity=0.471  Sum_probs=19.8

Q ss_pred             eEEEEEccCCCCHHHHHHHHHH
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~  195 (250)
                      ++++|+|..|+|||||++.++.
T Consensus        23 g~~~i~G~nGsGKStll~al~~   44 (197)
T cd03278          23 GLTAIVGPNGSGKSNIIDAIRW   44 (197)
T ss_pred             CcEEEECCCCCCHHHHHHHHHH
Confidence            3889999999999999999873

Barmotin belongs to the SMC protein family. SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, w

>PHA02575 1 deoxynucleoside monophosphate kinase; Provisional

Probab=95.21  E-value=0.017  Score=46.51  Aligned_cols=21  Identities=29%  Similarity=0.358  Sum_probs=18.9

Q ss_pred             EEEEEccCCCCHHHHHHHHHH
Q 036637          175 MVGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~  195 (250)
                      +|+|+||.|+||+|.|+.+-.
T Consensus         2 iI~i~G~~gsGKstva~~~~~   22 (227)
T PHA02575          2 LIAISGKKRSGKDTVADFIIE   22 (227)
T ss_pred             EEEEeCCCCCCHHHHHHHHHh
Confidence            799999999999999998743

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

Probab=95.21  E-value=0.06  Score=44.57  Aligned_cols=39  Identities=26%  Similarity=0.391  Sum_probs=30.8

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVP  212 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs  212 (250)
                      ...=+.++|.+|+|||.||..+.+..- +..+. +.+++++
T Consensus       104 ~~~nl~l~G~~G~GKThLa~Ai~~~l~-~~g~s-v~f~~~~  142 (254)
T COG1484         104 RGENLVLLGPPGVGKTHLAIAIGNELL-KAGIS-VLFITAP  142 (254)
T ss_pred             cCCcEEEECCCCCcHHHHHHHHHHHHH-HcCCe-EEEEEHH
Confidence            666789999999999999999999987 44344 5556554

>PRK11247 ssuB aliphatic sulfonates transport ATP-binding subunit; Provisional

Probab=95.21  E-value=0.018  Score=47.82  Aligned_cols=26  Identities=31%  Similarity=0.336  Sum_probs=22.8

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        37 ~Ge~~~I~G~NGsGKSTLlk~l~Gl~   62 (257)
T PRK11247         37 AGQFVAVVGRSGCGKSTLLRLLAGLE   62 (257)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45689999999999999999998654

>cd03266 ABC_NatA_sodium_exporter NatA is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled proton or K+ uptake

Probab=95.20  E-value=0.018  Score=46.31  Aligned_cols=26  Identities=31%  Similarity=0.404  Sum_probs=22.6

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        30 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   55 (218)
T cd03266          30 PGEVTGLLGPNGAGKTTTLRMLAGLL   55 (218)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCc
Confidence            44688999999999999999998654

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilus, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of a single ATP-binding protein and a single intergral membrane protein.

>PHA02244 ATPase-like protein

Probab=95.20  E-value=0.044  Score=47.61  Aligned_cols=37  Identities=19%  Similarity=0.357  Sum_probs=26.6

Q ss_pred             HHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          160 TLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       160 ~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....+..++.. +. -|-++|..|+|||+||+.+.....
T Consensus       108 ~~~ri~r~l~~-~~-PVLL~GppGtGKTtLA~aLA~~lg  144 (383)
T PHA02244        108 ETADIAKIVNA-NI-PVFLKGGAGSGKNHIAEQIAEALD  144 (383)
T ss_pred             HHHHHHHHHhc-CC-CEEEECCCCCCHHHHHHHHHHHhC
Confidence            44455554433 33 356799999999999999998754

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=95.19  E-value=0.049  Score=48.85  Aligned_cols=39  Identities=28%  Similarity=0.373  Sum_probs=29.5

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcCCCCCC-eEEEEEcC
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFD-QVIFVEVP  212 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd-~~~wv~vs  212 (250)
                      ..-+-|+|..|+|||+|++.+.+.... .+.+ .++|++.+
T Consensus       130 ~n~l~lyG~~G~GKTHLl~ai~~~l~~-~~~~~~v~yi~~~  169 (440)
T PRK14088        130 YNPLFIYGGVGLGKTHLLQSIGNYVVQ-NEPDLRVMYITSE  169 (440)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHH-hCCCCeEEEEEHH
Confidence            456899999999999999999998753 2333 56676643

>PRK07952 DNA replication protein DnaC; Validated

Probab=95.19  E-value=0.064  Score=44.11  Aligned_cols=51  Identities=18%  Similarity=0.257  Sum_probs=34.8

Q ss_pred             HHHHHHHHhcC--CCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcC
Q 036637          160 TLNNVLRALQD--PDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVP  212 (250)
Q Consensus       160 ~~~~l~~~L~~--~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs  212 (250)
                      .+..+.++..+  .....+-++|.+|+|||+|+..+.+....+  -..+++++++
T Consensus        84 al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~~~--g~~v~~it~~  136 (244)
T PRK07952         84 ALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELLLR--GKSVLIITVA  136 (244)
T ss_pred             HHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHhc--CCeEEEEEHH
Confidence            44455554432  234578899999999999999999987533  2355666654

>TIGR02324 CP_lyasePhnL phosphonate C-P lyase system protein PhnL

Probab=95.19  E-value=0.018  Score=46.52  Aligned_cols=27  Identities=30%  Similarity=0.394  Sum_probs=23.3

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .-.+++|+|..|+|||||++.++....
T Consensus        33 ~Ge~~~l~G~nGsGKSTLl~~i~G~~~   59 (224)
T TIGR02324        33 AGECVALSGPSGAGKSTLLKSLYANYL   59 (224)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            456899999999999999999987643

Members of this family are the PhnL protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated C-P lysase complex. This protein (PhnL) and the adjacent-encoded PhnK (TIGR02323) resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this C-P lyase complex rather than part of a transporter per se.

>PRK14242 phosphate transporter ATP-binding protein; Provisional

Probab=95.19  E-value=0.018  Score=47.47  Aligned_cols=25  Identities=20%  Similarity=0.349  Sum_probs=22.2

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHH
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      .-.+++|+|..|+|||||++.+..-
T Consensus        31 ~Ge~~~i~G~nGsGKSTLl~~l~Gl   55 (253)
T PRK14242         31 QNQVTALIGPSGCGKSTFLRCLNRM   55 (253)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhh
Confidence            4568999999999999999999864

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=95.19  E-value=0.015  Score=44.62  Aligned_cols=21  Identities=29%  Similarity=0.360  Sum_probs=19.0

Q ss_pred             EEEEccCCCCHHHHHHHHHHH
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~  196 (250)
                      |.++|.+|+|||||++.+.+.
T Consensus         2 i~~~G~~~~GKTsl~~~l~~~   22 (167)
T cd04161           2 LLTVGLDNAGKTTLVSALQGE   22 (167)
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999998765

Arl2l1 (Arl2-like protein 1) and Arl13 form a subfamily of the Arf family of small GTPases. Arl2l1 was identified in human cells during a search for the gene(s) responsible for Bardet-Biedl syndrome (BBS). Like Arl6, the identified BBS gene, Arl2l1 is proposed to have cilia-specific functions. Arl13 is found on the X chromosome, but its expression has not been confirmed; it may be a pseudogene.

>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=95.18  E-value=0.021  Score=41.29  Aligned_cols=23  Identities=43%  Similarity=0.676  Sum_probs=20.6

Q ss_pred             EEEEccCCCCHHHHHHHHHHHhc
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      |.+.|.||+||||++..+.....
T Consensus         2 i~~~GkgG~GKTt~a~~la~~l~   24 (116)
T cd02034           2 IAITGKGGVGKTTIAALLARYLA   24 (116)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            78999999999999999987764

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.

>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=95.18  E-value=0.019  Score=44.20  Aligned_cols=27  Identities=26%  Similarity=0.297  Sum_probs=23.4

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .-.+++|+|..|+|||||++.+..-..
T Consensus        26 ~Ge~~~i~G~nGsGKSTLl~~l~G~~~   52 (166)
T cd03223          26 PGDRLLITGPSGTGKSSLFRALAGLWP   52 (166)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            456889999999999999999997653

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

>PRK13973 thymidylate kinase; Provisional

Probab=95.18  E-value=0.084  Score=42.43  Aligned_cols=51  Identities=16%  Similarity=0.182  Sum_probs=33.6

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHH
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIAD  226 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~  226 (250)
                      ..|+|-|..|+||||+++.+++.....+ +.++. ..-+......+++++++.
T Consensus         4 ~~IviEG~dGsGKtTq~~~l~~~l~~~g-~~~~~-~~~p~~~~~g~~ir~~l~   54 (213)
T PRK13973          4 RFITFEGGEGAGKSTQIRLLAERLRAAG-YDVLV-TREPGGSPGAEAIRHVLL   54 (213)
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHHHHCC-CeEEE-EECCCCCchHHHHHHHHc
Confidence            5788999999999999999999886432 33322 222223345666666544

>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=95.17  E-value=0.019  Score=43.22  Aligned_cols=27  Identities=33%  Similarity=0.494  Sum_probs=23.3

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .-.+++|+|..|.|||||++.+..-..
T Consensus        25 ~Ge~~~i~G~nGsGKStLl~~l~G~~~   51 (144)
T cd03221          25 PGDRIGLVGRNGAGKSTLLKLIAGELE   51 (144)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcCCCC
Confidence            456889999999999999999987653

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.

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

Probab=95.17  E-value=0.024  Score=43.82  Aligned_cols=25  Identities=24%  Similarity=0.429  Sum_probs=21.5

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      -|.++||.|+||||+.+.+......
T Consensus         4 ~IvLiG~mGaGKSTIGr~LAk~L~~   28 (172)
T COG0703           4 NIVLIGFMGAGKSTIGRALAKALNL   28 (172)
T ss_pred             cEEEEcCCCCCHhHHHHHHHHHcCC
Confidence            4789999999999999999876653

>PRK08116 hypothetical protein; Validated

Probab=95.16  E-value=0.026  Score=47.09  Aligned_cols=37  Identities=35%  Similarity=0.369  Sum_probs=28.7

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcC
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVP  212 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs  212 (250)
                      .-+-++|..|+|||.||..|++....+  -..+++++++
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~~l~~~--~~~v~~~~~~  151 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIANELIEK--GVPVIFVNFP  151 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHc--CCeEEEEEHH
Confidence            347899999999999999999998543  2356677653

>cd04145 M_R_Ras_like M-Ras/R-Ras-like subfamily

Probab=95.16  E-value=0.017  Score=43.83  Aligned_cols=23  Identities=26%  Similarity=0.541  Sum_probs=19.6

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|.++|.+|+|||||+..+.++.
T Consensus         4 ki~i~G~~~~GKtsl~~~~~~~~   26 (164)
T cd04145           4 KLVVVGGGGVGKSALTIQFIQSY   26 (164)
T ss_pred             EEEEECCCCCcHHHHHHHHHhCC
Confidence            47899999999999999876543

This subfamily contains R-Ras2/TC21, M-Ras/R-Ras3, and related members of the Ras family. M-Ras is expressed in lympho-hematopoetic cells. It interacts with some of the known Ras effectors, but appears to also have its own effectors. Expression of mutated M-Ras leads to transformation of several types of cell lines, including hematopoietic cells, mammary epithelial cells, and fibroblasts. Overexpression of M-Ras is observed in carcinomas from breast, uterus, thyroid, stomach, colon, kidney, lung, and rectum. In addition, expression of a constitutively active M-Ras mutant in murine bone marrow induces a malignant mast cell leukemia that is distinct from the monocytic leukemia induced by H-Ras. TC21, along with H-Ras, has been shown to regulate the branching morphogenesis of ureteric bud cell branching in mice. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an ali

>cd01866 Rab2 Rab2 subfamily

Probab=95.15  E-value=0.018  Score=44.20  Aligned_cols=24  Identities=25%  Similarity=0.194  Sum_probs=20.8

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      --|.|+|.+|+|||||...+.+..
T Consensus         5 ~ki~vvG~~~vGKSsLl~~l~~~~   28 (168)
T cd01866           5 FKYIIIGDTGVGKSCLLLQFTDKR   28 (168)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            467999999999999999988653

Rab2 is localized on cis-Golgi membranes and interacts with Golgi matrix proteins. Rab2 is also implicated in the maturation of vesicular tubular clusters (VTCs), which are microtubule-associated intermediates in transport between the ER and Golgi apparatus. In plants, Rab2 regulates vesicle trafficking between the ER and the Golgi bodies and is important to pollen tube growth. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key featur

>COG4778 PhnL ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=95.15  E-value=0.034  Score=42.94  Aligned_cols=34  Identities=29%  Similarity=0.392  Sum_probs=27.7

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEE
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFV  209 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv  209 (250)
                      -..+.+.|..|+||+||.+.+|.+....   .-.|||
T Consensus        37 GECvvL~G~SG~GKStllr~LYaNY~~d---~G~I~v   70 (235)
T COG4778          37 GECVVLHGPSGSGKSTLLRSLYANYLPD---EGQILV   70 (235)
T ss_pred             ccEEEeeCCCCCcHHHHHHHHHhccCCC---CceEEE
Confidence            3456899999999999999999999764   346666

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=95.15  E-value=0.018  Score=43.92  Aligned_cols=20  Identities=25%  Similarity=0.484  Sum_probs=17.9

Q ss_pred             EEEEccCCCCHHHHHHHHHH
Q 036637          176 VGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~  195 (250)
                      |.++|.+|+|||||+..+..
T Consensus         3 v~~~G~~~~GKTsli~~l~~   22 (159)
T cd04150           3 ILMVGLDAAGKTTILYKLKL   22 (159)
T ss_pred             EEEECCCCCCHHHHHHHHhc
Confidence            68999999999999999843

This subfamily contains Arf1, Arf2, Arf3, Arf4, Arf5, and related proteins. Arfs1-5 are soluble proteins that are crucial for assembling coat proteins during vesicle formation. Each contains an N-terminal myristoylated amphipathic helix that is folded into the protein in the GDP-bound state. GDP/GTP exchange exposes the helix, which anchors to the membrane. Following GTP hydrolysis, the helix dissociates from the membrane and folds back into the protein. A general feature of Arf1-5 signaling may be the cooperation of two Arfs at the same site. Arfs1-5 are generally considered to be interchangeable in function and location, but some specific functions have been assigned. Arf1 localizes to the early/cis-Golgi, where it is activated by GBF1 and recruits the coat protein COPI. It also localizes to the trans-Golgi network (TGN), where it is activated by BIG1/BIG2 and recruits the AP1, AP3, AP4, and GGA proteins. Humans, but not rodents

>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=95.14  E-value=0.02  Score=44.65  Aligned_cols=26  Identities=42%  Similarity=0.565  Sum_probs=23.0

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.++...
T Consensus        24 ~G~~~~l~G~nGsGKStLl~~i~G~~   49 (180)
T cd03214          24 AGEIVGILGPNGAGKSTLLKTLAGLL   49 (180)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45688999999999999999999754

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.

>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=95.14  E-value=0.02  Score=44.34  Aligned_cols=26  Identities=35%  Similarity=0.457  Sum_probs=22.6

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+....
T Consensus        25 ~Ge~~~i~G~nGsGKStLl~~l~G~~   50 (173)
T cd03230          25 KGEIYGLLGPNGAGKTTLIKIILGLL   50 (173)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            45688999999999999999998754

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.

>PRK09544 znuC high-affinity zinc transporter ATPase; Reviewed

Probab=95.13  E-value=0.019  Score=47.41  Aligned_cols=26  Identities=27%  Similarity=0.362  Sum_probs=22.9

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.++.-.
T Consensus        29 ~Ge~~~I~G~NGsGKSTLl~~i~Gl~   54 (251)
T PRK09544         29 PGKILTLLGPNGAGKSTLVRVVLGLV   54 (251)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            45689999999999999999999754

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

Probab=95.13  E-value=0.032  Score=45.93  Aligned_cols=49  Identities=22%  Similarity=0.244  Sum_probs=38.7

Q ss_pred             cCCCcChHHHHH---HHHHHhcC------CCceEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          151 YEAFESRSSTLN---NVLRALQD------PDVNMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       151 ~~~~~gr~~~~~---~l~~~L~~------~~~~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      .++++|.+..+.   -|+++|.+      ..++-|-.+|++|.|||-+|+.+.|..++
T Consensus       120 ~ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~kv  177 (368)
T COG1223         120 LDDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEAKV  177 (368)
T ss_pred             HhhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhcccCC
Confidence            346788876554   46777774      47889999999999999999999887754

>PRK05416 glmZ(sRNA)-inactivating NTPase; Provisional

Probab=95.13  E-value=0.019  Score=48.42  Aligned_cols=23  Identities=22%  Similarity=0.481  Sum_probs=20.2

Q ss_pred             CceEEEEEccCCCCHHHHHHHHH
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVA  194 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~  194 (250)
                      ...+|.|.|+.|+||||+++.+-
T Consensus         5 ~~~~i~i~G~~GsGKtt~~~~l~   27 (288)
T PRK05416          5 PMRLVIVTGLSGAGKSVALRALE   27 (288)
T ss_pred             CceEEEEECCCCCcHHHHHHHHH
Confidence            34689999999999999999884

>PF11868 DUF3388: Protein of unknown function (DUF3388); InterPro: IPR024514 This domain is found in a family of bacterial proteins that are functionally uncharacterised

Probab=95.12  E-value=0.019  Score=43.43  Aligned_cols=46  Identities=22%  Similarity=0.381  Sum_probs=32.9

Q ss_pred             HHHHHHHHh----cCCCceEEEEEccCCCCHHH--HHHHHHHHhcCCCCCCeEEEEEcCCC
Q 036637          160 TLNNVLRAL----QDPDVNMVGIYGMGGIGKTT--LAKEVAIQFGRDQFFDQVIFVEVPHI  214 (250)
Q Consensus       160 ~~~~l~~~L----~~~~~~vi~I~G~gGvGKTt--La~~v~~~~~v~~~Fd~~~wv~vs~~  214 (250)
                      ++--|+++|    ..++-.+|+|-||+-+|||-  .|..||-+.+         |..+|.+
T Consensus        37 eLGlLVDFmaEl~K~~Gh~lIGiRGmPRVGKTEsivAasVcAnKr---------W~f~SST   88 (192)
T PF11868_consen   37 ELGLLVDFMAELFKEEGHKLIGIRGMPRVGKTESIVAASVCANKR---------WLFLSST   88 (192)
T ss_pred             HhccHHHHHHHHHHhcCceEEeecCCCccCchhHHHHHhhhcCce---------EEEeeHH
Confidence            444444444    46899999999999999996  5666775543         7777764

Proteins in this family are typically between 261 to 275 amino acids in length and have a N-terminal ACT domain.

>PRK06526 transposase; Provisional

Probab=95.12  E-value=0.02  Score=47.43  Aligned_cols=27  Identities=33%  Similarity=0.320  Sum_probs=22.4

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ...-+.++|.+|+|||+||..+.+...
T Consensus        97 ~~~nlll~Gp~GtGKThLa~al~~~a~  123 (254)
T PRK06526         97 GKENVVFLGPPGTGKTHLAIGLGIRAC  123 (254)
T ss_pred             cCceEEEEeCCCCchHHHHHHHHHHHH
Confidence            344579999999999999999987654

>cd04117 Rab15 Rab15 subfamily

Probab=95.12  E-value=0.018  Score=43.85  Aligned_cols=22  Identities=27%  Similarity=0.324  Sum_probs=18.9

Q ss_pred             EEEEEccCCCCHHHHHHHHHHH
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      .|.++|.+|+|||||...+.+.
T Consensus         2 ki~vvG~~~~GKTsli~~~~~~   23 (161)
T cd04117           2 RLLLIGDSGVGKTCLLCRFTDN   23 (161)
T ss_pred             EEEEECcCCCCHHHHHHHHhcC
Confidence            3789999999999999887654

Rab15 colocalizes with the transferrin receptor in early endosome compartments, but not with late endosomal markers. It codistributes with Rab4 and Rab5 on early/sorting endosomes, and with Rab11 on pericentriolar recycling endosomes. It is believed to function as an inhibitory GTPase that regulates distinct steps in early endocytic trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=95.12  E-value=0.021  Score=43.84  Aligned_cols=26  Identities=27%  Similarity=0.392  Sum_probs=22.6

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||.+.+....
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~i~G~~   50 (163)
T cd03216          25 RGEVHALLGENGAGKSTLMKILSGLY   50 (163)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45688999999999999999998654

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.

>PRK14247 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.12  E-value=0.019  Score=47.22  Aligned_cols=26  Identities=27%  Similarity=0.414  Sum_probs=22.7

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+....
T Consensus        28 ~Ge~~~i~G~nGsGKSTLl~~i~G~~   53 (250)
T PRK14247         28 DNTITALMGPSGSGKSTLLRVFNRLI   53 (250)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccC
Confidence            44688999999999999999998654

>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB

Probab=95.11  E-value=0.026  Score=43.92  Aligned_cols=28  Identities=18%  Similarity=0.274  Sum_probs=23.8

Q ss_pred             CCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          170 DPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       170 ~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ......|.|+|..|+|||||+..+.+..
T Consensus        15 ~~~~~~i~ivG~~~~GKStlin~l~~~~   42 (179)
T TIGR03598        15 PDDGPEIAFAGRSNVGKSSLINALTNRK   42 (179)
T ss_pred             CCCCCEEEEEcCCCCCHHHHHHHHhCCC
Confidence            3556678999999999999999998764

Members of this protein family are a GTPase associated with ribosome biogenesis, typified by YsxC from Bacillus subutilis. The family is widely but not universally distributed among bacteria. Members commonly are called EngB based on homology to EngA, one of several other GTPases of ribosome biogenesis. Cutoffs as set find essentially all bacterial members, but also identify large numbers of eukaryotic (probably organellar) sequences. This protein is found in about 80 percent of bacterial genomes.

>cd03252 ABCC_Hemolysin The ABC-transporter hemolysin B is a central component of the secretion machinery that translocates the toxin, hemolysin A, in a Sec-independent fashion across both membranes of E

Probab=95.11  E-value=0.02  Score=46.76  Aligned_cols=26  Identities=38%  Similarity=0.556  Sum_probs=22.8

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (237)
T cd03252          27 PGEVVGIVGRSGSGKSTLTKLIQRFY   52 (237)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCc
Confidence            55689999999999999999998654

coli. The hemolysin A (HlyA) transport machinery is composed of the ATP-binding cassette (ABC) transporter HlyB located in the inner membrane, hemolysin D (HlyD), also anchored in the inner membrane, and TolC, which resides in the outer membrane. HlyD apparently forms a continuous channel that bridges the entire periplasm, interacting with TolC and HlyB. This arrangement prevents the appearance of periplasmic intermediates of HlyA during substrate transport. Little is known about the molecular details of HlyA transport, but it is evident that ATP-hydrolysis by the ABC-transporter HlyB is a necessary source of energy.

>PRK14245 phosphate ABC transporter ATP-binding protein; Provisional

Probab=95.10  E-value=0.02  Score=47.18  Aligned_cols=24  Identities=25%  Similarity=0.414  Sum_probs=21.4

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHH
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~  195 (250)
                      .-.+++|+|..|.|||||++.+..
T Consensus        28 ~Ge~~~i~G~nGsGKSTLl~~i~G   51 (250)
T PRK14245         28 EKSVVAFIGPSGCGKSTFLRLFNR   51 (250)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhh
Confidence            456899999999999999999974

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=95.10  E-value=0.096  Score=40.54  Aligned_cols=43  Identities=19%  Similarity=0.271  Sum_probs=32.0

Q ss_pred             EEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHH
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEI  224 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i  224 (250)
                      +-|.|..|+|||++|.++...     .....+++.-.+.++. ++.+.|
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~-----~~~~~~y~at~~~~d~-em~~rI   44 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAE-----LGGPVTYIATAEAFDD-EMAERI   44 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHh-----cCCCeEEEEccCcCCH-HHHHHH
Confidence            578999999999999998754     2346778877777765 355554

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.

>cd01897 NOG NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans

Probab=95.10  E-value=0.019  Score=43.84  Aligned_cols=23  Identities=22%  Similarity=0.340  Sum_probs=20.7

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .|.++|.+|+|||||+..+.+..
T Consensus         2 ~i~~~G~~~~GKssli~~l~~~~   24 (168)
T cd01897           2 TLVIAGYPNVGKSSLVNKLTRAK   24 (168)
T ss_pred             eEEEEcCCCCCHHHHHHHHhcCC
Confidence            58999999999999999998764

NOG1 is functionally linked to ribosome biogenesis and found in association with the nuclear pore complexes and identified in many preribosomal complexes. Thus, defects in NOG1 can lead to defects in 60S biogenesis. The S. cerevisiae NOG1 gene is essential for cell viability, and mutations in the predicted G motifs abrogate function. It is a member of the ODN family of GTP-binding proteins that also includes the bacterial Obg and DRG proteins.

>PRK14241 phosphate transporter ATP-binding protein; Provisional

Probab=95.10  E-value=0.02  Score=47.43  Aligned_cols=26  Identities=19%  Similarity=0.331  Sum_probs=22.8

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+....
T Consensus        29 ~Ge~~~i~G~nGsGKSTLl~~laGl~   54 (258)
T PRK14241         29 PRSVTAFIGPSGCGKSTVLRTLNRMH   54 (258)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhccC
Confidence            45689999999999999999999653

>TIGR00972 3a0107s01c2 phosphate ABC transporter, ATP-binding protein

Probab=95.09  E-value=0.02  Score=47.07  Aligned_cols=26  Identities=23%  Similarity=0.358  Sum_probs=22.5

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        26 ~Ge~~~i~G~nGsGKSTLl~~l~G~~   51 (247)
T TIGR00972        26 KNQVTALIGPSGCGKSTLLRSLNRMN   51 (247)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccC
Confidence            45689999999999999999997543

This model represents the ATP-binding protein of a family of ABC transporters for inorganic phosphate. In the model species Escherichia coli, a constitutive transporter for inorganic phosphate, with low affinity, is also present. The high affinity transporter that includes this polypeptide is induced when extracellular phosphate concentrations are low. The proteins most similar to the members of this family but not included appear to be amino acid transporters.

>COG1123 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]

Probab=95.09  E-value=0.018  Score=52.22  Aligned_cols=26  Identities=35%  Similarity=0.512  Sum_probs=22.3

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|||-.|+|||||++.+..-.
T Consensus       316 ~GE~lglVGeSGsGKSTlar~i~gL~  341 (539)
T COG1123         316 EGETLGLVGESGSGKSTLARILAGLL  341 (539)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34589999999999999999987544

---

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	250
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-15
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	7e-12
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	3e-08
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	2e-07

>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 = 73.3 bits (179), Expect = 5e-15
 Identities = 36/175 (20%), Positives = 62/175 (35%), Gaps = 57/175 (32%)

Query: 63  EEIEKNVEKWLAS--VNNIITEAEKFTGDADKANKRCFMGLCPNLKTRHRFSKEAVRQQK 120
           +++ K++   L+   +++II        DA     R F  L                +Q+
Sbjct: 39  QDMPKSI---LSKEEIDHIIMS-----KDAVSGTLRLFWTLL--------------SKQE 76

Query: 121 AIVELGEAGRF----DRLSYRKALEDIRLISNK---DYEAFES-RSSTLN--------NV 164
            +V+     +F     R++Y+  +  I+    +       +   R    N        NV
Sbjct: 77  EMVQ-----KFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNV 131

Query: 165 LR---------ALQ--DPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIF 208
            R         AL    P  N V I G+ G GKT +A +V + +      D  IF
Sbjct: 132 SRLQPYLKLRQALLELRPAKN-VLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIF 185

>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 = 63.5 bits (154), Expect = 7e-12
 Identities = 27/220 (12%), Positives = 63/220 (28%), Gaps = 18/220 (8%)

Query: 41  LEKLKDDGASMQHGVDEGRRKGEEIEKNVEKWLASVNNIITEAEKFTGDADKANKRCFMG 100
           L  L+      +   +   +    +E+ +  +L       +E        +  N+     
Sbjct: 27  LTYLEGKNIFTEDHSELISKMSTRLER-IANFLRIYRRQASELGPLIDFFNYNNQSHLAD 85

Query: 101 LCPNLKTRHRFSKEAVRQQKAIVELGEAGRFDRLSYRKALEDIRLISNKDYEAFESRSST 160
                     +   A+ +   +  +  A +F R    + L    +         E     
Sbjct: 86  F------LEDYIDFAINEPDLLRPVVIAPQFSRQMLDRKLLLGNVPKQMTCYIREYHVDR 139

Query: 161 LNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVA--IQFGRDQFFDQVIFVEVPH----- 213
           +   L  + D D   + ++G  G GK+ +A +            +D +++++        
Sbjct: 140 VIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKS 199

Query: 214 ----IPDIRKIQGEIADKLGLIFFEETESGRARSLYNRLK 249
                 DI  +     D L     E   S   + +     
Sbjct: 200 TFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNAL 239

>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 = 52.9 bits (127), Expect = 3e-08
 Identities = 17/62 (27%), Positives = 26/62 (41%), Gaps = 4/62 (6%)

Query: 154 FESRSSTLNNVLRALQDPDV--NMVGIYGMGGIGKTTLAKEVAIQFG--RDQFFDQVIFV 209
           F +R   ++ + + L   +     V IYGM G GK+ LA E           F   V +V
Sbjct: 126 FVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWV 185

Query: 210 EV 211
            +
Sbjct: 186 SI 187

>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 = 50.6 bits (121), Expect = 2e-07
 Identities = 18/83 (21%), Positives = 29/83 (34%), Gaps = 3/83 (3%)

Query: 169 QDPDVNMVGIYGMGGIGKTTLAKEVA--IQFGRDQFFDQVIFVEVPHIPDIRKIQGEIAD 226
              +   V I+GM G GK+ LA E           F   V +V V        +  ++ +
Sbjct: 143 LKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLM-KLQN 201

Query: 227 KLGLIFFEETESGRARSLYNRLK 249
               +  +E+ S R        K
Sbjct: 202 LCTRLDQDESFSQRLPLNIEEAK 224

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	250
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	99.72
3qfl_A	115	MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-	99.43
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	99.42
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	99.41
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.31
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	98.78
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	98.59
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	98.55
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	98.5
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	98.49
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	98.48
2fna_A	357	Conserved hypothetical protein; structural genomic	98.43
2chg_A	226	Replication factor C small subunit; DNA-binding pr	98.16
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	98.15
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	98.05
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	97.98
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	97.93
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	97.75
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	97.58
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	97.53
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	97.46
3bos_A	242	Putative DNA replication factor; P-loop containing	97.45
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	97.38
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	97.35
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	97.35
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	97.35
2chq_A	319	Replication factor C small subunit; DNA-binding pr	97.34
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	97.3
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	97.3
3pvs_A	447	Replication-associated recombination protein A; ma	97.29
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	97.26
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	97.26
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	97.25
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	97.19
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	97.19
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	97.19
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	97.17
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	97.16
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	97.11
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	97.11
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	97.07
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	97.07
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	97.04
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.03
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	97.03
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.02
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	97.0
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	96.99
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	96.95
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	96.95
2hf9_A	226	Probable hydrogenase nickel incorporation protein	96.95
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.94
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.92
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.92
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.92
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	96.91
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	96.91
2cvh_A	220	DNA repair and recombination protein RADB; filamen	96.89
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	96.88
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	96.87
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	96.86
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.86
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	96.85
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.83
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	96.81
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	96.81
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.8
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	96.78
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	96.77
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	96.77
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	96.77
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	96.77
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	96.76
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.75
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	96.75
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	96.74
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.74
3co5_A	143	Putative two-component system transcriptional RES	96.74
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.73
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	96.73
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	96.7
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	96.7
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	96.7
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.69
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	96.69
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.69
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	96.68
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	96.68
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	96.67
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.67
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.66
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	96.66
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	96.66
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	96.66
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.66
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	96.65
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	96.65
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.65
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	96.63
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	96.63
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	96.63
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	96.63
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	96.63
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	96.62
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	96.62
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	96.61
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	96.61
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	96.6
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	96.6
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	96.59
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	96.59
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	96.57
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	96.55
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.55
2z43_A	324	DNA repair and recombination protein RADA; archaea	96.54
1via_A	175	Shikimate kinase; structural genomics, transferase	96.54
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	96.53
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	96.52
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	96.52
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	96.52
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	96.52
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	96.51
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	96.5
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	96.5
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	96.49
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	96.49
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	96.49
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.49
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	96.48
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	96.48
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	96.46
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	96.46
2vli_A	183	Antibiotic resistance protein; transferase, tunica	96.46
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	96.44
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	96.43
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	96.43
3fwy_A	314	Light-independent protochlorophyllide reductase I	96.43
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	96.43
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	96.42
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	96.42
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	96.41
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	96.41
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	96.41
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	96.4
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	96.4
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	96.4
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	96.4
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	96.39
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	96.39
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.39
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	96.38
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.38
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	96.37
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	96.36
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	96.34
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	96.34
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	96.34
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	96.33
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	96.3
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	96.29
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	96.29
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	96.28
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	96.28
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	96.28
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	96.27
2r44_A	331	Uncharacterized protein; putative ATPase, structur	96.27
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	96.27
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	96.26
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	96.26
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	96.24
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	96.24
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	96.24
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	96.22
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	96.22
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	96.22
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	96.22
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	96.2
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	96.2
2xxa_A	433	Signal recognition particle protein; protein trans	96.19
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	96.19
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	96.17
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	96.16
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	96.16
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	96.15
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	96.15
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	96.13
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	96.12
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	96.12
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	96.11
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	96.07
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	96.05
1xp8_A	366	RECA protein, recombinase A; recombination, radior	96.05
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	96.04
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	96.04
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	96.03
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	96.03
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	96.03
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	96.03
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	96.01
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	96.0
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	95.98
3io5_A	333	Recombination and repair protein; storage dimer, i	95.94
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	95.92
2og2_A	359	Putative signal recognition particle receptor; nuc	95.92
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	95.92
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	95.92
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	95.91
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	95.9
1b0u_A	262	Histidine permease; ABC transporter, transport pro	95.9
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	95.89
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	95.89
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	95.88
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	95.88
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	95.88
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	95.88
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	95.86
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	95.86
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	95.85
1ji0_A	240	ABC transporter; ATP binding protein, structural g	95.85
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	95.84
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	95.83
1g6h_A	257	High-affinity branched-chain amino acid transport	95.83
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	95.82
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	95.82
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	95.81
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	95.8
2eyu_A	261	Twitching motility protein PILT; pilus retraction	95.79
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	95.79
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	95.78
1sgw_A	214	Putative ABC transporter; structural genomics, P p	95.78
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	95.77
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	95.76
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	95.76
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	95.76
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	95.75
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	95.75
1u94_A	356	RECA protein, recombinase A; homologous recombinat	95.75
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	95.75
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	95.74
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	95.73
2wji_A	165	Ferrous iron transport protein B homolog; membrane	95.73
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	95.72
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	95.72
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	95.72
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	95.71
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	95.71
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	95.71
2ghi_A	260	Transport protein; multidrug resistance protein, M	95.7
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	95.69
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	95.67
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	95.67
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	95.66
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	95.66
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	95.65
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	95.65
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	95.63
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	95.62
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	95.61
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	95.61
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	95.6
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	95.6
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	95.6
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	95.59
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	95.58
3end_A	307	Light-independent protochlorophyllide reductase ir	95.55
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	95.55
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	95.54
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	95.54
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	95.53
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	95.52
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	95.52
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	95.52
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	95.52
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	95.52
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	95.51
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	95.5
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	95.5
2ged_A	193	SR-beta, signal recognition particle receptor beta	95.46
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	95.45
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	95.45
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	95.45
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	95.43
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	95.42
2qgz_A	308	Helicase loader, putative primosome component; str	95.42
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	95.41
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	95.4
1p9r_A	418	General secretion pathway protein E; bacterial typ	95.4
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	95.39
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	95.39
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	95.38
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	95.38
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	95.38
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	95.37
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	95.37
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	95.35
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	95.35
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	95.34
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	95.34
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	95.34
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	95.33
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	95.33
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	95.32
3kta_A	182	Chromosome segregation protein SMC; structural mai	95.31
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	95.29
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	95.29
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	95.28
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	95.27
1nrj_B	218	SR-beta, signal recognition particle receptor beta	95.27
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	95.27
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	95.27
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	95.27
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	95.26
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	95.26
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	95.24
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	95.23
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	95.22
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	95.22
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	95.21
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	95.21
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	95.21
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	95.2
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	95.2
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	95.2
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	95.2
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	95.2
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	95.19
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	95.19
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	95.19
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	95.18
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	95.17
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	95.15
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	95.14
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	95.13
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	95.13
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	95.12
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	95.12
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	95.11
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	95.1
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	95.1
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	95.1
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	95.09
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	95.09
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	95.08
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	95.08
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	95.07
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	95.07
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	95.07
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	95.06
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	95.05
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	95.05
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	95.05
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	95.04
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	95.04
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	95.04
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	95.02
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	95.02
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	95.02
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	95.01
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	95.0
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	94.99
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	94.99
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	94.99
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	94.98
2ewv_A	372	Twitching motility protein PILT; pilus retraction	94.98
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	94.97
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	94.97
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	94.96
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	94.96
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	94.96
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	94.95
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	94.95
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	94.94
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	94.94
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	94.94
2fh5_B	214	SR-beta, signal recognition particle receptor beta	94.93
1tue_A	212	Replication protein E1; helicase, replication, E1E	94.93
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	94.92
3llu_A	196	RAS-related GTP-binding protein C; structural geno	94.91
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	94.9
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	94.89
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	94.88
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	94.87
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	94.85
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	94.85
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	94.85
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	94.84
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	94.83
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	94.81
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	94.8
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	94.79
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	94.78
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	94.76
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	94.75
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	94.73
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	94.73
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	94.72
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	94.69
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	94.68
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	94.67
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	94.66
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	94.65
3ch4_B	202	Pmkase, phosphomevalonate kinase; parallel beta-sh	94.63
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	94.63
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	94.63
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	94.62
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	94.6
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	94.6
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	94.59
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	94.57
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	94.55
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	94.55
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	94.55
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	94.55
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	94.54
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	94.54
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	94.53
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	94.52
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	94.52
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	94.5
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	94.49
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	94.47
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	94.47
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	94.46
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	94.45
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	94.44
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	94.41
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	94.38
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	94.34
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	94.32
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	94.28
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	94.28
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	94.28
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	94.24
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	94.23
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	94.23
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	94.21
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	94.21
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	94.18
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	94.16
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	94.13
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	94.11
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	93.15
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	94.09
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	94.07
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	94.06
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	94.05
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	94.04
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	94.04
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	94.04
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	94.04
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	94.03
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	94.03
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	94.02
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	93.99
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	93.97
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	93.95
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	93.94
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	93.92
3ice_A	422	Transcription termination factor RHO; transcriptio	93.92
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	93.91
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	93.91
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	93.89
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	93.88
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	93.86
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	93.86
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	93.82
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	93.77
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	93.75
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	93.75
3cwq_A	209	Para family chromosome partitioning protein; alpha	93.72
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	93.72
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	93.7
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	93.7
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	93.7
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	93.67
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	93.66
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	93.63
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	93.6
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	93.59
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	93.59
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	93.56
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	93.56
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	93.55
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	93.47
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	93.45
3hdt_A	223	Putative kinase; structura genomics, PSI-2, protei	93.44
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	93.42
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	93.42
4i1u_A	210	Dephospho-COA kinase; structural genomics, niaid,	93.38
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	93.37
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	93.33
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	93.32
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	93.32
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	93.31
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	93.3
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	93.3
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	93.28
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	93.27
1dek_A	241	Deoxynucleoside monophosphate kinase; transferase,	93.25
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	93.18

>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=99.72  E-value=2.2e-17  Score=149.69  Aligned_cols=96  Identities=17%  Similarity=0.131  Sum_probs=82.6

Q ss_pred             cChHHHHHHHHHHhcCC---CceEEEEEccCCCCHHHHHHHHHH--HhcCCCCCCeEEEEEcCCCC--CHHHHHHHHHHH
Q 036637          155 ESRSSTLNNVLRALQDP---DVNMVGIYGMGGIGKTTLAKEVAI--QFGRDQFFDQVIFVEVPHIP--DIRKIQGEIADK  227 (250)
Q Consensus       155 ~gr~~~~~~l~~~L~~~---~~~vi~I~G~gGvGKTtLa~~v~~--~~~v~~~Fd~~~wv~vs~~~--~~~~l~~~i~~~  227 (250)
                      +||+.++++|.++|.+.   +.++|+||||||+||||||+.+|+  +.+++.+|++++||+|++.+  ++..+++.|+.+
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            59999999999999743   689999999999999999999999  68888999999999999986  899999999999


Q ss_pred             hCCCCC--------CCCHHHHHHHHHHHhcC
Q 036637          228 LGLIFF--------EETESGRARSLYNRLKG  250 (250)
Q Consensus       228 l~~~~~--------~~~~~~~~~~l~~~L~~  250 (250)
                      ++.+..        ..+..++...|+++|++
T Consensus       211 l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~  241 (549)
T 2a5y_B          211 LKSEDDLLNFPSVEHVTSVVLKRMICNALID  241 (549)
T ss_dssp             HTTTSCCTTCCCCTTCCHHHHHHHHHHHHTT
T ss_pred             HhcCcccccccccccccHHHHHHHHHHHHcC
Confidence            986522        12345667888888864

>3qfl_A MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-binding domain, L rich repeat containing receptors, protein binding; 2.00A {Hordeum vulgare}

Probab=99.43  E-value=9.8e-13  Score=94.41  Aligned_cols=65  Identities=14%  Similarity=0.126  Sum_probs=57.3

Q ss_pred             cchhhHHHHHHHHHHHHHhHHHHHHHHHHHHhcc-cchhHHHHHHHHHHHHHHHHHHHHhhhhhhh
Q 036637           29 NYRSNFENLKTELEKLKDDGASMQHGVDEGRRKG-EEIEKNVEKWLASVNNIITEAEKFTGDADKA   93 (250)
Q Consensus        29 ~~~~~~~~l~~~l~~L~~~l~~~~~~l~~a~~~~-~~~~~~~~~wl~~l~~~~~d~ed~ld~~~~~   93 (250)
                      +....+.+++.++++|+++|..|+++|.+++... ..+++.++.|+.+||+++||+||++|+|.+.
T Consensus        16 ~E~~l~~gv~~~i~~Lk~eL~~m~a~L~da~~~~~~~~d~~vk~W~~~vrdlaYD~ED~iD~f~~~   81 (115)
T 3qfl_A           16 EEFKLHKGVKKNIEDLGKELESMNAALIKIGEVPREQLDSQDKLWADEVRELSYVIEDVVDKFLVQ   81 (115)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSCGGGCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhchHHHHHHHHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3456678899999999999999999999998863 3468999999999999999999999999754

>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=99.42  E-value=2.6e-13  Score=133.04  Aligned_cols=103  Identities=18%  Similarity=0.189  Sum_probs=80.0

Q ss_pred             CCCCcCCCcChHHHHHHHHHHhc--CCCceEEEEEccCCCCHHHHHHHHHHHhcC-CCCC-CeEEEEEcCCCCC--HHHH
Q 036637          147 SNKDYEAFESRSSTLNNVLRALQ--DPDVNMVGIYGMGGIGKTTLAKEVAIQFGR-DQFF-DQVIFVEVPHIPD--IRKI  220 (250)
Q Consensus       147 ~~~~~~~~~gr~~~~~~l~~~L~--~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v-~~~F-d~~~wv~vs~~~~--~~~l  220 (250)
                      .|.+...|+||+.++++|.++|.  +++.++|+|+||||+||||||+++|++.++ ..+| +.++||++++.++  ....
T Consensus       119 ~p~~~~~~vgR~~~~~~l~~~l~~~~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~  198 (1249)
T 3sfz_A          119 VPQRPVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMK  198 (1249)
T ss_dssp             CCCCCSSCCCCHHHHHHHHHHHHTTTTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHHHHHHH
T ss_pred             CCCCCceeccHHHHHHHHHHHHhhccCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCchHHHHH
Confidence            34456679999999999999996  567899999999999999999999988643 3445 6888999998654  4445


Q ss_pred             HHHHHHHhCCCCC-----CCCHHHHHHHHHHHhc
Q 036637          221 QGEIADKLGLIFF-----EETESGRARSLYNRLK  249 (250)
Q Consensus       221 ~~~i~~~l~~~~~-----~~~~~~~~~~l~~~L~  249 (250)
                      +..++.+++....     ..+..+..+.|+.+|.
T Consensus       199 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~  232 (1249)
T 3sfz_A          199 LQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLML  232 (1249)
T ss_dssp             HHHHHHHHTTTCTTCSSCCSSHHHHHHHHHHHTS
T ss_pred             HHHHHHHhhhhcccccCCCCCHHHHHHHHHHHHh
Confidence            7778888865432     3456777788887775

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=99.41  E-value=1.2e-13  Score=130.77  Aligned_cols=75  Identities=20%  Similarity=0.209  Sum_probs=68.3

Q ss_pred             CcChHHHHHHHHHHhcC-CCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCe-EEEEEcCCCCCHHHHHHHHHHHh
Q 036637          154 FESRSSTLNNVLRALQD-PDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQ-VIFVEVPHIPDIRKIQGEIADKL  228 (250)
Q Consensus       154 ~~gr~~~~~~l~~~L~~-~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~-~~wv~vs~~~~~~~l~~~i~~~l  228 (250)
                      .+||+.++++|.++|.. ++.++|+|+||||+||||||+.+|++.+++.+|++ ++|+++++.++...++..|+..+
T Consensus       130 ~VGRe~eLeeL~elL~~~d~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs~~~d~~~IL~~Ll~lL  206 (1221)
T 1vt4_I          130 NVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLL  206 (1221)
T ss_dssp             CCCCHHHHHHHHHHHHHCCSSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEECCCSSSHHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHhccCCCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHH
Confidence            48999999999999984 56899999999999999999999999888889986 99999999999999988887754

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=99.31  E-value=3.2e-12  Score=116.67  Aligned_cols=101  Identities=21%  Similarity=0.218  Sum_probs=74.9

Q ss_pred             CCCcCCCcChHHHHHHHHHHhc--CCCceEEEEEccCCCCHHHHHHHHHHHhcC-CCCC-CeEEEEEcCCCCCHHHHHHH
Q 036637          148 NKDYEAFESRSSTLNNVLRALQ--DPDVNMVGIYGMGGIGKTTLAKEVAIQFGR-DQFF-DQVIFVEVPHIPDIRKIQGE  223 (250)
Q Consensus       148 ~~~~~~~~gr~~~~~~l~~~L~--~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v-~~~F-d~~~wv~vs~~~~~~~l~~~  223 (250)
                      |.....++||+.+++.|.++|.  +++.++++|+||||+||||||..+|++..+ ..+| +.++|+++++. +...++..
T Consensus       120 P~~~~~~vGR~~~l~~L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~~-~~~~~~~~  198 (591)
T 1z6t_A          120 PQRPVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQ-DKSGLLMK  198 (591)
T ss_dssp             CCCCSSCCCCHHHHHHHHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEESC-CHHHHHHH
T ss_pred             CCCCCeecccHHHHHHHHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCCC-chHHHHHH
Confidence            3355679999999999999988  457899999999999999999999988755 5789 58999999876 33444443


Q ss_pred             ---HHHHhCCC-----CCCCCHHHHHHHHHHHhc
Q 036637          224 ---IADKLGLI-----FFEETESGRARSLYNRLK  249 (250)
Q Consensus       224 ---i~~~l~~~-----~~~~~~~~~~~~l~~~L~  249 (250)
                         ++..++..     ....+.......|+..|.
T Consensus       199 l~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~  232 (591)
T 1z6t_A          199 LQNLCTRLDQDESFSQRLPLNIEEAKDRLRILML  232 (591)
T ss_dssp             HHHHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccccccccCCCCCHHHHHHHHHHHHc
Confidence               44566531     122345566667776653

>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=98.78  E-value=3.3e-08  Score=85.76  Aligned_cols=98  Identities=19%  Similarity=0.188  Sum_probs=72.6

Q ss_pred             cCCCcChHHHHHHHHHHh-c----C--CCceEEEE--EccCCCCHHHHHHHHHHHhcCC---CCCC-eEEEEEcCCCCCH
Q 036637          151 YEAFESRSSTLNNVLRAL-Q----D--PDVNMVGI--YGMGGIGKTTLAKEVAIQFGRD---QFFD-QVIFVEVPHIPDI  217 (250)
Q Consensus       151 ~~~~~gr~~~~~~l~~~L-~----~--~~~~vi~I--~G~gGvGKTtLa~~v~~~~~v~---~~Fd-~~~wv~vs~~~~~  217 (250)
                      +..++||+.+++.|.++| .    .  .....+.|  +|++|+|||||++.+++.....   ..|+ ..+|+...+..+.
T Consensus        21 p~~l~gR~~el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  100 (412)
T 1w5s_A           21 PPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNL  100 (412)
T ss_dssp             CSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSH
T ss_pred             CCCCCChHHHHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCCCCCH
Confidence            357899999999999888 3    2  34556666  9999999999999999876431   1234 4678887778899


Q ss_pred             HHHHHHHHHHhCCCCC--CCCHHHHHHHHHHHh
Q 036637          218 RKIQGEIADKLGLIFF--EETESGRARSLYNRL  248 (250)
Q Consensus       218 ~~l~~~i~~~l~~~~~--~~~~~~~~~~l~~~L  248 (250)
                      ..++..|+.+++.+..  ..+.......|.+.|
T Consensus       101 ~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l  133 (412)
T 1w5s_A          101 YTILSLIVRQTGYPIQVRGAPALDILKALVDNL  133 (412)
T ss_dssp             HHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHH
Confidence            9999999999987643  234455566666655

>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=98.59  E-value=1.7e-07  Score=80.31  Aligned_cols=98  Identities=16%  Similarity=0.260  Sum_probs=72.2

Q ss_pred             cCCCcChHHHHHHHHHHhc----CCCceEEEEEccCCCCHHHHHHHHHHHhcCCCC-CCeEEEEEcCCCCCHHHHHHHHH
Q 036637          151 YEAFESRSSTLNNVLRALQ----DPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQF-FDQVIFVEVPHIPDIRKIQGEIA  225 (250)
Q Consensus       151 ~~~~~gr~~~~~~l~~~L~----~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~-Fd~~~wv~vs~~~~~~~l~~~i~  225 (250)
                      +..++||+.+++.+.+++.    ......+.|+|++|+|||||++.+++...-... --..+|+..+...+...++..++
T Consensus        19 p~~~~gr~~e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~i~   98 (386)
T 2qby_A           19 PDELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPYRVLADLL   98 (386)
T ss_dssp             CSCCTTCHHHHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHHHCSHHHHHHHHT
T ss_pred             CCCCCChHHHHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCCCCCHHHHHHHHH
Confidence            3679999999999999887    455778999999999999999999987642110 12567888777778888889998


Q ss_pred             HHhCCCCC--CCCHHHHHHHHHHHh
Q 036637          226 DKLGLIFF--EETESGRARSLYNRL  248 (250)
Q Consensus       226 ~~l~~~~~--~~~~~~~~~~l~~~L  248 (250)
                      .+++.+..  ..+..+....+.+.|
T Consensus        99 ~~l~~~~~~~~~~~~~~~~~l~~~l  123 (386)
T 2qby_A           99 ESLDVKVPFTGLSIAELYRRLVKAV  123 (386)
T ss_dssp             TTTSCCCCSSSCCHHHHHHHHHHHH
T ss_pred             HHhCCCCCCCCCCHHHHHHHHHHHH
Confidence            88876543  223444455555544

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=98.55  E-value=7.9e-07  Score=76.15  Aligned_cols=98  Identities=20%  Similarity=0.264  Sum_probs=73.7

Q ss_pred             cCCCcChHHHHHHHHHHhc----CCCceEEEEEccCCCCHHHHHHHHHHHhcCCC---CCC-eEEEEEcCCCCCHHHHHH
Q 036637          151 YEAFESRSSTLNNVLRALQ----DPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQ---FFD-QVIFVEVPHIPDIRKIQG  222 (250)
Q Consensus       151 ~~~~~gr~~~~~~l~~~L~----~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~---~Fd-~~~wv~vs~~~~~~~l~~  222 (250)
                      +..++||+.+++.+.+++.    ......+.|+|++|+||||||+.+++...-..   ..+ ..+|+......+...++.
T Consensus        18 p~~~~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~   97 (387)
T 2v1u_A           18 PDVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYRVAS   97 (387)
T ss_dssp             CSCCTTCHHHHHHHHHTTGGGTSSCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTSCSHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcCCCHHHHHH
Confidence            3678999999999999884    34567889999999999999999998763210   112 467888888889999999


Q ss_pred             HHHHHhCCCCC--CCCHHHHHHHHHHHh
Q 036637          223 EIADKLGLIFF--EETESGRARSLYNRL  248 (250)
Q Consensus       223 ~i~~~l~~~~~--~~~~~~~~~~l~~~L  248 (250)
                      .|+.+++.+..  ..+..+....+.+.+
T Consensus        98 ~l~~~l~~~~~~~~~~~~~~~~~l~~~l  125 (387)
T 2v1u_A           98 AIAEAVGVRVPFTGLSVGEVYERLVKRL  125 (387)
T ss_dssp             HHHHHHSCCCCSSCCCHHHHHHHHHHHH
T ss_pred             HHHHHhCCCCCCCCCCHHHHHHHHHHHH
Confidence            99999977543  233455556666555

>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=98.50  E-value=3.8e-07  Score=78.33  Aligned_cols=98  Identities=15%  Similarity=0.163  Sum_probs=70.9

Q ss_pred             CCCcChHHHHHHHHHHhc----CCCceEEEEEccCCCCHHHHHHHHHHHhcCC----CCC--CeEEEEEcCCCC-CHHHH
Q 036637          152 EAFESRSSTLNNVLRALQ----DPDVNMVGIYGMGGIGKTTLAKEVAIQFGRD----QFF--DQVIFVEVPHIP-DIRKI  220 (250)
Q Consensus       152 ~~~~gr~~~~~~l~~~L~----~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~----~~F--d~~~wv~vs~~~-~~~~l  220 (250)
                      ..++||+.+++.+.+++.    ....+.+.|+|++|+||||||+.+++...-.    ..+  -..+|+..+... +...+
T Consensus        20 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~   99 (384)
T 2qby_B           20 KEIPFREDILRDAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTPQAV   99 (384)
T ss_dssp             SSCTTCHHHHHHHHHHHHHHHTTCCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHHHHCSCHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECccCCCCHHHH
Confidence            578999999998887665    4456789999999999999999999875321    112  356788877777 88999


Q ss_pred             HHHHHHHh-CCCCC--CCCHHHHHHHHHHHhc
Q 036637          221 QGEIADKL-GLIFF--EETESGRARSLYNRLK  249 (250)
Q Consensus       221 ~~~i~~~l-~~~~~--~~~~~~~~~~l~~~L~  249 (250)
                      +..++.++ +.+..  ..+.......+.+.++
T Consensus       100 ~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~  131 (384)
T 2qby_B          100 LSSLAGKLTGFSVPKHGINLGEYIDKIKNGTR  131 (384)
T ss_dssp             HHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHS
T ss_pred             HHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhc
Confidence            99998888 44322  2334455556665553

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=98.49  E-value=1.8e-07  Score=79.16  Aligned_cols=72  Identities=13%  Similarity=0.222  Sum_probs=56.6

Q ss_pred             CCcCCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCC------CHHHHHH
Q 036637          149 KDYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIP------DIRKIQG  222 (250)
Q Consensus       149 ~~~~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~------~~~~l~~  222 (250)
                      ..+..++||+.+++.|.+++.+.  +++.|+|++|+|||||++.+++..      + .+|+.+....      +...++.
T Consensus         9 ~~~~~~~gR~~el~~L~~~l~~~--~~v~i~G~~G~GKT~Ll~~~~~~~------~-~~~~~~~~~~~~~~~~~~~~~~~   79 (350)
T 2qen_A            9 TRREDIFDREEESRKLEESLENY--PLTLLLGIRRVGKSSLLRAFLNER------P-GILIDCRELYAERGHITREELIK   79 (350)
T ss_dssp             CSGGGSCSCHHHHHHHHHHHHHC--SEEEEECCTTSSHHHHHHHHHHHS------S-EEEEEHHHHHHTTTCBCHHHHHH
T ss_pred             CChHhcCChHHHHHHHHHHHhcC--CeEEEECCCcCCHHHHHHHHHHHc------C-cEEEEeecccccccCCCHHHHHH
Confidence            34567999999999999987653  789999999999999999999874      1 6778775432      6677777


Q ss_pred             HHHHHhC
Q 036637          223 EIADKLG  229 (250)
Q Consensus       223 ~i~~~l~  229 (250)
                      .+...++
T Consensus        80 ~l~~~l~   86 (350)
T 2qen_A           80 ELQSTIS   86 (350)
T ss_dssp             HHHHHSC
T ss_pred             HHHHHHH
Confidence            7766654

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=98.48  E-value=2.1e-06  Score=73.65  Aligned_cols=96  Identities=19%  Similarity=0.240  Sum_probs=72.2

Q ss_pred             CCCcChHHHHHHHHHHhcC----CCce--EEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHH
Q 036637          152 EAFESRSSTLNNVLRALQD----PDVN--MVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIA  225 (250)
Q Consensus       152 ~~~~gr~~~~~~l~~~L~~----~~~~--vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~  225 (250)
                      ..++||+.+++.+.+++..    ....  .+.|+|.+|+|||||++.+++...-... -..+|+..+...+...++..++
T Consensus        17 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~~~~~~~-~~~~~i~~~~~~~~~~~~~~l~   95 (389)
T 1fnn_A           17 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTT-ARFVYINGFIYRNFTAIIGEIA   95 (389)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCC-CEEEEEETTTCCSHHHHHHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHHHhhhcC-eeEEEEeCccCCCHHHHHHHHH
Confidence            5789999999999888873    3334  8999999999999999999988753211 2567788788888999999999


Q ss_pred             HHhCCCCC--CCCHHHHHHHHHHHh
Q 036637          226 DKLGLIFF--EETESGRARSLYNRL  248 (250)
Q Consensus       226 ~~l~~~~~--~~~~~~~~~~l~~~L  248 (250)
                      ..++....  ..+.......+.+.|
T Consensus        96 ~~l~~~~~~~~~~~~~~~~~l~~~l  120 (389)
T 1fnn_A           96 RSLNIPFPRRGLSRDEFLALLVEHL  120 (389)
T ss_dssp             HHTTCCCCSSCCCHHHHHHHHHHHH
T ss_pred             HHhCccCCCCCCCHHHHHHHHHHHH
Confidence            99976543  234445555555544

>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=98.43  E-value=9.5e-07  Score=74.75  Aligned_cols=70  Identities=13%  Similarity=0.271  Sum_probs=53.8

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCC-----CCHHHHHHHH
Q 036637          150 DYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHI-----PDIRKIQGEI  224 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~-----~~~~~l~~~i  224 (250)
                      .+..++||+.+++.|.+ +..   +++.|+|++|+|||||++.+.+....     ..+|+.....     .+...++..+
T Consensus        11 ~~~~~~gR~~el~~L~~-l~~---~~v~i~G~~G~GKT~L~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~l   81 (357)
T 2fna_A           11 NRKDFFDREKEIEKLKG-LRA---PITLVLGLRRTGKSSIIKIGINELNL-----PYIYLDLRKFEERNYISYKDFLLEL   81 (357)
T ss_dssp             SGGGSCCCHHHHHHHHH-TCS---SEEEEEESTTSSHHHHHHHHHHHHTC-----CEEEEEGGGGTTCSCCCHHHHHHHH
T ss_pred             CHHHhcChHHHHHHHHH-hcC---CcEEEECCCCCCHHHHHHHHHHhcCC-----CEEEEEchhhccccCCCHHHHHHHH
Confidence            45678999999999999 655   69999999999999999999988642     2588887642     3556666555


Q ss_pred             HHHh
Q 036637          225 ADKL  228 (250)
Q Consensus       225 ~~~l  228 (250)
                      ...+
T Consensus        82 ~~~l   85 (357)
T 2fna_A           82 QKEI   85 (357)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4443

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=98.16  E-value=7.9e-06  Score=64.00  Aligned_cols=74  Identities=14%  Similarity=0.178  Sum_probs=53.4

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCC-eEEEEEcCCCCCHHHHHHHH
Q 036637          150 DYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFD-QVIFVEVPHIPDIRKIQGEI  224 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd-~~~wv~vs~~~~~~~l~~~i  224 (250)
                      ....++|++..++.+.+++.......+.|+|.+|+|||||++.+++..... .+. ..+.+..+...+...+...+
T Consensus        15 ~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~   89 (226)
T 2chg_A           15 TLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGE-NWRDNFIEMNASDERGIDVVRHKI   89 (226)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHTTCCCCEEEECSTTSSHHHHHHHHHHHHHGG-GGGGGEEEEETTCTTCHHHHHHHH
T ss_pred             CHHHHcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHhcc-ccccceEEeccccccChHHHHHHH
Confidence            445688999999999999887666568999999999999999999875322 222 34455555555555554443

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=98.15  E-value=4.1e-06  Score=64.12  Aligned_cols=48  Identities=21%  Similarity=0.352  Sum_probs=42.2

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          150 DYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ....++|++..++.+.+++.......+.|+|.+|+||||||+.+.+..
T Consensus        20 ~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~~~~~~   67 (195)
T 1jbk_A           20 KLDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRI   67 (195)
T ss_dssp             CSCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cccccccchHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHH
Confidence            345689999999999999987767778899999999999999998875

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=98.05  E-value=5.8e-06  Score=63.11  Aligned_cols=48  Identities=21%  Similarity=0.369  Sum_probs=42.2

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          150 DYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ....++|++..++.+++.+.......+-|+|.+|+||||||+.+.+..
T Consensus        20 ~~~~~~g~~~~~~~l~~~l~~~~~~~vll~G~~G~GKT~la~~~~~~~   67 (187)
T 2p65_A           20 KLDPVIGRDTEIRRAIQILSRRTKNNPILLGDPGVGKTAIVEGLAIKI   67 (187)
T ss_dssp             CSCCCCSCHHHHHHHHHHHTSSSSCEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             ccchhhcchHHHHHHHHHHhCCCCCceEEECCCCCCHHHHHHHHHHHH
Confidence            345689999999999999987767777899999999999999999876

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=97.98  E-value=3.1e-05  Score=64.98  Aligned_cols=78  Identities=9%  Similarity=0.106  Sum_probs=59.0

Q ss_pred             CCcChHHHHHHHHHHhc----CCCceEEEEEccCCCCHHHHHHHHHHHhcCCCC---C-C-eEEEEEcCCCCCHHHHHHH
Q 036637          153 AFESRSSTLNNVLRALQ----DPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQF---F-D-QVIFVEVPHIPDIRKIQGE  223 (250)
Q Consensus       153 ~~~gr~~~~~~l~~~L~----~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~---F-d-~~~wv~vs~~~~~~~l~~~  223 (250)
                      .+.||+.+.+.|..+|.    +.....+-|+|++|+|||++++.|.+.......   . + ..+.+....-.+...++..
T Consensus        21 ~L~~Re~E~~~i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t~~~~~~~  100 (318)
T 3te6_A           21 LLKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDALYEK  100 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC--HHHHHH
T ss_pred             ccCCHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccCCHHHHHHH
Confidence            37789999999887776    567788899999999999999999998853211   1 1 3455665566788899999


Q ss_pred             HHHHhCC
Q 036637          224 IADKLGL  230 (250)
Q Consensus       224 i~~~l~~  230 (250)
                      |++++..
T Consensus       101 I~~~L~g  107 (318)
T 3te6_A          101 IWFAISK  107 (318)
T ss_dssp             HHHHHSC
T ss_pred             HHHHhcC
Confidence            9999954

>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=97.93  E-value=1.5e-05  Score=63.09  Aligned_cols=49  Identities=18%  Similarity=0.236  Sum_probs=41.4

Q ss_pred             CcCCCcChHHHHHHHHHHhcCC-CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          150 DYEAFESRSSTLNNVLRALQDP-DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~-~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....++|++..++.+..++... ..+.+.|+|.+|+|||||++.+++...
T Consensus        21 ~~~~~~g~~~~~~~l~~~l~~~~~~~~~ll~G~~G~GKT~l~~~~~~~~~   70 (250)
T 1njg_A           21 TFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLN   70 (250)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHHTCCCSEEEEECSTTSCHHHHHHHHHHHHH
T ss_pred             cHHHHhCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            4456899999999999988744 346889999999999999999998764

>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=97.75  E-value=3.3e-05  Score=64.40  Aligned_cols=70  Identities=20%  Similarity=0.229  Sum_probs=50.4

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCC-eEEEEEcCCCCCHHHH
Q 036637          150 DYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFD-QVIFVEVPHIPDIRKI  220 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd-~~~wv~vs~~~~~~~l  220 (250)
                      ....++|++..++.+.+++.......+.++|++|+||||+|+.+++...-. .+. ..+++..+...+...+
T Consensus        19 ~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~-~~~~~~~~~~~~~~~~~~~i   89 (323)
T 1sxj_B           19 VLSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLGR-SYADGVLELNASDDRGIDVV   89 (323)
T ss_dssp             SGGGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHHHGG-GHHHHEEEECTTSCCSHHHH
T ss_pred             CHHHHHCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHhcCC-cccCCEEEecCccccChHHH
Confidence            445688999999999999887655458999999999999999999875321 122 3455555554454443

>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=97.58  E-value=8.5e-05  Score=61.96  Aligned_cols=48  Identities=17%  Similarity=0.231  Sum_probs=41.1

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          150 DYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ....++|++..++.+..++.......+-++|++|+||||+|+.+++..
T Consensus        23 ~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~l~~~l   70 (327)
T 1iqp_A           23 RLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALAREL   70 (327)
T ss_dssp             STTTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             CHHHhhCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHh
Confidence            445689999999999998886655558999999999999999999875

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=97.53  E-value=0.00011  Score=60.24  Aligned_cols=49  Identities=27%  Similarity=0.360  Sum_probs=40.2

Q ss_pred             CcCCCcChHHHHHHHHHHhcC-------------CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          150 DYEAFESRSSTLNNVLRALQD-------------PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....++|.+..++.|.+++..             ....-+-|+|.+|+||||||+.+.+...
T Consensus        15 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~~   76 (285)
T 3h4m_A           15 RYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETN   76 (285)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHTT
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHhC
Confidence            456789999999888887642             3456789999999999999999998764

>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=97.46  E-value=0.00038  Score=58.05  Aligned_cols=70  Identities=19%  Similarity=0.305  Sum_probs=49.1

Q ss_pred             CcCCCcChHHHHHHHHHHhc-----CCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHH
Q 036637          150 DYEAFESRSSTLNNVLRALQ-----DPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEI  224 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~-----~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i  224 (250)
                      ....++|++..+..+..++.     ......+-|+|.+|+||||||+.+++....     ..+++..+......++...+
T Consensus        10 ~~~~~ig~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~i~~~~~~-----~~~~~~~~~~~~~~~l~~~l   84 (324)
T 1hqc_A           10 TLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGV-----NLRVTSGPAIEKPGDLAAIL   84 (324)
T ss_dssp             STTTCCSCHHHHHHHHHHHHHHHHHCSCCCCCEEECCTTCCCHHHHHHHHHHHTC-----CEEEECTTTCCSHHHHHHHH
T ss_pred             cHHHhhCHHHHHHHHHHHHHHHHccCCCCCcEEEECCCCCCHHHHHHHHHHHhCC-----CEEEEeccccCChHHHHHHH
Confidence            44578999988888877765     234567889999999999999999987642     23455555444555554433

>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=97.45  E-value=0.00033  Score=55.48  Aligned_cols=60  Identities=10%  Similarity=0.195  Sum_probs=40.9

Q ss_pred             cCCCcCh---HHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcC
Q 036637          151 YEAFESR---SSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVP  212 (250)
Q Consensus       151 ~~~~~gr---~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs  212 (250)
                      ...++|.   ...++.+..++.......+.|+|.+|+||||||+.+.+.....  .....|++.+
T Consensus        27 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~la~~l~~~~~~~--~~~~~~~~~~   89 (242)
T 3bos_A           27 FTSYYPAAGNDELIGALKSAASGDGVQAIYLWGPVKSGRTHLIHAACARANEL--ERRSFYIPLG   89 (242)
T ss_dssp             TTTSCC--CCHHHHHHHHHHHHTCSCSEEEEECSTTSSHHHHHHHHHHHHHHT--TCCEEEEEGG
T ss_pred             hhhccCCCCCHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHHc--CCeEEEEEHH
Confidence            3455552   3556666666655567788999999999999999999876532  2244556554

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=97.38  E-value=0.00022  Score=63.05  Aligned_cols=47  Identities=28%  Similarity=0.393  Sum_probs=40.4

Q ss_pred             cCCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          151 YEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       151 ~~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ...++|++.+++.+++.|......-+-++|.+|+|||+||+.+.+..
T Consensus       179 ld~iiGr~~~i~~l~~~l~r~~~~~~LL~G~pG~GKT~la~~la~~l  225 (468)
T 3pxg_A          179 LDPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQI  225 (468)
T ss_dssp             SCCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHH
T ss_pred             CCCccCcHHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHH
Confidence            45689999999999999876555556799999999999999999875

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.35  E-value=0.00016  Score=61.09  Aligned_cols=48  Identities=15%  Similarity=0.333  Sum_probs=40.3

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          150 DYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ....++|++..++.+..++.......+-++|.+|+||||+|+.+.+..
T Consensus        35 ~~~~i~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~la~~l   82 (353)
T 1sxj_D           35 NLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKEL   82 (353)
T ss_dssp             STTTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CHHHhhCCHHHHHHHHHHHhcCCCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            445688999899999998886654448999999999999999998774

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=97.35  E-value=0.00032  Score=57.85  Aligned_cols=49  Identities=18%  Similarity=0.266  Sum_probs=39.3

Q ss_pred             CcCCCcChHHHHHHHHHHhcC------------CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          150 DYEAFESRSSTLNNVLRALQD------------PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~------------~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....++|.+..++.+.+++..            ...+.+-++|.+|+||||||+.+.+...
T Consensus        19 ~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~~   79 (297)
T 3b9p_A           19 EWTDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATECS   79 (297)
T ss_dssp             CGGGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHTT
T ss_pred             CHHHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHhC
Confidence            445689999988888887631            2356788999999999999999998764

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=97.35  E-value=0.00018  Score=53.00  Aligned_cols=45  Identities=29%  Similarity=0.242  Sum_probs=33.4

Q ss_pred             CCcChHHHHHHHHHHhc--CCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          153 AFESRSSTLNNVLRALQ--DPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       153 ~~~gr~~~~~~l~~~L~--~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .++|.+....++.+.+.  .....-|-|+|.+|+|||++|+.+++..
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~~~~~vll~G~~GtGKt~lA~~i~~~~   48 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSETDIAVWLYGAPGTGRMTGARYLHQFG   48 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTTCCSCEEEESSTTSSHHHHHHHHHHSS
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCCHHHHHHHHHHhC
Confidence            46788777777777664  2333446799999999999999998764

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A

Probab=97.34  E-value=0.00026  Score=58.73  Aligned_cols=48  Identities=15%  Similarity=0.218  Sum_probs=40.7

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          150 DYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ....++|++..++.+.+++.......+-++|.+|+||||+|+.+.+..
T Consensus        15 ~~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l   62 (319)
T 2chq_A           15 TLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDL   62 (319)
T ss_dssp             SGGGSCSCHHHHHHHHTTTTTTCCCCEEEESSSSSSHHHHHHHHHHHH
T ss_pred             CHHHHhCCHHHHHHHHHHHhCCCCCeEEEECcCCcCHHHHHHHHHHHh
Confidence            345688999999999998886655558999999999999999998875

>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*

Probab=97.30  E-value=0.00039  Score=59.10  Aligned_cols=49  Identities=18%  Similarity=0.260  Sum_probs=40.8

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCC-ceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          150 DYEAFESRSSTLNNVLRALQDPD-VNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~-~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....++|++..++.+.+++.... .+.+-|+|..|+||||+|+.+.+...
T Consensus        14 ~~~~~vg~~~~~~~L~~~l~~~~~~~~~ll~G~~G~GKT~la~~la~~l~   63 (373)
T 1jr3_A           14 TFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLN   63 (373)
T ss_dssp             STTTSCSCHHHHHHHHHHHHHTCCCSEEEEESCTTSSHHHHHHHHHHHHS
T ss_pred             chhhccCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            34568999999999999887443 46788999999999999999988764

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=97.30  E-value=0.00039  Score=57.62  Aligned_cols=47  Identities=19%  Similarity=0.200  Sum_probs=35.6

Q ss_pred             CCcChHHHHHHHHHHhc---------------CCCceEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          153 AFESRSSTLNNVLRALQ---------------DPDVNMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       153 ~~~gr~~~~~~l~~~L~---------------~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      .++|.+..++.+.+++.               ......+-++|.+|+|||+||+.+.+....
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~   93 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHR   93 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHH
T ss_pred             HccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHh
Confidence            47888877777765543               234557899999999999999988776643

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=97.29  E-value=0.00057  Score=60.06  Aligned_cols=49  Identities=24%  Similarity=0.360  Sum_probs=41.1

Q ss_pred             CcCCCcChHHHH---HHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          150 DYEAFESRSSTL---NNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       150 ~~~~~~gr~~~~---~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....++|.+..+   ..|...+.......+-++|.+|+||||||+.+.+...
T Consensus        24 ~l~~ivGq~~~~~~~~~L~~~i~~~~~~~vLL~GppGtGKTtlAr~ia~~~~   75 (447)
T 3pvs_A           24 NLAQYIGQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKTTLAEVIARYAN   75 (447)
T ss_dssp             STTTCCSCHHHHSTTSHHHHHHHHTCCCEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CHHHhCCcHHHHhchHHHHHHHHcCCCcEEEEECCCCCcHHHHHHHHHHHhC
Confidence            456788988877   6777777777778889999999999999999998764

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=97.26  E-value=0.00037  Score=62.43  Aligned_cols=48  Identities=25%  Similarity=0.302  Sum_probs=41.0

Q ss_pred             CcCCCcChHHHHHHHHHHhcC-----------------CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          150 DYEAFESRSSTLNNVLRALQD-----------------PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~-----------------~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ....++|++..++.+.+++..                 ...+.+-++|++|+||||+|+.+.+..
T Consensus        37 ~~~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l  101 (516)
T 1sxj_A           37 NLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQEL  101 (516)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CHHHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            456789999999999999874                 134688999999999999999999876

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=97.26  E-value=0.00036  Score=58.69  Aligned_cols=49  Identities=20%  Similarity=0.381  Sum_probs=40.0

Q ss_pred             CcCCCcChHHHHHHHHHHhc-----CCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          150 DYEAFESRSSTLNNVLRALQ-----DPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~-----~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....++|++..++.+..++.     ......+-|+|.+|+|||+||+.+.+...
T Consensus        27 ~~~~iiG~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~ia~~~~   80 (338)
T 3pfi_A           27 NFDGYIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISYEMS   80 (338)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHHHHHTTSCCCCEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CHHHhCChHHHHHHHHHHHHHHHhcCCCCCeEEEECcCCCCHHHHHHHHHHHhC
Confidence            45678999998888888776     24456789999999999999999987753

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=97.25  E-value=0.00042  Score=53.99  Aligned_cols=41  Identities=22%  Similarity=0.364  Sum_probs=32.7

Q ss_pred             hHHHHHHHHHHhcC---CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          157 RSSTLNNVLRALQD---PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       157 r~~~~~~l~~~L~~---~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ++..++.|.+.+..   ....+|+|+|..|+||||+++.+....
T Consensus         3 ~~~~~~~l~~~~~~~~~~~~~~i~i~G~~GsGKstl~~~l~~~~   46 (201)
T 1rz3_A            3 LRDRIDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQTL   46 (201)
T ss_dssp             HHHHHHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            45566777777763   356799999999999999999998755

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=97.19  E-value=0.00057  Score=53.00  Aligned_cols=51  Identities=22%  Similarity=0.262  Sum_probs=35.2

Q ss_pred             HHHHHHHHhcCC----CceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcC
Q 036637          160 TLNNVLRALQDP----DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVP  212 (250)
Q Consensus       160 ~~~~l~~~L~~~----~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs  212 (250)
                      .++.+.+++...    ....+.|+|.+|+||||||+.+++.....  ....+|++.+
T Consensus        37 ~~~~~~~~~~~~~~~~~~~~~~l~G~~GtGKT~la~~i~~~~~~~--~~~~~~~~~~   91 (202)
T 2w58_A           37 AIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIANELAKR--NVSSLIVYVP   91 (202)
T ss_dssp             HHHHHHHHHHHCCSSCCCCEEEEECSTTSSHHHHHHHHHHHHHTT--TCCEEEEEHH
T ss_pred             HHHHHHHHHHHhhhccCCCeEEEECCCCCCHHHHHHHHHHHHHHc--CCeEEEEEhH
Confidence            445555555432    22678999999999999999999887532  3345666543

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=97.19  E-value=0.00055  Score=55.19  Aligned_cols=48  Identities=23%  Similarity=0.186  Sum_probs=35.6

Q ss_pred             cCCCcChHHHHHHHHHHhc---C---------CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          151 YEAFESRSSTLNNVLRALQ---D---------PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       151 ~~~~~gr~~~~~~l~~~L~---~---------~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ...++|.+..++.+.+++.   .         ...+-+-++|.+|+|||++|+.+.+...
T Consensus         5 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~~   64 (262)
T 2qz4_A            5 FKDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQ   64 (262)
T ss_dssp             TTSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHhC
Confidence            4567888877766655432   2         2345678999999999999999998764

>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=97.19  E-value=0.00031  Score=59.39  Aligned_cols=47  Identities=21%  Similarity=0.230  Sum_probs=38.4

Q ss_pred             CcCCCcChHHHHHHHHHHh-cCCCceEEEEEccCCCCHHHHHHHHHHH
Q 036637          150 DYEAFESRSSTLNNVLRAL-QDPDVNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L-~~~~~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      ....++|.+...+.+.+++ .......+.++|..|+||||+++.+.+.
T Consensus        12 ~~~~~vg~~~~~~~l~~~~~~~~~~~~~ll~Gp~G~GKTtl~~~la~~   59 (354)
T 1sxj_E           12 SLNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLES   59 (354)
T ss_dssp             SGGGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHH
T ss_pred             CHHHhcCCHHHHHHHHHHHhhCCCCCeEEEECCCCCCHHHHHHHHHHH
Confidence            3456889999999999888 5444333899999999999999999885

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=97.17  E-value=0.00049  Score=57.14  Aligned_cols=48  Identities=27%  Similarity=0.290  Sum_probs=37.7

Q ss_pred             cCCCcChHHHHHHHHHHhcC-------------CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          151 YEAFESRSSTLNNVLRALQD-------------PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       151 ~~~~~gr~~~~~~l~~~L~~-------------~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ...+.|.+..++.|.+++..             ...+.+.++|.+|+||||||+.+.+...
T Consensus        14 ~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~~   74 (301)
T 3cf0_A           14 WEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQ   74 (301)
T ss_dssp             GGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHTT
T ss_pred             HHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHhC
Confidence            44688888877777766541             3456789999999999999999998764

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens}

Probab=97.16  E-value=0.00071  Score=57.62  Aligned_cols=49  Identities=20%  Similarity=0.266  Sum_probs=39.1

Q ss_pred             CcCCCcChHHHHHHHHHHhc------------CCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          150 DYEAFESRSSTLNNVLRALQ------------DPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~------------~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....++|.+..++.|.+.+.            ....+-+-++|.+|+|||+||+.+.+...
T Consensus        82 ~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~  142 (357)
T 3d8b_A           82 NWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQSG  142 (357)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHHHTT
T ss_pred             CHHHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHHHcC
Confidence            34568899988888887763            23456788999999999999999998753

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=97.11  E-value=0.00033  Score=53.40  Aligned_cols=42  Identities=19%  Similarity=0.211  Sum_probs=30.8

Q ss_pred             hHHHHHHHHHHhcC---CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          157 RSSTLNNVLRALQD---PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       157 r~~~~~~l~~~L~~---~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....++.+.+++.+   .....+.++|..|+|||||++.+++...
T Consensus        19 ~~~~~~~~~~~~~~~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~   63 (180)
T 3ec2_A           19 QNRALLTIRVFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAIY   63 (180)
T ss_dssp             HHHHHHHHHHHHHSCCGGGCCEEEECCSSSSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccccCCCEEEEECCCCCCHHHHHHHHHHHHH
Confidence            34445555555442   3457889999999999999999998764

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=97.11  E-value=0.00067  Score=53.07  Aligned_cols=39  Identities=31%  Similarity=0.493  Sum_probs=30.8

Q ss_pred             HHHHHHHHhcC--CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          160 TLNNVLRALQD--PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       160 ~~~~l~~~L~~--~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      -.++|.+.+..  ....+++|+|..|+|||||++.+..-..
T Consensus         7 ~~~~~~~~~~~~~~~g~~v~I~G~sGsGKSTl~~~l~~~~~   47 (208)
T 3c8u_A            7 LCQGVLERLDPRQPGRQLVALSGAPGSGKSTLSNPLAAALS   47 (208)
T ss_dssp             HHHHHHHHSCTTCCSCEEEEEECCTTSCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            45566666653  4667999999999999999999987654

>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=97.07  E-value=0.00052  Score=65.21  Aligned_cols=48  Identities=21%  Similarity=0.340  Sum_probs=41.5

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          150 DYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ....++|++.++..+++.|......-+.++|.+|+||||||+.+.+..
T Consensus       168 ~ld~viGr~~~i~~l~~~l~~~~~~~vlL~G~pG~GKT~la~~la~~l  215 (854)
T 1qvr_A          168 KLDPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRI  215 (854)
T ss_dssp             CSCCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHH
T ss_pred             CCcccCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHH
Confidence            345689999999999999886655667899999999999999999876

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C

Probab=97.07  E-value=0.0011  Score=55.61  Aligned_cols=49  Identities=24%  Similarity=0.314  Sum_probs=39.3

Q ss_pred             CcCCCcChHHHHHHHHHHhc------------CCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          150 DYEAFESRSSTLNNVLRALQ------------DPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~------------~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....++|.+..++.|.+++.            ....+-+-++|.+|+|||+||+.+.+...
T Consensus        16 ~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~   76 (322)
T 3eie_A           16 KWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEAN   76 (322)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHHHT
T ss_pred             CHHHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHHC
Confidence            45678999999998888772            12345688999999999999999998764

>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=97.04  E-value=0.00075  Score=56.92  Aligned_cols=48  Identities=17%  Similarity=0.291  Sum_probs=39.0

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          150 DYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ....++|.+..++.|..++....+..+.++|..|+||||+|+.+.+..
T Consensus        23 ~~~~~~g~~~~~~~L~~~i~~g~~~~~ll~Gp~G~GKTtla~~la~~l   70 (340)
T 1sxj_C           23 TLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREI   70 (340)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHH
T ss_pred             cHHHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            345578888888888888776655448999999999999999998774

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.03  E-value=0.00078  Score=63.11  Aligned_cols=48  Identities=27%  Similarity=0.389  Sum_probs=41.1

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          150 DYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ....++|++..++.+++.|......-+-++|.+|+||||+|+.+.+..
T Consensus       178 ~ld~iiG~~~~i~~l~~~l~~~~~~~vLL~G~pGtGKT~la~~la~~l  225 (758)
T 3pxi_A          178 SLDPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQI  225 (758)
T ss_dssp             CSCCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHH
T ss_pred             CCCCccCchHHHHHHHHHHhCCCCCCeEEECCCCCCHHHHHHHHHHHH
Confidence            345789999999999999876555557899999999999999999875

>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=97.03  E-value=0.00034  Score=52.53  Aligned_cols=23  Identities=35%  Similarity=0.457  Sum_probs=20.0

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .+|.|+|++|+||||+++.+ ...
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L-~~~   24 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL-KER   24 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH-HHT
T ss_pred             cEEEEECCCCCCHHHHHHHH-HHC
Confidence            47899999999999999999 443

>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=97.02  E-value=0.00098  Score=62.39  Aligned_cols=79  Identities=20%  Similarity=0.285  Sum_probs=54.7

Q ss_pred             cCCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhcC---CC-CCCeEEEE-EcC-------CCCCHH
Q 036637          151 YEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGR---DQ-FFDQVIFV-EVP-------HIPDIR  218 (250)
Q Consensus       151 ~~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v---~~-~Fd~~~wv-~vs-------~~~~~~  218 (250)
                      ...++|++.++..+++.|......-+-++|.+|+||||+|+.+.+...-   .. .+++.+|. ..+       ..-..+
T Consensus       185 ~d~~iGr~~~i~~l~~~l~~~~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~~~~l~~~~~~~g~~e  264 (758)
T 1r6b_X          185 IDPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDFE  264 (758)
T ss_dssp             SCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCCCSSCHH
T ss_pred             CCCccCCHHHHHHHHHHHhccCCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEcHHHHhccccccchHH
Confidence            4568999999999999998666666789999999999999999876521   11 12444432 111       112456


Q ss_pred             HHHHHHHHHhC
Q 036637          219 KIQGEIADKLG  229 (250)
Q Consensus       219 ~l~~~i~~~l~  229 (250)
                      +.++.++..+.
T Consensus       265 ~~l~~~~~~~~  275 (758)
T 1r6b_X          265 KRFKALLKQLE  275 (758)
T ss_dssp             HHHHHHHHHHS
T ss_pred             HHHHHHHHHHH
Confidence            66677776664

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=97.00  E-value=0.0011  Score=55.52  Aligned_cols=48  Identities=21%  Similarity=0.259  Sum_probs=37.6

Q ss_pred             CcCCCcChHHHHHHHHHHhc------------CCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          150 DYEAFESRSSTLNNVLRALQ------------DPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~------------~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ....+.|.+..++.|.+.+.            ....+-+-++|++|+|||+||+.+.+..
T Consensus        10 ~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~   69 (322)
T 1xwi_A           10 KWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEA   69 (322)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHT
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHc
Confidence            34568888888888777653            1234678899999999999999999876

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=96.99  E-value=0.00094  Score=56.28  Aligned_cols=49  Identities=27%  Similarity=0.356  Sum_probs=36.4

Q ss_pred             CcCCCcChHHHHHHHHHHhc-----CCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          150 DYEAFESRSSTLNNVLRALQ-----DPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~-----~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....++|.+..++.+-..+.     ...+..+.++|.+|+|||||++.+.+...
T Consensus        23 ~l~~~~g~~~~~~~l~~~i~~~~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l~   76 (334)
T 1in4_A           23 SLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQ   76 (334)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHT
T ss_pred             cHHHccCcHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHHHhC
Confidence            34457787766666554443     23457789999999999999999998763

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=96.95  E-value=0.00099  Score=53.75  Aligned_cols=49  Identities=24%  Similarity=0.231  Sum_probs=35.1

Q ss_pred             CcCCCcChHHHHHHHHHH---hcC---------CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          150 DYEAFESRSSTLNNVLRA---LQD---------PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~---L~~---------~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....++|.+..++.+.+.   +..         ...+-+.++|.+|+||||||+.+.+...
T Consensus        10 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~   70 (257)
T 1lv7_A           10 TFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAK   70 (257)
T ss_dssp             CGGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             CHHHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHcC
Confidence            445688887766655443   322         1234578999999999999999998764

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=96.95  E-value=0.00077  Score=55.64  Aligned_cols=47  Identities=21%  Similarity=0.275  Sum_probs=37.5

Q ss_pred             CCCcChHHHHHHHHHHhcC--------------CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          152 EAFESRSSTLNNVLRALQD--------------PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       152 ~~~~gr~~~~~~l~~~L~~--------------~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ..++|++..++.+...+..              ....-+-++|.+|+|||++|+.+.+...
T Consensus        15 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l~   75 (310)
T 1ofh_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLAN   75 (310)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHhC
Confidence            3578999888888776643              2345678999999999999999998773

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=96.95  E-value=0.00092  Score=52.63  Aligned_cols=38  Identities=21%  Similarity=0.232  Sum_probs=29.6

Q ss_pred             HHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          161 LNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       161 ~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .+.+.+.+......+|.|+|.+|+|||||+..+.....
T Consensus        26 a~~~r~~~~~~~~~~i~ivG~~gvGKTtl~~~l~~~~~   63 (226)
T 2hf9_A           26 ADKNRKLLNKHGVVAFDFMGAIGSGKTLLIEKLIDNLK   63 (226)
T ss_dssp             HHHHHHHHHHTTCEEEEEEESTTSSHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhCCCeEEEEEcCCCCCHHHHHHHHHHHhc
Confidence            44444444455688999999999999999999988753

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=96.94  E-value=0.00055  Score=51.38  Aligned_cols=24  Identities=17%  Similarity=0.206  Sum_probs=21.5

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .+|.|.|+.|+||||+++.+....
T Consensus         2 ~~i~l~G~~GsGKsT~~~~L~~~l   25 (173)
T 3kb2_A            2 TLIILEGPDCCFKSTVAAKLSKEL   25 (173)
T ss_dssp             CEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            478999999999999999998764

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.92  E-value=0.00061  Score=51.57  Aligned_cols=22  Identities=32%  Similarity=0.454  Sum_probs=20.6

Q ss_pred             eEEEEEccCCCCHHHHHHHHHH
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~  195 (250)
                      .+|.|.|++|+||||+++.+..
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

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=96.92  E-value=0.00062  Score=51.57  Aligned_cols=25  Identities=16%  Similarity=0.258  Sum_probs=22.1

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .+|.|+|++|+||||+++.+.+...
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            5789999999999999999987653

>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=96.92  E-value=0.00061  Score=52.21  Aligned_cols=25  Identities=32%  Similarity=0.400  Sum_probs=22.2

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHH
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      ...+++|+|+.|+|||||++.+...
T Consensus         8 ~g~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A            8 GGNILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhc
Confidence            4568999999999999999999865

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=96.91  E-value=0.0012  Score=55.94  Aligned_cols=48  Identities=25%  Similarity=0.320  Sum_probs=37.4

Q ss_pred             cCCCcChHHHHHH---HHHHhcCCC--ceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          151 YEAFESRSSTLNN---VLRALQDPD--VNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       151 ~~~~~gr~~~~~~---l~~~L~~~~--~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ...++|++..++.   +.+.+....  .+.+-++|.+|+|||+||+.+.+...
T Consensus        43 ~~~ivG~~~~~~~l~~l~~~~~~~~~~~~~vLl~GppGtGKT~la~~la~~l~   95 (368)
T 3uk6_A           43 SQGMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQALG   95 (368)
T ss_dssp             ETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             hhhccChHHHHHHHHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHHHHHHHhc
Confidence            5578999877655   455554433  35889999999999999999999876

>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=96.91  E-value=0.0014  Score=54.71  Aligned_cols=49  Identities=14%  Similarity=0.070  Sum_probs=40.7

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCC-ceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          150 DYEAFESRSSTLNNVLRALQDPD-VNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~-~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....++|.+..++.+.+++.... .+++-+.|.+|+||||+|+.+.+...
T Consensus        24 ~~~~ivg~~~~~~~l~~~l~~~~~~~~~L~~G~~G~GKT~la~~la~~l~   73 (324)
T 3u61_B           24 TIDECILPAFDKETFKSITSKGKIPHIILHSPSPGTGKTTVAKALCHDVN   73 (324)
T ss_dssp             STTTSCCCHHHHHHHHHHHHTTCCCSEEEECSSTTSSHHHHHHHHHHHTT
T ss_pred             CHHHHhCcHHHHHHHHHHHHcCCCCeEEEeeCcCCCCHHHHHHHHHHHhC
Confidence            45678899999999999888554 46777888899999999999988763

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=96.89  E-value=0.0022  Score=50.11  Aligned_cols=53  Identities=25%  Similarity=0.314  Sum_probs=38.2

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhCC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGL  230 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~~l~~  230 (250)
                      .-.++.|+|.+|+|||||+..+.. ..    =..++|++....++...+.+ ++..++.
T Consensus        19 ~G~~~~i~G~~GsGKTtl~~~l~~-~~----~~~v~~i~~~~~~~~~~~~~-~~~~~~~   71 (220)
T 2cvh_A           19 PGVLTQVYGPYASGKTTLALQTGL-LS----GKKVAYVDTEGGFSPERLVQ-MAETRGL   71 (220)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHH-HH----CSEEEEEESSCCCCHHHHHH-HHHTTTC
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH-Hc----CCcEEEEECCCCCCHHHHHH-HHHhcCC
Confidence            346899999999999999999988 21    24678888877666665543 4444443

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=96.88  E-value=0.00064  Score=51.92  Aligned_cols=25  Identities=12%  Similarity=0.367  Sum_probs=22.3

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..+++|+|+.|+|||||++.+....
T Consensus         5 g~~i~i~GpsGsGKSTL~~~L~~~~   29 (180)
T 1kgd_A            5 RKTLVLLGAHGVGRRHIKNTLITKH   29 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            3589999999999999999998764

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=96.87  E-value=0.0019  Score=55.61  Aligned_cols=49  Identities=20%  Similarity=0.283  Sum_probs=39.5

Q ss_pred             CcCCCcChHHHHHHHHHHhc------------CCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          150 DYEAFESRSSTLNNVLRALQ------------DPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~------------~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....++|.+..++.|.+++.            ....+-+-++|.+|+|||+||+.+.+...
T Consensus       113 ~~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~~~  173 (389)
T 3vfd_A          113 KFDDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAESN  173 (389)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHHTT
T ss_pred             ChHHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHhhc
Confidence            45678999999999888773            12346788999999999999999987753

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=96.86  E-value=0.00057  Score=51.53  Aligned_cols=25  Identities=28%  Similarity=0.442  Sum_probs=22.1

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .+|+|+|+.|+|||||++.+.....
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            4789999999999999999987653

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.86  E-value=0.0007  Score=52.51  Aligned_cols=26  Identities=35%  Similarity=0.399  Sum_probs=22.6

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ...+|.|+|+.|+||||+++.+....
T Consensus        24 ~~~~i~l~G~~GsGKsTl~~~La~~l   49 (199)
T 3vaa_A           24 AMVRIFLTGYMGAGKTTLGKAFARKL   49 (199)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            34689999999999999999998665

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=96.85  E-value=0.0045  Score=49.04  Aligned_cols=59  Identities=14%  Similarity=0.241  Sum_probs=41.4

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCC----CCCeEEEEEcCCCCCHHHHHHHHHHHhCCC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQ----FFDQVIFVEVPHIPDIRKIQGEIADKLGLI  231 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~----~Fd~~~wv~vs~~~~~~~l~~~i~~~l~~~  231 (250)
                      .-.++.|+|.+|+|||||+..+........    .-..++|+.....++...+. .++.+++.+
T Consensus        23 ~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~~~~~~~~~-~~~~~~g~~   85 (243)
T 1n0w_A           23 TGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLL-AVAERYGLS   85 (243)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHH-HHHHHTTCC
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCCCcCHHHHH-HHHHHcCCC
Confidence            346899999999999999999998643221    12478888887766665543 345556544

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=96.83  E-value=0.00084  Score=52.13  Aligned_cols=30  Identities=27%  Similarity=0.321  Sum_probs=25.7

Q ss_pred             cCCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          169 QDPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       169 ~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ......+|.|+|+.|+|||||++.+.....
T Consensus        21 ~~~~g~~i~l~G~sGsGKSTl~~~La~~l~   50 (200)
T 3uie_A           21 LDQKGCVIWVTGLSGSGKSTLACALNQMLY   50 (200)
T ss_dssp             HTSCCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             cCCCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            345678999999999999999999987764

>2bjv_A PSP operon transcriptional activator; AAA, transcription activation, gene regulation, sigma54 activator, enhancer binding protein, PSPF; 1.7A {Escherichia coli} PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*

Probab=96.81  E-value=0.00094  Score=54.15  Aligned_cols=47  Identities=21%  Similarity=0.261  Sum_probs=32.6

Q ss_pred             CCCcChHHHHHHHHHHhc--CCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          152 EAFESRSSTLNNVLRALQ--DPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       152 ~~~~gr~~~~~~l~~~L~--~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ..++|.+.....+++.+.  .....-+-|+|..|+|||+||+.+++...
T Consensus         6 ~~~ig~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKt~la~~i~~~~~   54 (265)
T 2bjv_A            6 DNLLGEANSFLEVLEQVSHLAPLDKPVLIIGERGTGKELIASRLHYLSS   54 (265)
T ss_dssp             ----CCCHHHHHHHHHHHHHTTSCSCEEEECCTTSCHHHHHHHHHHTST
T ss_pred             ccceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhcC
Confidence            356788777777766554  23335567999999999999999997653

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=96.81  E-value=0.0016  Score=53.29  Aligned_cols=47  Identities=28%  Similarity=0.313  Sum_probs=33.3

Q ss_pred             cCCCcChHHHHHHHHHHhc----C----------CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          151 YEAFESRSSTLNNVLRALQ----D----------PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       151 ~~~~~gr~~~~~~l~~~L~----~----------~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ...+.|.+..++.|.+.+.    .          -..+ +.++|.+|+|||||++.+.+...
T Consensus         9 ~~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~G-vlL~Gp~GtGKTtLakala~~~~   69 (274)
T 2x8a_A            9 WADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAG-VLLAGPPGCGKTLLAKAVANESG   69 (274)
T ss_dssp             ---CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSE-EEEESSTTSCHHHHHHHHHHHTT
T ss_pred             HHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCe-EEEECCCCCcHHHHHHHHHHHcC
Confidence            3456777777777766543    1          1233 89999999999999999998764

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.80  E-value=0.0009  Score=51.94  Aligned_cols=28  Identities=36%  Similarity=0.425  Sum_probs=23.5

Q ss_pred             CCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          170 DPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       170 ~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .....+|+|+|+.|+|||||++.+....
T Consensus        26 ~~~g~~i~l~G~~GsGKSTl~~~L~~~~   53 (200)
T 4eun_A           26 GEPTRHVVVMGVSGSGKTTIAHGVADET   53 (200)
T ss_dssp             --CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHhh
Confidence            3456799999999999999999998765

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=96.78  E-value=0.00076  Score=52.35  Aligned_cols=25  Identities=20%  Similarity=0.420  Sum_probs=22.7

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..+|.|+|+.|+||||+++.+....
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~l   42 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEAC   42 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            5689999999999999999998775

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A

Probab=96.77  E-value=0.0024  Score=56.03  Aligned_cols=48  Identities=21%  Similarity=0.259  Sum_probs=38.7

Q ss_pred             CcCCCcChHHHHHHHHHHhc------------CCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          150 DYEAFESRSSTLNNVLRALQ------------DPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~------------~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ....++|.+..++.|.+.+.            ....+-+-++|++|+|||+||+.+.+..
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            34568899988888887763            1234678899999999999999999876

>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=96.77  E-value=0.0025  Score=51.20  Aligned_cols=23  Identities=43%  Similarity=0.491  Sum_probs=21.3

Q ss_pred             EEEEccCCCCHHHHHHHHHHHhc
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      +.|+|..|+|||||++.+++...
T Consensus        52 ~ll~G~~G~GKTtl~~~i~~~~~   74 (254)
T 1ixz_A           52 VLLVGPPGVGKTHLARAVAGEAR   74 (254)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            89999999999999999998764

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=96.77  E-value=0.00096  Score=52.05  Aligned_cols=28  Identities=43%  Similarity=0.597  Sum_probs=23.7

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....+|+|+|..|+|||||++.+..-..
T Consensus         4 ~~~~~i~i~G~~GsGKSTl~~~l~~~~~   31 (211)
T 3asz_A            4 PKPFVIGIAGGTASGKTTLAQALARTLG   31 (211)
T ss_dssp             -CCEEEEEEESTTSSHHHHHHHHHHHHG
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3457899999999999999999988643

>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=96.77  E-value=0.0017  Score=55.22  Aligned_cols=49  Identities=24%  Similarity=0.314  Sum_probs=37.8

Q ss_pred             CcCCCcChHHHHHHHHHHhc------------CCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          150 DYEAFESRSSTLNNVLRALQ------------DPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~------------~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....++|.+..++.|.+.+.            ....+-|-++|.+|+|||+||+.+.+...
T Consensus        49 ~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~  109 (355)
T 2qp9_X           49 KWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEAN  109 (355)
T ss_dssp             CGGGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHHT
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhC
Confidence            34568898888888887763            12234578999999999999999998874

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=96.76  E-value=0.00087  Score=51.91  Aligned_cols=25  Identities=28%  Similarity=0.413  Sum_probs=22.2

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..+++|+|+.|+|||||++.+....
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            3589999999999999999998763

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.75  E-value=0.001  Score=50.85  Aligned_cols=25  Identities=24%  Similarity=0.396  Sum_probs=22.5

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .+|.|.|+.|+||||+++.+.+...
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~~l~   26 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKEILD   26 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4789999999999999999998765

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=96.75  E-value=0.0012  Score=51.70  Aligned_cols=40  Identities=25%  Similarity=0.268  Sum_probs=30.6

Q ss_pred             HHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          158 SSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       158 ~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ....+.+...+......+|.|+|.+|+|||||+..+....
T Consensus        15 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKTTl~~~l~~~~   54 (221)
T 2wsm_A           15 KRLAEKNREALRESGTVAVNIMGAIGSGKTLLIERTIERI   54 (221)
T ss_dssp             HHHHHHHHHHHHHHTCEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhcccCceEEEEEcCCCCCHHHHHHHHHHHh
Confidence            3445555554445578899999999999999999988764

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=96.74  E-value=0.0012  Score=50.55  Aligned_cols=26  Identities=27%  Similarity=0.374  Sum_probs=22.9

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ..+|.|.|++|+||||+++.+.....
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            46899999999999999999987653

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.74  E-value=0.001  Score=50.72  Aligned_cols=26  Identities=23%  Similarity=0.362  Sum_probs=22.5

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ...|.++|+.|+||||+++.+.....
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            45789999999999999999987653

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=96.74  E-value=0.00048  Score=50.59  Aligned_cols=45  Identities=16%  Similarity=0.077  Sum_probs=30.8

Q ss_pred             CCcChHHHHHHHHHHhc--CCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          153 AFESRSSTLNNVLRALQ--DPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       153 ~~~gr~~~~~~l~~~L~--~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .++|.+...+++.+.+.  .....-|-|+|.+|+|||++|+.+++..
T Consensus         5 ~~iG~s~~~~~l~~~~~~~~~~~~~vll~G~~GtGKt~lA~~i~~~~   51 (143)
T 3co5_A            5 DKLGNSAAIQEMNREVEAAAKRTSPVFLTGEAGSPFETVARYFHKNG   51 (143)
T ss_dssp             ---CCCHHHHHHHHHHHHHHTCSSCEEEEEETTCCHHHHHGGGCCTT
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhC
Confidence            46777777777766654  1223346799999999999999987643

>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=96.73  E-value=0.0011  Score=50.09  Aligned_cols=25  Identities=36%  Similarity=0.553  Sum_probs=22.3

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..+|+|+|+.|+||||+++.+....
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            4689999999999999999998764

>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=96.73  E-value=0.0019  Score=52.52  Aligned_cols=46  Identities=22%  Similarity=0.190  Sum_probs=33.2

Q ss_pred             CCcChHHHHHHHHH-------Hhc---CCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          153 AFESRSSTLNNVLR-------ALQ---DPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       153 ~~~gr~~~~~~l~~-------~L~---~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .++|.....+.++.       .+.   .....-+-++|.+|+|||+||+.+.+...
T Consensus        34 ~~i~~~~~~~~i~~~~~~l~~~l~~~~~~~~~~vLl~G~~GtGKT~la~~ia~~~~   89 (272)
T 1d2n_A           34 GIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESN   89 (272)
T ss_dssp             CCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             CCCCccHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECCCCCcHHHHHHHHHHHhC
Confidence            45666555444444       332   45567888999999999999999998753

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=96.70  E-value=0.0023  Score=54.26  Aligned_cols=42  Identities=29%  Similarity=0.342  Sum_probs=30.3

Q ss_pred             ChHHHHHHHHHHhc----CCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          156 SRSSTLNNVLRALQ----DPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       156 gr~~~~~~l~~~L~----~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      +.+.-.+.+++.+.    ......|.++|+.|+||||+++.+....
T Consensus         3 ~~~~L~~~il~~l~~~i~~g~~~~i~l~G~~G~GKTTl~~~la~~l   48 (359)
T 2ga8_A            3 DTHKLADDVLQLLDNRIEDNYRVCVILVGSPGSGKSTIAEELCQII   48 (359)
T ss_dssp             CHHHHHHHHHHHHHHTTTTCSCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHhccCCeeEEEEECCCCCcHHHHHHHHHHHh
Confidence            44445555555543    3456678999999999999999887654

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=96.70  E-value=0.0012  Score=51.17  Aligned_cols=25  Identities=24%  Similarity=0.304  Sum_probs=22.1

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..+|+|+|+.|+||||+++.+....
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            4689999999999999999998654

>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=96.69  E-value=0.0022  Score=52.98  Aligned_cols=28  Identities=14%  Similarity=0.053  Sum_probs=24.2

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....+|+|+|..|+|||||++.+.....
T Consensus        29 ~~~~ii~I~G~sGsGKSTla~~L~~~l~   56 (290)
T 1odf_A           29 KCPLFIFFSGPQGSGKSFTSIQIYNHLM   56 (290)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhh
Confidence            4577999999999999999999876654

>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=96.69  E-value=0.0011  Score=50.72  Aligned_cols=22  Identities=36%  Similarity=0.523  Sum_probs=20.3

Q ss_pred             eEEEEEccCCCCHHHHHHHHHH
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~  195 (250)
                      .+++|+|+.|+|||||++.+..
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            4789999999999999999976

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=96.69  E-value=0.0011  Score=50.52  Aligned_cols=25  Identities=24%  Similarity=0.357  Sum_probs=22.4

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .+|.|.|++|+||||+++.+.+...
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~~l~   28 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMDNLR   28 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH
Confidence            5799999999999999999988654

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=96.68  E-value=0.00089  Score=54.29  Aligned_cols=48  Identities=25%  Similarity=0.238  Sum_probs=32.3

Q ss_pred             cCCCcChHHHHHHHHHHhc---C---------CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          151 YEAFESRSSTLNNVLRALQ---D---------PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       151 ~~~~~gr~~~~~~l~~~L~---~---------~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ...++|.+..++.+.+.+.   .         ...+-+-++|.+|+|||+||+.+.+...
T Consensus        10 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~   69 (268)
T 2r62_A           10 FKDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAH   69 (268)
T ss_dssp             STTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHHT
T ss_pred             HHHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHhC
Confidence            3457776655544444332   1         1233467999999999999999998764

>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=96.68  E-value=0.0013  Score=50.76  Aligned_cols=26  Identities=31%  Similarity=0.331  Sum_probs=22.9

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHH
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      ....+|+|+|+.|+||||+++.+...
T Consensus         6 ~~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            6 KHPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CCCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHHC
Confidence            45779999999999999999998764

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=96.67  E-value=0.0012  Score=51.03  Aligned_cols=24  Identities=33%  Similarity=0.735  Sum_probs=21.7

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhc
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .|+|.|+.|+||||+++.+.....
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l~   25 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKLG   25 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHC
T ss_pred             EEEEECCCccCHHHHHHHHHHhcC
Confidence            689999999999999999998664

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=96.67  E-value=0.0011  Score=50.32  Aligned_cols=26  Identities=42%  Similarity=0.593  Sum_probs=22.5

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ...|.|+|++|+||||+++.+.....
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            45788999999999999999987653

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.66  E-value=0.0011  Score=51.60  Aligned_cols=26  Identities=35%  Similarity=0.549  Sum_probs=22.8

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ...+|.|+|+.|+|||||++.+....
T Consensus        11 ~~~~i~l~G~sGsGKsTl~~~L~~~~   36 (204)
T 2qor_A           11 RIPPLVVCGPSGVGKGTLIKKVLSEF   36 (204)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHHHC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            35688999999999999999998765

>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=96.66  E-value=0.003  Score=52.77  Aligned_cols=39  Identities=31%  Similarity=0.303  Sum_probs=29.2

Q ss_pred             HHHHHHHHhcCC--CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          160 TLNNVLRALQDP--DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       160 ~~~~l~~~L~~~--~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....+..++..+  ....+.|+|.+|+||||||+.+.+...
T Consensus        22 a~~~~~~~~~~~~~~~~~lll~G~~GtGKT~la~~i~~~~~   62 (324)
T 1l8q_A           22 AYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAK   62 (324)
T ss_dssp             HHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCcCCCCCeEEEECCCCCcHHHHHHHHHHHHH
Confidence            344455544443  356789999999999999999998764

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=96.66  E-value=0.0016  Score=48.22  Aligned_cols=34  Identities=21%  Similarity=0.269  Sum_probs=26.7

Q ss_pred             HHhcCCCceEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          166 RALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       166 ~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      ..|..-....+.|+|..|+|||||++.+++....
T Consensus        29 ~~l~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~~   62 (149)
T 2kjq_A           29 YVLRHKHGQFIYVWGEEGAGKSHLLQAWVAQALE   62 (149)
T ss_dssp             HHCCCCCCSEEEEESSSTTTTCHHHHHHHHHHHT
T ss_pred             HHHHhcCCCEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            3333325668999999999999999999987753

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=96.66  E-value=0.0045  Score=51.29  Aligned_cols=60  Identities=17%  Similarity=0.154  Sum_probs=36.5

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcC-CCCCHHHHHHHHHHHhCCCC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVP-HIPDIRKIQGEIADKLGLIF  232 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs-~~~~~~~l~~~i~~~l~~~~  232 (250)
                      ...+++++|.+|+||||++..+..-....... .+..+... ..+...+-+....+.++++.
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~~l~~~~G~-~V~lv~~D~~r~~a~eqL~~~~~~~gl~~  164 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAAISMLEKHK-KIAFITTDTYRIAAVEQLKTYAELLQAPL  164 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHHHHTTCC-CEEEEECCCSSTTHHHHHHHHHTTTTCCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHhcCC-EEEEEecCcccchHHHHHHHHHHhcCCCe
Confidence            46799999999999999999988766432222 23334332 22334444444455555543

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.66  E-value=0.0013  Score=50.23  Aligned_cols=26  Identities=27%  Similarity=0.376  Sum_probs=22.6

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ..+|.|.|+.|+||||+++.+.....
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            46899999999999999999887653

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=96.65  E-value=0.0027  Score=52.44  Aligned_cols=46  Identities=24%  Similarity=0.319  Sum_probs=35.8

Q ss_pred             CCcChHHHHHHHHHHhcC---------CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          153 AFESRSSTLNNVLRALQD---------PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       153 ~~~gr~~~~~~l~~~L~~---------~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .++|.+..++.+...+..         .....+.++|.+|+||||+|+.+.+...
T Consensus        18 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~~   72 (311)
T 4fcw_A           18 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLF   72 (311)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHHHH
T ss_pred             hcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHHHc
Confidence            467888777777766652         1246889999999999999999998763

>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=96.65  E-value=0.0012  Score=50.50  Aligned_cols=25  Identities=40%  Similarity=0.648  Sum_probs=22.1

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      .++|+|..|+|||||++.+.....+
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            5799999999999999999987653

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.65  E-value=0.0016  Score=49.70  Aligned_cols=28  Identities=32%  Similarity=0.343  Sum_probs=24.1

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....+|.++|++|+||||+++.+.....
T Consensus        11 ~~~~~i~l~G~~GsGKsT~~~~L~~~l~   38 (186)
T 2yvu_A           11 EKGIVVWLTGLPGSGKTTIATRLADLLQ   38 (186)
T ss_dssp             SCCEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            3457899999999999999999987764

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=96.63  E-value=0.0037  Score=51.05  Aligned_cols=48  Identities=21%  Similarity=0.285  Sum_probs=33.1

Q ss_pred             CcCCCcChHHHHHHHHHHhc---C----------CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          150 DYEAFESRSSTLNNVLRALQ---D----------PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~---~----------~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....++|.+..+.++.+...   .          -..+ +.|+|..|+|||||++.+.+...
T Consensus        38 ~~~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~g-vll~Gp~GtGKTtl~~~i~~~~~   98 (278)
T 1iy2_A           38 TFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKG-VLLVGPPGVGKTHLARAVAGEAR   98 (278)
T ss_dssp             CGGGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCE-EEEECCTTSSHHHHHHHHHHHTT
T ss_pred             CHHHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCe-EEEECCCcChHHHHHHHHHHHcC
Confidence            34567787765555443322   1          1223 88999999999999999998764

>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=96.63  E-value=0.0012  Score=51.17  Aligned_cols=22  Identities=32%  Similarity=0.447  Sum_probs=20.2

Q ss_pred             eEEEEEccCCCCHHHHHHHHHH
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~  195 (250)
                      .+|+|+|+.|+||||+++.+..
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            4799999999999999999876

>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G

Probab=96.63  E-value=0.0012  Score=55.48  Aligned_cols=49  Identities=22%  Similarity=0.342  Sum_probs=35.9

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          150 DYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....++|.+..+..+...+......-+-++|.+|+|||+||+.+.+...
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            3456889887666554444443344488999999999999999998764

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=96.63  E-value=0.0014  Score=49.22  Aligned_cols=27  Identities=26%  Similarity=0.514  Sum_probs=22.8

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      +..+|.|.|+.|+||||+++.+.....
T Consensus         6 ~~~~i~l~G~~GsGKSTva~~La~~lg   32 (168)
T 1zuh_A            6 HMQHLVLIGFMGSGKSSLAQELGLALK   32 (168)
T ss_dssp             --CEEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             ccceEEEECCCCCCHHHHHHHHHHHhC
Confidence            567899999999999999999987764

>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=96.63  E-value=0.0014  Score=51.23  Aligned_cols=27  Identities=22%  Similarity=0.253  Sum_probs=23.6

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ....+|+|+|+.|+|||||++.+....
T Consensus         6 ~~g~~i~l~GpsGsGKsTl~~~L~~~~   32 (208)
T 3tau_A            6 ERGLLIVLSGPSGVGKGTVREAVFKDP   32 (208)
T ss_dssp             CCCCEEEEECCTTSCHHHHHHHHHHST
T ss_pred             CCCcEEEEECcCCCCHHHHHHHHHhhC
Confidence            345789999999999999999998765

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=96.62  E-value=0.0017  Score=50.30  Aligned_cols=27  Identities=22%  Similarity=0.405  Sum_probs=23.5

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ....+|.|.|+.|+||||+++.+.+..
T Consensus        13 ~~~~~I~l~G~~GsGKsT~~~~L~~~~   39 (203)
T 1ukz_A           13 DQVSVIFVLGGPGAGKGTQCEKLVKDY   39 (203)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            346789999999999999999998764

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=96.62  E-value=0.0025  Score=52.59  Aligned_cols=26  Identities=23%  Similarity=0.216  Sum_probs=23.1

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ...+|.|+|++|+||||+++.+....
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            46789999999999999999998754

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=96.61  E-value=0.00099  Score=50.46  Aligned_cols=23  Identities=35%  Similarity=0.567  Sum_probs=19.6

Q ss_pred             CceEEEEEccCCCCHHHHHHHHH
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVA  194 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~  194 (250)
                      ...+++|+|..|+|||||++.++
T Consensus         8 ~gei~~l~G~nGsGKSTl~~~~~   30 (171)
T 4gp7_A            8 ELSLVVLIGSSGSGKSTFAKKHF   30 (171)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHS
T ss_pred             CCEEEEEECCCCCCHHHHHHHHc
Confidence            35689999999999999999633

>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=96.61  E-value=0.0013  Score=51.90  Aligned_cols=24  Identities=38%  Similarity=0.505  Sum_probs=21.5

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .+|+|+|+.|+||||+++.+....
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            589999999999999999987654

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=96.60  E-value=0.0015  Score=50.06  Aligned_cols=27  Identities=26%  Similarity=0.495  Sum_probs=23.2

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ...+|.|.|+.|+||||+++.+.+...
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~La~~l~   34 (196)
T 2c95_A            8 KTNIIFVVGGPGSGKGTQCEKIVQKYG   34 (196)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHHC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHhC
Confidence            346899999999999999999987653

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=96.60  E-value=0.0011  Score=51.42  Aligned_cols=25  Identities=32%  Similarity=0.370  Sum_probs=21.7

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .++++|+|+.|+|||||++.+....
T Consensus         4 g~~i~lvGpsGaGKSTLl~~L~~~~   28 (198)
T 1lvg_A            4 PRPVVLSGPSGAGKSTLLKKLFQEH   28 (198)
T ss_dssp             -CCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            3578999999999999999998764

>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding, cytoplasm, damage, DNA recombination, DNA repair, DNA-binding; 1.95A {Thermotoga maritima}

Probab=96.59  E-value=0.0096  Score=50.58  Aligned_cols=53  Identities=28%  Similarity=0.357  Sum_probs=40.2

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhCCCC
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGLIF  232 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~~l~~~~  232 (250)
                      -.++.|.|.+|+|||||+.++.......+  ..++|++....++..     .+++++.+.
T Consensus        61 G~i~~I~GppGsGKSTLal~la~~~~~~g--g~VlyId~E~s~~~~-----ra~rlgv~~  113 (356)
T 3hr8_A           61 GRIVEIFGQESSGKTTLALHAIAEAQKMG--GVAAFIDAEHALDPV-----YAKNLGVDL  113 (356)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHHHHHTT--CCEEEEESSCCCCHH-----HHHHHTCCG
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHhcC--CeEEEEecccccchH-----HHHHcCCch
Confidence            46999999999999999999987764321  357888888877765     566666653

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=96.59  E-value=0.0015  Score=52.77  Aligned_cols=25  Identities=36%  Similarity=0.418  Sum_probs=22.2

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .+|.|+|+.|+||||||+.+.....
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            4789999999999999999987753

>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=96.57  E-value=0.0016  Score=52.28  Aligned_cols=27  Identities=33%  Similarity=0.484  Sum_probs=23.6

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ...+|+|+|+.|+|||||++.+.....
T Consensus        26 ~~~~i~l~G~~GsGKSTl~k~La~~lg   52 (246)
T 2bbw_A           26 KLLRAVILGPPGSGKGTVCQRIAQNFG   52 (246)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            467999999999999999999996654

>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP complex, calcium stimulation, RECA, DMC1; HET: DNA ANP; 1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11 PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A* 3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ntu_A* 3ewa_A* 3ew9_A* 3etl_A* 4dc9_A* 2gdj_A*

Probab=96.55  E-value=0.0072  Score=50.46  Aligned_cols=59  Identities=14%  Similarity=0.267  Sum_probs=44.3

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCC---------CC-----CeEEEEEcCCCCCHHHHHHHHHHHhCCC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQ---------FF-----DQVIFVEVPHIPDIRKIQGEIADKLGLI  231 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~---------~F-----d~~~wv~vs~~~~~~~l~~~i~~~l~~~  231 (250)
                      .-.++-|.|.+|+|||||+.++........         ..     ..++|++...+++...+.. ++..++.+
T Consensus        97 ~g~i~~i~G~~gsGKT~la~~la~~~~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~~~~~~l~~-~~~~~g~~  169 (322)
T 2i1q_A           97 SQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQ-MAEHAGID  169 (322)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHHHHHH-HHHHHTCC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhccccccccccccccCCCCCceEEEEECCCCCCHHHHHH-HHHHcCCC
Confidence            346899999999999999999987643211         11     4789999999888887764 45667665

>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=50.71  Aligned_cols=25  Identities=40%  Similarity=0.579  Sum_probs=22.1

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHH
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      ...+|+|+|+.|+||||+++.+...
T Consensus        20 ~~~~i~i~G~~GsGKSTl~~~L~~~   44 (207)
T 2qt1_A           20 KTFIIGISGVTNSGKTTLAKNLQKH   44 (207)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHh
Confidence            3568999999999999999998764

>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A*

Probab=96.54  E-value=0.0078  Score=50.38  Aligned_cols=59  Identities=20%  Similarity=0.339  Sum_probs=44.5

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCCC----CCeEEEEEcCCCCCHHHHHHHHHHHhCCC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQF----FDQVIFVEVPHIPDIRKIQGEIADKLGLI  231 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~----Fd~~~wv~vs~~~~~~~l~~~i~~~l~~~  231 (250)
                      .-.++.|+|.+|+|||||+.++.........    =..++|++....++...+.. +++.++.+
T Consensus       106 ~G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~~~~~~~l~~-~~~~~g~~  168 (324)
T 2z43_A          106 TRTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGTFRWERIEN-MAKALGLD  168 (324)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHHHHH-HHHHTTCC
T ss_pred             CCcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHH-HHHHhCCC
Confidence            3468999999999999999999877543211    24789999999888877764 45667664

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=96.54  E-value=0.0014  Score=49.56  Aligned_cols=24  Identities=33%  Similarity=0.493  Sum_probs=21.5

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhc
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .|.|+|++|+||||+++.+.....
T Consensus         6 ~i~i~G~~GsGKsTla~~La~~l~   29 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAKDLD   29 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHcC
Confidence            689999999999999999987664

>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=96.53  E-value=0.0018  Score=49.45  Aligned_cols=25  Identities=32%  Similarity=0.375  Sum_probs=22.2

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHH
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      ....|.|+|+.|+||||+++.+.+.
T Consensus         9 ~~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A            9 KGINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHh
Confidence            3467999999999999999999876

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=96.52  E-value=0.0017  Score=49.88  Aligned_cols=26  Identities=27%  Similarity=0.459  Sum_probs=22.8

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ..+|.|.|+.|+||||+++.+.....
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            46899999999999999999987653

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=96.52  E-value=0.0023  Score=53.24  Aligned_cols=45  Identities=22%  Similarity=0.298  Sum_probs=35.0

Q ss_pred             CCcChHHHHHHHHHHhc--CCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          153 AFESRSSTLNNVLRALQ--DPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       153 ~~~gr~~~~~~l~~~L~--~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .++|.+.....+.+.+.  .....-+-|+|.+|+|||++|+.+++..
T Consensus         3 ~iig~s~~~~~~~~~~~~~a~~~~~vLi~Ge~GtGKt~lAr~i~~~~   49 (304)
T 1ojl_A            3 HMIGSSPAMQHLLNEIAMVAPSDATVLIHGDSGTGKELVARALHACS   49 (304)
T ss_dssp             CCCCCSHHHHHHHHHHHHHCSTTSCEEEESCTTSCHHHHHHHHHHHS
T ss_pred             CcEECCHHHHHHHHHHHHHhCCCCcEEEECCCCchHHHHHHHHHHhC
Confidence            46788777777777665  2344556799999999999999999864

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=96.52  E-value=0.0019  Score=49.24  Aligned_cols=25  Identities=32%  Similarity=0.315  Sum_probs=21.9

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ...|.+.|+.|+||||+++.+.+..
T Consensus         4 g~~I~l~G~~GsGKST~~~~La~~l   28 (186)
T 3cm0_A            4 GQAVIFLGPPGAGKGTQASRLAQEL   28 (186)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3578999999999999999998755

>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=96.52  E-value=0.0018  Score=49.13  Aligned_cols=27  Identities=26%  Similarity=0.231  Sum_probs=23.3

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ...+++|+|..|+|||||+..+.....
T Consensus         3 ~~~~i~i~G~sGsGKTTl~~~L~~~l~   29 (169)
T 1xjc_A            3 AMNVWQVVGYKHSGKTTLMEKWVAAAV   29 (169)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhhH
Confidence            467899999999999999999987754

>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=96.51  E-value=0.0019  Score=49.27  Aligned_cols=26  Identities=35%  Similarity=0.477  Sum_probs=22.8

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ..+|.|.|+.|+||||+++.+.....
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            46899999999999999999987653

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.50  E-value=0.0048  Score=53.81  Aligned_cols=50  Identities=24%  Similarity=0.326  Sum_probs=39.5

Q ss_pred             CcCCCcChHHHHHHHHHHhc----C---------CCceEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          150 DYEAFESRSSTLNNVLRALQ----D---------PDVNMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~----~---------~~~~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      ....+.|.+..++.|.+.+.    .         ..++=|-++|++|+|||+||+.+.+....
T Consensus       179 t~~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~~~  241 (434)
T 4b4t_M          179 TYSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNA  241 (434)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTC
T ss_pred             ChHhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHhCC
Confidence            35567889988888877644    2         24667789999999999999999988753

>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=96.50  E-value=0.0014  Score=50.88  Aligned_cols=22  Identities=41%  Similarity=0.460  Sum_probs=20.1

Q ss_pred             eEEEEEccCCCCHHHHHHHHHH
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~  195 (250)
                      .+|+|+|+.|+||||+++.+..
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            4799999999999999999965

>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=96.49  E-value=0.002  Score=52.26  Aligned_cols=24  Identities=29%  Similarity=0.582  Sum_probs=21.9

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHH
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      ..+|.|+|++|+||||+++.+...
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~~   27 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAKI   27 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHH
Confidence            468999999999999999999876

>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=0.0019  Score=53.96  Aligned_cols=42  Identities=24%  Similarity=0.327  Sum_probs=29.6

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcC
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVP  212 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs  212 (250)
                      ....+|+|+|..|+|||||++.+..-......-..+.+|.-.
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            456799999999999999999998766432111234555443

>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=96.49  E-value=0.0019  Score=52.06  Aligned_cols=29  Identities=17%  Similarity=0.402  Sum_probs=23.9

Q ss_pred             CCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          170 DPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       170 ~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .....+|+|.|+.|+||||+++.+.....
T Consensus        19 ~~~~~iI~I~G~~GSGKST~a~~L~~~lg   47 (252)
T 1uj2_A           19 GGEPFLIGVSGGTASGKSSVCAKIVQLLG   47 (252)
T ss_dssp             --CCEEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CCCcEEEEEECCCCCCHHHHHHHHHHHhh
Confidence            34567999999999999999999987654

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.49  E-value=0.0021  Score=49.86  Aligned_cols=27  Identities=19%  Similarity=0.212  Sum_probs=23.8

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      ...|.|.|+.|+||||+++.+......
T Consensus         4 ~~~I~i~G~~GsGKsT~~~~L~~~l~~   30 (213)
T 2plr_A            4 GVLIAFEGIDGSGKSSQATLLKDWIEL   30 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHTT
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHHhh
Confidence            357999999999999999999987764

>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=96.48  E-value=0.0015  Score=49.74  Aligned_cols=25  Identities=28%  Similarity=0.527  Sum_probs=21.9

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .+|.|+|++|+||||+++.+.....
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            3689999999999999999987654

>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=96.48  E-value=0.0098  Score=51.37  Aligned_cols=59  Identities=15%  Similarity=0.228  Sum_probs=42.0

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCC----CCCeEEEEEcCCCCCHHHHHHHHHHHhCCC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQ----FFDQVIFVEVPHIPDIRKIQGEIADKLGLI  231 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~----~Fd~~~wv~vs~~~~~~~l~~~i~~~l~~~  231 (250)
                      .-.++.|+|.+|+|||||+..++-......    .-..++|+.....++...+. .+++.++.+
T Consensus       177 ~Gei~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~~~~~~rl~-~~a~~~gl~  239 (400)
T 3lda_A          177 TGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRLV-SIAQRFGLD  239 (400)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHH-HHHHHTTCC
T ss_pred             CCcEEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCCccCHHHHH-HHHHHcCCC
Confidence            346899999999999999998875543321    22468889888777766554 366777654

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=96.46  E-value=0.0037  Score=53.16  Aligned_cols=46  Identities=20%  Similarity=0.166  Sum_probs=36.4

Q ss_pred             CCcChHHHHHHHHHHhc---------------CCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          153 AFESRSSTLNNVLRALQ---------------DPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       153 ~~~gr~~~~~~l~~~L~---------------~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .++|.+..++.+...+.               ......+-++|.+|+|||++|+.+.+...
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            36888888888877772               11346788999999999999999998763

>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=96.46  E-value=0.0018  Score=50.49  Aligned_cols=26  Identities=19%  Similarity=0.275  Sum_probs=23.0

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        19 ~Gei~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           19 VGRVVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            45689999999999999999998765

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=96.46  E-value=0.0014  Score=49.80  Aligned_cols=26  Identities=27%  Similarity=0.319  Sum_probs=18.7

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ..+|.|.|+.|+||||+++.+.....
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            45899999999999999999987654

>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=96.44  E-value=0.0018  Score=48.67  Aligned_cols=25  Identities=32%  Similarity=0.497  Sum_probs=21.9

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .+|.|.|+.|+||||+++.+.....
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            4689999999999999999987653

>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=96.43  E-value=0.0025  Score=49.29  Aligned_cols=27  Identities=33%  Similarity=0.346  Sum_probs=23.0

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....|.|+|+.|+||||+++.+.....
T Consensus        19 ~~~~I~l~G~~GsGKST~a~~La~~l~   45 (201)
T 2cdn_A           19 SHMRVLLLGPPGAGKGTQAVKLAEKLG   45 (201)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            345899999999999999999987653

>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding protein, ring protein, octamer, AAA ATPase; 3.20A {Homo sapiens} SCOP: c.37.1.11 PDB: 2zjb_A

Probab=96.43  E-value=0.012  Score=49.61  Aligned_cols=59  Identities=17%  Similarity=0.276  Sum_probs=44.2

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCC----CCCeEEEEEcCCCCCHHHHHHHHHHHhCCC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQ----FFDQVIFVEVPHIPDIRKIQGEIADKLGLI  231 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~----~Fd~~~wv~vs~~~~~~~l~~~i~~~l~~~  231 (250)
                      .-.++.|.|.+|+|||||+.++........    .=..++|++....++...+.. ++..++.+
T Consensus       121 ~G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~~~~~~~l~~-~~~~~g~~  183 (343)
T 1v5w_A          121 SMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRD-IADRFNVD  183 (343)
T ss_dssp             SSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHHHHH-HHHHTTCC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHH-HHHHcCCC
Confidence            346889999999999999999998754321    124789999999888877654 45666654

>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=96.43  E-value=0.0018  Score=54.12  Aligned_cols=28  Identities=32%  Similarity=0.720  Sum_probs=23.4

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ++.+||+|.|-|||||||.+-++---..
T Consensus        46 ~~aKVIAIaGKGGVGKTTtavNLA~aLA   73 (314)
T 3fwy_A           46 TGAKVFAVYGKGGIGKSTTSSNLSAAFS   73 (314)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCceEEEEECCCccCHHHHHHHHHHHHH
Confidence            5789999999999999999988765553

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=96.43  E-value=0.0099  Score=50.39  Aligned_cols=59  Identities=27%  Similarity=0.334  Sum_probs=40.7

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCCCC----CeEEEEEcCCCCCHHHHHHHHHHHhCCC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFF----DQVIFVEVPHIPDIRKIQGEIADKLGLI  231 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~F----d~~~wv~vs~~~~~~~l~~~i~~~l~~~  231 (250)
                      .-.++.|+|..|+|||||+..+..........    ..++|++-...+....+ ..++..++..
T Consensus       130 ~G~i~~I~G~~GsGKTTL~~~l~~~~~~~~~~Gg~~G~vi~i~~e~~~~~~~i-~~i~q~~~~~  192 (349)
T 1pzn_A          130 TQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERI-REIAQNRGLD  192 (349)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHH-HHHHHTTTCC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhccchhcCCCCCeEEEEeCCCCCCHHHH-HHHHHHcCCC
Confidence            45799999999999999999999875322111    24589988776654443 3455555543

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=96.42  E-value=0.0022  Score=49.07  Aligned_cols=23  Identities=35%  Similarity=0.521  Sum_probs=21.3

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      +|+|.|+.|+||||+++.+.+..
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l   24 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYL   24 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68999999999999999998866

>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=96.42  E-value=0.0023  Score=50.29  Aligned_cols=27  Identities=26%  Similarity=0.302  Sum_probs=23.2

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....|.+.|+.|+||||+++.+.....
T Consensus         3 ~~~~I~l~G~~GsGKsT~a~~La~~l~   29 (220)
T 1aky_A            3 ESIRMVLIGPPGAGKGTQAPNLQERFH   29 (220)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHcC
Confidence            346789999999999999999987654

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=96.41  E-value=0.0028  Score=50.02  Aligned_cols=28  Identities=21%  Similarity=0.361  Sum_probs=25.3

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ...++|.|.|++|+||||.|+.+.+...
T Consensus        27 ~k~kiI~llGpPGsGKgTqa~~L~~~~g   54 (217)
T 3umf_A           27 AKAKVIFVLGGPGSGKGTQCEKLVQKFH   54 (217)
T ss_dssp             TSCEEEEEECCTTCCHHHHHHHHHHHHC
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHHC
Confidence            4678999999999999999999998875

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=96.41  E-value=0.0017  Score=51.20  Aligned_cols=26  Identities=35%  Similarity=0.553  Sum_probs=22.9

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+....
T Consensus        22 ~G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           22 NIYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CCCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            45688999999999999999998754

>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=96.41  E-value=0.0024  Score=49.62  Aligned_cols=26  Identities=15%  Similarity=0.348  Sum_probs=23.2

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..++|+|+|+.|+|||||++.+....
T Consensus        18 ~g~~ivl~GPSGaGKsTL~~~L~~~~   43 (197)
T 3ney_A           18 GRKTLVLIGASGVGRSHIKNALLSQN   43 (197)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCCEEEEECcCCCCHHHHHHHHHhhC
Confidence            46789999999999999999998764

>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=96.40  E-value=0.0023  Score=53.27  Aligned_cols=27  Identities=26%  Similarity=0.423  Sum_probs=24.0

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ...+++|+|..|+|||||++.+..-..
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lagll~  127 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGRYYQ  127 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHH
Confidence            567999999999999999999987664

>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=96.40  E-value=0.0019  Score=49.72  Aligned_cols=24  Identities=33%  Similarity=0.513  Sum_probs=21.2

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      +.|.|+|+.|+|||||++.+....
T Consensus         2 RpIVi~GPSG~GK~Tl~~~L~~~~   25 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhC
Confidence            458899999999999999998764

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=96.40  E-value=0.0025  Score=51.12  Aligned_cols=27  Identities=19%  Similarity=0.315  Sum_probs=23.5

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ....+|+|.|..|+|||||++.+....
T Consensus        23 ~~g~iigI~G~~GsGKSTl~k~L~~~l   49 (245)
T 2jeo_A           23 MRPFLIGVSGGTASGKSTVCEKIMELL   49 (245)
T ss_dssp             CCSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            355789999999999999999998754

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=96.40  E-value=0.003  Score=50.95  Aligned_cols=27  Identities=26%  Similarity=0.315  Sum_probs=23.7

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ...+|.++|++|+||||+++.+.....
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            467899999999999999999987653

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=96.39  E-value=0.0023  Score=47.79  Aligned_cols=24  Identities=17%  Similarity=0.236  Sum_probs=21.5

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhc
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .|.|.|+.|+||||+++.+.+...
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            589999999999999999988654

>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=96.39  E-value=0.0045  Score=52.81  Aligned_cols=46  Identities=17%  Similarity=0.166  Sum_probs=35.0

Q ss_pred             CCcChHHHHHHHHHHhc------------------------------CCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          153 AFESRSSTLNNVLRALQ------------------------------DPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       153 ~~~gr~~~~~~l~~~L~------------------------------~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .++|.+..++.|...+.                              ......+-++|.+|+||||+|+.+.+...
T Consensus        22 ~viGq~~ak~~l~~~~~~~~~~~~~g~~~~~~~~~~~~~p~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~   97 (376)
T 1um8_A           22 YVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHLD   97 (376)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             HccCcHHHHHHHHHHHHHHHHHHHhhhhhhhccccccccccccccccccCCCCEEEECCCCCCHHHHHHHHHHHhC
Confidence            46788877777776652                              11345678999999999999999998763

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=96.39  E-value=0.01  Score=46.56  Aligned_cols=58  Identities=26%  Similarity=0.366  Sum_probs=37.7

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCC----CCCeEEEEEcCCCCCHHHHHHHHHHHhCC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQ----FFDQVIFVEVPHIPDIRKIQGEIADKLGL  230 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~----~Fd~~~wv~vs~~~~~~~l~~~i~~~l~~  230 (250)
                      .-.+++|+|..|+|||||++.+........    .-...+|+.-...+.... +..+++.++.
T Consensus        24 ~G~~~~l~G~nGsGKSTll~~l~g~~~~~~~~g~~~~~~i~~~~~~~~~~~~-i~~~~~~~~~   85 (231)
T 4a74_A           24 TQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPER-IREIAQNRGL   85 (231)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHH-HHHHHHHTTS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCEEEEEECCCCCCHHH-HHHHHHHcCC
Confidence            346899999999999999999987543311    123577877655544433 2334444444

>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=96.38  E-value=0.0026  Score=49.48  Aligned_cols=33  Identities=12%  Similarity=0.153  Sum_probs=26.2

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCe
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQ  205 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~  205 (250)
                      ...+|.|.|+.|+||||+++.+.+.... .+++.
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~L~~~l~~-~~~~v   40 (215)
T 1nn5_A            8 RGALIVLEGVDRAGKSTQSRKLVEALCA-AGHRA   40 (215)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHHHH-TTCCE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHH-cCCcE
Confidence            3568999999999999999999987643 24554

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.38  E-value=0.0037  Score=52.36  Aligned_cols=27  Identities=22%  Similarity=0.362  Sum_probs=23.9

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .+.+|+|.|..|+|||||++.+..-..
T Consensus        91 ~p~iigI~GpsGSGKSTl~~~L~~ll~  117 (321)
T 3tqc_A           91 VPYIIGIAGSVAVGKSTTSRVLKALLS  117 (321)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            566999999999999999999987654

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=96.37  E-value=0.0026  Score=49.49  Aligned_cols=32  Identities=16%  Similarity=0.160  Sum_probs=25.9

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCe
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQ  205 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~  205 (250)
                      ..+|.|.|+.|+||||+++.+.+.... .+++.
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~~l~~-~~~~~   41 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVEYLKN-NNVEV   41 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHHHHHH-TTCCE
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHH-cCCcE
Confidence            468999999999999999999887543 24555

>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=96.36  E-value=0.003  Score=48.91  Aligned_cols=27  Identities=22%  Similarity=0.422  Sum_probs=23.6

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .+-.+|+|+|+.|+||||+++.+....
T Consensus        10 ~~~~iIgltG~~GSGKSTva~~L~~~l   36 (192)
T 2grj_A           10 HHHMVIGVTGKIGTGKSTVCEILKNKY   36 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHHhc
Confidence            456799999999999999999998763

>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=96.34  E-value=0.0027  Score=47.55  Aligned_cols=27  Identities=33%  Similarity=0.337  Sum_probs=23.9

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..-.+++++|..|+|||||++.+..-.
T Consensus        31 ~~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           31 EKAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            455689999999999999999999865

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=96.34  E-value=0.0024  Score=51.51  Aligned_cols=26  Identities=31%  Similarity=0.394  Sum_probs=22.1

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHH
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      ....+|+|+|+.|+||||+++.+...
T Consensus        25 ~~g~~I~I~G~~GsGKSTl~k~La~~   50 (252)
T 4e22_A           25 AIAPVITVDGPSGAGKGTLCKALAES   50 (252)
T ss_dssp             TTSCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHh
Confidence            34568999999999999999998743

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.34  E-value=0.0071  Score=52.67  Aligned_cols=49  Identities=27%  Similarity=0.286  Sum_probs=38.5

Q ss_pred             cCCCcChHHHHHHHHHHhc----C---------CCceEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          151 YEAFESRSSTLNNVLRALQ----D---------PDVNMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       151 ~~~~~gr~~~~~~l~~~L~----~---------~~~~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      ..++.|.+..++.|.+.+.    .         ..++=+-++|++|+|||+||+.+.+....
T Consensus       171 ~~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~~~  232 (428)
T 4b4t_K          171 YADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKA  232 (428)
T ss_dssp             GGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHHTC
T ss_pred             HHHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHhCC
Confidence            4567888888888777654    1         24556789999999999999999988753

>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=96.33  E-value=0.0065  Score=48.67  Aligned_cols=27  Identities=19%  Similarity=0.100  Sum_probs=23.8

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .....|.|.|++|+||||+++.+.+..
T Consensus        27 ~~~~~I~l~G~~GsGKsT~a~~L~~~~   53 (243)
T 3tlx_A           27 KPDGRYIFLGAPGSGKGTQSLNLKKSH   53 (243)
T ss_dssp             SCCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            466789999999999999999998765

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=96.30  E-value=0.0027  Score=50.15  Aligned_cols=26  Identities=27%  Similarity=0.410  Sum_probs=22.7

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ...|.|.|+.|+||||+++.+.....
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            46799999999999999999987653

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=96.29  E-value=0.0029  Score=52.26  Aligned_cols=27  Identities=30%  Similarity=0.406  Sum_probs=23.9

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .+..+-++|++|+|||+||+.+.+...
T Consensus        35 ~p~~lLl~GppGtGKT~la~aiA~~l~   61 (293)
T 3t15_A           35 VPLILGIWGGKGQGKSFQCELVFRKMG   61 (293)
T ss_dssp             CCSEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            456788999999999999999999875

>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=96.29  E-value=0.0078  Score=47.82  Aligned_cols=32  Identities=28%  Similarity=0.332  Sum_probs=26.8

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCe
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQ  205 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~  205 (250)
                      ....|.|.|+.|+||||+++.+.+....  .+++
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~~l~~--~~~~   56 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYHRLVK--DYDV   56 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHHTT--TSCE
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHhc--CCCc
Confidence            4568999999999999999999998864  4554

>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=96.28  E-value=0.006  Score=53.64  Aligned_cols=48  Identities=21%  Similarity=0.227  Sum_probs=36.0

Q ss_pred             cCCCcChHHHHHHHHH---HhcCC--CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          151 YEAFESRSSTLNNVLR---ALQDP--DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       151 ~~~~~gr~~~~~~l~~---~L~~~--~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ...++|.+..++.+..   ++...  ..+-+-++|++|+|||+||+.+.+...
T Consensus        36 ~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~iLl~GppGtGKT~la~ala~~l~   88 (456)
T 2c9o_A           36 ASGLVGQENAREACGVIVELIKSKKMAGRAVLLAGPPGTGKTALALAIAQELG   88 (456)
T ss_dssp             ETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             hhhccCHHHHHHHHHHHHHHHHhCCCCCCeEEEECCCcCCHHHHHHHHHHHhC
Confidence            3578898887665444   33332  335678999999999999999999875

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.28  E-value=0.0069  Score=52.87  Aligned_cols=49  Identities=27%  Similarity=0.438  Sum_probs=37.8

Q ss_pred             cCCCcChHHHHHHHHHHhc----C---------CCceEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          151 YEAFESRSSTLNNVLRALQ----D---------PDVNMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       151 ~~~~~gr~~~~~~l~~~L~----~---------~~~~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      ..++.|.+..++.|.+.+.    .         ..++=|-++|++|+|||+||+.|.+....
T Consensus       180 ~~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~~~  241 (437)
T 4b4t_L          180 FDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIGA  241 (437)
T ss_dssp             SGGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTC
T ss_pred             hhHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHhCC
Confidence            4557788887777766554    1         24567789999999999999999998753

>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=96.28  E-value=0.0059  Score=53.45  Aligned_cols=39  Identities=28%  Similarity=0.384  Sum_probs=29.3

Q ss_pred             HHHHHHHHhcCCC-ceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          160 TLNNVLRALQDPD-VNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       160 ~~~~l~~~L~~~~-~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....+..+....+ ...+.|+|.+|+||||||+.+++...
T Consensus       116 a~~~~~~~a~~~~~~~~lll~Gp~G~GKTtLa~aia~~l~  155 (440)
T 2z4s_A          116 AYHAALEVAKHPGRYNPLFIYGGVGLGKTHLLQSIGNYVV  155 (440)
T ss_dssp             HHHHHHHHHHSTTSSCCEEEECSSSSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            3444444444443 67889999999999999999998764

>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=96.27  E-value=0.0027  Score=50.23  Aligned_cols=27  Identities=15%  Similarity=0.158  Sum_probs=23.6

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .-.+++|+|+.|+|||||++.+.....
T Consensus        15 ~G~ii~l~GpsGsGKSTLlk~L~g~~~   41 (219)
T 1s96_A           15 QGTLYIVSAPSGAGKSSLIQALLKTQP   41 (219)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhccCC
Confidence            356899999999999999999998754

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=96.27  E-value=0.0026  Score=53.24  Aligned_cols=44  Identities=16%  Similarity=0.228  Sum_probs=35.9

Q ss_pred             CCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          152 EAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       152 ~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..++|++..++.+...+...  +-+-++|.+|+|||+||+.+.+..
T Consensus        27 ~~i~g~~~~~~~l~~~l~~~--~~vll~G~pGtGKT~la~~la~~~   70 (331)
T 2r44_A           27 KVVVGQKYMINRLLIGICTG--GHILLEGVPGLAKTLSVNTLAKTM   70 (331)
T ss_dssp             TTCCSCHHHHHHHHHHHHHT--CCEEEESCCCHHHHHHHHHHHHHT
T ss_pred             cceeCcHHHHHHHHHHHHcC--CeEEEECCCCCcHHHHHHHHHHHh
Confidence            35788888888888777653  356799999999999999998865

>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=96.26  E-value=0.0014  Score=51.09  Aligned_cols=25  Identities=32%  Similarity=0.566  Sum_probs=22.1

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .+|+|.|..|+||||+++.+.....
T Consensus         1 ~~I~i~G~~GsGKsTl~~~L~~~l~   25 (214)
T 1gtv_A            1 MLIAIEGVDGAGKRTLVEKLSGAFR   25 (214)
T ss_dssp             CEEEEEEEEEEEHHHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            3689999999999999999987764

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A*

Probab=96.26  E-value=0.0071  Score=53.69  Aligned_cols=47  Identities=23%  Similarity=0.336  Sum_probs=37.6

Q ss_pred             cCCCcChHHHHHHHHHHhc-------------CCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          151 YEAFESRSSTLNNVLRALQ-------------DPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       151 ~~~~~gr~~~~~~l~~~L~-------------~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ...++|.+..++.|.+++.             .....-+-|+|.+|+|||+||+.+.+..
T Consensus       203 ~~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~  262 (489)
T 3hu3_A          203 YDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET  262 (489)
T ss_dssp             GGGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHC
T ss_pred             HHHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHh
Confidence            3468899888888877664             2345568899999999999999998775

>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=96.24  E-value=0.014  Score=49.03  Aligned_cols=59  Identities=20%  Similarity=0.232  Sum_probs=36.5

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcC-CCCCHHHHHHHHHHHhCCC
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVP-HIPDIRKIQGEIADKLGLI  231 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs-~~~~~~~l~~~i~~~l~~~  231 (250)
                      ....+++++|..|+||||+++.+..-..-. .. .+.++... ......+-++....+++.+
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag~l~~~-~g-~V~l~g~D~~r~~a~eql~~~~~~~gv~  186 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLANWLKNH-GF-SVVIAASDTFRAGAIEQLEEHAKRIGVK  186 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHHHHHT-TC-CEEEEEECCSSTTHHHHHHHHHHHTTCE
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHhc-CC-EEEEEeecccccchHHHHHHHHHHcCce
Confidence            467899999999999999999988766432 12 23333222 1223344444555566543

>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=96.24  E-value=0.0031  Score=47.77  Aligned_cols=25  Identities=28%  Similarity=0.347  Sum_probs=22.1

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..+|.++|+.|+||||+++.+....
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~~l   29 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEEYL   29 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH
Confidence            4688999999999999999998764

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=96.24  E-value=0.022  Score=48.29  Aligned_cols=53  Identities=28%  Similarity=0.353  Sum_probs=39.7

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhCCC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGLI  231 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~~l~~~  231 (250)
                      .-.++.|.|.+|+|||||+.++.......+  ..++|++....++..     .+.+++.+
T Consensus        60 ~G~iv~I~G~pGsGKTtLal~la~~~~~~g--~~vlyi~~E~~~~~~-----~a~~lG~~  112 (349)
T 2zr9_A           60 RGRVIEIYGPESSGKTTVALHAVANAQAAG--GIAAFIDAEHALDPE-----YAKKLGVD  112 (349)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHTT--CCEEEEESSCCCCHH-----HHHHTTCC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhCC--CeEEEEECCCCcCHH-----HHHHcCCC
Confidence            356899999999999999999886654221  368899998877754     25666655

>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=96.22  E-value=0.0036  Score=49.09  Aligned_cols=23  Identities=35%  Similarity=0.361  Sum_probs=20.8

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHH
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~  195 (250)
                      ..+|+|.|+.|+||||+++.+..
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            46899999999999999999965

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=96.22  E-value=0.0033  Score=49.13  Aligned_cols=24  Identities=25%  Similarity=0.475  Sum_probs=21.0

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhc
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .|.|.|+.|+||||+++.+.....
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            478999999999999999977653

>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=96.22  E-value=0.0068  Score=51.48  Aligned_cols=37  Identities=27%  Similarity=0.503  Sum_probs=29.2

Q ss_pred             HHHHHHHhc--CCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          161 LNNVLRALQ--DPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       161 ~~~l~~~L~--~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ...+++.+.  .....+|+|+|.+|+|||||+..+....
T Consensus        65 ~~~~~~~~~~~~~~~~~I~i~G~~G~GKSTl~~~L~~~l  103 (355)
T 3p32_A           65 AQQLLLRLLPDSGNAHRVGITGVPGVGKSTAIEALGMHL  103 (355)
T ss_dssp             HHHHHHHHGGGCCCSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHhHhhcCCceEEEEECCCCCCHHHHHHHHHHHH
Confidence            445555555  5577899999999999999999987654

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=96.22  E-value=0.0031  Score=49.62  Aligned_cols=26  Identities=23%  Similarity=0.194  Sum_probs=23.0

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ...|.|.|+.|+||||+++.+.....
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            45789999999999999999988765

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=96.20  E-value=0.0026  Score=49.08  Aligned_cols=25  Identities=32%  Similarity=0.376  Sum_probs=21.8

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .+++|+|..|+|||||++.+....+
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            3689999999999999999987653

>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=96.20  E-value=0.0034  Score=48.44  Aligned_cols=25  Identities=20%  Similarity=0.242  Sum_probs=22.1

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ...|.|.|+.|+||||+++.+.+..
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            4579999999999999999998754

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=96.19  E-value=0.012  Score=51.35  Aligned_cols=30  Identities=23%  Similarity=0.274  Sum_probs=25.1

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhcCC
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFGRD  200 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~  200 (250)
                      ..+++|.++|.+|+||||++..+......+
T Consensus        98 ~~~~vI~ivG~~GvGKTT~a~~LA~~l~~~  127 (433)
T 2xxa_A           98 QPPAVVLMAGLQGAGKTTSVGKLGKFLREK  127 (433)
T ss_dssp             SSSEEEEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHHh
Confidence            357899999999999999999988766543

>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=96.19  E-value=0.0037  Score=48.83  Aligned_cols=28  Identities=29%  Similarity=0.290  Sum_probs=23.9

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....+|.|+|+.|+||||+++.+.....
T Consensus        23 ~~~~~i~~~G~~GsGKsT~~~~l~~~l~   50 (211)
T 1m7g_A           23 QRGLTIWLTGLSASGKSTLAVELEHQLV   50 (211)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHhc
Confidence            4567899999999999999999987653

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=96.17  E-value=0.016  Score=50.65  Aligned_cols=28  Identities=29%  Similarity=0.437  Sum_probs=24.5

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      .+.+|.++|.+|+||||++..+......
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l~~  126 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYFQK  126 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHHHH
Confidence            5789999999999999999998876653

>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=96.16  E-value=0.0037  Score=52.01  Aligned_cols=28  Identities=21%  Similarity=0.272  Sum_probs=24.3

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....+|+|+|..|+|||||++.+..-..
T Consensus        78 ~~g~iigI~G~~GsGKSTl~~~L~~~l~  105 (308)
T 1sq5_A           78 RIPYIISIAGSVAVGKSTTARVLQALLS  105 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            4567999999999999999999988653

>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=96.16  E-value=0.0035  Score=51.49  Aligned_cols=24  Identities=25%  Similarity=0.645  Sum_probs=21.6

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHH
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVA  194 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~  194 (250)
                      ....+|+|.|+.|+||||+++.+.
T Consensus        73 ~~~~iI~I~G~~GSGKSTva~~La   96 (281)
T 2f6r_A           73 SGLYVLGLTGISGSGKSSVAQRLK   96 (281)
T ss_dssp             TTCEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHH
Confidence            346789999999999999999987

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=96.15  E-value=0.0037  Score=51.93  Aligned_cols=27  Identities=30%  Similarity=0.362  Sum_probs=23.8

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ...+++++|..|+||||+++.+..-..
T Consensus        99 ~g~vi~lvG~nGsGKTTll~~Lag~l~  125 (302)
T 3b9q_A           99 KPAVIMIVGVNGGGKTTSLGKLAHRLK  125 (302)
T ss_dssp             SCEEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            457999999999999999999987654

>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=96.15  E-value=0.0037  Score=48.90  Aligned_cols=23  Identities=22%  Similarity=0.455  Sum_probs=20.4

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .|.|.|++|+||||+++.+....
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999997665

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.12  E-value=0.0093  Score=51.40  Aligned_cols=49  Identities=24%  Similarity=0.377  Sum_probs=37.8

Q ss_pred             cCCCcChHHHHHHHHHHhc----C---------CCceEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          151 YEAFESRSSTLNNVLRALQ----D---------PDVNMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       151 ~~~~~gr~~~~~~l~~~L~----~---------~~~~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      ..++.|.+..+++|.+.+.    .         ..++=+-++|++|+|||.||+.+.+....
T Consensus       147 ~~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~~~  208 (405)
T 4b4t_J          147 YDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTDC  208 (405)
T ss_dssp             GGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHHTC
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhhCC
Confidence            4567788888777766544    1         24566789999999999999999988763

>2vhj_A Ntpase P4, P4; non- hydrolysable ATP analogue, hydrolase, virus dsRNA, molecular motor, packaging ATPase, hexameric helicase; HET: ADP; 1.80A {Pseudomonas phage PHI12} PDB: 2vhq_A* 1w44_A* 1w46_A* 1w47_A* 1w48_A* 1w49_A* 1w4a_A* 1w4b_A* 1w4c_A 2vht_A* 2vhu_A* 2vhc_A*

Probab=96.12  E-value=0.0053  Score=51.34  Aligned_cols=51  Identities=25%  Similarity=0.366  Sum_probs=34.1

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEc--CCC-----CCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEV--PHI-----PDIRKIQGEIADKL  228 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~v--s~~-----~~~~~l~~~i~~~l  228 (250)
                      .+++-|+|++|+||||||.++.....     ..++|+++  +..     .+.+.+++.+.+.+
T Consensus       123 gsviLI~GpPGsGKTtLAlqlA~~~G-----~~VlyIs~~~eE~v~~~~~~le~~l~~i~~~l  180 (331)
T 2vhj_A          123 SGMVIVTGKGNSGKTPLVHALGEALG-----GKDKYATVRFGEPLSGYNTDFNVFVDDIARAM  180 (331)
T ss_dssp             SEEEEEECSCSSSHHHHHHHHHHHHH-----TTSCCEEEEBSCSSTTCBCCHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHhCC-----CCEEEEEecchhhhhhhhcCHHHHHHHHHHHH
Confidence            35678999999999999999987621     23456666  211     35677666555444

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=96.11  E-value=0.0036  Score=50.20  Aligned_cols=26  Identities=19%  Similarity=0.235  Sum_probs=22.7

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .. .+++|+|..|+|||||.+.+..-.
T Consensus        23 ~~-e~~~liG~nGsGKSTLl~~l~Gl~   48 (240)
T 2onk_A           23 GR-DYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             CS-SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CC-EEEEEECCCCCCHHHHHHHHhCCC
Confidence            35 899999999999999999998653

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.07  E-value=0.012  Score=51.52  Aligned_cols=49  Identities=20%  Similarity=0.293  Sum_probs=38.3

Q ss_pred             cCCCcChHHHHHHHHHHhc----C---------CCceEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          151 YEAFESRSSTLNNVLRALQ----D---------PDVNMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       151 ~~~~~gr~~~~~~l~~~L~----~---------~~~~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      ...+.|.+..++.|.+.+.    .         ..++=|-++|++|+|||+||+.|.+....
T Consensus       208 ~~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~~~  269 (467)
T 4b4t_H          208 YSDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDA  269 (467)
T ss_dssp             CSSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHHTC
T ss_pred             HHHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhccCC
Confidence            3457888888888776543    1         35667789999999999999999988763

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=96.05  E-value=0.0033  Score=50.75  Aligned_cols=26  Identities=38%  Similarity=0.451  Sum_probs=22.5

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      -.+|.|+|+.|+||||+++.+.....
T Consensus        48 g~~i~l~G~~GsGKSTl~~~La~~lg   73 (250)
T 3nwj_A           48 GRSMYLVGMMGSGKTTVGKIMARSLG   73 (250)
T ss_dssp             TCCEEEECSTTSCHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcC
Confidence            45899999999999999999987553

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=96.05  E-value=0.03  Score=47.70  Aligned_cols=52  Identities=31%  Similarity=0.369  Sum_probs=39.2

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhCCC
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGLI  231 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~~l~~~  231 (250)
                      -.++-|.|.+|+|||||+.++.......+  ..++|++....++..     .+.+++.+
T Consensus        74 G~li~I~G~pGsGKTtlal~la~~~~~~g--~~vlyi~~E~s~~~~-----~a~~~g~d  125 (366)
T 1xp8_A           74 GRITEIYGPESGGKTTLALAIVAQAQKAG--GTCAFIDAEHALDPV-----YARALGVN  125 (366)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHHTT--CCEEEEESSCCCCHH-----HHHHTTCC
T ss_pred             CcEEEEEcCCCCChHHHHHHHHHHHHHCC--CeEEEEECCCChhHH-----HHHHcCCC
Confidence            45888999999999999999887654222  368999998887764     25566665

>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=96.04  E-value=0.0035  Score=50.06  Aligned_cols=26  Identities=27%  Similarity=0.371  Sum_probs=22.4

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        30 ~Ge~~~iiG~nGsGKSTLl~~l~Gl~   55 (235)
T 3tif_A           30 EGEFVSIMGPSGSGKSTMLNIIGCLD   55 (235)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            45689999999999999999987544

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=96.04  E-value=0.0023  Score=50.71  Aligned_cols=26  Identities=27%  Similarity=0.211  Sum_probs=16.9

Q ss_pred             CceEEEEEccCCCCHHHHHHHHH-HHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVA-IQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~-~~~  197 (250)
                      ...+++|+|+.|+|||||++.+. ...
T Consensus        26 ~G~ii~l~Gp~GsGKSTl~~~L~~~~~   52 (231)
T 3lnc_A           26 VGVILVLSSPSGCGKTTVANKLLEKQK   52 (231)
T ss_dssp             CCCEEEEECSCC----CHHHHHHC---
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            34689999999999999999998 543

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=96.03  E-value=0.019  Score=47.89  Aligned_cols=52  Identities=19%  Similarity=0.151  Sum_probs=38.4

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHHH
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADK  227 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~~  227 (250)
                      .-.++.|.|.+|+|||||+.++..+.-.++  ..++|++..  -+..++...++..
T Consensus        67 ~G~l~li~G~pG~GKTtl~l~ia~~~a~~g--~~vl~~slE--~s~~~l~~R~~~~  118 (315)
T 3bh0_A           67 RRNFVLIAARPSMGKTAFALKQAKNMSDND--DVVNLHSLE--MGKKENIKRLIVT  118 (315)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHHHHHTTT--CEEEEEESS--SCHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHHcC--CeEEEEECC--CCHHHHHHHHHHH
Confidence            346889999999999999999987765433  578888766  3466666665543

>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=96.03  E-value=0.0045  Score=47.09  Aligned_cols=25  Identities=28%  Similarity=0.457  Sum_probs=22.4

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..+++|+|..|+|||||+..+....
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~~l   30 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIPAL   30 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhc
Confidence            5789999999999999999998764

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=96.03  E-value=0.0021  Score=48.82  Aligned_cols=26  Identities=27%  Similarity=0.330  Sum_probs=22.6

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      .+++|+|..|+|||||++.+..-...
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~~~   28 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPILRE   28 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhhh
Confidence            57999999999999999998876543

>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=96.03  E-value=0.0043  Score=47.99  Aligned_cols=24  Identities=38%  Similarity=0.595  Sum_probs=21.5

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhc
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      +|+|.|+.|+||||+++.+.....
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            899999999999999999987643

>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=96.01  E-value=0.0044  Score=47.48  Aligned_cols=25  Identities=24%  Similarity=0.313  Sum_probs=22.1

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.++|+|..|+|||||++.+....
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            4578999999999999999998764

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=96.00  E-value=0.0033  Score=49.86  Aligned_cols=26  Identities=31%  Similarity=0.369  Sum_probs=22.2

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        29 ~Ge~~~iiG~nGsGKSTLl~~l~Gl~   54 (224)
T 2pcj_A           29 KGEFVSIIGASGSGKSTLLYILGLLD   54 (224)
T ss_dssp             TTCEEEEEECTTSCHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            44689999999999999999988543

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=95.98  E-value=0.0033  Score=49.27  Aligned_cols=25  Identities=40%  Similarity=0.347  Sum_probs=22.0

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHH
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      .-.+++|+|..|+|||||++.+..-
T Consensus        21 ~Ge~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           21 TNTIVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             HCSEEEEECCTTSSTTHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3458899999999999999999865

>3io5_A Recombination and repair protein; storage dimer, inactive conformation, RECA like core domain, binding, DNA damage, DNA recombination; 2.40A {Enterobacteria phage T4}

Probab=95.94  E-value=0.015  Score=48.52  Aligned_cols=55  Identities=9%  Similarity=-0.024  Sum_probs=41.2

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhCCCCC
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGLIFF  233 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~~l~~~~~  233 (250)
                      +++-|.|.+|+|||||+-++.....-...=..++|++..++++..     -++++|.+.+
T Consensus        29 GiteI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId~E~s~~~~-----ra~~lGvd~d   83 (333)
T 3io5_A           29 GLLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYDSEFGITPA-----YLRSMGVDPE   83 (333)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEESSCCCCHH-----HHHHTTCCGG
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEeccchhhHH-----HHHHhCCCHH
Confidence            378899999999999998887665421112478999998888864     3788887754

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=95.92  E-value=0.022  Score=45.22  Aligned_cols=27  Identities=30%  Similarity=0.321  Sum_probs=22.8

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      -..++|.|++|+||||+++.+.+....
T Consensus         8 ~~~~~~~G~pGsGKsT~a~~L~~~~g~   34 (230)
T 3gmt_A            8 HMRLILLGAPGAGKGTQANFIKEKFGI   34 (230)
T ss_dssp             -CEEEEECCTTSCHHHHHHHHHHHHTC
T ss_pred             ccceeeECCCCCCHHHHHHHHHHHhCC
Confidence            346799999999999999999987753

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=95.92  E-value=0.0054  Score=52.22  Aligned_cols=27  Identities=30%  Similarity=0.362  Sum_probs=23.9

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ...+++|+|..|+||||+++.+..-..
T Consensus       156 ~g~vi~lvG~nGsGKTTll~~Lag~l~  182 (359)
T 2og2_A          156 KPAVIMIVGVNGGGKTTSLGKLAHRLK  182 (359)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHhhcc
Confidence            457999999999999999999987764

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=95.92  E-value=0.0056  Score=47.87  Aligned_cols=24  Identities=25%  Similarity=0.313  Sum_probs=21.1

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhc
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .|.|.|+.|+||||+++.+.+...
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            478999999999999999987653

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.92  E-value=0.016  Score=50.24  Aligned_cols=49  Identities=31%  Similarity=0.390  Sum_probs=38.0

Q ss_pred             cCCCcChHHHHHHHHHHhc----C---------CCceEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          151 YEAFESRSSTLNNVLRALQ----D---------PDVNMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       151 ~~~~~gr~~~~~~l~~~L~----~---------~~~~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      ..++.|.+..+++|.+.+.    .         ..++=|-++|++|+|||.||+.+.+....
T Consensus       181 ~~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~~~  242 (437)
T 4b4t_I          181 YSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSA  242 (437)
T ss_dssp             GGGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHHTC
T ss_pred             ceecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHhCC
Confidence            4567788887777766543    2         24567889999999999999999988763

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=95.91  E-value=0.0056  Score=50.94  Aligned_cols=28  Identities=29%  Similarity=0.356  Sum_probs=24.2

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....+|.|+|.+|+||||++..+.....
T Consensus       102 ~~~~vi~ivG~~GsGKTTl~~~LA~~l~  129 (306)
T 1vma_A          102 EPPFVIMVVGVNGTGKTTSCGKLAKMFV  129 (306)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCCeEEEEEcCCCChHHHHHHHHHHHHH
Confidence            3467999999999999999999887664

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=95.90  E-value=0.021  Score=49.77  Aligned_cols=28  Identities=29%  Similarity=0.364  Sum_probs=24.2

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      ...+|.++|.+|+||||++..+......
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~l~~  123 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYFYKK  123 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            4789999999999999999998876653

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=95.90  E-value=0.0039  Score=50.72  Aligned_cols=26  Identities=23%  Similarity=0.386  Sum_probs=22.5

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        31 ~Ge~~~liG~nGsGKSTLlk~l~Gl~   56 (262)
T 1b0u_A           31 AGDVISIIGSSGSGKSTFLRCINFLE   56 (262)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45689999999999999999988543

>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=95.89  E-value=0.0048  Score=49.77  Aligned_cols=25  Identities=32%  Similarity=0.409  Sum_probs=22.2

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHH
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      .-.+++|+|..|+|||||++.+..-
T Consensus        28 ~Ge~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           28 KGEVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4468999999999999999999974

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=95.89  E-value=0.0056  Score=48.05  Aligned_cols=25  Identities=24%  Similarity=0.387  Sum_probs=22.0

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ..|.|.|++|+||||+++.+.....
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            4689999999999999999987764

>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=95.88  E-value=0.005  Score=47.39  Aligned_cols=25  Identities=24%  Similarity=0.313  Sum_probs=21.7

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ...++|+|..|+|||||.+.+....
T Consensus         5 ~~kv~lvG~~g~GKSTLl~~l~~~~   29 (199)
T 2f9l_A            5 LFKVVLIGDSGVGKSNLLSRFTRNE   29 (199)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcCC
Confidence            3568999999999999999998763

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=95.88  E-value=0.006  Score=48.69  Aligned_cols=26  Identities=27%  Similarity=0.517  Sum_probs=23.0

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ..+|.|.|+.|+||||+++.+.....
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            46899999999999999999987664

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=95.88  E-value=0.0057  Score=48.28  Aligned_cols=23  Identities=30%  Similarity=0.420  Sum_probs=20.8

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .|.|.|+.|+||||+++.+....
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~~l   24 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKDKY   24 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            57899999999999999998765

>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=95.88  E-value=0.0047  Score=49.43  Aligned_cols=26  Identities=23%  Similarity=0.442  Sum_probs=22.5

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        30 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           30 EGALVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTCS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45689999999999999999998654

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=95.86  E-value=0.0068  Score=47.41  Aligned_cols=24  Identities=38%  Similarity=0.461  Sum_probs=21.8

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhc
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      +|.+.|++|+||+|.|+.+..+..
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            578999999999999999998875

>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=95.86  E-value=0.0064  Score=45.75  Aligned_cols=35  Identities=26%  Similarity=0.376  Sum_probs=27.3

Q ss_pred             HHHHHHHhcC-CCceEEEEEccCCCCHHHHHHHHHH
Q 036637          161 LNNVLRALQD-PDVNMVGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       161 ~~~l~~~L~~-~~~~vi~I~G~gGvGKTtLa~~v~~  195 (250)
                      ..++++.+.+ .....|.|+|.+|+|||||...+.+
T Consensus         5 ~~~~~~~~~~~~~~~~i~v~G~~~~GKssli~~l~~   40 (183)
T 1moz_A            5 FSSMFDKLWGSNKELRILILGLDGAGKTTILYRLQI   40 (183)
T ss_dssp             HHHHHGGGTTCSSCEEEEEEEETTSSHHHHHHHTCC
T ss_pred             HHHHHHHhcCCCCccEEEEECCCCCCHHHHHHHHhc
Confidence            3445555565 5667789999999999999998874

>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=95.85  E-value=0.013  Score=51.67  Aligned_cols=48  Identities=25%  Similarity=0.358  Sum_probs=34.4

Q ss_pred             cCCCcChHHHHHHHHHH---hcCC---------CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          151 YEAFESRSSTLNNVLRA---LQDP---------DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       151 ~~~~~gr~~~~~~l~~~---L~~~---------~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ...+.|.+..++++.+.   +...         -++-+.++|++|+||||||+.+.+...
T Consensus        15 f~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~~   74 (476)
T 2ce7_A           15 FKDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEAN   74 (476)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             HHHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHcC
Confidence            34678887766555544   3221         233477999999999999999998775

>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=95.85  E-value=0.0042  Score=49.76  Aligned_cols=26  Identities=31%  Similarity=0.360  Sum_probs=22.4

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||.+.++.-.
T Consensus        31 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~   56 (240)
T 1ji0_A           31 RGQIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            44689999999999999999998654

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=95.84  E-value=0.0057  Score=54.40  Aligned_cols=44  Identities=25%  Similarity=0.335  Sum_probs=35.4

Q ss_pred             CCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          152 EAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       152 ~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..++|.+..++.+...+...  .-+-++|.+|+|||+||+.+.+..
T Consensus        22 ~~ivGq~~~i~~l~~al~~~--~~VLL~GpPGtGKT~LAraLa~~l   65 (500)
T 3nbx_X           22 KGLYERSHAIRLCLLAALSG--ESVFLLGPPGIAKSLIARRLKFAF   65 (500)
T ss_dssp             TTCSSCHHHHHHHHHHHHHT--CEEEEECCSSSSHHHHHHHGGGGB
T ss_pred             hhhHHHHHHHHHHHHHHhcC--CeeEeecCchHHHHHHHHHHHHHH
Confidence            35788888888877776644  356799999999999999998755

>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=95.83  E-value=0.0052  Score=50.09  Aligned_cols=25  Identities=32%  Similarity=0.399  Sum_probs=22.5

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHH
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      .-.+++|+|..|+|||||++.++.-
T Consensus        45 ~Ge~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           45 PGEVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4568999999999999999999974

>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=95.83  E-value=0.0043  Score=50.27  Aligned_cols=26  Identities=27%  Similarity=0.307  Sum_probs=22.3

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||.+.+..-.
T Consensus        32 ~Ge~~~liG~nGsGKSTLlk~l~Gl~   57 (257)
T 1g6h_A           32 KGDVTLIIGPNGSGKSTLINVITGFL   57 (257)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            44689999999999999999987544

>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=95.82  E-value=0.0049  Score=50.48  Aligned_cols=26  Identities=27%  Similarity=0.385  Sum_probs=22.3

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        33 ~Ge~~~iiGpnGsGKSTLl~~l~Gl~   58 (275)
T 3gfo_A           33 RGEVTAILGGNGVGKSTLFQNFNGIL   58 (275)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHcCC
Confidence            45689999999999999999987543

>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=95.82  E-value=0.0044  Score=49.27  Aligned_cols=26  Identities=23%  Similarity=0.358  Sum_probs=22.7

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        33 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           33 RGQLLAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45689999999999999999998654

>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=95.81  E-value=0.0061  Score=50.21  Aligned_cols=23  Identities=30%  Similarity=0.456  Sum_probs=21.1

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHH
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      .+|.|.|++|+||||+++.+...
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

>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=95.80  E-value=0.011  Score=53.07  Aligned_cols=46  Identities=26%  Similarity=0.382  Sum_probs=34.5

Q ss_pred             CCcChHHHHHHHHHHhc------CCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          153 AFESRSSTLNNVLRALQ------DPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       153 ~~~gr~~~~~~l~~~L~------~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .++|.+.-++.+.+.+.      +-....+.++|.+|+||||||+.+.+...
T Consensus        82 di~G~~~vk~~i~~~~~l~~~~~~~~g~~vll~Gp~GtGKTtlar~ia~~l~  133 (543)
T 3m6a_A           82 EHHGLEKVKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAKSLG  133 (543)
T ss_dssp             HCSSCHHHHHHHHHHHHHHHHSSSCCSCEEEEESSSSSSHHHHHHHHHHHHT
T ss_pred             HhccHHHHHHHHHHHHHHHHhcccCCCCEEEEECCCCCCHHHHHHHHHHhcC
Confidence            46777766666554433      23456899999999999999999998763

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=95.79  E-value=0.0064  Score=49.36  Aligned_cols=27  Identities=19%  Similarity=0.249  Sum_probs=23.1

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..-.+++|+|..|+|||||++.+..-.
T Consensus        23 ~~g~~v~i~Gp~GsGKSTll~~l~g~~   49 (261)
T 2eyu_A           23 RKMGLILVTGPTGSGKSTTIASMIDYI   49 (261)
T ss_dssp             CSSEEEEEECSTTCSHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCccHHHHHHHHHHhC
Confidence            456799999999999999999987643

>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=95.79  E-value=0.0049  Score=49.48  Aligned_cols=26  Identities=19%  Similarity=0.298  Sum_probs=22.6

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (243)
T 1mv5_A           27 PNSIIAFAGPSGGGKSTIFSLLERFY   52 (243)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45689999999999999999988653

>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=95.78  E-value=0.0091  Score=45.23  Aligned_cols=35  Identities=26%  Similarity=0.406  Sum_probs=27.7

Q ss_pred             HHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHH
Q 036637          161 LNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       161 ~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      +.++.+ +.......|.|+|.+|+|||||...+.+.
T Consensus         5 ~~~~~~-~~~~~~~~i~v~G~~~~GKssl~~~l~~~   39 (187)
T 1zj6_A            5 FTRIWR-LFNHQEHKVIIVGLDNAGKTTILYQFSMN   39 (187)
T ss_dssp             HHHHHH-HHTTSCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHHHH-hcCCCccEEEEECCCCCCHHHHHHHHhcC
Confidence            345566 45566677899999999999999999854

>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=95.78  E-value=0.004  Score=49.02  Aligned_cols=26  Identities=42%  Similarity=0.577  Sum_probs=22.3

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.++.-.
T Consensus        34 ~Ge~~~iiG~NGsGKSTLlk~l~Gl~   59 (214)
T 1sgw_A           34 KGNVVNFHGPNGIGKTTLLKTISTYL   59 (214)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            44588999999999999999998654

>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=95.77  E-value=0.0047  Score=50.26  Aligned_cols=26  Identities=23%  Similarity=0.346  Sum_probs=22.6

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        49 ~Gei~~liG~NGsGKSTLlk~l~Gl~   74 (263)
T 2olj_A           49 EGEVVVVIGPSGSGKSTFLRCLNLLE   74 (263)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEEcCCCCcHHHHHHHHHcCC
Confidence            55689999999999999999988644

>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=95.76  E-value=0.0048  Score=49.70  Aligned_cols=26  Identities=35%  Similarity=0.572  Sum_probs=22.4

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        34 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   59 (247)
T 2ff7_A           34 QGEVIGIVGRSGSGKSTLTKLIQRFY   59 (247)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45689999999999999999987654

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=95.76  E-value=0.0073  Score=47.90  Aligned_cols=26  Identities=31%  Similarity=0.273  Sum_probs=22.6

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ...|.+.|+.|+||||+++.+.+...
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            35789999999999999999987764

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=95.76  E-value=0.0069  Score=51.07  Aligned_cols=25  Identities=40%  Similarity=0.476  Sum_probs=22.4

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .+|+|+|+.|+||||||+.+.....
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            5899999999999999999987753

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=95.75  E-value=0.0069  Score=53.61  Aligned_cols=27  Identities=33%  Similarity=0.474  Sum_probs=23.8

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ...+++|+|..|+|||||++.+..-..
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~~LAgll~  318 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIGKLARQFE  318 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCcccHHHHHHHHHHHhh
Confidence            467999999999999999999987654

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=95.75  E-value=0.0061  Score=49.77  Aligned_cols=23  Identities=26%  Similarity=0.413  Sum_probs=20.9

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .++|+|..|+|||||.+.++.-.
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g~~   26 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFKSQ   26 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57999999999999999999765

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A

Probab=95.75  E-value=0.021  Score=48.52  Aligned_cols=44  Identities=32%  Similarity=0.408  Sum_probs=33.7

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCH
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDI  217 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~  217 (250)
                      .-.++.|.|.+|+||||||.++.......+  ..++|++....++.
T Consensus        62 ~G~ii~I~G~pGsGKTtLal~la~~~~~~g--~~vlyid~E~s~~~  105 (356)
T 1u94_A           62 MGRIVEIYGPESSGKTTLTLQVIAAAQREG--KTCAFIDAEHALDP  105 (356)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHHHTT--CCEEEEESSCCCCH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHCC--CeEEEEeCCCCccH
Confidence            346889999999999999999887654322  35788888776654

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=95.75  E-value=0.0076  Score=44.15  Aligned_cols=24  Identities=25%  Similarity=0.308  Sum_probs=20.8

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..|.++|.+|+|||||+..+.+..
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~   25 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKKR   25 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            457999999999999999988654

>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=95.74  E-value=0.0055  Score=49.92  Aligned_cols=26  Identities=35%  Similarity=0.446  Sum_probs=22.4

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        36 ~Ge~~~liG~nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           36 SGEMVAIIGPNGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             TTCEEEEECCTTSCHHHHHHHHTSSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            45689999999999999999988643

>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=95.73  E-value=0.0098  Score=44.97  Aligned_cols=32  Identities=34%  Similarity=0.479  Sum_probs=25.2

Q ss_pred             HHHhcC--CCceEEEEEccCCCCHHHHHHHHHHH
Q 036637          165 LRALQD--PDVNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       165 ~~~L~~--~~~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      ++.+..  .....|.|+|.+|+|||||...+.+.
T Consensus         6 ~~~~~~~~~~~~ki~ivG~~~vGKSsL~~~l~~~   39 (181)
T 1fzq_A            6 LRKLKSAPDQEVRILLLGLDNAGKTTLLKQLASE   39 (181)
T ss_dssp             HHHCSSCCSSCEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             HHHHhccCCCceEEEEECCCCCCHHHHHHHHhcC
Confidence            444444  45667899999999999999998765

>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=95.73  E-value=0.0066  Score=45.16  Aligned_cols=23  Identities=17%  Similarity=0.339  Sum_probs=20.4

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHH
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      ..|+|+|.+|+|||||.+.+.+.
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            46899999999999999998763

>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=95.72  E-value=0.005  Score=49.86  Aligned_cols=26  Identities=27%  Similarity=0.479  Sum_probs=22.6

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        40 ~Gei~~l~G~NGsGKSTLlk~l~Gl~   65 (256)
T 1vpl_A           40 EGEIFGLIGPNGAGKTTTLRIISTLI   65 (256)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            45689999999999999999998653

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=95.72  E-value=0.01  Score=47.70  Aligned_cols=27  Identities=33%  Similarity=0.370  Sum_probs=23.2

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ...++.+.|.||+||||++..+.....
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            356888999999999999999987665

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=95.72  E-value=0.0038  Score=51.57  Aligned_cols=27  Identities=19%  Similarity=0.386  Sum_probs=20.1

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ....+|+|.|..|+||||+++.+.+..
T Consensus         3 ~~~~iIgItG~sGSGKSTva~~L~~~l   29 (290)
T 1a7j_A            3 KKHPIISVTGSSGAGTSTVKHTFDQIF   29 (290)
T ss_dssp             TTSCEEEEESCC---CCTHHHHHHHHH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHHH
Confidence            345689999999999999999988753

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=95.71  E-value=0.0075  Score=50.49  Aligned_cols=28  Identities=29%  Similarity=0.444  Sum_probs=23.9

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....+|+|+|.+|+||||++..+..-..
T Consensus       103 ~~~~vI~ivG~~G~GKTT~~~~LA~~l~  130 (320)
T 1zu4_A          103 NRLNIFMLVGVNGTGKTTSLAKMANYYA  130 (320)
T ss_dssp             TSCEEEEEESSTTSSHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4568999999999999999999876654

>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=95.71  E-value=0.0066  Score=44.51  Aligned_cols=23  Identities=26%  Similarity=0.538  Sum_probs=20.5

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|.++|.+|+|||||+..+.+..
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            47899999999999999998764

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=95.71  E-value=0.0051  Score=50.27  Aligned_cols=26  Identities=23%  Similarity=0.349  Sum_probs=22.7

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.++.-.
T Consensus        44 ~Ge~~~i~G~nGsGKSTLlk~l~Gl~   69 (271)
T 2ixe_A           44 PGKVTALVGPNGSGKSTVAALLQNLY   69 (271)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            55689999999999999999998654

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=95.70  E-value=0.0052  Score=49.86  Aligned_cols=26  Identities=27%  Similarity=0.353  Sum_probs=22.5

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        45 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   70 (260)
T 2ghi_A           45 SGTTCALVGHTGSGKSTIAKLLYRFY   70 (260)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccC
Confidence            45689999999999999999997643

>1g41_A Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dependent proteolysis, chaperone; HET: ADP; 2.30A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1g3i_A* 1im2_A* 1kyi_A* 1g4a_E* 1g4b_E 1yyf_A* 1do0_A* 1do2_A* 1e94_E* 1hqy_E* 1ht1_E* 1ht2_E*

Probab=95.69  E-value=0.008  Score=52.56  Aligned_cols=48  Identities=21%  Similarity=0.265  Sum_probs=36.6

Q ss_pred             CCCcChHHHHHHHHHHhcC--------------CCceEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          152 EAFESRSSTLNNVLRALQD--------------PDVNMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       152 ~~~~gr~~~~~~l~~~L~~--------------~~~~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      ..++|.+..++.+...+..              ...+-|-++|++|+||||+|+.+......
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            3578888888777666521              13456889999999999999999987753

>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain, PIN-tower interface, coupling hydrolysis to DNA unwinding, ssDNA; 3.30A {Enterobacteria phage T4}

Probab=95.67  E-value=0.015  Score=51.09  Aligned_cols=42  Identities=29%  Similarity=0.411  Sum_probs=31.0

Q ss_pred             hHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          157 RSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       157 r~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      ....+..++.++.+.+ +.+.|.|.+|+||||++..+......
T Consensus        30 Q~~av~~~~~~i~~~~-~~~li~G~aGTGKT~ll~~~~~~l~~   71 (459)
T 3upu_A           30 QKNAFNIVMKAIKEKK-HHVTINGPAGTGATTLTKFIIEALIS   71 (459)
T ss_dssp             HHHHHHHHHHHHHSSS-CEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCC-CEEEEEeCCCCCHHHHHHHHHHHHHh
Confidence            3445555555655443 38899999999999999998877753

>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=95.66  E-value=0.0071  Score=44.61  Aligned_cols=25  Identities=16%  Similarity=0.332  Sum_probs=21.4

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .--|.|+|.+|+|||||+..+.+..
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            3457899999999999999998754

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=95.66  E-value=0.0055  Score=49.91  Aligned_cols=26  Identities=31%  Similarity=0.282  Sum_probs=22.4

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.++.-.
T Consensus        32 ~Ge~~~liG~nGsGKSTLl~~i~Gl~   57 (266)
T 2yz2_A           32 EGECLLVAGNTGSGKSTLLQIVAGLI   57 (266)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            45689999999999999999988643

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=95.65  E-value=0.0079  Score=47.14  Aligned_cols=53  Identities=21%  Similarity=0.260  Sum_probs=33.4

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhCC
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGL  230 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~~l~~  230 (250)
                      -.++.|+|..|+|||||++.+.......+  ..++|+....  ....+...+ .+++.
T Consensus        23 G~~~~i~G~~GsGKTtl~~~l~~~~~~~~--~~v~~~~~~~--~~~~~~~~~-~~~~~   75 (235)
T 2w0m_A           23 GFFIALTGEPGTGKTIFSLHFIAKGLRDG--DPCIYVTTEE--SRDSIIRQA-KQFNW   75 (235)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHHHHHHT--CCEEEEESSS--CHHHHHHHH-HHTTC
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHHCC--CeEEEEEccc--CHHHHHHHH-HHhcc
Confidence            46889999999999999999986543211  2455655433  344444433 24443

>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=95.65  E-value=0.0056  Score=49.36  Aligned_cols=26  Identities=27%  Similarity=0.324  Sum_probs=22.1

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        25 ~Ge~~~liG~NGsGKSTLlk~l~Gl~   50 (249)
T 2qi9_C           25 AGEILHLVGPNGAGKSTLLARMAGMT   50 (249)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            34588999999999999999987643

>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=95.63  E-value=0.0084  Score=46.33  Aligned_cols=37  Identities=16%  Similarity=0.107  Sum_probs=21.8

Q ss_pred             HHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          161 LNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       161 ~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .+.+-+.......-.|.|+|.+|+|||||+..+.++.
T Consensus        18 ~~~m~~~~~~~~~~ki~vvG~~~~GKSsLi~~l~~~~   54 (204)
T 4gzl_A           18 GSHMENLYFQGQAIKCVVVGDGAVGKTCLLISYTTNA   54 (204)
T ss_dssp             ------------CEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             hhHHHhHhhcCCeEEEEEECcCCCCHHHHHHHHHhCC
Confidence            3333343444555677999999999999999888754

>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=95.62  E-value=0.0063  Score=46.14  Aligned_cols=21  Identities=38%  Similarity=0.441  Sum_probs=19.1

Q ss_pred             EEEEEccCCCCHHHHHHHHHH
Q 036637          175 MVGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~  195 (250)
                      -|+|+|.+|+|||||++.+.+
T Consensus         4 kv~ivG~~gvGKStLl~~l~~   24 (184)
T 2zej_A            4 KLMIVGNTGSGKTTLLQQLMK   24 (184)
T ss_dssp             EEEEESCTTSSHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            478999999999999999876

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=95.61  E-value=0.0058  Score=50.15  Aligned_cols=26  Identities=31%  Similarity=0.359  Sum_probs=22.5

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        46 ~Ge~~~liG~NGsGKSTLlk~l~Gl~   71 (279)
T 2ihy_A           46 KGDKWILYGLNGAGKTTLLNILNAYE   71 (279)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            45689999999999999999988654

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=95.61  E-value=0.0067  Score=45.90  Aligned_cols=23  Identities=17%  Similarity=0.339  Sum_probs=20.8

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHH
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      ..|+++|.+|+|||||+..+.+.
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            46899999999999999999874

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=95.60  E-value=0.0058  Score=49.38  Aligned_cols=26  Identities=23%  Similarity=0.350  Sum_probs=22.5

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        30 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           30 KGDILAVLGQNGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             TTCEEEEECCSSSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            44589999999999999999998654

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=95.60  E-value=0.0091  Score=47.44  Aligned_cols=26  Identities=35%  Similarity=0.445  Sum_probs=22.4

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ...+|+|+|+.|+||||+++.+....
T Consensus        15 ~~~~i~i~G~~gsGKst~~~~l~~~l   40 (236)
T 1q3t_A           15 KTIQIAIDGPASSGKSTVAKIIAKDF   40 (236)
T ss_dssp             CCCEEEEECSSCSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            45689999999999999999988654

>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=95.60  E-value=0.0074  Score=50.16  Aligned_cols=27  Identities=22%  Similarity=0.356  Sum_probs=23.8

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      +.-.+++|+|..|+|||||++.+..-.
T Consensus       124 ~~Ge~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          124 PKKNCLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             TTCSEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhhhc
Confidence            456789999999999999999998765

>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=95.59  E-value=0.0077  Score=45.69  Aligned_cols=24  Identities=25%  Similarity=0.497  Sum_probs=21.2

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -.|.++|.+|+|||||+..+.+..
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            467899999999999999998765

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=95.58  E-value=0.0098  Score=47.39  Aligned_cols=26  Identities=23%  Similarity=0.308  Sum_probs=23.1

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ...|.|.|..|+||||+++.+.+...
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            46799999999999999999998763

>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=95.55  E-value=0.013  Score=45.07  Aligned_cols=32  Identities=28%  Similarity=0.288  Sum_probs=24.2

Q ss_pred             HHHHh-cCCCceEEEEEccCCCCHHHHHHHHHH
Q 036637          164 VLRAL-QDPDVNMVGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       164 l~~~L-~~~~~~vi~I~G~gGvGKTtLa~~v~~  195 (250)
                      +++.+ .......|+++|.+|+|||||+..+.+
T Consensus        15 ~l~~~~~~~~~~ki~lvG~~~vGKSsLi~~l~~   47 (198)
T 1f6b_A           15 VLQFLGLYKKTGKLVFLGLDNAGKTTLLHMLKD   47 (198)
T ss_dssp             HHHHHTCTTCCEEEEEEEETTSSHHHHHHHHSC
T ss_pred             HHHHhhccCCCcEEEEECCCCCCHHHHHHHHhc
Confidence            44444 244455689999999999999999874

>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase, ultrahigh resolution, protein transport; 1.10A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B* 1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B* 2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 2xkv_A 3ng1_A 1ffh_A 2ng1_A*

Probab=95.54  E-value=0.0092  Score=49.33  Aligned_cols=27  Identities=37%  Similarity=0.524  Sum_probs=23.8

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ...+++++|.+|+||||++..+..-..
T Consensus        97 ~~~~i~i~g~~G~GKTT~~~~la~~~~  123 (295)
T 1ls1_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYK  123 (295)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            467999999999999999999987764

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=95.54  E-value=0.022  Score=50.55  Aligned_cols=49  Identities=24%  Similarity=0.319  Sum_probs=34.3

Q ss_pred             CcCCCcChHHHHHHHHHH---hcCC---------CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          150 DYEAFESRSSTLNNVLRA---LQDP---------DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~---L~~~---------~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....+.|.+..+.++.+.   +.+.         -.+=+.++|.+|+||||||+.+.+...
T Consensus        29 ~f~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~~   89 (499)
T 2dhr_A           29 TFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEAR   89 (499)
T ss_dssp             CTTSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHTT
T ss_pred             CHHHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHhC
Confidence            345688887665555443   3221         122388999999999999999998764

>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=95.53  E-value=0.0085  Score=44.05  Aligned_cols=24  Identities=29%  Similarity=0.465  Sum_probs=21.2

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-|.++|.+|+|||||+..+.+..
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            457899999999999999998765

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=95.52  E-value=0.052  Score=48.22  Aligned_cols=27  Identities=30%  Similarity=0.474  Sum_probs=22.3

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ...+|.|+|.+|+||||++..+.....
T Consensus       100 ~~~vI~ivG~~GvGKTTl~~kLA~~l~  126 (504)
T 2j37_W          100 KQNVIMFVGLQGSGKTTTCSKLAYYYQ  126 (504)
T ss_dssp             --EEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            467999999999999999999886654

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=95.52  E-value=0.0094  Score=49.88  Aligned_cols=24  Identities=29%  Similarity=0.296  Sum_probs=22.0

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .+|.|+|+.|+|||||++.+....
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~l   29 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADAL   29 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            589999999999999999998765

>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=95.52  E-value=0.025  Score=45.10  Aligned_cols=52  Identities=17%  Similarity=0.218  Sum_probs=34.5

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHH
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIA  225 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~  225 (250)
                      ...|.|.|..|+||||+++.+.+..... .+.......-+......+.++.++
T Consensus        27 ~~~i~~eG~~GsGKsT~~~~l~~~l~~~-~~~~~~~~rep~~t~~g~~ir~~l   78 (236)
T 3lv8_A           27 AKFIVIEGLEGAGKSTAIQVVVETLQQN-GIDHITRTREPGGTLLAEKLRALV   78 (236)
T ss_dssp             CCEEEEEESTTSCHHHHHHHHHHHHHHT-TCCCEEEEESSCSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhc-CCCeeeeecCCCCCHHHHHHHHHH
Confidence            4689999999999999999999887643 466444443332223334444444

>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=95.52  E-value=0.02  Score=49.07  Aligned_cols=28  Identities=29%  Similarity=0.108  Sum_probs=24.2

Q ss_pred             CCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          170 DPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       170 ~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -....+++|+|+.|+|||||++.+....
T Consensus       166 i~~~~~i~l~G~~GsGKSTl~~~l~~~~  193 (377)
T 1svm_A          166 IPKKRYWLFKGPIDSGKTTLAAALLELC  193 (377)
T ss_dssp             CTTCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            3456799999999999999999999754

>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=95.52  E-value=0.0087  Score=44.08  Aligned_cols=23  Identities=26%  Similarity=0.530  Sum_probs=20.5

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|.|+|.+|+|||||...+.+..
T Consensus         5 ki~v~G~~~~GKssli~~l~~~~   27 (167)
T 1c1y_A            5 KLVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            57899999999999999998754

>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=95.51  E-value=0.0093  Score=43.86  Aligned_cols=22  Identities=23%  Similarity=0.366  Sum_probs=20.0

Q ss_pred             EEEEccCCCCHHHHHHHHHHHh
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      |.++|.+|+|||||+..+.+..
T Consensus         3 i~~~G~~~~GKssl~~~l~~~~   24 (164)
T 1r8s_A            3 ILMVGLDAAGKTTILYKLKLGE   24 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            7899999999999999998765

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=95.50  E-value=0.014  Score=53.27  Aligned_cols=47  Identities=17%  Similarity=0.194  Sum_probs=37.0

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          150 DYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....++|.+..++.+...+...  ..+.|+|..|+||||||+.+..-..
T Consensus        39 ~l~~i~G~~~~l~~l~~~i~~g--~~vll~Gp~GtGKTtlar~ia~~l~   85 (604)
T 3k1j_A           39 LIDQVIGQEHAVEVIKTAANQK--RHVLLIGEPGTGKSMLGQAMAELLP   85 (604)
T ss_dssp             HHHHCCSCHHHHHHHHHHHHTT--CCEEEECCTTSSHHHHHHHHHHTSC
T ss_pred             ccceEECchhhHhhccccccCC--CEEEEEeCCCCCHHHHHHHHhccCC
Confidence            3456889888787766666544  5789999999999999999988653

>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=95.50  E-value=0.0085  Score=45.47  Aligned_cols=24  Identities=33%  Similarity=0.209  Sum_probs=20.1

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHH
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      .--|.|+|.+|+|||||++.+.+.
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            346799999999999999877654

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=95.46  E-value=0.011  Score=44.82  Aligned_cols=26  Identities=23%  Similarity=0.123  Sum_probs=22.3

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ....|.|+|.+|+|||||+..+.+..
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            45578999999999999999988754

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=95.45  E-value=0.0092  Score=51.82  Aligned_cols=28  Identities=29%  Similarity=0.471  Sum_probs=23.8

Q ss_pred             CCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          170 DPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       170 ~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .....+|.|+|++|+||||+++.+....
T Consensus       255 ~~~~~lIil~G~pGSGKSTla~~L~~~~  282 (416)
T 3zvl_A          255 SPNPEVVVAVGFPGAGKSTFIQEHLVSA  282 (416)
T ss_dssp             CSSCCEEEEESCTTSSHHHHHHHHTGGG
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHhc
Confidence            3467899999999999999999987543

>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=95.45  E-value=0.0059  Score=48.40  Aligned_cols=25  Identities=32%  Similarity=0.155  Sum_probs=22.2

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHH
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      ...+|+|.|..|+|||||++.+...
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            4579999999999999999998765

>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=95.45  E-value=0.01  Score=45.34  Aligned_cols=26  Identities=23%  Similarity=0.256  Sum_probs=20.7

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHH
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      .....|.++|.+|+|||||...+.++
T Consensus        21 ~~~~ki~~vG~~~vGKSsli~~l~~~   46 (190)
T 1m2o_B           21 NKHGKLLFLGLDNAGKTTLLHMLKND   46 (190)
T ss_dssp             ---CEEEEEESTTSSHHHHHHHHHHS
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcC
Confidence            34457899999999999999999874

>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A

Probab=95.43  E-value=0.03  Score=48.64  Aligned_cols=57  Identities=23%  Similarity=0.284  Sum_probs=36.1

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHH--HHHHHHHHHhCCC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIR--KIQGEIADKLGLI  231 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~--~l~~~i~~~l~~~  231 (250)
                      ...+|.++|.+|+||||++..+..-.... .. .+..+.. ..+...  +-+.....+.+++
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~LA~~l~~~-g~-~Vllvd~-D~~r~aa~~qL~~~~~~~gv~  155 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKGK-GR-RPLLVAA-DTQRPAAREQLRLLGEKVGVP  155 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTT-TC-CEEEEEC-CSSCHHHHHHHHHHHHHHTCC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc-CC-eEEEeec-cccCchhHHHHHHhcccCCcc
Confidence            46799999999999999999998777533 22 2333332 333332  2244455566665

>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=95.42  E-value=0.0096  Score=44.03  Aligned_cols=24  Identities=29%  Similarity=0.293  Sum_probs=21.1

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      --|.|+|.+|+|||||+..+.+..
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~~   30 (170)
T 1z08_A            7 FKVVLLGEGCVGKTSLVLRYCENK   30 (170)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHCC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            467999999999999999998764

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=95.42  E-value=0.015  Score=48.42  Aligned_cols=40  Identities=23%  Similarity=0.372  Sum_probs=29.2

Q ss_pred             HHHHHHHHHhcCC---CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          159 STLNNVLRALQDP---DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       159 ~~~~~l~~~L~~~---~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ..+..+.+++...   ...-+-++|.+|+|||+||..+++...
T Consensus       135 ~~~~~~~~~i~~~~~~~~~~lll~G~~GtGKT~La~aia~~~~  177 (308)
T 2qgz_A          135 EAFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHELS  177 (308)
T ss_dssp             HHHHHHHHHHHHCSCSSCCEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCceEEEECCCCCCHHHHHHHHHHHHH
Confidence            3444555555521   246788999999999999999998765

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=95.41  E-value=0.026  Score=46.63  Aligned_cols=26  Identities=31%  Similarity=0.434  Sum_probs=23.0

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ..+++++|.+|+||||++..+.....
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~~~  123 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYFYK  123 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            67999999999999999999887664

>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=95.40  E-value=0.01  Score=43.61  Aligned_cols=23  Identities=30%  Similarity=0.525  Sum_probs=20.4

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|.|+|.+|+|||||+..+.+..
T Consensus         5 ~i~v~G~~~~GKSsli~~l~~~~   27 (167)
T 1kao_A            5 KVVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            57999999999999999988664

>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=95.40  E-value=0.016  Score=50.40  Aligned_cols=35  Identities=20%  Similarity=0.172  Sum_probs=27.6

Q ss_pred             HHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          163 NVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       163 ~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .+.+. ....-.+++|+|..|+|||||++.+.....
T Consensus       158 ~L~~l-~~~~ggii~I~GpnGSGKTTlL~allg~l~  192 (418)
T 1p9r_A          158 NFRRL-IKRPHGIILVTGPTGSGKSTTLYAGLQELN  192 (418)
T ss_dssp             HHHHH-HTSSSEEEEEECSTTSCHHHHHHHHHHHHC
T ss_pred             HHHHH-HHhcCCeEEEECCCCCCHHHHHHHHHhhcC
Confidence            33343 446667999999999999999999987664

>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=95.39  E-value=0.0091  Score=48.72  Aligned_cols=44  Identities=25%  Similarity=0.332  Sum_probs=30.8

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCC--------CCCeEEEEEcCCCC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQ--------FFDQVIFVEVPHIP  215 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~--------~Fd~~~wv~vs~~~  215 (250)
                      .-.++.|+|.+|+|||||+..+........        .-..++|+++....
T Consensus        29 ~G~i~~i~G~~GsGKTtl~~~l~~~~~~g~~~~g~~~~~~~~v~~~~~e~~~   80 (279)
T 1nlf_A           29 AGTVGALVSPGGAGKSMLALQLAAQIAGGPDLLEVGELPTGPVIYLPAEDPP   80 (279)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHTCCCTTCCCCCCCCCEEEEESSSCH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHhcCCCcCCCccCCCccEEEEECCCCH
Confidence            346899999999999999999886543210        01346677776543

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=95.39  E-value=0.023  Score=44.97  Aligned_cols=57  Identities=19%  Similarity=0.197  Sum_probs=36.7

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHHH
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADK  227 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~~  227 (250)
                      .....|.+.|..|+||||+++.+.+.......+++.....-+......+.+++++..
T Consensus        19 ~~~~~i~~~G~~g~GKst~~~~l~~~l~~~~g~~v~~~treP~~t~~g~~ir~~l~~   75 (223)
T 3ld9_A           19 PGSMFITFEGIDGSGKTTQSHLLAEYLSEIYGVNNVVLTREPGGTLLNESVRNLLFK   75 (223)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHHHHHHHHCGGGEEEEESSCSSHHHHHHHHHHHT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHhhccCceeeEeeeCCCCChHHHHHHHHHhC
Confidence            356789999999999999999999877541234544322222233345556666553

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=95.38  E-value=0.0079  Score=48.92  Aligned_cols=24  Identities=38%  Similarity=0.375  Sum_probs=21.3

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHH
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      -.+++|+|..|+|||||.+.+..-
T Consensus        30 Ge~~~i~G~NGsGKSTLlk~l~Gl   53 (263)
T 2pjz_A           30 GEKVIILGPNGSGKTTLLRAISGL   53 (263)
T ss_dssp             SSEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEEECCCCCCHHHHHHHHhCC
Confidence            458899999999999999999854

>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=95.38  E-value=0.01  Score=43.76  Aligned_cols=23  Identities=13%  Similarity=0.251  Sum_probs=20.5

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|.++|.+|+|||||+..+.+..
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            47899999999999999988765

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=95.38  E-value=0.011  Score=48.70  Aligned_cols=54  Identities=15%  Similarity=0.278  Sum_probs=35.3

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHHH
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADK  227 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~~  227 (250)
                      ..-.+++|+|.+|+|||||++.+......... ..++|+....  +..++.+.++..
T Consensus        33 ~~G~~~~i~G~~G~GKTTl~~~ia~~~~~~~G-~~v~~~~~e~--~~~~~~~r~~~~   86 (296)
T 1cr0_A           33 RGGEVIMVTSGSGMGKSTFVRQQALQWGTAMG-KKVGLAMLEE--SVEETAEDLIGL   86 (296)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHHHHHHHHHTSC-CCEEEEESSS--CHHHHHHHHHHH
T ss_pred             CCCeEEEEEeCCCCCHHHHHHHHHHHHHHHcC-CeEEEEeCcC--CHHHHHHHHHHH
Confidence            34568999999999999999999877643211 1455665443  345555554433

>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=95.37  E-value=0.01  Score=43.80  Aligned_cols=24  Identities=21%  Similarity=0.271  Sum_probs=21.1

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      --|.|+|.+|+|||||+..+.+..
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            357899999999999999998765

>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=95.37  E-value=0.01  Score=44.91  Aligned_cols=25  Identities=24%  Similarity=0.185  Sum_probs=21.4

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..-|.|+|.+|+|||||+..+.+..
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            3467899999999999999998764

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=95.35  E-value=0.013  Score=43.78  Aligned_cols=27  Identities=30%  Similarity=0.241  Sum_probs=22.5

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .....|.|+|.+|+|||||+..+.+..
T Consensus         6 ~~~~~i~v~G~~~~GKssl~~~l~~~~   32 (178)
T 2lkc_A            6 ERPPVVTIMGHVDHGKTTLLDAIRHSK   32 (178)
T ss_dssp             CCCCEEEEESCTTTTHHHHHHHHHTTC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            345678999999999999999987643

>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=95.35  E-value=0.01  Score=44.31  Aligned_cols=26  Identities=31%  Similarity=0.378  Sum_probs=22.2

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ...-|.|+|.+|+|||||+..+.+..
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            44568999999999999999988754

>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=95.34  E-value=0.0096  Score=50.61  Aligned_cols=26  Identities=35%  Similarity=0.279  Sum_probs=22.6

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||.+.+..-.
T Consensus        29 ~Ge~~~llGpsGsGKSTLLr~iaGl~   54 (359)
T 3fvq_A           29 PGEILFIIGASGCGKTTLLRCLAGFE   54 (359)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCchHHHHHHHHhcCC
Confidence            45688999999999999999998654

>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=95.34  E-value=0.0085  Score=44.99  Aligned_cols=24  Identities=29%  Similarity=0.209  Sum_probs=20.9

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..|+|+|.+|+|||||...+....
T Consensus         5 ~ki~ivG~~g~GKStLl~~l~~~~   28 (172)
T 2gj8_A            5 MKVVIAGRPNAGKSSLLNALAGRE   28 (172)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            467999999999999999998653

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=95.34  E-value=0.035  Score=43.54  Aligned_cols=52  Identities=19%  Similarity=0.215  Sum_probs=35.1

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHH
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIAD  226 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~  226 (250)
                      ..|.+-|..|+||||+++.+.+..... .+..+++..-+....+.+.+++++.
T Consensus         4 ~~i~~eG~~gsGKsT~~~~l~~~l~~~-~~~~v~~~rep~~t~~g~~ir~~l~   55 (213)
T 4tmk_A            4 KYIVIEGLEGAGKTTARNVVVETLEQL-GIRDMVFTREPGGTQLAEKLRSLLL   55 (213)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHHHT-TCCCEEEEESSCSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHc-CCCcceeeeCCCCCHHHHHHHHHHh
Confidence            578999999999999999999887643 3433333333233335566666665

>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=95.33  E-value=0.0098  Score=49.68  Aligned_cols=26  Identities=27%  Similarity=0.369  Sum_probs=23.0

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ...++.|+|+.|+|||||.+.+....
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            46789999999999999999999754

>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=95.33  E-value=0.011  Score=44.23  Aligned_cols=26  Identities=23%  Similarity=0.529  Sum_probs=22.4

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ...-|.|+|..|+|||||+..+.+..
T Consensus         8 ~~~~i~v~G~~~~GKssli~~l~~~~   33 (181)
T 2fn4_A            8 ETHKLVVVGGGGVGKSALTIQFIQSY   33 (181)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHHSS
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCc
Confidence            34578999999999999999998764

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=95.32  E-value=0.0088  Score=44.21  Aligned_cols=24  Identities=29%  Similarity=0.574  Sum_probs=20.5

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      --|.|+|.+|+|||||+..+.+..
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~~   27 (172)
T 2erx_A            4 YRVAVFGAGGVGKSSLVLRFVKGT   27 (172)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTCC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            357899999999999999998643

>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=95.31  E-value=0.012  Score=44.53  Aligned_cols=23  Identities=22%  Similarity=0.484  Sum_probs=20.6

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHH
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~  195 (250)
                      .++.+|+|..|+|||||+..|+-
T Consensus        26 ~g~~~i~G~NGsGKStll~ai~~   48 (182)
T 3kta_A           26 KGFTAIVGANGSGKSNIGDAILF   48 (182)
T ss_dssp             SSEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCcEEEECCCCCCHHHHHHHHHH
Confidence            34889999999999999999975

>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=95.29  E-value=0.011  Score=44.02  Aligned_cols=25  Identities=28%  Similarity=0.428  Sum_probs=21.3

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .--|.|+|.+|+|||||...+.+..
T Consensus         7 ~~~i~v~G~~~~GKSsli~~l~~~~   31 (177)
T 1wms_A            7 LFKVILLGDGGVGKSSLMNRYVTNK   31 (177)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcCC
Confidence            3467999999999999999998654

>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=95.29  E-value=0.014  Score=43.38  Aligned_cols=25  Identities=36%  Similarity=0.371  Sum_probs=20.7

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .--|.|+|.+|+|||||+..+.+..
T Consensus         4 ~~ki~i~G~~~vGKSsl~~~l~~~~   28 (175)
T 2nzj_A            4 LYRVVLLGDPGVGKTSLASLFAGKQ   28 (175)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHCC-
T ss_pred             EEEEEEECCCCccHHHHHHHHhcCC
Confidence            3468999999999999999987543

>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=95.28  E-value=0.011  Score=43.48  Aligned_cols=24  Identities=17%  Similarity=0.212  Sum_probs=20.7

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      --|.|+|.+|+|||||+..+.+..
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~~   30 (170)
T 1r2q_A            7 FKLVLLGESAVGKSSLVLRFVKGQ   30 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCC
Confidence            357899999999999999998753

>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=95.27  E-value=0.011  Score=44.84  Aligned_cols=25  Identities=28%  Similarity=0.216  Sum_probs=21.1

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .--|.|+|.+|+|||||+..+.+..
T Consensus        20 ~~ki~ivG~~~vGKSsL~~~~~~~~   44 (184)
T 3ihw_A           20 ELKVGIVGNLSSGKSALVHRYLTGT   44 (184)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHSS
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcCC
Confidence            4567999999999999998877654

>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=95.27  E-value=0.014  Score=45.35  Aligned_cols=27  Identities=22%  Similarity=0.123  Sum_probs=23.0

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .....|.++|.+|+|||||+..+.+..
T Consensus        10 ~~~~~i~~~G~~g~GKTsl~~~l~~~~   36 (218)
T 1nrj_B           10 SYQPSIIIAGPQNSGKTSLLTLLTTDS   36 (218)
T ss_dssp             CCCCEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            345678999999999999999998765

>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=95.27  E-value=0.011  Score=43.94  Aligned_cols=25  Identities=24%  Similarity=0.244  Sum_probs=22.0

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..-|.|+|.+|+|||||+..+.+..
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            4568999999999999999998765

>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=95.27  E-value=0.011  Score=50.47  Aligned_cols=27  Identities=33%  Similarity=0.548  Sum_probs=23.1

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..-.+++|+|..|+|||||++.+..-.
T Consensus        52 ~~Gei~~IiGpnGaGKSTLlr~i~GL~   78 (366)
T 3tui_C           52 PAGQIYGVIGASGAGKSTLIRCVNLLE   78 (366)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             cCCCEEEEEcCCCchHHHHHHHHhcCC
Confidence            355689999999999999999988644

>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=95.27  E-value=0.0089  Score=49.34  Aligned_cols=26  Identities=23%  Similarity=0.358  Sum_probs=22.7

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        63 ~Ge~~~i~G~NGsGKSTLlk~l~Gl~   88 (290)
T 2bbs_A           63 RGQLLAVAGSTGAGKTSLLMMIMGEL   88 (290)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            45689999999999999999998654

>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=95.26  E-value=0.012  Score=44.71  Aligned_cols=27  Identities=11%  Similarity=0.271  Sum_probs=22.3

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .....|.|+|.+|+|||||...+.+..
T Consensus        21 ~~~~~i~v~G~~~~GKSsli~~l~~~~   47 (195)
T 1svi_A           21 GGLPEIALAGRSNVGKSSFINSLINRK   47 (195)
T ss_dssp             SCCCEEEEEEBTTSSHHHHHHHHHTC-
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            356678999999999999999987543

>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=95.26  E-value=0.012  Score=43.49  Aligned_cols=24  Identities=21%  Similarity=0.256  Sum_probs=20.7

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      --|.|+|.+|+|||||...+.+..
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~~   27 (170)
T 1g16_A            4 MKILLIGDSGVGKSCLLVRFVEDK   27 (170)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHCC
T ss_pred             eEEEEECcCCCCHHHHHHHHHhCC
Confidence            457999999999999999987654

>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=95.24  E-value=0.01  Score=43.71  Aligned_cols=21  Identities=33%  Similarity=0.458  Sum_probs=18.5

Q ss_pred             EEEEEccCCCCHHHHHHHHHH
Q 036637          175 MVGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~  195 (250)
                      -|.++|.+|+|||||...+.+
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            478999999999999998853

>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=95.23  E-value=0.014  Score=50.61  Aligned_cols=25  Identities=24%  Similarity=0.320  Sum_probs=22.7

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHH
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~  195 (250)
                      ....+++|+|..|+|||||.+.+..
T Consensus        67 ~~~~~valvG~nGaGKSTLln~L~G   91 (413)
T 1tq4_A           67 SSVLNVAVTGETGSGKSSFINTLRG   91 (413)
T ss_dssp             HCCEEEEEEECTTSSHHHHHHHHHT
T ss_pred             cCCeEEEEECCCCCcHHHHHHHHhC
Confidence            4567999999999999999999987

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=95.22  E-value=0.017  Score=48.03  Aligned_cols=27  Identities=26%  Similarity=0.212  Sum_probs=23.5

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ....+|.|+|+.|+|||||+..+....
T Consensus         8 ~~~~~i~i~GptgsGKt~la~~La~~~   34 (316)
T 3foz_A            8 SLPKAIFLMGPTASGKTALAIELRKIL   34 (316)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CCCcEEEEECCCccCHHHHHHHHHHhC
Confidence            345789999999999999999998765

>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=95.22  E-value=0.012  Score=44.71  Aligned_cols=25  Identities=24%  Similarity=0.299  Sum_probs=21.6

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .--|.|+|.+|+|||||+..+.+..
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            4567999999999999999988765

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=95.21  E-value=0.014  Score=49.52  Aligned_cols=27  Identities=22%  Similarity=0.182  Sum_probs=22.5

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ....+++|+|..|+|||||++.+..-.
T Consensus       121 ~~~g~i~I~GptGSGKTTlL~~l~g~~  147 (356)
T 3jvv_A          121 VPRGLVLVTGPTGSGKSTTLAAMLDYL  147 (356)
T ss_dssp             CSSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            445599999999999999999886543

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=95.21  E-value=0.014  Score=48.58  Aligned_cols=25  Identities=28%  Similarity=0.392  Sum_probs=21.9

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..+|.|+|+.|+|||||+..+....
T Consensus         3 ~~~i~i~GptgsGKt~la~~La~~~   27 (322)
T 3exa_A            3 EKLVAIVGPTAVGKTKTSVMLAKRL   27 (322)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHTT
T ss_pred             CcEEEEECCCcCCHHHHHHHHHHhC
Confidence            4588999999999999999998654

>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=95.21  E-value=0.013  Score=44.60  Aligned_cols=25  Identities=24%  Similarity=0.189  Sum_probs=21.9

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .--|.|+|.+|+|||||+..+.++.
T Consensus        23 ~~ki~v~G~~~~GKSsli~~l~~~~   47 (191)
T 3dz8_A           23 MFKLLIIGNSSVGKTSFLFRYADDT   47 (191)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             eeEEEEECCCCcCHHHHHHHHhcCC
Confidence            3467999999999999999998876

>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=95.20  E-value=0.012  Score=48.13  Aligned_cols=26  Identities=35%  Similarity=0.699  Sum_probs=22.4

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .++|+|.|-||+||||++..+..-..
T Consensus         2 MkvIavs~KGGvGKTT~a~nLA~~La   27 (289)
T 2afh_E            2 MRQCAIYGKGGIGKSTTTQNLVAALA   27 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHH
T ss_pred             ceEEEEeCCCcCcHHHHHHHHHHHHH
Confidence            47899999999999999999876664

>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=95.20  E-value=0.014  Score=43.04  Aligned_cols=21  Identities=38%  Similarity=0.499  Sum_probs=18.7

Q ss_pred             eEEEEEccCCCCHHHHHHHHH
Q 036637          174 NMVGIYGMGGIGKTTLAKEVA  194 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~  194 (250)
                      --|.|+|.+|+|||||+..+.
T Consensus         3 ~ki~ivG~~~~GKSsli~~l~   23 (169)
T 3q85_A            3 FKVMLVGESGVGKSTLAGTFG   23 (169)
T ss_dssp             EEEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            457899999999999999985

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=95.20  E-value=0.011  Score=50.09  Aligned_cols=26  Identities=38%  Similarity=0.496  Sum_probs=22.6

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||.+.+..-.
T Consensus        40 ~Ge~~~llGpnGsGKSTLLr~iaGl~   65 (355)
T 1z47_A           40 EGEMVGLLGPSGSGKTTILRLIAGLE   65 (355)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            45689999999999999999998654

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=95.20  E-value=0.012  Score=47.63  Aligned_cols=25  Identities=40%  Similarity=0.708  Sum_probs=22.1

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ++|+|.|-||+||||++..+..-..
T Consensus         2 ~vI~vs~KGGvGKTT~a~nLA~~la   26 (269)
T 1cp2_A            2 RQVAIYGKGGIGKSTTTQNLTSGLH   26 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHH
T ss_pred             cEEEEecCCCCcHHHHHHHHHHHHH
Confidence            5788999999999999999887765

>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=95.20  E-value=0.011  Score=45.09  Aligned_cols=30  Identities=17%  Similarity=0.248  Sum_probs=23.8

Q ss_pred             HhcCCCceEEEEEccCCCCHHHHHHHHHHH
Q 036637          167 ALQDPDVNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       167 ~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      .+.....--|.|+|.+|+|||||+..+.+.
T Consensus        23 ~~~~~~~~ki~v~G~~~vGKSsLi~~l~~~   52 (192)
T 2b6h_A           23 RIFGKKQMRILMVGLDAAGKTTILYKLKLG   52 (192)
T ss_dssp             GTTTTSCEEEEEEESTTSSHHHHHHHHCSS
T ss_pred             HhccCCccEEEEECCCCCCHHHHHHHHHhC
Confidence            344455567899999999999999998643

>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=95.19  E-value=0.013  Score=43.40  Aligned_cols=25  Identities=28%  Similarity=0.357  Sum_probs=21.3

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ...|.|+|.+|+|||||+..+.+..
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            3467999999999999999997654

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=95.19  E-value=0.014  Score=49.36  Aligned_cols=26  Identities=31%  Similarity=0.376  Sum_probs=22.8

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHH
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      .+..+|+|+|.+|+|||||...+...
T Consensus        72 ~~~~~v~lvG~pgaGKSTLln~L~~~   97 (349)
T 2www_A           72 PLAFRVGLSGPPGAGKSTFIEYFGKM   97 (349)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             cCceEEEEEcCCCCCHHHHHHHHHHH
Confidence            34679999999999999999999864

>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=95.19  E-value=0.052  Score=42.50  Aligned_cols=52  Identities=17%  Similarity=0.106  Sum_probs=33.4

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHH
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIAD  226 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~  226 (250)
                      ...|.+-|+.|+||||+++.+.+..... .+++.. ..-+......+.+++++.
T Consensus         6 g~~i~~eG~~gsGKsT~~~~l~~~l~~~-~~~v~~-~~~p~~~~~g~~i~~~l~   57 (213)
T 4edh_A            6 GLFVTLEGPEGAGKSTNRDYLAERLRER-GIEVQL-TREPGGTPLAERIRELLL   57 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHTT-TCCEEE-EESSCSSHHHHHHHHHHH
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHHHHc-CCCccc-ccCCCCCHHHHHHHHHHh
Confidence            3578999999999999999999887643 455532 222222223344555544

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=95.18  E-value=0.01  Score=44.31  Aligned_cols=24  Identities=29%  Similarity=0.331  Sum_probs=20.4

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHH
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      .--|.|+|.+|+|||||+..+.+.
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            345789999999999999998754

>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=95.17  E-value=0.01  Score=49.25  Aligned_cols=21  Identities=29%  Similarity=0.547  Sum_probs=18.7

Q ss_pred             EEEEEccCCCCHHHHHHHHHH
Q 036637          175 MVGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~  195 (250)
                      -|+|+|..|+|||||++.++.
T Consensus        20 ~I~lvG~nG~GKSTLl~~L~g   40 (301)
T 2qnr_A           20 TLMVVGESGLGKSTLINSLFL   40 (301)
T ss_dssp             EEEEEEETTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            349999999999999999874

>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=95.15  E-value=0.013  Score=44.01  Aligned_cols=26  Identities=23%  Similarity=0.404  Sum_probs=22.2

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..--|.|+|.+|+|||||+..+.+..
T Consensus        17 ~~~ki~v~G~~~~GKSsl~~~l~~~~   42 (183)
T 3kkq_A           17 PTYKLVVVGDGGVGKSALTIQFFQKI   42 (183)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCC
Confidence            34567999999999999999998764

>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=95.14  E-value=0.013  Score=44.09  Aligned_cols=25  Identities=20%  Similarity=0.228  Sum_probs=21.7

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .--|.|+|.+|+|||||+..+.++.
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            3567899999999999999998765

>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=95.13  E-value=0.013  Score=44.08  Aligned_cols=24  Identities=21%  Similarity=0.407  Sum_probs=21.2

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      --|.|+|.+|+|||||+..+.+..
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            357899999999999999998765

>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=95.13  E-value=0.013  Score=44.51  Aligned_cols=25  Identities=32%  Similarity=0.361  Sum_probs=21.7

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .--|.|+|..|+|||||+..+.+..
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            4568999999999999999988754

>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=95.12  E-value=0.012  Score=49.96  Aligned_cols=26  Identities=35%  Similarity=0.409  Sum_probs=22.6

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||.+.+..-.
T Consensus        28 ~Ge~~~llGpnGsGKSTLLr~iaGl~   53 (359)
T 2yyz_A           28 DGEFVALLGPSGCGKTTTLLMLAGIY   53 (359)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEEcCCCchHHHHHHHHHCCC
Confidence            45688999999999999999998654

>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=43.93  Aligned_cols=25  Identities=20%  Similarity=0.339  Sum_probs=21.6

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ...|.|+|.+|+|||||+..+.+..
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            4568999999999999999998655

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=95.11  E-value=0.013  Score=49.98  Aligned_cols=26  Identities=31%  Similarity=0.473  Sum_probs=22.7

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||.+.+..-.
T Consensus        28 ~Ge~~~llGpnGsGKSTLLr~iaGl~   53 (362)
T 2it1_A           28 DGEFMALLGPSGSGKSTLLYTIAGIY   53 (362)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCchHHHHHHHHhcCC
Confidence            45688999999999999999998654

>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=95.10  E-value=0.014  Score=44.13  Aligned_cols=25  Identities=20%  Similarity=0.157  Sum_probs=21.5

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .--|.|+|.+|+|||||+..+.+..
T Consensus        11 ~~ki~v~G~~~~GKSsli~~l~~~~   35 (195)
T 3bc1_A           11 LIKFLALGDSGVGKTSVLYQYTDGK   35 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCC
Confidence            3467899999999999999998754

>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=95.10  E-value=0.013  Score=50.27  Aligned_cols=26  Identities=31%  Similarity=0.319  Sum_probs=22.6

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||.+.+..-.
T Consensus        28 ~Ge~~~llGpsGsGKSTLLr~iaGl~   53 (381)
T 3rlf_A           28 EGEFVVFVGPSGCGKSTLLRMIAGLE   53 (381)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEEcCCCchHHHHHHHHHcCC
Confidence            45688999999999999999998654

>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=95.10  E-value=0.014  Score=43.84  Aligned_cols=24  Identities=25%  Similarity=0.256  Sum_probs=20.7

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      --|.++|.+|+|||||+..+.++.
T Consensus         6 ~~i~~~G~~~~GKssl~~~l~~~~   29 (186)
T 1mh1_A            6 IKCVVVGDGAVGKTCLLISYTTNA   29 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCC
Confidence            357899999999999999988654

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=95.09  E-value=0.014  Score=44.20  Aligned_cols=26  Identities=19%  Similarity=0.215  Sum_probs=22.3

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ....|.|+|..|+|||||+..+.+..
T Consensus        22 ~~~~i~v~G~~~~GKSsli~~l~~~~   47 (195)
T 3pqc_A           22 LKGEVAFVGRSNVGKSSLLNALFNRK   47 (195)
T ss_dssp             TTCEEEEEEBTTSSHHHHHHHHHTSC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHcCc
Confidence            34578999999999999999998764

>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=95.09  E-value=0.0079  Score=50.02  Aligned_cols=27  Identities=19%  Similarity=0.285  Sum_probs=23.0

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..-.+++|+|..|+|||||++.+..-.
T Consensus        78 ~~Ge~vaivG~sGsGKSTLl~ll~gl~  104 (306)
T 3nh6_A           78 MPGQTLALVGPSGAGKSTILRLLFRFY  104 (306)
T ss_dssp             CTTCEEEEESSSCHHHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCchHHHHHHHHHcCC
Confidence            356689999999999999999987644

>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=95.08  E-value=0.014  Score=43.78  Aligned_cols=25  Identities=28%  Similarity=0.470  Sum_probs=21.8

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..-|.|+|.+|+|||||+..+.+..
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            4568999999999999999998765

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=95.08  E-value=0.017  Score=48.73  Aligned_cols=27  Identities=30%  Similarity=0.411  Sum_probs=23.5

Q ss_pred             CCCceEEEEEccCCCCHHHHHHHHHHH
Q 036637          170 DPDVNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       170 ~~~~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      -....+++|+|..|+|||||.+.+..-
T Consensus        52 ~~~g~~v~i~G~~GaGKSTLl~~l~g~   78 (337)
T 2qm8_A           52 TGRAIRVGITGVPGVGKSTTIDALGSL   78 (337)
T ss_dssp             CCCSEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cCCCeEEEEECCCCCCHHHHHHHHHHh
Confidence            456789999999999999999999854

>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=95.07  E-value=0.014  Score=43.65  Aligned_cols=25  Identities=24%  Similarity=0.183  Sum_probs=21.0

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .--|.|+|.+|+|||||+..+.+..
T Consensus         8 ~~ki~v~G~~~~GKssl~~~~~~~~   32 (182)
T 3bwd_D            8 FIKCVTVGDGAVGKTCLLISYTSNT   32 (182)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCC
Confidence            3457899999999999999987654

>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=95.07  E-value=0.013  Score=50.09  Aligned_cols=26  Identities=31%  Similarity=0.289  Sum_probs=22.5

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||.+.+..-.
T Consensus        28 ~Ge~~~llGpnGsGKSTLLr~iaGl~   53 (372)
T 1g29_1           28 DGEFMILLGPSGCGKTTTLRMIAGLE   53 (372)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCcHHHHHHHHHHcCC
Confidence            44688999999999999999998654

>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=95.07  E-value=0.016  Score=43.74  Aligned_cols=33  Identities=21%  Similarity=0.268  Sum_probs=22.5

Q ss_pred             HHHhcC-CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          165 LRALQD-PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       165 ~~~L~~-~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ++.+.. ....-|.|+|.+|+|||||+..+.+..
T Consensus         9 ~~~~~~~~~~~~i~v~G~~~~GKssl~~~l~~~~   42 (186)
T 1ksh_A            9 LKKMKQKERELRLLMLGLDNAGKTTILKKFNGED   42 (186)
T ss_dssp             --------CCEEEEEECSTTSSHHHHHHHHTTCC
T ss_pred             HHhhcccCCeeEEEEECCCCCCHHHHHHHHhcCC
Confidence            333444 556678999999999999999988654

>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=95.06  E-value=0.014  Score=43.40  Aligned_cols=24  Identities=21%  Similarity=0.230  Sum_probs=20.8

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      --|.|+|..|+|||||+..+.++.
T Consensus        15 ~~i~v~G~~~~GKssli~~l~~~~   38 (179)
T 2y8e_A           15 FKLVFLGEQSVGKTSLITRFMYDS   38 (179)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            457899999999999999998654

>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=95.05  E-value=0.014  Score=44.53  Aligned_cols=27  Identities=22%  Similarity=0.401  Sum_probs=22.3

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ...--|.|+|.+|+|||||+..+.+..
T Consensus        26 ~~~~ki~v~G~~~vGKSsli~~l~~~~   52 (196)
T 2atv_A           26 SAEVKLAIFGRAGVGKSALVVRFLTKR   52 (196)
T ss_dssp             -CCEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhCC
Confidence            344568999999999999999998764

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=95.05  E-value=0.031  Score=52.32  Aligned_cols=46  Identities=22%  Similarity=0.318  Sum_probs=36.2

Q ss_pred             CCCcChHHHHHHHHHHhcC---------CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          152 EAFESRSSTLNNVLRALQD---------PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       152 ~~~~gr~~~~~~l~~~L~~---------~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..++|.+..++.+.+.+..         .....+-++|.+|+|||++|+.+.+..
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l  545 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESI  545 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             CcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            4578988888777776651         123368999999999999999999875

>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=95.05  E-value=0.014  Score=43.58  Aligned_cols=24  Identities=21%  Similarity=0.242  Sum_probs=21.0

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-|.|+|.+|+|||||+..+.+..
T Consensus        13 ~ki~v~G~~~~GKSsli~~l~~~~   36 (181)
T 2efe_B           13 AKLVLLGDVGAGKSSLVLRFVKDQ   36 (181)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHCC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            467899999999999999988764

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=95.04  E-value=0.016  Score=48.78  Aligned_cols=26  Identities=27%  Similarity=0.546  Sum_probs=22.6

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ...+|.|+|+.|+|||||+..+....
T Consensus        39 ~~~lIvI~GPTgsGKTtLa~~LA~~l   64 (339)
T 3a8t_A           39 KEKLLVLMGATGTGKSRLSIDLAAHF   64 (339)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHTTS
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHC
Confidence            34689999999999999999998654

>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=95.04  E-value=0.0099  Score=51.89  Aligned_cols=27  Identities=33%  Similarity=0.427  Sum_probs=22.9

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .+.+|.|+|.+|+||||++..+.....
T Consensus        98 ~~~vI~ivG~~GvGKTTla~~La~~l~  124 (432)
T 2v3c_C           98 KQNVILLVGIQGSGKTTTAAKLARYIQ  124 (432)
T ss_dssp             SCCCEEEECCSSSSTTHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            357999999999999999999877653

>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=95.04  E-value=0.013  Score=49.94  Aligned_cols=26  Identities=31%  Similarity=0.460  Sum_probs=22.9

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ...++|+|..|+|||||++.+..-..
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl~~  195 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAVFN  195 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHTT
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHHhC
Confidence            46889999999999999999987654

>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=95.02  E-value=0.031  Score=49.75  Aligned_cols=45  Identities=7%  Similarity=-0.054  Sum_probs=32.9

Q ss_pred             cChHHHHHHHHHHh--cCCCceEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          155 ESRSSTLNNVLRAL--QDPDVNMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       155 ~gr~~~~~~l~~~L--~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      ..+..-.+.+.+..  ..+...+|.+.|+.|+||||+++.+......
T Consensus       375 f~rpeV~~vLr~~~~~~~~~~~~I~l~GlsGsGKSTIa~~La~~L~~  421 (511)
T 1g8f_A          375 FSYPEVVKILRESNPPRPKQGFSIVLGNSLTVSREQLSIALLSTFLQ  421 (511)
T ss_dssp             TSCHHHHHHHHHHSCCGGGCCEEEEECTTCCSCHHHHHHHHHHHHTT
T ss_pred             ccChhhHHHHHHhcccccccceEEEecccCCCCHHHHHHHHHHHHHH
Confidence            34444445555544  2345678999999999999999999998864

>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=95.02  E-value=0.014  Score=49.95  Aligned_cols=26  Identities=31%  Similarity=0.307  Sum_probs=22.6

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||.+.+..-.
T Consensus        36 ~Ge~~~llGpnGsGKSTLLr~iaGl~   61 (372)
T 1v43_A           36 DGEFLVLLGPSGCGKTTTLRMIAGLE   61 (372)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcCC
Confidence            45688999999999999999998654

>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=95.02  E-value=0.014  Score=44.09  Aligned_cols=23  Identities=22%  Similarity=0.248  Sum_probs=20.2

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|.|+|.+|+|||||...+.+..
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~~   25 (190)
T 2cxx_A            3 TIIFAGRSNVGKSTLIYRLTGKK   25 (190)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCcC
Confidence            47899999999999999988654

>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=95.01  E-value=0.01  Score=44.37  Aligned_cols=24  Identities=21%  Similarity=0.274  Sum_probs=20.9

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      --|.++|.+|+|||||+..+.+..
T Consensus         8 ~ki~~vG~~~vGKTsli~~l~~~~   31 (178)
T 2iwr_A            8 LRLGVLGDARSGKSSLIHRFLTGS   31 (178)
T ss_dssp             EEEEEECCGGGCHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCC
Confidence            457899999999999999988753

>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=95.00  E-value=0.016  Score=44.30  Aligned_cols=24  Identities=38%  Similarity=0.364  Sum_probs=20.5

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHH
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      ..-|.|+|.+|+|||||...+.+.
T Consensus         6 ~~kv~lvG~~~vGKSsL~~~~~~~   29 (192)
T 2cjw_A            6 YYRVVLIGEQGVGKSTLANIFAGV   29 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            346899999999999999998753

>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=94.99  E-value=0.015  Score=43.36  Aligned_cols=26  Identities=27%  Similarity=0.151  Sum_probs=21.9

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .--|.++|.+|+|||||+..+.+...
T Consensus        10 ~~~i~v~G~~~~GKssli~~l~~~~~   35 (180)
T 2g6b_A           10 AFKVMLVGDSGVGKTCLLVRFKDGAF   35 (180)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhCCC
Confidence            34679999999999999999887553

>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=94.99  E-value=0.015  Score=44.52  Aligned_cols=26  Identities=27%  Similarity=0.448  Sum_probs=22.2

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ...-|.|+|.+|+|||||+..+.++.
T Consensus        13 ~~~ki~v~G~~~~GKSsli~~l~~~~   38 (206)
T 2bov_A           13 ALHKVIMVGSGGVGKSALTLQFMYDE   38 (206)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhCC
Confidence            34568999999999999999988765

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=94.99  E-value=0.015  Score=44.18  Aligned_cols=25  Identities=12%  Similarity=0.231  Sum_probs=21.8

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .--|.|+|..|+|||||+..+.+..
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            4468999999999999999998764

>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=94.98  E-value=0.015  Score=44.24  Aligned_cols=25  Identities=20%  Similarity=0.302  Sum_probs=21.7

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .--|.|+|..|+|||||+..+.+..
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            3468999999999999999998765

>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=94.98  E-value=0.023  Score=48.58  Aligned_cols=28  Identities=18%  Similarity=0.245  Sum_probs=23.5

Q ss_pred             CCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          170 DPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       170 ~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -....+++|+|..|+|||||++.+..-.
T Consensus       133 ~~~g~~i~ivG~~GsGKTTll~~l~~~~  160 (372)
T 2ewv_A          133 HRKMGLILVTGPTGSGKSTTIASMIDYI  160 (372)
T ss_dssp             TSSSEEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             hcCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            3556789999999999999999987643

>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=94.97  E-value=0.015  Score=44.57  Aligned_cols=26  Identities=31%  Similarity=0.323  Sum_probs=22.2

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ....|.|+|.+|+|||||+..+.+..
T Consensus         7 ~~~ki~v~G~~~~GKSsli~~l~~~~   32 (207)
T 1vg8_A            7 VLLKVIILGDSGVGKTSLMNQYVNKK   32 (207)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcCC
Confidence            34568999999999999999988765

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=94.97  E-value=0.014  Score=43.60  Aligned_cols=25  Identities=28%  Similarity=0.340  Sum_probs=21.0

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHH
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      ..--|.|+|.+|+|||||+..+.+.
T Consensus         8 ~~~~i~v~G~~~~GKssl~~~l~~~   32 (181)
T 3tw8_B            8 HLFKLLIIGDSGVGKSSLLLRFADN   32 (181)
T ss_dssp             EEEEEEEECCTTSCHHHHHHHHCSC
T ss_pred             cceEEEEECCCCCCHHHHHHHHhcC
Confidence            3456799999999999999998754

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=94.96  E-value=0.014  Score=45.53  Aligned_cols=24  Identities=33%  Similarity=0.463  Sum_probs=21.0

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .+|+|+|+.|+||||+++.+....
T Consensus         4 ~~i~i~G~~gsGkst~~~~l~~~~   27 (219)
T 2h92_A            4 INIALDGPAAAGKSTIAKRVASEL   27 (219)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhc
Confidence            478999999999999999887654

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens}

Probab=94.96  E-value=0.011  Score=45.35  Aligned_cols=23  Identities=35%  Similarity=0.502  Sum_probs=20.1

Q ss_pred             CceEEEEEccCCCCHHHHHHHHH
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVA  194 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~  194 (250)
                      ....|.|+|.+|+|||||+..+.
T Consensus        22 ~~~ki~vvG~~~vGKSsLi~~l~   44 (195)
T 3cbq_A           22 GIFKVMLVGESGVGKSTLAGTFG   44 (195)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHTC
T ss_pred             cEEEEEEECCCCCCHHHHHHHHH
Confidence            45678999999999999999984

>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=94.96  E-value=0.027  Score=46.60  Aligned_cols=33  Identities=15%  Similarity=0.321  Sum_probs=26.1

Q ss_pred             HHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          161 LNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       161 ~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      +++|.+.+.   -.+++++|..|+|||||++.+. ..
T Consensus       156 i~~L~~~l~---G~i~~l~G~sG~GKSTLln~l~-~~  188 (302)
T 2yv5_A          156 IDELVDYLE---GFICILAGPSGVGKSSILSRLT-GE  188 (302)
T ss_dssp             HHHHHHHTT---TCEEEEECSTTSSHHHHHHHHH-SC
T ss_pred             HHHHHhhcc---CcEEEEECCCCCCHHHHHHHHH-Hh
Confidence            455666554   3588999999999999999998 54

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=94.95  E-value=0.016  Score=44.55  Aligned_cols=26  Identities=31%  Similarity=0.299  Sum_probs=22.5

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ...-|.|+|.+|+|||||+..+.+..
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            45578999999999999999998765

>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=94.95  E-value=0.008  Score=46.44  Aligned_cols=26  Identities=15%  Similarity=0.130  Sum_probs=21.7

Q ss_pred             CCCceEEEEEccCCCCHHHHHHHHHH
Q 036637          170 DPDVNMVGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       170 ~~~~~vi~I~G~gGvGKTtLa~~v~~  195 (250)
                      -.....++|+|..|+|||||.+.+..
T Consensus        23 ~~~~~~v~lvG~~g~GKSTLl~~l~g   48 (210)
T 1pui_A           23 SDTGIEVAFAGRSNAGKSSALNTLTN   48 (210)
T ss_dssp             CSCSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHhC
Confidence            34456789999999999999998764

>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein structure initiative, NEW YORK SGX research for structural genomics; 1.80A {Escherichia coli} SCOP: c.37.1.10

Probab=94.94  E-value=0.039  Score=46.48  Aligned_cols=28  Identities=21%  Similarity=0.380  Sum_probs=24.1

Q ss_pred             CCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          170 DPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       170 ~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .....+|+|+|.+|+|||||+..+....
T Consensus        53 ~~~~~~i~i~G~~g~GKSTl~~~l~~~~   80 (341)
T 2p67_A           53 CGNTLRLGVTGTPGAGKSTFLEAFGMLL   80 (341)
T ss_dssp             CSCSEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             cCCCEEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4567899999999999999999987554

>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=94.94  E-value=0.016  Score=43.94  Aligned_cols=25  Identities=24%  Similarity=0.199  Sum_probs=21.5

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .--|.|+|.+|+|||||+..+.+..
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            3467999999999999999998755

>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=94.94  E-value=0.016  Score=44.93  Aligned_cols=26  Identities=23%  Similarity=0.141  Sum_probs=22.3

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ...-|.|+|.+|+|||||+..+.+..
T Consensus        27 ~~~ki~vvG~~~vGKSsLi~~l~~~~   52 (205)
T 1gwn_A           27 VKCKIVVVGDSQCGKTALLHVFAKDC   52 (205)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCC
Confidence            34568999999999999999998764

>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=94.93  E-value=0.016  Score=44.87  Aligned_cols=25  Identities=24%  Similarity=0.142  Sum_probs=21.5

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ...|.|+|.+|+|||||+..+.+..
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            4568999999999999999998765

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=94.93  E-value=0.024  Score=44.25  Aligned_cols=38  Identities=18%  Similarity=0.220  Sum_probs=27.4

Q ss_pred             HHHHHHHhcC-CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          161 LNNVLRALQD-PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       161 ~~~l~~~L~~-~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      +..+..++.. +..+.+.++|++|+||||+|..+.+...
T Consensus        45 ~~~l~~~~~~iPkkn~ili~GPPGtGKTt~a~ala~~l~   83 (212)
T 1tue_A           45 LGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFIQ   83 (212)
T ss_dssp             HHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4444444443 2234689999999999999999888763

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=94.92  E-value=0.018  Score=45.53  Aligned_cols=47  Identities=19%  Similarity=0.173  Sum_probs=31.2

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHH
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGE  223 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~  223 (250)
                      -.++.|.|.+|+|||||+.++.......  =..++|++...+  ..++.+.
T Consensus        23 G~~~~i~G~~GsGKTtl~~~~~~~~~~~--~~~v~~~~~e~~--~~~~~~~   69 (247)
T 2dr3_A           23 RNVVLLSGGPGTGKTIFSQQFLWNGLKM--GEPGIYVALEEH--PVQVRQN   69 (247)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHHHHHT--TCCEEEEESSSC--HHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHhc--CCeEEEEEccCC--HHHHHHH
Confidence            4588999999999999988876554211  135677765543  3444433

>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=94.91  E-value=0.012  Score=44.98  Aligned_cols=24  Identities=21%  Similarity=0.275  Sum_probs=20.3

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHH
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      ..-|.++|.+|+|||||++.+.+.
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            456799999999999999977763

>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=94.90  E-value=0.016  Score=44.72  Aligned_cols=25  Identities=24%  Similarity=0.436  Sum_probs=21.5

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..-|.|+|.+|+|||||+..+.+..
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            4568999999999999999987654

>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=94.89  E-value=0.069  Score=44.24  Aligned_cols=69  Identities=16%  Similarity=0.080  Sum_probs=43.5

Q ss_pred             HHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhcCC--CCCCeEEEEEcCC-CCCHHHHHHHHHHHh
Q 036637          158 SSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGRD--QFFDQVIFVEVPH-IPDIRKIQGEIADKL  228 (250)
Q Consensus       158 ~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~--~~Fd~~~wv~vs~-~~~~~~l~~~i~~~l  228 (250)
                      +...+.|...+..+.....-++|+.|+||||+|+.+.+.....  .+.|. .++..+. ...+.++ +.+++.+
T Consensus         3 ~~~~~~L~~~i~~~~~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~-~~l~~~~~~~~id~i-r~li~~~   74 (305)
T 2gno_A            3 KDQLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDV-LEIDPEGENIGIDDI-RTIKDFL   74 (305)
T ss_dssp             -CHHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTE-EEECCSSSCBCHHHH-HHHHHHH
T ss_pred             HHHHHHHHHHHHCCCCcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCE-EEEcCCcCCCCHHHH-HHHHHHH
Confidence            4445666776765557788899999999999999998753211  23444 4455443 4444443 4455555

>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=94.88  E-value=0.017  Score=43.95  Aligned_cols=26  Identities=23%  Similarity=0.239  Sum_probs=22.3

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..--|.++|.+|+|||||+..+.+..
T Consensus        22 ~~~ki~~vG~~~~GKSsl~~~l~~~~   47 (194)
T 3reg_A           22 KALKIVVVGDGAVGKTCLLLAFSKGE   47 (194)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eeeEEEEECcCCCCHHHHHHHHhcCC
Confidence            34567999999999999999998765

>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=94.87  E-value=0.017  Score=43.97  Aligned_cols=26  Identities=27%  Similarity=0.473  Sum_probs=21.8

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ...-|.|+|.+|+|||||+..+.+..
T Consensus         7 ~~~ki~vvG~~~~GKSsli~~l~~~~   32 (199)
T 2gf0_A            7 NDYRVVVFGAGGVGKSSLVLRFVKGT   32 (199)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHSC
T ss_pred             CeeEEEEECCCCCcHHHHHHHHHcCC
Confidence            34568999999999999999998754

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=94.85  E-value=0.017  Score=43.77  Aligned_cols=25  Identities=24%  Similarity=0.266  Sum_probs=22.0

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .--|.|+|..|+|||||+..+.++.
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            4568999999999999999998765

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=94.85  E-value=0.017  Score=48.86  Aligned_cols=35  Identities=23%  Similarity=0.317  Sum_probs=27.2

Q ss_pred             HHHHhcC-CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          164 VLRALQD-PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       164 l~~~L~~-~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .++-++. ..-.+++|+|..|+|||||++.+.+...
T Consensus        61 ald~ll~i~~Gq~~gIiG~nGaGKTTLl~~I~g~~~   96 (347)
T 2obl_A           61 AIDGLLTCGIGQRIGIFAGSGVGKSTLLGMICNGAS   96 (347)
T ss_dssp             HHHHHSCEETTCEEEEEECTTSSHHHHHHHHHHHSC
T ss_pred             EEEeeeeecCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            3444432 3456889999999999999999999865

>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=94.85  E-value=0.018  Score=43.80  Aligned_cols=24  Identities=25%  Similarity=0.194  Sum_probs=20.8

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      --|.|+|..|+|||||+..+.+..
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            457899999999999999988654

>1ega_A Protein (GTP-binding protein ERA); GTPase, RNA-binding, RAS-like, hydrolase; 2.40A {Escherichia coli} SCOP: c.37.1.8 d.52.3.1 PDB: 1x1l_X 3ieu_A* 1x18_X

Probab=94.84  E-value=0.017  Score=47.75  Aligned_cols=26  Identities=27%  Similarity=0.342  Sum_probs=22.3

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ....|+|+|.+|+|||||...+....
T Consensus         7 r~~~VaIvG~~nvGKSTLln~L~g~~   32 (301)
T 1ega_A            7 YCGFIAIVGRPNVGKSTLLNKLLGQK   32 (301)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTCS
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHCCC
Confidence            34689999999999999999998653

>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=94.83  E-value=0.018  Score=43.62  Aligned_cols=25  Identities=20%  Similarity=0.165  Sum_probs=21.8

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .--|.|+|.+|+|||||+..+.+..
T Consensus        22 ~~ki~vvG~~~~GKSsli~~l~~~~   46 (189)
T 2gf9_A           22 MFKLLLIGNSSVGKTSFLFRYADDS   46 (189)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcCC
Confidence            3568999999999999999998765

>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=94.81  E-value=0.018  Score=43.59  Aligned_cols=25  Identities=20%  Similarity=0.234  Sum_probs=21.7

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..-|.|+|..|+|||||+..+.+..
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            4568999999999999999988654

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=94.80  E-value=0.013  Score=44.78  Aligned_cols=25  Identities=24%  Similarity=0.216  Sum_probs=20.1

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .--|.|+|.+|+|||||+..+.+..
T Consensus        20 ~~ki~~~G~~~~GKssl~~~l~~~~   44 (201)
T 2q3h_A           20 GVKCVLVGDGAVGKTSLVVSYTTNG   44 (201)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHC--
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCC
Confidence            4567899999999999999987554

>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=94.79  E-value=0.011  Score=49.99  Aligned_cols=26  Identities=27%  Similarity=0.208  Sum_probs=22.6

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||.+.+..-.
T Consensus        25 ~Ge~~~llGpnGsGKSTLLr~iaGl~   50 (348)
T 3d31_A           25 SGEYFVILGPTGAGKTLFLELIAGFH   50 (348)
T ss_dssp             TTCEEEEECCCTHHHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCccHHHHHHHHHcCC
Confidence            44689999999999999999998654

>2axn_A 6-phosphofructo-2-kinase/fructose-2,6- biphosphatase 3 (6PF-2-K/FRU- 2,6-P2ASE brain/placenta-type...; bifunctional enzyme, EDTA complex; HET: F6P EDT ADP; 2.10A {Homo sapiens} PDB: 2dwo_A* 2dwp_A* 2i1v_B* 3qpu_A* 3qpv_A* 3qpw_A*

Probab=94.78  E-value=0.022  Score=50.89  Aligned_cols=27  Identities=19%  Similarity=0.322  Sum_probs=23.4

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ....+|.++|++|+||||+++.+....
T Consensus        33 ~~~~lIvlvGlpGSGKSTia~~La~~L   59 (520)
T 2axn_A           33 NSPTVIVMVGLPARGKTYISKKLTRYL   59 (520)
T ss_dssp             CCCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            456789999999999999999997665

>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=94.76  E-value=0.019  Score=43.44  Aligned_cols=24  Identities=25%  Similarity=0.304  Sum_probs=21.2

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      --|.|+|.+|+|||||+..+.+..
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            467899999999999999998764

>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=94.75  E-value=0.019  Score=43.96  Aligned_cols=27  Identities=11%  Similarity=0.191  Sum_probs=21.8

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      +...-|.|+|.+|+|||||+..+.+..
T Consensus        26 ~~~~ki~v~G~~~~GKSsli~~l~~~~   52 (199)
T 2p5s_A           26 QKAYKIVLAGDAAVGKSSFLMRLCKNE   52 (199)
T ss_dssp             --CEEEEEESSTTSSHHHHHHHHHHCC
T ss_pred             CCCeEEEEECcCCCCHHHHHHHHHhCC
Confidence            345678999999999999999987654

>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=94.73  E-value=0.016  Score=44.44  Aligned_cols=25  Identities=24%  Similarity=0.198  Sum_probs=21.4

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .--|.|+|.+|+|||||+..+.+..
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~~   32 (203)
T 1zbd_A            8 MFKILIIGNSSVGKTSFLFRYADDS   32 (203)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTCC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcCC
Confidence            3468999999999999999988654

>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=94.73  E-value=0.014  Score=44.81  Aligned_cols=26  Identities=19%  Similarity=0.162  Sum_probs=20.6

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..--|.|+|.+|+|||||+..+.+..
T Consensus        24 ~~~ki~v~G~~~~GKSsLi~~l~~~~   49 (200)
T 2o52_A           24 FLFKFLVIGSAGTGKSCLLHQFIENK   49 (200)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHC--
T ss_pred             cceEEEEECcCCCCHHHHHHHHHhCC
Confidence            34567999999999999999987543

>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=94.72  E-value=0.018  Score=49.52  Aligned_cols=26  Identities=31%  Similarity=0.366  Sum_probs=22.5

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHH
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      ..-.+++|+|..|+|||||.+.+..-
T Consensus        45 ~~Ge~~~llGpsGsGKSTLLr~iaGl   70 (390)
T 3gd7_A           45 SPGQRVGLLGRTGSGKSTLLSAFLRL   70 (390)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHHHHTC
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhCC
Confidence            35568899999999999999999853

>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=94.69  E-value=0.02  Score=44.02  Aligned_cols=25  Identities=20%  Similarity=0.259  Sum_probs=21.5

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..-|.|+|.+|+|||||+..+.+..
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            3467999999999999999988754

>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=94.68  E-value=0.02  Score=44.19  Aligned_cols=25  Identities=24%  Similarity=0.191  Sum_probs=21.5

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..-|.|+|.+|+|||||+..+.++.
T Consensus        25 ~~ki~vvG~~~~GKSsli~~l~~~~   49 (207)
T 2fv8_A           25 RKKLVVVGDGACGKTCLLIVFSKDE   49 (207)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSS
T ss_pred             CcEEEEECcCCCCHHHHHHHHhcCC
Confidence            3568999999999999999988753

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=94.67  E-value=0.03  Score=50.35  Aligned_cols=27  Identities=33%  Similarity=0.410  Sum_probs=23.9

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ...+|.|+|+.|+|||||++.+.....
T Consensus       368 ~G~iI~LiG~sGSGKSTLar~La~~L~  394 (552)
T 3cr8_A          368 QGFTVFFTGLSGAGKSTLARALAARLM  394 (552)
T ss_dssp             SCEEEEEEESSCHHHHHHHHHHHHHHH
T ss_pred             cceEEEEECCCCChHHHHHHHHHHhhc
Confidence            457899999999999999999998764

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=94.66  E-value=0.022  Score=53.42  Aligned_cols=72  Identities=15%  Similarity=0.237  Sum_probs=43.8

Q ss_pred             CCCcChHHHHHHHHHHhc----C---------CCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEc----CCC
Q 036637          152 EAFESRSSTLNNVLRALQ----D---------PDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEV----PHI  214 (250)
Q Consensus       152 ~~~~gr~~~~~~l~~~L~----~---------~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~v----s~~  214 (250)
                      ..+.|.+..+++|.+++.    .         ..++=|-++|++|+|||+||+.|.+....     ..+.|..    +..
T Consensus       204 ~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~elg~-----~~~~v~~~~l~sk~  278 (806)
T 3cf2_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGA-----FFFLINGPEIMSKL  278 (806)
T ss_dssp             GGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTTTC-----EEEEEEHHHHHSSC
T ss_pred             hhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCC-----eEEEEEhHHhhccc
Confidence            345666655555544432    2         24567889999999999999999976542     1233432    222


Q ss_pred             C-CHHHHHHHHHHHh
Q 036637          215 P-DIRKIQGEIADKL  228 (250)
Q Consensus       215 ~-~~~~l~~~i~~~l  228 (250)
                      . .-+..++.++...
T Consensus       279 ~gese~~lr~lF~~A  293 (806)
T 3cf2_A          279 AGESESNLRKAFEEA  293 (806)
T ss_dssp             TTHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHH
Confidence            2 2344566666654

>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=94.65  E-value=0.019  Score=45.11  Aligned_cols=27  Identities=19%  Similarity=0.308  Sum_probs=22.8

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .....|.|+|.+|+|||||+..+.+..
T Consensus        27 ~~~~kI~vvG~~~vGKSsLin~l~~~~   53 (228)
T 2qu8_A           27 PHKKTIILSGAPNVGKSSFMNIVSRAN   53 (228)
T ss_dssp             TTSEEEEEECSTTSSHHHHHHHHTTTC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            445678999999999999999987653

>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=94.63  E-value=0.031  Score=43.43  Aligned_cols=52  Identities=19%  Similarity=0.192  Sum_probs=36.1

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCC-eEEEEEcCCCCCHHHHHHH-HHHHhCCCCC
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFD-QVIFVEVPHIPDIRKIQGE-IADKLGLIFF  233 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd-~~~wv~vs~~~~~~~l~~~-i~~~l~~~~~  233 (250)
                      ....+|+|+||.|+||+|.|..+-+...    |+ +.+       +.+.+.++. .+...|++.+
T Consensus         9 ~~~~II~itGk~~SGKd~va~~l~~~~g----~~~~~v-------v~msD~iK~~~a~~~gl~~~   62 (202)
T 3ch4_B            9 APRLVLLFSGKRKSGKDFVTEALQSRLG----ADVCAV-------LRLSGPLKEQYAQEHGLNFQ   62 (202)
T ss_dssp             CCSEEEEEEECTTSSHHHHHHHHHHHHC----TTTEEE-------ECTHHHHHHHHHHTTTCCCC
T ss_pred             CCCEEEEEECCCCCChHHHHHHHHHHcC----CCCceE-------EEccHHHHHHHHHHcCCCch
Confidence            4567999999999999999998866442    11 211       356677764 5677776643

>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=94.63  E-value=0.024  Score=49.90  Aligned_cols=28  Identities=18%  Similarity=0.286  Sum_probs=23.5

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....+|.++|++|+||||+++.+.....
T Consensus        37 ~~~~~IvlvGlpGsGKSTia~~La~~l~   64 (469)
T 1bif_A           37 NCPTLIVMVGLPARGKTYISKKLTRYLN   64 (469)
T ss_dssp             -CCEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            4556889999999999999999987654

>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=94.63  E-value=0.021  Score=43.35  Aligned_cols=24  Identities=29%  Similarity=0.260  Sum_probs=21.3

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-|.|+|.+|+|||||+..+.+..
T Consensus        19 ~ki~v~G~~~~GKssli~~l~~~~   42 (194)
T 2atx_A           19 LKCVVVGDGAVGKTCLLMSYANDA   42 (194)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCC
Confidence            468999999999999999998764

>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=94.62  E-value=0.01  Score=50.39  Aligned_cols=26  Identities=35%  Similarity=0.388  Sum_probs=22.5

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||.+.+..-.
T Consensus        30 ~Ge~~~llGpnGsGKSTLLr~iaGl~   55 (353)
T 1oxx_K           30 NGERFGILGPSGAGKTTFMRIIAGLD   55 (353)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            45688999999999999999998644

>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=94.60  E-value=0.016  Score=45.13  Aligned_cols=26  Identities=35%  Similarity=0.275  Sum_probs=20.8

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..--|.|+|.+|+|||||+..+.+..
T Consensus        33 ~~~ki~vvG~~~vGKSsli~~l~~~~   58 (214)
T 2j1l_A           33 RSVKVVLVGDGGCGKTSLLMVFADGA   58 (214)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHC--
T ss_pred             ceEEEEEECcCCCCHHHHHHHHHcCC
Confidence            34568999999999999999987543

>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=94.60  E-value=0.011  Score=44.41  Aligned_cols=25  Identities=20%  Similarity=0.230  Sum_probs=10.2

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..-|.|+|.+|+|||||+..+.++.
T Consensus         8 ~~ki~v~G~~~~GKssl~~~l~~~~   32 (183)
T 2fu5_C            8 LFKLLLIGDSGVGKTCVLFRFSEDA   32 (183)
T ss_dssp             EEEEEEECCCCC-------------
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCC
Confidence            3468999999999999999887553

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=94.59  E-value=0.025  Score=48.72  Aligned_cols=24  Identities=33%  Similarity=0.631  Sum_probs=21.7

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .+|.|+|+.|+|||||+..+....
T Consensus         3 ~~i~i~GptgsGKttla~~La~~~   26 (409)
T 3eph_A            3 KVIVIAGTTGVGKSQLSIQLAQKF   26 (409)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             cEEEEECcchhhHHHHHHHHHHHC
Confidence            588999999999999999998765

>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=94.57  E-value=0.049  Score=50.90  Aligned_cols=46  Identities=15%  Similarity=0.217  Sum_probs=35.6

Q ss_pred             CCCcChHHHHHHHHHHhcC---------CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          152 EAFESRSSTLNNVLRALQD---------PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       152 ~~~~gr~~~~~~l~~~L~~---------~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..++|.+..++.+...+..         .....+-++|.+|+|||++|+.+.+..
T Consensus       458 ~~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l  512 (758)
T 1r6b_X          458 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL  512 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHh
Confidence            3477888877777766551         133478999999999999999999876

>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle, G-protein, prokaryote, GTP-BIND nucleotide-binding, metal transport; 2.70A {Pyrococcus furiosus}

Probab=94.55  E-value=0.025  Score=45.93  Aligned_cols=25  Identities=24%  Similarity=0.309  Sum_probs=21.6

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ...|+++|.+|+|||||...+....
T Consensus         3 ~~~i~lvG~~g~GKTTL~n~l~g~~   27 (271)
T 3k53_A            3 LKTVALVGNPNVGKTTIFNALTGLR   27 (271)
T ss_dssp             CEEEEEEECSSSSHHHHHHHHHTTC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCC
Confidence            3578999999999999999998654

>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=94.55  E-value=0.036  Score=45.81  Aligned_cols=34  Identities=18%  Similarity=0.426  Sum_probs=26.1

Q ss_pred             HHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          161 LNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       161 ~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ++++.+.+.   -.+++++|..|+|||||.+.+....
T Consensus       160 v~~lf~~l~---geiv~l~G~sG~GKSTll~~l~g~~  193 (301)
T 1u0l_A          160 IEELKEYLK---GKISTMAGLSGVGKSSLLNAINPGL  193 (301)
T ss_dssp             HHHHHHHHS---SSEEEEECSTTSSHHHHHHHHSTTC
T ss_pred             HHHHHHHhc---CCeEEEECCCCCcHHHHHHHhcccc
Confidence            455555554   3588999999999999999987543

>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=94.55  E-value=0.021  Score=45.34  Aligned_cols=28  Identities=14%  Similarity=0.112  Sum_probs=22.9

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .....|+++|..|+|||||...+.....
T Consensus        27 ~~~~~i~lvG~~g~GKStlin~l~g~~~   54 (239)
T 3lxx_A           27 NSQLRIVLVGKTGAGKSATGNSILGRKV   54 (239)
T ss_dssp             -CEEEEEEECCTTSSHHHHHHHHHTSCC
T ss_pred             CCceEEEEECCCCCCHHHHHHHHcCCCc
Confidence            3456789999999999999999886543

>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=94.55  E-value=0.023  Score=43.65  Aligned_cols=25  Identities=28%  Similarity=0.221  Sum_probs=21.6

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..-|.|+|.+|+|||||+..+.++.
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            4568999999999999999988754

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=94.54  E-value=0.018  Score=49.04  Aligned_cols=26  Identities=31%  Similarity=0.363  Sum_probs=22.4

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus       174 ~G~~i~ivG~sGsGKSTll~~l~~~~  199 (361)
T 2gza_A          174 LERVIVVAGETGSGKTTLMKALMQEI  199 (361)
T ss_dssp             TTCCEEEEESSSSCHHHHHHHHHTTS
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHhcC
Confidence            44588999999999999999998654

>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=94.54  E-value=0.023  Score=43.78  Aligned_cols=25  Identities=20%  Similarity=0.287  Sum_probs=21.6

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..-|.|+|.+|+|||||+..+.+..
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            4567999999999999999988654

>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=94.53  E-value=0.023  Score=43.69  Aligned_cols=26  Identities=15%  Similarity=0.156  Sum_probs=21.9

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..--|.|+|.+|+|||||+..+.+..
T Consensus        28 ~~~ki~vvG~~~vGKSsli~~l~~~~   53 (201)
T 2hup_A           28 FLFKLVLVGDASVGKTCVVQRFKTGA   53 (201)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHHSC
T ss_pred             cceEEEEECcCCCCHHHHHHHHhhCC
Confidence            34578999999999999999987654

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=94.52  E-value=0.023  Score=43.88  Aligned_cols=25  Identities=20%  Similarity=0.110  Sum_probs=21.4

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .--|.|+|.+|+|||||+..+.+..
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            3468999999999999999988654

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=94.52  E-value=0.028  Score=42.96  Aligned_cols=24  Identities=25%  Similarity=0.098  Sum_probs=19.7

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .++.++|..|+||||++..+....
T Consensus         4 ~i~vi~G~~gsGKTT~ll~~~~~~   27 (184)
T 2orw_A            4 KLTVITGPMYSGKTTELLSFVEIY   27 (184)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHH
Confidence            477899999999999986666554

>3iev_A GTP-binding protein ERA; ERA, GTPase, KH domain, anti-SD, 16S rRNA, 30S ribosome ASSE GTP-binding, nucleotide-binding; HET: GNP; 1.90A {Aquifex aeolicus} PDB: 3r9w_A* 3r9x_A*

Probab=94.50  E-value=0.023  Score=47.13  Aligned_cols=27  Identities=30%  Similarity=0.331  Sum_probs=23.3

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ...+.|+|+|.+|+|||||...+....
T Consensus         8 ~~~g~v~ivG~~nvGKSTLin~l~g~~   34 (308)
T 3iev_A            8 MKVGYVAIVGKPNVGKSTLLNNLLGTK   34 (308)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHTSC
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            356789999999999999999988654

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A*

Probab=94.49  E-value=0.018  Score=43.34  Aligned_cols=24  Identities=29%  Similarity=0.379  Sum_probs=20.8

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -.|.|+|..|+|||||...+.+..
T Consensus        22 ~~i~v~G~~~~GKSsli~~l~~~~   45 (181)
T 2h17_A           22 HKVIIVGLDNAGKTTILYQFSMNE   45 (181)
T ss_dssp             EEEEEEEETTSSHHHHHHHHHTTS
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCC
Confidence            467999999999999999998653

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=94.47  E-value=0.026  Score=42.92  Aligned_cols=26  Identities=27%  Similarity=0.276  Sum_probs=21.9

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ....|.|+|.+|+|||||+..+.+..
T Consensus        16 ~~~ki~v~G~~~~GKSsl~~~l~~~~   41 (199)
T 4bas_A           16 TKLQVVMCGLDNSGKTTIINQVKPAQ   41 (199)
T ss_dssp             CEEEEEEECCTTSCHHHHHHHHSCCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            45678999999999999999987543

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=94.47  E-value=0.02  Score=50.38  Aligned_cols=27  Identities=26%  Similarity=0.198  Sum_probs=22.7

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..-.+++|+|..|+|||||++.++.-.
T Consensus       136 ~~Ge~v~IvGpnGsGKSTLlr~L~Gl~  162 (460)
T 2npi_A          136 FEGPRVVIVGGSQTGKTSLSRTLCSYA  162 (460)
T ss_dssp             SSCCCEEEEESTTSSHHHHHHHHHHTT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCcc
Confidence            345678999999999999999988743

>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=94.46  E-value=0.024  Score=44.08  Aligned_cols=25  Identities=20%  Similarity=0.129  Sum_probs=21.5

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .--|.|+|.+|+|||||+..+.+..
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            3467899999999999999988764

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=94.45  E-value=0.029  Score=43.53  Aligned_cols=26  Identities=23%  Similarity=0.235  Sum_probs=23.2

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      .+|.|.|+.|+||||+++.+......
T Consensus         7 ~iI~i~g~~GsGk~ti~~~la~~lg~   32 (201)
T 3fdi_A            7 IIIAIGREFGSGGHLVAKKLAEHYNI   32 (201)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHTTC
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHHhCc
Confidence            58999999999999999999887653

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=94.44  E-value=0.014  Score=47.07  Aligned_cols=27  Identities=19%  Similarity=0.222  Sum_probs=22.3

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .....|.|.|..|+||||+++.+.+..
T Consensus        22 ~~~~~I~ieG~~GsGKST~~~~L~~~l   48 (263)
T 1p5z_B           22 TRIKKISIEGNIAAGKSTFVNILKQLC   48 (263)
T ss_dssp             -CCEEEEEECSTTSSHHHHHTTTGGGC
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHHhc
Confidence            345789999999999999999877543

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=94.41  E-value=0.02  Score=49.76  Aligned_cols=21  Identities=29%  Similarity=0.376  Sum_probs=19.4

Q ss_pred             EEEEccCCCCHHHHHHHHHHH
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~  196 (250)
                      ++|+|..|+|||||++.++.-
T Consensus        45 vaLvG~nGaGKSTLln~L~G~   65 (427)
T 2qag_B           45 ILCVGETGLGKSTLMDTLFNT   65 (427)
T ss_dssp             EEEECSTTSSSHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhCc
Confidence            899999999999999999764

>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=94.38  E-value=0.025  Score=48.05  Aligned_cols=25  Identities=20%  Similarity=0.275  Sum_probs=21.8

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .+++|+|..|+|||||++.+.....
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            5889999999999999999986543

>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=94.34  E-value=0.025  Score=44.20  Aligned_cols=24  Identities=38%  Similarity=0.385  Sum_probs=20.4

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHH
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~  195 (250)
                      ...-|.|+|.+|+|||||+..+..
T Consensus        36 ~~~kVvlvG~~~vGKSSLl~r~~~   59 (211)
T 2g3y_A           36 TYYRVVLIGEQGVGKSTLANIFAG   59 (211)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHC
T ss_pred             CceEEEEECCCCCCHHHHHHHHHh
Confidence            345689999999999999998863

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=94.32  E-value=0.034  Score=41.96  Aligned_cols=25  Identities=20%  Similarity=0.280  Sum_probs=21.4

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHH
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~  195 (250)
                      ...--|.|+|.+|+|||||+..+.+
T Consensus        20 ~~~~~i~v~G~~~~GKssli~~l~~   44 (189)
T 2x77_A           20 DRKIRVLMLGLDNAGKTSILYRLHL   44 (189)
T ss_dssp             TSCEEEEEEEETTSSHHHHHHHTCC
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHc
Confidence            4556789999999999999999854

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=94.28  E-value=0.025  Score=43.06  Aligned_cols=24  Identities=33%  Similarity=0.368  Sum_probs=19.7

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      --|.|+|..|+|||||+..+.++.
T Consensus        27 ~ki~vvG~~~~GKSsLi~~l~~~~   50 (192)
T 2il1_A           27 LQVIIIGSRGVGKTSLMERFTDDT   50 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHCC--
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCC
Confidence            457899999999999999987554

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=94.28  E-value=0.099  Score=41.02  Aligned_cols=27  Identities=22%  Similarity=0.238  Sum_probs=24.0

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      ...|.+-|+.|+||||+++.+.+....
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            457899999999999999999998864

>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=94.28  E-value=0.059  Score=42.60  Aligned_cols=43  Identities=26%  Similarity=0.366  Sum_probs=29.6

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHH
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRK  219 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~  219 (250)
                      .|+|.|-||+||||++..+..-....+  ..++-|......+...
T Consensus         2 kI~vs~kGGvGKTt~a~~LA~~la~~g--~~VlliD~D~~~~l~~   44 (254)
T 3kjh_A            2 KLAVAGKGGVGKTTVAAGLIKIMASDY--DKIYAVDGDPDSCLGQ   44 (254)
T ss_dssp             EEEEECSSSHHHHHHHHHHHHHHTTTC--SCEEEEEECTTSCHHH
T ss_pred             EEEEecCCCCCHHHHHHHHHHHHHHCC--CeEEEEeCCCCcChHH
Confidence            367799999999999999988776433  2345555544344443

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=94.24  E-value=0.028  Score=49.11  Aligned_cols=28  Identities=21%  Similarity=0.296  Sum_probs=24.4

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ..-..++|+|..|+|||||++.+.+-..
T Consensus       155 ~~Gq~~~IvG~sGsGKSTLl~~Iag~~~  182 (438)
T 2dpy_A          155 GRGQRMGLFAGSGVGKSVLLGMMARYTR  182 (438)
T ss_dssp             BTTCEEEEEECTTSSHHHHHHHHHHHSC
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcccC
Confidence            3456889999999999999999998865

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=94.23  E-value=0.091  Score=40.54  Aligned_cols=50  Identities=20%  Similarity=0.210  Sum_probs=32.6

Q ss_pred             EEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHHH
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADK  227 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~~  227 (250)
                      |+|=|.-|+||||.++.+++..+.++ .+ +++..-+......+.++.++..
T Consensus         3 I~~EG~DGsGKsTq~~~L~~~L~~~g-~~-v~~treP~~t~~~~~ir~~l~~   52 (197)
T 3hjn_A            3 ITFEGIDGSGKSTQIQLLAQYLEKRG-KK-VILKREPGGTETGEKIRKILLE   52 (197)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTT-CC-EEEEESSCSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCC-Cc-EEEEECCCCCcHHHHHHHHhhc
Confidence            67889999999999999998876432 23 3333333333455555555543

>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=94.23  E-value=0.067  Score=48.39  Aligned_cols=29  Identities=14%  Similarity=0.225  Sum_probs=24.5

Q ss_pred             CCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          170 DPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       170 ~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .+...+|.|.|+.|+||||+|+.+.....
T Consensus       393 gq~~~~I~l~GlsGSGKSTiA~~La~~L~  421 (573)
T 1m8p_A          393 ATQGFTIFLTGYMNSGKDAIARALQVTLN  421 (573)
T ss_dssp             TTCCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             cccceEEEeecCCCCCHHHHHHHHHHHhc
Confidence            34567899999999999999999987654

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii}

Probab=94.21  E-value=0.032  Score=47.20  Aligned_cols=29  Identities=34%  Similarity=0.567  Sum_probs=24.1

Q ss_pred             CCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          170 DPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       170 ~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....+++.+.|-||+||||+|..+..-..
T Consensus        15 ~~~~~i~~~~gkGGvGKTt~a~~lA~~la   43 (348)
T 3io3_A           15 HDSLKWIFVGGKGGVGKTTTSSSVAVQLA   43 (348)
T ss_dssp             CTTCSEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCcEEEEEeCCCCCcHHHHHHHHHHHHH
Confidence            45678999999999999999998776554

>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=94.21  E-value=0.024  Score=44.51  Aligned_cols=23  Identities=22%  Similarity=0.284  Sum_probs=19.7

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|.|+|-+|+|||+|+....++.
T Consensus        15 KivlvGd~~VGKTsLi~r~~~~~   37 (216)
T 4dkx_A           15 KLVFLGEQSVGKTSLITRFMYDS   37 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCcCHHHHHHHHHhCC
Confidence            47899999999999999877543

>2xtp_A GTPase IMAP family member 2; immune system, G protein; HET: MSE; 1.50A {Homo sapiens} PDB: 2xto_A* 2xtm_A* 2xtn_A* 3p1j_A

Probab=94.18  E-value=0.034  Score=44.64  Aligned_cols=26  Identities=15%  Similarity=0.193  Sum_probs=22.2

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ....|+|+|.+|+|||||...+....
T Consensus        21 ~~~~I~lvG~~g~GKStl~n~l~~~~   46 (260)
T 2xtp_A           21 SELRIILVGKTGTGKSAAGNSILRKQ   46 (260)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHTSC
T ss_pred             CceEEEEECCCCCCHHHHHHHHhCCC
Confidence            45678999999999999999987654

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=94.16  E-value=0.031  Score=44.22  Aligned_cols=31  Identities=23%  Similarity=0.007  Sum_probs=23.4

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhcCCCCCCe
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQ  205 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~  205 (250)
                      -.|.+.|.||+||||++-.+......+ .++.
T Consensus         7 l~I~~~~kgGvGKTt~a~~la~~l~~~-G~~V   37 (228)
T 2r8r_A            7 LKVFLGAAPGVGKTYAMLQAAHAQLRQ-GVRV   37 (228)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHHT-TCCE
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHHC-CCCE
Confidence            347789999999999988888776533 3454

>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=94.13  E-value=0.028  Score=43.17  Aligned_cols=25  Identities=28%  Similarity=0.466  Sum_probs=20.5

Q ss_pred             eEEEEE-ccCCCCHHHHHHHHHHHhc
Q 036637          174 NMVGIY-GMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       174 ~vi~I~-G~gGvGKTtLa~~v~~~~~  198 (250)
                      ++|+|+ +-||+||||++..+..-..
T Consensus         2 ~vi~v~s~kgG~GKTt~a~~la~~la   27 (206)
T 4dzz_A            2 KVISFLNPKGGSGKTTAVINIATALS   27 (206)
T ss_dssp             EEEEECCSSTTSSHHHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCccHHHHHHHHHHHHH
Confidence            578888 6789999999999876654

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=94.11  E-value=0.034  Score=43.99  Aligned_cols=28  Identities=21%  Similarity=0.410  Sum_probs=22.8

Q ss_pred             CceEEEEEc-cCCCCHHHHHHHHHHHhcC
Q 036637          172 DVNMVGIYG-MGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       172 ~~~vi~I~G-~gGvGKTtLa~~v~~~~~v  199 (250)
                      ..++|+|++ -||+||||++..+..-...
T Consensus         3 ~~~vI~v~s~kGGvGKTt~a~~LA~~la~   31 (245)
T 3ea0_A            3 AKRVFGFVSAKGGDGGSCIAANFAFALSQ   31 (245)
T ss_dssp             CCEEEEEEESSTTSSHHHHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCcchHHHHHHHHHHHHh
Confidence            457888885 5789999999999877754

>3th5_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTPase, GTP binding, protein binding, signali protein; HET: GNP; 2.30A {Homo sapiens}

Probab=93.15  E-value=0.0089  Score=46.01  Aligned_cols=30  Identities=20%  Similarity=0.180  Sum_probs=22.8

Q ss_pred             hcCCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          168 LQDPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       168 L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      +.....--|.|+|.+|+|||||+..+.++.
T Consensus        25 ~~~~~~~ki~v~G~~~~GKSsli~~l~~~~   54 (204)
T 3th5_A           25 YFQGQAIKCVVVGDGAVGKTCLLISYTTNA   54 (204)
Confidence            334455567999999999999997776543

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=94.09  E-value=0.06  Score=43.54  Aligned_cols=37  Identities=22%  Similarity=0.367  Sum_probs=26.8

Q ss_pred             HHHHHHHhcC--CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          161 LNNVLRALQD--PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       161 ~~~l~~~L~~--~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      +.++++.+..  .....|.++|.+|+|||||...+++..
T Consensus        25 l~~~~~~~~~~~~~~~~I~vvG~~g~GKSSLin~l~~~~   63 (270)
T 1h65_A           25 LLELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGER   63 (270)
T ss_dssp             HHHHHHHHHHTTCCEEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             HHHHHHHHhhcCCCCeEEEEECCCCCCHHHHHHHHhCCC
Confidence            3444444442  245678999999999999999998655

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=94.07  E-value=0.07  Score=42.96  Aligned_cols=37  Identities=22%  Similarity=0.335  Sum_probs=27.0

Q ss_pred             HHHHHHHhcC--CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          161 LNNVLRALQD--PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       161 ~~~l~~~L~~--~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      +.++++.+..  .....|+++|..|+|||||+..+.+..
T Consensus        22 l~~~~~~~~~~~~~~~~I~lvG~~g~GKSSLin~l~~~~   60 (262)
T 3def_A           22 LIEFFGKLKQKDMNSMTVLVLGKGGVGKSSTVNSLIGEQ   60 (262)
T ss_dssp             HHHHHHHHHHTTCCEEEEEEEECTTSSHHHHHHHHHTSC
T ss_pred             HHHHHHHHhhccCCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            3344444442  345678999999999999999998755

>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=94.06  E-value=0.06  Score=51.09  Aligned_cols=45  Identities=24%  Similarity=0.364  Sum_probs=35.2

Q ss_pred             CCcChHHHHHHHHHHhcC---------CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          153 AFESRSSTLNNVLRALQD---------PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       153 ~~~gr~~~~~~l~~~L~~---------~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .++|.+..++.+...+..         .....+-++|..|+|||++|+.+.+..
T Consensus       559 ~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~  612 (854)
T 1qvr_A          559 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATL  612 (854)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHH
T ss_pred             ccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            468888877777666541         123578899999999999999998876

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=94.05  E-value=0.03  Score=50.29  Aligned_cols=27  Identities=41%  Similarity=0.484  Sum_probs=23.2

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .-.+++|+|..|+|||||++.++.-..
T Consensus       311 ~Ge~~~i~G~NGsGKSTLlk~l~Gl~~  337 (538)
T 1yqt_A          311 KGEVIGIVGPNGIGKTTFVKMLAGVEE  337 (538)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            346899999999999999999997543

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=94.04  E-value=0.061  Score=43.91  Aligned_cols=37  Identities=16%  Similarity=0.253  Sum_probs=27.6

Q ss_pred             HHHHHHHhcC------CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          161 LNNVLRALQD------PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       161 ~~~l~~~L~~------~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ++++.+.|..      .....|+|+|.+|+|||||...+....
T Consensus         8 ~~~l~~~l~~~~~~~~~~~~~i~vvG~~~~GKSSLln~l~g~~   50 (299)
T 2aka_B            8 VNRLQDAFSAIGQNADLDLPQIAVVGGQSAGKSSVLENFVGRD   50 (299)
T ss_dssp             HHHHHHHHTTSCCCTTCCCCEEEEEEBTTSCHHHHHHHHHTSC
T ss_pred             HHHHHHHHHhcCCCCCCCCCeEEEEeCCCCCHHHHHHHHHCCC
Confidence            4555555542      245579999999999999999998654

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens}

Probab=94.04  E-value=0.024  Score=42.95  Aligned_cols=24  Identities=25%  Similarity=0.241  Sum_probs=21.1

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -.|.|+|..|+|||||...+.+..
T Consensus        22 ~ki~v~G~~~~GKSsli~~l~~~~   45 (190)
T 2h57_A           22 VHVLCLGLDNSGKTTIINKLKPSN   45 (190)
T ss_dssp             EEEEEEECTTSSHHHHHHHTSCGG
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCC
Confidence            467999999999999999988665

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=94.04  E-value=0.031  Score=43.28  Aligned_cols=25  Identities=24%  Similarity=0.200  Sum_probs=21.1

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .--|.|+|..|+|||||+..+.+..
T Consensus        25 ~~ki~vvG~~~~GKSsLi~~l~~~~   49 (217)
T 2f7s_A           25 LIKLLALGDSGVGKTTFLYRYTDNK   49 (217)
T ss_dssp             EEEEEEESCTTSSHHHHHHHHHCSC
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcCC
Confidence            3567999999999999999988643

>3euj_A Chromosome partition protein MUKB, linker; MUKB, MUKE, chromosome condensation, condensin, SMC, N subunit, ABC-type ATPase, WHD, ATP-binding; HET: AGS; 3.10A {Haemophilus ducreyi} PDB: 3euk_A*

Probab=94.04  E-value=0.031  Score=49.40  Aligned_cols=25  Identities=20%  Similarity=0.205  Sum_probs=22.6

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .+++|+|..|+|||||++.+..-..
T Consensus        30 e~~~liG~nGsGKSTLl~~l~Gl~~   54 (483)
T 3euj_A           30 LVTTLSGGNGAGKSTTMAGFVTALI   54 (483)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             ceEEEECCCCCcHHHHHHHHhcCCC
Confidence            8999999999999999999987653

>1wf3_A GTP-binding protein; GTPase, riken structural genomics/prote initiative, RSGI, structural genomics, hydrolase; HET: GNP; 1.88A {Thermus thermophilus} SCOP: c.37.1.8 d.52.3.1

Probab=94.03  E-value=0.035  Score=45.96  Aligned_cols=25  Identities=28%  Similarity=0.328  Sum_probs=21.7

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .+.|+|+|.+|+|||||+..+....
T Consensus         7 ~g~V~ivG~~nvGKSTLln~l~g~~   31 (301)
T 1wf3_A            7 SGFVAIVGKPNVGKSTLLNNLLGVK   31 (301)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCc
Confidence            4578999999999999999988654

>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=94.03  E-value=0.022  Score=47.86  Aligned_cols=25  Identities=32%  Similarity=0.256  Sum_probs=21.9

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -.+++|+|..|+|||||++.+..-.
T Consensus       171 g~~v~i~G~~GsGKTTll~~l~g~~  195 (330)
T 2pt7_A          171 GKNVIVCGGTGSGKTTYIKSIMEFI  195 (330)
T ss_dssp             TCCEEEEESTTSCHHHHHHHGGGGS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4588999999999999999988654

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=94.02  E-value=0.071  Score=46.46  Aligned_cols=42  Identities=24%  Similarity=0.393  Sum_probs=30.4

Q ss_pred             ChHHHHHHHHHHhcC-----------CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          156 SRSSTLNNVLRALQD-----------PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       156 gr~~~~~~l~~~L~~-----------~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      |.++-++.+.+.+.+           ++...++|+|.+|+|||||.+.+....
T Consensus       152 gv~~L~~~i~~~l~~~~~~~~~~~~~~~~~kvaivG~~gvGKSTLln~l~g~~  204 (439)
T 1mky_A          152 NLDTMLETIIKKLEEKGLDLESKPEITDAIKVAIVGRPNVGKSTLFNAILNKE  204 (439)
T ss_dssp             SHHHHHHHHHHHHHHTTCCSSSCCCCCSCEEEEEECSTTSSHHHHHHHHHTST
T ss_pred             CHHHHHHHHHHhcccccccchhccccccCceEEEECCCCCCHHHHHHHHhCCc
Confidence            455556666655531           123578999999999999999998654

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=93.99  E-value=0.027  Score=51.22  Aligned_cols=45  Identities=13%  Similarity=0.020  Sum_probs=29.7

Q ss_pred             CCcChHHHHHHHHHHhcCCCce-----------EEEEEccCCCCHHHHHHHHHHHh
Q 036637          153 AFESRSSTLNNVLRALQDPDVN-----------MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       153 ~~~gr~~~~~~l~~~L~~~~~~-----------vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .++|.+..+..+.-.|.....+           -+-++|.+|+|||+||+.+.+..
T Consensus       296 ~I~G~e~vk~al~~~l~~g~~~~~~~~~~r~~~~vLL~GppGtGKT~LAr~la~~~  351 (595)
T 3f9v_A          296 SIYGHWELKEALALALFGGVPKVLEDTRIRGDIHILIIGDPGTAKSQMLQFISRVA  351 (595)
T ss_dssp             TTSCCHHHHHHHTTTTTCCCCEETTTTEECCSCCEEEEESSCCTHHHHHHSSSTTC
T ss_pred             hhcChHHHHHHHHHHHhCCCcccccCCCcCCCcceEEECCCchHHHHHHHHHHHhC
Confidence            4566666555544433333211           47899999999999999887543

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=93.97  E-value=0.045  Score=40.22  Aligned_cols=23  Identities=26%  Similarity=0.430  Sum_probs=20.4

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHH
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~  195 (250)
                      .++..|+|..|+|||||...++-
T Consensus        23 ~g~~~I~G~NGsGKStil~Ai~~   45 (149)
T 1f2t_A           23 EGINLIIGQNGSGKSSLLDAILV   45 (149)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHH
Confidence            46889999999999999999874

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=93.95  E-value=0.035  Score=43.33  Aligned_cols=25  Identities=20%  Similarity=0.313  Sum_probs=21.3

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .--|.|+|.+|+|||||+..+.+..
T Consensus        13 ~~ki~v~G~~~vGKSsli~~l~~~~   37 (223)
T 3cpj_B           13 LFKIVLIGDSGVGKSNLLSRFTKNE   37 (223)
T ss_dssp             EEEEEEESCTTSSHHHHHHHHHHCC
T ss_pred             eeEEEEECcCCCCHHHHHHHHhcCC
Confidence            3468999999999999999987654

>2qag_C Septin-7; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=93.94  E-value=0.025  Score=49.05  Aligned_cols=22  Identities=27%  Similarity=0.463  Sum_probs=19.6

Q ss_pred             EEEEccCCCCHHHHHHHHHHHh
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      |+|+|..|+|||||++.++...
T Consensus        34 I~lvG~sGaGKSTLln~L~g~~   55 (418)
T 2qag_C           34 LMVVGESGLGKSTLINSLFLTD   55 (418)
T ss_dssp             EEEECCTTSSHHHHHHHHTTCC
T ss_pred             EEEECCCCCcHHHHHHHHhCCC
Confidence            5999999999999999998654

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=93.92  E-value=0.033  Score=50.03  Aligned_cols=25  Identities=44%  Similarity=0.506  Sum_probs=21.9

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHH
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      .-.+++|+|..|+|||||++.+..-
T Consensus        46 ~Ge~~~LvG~NGaGKSTLlk~l~Gl   70 (538)
T 1yqt_A           46 EGMVVGIVGPNGTGKSTAVKILAGQ   70 (538)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4468999999999999999999864

>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=93.92  E-value=0.099  Score=44.88  Aligned_cols=53  Identities=17%  Similarity=0.065  Sum_probs=35.8

Q ss_pred             HHHHHHhcC-CCceEEEEEccCCCCHHHHHHHHHHHhcCC-CCCCeEEEEEcCCCC
Q 036637          162 NNVLRALQD-PDVNMVGIYGMGGIGKTTLAKEVAIQFGRD-QFFDQVIFVEVPHIP  215 (250)
Q Consensus       162 ~~l~~~L~~-~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~-~~Fd~~~wv~vs~~~  215 (250)
                      -++++.+.. ..-..++|+|..|+|||||++.+.+..... ..++| +++-+++.+
T Consensus       162 iraID~~~pi~rGQr~~IvG~sG~GKTtLl~~Iar~i~~~~~~v~~-I~~lIGER~  216 (422)
T 3ice_A          162 ARVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCVL-MVLLIDERP  216 (422)
T ss_dssp             HHHHHHHSCCBTTCEEEEECCSSSSHHHHHHHHHHHHHHHCTTSEE-EEEEESSCH
T ss_pred             ceeeeeeeeecCCcEEEEecCCCCChhHHHHHHHHHHhhcCCCeeE-EEEEecCCh
Confidence            456676663 345588999999999999999987754321 22443 457777654

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=93.91  E-value=0.031  Score=44.34  Aligned_cols=27  Identities=22%  Similarity=0.286  Sum_probs=20.6

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      ...|.|-|+.|+||||+++.+.+....
T Consensus        25 g~~I~~eG~~GsGKsT~~~~l~~~l~~   51 (227)
T 3v9p_A           25 GKFITFEGIDGAGKTTHLQWFCDRLQE   51 (227)
T ss_dssp             CCEEEEECCC---CHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            457899999999999999999987753

>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=93.91  E-value=0.15  Score=39.52  Aligned_cols=50  Identities=22%  Similarity=0.222  Sum_probs=32.4

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHH
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIAD  226 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~  226 (250)
                      .-|+|=|.-|+||||+++.+.+...  ..++++. ..-+......+.++.++.
T Consensus         3 kFI~~EG~dGsGKsTq~~~L~~~L~--~~~~v~~-~~eP~~t~~g~~ir~~l~   52 (205)
T 4hlc_A            3 AFITFEGPEGSGKTTVINEVYHRLV--KDYDVIM-TREPGGVPTGEEIRKIVL   52 (205)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHT--TTSCEEE-EESSTTCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHHH--CCCCEEE-eeCCCCChHHHHHHHHHh
Confidence            3578889999999999999998875  3455332 222222334455555543

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=93.89  E-value=0.088  Score=47.32  Aligned_cols=42  Identities=19%  Similarity=0.201  Sum_probs=29.7

Q ss_pred             hHHHHHHHHHHh--cCCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          157 RSSTLNNVLRAL--QDPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       157 r~~~~~~l~~~L--~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      +..-.+.+.+..  ..+...+|.+.|++|+||||+++.+.....
T Consensus       354 r~eV~~~lr~~~~~~~~~~~~I~l~G~~GsGKSTia~~La~~L~  397 (546)
T 2gks_A          354 RPEVAEILAETYVPKHKQGFCVWLTGLPCAGKSTIAEILATMLQ  397 (546)
T ss_dssp             CHHHHHHHHHHSCCGGGCCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHhhccccccceEEEccCCCCCCHHHHHHHHHHHhh
Confidence            333344444444  234567899999999999999999987653

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=93.88  E-value=0.028  Score=50.45  Aligned_cols=25  Identities=40%  Similarity=0.644  Sum_probs=22.1

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -.+++|+|..|+|||||++.++.-.
T Consensus       294 Gei~~i~G~nGsGKSTLl~~l~Gl~  318 (538)
T 3ozx_A          294 GEIIGILGPNGIGKTTFARILVGEI  318 (538)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4589999999999999999998754

>3b1v_A Ferrous iron uptake transporter protein B; G protein, iron transport, GTPase, transmembrane, potassium; HET: GGM; 1.85A {Streptococcus thermophilus} PDB: 3b1w_A* 3lx5_A* 3lx8_A* 3ss8_A* 3b1z_A 3b1y_A* 3b1x_A* 3tah_A*

Probab=93.86  E-value=0.041  Score=44.85  Aligned_cols=24  Identities=21%  Similarity=0.295  Sum_probs=21.1

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHH
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      ...|+++|.+|+|||||...+...
T Consensus         3 ~~kI~lvG~~nvGKSTL~n~L~g~   26 (272)
T 3b1v_A            3 MTEIALIGNPNSGKTSLFNLITGH   26 (272)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHCC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHCC
Confidence            356899999999999999999864

>2qtf_A Protein HFLX, GTP-binding protein; beta-alpha-barrels, nucleotide-binding, nucleotide binding protein; 2.00A {Sulfolobus solfataricus P2} PDB: 2qth_A* 3kxi_A* 3kxl_A 3kxk_A

Probab=93.86  E-value=0.037  Score=47.15  Aligned_cols=27  Identities=26%  Similarity=0.362  Sum_probs=21.6

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ++..+|+|+|.+|+|||||.+.+.+..
T Consensus       177 ~~~~~V~lvG~~naGKSTLln~L~~~~  203 (364)
T 2qtf_A          177 NNIPSIGIVGYTNSGKTSLFNSLTGLT  203 (364)
T ss_dssp             --CCEEEEECBTTSSHHHHHHHHHCC-
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHCCC
Confidence            356779999999999999999987543

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=93.82  E-value=0.037  Score=42.95  Aligned_cols=26  Identities=31%  Similarity=0.160  Sum_probs=21.8

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-+.|.|+|..|+||||||..+...-
T Consensus        33 ~g~~ilI~GpsGsGKStLA~~La~~g   58 (205)
T 2qmh_A           33 YGLGVLITGDSGVGKSETALELVQRG   58 (205)
T ss_dssp             TTEEEEEECCCTTTTHHHHHHHHTTT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhC
Confidence            34678899999999999999987543

>3iqw_A Tail-anchored protein targeting factor GET3; ATPase, Zn binding, protein transport; HET: ANP; 3.00A {Chaetomium thermophilum} PDB: 3iqx_A* 3ibg_A*

Probab=93.77  E-value=0.13  Score=43.18  Aligned_cols=50  Identities=22%  Similarity=0.369  Sum_probs=33.4

Q ss_pred             CCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHH
Q 036637          170 DPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQ  221 (250)
Q Consensus       170 ~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~  221 (250)
                      ....+++.+.|-||+||||+|..+..-....+  ..++-|.....++....+
T Consensus        13 ~~~~~i~~~sgkGGvGKTt~a~~lA~~la~~g--~~vllid~D~~~~l~~~l   62 (334)
T 3iqw_A           13 QRSLRWIFVGGKGGVGKTTTSCSLAIQLAKVR--RSVLLLSTDPAHNLSDAF   62 (334)
T ss_dssp             CTTCCEEEEECSTTSSHHHHHHHHHHHHTTSS--SCEEEEECCSSCHHHHHH
T ss_pred             CCCeEEEEEeCCCCccHHHHHHHHHHHHHhCC--CcEEEEECCCCCChhHHh
Confidence            45578888999999999999999887765322  234445555444444433

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} SCOP: c.37.1.8 PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 4gmx_A* 4gpt_A* 4hat_A* 4hau_A* 4hav_A* 4haw_A* ...

Probab=93.75  E-value=0.022  Score=44.43  Aligned_cols=24  Identities=33%  Similarity=0.425  Sum_probs=19.7

Q ss_pred             ceEEEEEccCCCCHHHHHHH-HHHH
Q 036637          173 VNMVGIYGMGGIGKTTLAKE-VAIQ  196 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~-v~~~  196 (250)
                      .--|.|+|.+|+|||||+.. +.+.
T Consensus        15 ~~ki~v~G~~~~GKSsli~~~~~~~   39 (221)
T 3gj0_A           15 QFKLVLVGDGGTGKTTFVKRHLTGE   39 (221)
T ss_dssp             EEEEEEEECTTSSHHHHHTTBHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCC
Confidence            34689999999999999999 4444

>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=93.75  E-value=0.047  Score=49.80  Aligned_cols=26  Identities=27%  Similarity=0.330  Sum_probs=23.4

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ...+|.+.|+.|+||||+++.+....
T Consensus        51 ~g~lIvLtGlsGSGKSTlAr~La~~L   76 (630)
T 1x6v_B           51 RGCTVWLTGLSGAGKTTVSMALEEYL   76 (630)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHH
Confidence            56789999999999999999998765

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=93.72  E-value=0.12  Score=40.02  Aligned_cols=43  Identities=16%  Similarity=0.237  Sum_probs=29.3

Q ss_pred             EEEEE-ccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHH
Q 036637          175 MVGIY-GMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKI  220 (250)
Q Consensus       175 vi~I~-G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l  220 (250)
                      +|+|+ +-||+||||++..+..-....+   .+.-|......+....
T Consensus         2 vI~v~s~KGGvGKTT~a~~LA~~la~~g---~VlliD~D~q~~~~~~   45 (209)
T 3cwq_A            2 IITVASFKGGVGKTTTAVHLSAYLALQG---ETLLIDGDPNRSATGW   45 (209)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHTTS---CEEEEEECTTCHHHHH
T ss_pred             EEEEEcCCCCCcHHHHHHHHHHHHHhcC---CEEEEECCCCCCHHHH
Confidence            67775 7789999999999887775432   4555666554444433

>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=93.72  E-value=0.098  Score=43.78  Aligned_cols=42  Identities=12%  Similarity=0.165  Sum_probs=33.0

Q ss_pred             hHHHHHHHHHHhcCCC-ceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          157 RSSTLNNVLRALQDPD-VNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       157 r~~~~~~l~~~L~~~~-~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .+...+.+...+..+. .+.+-++|..|+||||+|+.+.+...
T Consensus         7 ~~~~~~~l~~~i~~~~~~~a~L~~G~~G~GKt~~a~~la~~l~   49 (334)
T 1a5t_A            7 LRPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLL   49 (334)
T ss_dssp             GHHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             hHHHHHHHHHHHHcCCcceeEEEECCCCchHHHHHHHHHHHHh
Confidence            4556677777776554 56789999999999999999987754

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=93.70  E-value=0.15  Score=44.46  Aligned_cols=52  Identities=13%  Similarity=-0.002  Sum_probs=37.0

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHH
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIAD  226 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~  226 (250)
                      .-.++.|.|.+|+|||||+.++..+...... ..++|++...  +..++...++.
T Consensus       199 ~G~l~ii~G~pg~GKT~lal~ia~~~a~~~g-~~vl~~slE~--~~~~l~~R~~~  250 (444)
T 2q6t_A          199 PGSLNIIAARPAMGKTAFALTIAQNAALKEG-VGVGIYSLEM--PAAQLTLRMMC  250 (444)
T ss_dssp             TTCEEEEEECTTSCHHHHHHHHHHHHHHTTC-CCEEEEESSS--CHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHHhCC-CeEEEEECCC--CHHHHHHHHHH
Confidence            3458899999999999999999877643211 2577776653  46677766643

>3iby_A Ferrous iron transport protein B; G protein, G domain, iron uptake, cell inner membrane, cell GTP-binding, ION transport, membrane; 2.50A {Legionella pneumophila}

Probab=93.70  E-value=0.039  Score=44.48  Aligned_cols=24  Identities=25%  Similarity=0.178  Sum_probs=21.0

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..|+++|.+|+|||||...+....
T Consensus         2 ~kI~lvG~~n~GKSTL~n~L~g~~   25 (256)
T 3iby_A            2 THALLIGNPNCGKTTLFNALTNAN   25 (256)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCC
Confidence            468999999999999999988653

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=93.70  E-value=0.015  Score=44.59  Aligned_cols=23  Identities=22%  Similarity=0.341  Sum_probs=4.7

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHH
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      --|.|+|..|+|||||+..+.+.
T Consensus        21 ~~i~v~G~~~~GKssli~~l~~~   43 (208)
T 2yc2_C           21 CKVAVVGEATVGKSALISMFTSK   43 (208)
T ss_dssp             EEEEEC-----------------
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            46799999999999999988766

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=93.67  E-value=0.029  Score=45.57  Aligned_cols=22  Identities=27%  Similarity=0.475  Sum_probs=19.0

Q ss_pred             eEEEEEccCCCCHHHHHHHHHH
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~  195 (250)
                      --|.|+|.+|+|||||...++.
T Consensus         9 ~~I~vvG~~g~GKSTLin~L~~   30 (274)
T 3t5d_A            9 FTLMVVGESGLGKSTLINSLFL   30 (274)
T ss_dssp             EEEEEEECTTSSHHHHHHHHSS
T ss_pred             EEEEEECCCCCCHHHHHHHHhC
Confidence            3579999999999999998653

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=93.66  E-value=0.034  Score=49.90  Aligned_cols=25  Identities=36%  Similarity=0.628  Sum_probs=22.1

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHH
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      .-.+++|+|..|+|||||++.+..-
T Consensus        24 ~Gei~gLiGpNGaGKSTLlkiL~Gl   48 (538)
T 3ozx_A           24 NNTILGVLGKNGVGKTTVLKILAGE   48 (538)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcC
Confidence            4568999999999999999998864

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=93.63  E-value=0.039  Score=50.25  Aligned_cols=26  Identities=42%  Similarity=0.512  Sum_probs=22.7

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus       381 ~Gei~~i~G~NGsGKSTLlk~l~Gl~  406 (607)
T 3bk7_A          381 KGEVIGIVGPNGIGKTTFVKMLAGVE  406 (607)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34589999999999999999999754

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=93.60  E-value=0.047  Score=46.24  Aligned_cols=27  Identities=30%  Similarity=0.362  Sum_probs=22.9

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .+...++++|.+|+|||||...+....
T Consensus       165 ~~~~~v~lvG~~gvGKSTLin~L~~~~  191 (357)
T 2e87_A          165 LEIPTVVIAGHPNVGKSTLLKALTTAK  191 (357)
T ss_dssp             SSSCEEEEECSTTSSHHHHHHHHCSSC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            456789999999999999999987643

>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=93.59  E-value=0.15  Score=44.91  Aligned_cols=64  Identities=20%  Similarity=0.301  Sum_probs=47.4

Q ss_pred             HHHHHhcC-CCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCC-CHHHHHHHHHHH
Q 036637          163 NVLRALQD-PDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIP-DIRKIQGEIADK  227 (250)
Q Consensus       163 ~l~~~L~~-~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~-~~~~l~~~i~~~  227 (250)
                      +.++.|.- ..-.-++|.|..|+|||+|+..+.++... .+-++++++-+++.. ...++++++...
T Consensus       154 rvID~l~pigkGqr~gIfgg~GvGKT~L~~~l~~~~a~-~~~~v~V~~~iGER~rEv~e~~~~~~~~  219 (498)
T 1fx0_B          154 KVVNLLAPYRRGGKIGLFGGAGVGKTVLIMELINNIAK-AHGGVSVFGGVGERTREGNDLYMEMKES  219 (498)
T ss_dssp             TTHHHHSCCCTTCCEEEEECSSSSHHHHHHHHHHHTTT-TCSSCEEEEEESCCSHHHHHHHHHHHHT
T ss_pred             eEeeeecccccCCeEEeecCCCCCchHHHHHHHHHHHh-hCCCEEEEEEcccCcHHHHHHHHhhhcc
Confidence            35565552 23456799999999999999999887532 345889999999876 566777777654

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=93.56  E-value=0.041  Score=50.13  Aligned_cols=24  Identities=38%  Similarity=0.488  Sum_probs=21.6

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .+++|+|..|+|||||++.+..-.
T Consensus       379 Eiv~iiG~NGsGKSTLlk~l~Gl~  402 (608)
T 3j16_B          379 EILVMMGENGTGKTTLIKLLAGAL  402 (608)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHTSS
T ss_pred             eEEEEECCCCCcHHHHHHHHhcCC
Confidence            579999999999999999998654

>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=93.56  E-value=0.14  Score=44.94  Aligned_cols=64  Identities=20%  Similarity=0.329  Sum_probs=47.3

Q ss_pred             HHHHHhcC-CCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCC-CHHHHHHHHHHH
Q 036637          163 NVLRALQD-PDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIP-DIRKIQGEIADK  227 (250)
Q Consensus       163 ~l~~~L~~-~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~-~~~~l~~~i~~~  227 (250)
                      +.++.|.. ..-.-++|.|..|+|||+|+..+.+.... .+-+.++++-+++.. .+.++++++...
T Consensus       142 r~ID~l~pigkGQr~~Ifgg~G~GKT~L~~~i~~~~~~-~~~~v~V~~~iGER~rEv~e~~~~~~~~  207 (482)
T 2ck3_D          142 KVVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVAK-AHGGYSVFAGVGERTREGNDLYHEMIES  207 (482)
T ss_dssp             HHHHHHSCEETTCEEEEEECTTSSHHHHHHHHHHHTTT-TCSSEEEEEEESCCHHHHHHHHHHHHHH
T ss_pred             EEEecccccccCCeeeeecCCCCChHHHHHHHHHhhHh-hCCCEEEEEECCCcchHHHHHHHHhhhc
Confidence            45666662 23456799999999999999999887532 345778889999876 556777777654

>3fkq_A NTRC-like two-domain protein; RER070207001320, structural GE joint center for structural genomics, JCSG, protein structu initiative, PSI-2; HET: ATP 2PE; 2.10A {Eubacterium rectale}

Probab=93.55  E-value=0.05  Score=46.35  Aligned_cols=28  Identities=29%  Similarity=0.432  Sum_probs=22.8

Q ss_pred             CCceEEEEEc-cCCCCHHHHHHHHHHHhc
Q 036637          171 PDVNMVGIYG-MGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       171 ~~~~vi~I~G-~gGvGKTtLa~~v~~~~~  198 (250)
                      ...++|+|+| -||+||||+|-.+..-..
T Consensus       141 ~~~kvIav~s~KGGvGKTT~a~nLA~~La  169 (373)
T 3fkq_A          141 DKSSVVIFTSPCGGVGTSTVAAACAIAHA  169 (373)
T ss_dssp             TSCEEEEEECSSTTSSHHHHHHHHHHHHH
T ss_pred             CCceEEEEECCCCCChHHHHHHHHHHHHH
Confidence            4678999985 899999999988776553

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=93.47  E-value=0.043  Score=49.95  Aligned_cols=26  Identities=35%  Similarity=0.461  Sum_probs=22.5

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||.+.+..-.
T Consensus       102 ~Gei~~LvGpNGaGKSTLLkiL~Gll  127 (608)
T 3j16_B          102 PGQVLGLVGTNGIGKSTALKILAGKQ  127 (608)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcCC
Confidence            45689999999999999999988643

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=93.45  E-value=0.028  Score=43.73  Aligned_cols=27  Identities=19%  Similarity=0.122  Sum_probs=23.3

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .....|.|+|..|+|||||+..+.+..
T Consensus        27 ~~~~~i~v~G~~~~GKSslin~l~~~~   53 (223)
T 4dhe_A           27 TVQPEIAFAGRSNAGKSTAINVLCNQK   53 (223)
T ss_dssp             CCSCEEEEEESCHHHHHHHHHHHTTCS
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHhCCC
Confidence            355678999999999999999998765

>3hdt_A Putative kinase; structura genomics, PSI-2, protein structure initiative, midwest CENT structural genomics, MCSG; 2.79A {Clostridium symbiosum atcc 14940}

Probab=93.44  E-value=0.057  Score=42.63  Aligned_cols=28  Identities=21%  Similarity=0.254  Sum_probs=24.3

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ....+|+|.|+.|+||||+++.+.....
T Consensus        12 ~~~~iI~i~g~~gsGk~~i~~~la~~lg   39 (223)
T 3hdt_A           12 NKNLIITIEREYGSGGRIVGKKLAEELG   39 (223)
T ss_dssp             CCCEEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             CCCeEEEEeCCCCCCHHHHHHHHHHHcC
Confidence            3456999999999999999999988764

>2qag_A Septin-2, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=93.42  E-value=0.031  Score=47.48  Aligned_cols=22  Identities=27%  Similarity=0.475  Sum_probs=19.3

Q ss_pred             eEEEEEccCCCCHHHHHHHHHH
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~  195 (250)
                      --|+|+|..|+|||||+..++.
T Consensus        38 ~~I~vvG~~g~GKSTLln~L~~   59 (361)
T 2qag_A           38 FTLMVVGESGLGKSTLINSLFL   59 (361)
T ss_dssp             ECEEECCCTTSCHHHHHHHHTT
T ss_pred             EEEEEEcCCCCCHHHHHHHHhC
Confidence            3469999999999999999865

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=93.42  E-value=0.19  Score=42.23  Aligned_cols=52  Identities=15%  Similarity=0.132  Sum_probs=36.9

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHHH
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADK  227 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~~  227 (250)
                      .-.++.|.|.+|+|||||+.++..+....+  ..++|++.-  -+..++...++..
T Consensus        45 ~G~LiiIaG~pG~GKTt~al~ia~~~a~~g--~~Vl~fSlE--ms~~ql~~Rlls~   96 (338)
T 4a1f_A           45 KGSLVIIGARPSMGKTSLMMNMVLSALNDD--RGVAVFSLE--MSAEQLALRALSD   96 (338)
T ss_dssp             TTCEEEEEECTTSCHHHHHHHHHHHHHHTT--CEEEEEESS--SCHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHHcC--CeEEEEeCC--CCHHHHHHHHHHH
Confidence            345889999999999999999987765321  356676654  4566776666443

>4i1u_A Dephospho-COA kinase; structural genomics, niaid, national institute of allergy AN infectious diseases; 2.05A {Burkholderia vietnamiensis} PDB: 4i1v_A*

Probab=93.38  E-value=0.069  Score=41.76  Aligned_cols=25  Identities=36%  Similarity=0.417  Sum_probs=21.7

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHH
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~  195 (250)
                      .+...|+++|.-|+||||+++.+-.
T Consensus         7 ~~~~~iglTGgigsGKStv~~~l~~   31 (210)
T 4i1u_A            7 HHMYAIGLTGGIGSGKTTVADLFAA   31 (210)
T ss_dssp             CSCCEEEEECCTTSCHHHHHHHHHH
T ss_pred             cceeEEEEECCCCCCHHHHHHHHHH
Confidence            4567899999999999999998754

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=93.37  E-value=0.017  Score=47.94  Aligned_cols=23  Identities=22%  Similarity=0.452  Sum_probs=20.1

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHH
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      .+++|+|..|+|||||.+.+...
T Consensus       174 ~~~~lvG~sG~GKSTLln~L~g~  196 (307)
T 1t9h_A          174 KTTVFAGQSGVGKSSLLNAISPE  196 (307)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC-
T ss_pred             CEEEEECCCCCCHHHHHHHhccc
Confidence            58899999999999999998643

>2dby_A GTP-binding protein; GDP, structural genomics, NPPSFA, natio project on protein structural and functional analyses; HET: GDP; 1.76A {Thermus thermophilus} PDB: 2dwq_A

Probab=93.32  E-value=0.051  Score=46.30  Aligned_cols=23  Identities=35%  Similarity=0.530  Sum_probs=20.5

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .|+|+|.+|+|||||...+.+..
T Consensus         3 ~v~IVG~pnvGKSTL~n~L~~~~   25 (368)
T 2dby_A            3 AVGIVGLPNVGKSTLFNALTRAN   25 (368)
T ss_dssp             SEEEECCSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47999999999999999998764

>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=93.32  E-value=0.12  Score=42.01  Aligned_cols=36  Identities=22%  Similarity=0.278  Sum_probs=28.3

Q ss_pred             HHHHHHHhcCC--CceEEEEEccCCCCHHHHHHHHHHH
Q 036637          161 LNNVLRALQDP--DVNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       161 ~~~l~~~L~~~--~~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      ..-+..||...  ...-|.++|++|.|||++|..+.+.
T Consensus        90 ~~~l~~~l~~~~~~~n~~~l~GppgtGKt~~a~ala~~  127 (267)
T 1u0j_A           90 ASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHT  127 (267)
T ss_dssp             HHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCCCcEEEEECCCCCCHHHHHHHHHhh
Confidence            44566666643  2457999999999999999999986

>3a1s_A Iron(II) transport protein B; FEOB, iron transporter, small GTPase, G protein, GDI; HET: GDP; 1.50A {Thermotoga maritima} PDB: 3a1t_A* 3a1u_A* 3a1v_A* 3a1w_A

Probab=93.31  E-value=0.046  Score=44.07  Aligned_cols=24  Identities=25%  Similarity=0.271  Sum_probs=21.0

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..|+++|.+|+|||||...+....
T Consensus         6 ~kI~lvG~~nvGKTsL~n~l~g~~   29 (258)
T 3a1s_A            6 VKVALAGCPNVGKTSLFNALTGTK   29 (258)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTTC
T ss_pred             eEEEEECCCCCCHHHHHHHHHCCC
Confidence            468999999999999999998644

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=93.30  E-value=0.29  Score=50.33  Aligned_cols=69  Identities=28%  Similarity=0.275  Sum_probs=0.0

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhCCCCC------CCCHHHHHHHHHHH
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGLIFF------EETESGRARSLYNR  247 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~~l~~~~~------~~~~~~~~~~l~~~  247 (250)
                      +.+-|+|++|+||||||.++.......+.  .++|+++.+.++...     ++.+|.+.+      ..+..+....++..
T Consensus      1428 ~~vll~GppGtGKT~LA~ala~ea~~~G~--~v~Fi~~e~~~~~l~-----a~~~G~dl~~l~v~~~~~~E~~l~~~~~l 1500 (2050)
T 3cmu_A         1428 RIVEIYGPESSGKTTLTLQVIAAAQREGK--TCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEICDAL 1500 (2050)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHHHHTTTC--CEEEECTTSCCCHHH-----HHHTTCCTTTCEEECCSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHcCC--cEEEEEcccccCHHH-----HHHcCCCchhceeecCChHHHHHHHHHHH


Q ss_pred             hc
Q 036637          248 LK  249 (250)
Q Consensus       248 L~  249 (250)
                      .+
T Consensus      1501 vr 1502 (2050)
T 3cmu_A         1501 AR 1502 (2050)
T ss_dssp             HH
T ss_pred             Hh

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=93.30  E-value=0.1  Score=42.24  Aligned_cols=36  Identities=19%  Similarity=0.079  Sum_probs=27.1

Q ss_pred             HHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          161 LNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       161 ~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .++|++.+...- ..+.++|.+|+|||||...+....
T Consensus        88 i~~L~~~l~~~~-~~v~~vG~~~vGKSslin~l~~~~  123 (262)
T 3cnl_A           88 KVLLKKLSFDRL-ARVLIVGVPNTGKSTIINKLKGKR  123 (262)
T ss_dssp             HHHHHHHCCCTT-CEEEEEESTTSSHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhh-hheEEeCCCCCCHHHHHHHHhccc
Confidence            456666654322 568999999999999999988654

>1ni3_A YCHF GTPase, YCHF GTP-binding protein; structural genomics, GTP1OBG, PSI, protein structure initiative; 2.80A {Schizosaccharomyces pombe} SCOP: c.37.1.8 d.15.10.2

Probab=93.28  E-value=0.053  Score=46.61  Aligned_cols=24  Identities=29%  Similarity=0.469  Sum_probs=21.5

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHH
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      ...++|+|.+|+|||||.+.+...
T Consensus        20 g~~vgiVG~pnaGKSTL~n~Ltg~   43 (392)
T 1ni3_A           20 NLKTGIVGMPNVGKSTFFRAITKS   43 (392)
T ss_dssp             CCEEEEEECSSSSHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCC
Confidence            457899999999999999999874

>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; 5.50A {Vibrio cholerae}

Probab=93.27  E-value=0.051  Score=49.25  Aligned_cols=27  Identities=30%  Similarity=0.481  Sum_probs=23.1

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      +.-.+++|+|..|+|||||++.+..-.
T Consensus       367 ~~G~~~~ivG~sGsGKSTll~~l~g~~  393 (582)
T 3b5x_A          367 PQGKTVALVGRSGSGKSTIANLFTRFY  393 (582)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            345688999999999999999998654

>1dek_A Deoxynucleoside monophosphate kinase; transferase, phosphotransferase; HET: DGP; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1 PDB: 1del_A*

Probab=93.25  E-value=0.064  Score=42.90  Aligned_cols=23  Identities=22%  Similarity=0.263  Sum_probs=20.5

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHH
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      .+|+|+|+.|+||||+++.+-..
T Consensus         2 ~~i~ltG~~~sGK~tv~~~l~~~   24 (241)
T 1dek_A            2 KLIFLSGVKRSGKDTTADFIMSN   24 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            47999999999999999988654

>3b60_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; HET: ANP; 3.70A {Salmonella typhimurium} SCOP: c.37.1.12 f.37.1.1 PDB: 3b5y_A* 3b5z_A* 3b5w_A

Probab=93.18  E-value=0.054  Score=49.08  Aligned_cols=26  Identities=27%  Similarity=0.417  Sum_probs=22.7

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus       368 ~G~~~~ivG~sGsGKSTLl~~l~g~~  393 (582)
T 3b60_A          368 AGKTVALVGRSGSGKSTIASLITRFY  393 (582)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHTTTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhhcc
Confidence            45689999999999999999998654

---

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	250
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	3e-11

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]} Length = 277

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

 Score = 59.8 bits (144), Expect = 3e-11
 Identities = 11/76 (14%), Positives = 27/76 (35%), Gaps = 2/76 (2%)

Query: 165 LRALQDPDVNMVGIYGMGGIGKTTLAKEVA--IQFGRDQFFDQVIFVEVPHIPDIRKIQG 222
           L  + D D   + ++G  G GK+ +A +            +D +++++            
Sbjct: 36  LDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDL 95

Query: 223 EIADKLGLIFFEETES 238
                L L   ++  +
Sbjct: 96  FTDILLMLKSEDDLLN 111

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	250
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	99.72
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	98.63
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	98.32
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.2
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	97.93
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	97.92
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	97.88
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	97.88
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	97.88
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	97.87
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	97.83
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.82
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	97.8
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.69
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	97.65
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.54
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.53
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.51
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.5
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.48
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.45
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.43
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.4
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.39
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.36
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.32
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.31
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.29
d2qy9a2	211	GTPase domain of the signal recognition particle r	97.28
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	97.25
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.22
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.22
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.22
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.21
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	97.21
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.19
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.14
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.13
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.12
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	97.11
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	97.08
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	97.08
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.02
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	97.01
d1okkd2	207	GTPase domain of the signal recognition particle r	96.97
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.96
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	96.95
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	96.92
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	96.89
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	96.88
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	96.88
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	96.86
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	96.82
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.82
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.77
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	96.75
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	96.74
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	96.73
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.69
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	96.67
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.65
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	96.65
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.63
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.62
d1j8yf2	211	GTPase domain of the signal sequence recognition p	96.62
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	96.62
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	96.61
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	96.6
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	96.58
d1ls1a2	207	GTPase domain of the signal sequence recognition p	96.56
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.54
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	96.53
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	96.53
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	96.5
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	96.49
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	96.48
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.46
d1vmaa2	213	GTPase domain of the signal recognition particle r	96.41
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.38
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	96.37
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	96.36
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	96.3
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	96.25
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	96.24
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	96.22
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	96.19
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	96.19
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	96.18
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	96.17
d1g2912	240	Maltose transport protein MalK, N-terminal domain	96.16
d2awna2	232	Maltose transport protein MalK, N-terminal domain	96.14
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	96.14
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	96.14
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	96.13
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	96.12
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	96.11
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	96.1
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	96.1
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	96.07
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	96.05
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	96.04
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	96.0
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	95.98
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	95.97
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	95.96
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	95.94
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	95.94
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	95.94
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	95.91
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	95.89
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	95.89
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	95.87
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	95.86
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	95.83
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	95.82
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	95.79
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	95.76
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	95.76
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	95.75
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	95.73
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	95.71
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	95.67
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	95.66
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	95.66
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	95.65
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	95.65
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	95.65
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	95.64
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	95.64
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	95.64
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	95.61
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	95.57
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	95.55
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	95.55
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	95.54
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	95.54
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	95.53
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	95.52
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	95.51
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	95.49
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	95.48
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	95.48
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	95.47
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	95.47
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	95.44
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	95.44
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	95.44
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	95.44
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	95.43
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	95.42
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	95.41
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	95.41
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	95.4
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	95.4
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	95.39
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	95.38
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	95.38
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	95.36
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	95.35
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	95.29
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	95.29
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	95.28
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	95.28
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	95.27
d2fh5b1	207	Signal recognition particle receptor beta-subunit	95.26
d1nrjb_	209	Signal recognition particle receptor beta-subunit	95.26
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	95.2
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	95.2
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	95.19
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	95.17
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	95.17
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	95.16
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	95.14
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	95.13
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	95.12
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	95.12
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	95.11
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	95.09
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	95.09
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	95.07
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.07
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	95.06
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	95.03
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	95.03
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	94.99
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	94.98
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	94.95
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	94.94
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	94.92
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	94.9
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	94.86
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	94.85
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	94.85
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	94.83
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	94.77
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	94.76
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	94.75
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	94.63
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	94.62
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	94.55
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	94.49
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	94.36
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	94.36
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	94.16
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	94.15
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	94.12
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	94.12
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	93.98
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	93.89
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	93.87
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	93.78
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	93.67
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	93.46
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	93.32
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	92.78
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	92.76
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	92.75
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	92.67
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	92.57
d1xpua3	289	Transcription termination factor Rho, ATPase domai	92.0
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	91.98
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	91.88
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	91.55
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	91.5
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	91.26
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	90.82
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	90.81
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	90.29
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	89.96
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	89.96
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	89.93
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	89.92
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	89.89
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	89.85
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	89.35
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	89.34
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	89.31
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	88.51
d1tuea_	205	Replication protein E1 helicase domain {Human papi	88.43
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	88.33
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	88.22
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	88.05
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	87.69
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	87.25
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	86.81
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	86.67
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	86.08
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	85.85
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	84.98
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	84.46
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	83.6
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	83.24
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	83.16
d1r0ka2	150	1-deoxy-D-xylulose-5-phosphate reductoisomerase {Z	82.66
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	82.19
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	81.83
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	80.72
d1p3da1	96	UDP-N-acetylmuramate-alanine ligase MurC {Haemophi	80.72

>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=99.72  E-value=3.1e-17  Score=134.38  Aligned_cols=77  Identities=14%  Similarity=0.158  Sum_probs=66.6

Q ss_pred             CcCCCcChHHHHHHHHHHhc---CCCceEEEEEccCCCCHHHHHHHHHHHhc--CCCCCCeEEEEEcCCCCCHHHHHHHH
Q 036637          150 DYEAFESRSSTLNNVLRALQ---DPDVNMVGIYGMGGIGKTTLAKEVAIQFG--RDQFFDQVIFVEVPHIPDIRKIQGEI  224 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~---~~~~~vi~I~G~gGvGKTtLa~~v~~~~~--v~~~Fd~~~wv~vs~~~~~~~l~~~i  224 (250)
                      ....++||+.++++|+++|.   +.+.++|+|+||||+||||||+++|++..  ++.+|++++||++++.++...+...+
T Consensus        18 ~~~~~~gR~~~~~~i~~~L~~~~~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~~l~~~~   97 (277)
T d2a5yb3          18 KQMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFT   97 (277)
T ss_dssp             CCCCSCCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHH
T ss_pred             CCCceeCcHHHHHHHHHHHHhccCCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCCHHHHHHHH
Confidence            44567899999999999986   56788999999999999999999999865  66789999999999999988887665


Q ss_pred             HH
Q 036637          225 AD  226 (250)
Q Consensus       225 ~~  226 (250)
                      ..
T Consensus        98 ~~   99 (277)
T d2a5yb3          98 DI   99 (277)
T ss_dssp             HH
T ss_pred             HH
Confidence            33

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=98.63  E-value=3.9e-07  Score=72.21  Aligned_cols=96  Identities=17%  Similarity=0.168  Sum_probs=71.8

Q ss_pred             cCCCcChHHHHHHHHHHhc------CCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHH
Q 036637          151 YEAFESRSSTLNNVLRALQ------DPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEI  224 (250)
Q Consensus       151 ~~~~~gr~~~~~~l~~~L~------~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i  224 (250)
                      +..++||+.+++.+.++|.      ...+..+.|+|++|+||||+++.+.+.......| ..+|+..........+...+
T Consensus        15 p~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~   93 (276)
T d1fnna2          15 PKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTA-RFVYINGFIYRNFTAIIGEI   93 (276)
T ss_dssp             CSCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCC-EEEEEETTTCCSHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHHhcccCC-cEEEecchhhhhhhhhhhhh
Confidence            3458999999999999875      2356788999999999999999999998643222 45677778888899999999


Q ss_pred             HHHhCCCCC--CCCHHHHHHHHHHH
Q 036637          225 ADKLGLIFF--EETESGRARSLYNR  247 (250)
Q Consensus       225 ~~~l~~~~~--~~~~~~~~~~l~~~  247 (250)
                      ...++....  ..........+.+.
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~  118 (276)
T d1fnna2          94 ARSLNIPFPRRGLSRDEFLALLVEH  118 (276)
T ss_dssp             HHHTTCCCCSSCCCHHHHHHHHHHH
T ss_pred             HHhhhhhhhhhccchhHHHHHHHHH
Confidence            998877644  23444444444443

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=98.32  E-value=2.9e-07  Score=73.12  Aligned_cols=46  Identities=13%  Similarity=0.231  Sum_probs=39.3

Q ss_pred             CCcCCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          149 KDYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       149 ~~~~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ...+.|+||+.+++.|.+.    ..+.+.|+|++|+|||||++++.+...
T Consensus         9 ~~~~~f~GR~~el~~l~~~----~~~~i~i~G~~G~GKTsLl~~~~~~~~   54 (283)
T d2fnaa2           9 DNRKDFFDREKEIEKLKGL----RAPITLVLGLRRTGKSSIIKIGINELN   54 (283)
T ss_dssp             CSGGGSCCCHHHHHHHHHT----CSSEEEEEESTTSSHHHHHHHHHHHHT
T ss_pred             CChhhCCChHHHHHHHHhc----cCCEEEEEcCCCCcHHHHHHHHHHHCC
Confidence            4567899999999998774    346889999999999999999988764

>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=98.20  E-value=3.7e-06  Score=66.70  Aligned_cols=84  Identities=21%  Similarity=0.218  Sum_probs=61.2

Q ss_pred             CcCCCcChHHHHHHHHHHhc----C-C----CceEEEEEccCCCCHHHHHHHHHHHhcC----CCCCCeEEEEEcCCCCC
Q 036637          150 DYEAFESRSSTLNNVLRALQ----D-P----DVNMVGIYGMGGIGKTTLAKEVAIQFGR----DQFFDQVIFVEVPHIPD  216 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~----~-~----~~~vi~I~G~gGvGKTtLa~~v~~~~~v----~~~Fd~~~wv~vs~~~~  216 (250)
                      .+..+.||+.+.+.|.+++.    + .    ...++.++|++|+||||+++.+.+....    ........++.......
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            34568899999999988764    1 1    2235667899999999999999987531    11124567788888888


Q ss_pred             HHHHHHHHHHHhCCCCC
Q 036637          217 IRKIQGEIADKLGLIFF  233 (250)
Q Consensus       217 ~~~l~~~i~~~l~~~~~  233 (250)
                      .......+...++....
T Consensus        94 ~~~~~~~~~~~~~~~~~  110 (287)
T d1w5sa2          94 LYTILSLIVRQTGYPIQ  110 (287)
T ss_dssp             HHHHHHHHHHHHTCCCC
T ss_pred             hhhHHHHHhhhcccccc
Confidence            88888888888876543

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.93  E-value=9.4e-06  Score=62.63  Aligned_cols=72  Identities=14%  Similarity=0.229  Sum_probs=51.0

Q ss_pred             CCcCCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHH
Q 036637          149 KDYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKI  220 (250)
Q Consensus       149 ~~~~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l  220 (250)
                      ....+++|.+..++.|.+|+.++....+-++|++|+||||+|+.+.+............-...+...+....
T Consensus        11 ~~~~divg~~~~~~~L~~~i~~~~~~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~~~~~~~~~~~   82 (227)
T d1sxjc2          11 ETLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGIDVV   82 (227)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCSHHHH
T ss_pred             CCHHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEecccccCCeeee
Confidence            355678999999999999998776655669999999999999999987643322223333444444444443

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=97.92  E-value=2.3e-05  Score=60.88  Aligned_cols=71  Identities=20%  Similarity=0.319  Sum_probs=47.9

Q ss_pred             CcCCCcChHHHHHHHHHHhc-----CCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHH
Q 036637          150 DYEAFESRSSTLNNVLRALQ-----DPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEI  224 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~-----~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i  224 (250)
                      ..++++|.+..+++|..++.     ...+.-+-++|++|+||||+|+.+.+.....     ..+++.+...........+
T Consensus         7 ~~ddivGq~~~~~~L~~~i~~~~~~~~~~~~~Ll~GPpG~GKTtla~~la~~~~~~-----~~~~~~~~~~~~~~~~~~~   81 (239)
T d1ixsb2           7 TLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVN-----LRVTSGPAIEKPGDLAAIL   81 (239)
T ss_dssp             SGGGSCSCHHHHHHHHHHHHHHTTSSSCCCCEEEECCTTSCHHHHHHHHHHHHTCC-----EEEEETTTCCSHHHHHHHH
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCC-----eEeccCCccccchhhHHHH
Confidence            44578999988888777764     2234556689999999999999999887532     3445555444444433333


Q ss_pred             H
Q 036637          225 A  225 (250)
Q Consensus       225 ~  225 (250)
                      .
T Consensus        82 ~   82 (239)
T d1ixsb2          82 A   82 (239)
T ss_dssp             H
T ss_pred             H
Confidence            3

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=97.88  E-value=7.8e-06  Score=63.32  Aligned_cols=49  Identities=16%  Similarity=0.191  Sum_probs=42.4

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          150 DYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ...+++|.+..++.|..|+.+....-+-++|++|+||||+|+.+.+...
T Consensus        22 ~~~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtla~~iak~l~   70 (231)
T d1iqpa2          22 RLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELF   70 (231)
T ss_dssp             STTTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHH
T ss_pred             CHHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCcHHHHHHHHHHHHH
Confidence            4567899999999999999877777778999999999999999987653

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=97.88  E-value=3.3e-05  Score=59.86  Aligned_cols=73  Identities=22%  Similarity=0.302  Sum_probs=49.7

Q ss_pred             CcCCCcChHHHHHHHHHHhc-----CCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHH
Q 036637          150 DYEAFESRSSTLNNVLRALQ-----DPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEI  224 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~-----~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i  224 (250)
                      ..+.++|.+..++.|..++.     .....-+-++|++|+||||+|+.+.+....    + .+.++.+...+..++. .+
T Consensus         7 ~~~divGqe~~~~~l~~~i~~~~~~~~~~~~~L~~GPpGtGKT~lA~~la~~~~~----~-~~~~~~~~~~~~~~~~-~~   80 (238)
T d1in4a2           7 SLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQT----N-IHVTSGPVLVKQGDMA-AI   80 (238)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHTC----C-EEEEETTTCCSHHHHH-HH
T ss_pred             cHHHcCChHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHhccCC----C-cccccCcccccHHHHH-HH
Confidence            45678999998888888875     333445669999999999999999988752    2 3344555545554443 33


Q ss_pred             HHHh
Q 036637          225 ADKL  228 (250)
Q Consensus       225 ~~~l  228 (250)
                      +...
T Consensus        81 ~~~~   84 (238)
T d1in4a2          81 LTSL   84 (238)
T ss_dssp             HHHC
T ss_pred             HHhh
Confidence            4433

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.88  E-value=9e-06  Score=62.71  Aligned_cols=76  Identities=20%  Similarity=0.247  Sum_probs=53.5

Q ss_pred             CCCcCCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCC-eEEEEEcCCCCCHHHHHHHH
Q 036637          148 NKDYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFD-QVIFVEVPHIPDIRKIQGEI  224 (250)
Q Consensus       148 ~~~~~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd-~~~wv~vs~~~~~~~l~~~i  224 (250)
                      |....+++|.+..++.|.+|+.+....-+-++|++|+||||+|+.+.+..... .+. ...-+..+...+...+...+
T Consensus        11 P~~~~d~ig~~~~~~~L~~~~~~~~~~~~ll~Gp~G~GKTt~a~~la~~l~~~-~~~~~~~~~n~~~~~~~~~i~~~~   87 (224)
T d1sxjb2          11 PQVLSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLGR-SYADGVLELNASDDRGIDVVRNQI   87 (224)
T ss_dssp             CSSGGGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHHHGG-GHHHHEEEECTTSCCSHHHHHTHH
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHcCCCCeEEEECCCCCCchhhHHHHHHHHhcc-ccccccccccccccCCceehhhHH
Confidence            33556789999999999999998776667799999999999999988776422 111 23445555555555554433

>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=97.87  E-value=1.2e-05  Score=60.63  Aligned_cols=77  Identities=14%  Similarity=0.237  Sum_probs=53.9

Q ss_pred             CCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHh---cCCCC-CCeEEEE-Ec----CCCC---CHHH
Q 036637          152 EAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQF---GRDQF-FDQVIFV-EV----PHIP---DIRK  219 (250)
Q Consensus       152 ~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~---~v~~~-Fd~~~wv-~v----s~~~---~~~~  219 (250)
                      +.++||+.+++++++.|....-.-+.+||.+|+|||+++..+....   ++-.. .+.++|. ++    +.+-   .+++
T Consensus        22 d~~igRd~Ei~~l~~iL~r~~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~~LiAg~~~rG~~E~  101 (195)
T d1jbka_          22 DPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYRGEFEE  101 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHTTTCSHHHHHH
T ss_pred             CCCcCcHHHHHHHHHHHhccCCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHHHHhccCCccHHHHH
Confidence            4678999999999999986555556899999999999988877654   22222 3455554 33    2232   5666


Q ss_pred             HHHHHHHHh
Q 036637          220 IQGEIADKL  228 (250)
Q Consensus       220 l~~~i~~~l  228 (250)
                      -++.+++.+
T Consensus       102 rl~~il~e~  110 (195)
T d1jbka_         102 RLKGVLNDL  110 (195)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            667777665

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.83  E-value=6.7e-06  Score=63.75  Aligned_cols=49  Identities=16%  Similarity=0.348  Sum_probs=41.1

Q ss_pred             CCcCCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          149 KDYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       149 ~~~~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ....+++|.+..++.|..++.+.....+-++|++|+||||+++.+.+..
T Consensus         9 ~~~~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtl~~~i~~~l   57 (237)
T d1sxjd2           9 KNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKEL   57 (237)
T ss_dssp             SSTTTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCHHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChHHHHHHHHHHH
Confidence            3455688988889999999887776667899999999999999988764

>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=97.82  E-value=1.4e-05  Score=63.36  Aligned_cols=78  Identities=21%  Similarity=0.295  Sum_probs=56.5

Q ss_pred             CCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhc---CCCCC-CeEEEE-EcC-----C--CCCHHH
Q 036637          152 EAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFG---RDQFF-DQVIFV-EVP-----H--IPDIRK  219 (250)
Q Consensus       152 ~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~---v~~~F-d~~~wv-~vs-----~--~~~~~~  219 (250)
                      +.++||+.+.+++++.|....-.-+-+||.+|+|||+|+..+.....   +...+ +.++|. +++     .  .-.+++
T Consensus        18 d~~igRd~Ei~~l~~iL~r~~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~liag~~~~g~~e~   97 (268)
T d1r6bx2          18 DPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDFEK   97 (268)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCCCSSCHHH
T ss_pred             CcccChHHHHHHHHHHHhcCccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechHhccCccchhHHH
Confidence            46789999999999999855555556999999999999888776542   22222 456665 222     1  237888


Q ss_pred             HHHHHHHHhC
Q 036637          220 IQGEIADKLG  229 (250)
Q Consensus       220 l~~~i~~~l~  229 (250)
                      -++.|++.+.
T Consensus        98 r~~~i~~~~~  107 (268)
T d1r6bx2          98 RFKALLKQLE  107 (268)
T ss_dssp             HHHHHHHHHS
T ss_pred             HHHHHHHHhh
Confidence            8888988873

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.80  E-value=3.3e-05  Score=60.29  Aligned_cols=66  Identities=20%  Similarity=0.266  Sum_probs=48.8

Q ss_pred             CcCCCcChHHHHHHHHHHhcC-----------------CCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcC
Q 036637          150 DYEAFESRSSTLNNVLRALQD-----------------PDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVP  212 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~-----------------~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs  212 (250)
                      ....++|.+..+++|.++|.+                 ...+.+-++|++|+||||+|+.+++....     ...++..+
T Consensus        12 ~~~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~~-----~~~~~~~~   86 (253)
T d1sxja2          12 NLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGY-----DILEQNAS   86 (253)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTC-----EEEEECTT
T ss_pred             CHHHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHHHh-----hhhccccc
Confidence            456789999999999998752                 13457889999999999999999987642     24566666


Q ss_pred             CCCCHHHH
Q 036637          213 HIPDIRKI  220 (250)
Q Consensus       213 ~~~~~~~l  220 (250)
                      ...+...+
T Consensus        87 ~~~~~~~~   94 (253)
T d1sxja2          87 DVRSKTLL   94 (253)
T ss_dssp             SCCCHHHH
T ss_pred             cchhhHHH
Confidence            55554443

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=97.69  E-value=2.2e-05  Score=65.66  Aligned_cols=78  Identities=14%  Similarity=0.207  Sum_probs=51.8

Q ss_pred             cCCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHh---cCC-CCCCeEEEE-EcC-----CCC--CHH
Q 036637          151 YEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQF---GRD-QFFDQVIFV-EVP-----HIP--DIR  218 (250)
Q Consensus       151 ~~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~---~v~-~~Fd~~~wv-~vs-----~~~--~~~  218 (250)
                      .+.++||+.+++++++.|.-..-.-+.+||.+|||||+|+..+....   ++- ...+.++|. .++     .++  .++
T Consensus        21 ld~~~gr~~ei~~~~~~L~r~~k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~~g~~e  100 (387)
T d1qvra2          21 LDPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAKYRGEFE  100 (387)
T ss_dssp             SCCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-----------CHH
T ss_pred             CCCCcCcHHHHHHHHHHHhcCCCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhhhcccCcchhHH
Confidence            34678999999999999985544444788999999999876544332   222 234555555 333     122  677


Q ss_pred             HHHHHHHHHh
Q 036637          219 KIQGEIADKL  228 (250)
Q Consensus       219 ~l~~~i~~~l  228 (250)
                      +-+..|+..+
T Consensus       101 ~r~~~i~~~~  110 (387)
T d1qvra2         101 ERLKAVIQEV  110 (387)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            7777887776

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.65  E-value=2e-05  Score=61.54  Aligned_cols=48  Identities=21%  Similarity=0.290  Sum_probs=38.5

Q ss_pred             CcCCCcChHHHHHHHHHHhcCC-CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          150 DYEAFESRSSTLNNVLRALQDP-DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~-~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ....++|.+...+.|..++... ...-+-++|++|+||||+|+.+.+..
T Consensus         9 ~~~diig~~~~~~~L~~~~~~~~~~~~lll~Gp~G~GKTt~~~~la~~l   57 (252)
T d1sxje2           9 SLNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESI   57 (252)
T ss_dssp             SGGGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHH
T ss_pred             CHHHccCcHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHhh
Confidence            4567899998888888877643 33345699999999999999999875

>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=97.54  E-value=2.6e-05  Score=55.87  Aligned_cols=24  Identities=29%  Similarity=0.394  Sum_probs=20.8

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ++|.|+|++|+||||||+.+....
T Consensus         3 klIii~G~pGsGKTTla~~L~~~~   26 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIAKN   26 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhC
Confidence            578899999999999999987643

>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=97.53  E-value=2.3e-05  Score=57.78  Aligned_cols=26  Identities=31%  Similarity=0.460  Sum_probs=23.2

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .+.|.|.|+.|+||||||+.+.+...
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            47899999999999999999998653

>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=97.51  E-value=2.5e-05  Score=56.36  Aligned_cols=25  Identities=28%  Similarity=0.442  Sum_probs=22.0

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      +.|.++|++|+||||+|+.+.+...
T Consensus         3 k~I~l~G~~GsGKSTvak~La~~L~   27 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQQLN   27 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhC
Confidence            4688999999999999999998753

>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=97.50  E-value=2.8e-05  Score=56.63  Aligned_cols=26  Identities=27%  Similarity=0.414  Sum_probs=22.7

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      +.||+|+|..|+|||||++.+-+...
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~~l~   27 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIPALC   27 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            35899999999999999999987643

>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=97.48  E-value=7.1e-05  Score=55.74  Aligned_cols=31  Identities=29%  Similarity=0.444  Sum_probs=26.8

Q ss_pred             cCCCceEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          169 QDPDVNMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       169 ~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      ...++-+|+|.|..|+||||||+.+.+....
T Consensus        18 ~~~~~~iIgI~G~~GSGKSTla~~L~~~l~~   48 (198)
T d1rz3a_          18 KTAGRLVLGIDGLSRSGKTTLANQLSQTLRE   48 (198)
T ss_dssp             CCSSSEEEEEEECTTSSHHHHHHHHHHHHHH
T ss_pred             cCCCCEEEEEECCCCCCHHHHHHHHHHHhcc
Confidence            3567789999999999999999999887653

>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=97.45  E-value=4.7e-05  Score=55.76  Aligned_cols=37  Identities=14%  Similarity=0.154  Sum_probs=28.2

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEE
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFV  209 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv  209 (250)
                      ...+|.++|++|+||||+|+.+....... +++...+.
T Consensus         5 ~g~~I~l~G~~GsGKTTia~~La~~L~~~-~~~~~~~~   41 (183)
T d1m8pa3           5 QGFTIFLTGYMNSGKDAIARALQVTLNQQ-GGRSVSLL   41 (183)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHHH-CSSCEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhhc-CCCchhhh
Confidence            45788999999999999999999876532 34544444

>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=97.43  E-value=4.4e-05  Score=55.55  Aligned_cols=24  Identities=38%  Similarity=0.545  Sum_probs=21.5

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ++|.|.|++|+||||+|+.+....
T Consensus         3 klI~i~G~~GsGKTTva~~L~~~~   26 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAAQL   26 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHc
Confidence            579999999999999999998654

>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=97.40  E-value=6.8e-05  Score=56.13  Aligned_cols=29  Identities=31%  Similarity=0.444  Sum_probs=25.6

Q ss_pred             CCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          170 DPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       170 ~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ...+.+|.|+|++|+||||+|+.+.+...
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            35678999999999999999999998774

>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=97.39  E-value=4.5e-05  Score=55.58  Aligned_cols=25  Identities=44%  Similarity=0.593  Sum_probs=21.4

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ..|.|+|++|+||||+|+.+.....
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            3467999999999999999987753

>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=97.36  E-value=7.5e-05  Score=54.37  Aligned_cols=29  Identities=34%  Similarity=0.527  Sum_probs=25.4

Q ss_pred             CCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          170 DPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       170 ~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      +.+.+++.|+|++|+||||+|+.+.....
T Consensus         3 ~~~~~iivl~G~~GsGKsT~a~~La~~l~   31 (171)
T d1knqa_           3 NHDHHIYVLMGVSGSGKSAVASEVAHQLH   31 (171)
T ss_dssp             CTTSEEEEEECSTTSCHHHHHHHHHHHHT
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            45678999999999999999999988763

>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=97.32  E-value=6.2e-05  Score=54.93  Aligned_cols=26  Identities=31%  Similarity=0.284  Sum_probs=22.9

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      ++|+|+|..|+|||||+..+......
T Consensus         2 kii~I~G~~gSGKTTli~~l~~~L~~   27 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVAAAVR   27 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHHh
Confidence            68999999999999999999876543

>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=97.31  E-value=5.7e-05  Score=55.43  Aligned_cols=25  Identities=32%  Similarity=0.376  Sum_probs=22.4

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      +.|.|+|.+|+|||||++.+.....
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l~   26 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVLK   26 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHH
Confidence            5689999999999999999998874

>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=97.29  E-value=7.8e-05  Score=54.85  Aligned_cols=26  Identities=23%  Similarity=0.378  Sum_probs=23.4

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      ++|.|.|+.|+||||+++.+.+....
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l~~   27 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNLRK   27 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            68999999999999999999887653

>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=97.28  E-value=0.0006  Score=51.73  Aligned_cols=61  Identities=15%  Similarity=0.198  Sum_probs=45.2

Q ss_pred             CCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHH--HHHHHHHhCCCCC
Q 036637          170 DPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKI--QGEIADKLGLIFF  233 (250)
Q Consensus       170 ~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l--~~~i~~~l~~~~~  233 (250)
                      .+.+.||.++|+.|+||||-+-++......   ....+.+....+|....+  ++...+.++.+..
T Consensus         6 ~~~p~vi~lvGptGvGKTTTiAKLA~~~~~---~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~   68 (211)
T d2qy9a2           6 GKAPFVILMVGVNGVGKTTTIGKLARQFEQ---QGKSVMLAAGDTFRAAAVEQLQVWGQRNNIPVI   68 (211)
T ss_dssp             SCTTEEEEEECCTTSCHHHHHHHHHHHHHT---TTCCEEEECCCTTCHHHHHHHHHHHHHTTCCEE
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHHH---CCCcEEEEecccccccchhhhhhhhhhcCCccc
Confidence            456899999999999999966666666542   234677777788877544  6788889988854

>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=97.25  E-value=0.00023  Score=55.12  Aligned_cols=48  Identities=19%  Similarity=0.263  Sum_probs=40.5

Q ss_pred             CcCCCcChHHHHHHHHHHhcCCC-ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          150 DYEAFESRSSTLNNVLRALQDPD-VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       150 ~~~~~~gr~~~~~~l~~~L~~~~-~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ...+++|.+..++.|..++.... ++.+-++|..|+||||+|+.+.+..
T Consensus        10 ~~~dlig~~~~~~~L~~~i~~~~~~~~~Ll~Gp~G~GKtt~a~~~~~~l   58 (239)
T d1njfa_          10 TFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGL   58 (239)
T ss_dssp             SGGGSCSCHHHHHHHHHHHHTTCCCSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CHHHccChHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHh
Confidence            45678999999999999988665 4567899999999999999987664

>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=97.22  E-value=0.00011  Score=53.48  Aligned_cols=26  Identities=31%  Similarity=0.386  Sum_probs=22.6

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ....|.|.|++|+||||+++.+.+..
T Consensus         4 k~~~I~i~G~~GsGKTT~~~~La~~l   29 (174)
T d1y63a_           4 KGINILITGTPGTGKTSMAEMIAAEL   29 (174)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHh
Confidence            34568999999999999999998765

>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=97.22  E-value=0.00012  Score=54.90  Aligned_cols=28  Identities=21%  Similarity=0.395  Sum_probs=25.2

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      +...||.|.|++|+||||+|+.+.....
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            4678999999999999999999998774

>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=97.22  E-value=0.00011  Score=55.47  Aligned_cols=26  Identities=19%  Similarity=0.360  Sum_probs=22.6

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      +-+|.++|.+|+||||||+.+.....
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~~l~   27 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTRYLN   27 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            45799999999999999999987654

>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=97.21  E-value=0.0001  Score=54.35  Aligned_cols=27  Identities=30%  Similarity=0.517  Sum_probs=23.3

Q ss_pred             CCCceEEEEEccCCCCHHHHHHHHHHH
Q 036637          170 DPDVNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       170 ~~~~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      .+.+.+|-++|++|+||||+|+.+...
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            467889999999999999999987543

>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=97.21  E-value=9.6e-05  Score=53.78  Aligned_cols=23  Identities=35%  Similarity=0.546  Sum_probs=20.5

Q ss_pred             EEEEccCCCCHHHHHHHHHHHhc
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      |.++||+|+||||+++.+.....
T Consensus         3 I~liG~~GsGKsTi~k~La~~l~   25 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAKDLD   25 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            77889999999999999988763

>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=97.19  E-value=0.00011  Score=53.67  Aligned_cols=26  Identities=27%  Similarity=0.488  Sum_probs=21.2

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      +++ .++||+|+||||+++.+.+....
T Consensus         2 p~I-vliG~~G~GKSTig~~La~~l~~   27 (165)
T d2iyva1           2 PKA-VLVGLPGSGKSTIGRRLAKALGV   27 (165)
T ss_dssp             CSE-EEECSTTSSHHHHHHHHHHHHTC
T ss_pred             CcE-EEECCCCCCHHHHHHHHHHHhCC
Confidence            344 46699999999999999988753

>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=97.14  E-value=6.6e-05  Score=55.88  Aligned_cols=27  Identities=26%  Similarity=0.277  Sum_probs=23.5

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ...+|.++|++|+||||+|+.+.....
T Consensus        18 ~g~vI~L~G~pGSGKTTiAk~La~~l~   44 (195)
T d1x6va3          18 RGCTVWLTGLSGAGKTTVSMALEEYLV   44 (195)
T ss_dssp             CCEEEEEESSCHHHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            356888999999999999999987765

>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=97.13  E-value=0.00014  Score=52.89  Aligned_cols=26  Identities=15%  Similarity=0.248  Sum_probs=23.1

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .++|.|.|.+|+||||+|+.+.+...
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            46899999999999999999988653

>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=97.12  E-value=0.00015  Score=52.86  Aligned_cols=24  Identities=33%  Similarity=0.439  Sum_probs=21.5

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHH
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~  195 (250)
                      +.++|.|.|++|+||||+|+.+.+
T Consensus         3 ~g~iI~l~G~~GsGKSTia~~La~   26 (176)
T d1zp6a1           3 GGNILLLSGHPGSGKSTIAEALAN   26 (176)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            467899999999999999998864

>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=97.11  E-value=0.00013  Score=53.51  Aligned_cols=25  Identities=32%  Similarity=0.497  Sum_probs=21.7

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ..|.++|++|+||||+++.+.+...
T Consensus         3 ~~Iil~G~~GsGKSTia~~LA~~Lg   27 (170)
T d1e6ca_           3 EPIFMVGARGCGMTTVGRELARALG   27 (170)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHhC
Confidence            4567899999999999999988764

>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=97.08  E-value=0.0003  Score=55.03  Aligned_cols=28  Identities=21%  Similarity=0.183  Sum_probs=24.5

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      +.++.|-++|++|+||||||+.+.+...
T Consensus        30 ~~P~~ilL~GpPGtGKT~la~~la~~~~   57 (273)
T d1gvnb_          30 ESPTAFLLGGQPGSGKTSLRSAIFEETQ   57 (273)
T ss_dssp             SSCEEEEEECCTTSCTHHHHHHHHHHTT
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHhh
Confidence            3567788999999999999999998775

>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=97.08  E-value=0.00015  Score=53.03  Aligned_cols=23  Identities=43%  Similarity=0.686  Sum_probs=21.0

Q ss_pred             EEEEccCCCCHHHHHHHHHHHhc
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      |.|+|..|+|||||++.+.....
T Consensus         3 i~I~G~~G~GKSTLl~~i~~~l~   25 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVERLG   25 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHG
T ss_pred             EEEECCCCcHHHHHHHHHHhcCC
Confidence            79999999999999999998664

>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=97.02  E-value=0.00023  Score=53.06  Aligned_cols=26  Identities=27%  Similarity=0.376  Sum_probs=23.3

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      +.+|.|.|++|+||||.|+.+++...
T Consensus         1 p~iI~i~GppGSGKsT~a~~La~~~g   26 (194)
T d1teva_           1 PLVVFVLGGPGAGKGTQCARIVEKYG   26 (194)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            45899999999999999999998774

>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=97.01  E-value=0.00024  Score=53.86  Aligned_cols=26  Identities=19%  Similarity=0.433  Sum_probs=23.4

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      +-+|+|.|..|+||||+|+.+.+...
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~~l~   27 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQLLG   27 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            56899999999999999999988764

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=96.97  E-value=0.0018  Score=48.93  Aligned_cols=61  Identities=20%  Similarity=0.242  Sum_probs=44.2

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcC-CCCCHHHHHHHHHHHhCCCCC
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVP-HIPDIRKIQGEIADKLGLIFF  233 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs-~~~~~~~l~~~i~~~l~~~~~  233 (250)
                      ++.++|.++|+.|+||||-+-++....... . ..+..++.- ....-.+=++...+.++.+..
T Consensus         4 ~~~~vi~lvGptGvGKTTTiaKLA~~~~~~-g-~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~~   65 (207)
T d1okkd2           4 PKGRVVLVVGVNGVGKTTTIAKLGRYYQNL-G-KKVMFCAGDTFRAAGGTQLSEWGKRLSIPVI   65 (207)
T ss_dssp             CSSSEEEEECSTTSSHHHHHHHHHHHHHTT-T-CCEEEECCCCSSTTHHHHHHHHHHHHTCCEE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHC-C-CcEEEEEeccccccchhhHhhcccccCceEE
Confidence            567899999999999999777677666533 2 346666554 335666667888899988853

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=96.96  E-value=0.00024  Score=52.30  Aligned_cols=26  Identities=23%  Similarity=0.385  Sum_probs=23.1

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      ++|.|.|+.|+||||+++.+......
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~L~~   27 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEILDN   27 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            68899999999999999999887753

>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=96.95  E-value=0.00048  Score=53.62  Aligned_cols=46  Identities=22%  Similarity=0.169  Sum_probs=32.3

Q ss_pred             CCcChHHHHHHHHHHhc----------CCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          153 AFESRSSTLNNVLRALQ----------DPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       153 ~~~gr~~~~~~l~~~L~----------~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      +++|..++.+.+++-+.          ...++-|-++|++|+|||++|+.+.+...
T Consensus        10 ~~i~~~~~i~~i~~~~~~~~~~~~~~~~~p~~~vLL~GppGtGKT~la~alA~~~~   65 (246)
T d1d2na_          10 GIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESN   65 (246)
T ss_dssp             CCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             CCcCcCHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECcCCCCHHHHHHHHhhccc
Confidence            46665554444443332          22456678999999999999999998865

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=96.92  E-value=0.00026  Score=52.59  Aligned_cols=26  Identities=23%  Similarity=0.194  Sum_probs=22.9

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      +-.|.|.|++|+||||+|+.+.+...
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            44578999999999999999998875

>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=96.89  E-value=0.00065  Score=53.21  Aligned_cols=49  Identities=24%  Similarity=0.211  Sum_probs=36.5

Q ss_pred             cCCCcChHHHHHHHHH---HhcC---------CCceEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          151 YEAFESRSSTLNNVLR---ALQD---------PDVNMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       151 ~~~~~gr~~~~~~l~~---~L~~---------~~~~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      ..++.|.+..+++|.+   ++..         ..++-+-++|++|+|||++|+.+.+....
T Consensus        11 ~~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~~~   71 (256)
T d1lv7a_          11 FADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKV   71 (256)
T ss_dssp             GGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTC
T ss_pred             HHHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHcCC
Confidence            3577888877776654   3321         23556789999999999999999988753

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=96.88  E-value=0.00041  Score=55.92  Aligned_cols=46  Identities=22%  Similarity=0.272  Sum_probs=35.6

Q ss_pred             CCcChHHHHHHHHHHhc--------------CCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          153 AFESRSSTLNNVLRALQ--------------DPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       153 ~~~gr~~~~~~l~~~L~--------------~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .++|.+..++.+...+.              +..++-+-++|++|+|||.||+.+.+...
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            57898888887766541              11456677999999999999999998764

>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=96.88  E-value=0.0011  Score=51.60  Aligned_cols=48  Identities=23%  Similarity=0.257  Sum_probs=35.1

Q ss_pred             cCCCcChHHHHHHHHH---HhcC---------CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          151 YEAFESRSSTLNNVLR---ALQD---------PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       151 ~~~~~gr~~~~~~l~~---~L~~---------~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ..+++|.+..++.|.+   ++..         ..++-+-++|++|+|||+||+.+.+...
T Consensus         8 ~~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~~   67 (247)
T d1ixza_           8 FKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEAR   67 (247)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             HHHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHcC
Confidence            3468888876655444   3322         2345688999999999999999998765

>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=96.86  E-value=0.00033  Score=52.11  Aligned_cols=23  Identities=35%  Similarity=0.447  Sum_probs=20.4

Q ss_pred             CceEEEEEccCCCCHHHHHHHHH
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVA  194 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~  194 (250)
                      ++-+|||+|+.|+||||+|+.+-
T Consensus         2 ~p~IIgitG~~gSGKstva~~l~   24 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAALLR   24 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
Confidence            56799999999999999999763

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.82  E-value=0.00036  Score=51.25  Aligned_cols=23  Identities=30%  Similarity=0.624  Sum_probs=21.0

Q ss_pred             EEEEccCCCCHHHHHHHHHHHhc
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      |.|.|++|+||||+|+.+.....
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~~   25 (182)
T d1zina1           3 LVLMGLPGAGKGTQAEKIVAAYG   25 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHC
Confidence            77999999999999999988774

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=96.82  E-value=0.00038  Score=52.72  Aligned_cols=40  Identities=30%  Similarity=0.271  Sum_probs=31.2

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHH
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIAD  226 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~  226 (250)
                      .||+|-|++|+||||+|+.+.++....    +         .+.-+|+|.++.
T Consensus         4 piI~I~GppGSGKgT~ak~La~~~gl~----~---------iStGdLlR~~a~   43 (225)
T d1ckea_           4 PVITIDGPSGAGKGTLCKAMAEALQWH----L---------LDSGAIYRVLAL   43 (225)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHTCE----E---------EEHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhCCc----E---------ECHHHHHHHHHH
Confidence            489999999999999999999998632    1         245667776654

>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=96.77  E-value=0.00051  Score=50.97  Aligned_cols=26  Identities=38%  Similarity=0.489  Sum_probs=21.8

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      +.++| |+|++|+||||+|+.+.....
T Consensus         3 ~~rii-l~G~pGSGKsT~a~~La~~~g   28 (190)
T d1ak2a1           3 GVRAV-LLGPPGAGKGTQAPKLAKNFC   28 (190)
T ss_dssp             CCEEE-EECCTTSSHHHHHHHHHHHHT
T ss_pred             ccEEE-EECCCCCCHHHHHHHHHHHhC
Confidence            45565 789999999999999998764

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=96.75  E-value=0.0036  Score=49.09  Aligned_cols=68  Identities=24%  Similarity=0.224  Sum_probs=51.2

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhCCCCC------CCCHHHHHHHHH
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGLIFF------EETESGRARSLY  245 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~~l~~~~~------~~~~~~~~~~l~  245 (250)
                      .-++.-|.|.+|+|||||+-++.-..+-.+  ..++|+.....++++     +++++|++.+      +.+-++..+.+.
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            356889999999999999999988776433  368999999999985     6788888754      334445444443


Q ss_pred             H
Q 036637          246 N  246 (250)
Q Consensus       246 ~  246 (250)
                      .
T Consensus       129 ~  129 (268)
T d1xp8a1         129 L  129 (268)
T ss_dssp             H
T ss_pred             H
Confidence            3

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=96.74  E-value=0.00045  Score=50.93  Aligned_cols=24  Identities=29%  Similarity=0.562  Sum_probs=21.7

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhc
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .|.|.|++|+||||+|+.+.+...
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            377999999999999999998875

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.73  E-value=0.00052  Score=50.47  Aligned_cols=24  Identities=38%  Similarity=0.440  Sum_probs=21.6

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhc
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      -|.|.|++|+||||+|+.+.+...
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            367889999999999999998885

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=96.69  E-value=0.00049  Score=51.27  Aligned_cols=25  Identities=28%  Similarity=0.433  Sum_probs=21.4

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      --|.|.|++|+||||+++.+.....
T Consensus         7 mrIiliG~PGSGKtT~a~~La~~~g   31 (189)
T d2ak3a1           7 LRAAIMGAPGSGKGTVSSRITKHFE   31 (189)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHBC
T ss_pred             eeEEEECCCCCCHHHHHHHHHHHHC
Confidence            3566889999999999999998764

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=96.67  E-value=0.0015  Score=52.78  Aligned_cols=38  Identities=24%  Similarity=0.413  Sum_probs=30.3

Q ss_pred             HHHHHHHHhc--CCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          160 TLNNVLRALQ--DPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       160 ~~~~l~~~L~--~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ...++++.+.  .....+|+|.|.+|+|||||...+....
T Consensus        36 ~~~~~~~~~~~~~~~~~~igitG~pGaGKSTli~~l~~~~   75 (323)
T d2qm8a1          36 AVRDLIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGSLL   75 (323)
T ss_dssp             HHHHHHHHHGGGCCCSEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhccCCceEEeeeCCCCCCHHHHHHHHHHHH
Confidence            3555666654  4578899999999999999999988654

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=96.65  E-value=0.00063  Score=50.68  Aligned_cols=27  Identities=22%  Similarity=0.445  Sum_probs=24.0

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ...+|.|.|++|+||||+|+.+.+...
T Consensus         7 ~~~iI~l~G~pGSGKsT~a~~La~~~g   33 (194)
T d3adka_           7 KSKIIFVVGGPGSGKGTQCEKIVQKYG   33 (194)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHTC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            357899999999999999999998764

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Clostridium pasteurianum [TaxId: 1501]

Probab=96.65  E-value=0.00047  Score=54.11  Aligned_cols=27  Identities=37%  Similarity=0.612  Sum_probs=23.4

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhcCC
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFGRD  200 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~v~  200 (250)
                      +.|+|+|-||+||||+|-++..-...+
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA~~LA~~   28 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLTSGLHAM   28 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHTT
T ss_pred             CEEEEECCCcCCHHHHHHHHHHHHHhC
Confidence            689999999999999999988777543

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=96.63  E-value=0.00063  Score=51.60  Aligned_cols=26  Identities=38%  Similarity=0.482  Sum_probs=23.1

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      -+|+|-|++|+||||+|+.+..+...
T Consensus         4 i~IaIdGp~GsGKgT~ak~La~~lg~   29 (223)
T d1q3ta_           4 IQIAIDGPASSGKSTVAKIIAKDFGF   29 (223)
T ss_dssp             CEEEEECSSCSSHHHHHHHHHHHHCC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            36889999999999999999988864

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=96.62  E-value=0.0011  Score=50.21  Aligned_cols=30  Identities=30%  Similarity=0.392  Sum_probs=25.5

Q ss_pred             hcCCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          168 LQDPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       168 L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ...+...+|-+.|++|+||||||+.+....
T Consensus        19 ~~~~kg~vIwltGlsGsGKTTia~~L~~~l   48 (208)
T d1m7ga_          19 LRNQRGLTIWLTGLSASGKSTLAVELEHQL   48 (208)
T ss_dssp             HHTSSCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HhCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            445778899999999999999999987543

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=96.62  E-value=0.0018  Score=49.03  Aligned_cols=61  Identities=20%  Similarity=0.299  Sum_probs=35.7

Q ss_pred             CCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCH--HHHHHHHHHHhCCCCC
Q 036637          170 DPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDI--RKIQGEIADKLGLIFF  233 (250)
Q Consensus       170 ~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~--~~l~~~i~~~l~~~~~  233 (250)
                      +..+.||.++|+.|+||||.+-++....+.+ .. .+..|+.- ++..  .+=++...+.++.+..
T Consensus         9 ~k~p~vi~lvGptGvGKTTTiAKLA~~~~~~-g~-kV~lit~D-t~R~ga~eQL~~~a~~l~v~~~   71 (211)
T d1j8yf2           9 DKIPYVIMLVGVQGTGKATTAGKLAYFYKKK-GF-KVGLVGAD-VYRPAALEQLQQLGQQIGVPVY   71 (211)
T ss_dssp             SSSSEEEEEECSCCC----HHHHHHHHHHHT-TC-CEEEEECC-CSSHHHHHHHHHHHHHHTCCEE
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHHHC-CC-ceEEEEee-ccccchhHHHHHhccccCccee
Confidence            4578999999999999999666555555432 22 35555543 3333  3335666778887753

>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=96.62  E-value=0.00066  Score=50.06  Aligned_cols=24  Identities=21%  Similarity=0.383  Sum_probs=21.6

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ++|.|+|+.|+|||||++.+.++.
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~~~   26 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRERI   26 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhC
Confidence            578899999999999999998764

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=96.61  E-value=0.00053  Score=55.71  Aligned_cols=47  Identities=23%  Similarity=0.341  Sum_probs=36.0

Q ss_pred             CCcCCCcChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHH
Q 036637          149 KDYEAFESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       149 ~~~~~~~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~  195 (250)
                      .+...++|.+..+..|+-.+.+.+.+=+-+.|.+|+||||||+.+-.
T Consensus         4 ~~f~~I~Gq~~~kral~laa~~~~~h~vLl~G~pG~GKT~lar~~~~   50 (333)
T d1g8pa_           4 FPFSAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAA   50 (333)
T ss_dssp             CCGGGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHH
T ss_pred             CChhhccCcHHHHHHHHHHHhccCCCeEEEECCCCccHHHHHHHHHH
Confidence            35667899998777655444444555678999999999999998864

>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=96.60  E-value=0.00074  Score=49.52  Aligned_cols=24  Identities=25%  Similarity=0.313  Sum_probs=21.2

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhc
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .|.|.|++|+||||+++.+.+...
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            367899999999999999998775

>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=96.58  E-value=0.0013  Score=51.39  Aligned_cols=47  Identities=23%  Similarity=0.343  Sum_probs=36.0

Q ss_pred             CCCcChHHHHHHHHHHh----cC---------CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          152 EAFESRSSTLNNVLRAL----QD---------PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       152 ~~~~gr~~~~~~l~~~L----~~---------~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ..+.|.+..+++|.+.+    ..         ..++-+-++|++|+|||+|++.+.+...
T Consensus         4 ~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~~   63 (258)
T d1e32a2           4 DDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG   63 (258)
T ss_dssp             GGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             hhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHhC
Confidence            45778888877777653    21         2355678999999999999999998765

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=96.56  E-value=0.002  Score=48.67  Aligned_cols=60  Identities=23%  Similarity=0.318  Sum_probs=40.2

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCC--HHHHHHHHHHHhCCCCC
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPD--IRKIQGEIADKLGLIFF  233 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~--~~~l~~~i~~~l~~~~~  233 (250)
                      ++.+||.++|+.|+||||.+-++......+ .. .+..++. .++.  ..+-++...+.++.+..
T Consensus         8 ~~~~vi~lvGp~GvGKTTTiaKLA~~~~~~-g~-kV~lit~-Dt~R~gA~eQL~~~a~~l~v~~~   69 (207)
T d1ls1a2           8 KDRNLWFLVGLQGSGKTTTAAKLALYYKGK-GR-RPLLVAA-DTQRPAAREQLRLLGEKVGVPVL   69 (207)
T ss_dssp             CSSEEEEEECCTTTTHHHHHHHHHHHHHHT-TC-CEEEEEC-CSSCHHHHHHHHHHHHHHTCCEE
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHHHC-CC-cEEEEec-ccccchHHHHHHHHHHhcCCccc
Confidence            456899999999999999666666555432 23 3444444 4444  44446778888888754

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.54  E-value=0.00069  Score=50.46  Aligned_cols=24  Identities=33%  Similarity=0.412  Sum_probs=21.0

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhc
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .|.|+|+.|+|||||++.+.....
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~~~   25 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQEHS   25 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHhCC
Confidence            477999999999999999987653

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=96.53  E-value=0.0023  Score=51.78  Aligned_cols=39  Identities=23%  Similarity=0.350  Sum_probs=30.3

Q ss_pred             HHHHHHHhc--CCCceEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          161 LNNVLRALQ--DPDVNMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       161 ~~~l~~~L~--~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      ..++++.+.  .....+|+|+|.+|+|||||...+.....-
T Consensus        40 ~~~ll~~~~~~~~~~~~IgitG~pGaGKSTLi~~l~~~~~~   80 (327)
T d2p67a1          40 STQLLDAIMPYCGNTLRLGVTGTPGAGKSTFLEAFGMLLIR   80 (327)
T ss_dssp             HHHHHHHHGGGCSCSEEEEEEECTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhccCCceEEEeeCCCCCCHHHHHHHHHHHHHh
Confidence            345555554  456889999999999999999998766653

>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=96.53  E-value=0.00099  Score=51.00  Aligned_cols=24  Identities=38%  Similarity=0.465  Sum_probs=21.5

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhc
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ||.|+|+.|+|||||...+-....
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~~~   25 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRYLE   25 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHHh
Confidence            789999999999999999987654

>d1ihua2 c.37.1.10 (A:308-586) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=96.50  E-value=0.0012  Score=51.95  Aligned_cols=38  Identities=26%  Similarity=0.604  Sum_probs=29.7

Q ss_pred             HHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          161 LNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       161 ~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      +..+.+.+...+.++|.+.|-||+||||++-++-.-..
T Consensus         8 ~~~~~~~~~~~~~~iii~sGKGGVGKTT~a~nLA~~lA   45 (279)
T d1ihua2           8 LSALVDDIARNEHGLIMLMGKGGVGKTTMAAAIAVRLA   45 (279)
T ss_dssp             HHHHHHHHHTTSCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            34455556678999999999999999998887765554

>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=96.49  E-value=0.00091  Score=49.16  Aligned_cols=23  Identities=30%  Similarity=0.394  Sum_probs=20.1

Q ss_pred             EEEEccCCCCHHHHHHHHHHHhc
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      |.|.|++|+||||+++.+.+...
T Consensus         5 Ivl~G~pGSGKtT~a~~La~~~g   27 (180)
T d1akya1           5 MVLIGPPGAGKGTQAPNLQERFH   27 (180)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            45789999999999999988764

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.48  E-value=0.0069  Score=47.44  Aligned_cols=55  Identities=27%  Similarity=0.289  Sum_probs=44.8

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhCCCCC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGLIFF  233 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~~l~~~~~  233 (250)
                      .-++.-|.|..|+|||||+-+++...+..+  ..++|+..-..++.+.     ++++|++.+
T Consensus        59 ~g~i~e~~G~~~~GKT~l~l~~~~~~q~~g--~~~vyIDtE~~~~~e~-----a~~~GvD~d  113 (269)
T d1mo6a1          59 RGRVIEIYGPESSGKTTVALHAVANAQAAG--GVAAFIDAEHALDPDY-----AKKLGVDTD  113 (269)
T ss_dssp             SSSEEEEECSSSSSHHHHHHHHHHHHHHTT--CEEEEEESSCCCCHHH-----HHHHTCCGG
T ss_pred             cceeEEEecCCCcHHHHHHHHHHHHHhcCC--CEEEEEECCccCCHHH-----HHHhCCCHH
Confidence            356888999999999999999888776543  4689999999999864     567788754

>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=96.46  E-value=0.00079  Score=49.89  Aligned_cols=24  Identities=33%  Similarity=0.513  Sum_probs=21.3

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      +-|.|+|+.|+|||||++.+.+..
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~~~   25 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhC
Confidence            457899999999999999998775

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=96.41  E-value=0.0037  Score=47.24  Aligned_cols=62  Identities=16%  Similarity=0.189  Sum_probs=41.0

Q ss_pred             CCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCC-CCCHHHHHHHHHHHhCCCCC
Q 036637          170 DPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPH-IPDIRKIQGEIADKLGLIFF  233 (250)
Q Consensus       170 ~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~-~~~~~~l~~~i~~~l~~~~~  233 (250)
                      ...+.||.++|+.|+||||-+-++......+ . ..+..+++-. ...-.+=++...+.++.+..
T Consensus         8 ~~~p~vi~lvGptGvGKTTTiAKLAa~~~~~-~-~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~~   70 (213)
T d1vmaa2           8 PEPPFVIMVVGVNGTGKTTSCGKLAKMFVDE-G-KSVVLAAADTFRAAAIEQLKIWGERVGATVI   70 (213)
T ss_dssp             SSSCEEEEEECCTTSSHHHHHHHHHHHHHHT-T-CCEEEEEECTTCHHHHHHHHHHHHHHTCEEE
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHHHC-C-CceEEEeecccccchhHHHHHHhhhcCcccc
Confidence            3568899999999999999666666665432 2 3455555432 22344446777888887754

>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=96.38  E-value=0.0023  Score=51.48  Aligned_cols=46  Identities=15%  Similarity=0.242  Sum_probs=36.6

Q ss_pred             CCCcChHHHHHHHHHHhc---------CCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          152 EAFESRSSTLNNVLRALQ---------DPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       152 ~~~~gr~~~~~~l~~~L~---------~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..++|.+..++.+...+.         +....++..+|+.|+|||.||+.+..-.
T Consensus        22 ~~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l   76 (315)
T d1r6bx3          22 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL   76 (315)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhhc
Confidence            357888888888877663         2235588899999999999999998765

>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=96.37  E-value=0.001  Score=47.29  Aligned_cols=23  Identities=22%  Similarity=0.286  Sum_probs=20.5

Q ss_pred             EEEEccCCCCHHHHHHHHHHHhc
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      |.|+|.+|+|||||...+.++..
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~~~   25 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLGEI   25 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHCS
T ss_pred             EEEECCCCCCHHHHHHHHhcCCC
Confidence            57999999999999999987763

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=96.36  E-value=0.0028  Score=49.93  Aligned_cols=50  Identities=20%  Similarity=0.368  Sum_probs=33.2

Q ss_pred             cCCCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHH
Q 036637          169 QDPDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKI  220 (250)
Q Consensus       169 ~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l  220 (250)
                      .++.+++|.++|-||+||||++-.+..-..-++  ..+..|..-..+|...+
T Consensus         4 ~~~~p~~i~~sGKGGVGKTTvaa~lA~~lA~~G--~rVLlvD~Dp~~~l~~~   53 (296)
T d1ihua1           4 LQNIPPYLFFTGKGGVGKTSISCATAIRLAEQG--KRVLLVSTDPASNVGQV   53 (296)
T ss_dssp             GSSCCSEEEEECSTTSSHHHHHHHHHHHHHHTT--CCEEEEECCTTCCHHHH
T ss_pred             CCCCCeEEEEECCCcChHHHHHHHHHHHHHHCC--CCEEEEeCCCCCCHHHH
Confidence            345688999999999999998888776654332  13455555544444433

>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=96.30  E-value=0.0013  Score=48.37  Aligned_cols=24  Identities=13%  Similarity=0.409  Sum_probs=21.6

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      +.|.|+|+.|+|||||++.+..+.
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~~~   27 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLITKH   27 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CcEEEECCCCCCHHHHHHHHHHhC
Confidence            578999999999999999998664

>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=96.25  E-value=0.00099  Score=49.48  Aligned_cols=27  Identities=30%  Similarity=0.147  Sum_probs=22.8

Q ss_pred             CCCceEEEEEccCCCCHHHHHHHHHHH
Q 036637          170 DPDVNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       170 ~~~~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      +..+.+|+|-|.-|+||||+++.+.+.
T Consensus         6 ~~kp~~I~ieG~~GsGKTTl~~~L~~~   32 (197)
T d2vp4a1           6 GTQPFTVLIEGNIGSGKTTYLNHFEKY   32 (197)
T ss_dssp             TCCCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHHH
Confidence            345679999999999999999987643

>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=96.24  E-value=0.0054  Score=48.49  Aligned_cols=28  Identities=14%  Similarity=0.053  Sum_probs=23.9

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ..+-+|||-|..|+|||||+..+.....
T Consensus        25 ~~P~iIGi~G~qGSGKSTl~~~l~~~L~   52 (286)
T d1odfa_          25 KCPLFIFFSGPQGSGKSFTSIQIYNHLM   52 (286)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCCEEEEeECCCCCCHHHHHHHHHHHHH
Confidence            4577999999999999999998876653

>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=96.22  E-value=0.002  Score=46.77  Aligned_cols=33  Identities=27%  Similarity=0.295  Sum_probs=24.5

Q ss_pred             HHHHhc-CCCceEEEEEccCCCCHHHHHHHHHHH
Q 036637          164 VLRALQ-DPDVNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       164 l~~~L~-~~~~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      +++++. .+...-|.++|.+|+|||||...+...
T Consensus         3 ~~~~~~~~~k~~kI~lvG~~~vGKTsLl~~l~~~   36 (186)
T d1f6ba_           3 VLQFLGLYKKTGKLVFLGLDNAGKTTLLHMLKDD   36 (186)
T ss_dssp             HHHHHTCTTCCEEEEEEEETTSSHHHHHHHHSCC
T ss_pred             hHHhccccCCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            455555 344455789999999999999987544

>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=96.19  E-value=0.0018  Score=49.69  Aligned_cols=27  Identities=22%  Similarity=0.298  Sum_probs=24.3

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      +++.|+|=|+-|+||||+++.+.+...
T Consensus         1 ~pk~IviEG~~GsGKST~~~~L~~~l~   27 (241)
T d2ocpa1           1 GPRRLSIEGNIAVGKSTFVKLLTKTYP   27 (241)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHCT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHh
Confidence            578999999999999999999998764

>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=96.19  E-value=0.0013  Score=52.13  Aligned_cols=26  Identities=35%  Similarity=0.699  Sum_probs=21.6

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .+.|+|.|-||+||||++-++-.-..
T Consensus         2 Mr~IaisgKGGVGKTT~a~NLA~~LA   27 (289)
T d2afhe1           2 MRQCAIYGKGGIGKSTTTQNLVAALA   27 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHHHHHH
Confidence            36789999999999999998765553

>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=0.0011  Score=47.41  Aligned_cols=24  Identities=29%  Similarity=0.379  Sum_probs=21.0

Q ss_pred             EEEEccCCCCHHHHHHHHHHHhcC
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      |.|+|.+|+|||||...+.++...
T Consensus         8 I~ivG~~~vGKSSLi~~~~~~~~~   31 (169)
T d1upta_           8 ILILGLDGAGKTTILYRLQVGEVV   31 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSSCC
T ss_pred             EEEECCCCCCHHHHHHHHhCCCCc
Confidence            689999999999999999887633

>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=96.17  E-value=0.001  Score=50.10  Aligned_cols=26  Identities=42%  Similarity=0.577  Sum_probs=22.5

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||.+.++.-.
T Consensus        26 ~Gei~~l~G~NGsGKSTLl~~i~gl~   51 (200)
T d1sgwa_          26 KGNVVNFHGPNGIGKTTLLKTISTYL   51 (200)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhccc
Confidence            45688999999999999999998644

>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=96.16  E-value=0.0015  Score=50.53  Aligned_cols=26  Identities=31%  Similarity=0.289  Sum_probs=22.6

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.++.-.
T Consensus        28 ~Ge~~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          28 DGEFMILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcCC
Confidence            45689999999999999999998654

>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=50.16  Aligned_cols=26  Identities=31%  Similarity=0.319  Sum_probs=22.5

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|+.|+|||||.+.+..-.
T Consensus        25 ~Gei~~liGpsGsGKSTLl~~i~Gl~   50 (232)
T d2awna2          25 EGEFVVFVGPSGCGKSTLLRMIAGLE   50 (232)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcCC
Confidence            45689999999999999999987654

>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=96.14  E-value=0.0042  Score=46.97  Aligned_cols=38  Identities=29%  Similarity=0.329  Sum_probs=28.8

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcC
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVP  212 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs  212 (250)
                      ...+-|||..|+|||.|++.+++....+  ....++++..
T Consensus        36 ~n~l~l~G~~G~GKTHLl~A~~~~~~~~--~~~~~~~~~~   73 (213)
T d1l8qa2          36 YNPIFIYGSVGTGKTHLLQAAGNEAKKR--GYRVIYSSAD   73 (213)
T ss_dssp             CSSEEEECSSSSSHHHHHHHHHHHHHHT--TCCEEEEEHH
T ss_pred             CCcEEEECCCCCcHHHHHHHHHHHhccC--ccceEEechH
Confidence            3447899999999999999999988643  3455666543

>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=96.14  E-value=0.0027  Score=45.90  Aligned_cols=36  Identities=22%  Similarity=0.339  Sum_probs=26.4

Q ss_pred             HHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          161 LNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       161 ~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      +.+++.++. +.-.-|.|+|.+|+|||||...+.++.
T Consensus         4 ~~~~~~~~~-~k~~kI~vvG~~~~GKSsLi~rl~~~~   39 (177)
T d1zj6a1           4 FTRIWRLFN-HQEHKVIIVGLDNAGKTTILYQFSMNE   39 (177)
T ss_dssp             HHHHHHHHT-TSCEEEEEEESTTSSHHHHHHHHHTTS
T ss_pred             HHHHHHHhC-CCeEEEEEECCCCCCHHHHHHHHhcCC
Confidence            345665444 444456799999999999999987663

>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=50.58  Aligned_cols=26  Identities=27%  Similarity=0.371  Sum_probs=22.4

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        30 ~Ge~~~iiG~sGsGKSTLl~~i~gl~   55 (230)
T d1l2ta_          30 EGEFVSIMGPSGSGKSTMLNIIGCLD   55 (230)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCcchhhHhccCCC
Confidence            45689999999999999999887644

>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=96.12  E-value=0.0019  Score=51.75  Aligned_cols=28  Identities=21%  Similarity=0.272  Sum_probs=24.8

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ..+-+|+|.|..|+||||+|+.+..-..
T Consensus        78 k~P~iIGIaG~sgSGKSTla~~L~~lL~  105 (308)
T d1sq5a_          78 RIPYIISIAGSVAVGKSTTARVLQALLS  105 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CCCEEEEEeCCCCCCCcHHHHHHHHHHh
Confidence            3578999999999999999999987764

>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=96.11  E-value=0.002  Score=48.51  Aligned_cols=25  Identities=16%  Similarity=0.179  Sum_probs=22.0

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -.+|.|+|+.|+|||||.+.+....
T Consensus         2 G~livi~GPSG~GK~tl~~~L~~~~   26 (205)
T d1s96a_           2 GTLYIVSAPSGAGKSSLIQALLKTQ   26 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhhC
Confidence            3578899999999999999998764

>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=96.10  E-value=0.0017  Score=48.13  Aligned_cols=25  Identities=12%  Similarity=0.316  Sum_probs=21.9

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHH
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~  195 (250)
                      +++..|+|+|.+|+|||||...+.+
T Consensus        21 ~~~~~I~lvG~~n~GKSTLin~L~g   45 (195)
T d1svia_          21 GGLPEIALAGRSNVGKSSFINSLIN   45 (195)
T ss_dssp             SCCCEEEEEEBTTSSHHHHHHHHHT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHhcC
Confidence            4555799999999999999999985

>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=96.10  E-value=0.0043  Score=46.69  Aligned_cols=31  Identities=13%  Similarity=0.200  Sum_probs=25.0

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhcCCCCCCe
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQ  205 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~  205 (250)
                      ..|+|-|+-|+||||+++.+.+....+ .+++
T Consensus         4 ~lI~ieG~dGsGKsT~~~~L~~~L~~~-g~~v   34 (209)
T d1nn5a_           4 ALIVLEGVDRAGKSTQSRKLVEALCAA-GHRA   34 (209)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHHHT-TCCE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHC-CCcE
Confidence            568899999999999999999887543 3443

>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=96.07  E-value=0.0017  Score=50.07  Aligned_cols=26  Identities=31%  Similarity=0.307  Sum_probs=22.6

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||.+.+..-.
T Consensus        31 ~Ge~~~liGpsGaGKSTLl~~i~Gl~   56 (239)
T d1v43a3          31 DGEFLVLLGPSGCGKTTTLRMIAGLE   56 (239)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcCC
Confidence            45689999999999999999988654

>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=96.05  E-value=0.0014  Score=50.56  Aligned_cols=27  Identities=30%  Similarity=0.442  Sum_probs=23.1

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .-.+++|+|..|+|||||++.++.-.+
T Consensus        30 ~Ge~~~iiG~sGsGKSTLl~~i~Gl~~   56 (240)
T d3dhwc1          30 AGQIYGVIGASGAGKSTLIRCVNLLER   56 (240)
T ss_dssp             SSCEEEEEESTTSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcCCcc
Confidence            456899999999999999999986553

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=96.04  E-value=0.016  Score=45.13  Aligned_cols=54  Identities=33%  Similarity=0.396  Sum_probs=44.0

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhCCCCC
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGLIFF  233 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~~l~~~~~  233 (250)
                      -+++-|+|.+|+|||||+-+++...+-.+  ..++|+.....++..     .++.+|++.+
T Consensus        54 g~itei~G~~gsGKTtl~l~~~~~~q~~g--~~~vyidtE~~~~~~-----~a~~~Gvd~d  107 (263)
T d1u94a1          54 GRIVEIYGPESSGKTTLTLQVIAAAQREG--KTCAFIDAEHALDPI-----YARKLGVDID  107 (263)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHHHHHTT--CCEEEEESSCCCCHH-----HHHHTTCCGG
T ss_pred             ceEEEEecCCCcHHHHHHHHHHHHHHcCC--CEEEEEccccccCHH-----HHHHhCCCHH
Confidence            46889999999999999999998887543  368999999999874     3677888743

>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=96.00  E-value=0.0083  Score=42.96  Aligned_cols=31  Identities=32%  Similarity=0.370  Sum_probs=27.1

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhcCCC
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQ  201 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~  201 (250)
                      ....+|.+.|-=|+||||+++.+.+...+.+
T Consensus        31 ~~g~ii~L~G~LGaGKTtfvr~~~~~lg~~~   61 (158)
T d1htwa_          31 EKAIMVYLNGDLGAGKTTLTRGMLQGIGHQG   61 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHTTCCS
T ss_pred             CCCeEEEEecCCCccHHHHHHHHHhhccccc
Confidence            4566899999999999999999999987654

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.98  E-value=0.0033  Score=46.82  Aligned_cols=25  Identities=32%  Similarity=0.587  Sum_probs=22.0

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      .|+|-|+-|+||||+++.+.+...-
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~l~~   26 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGAFRA   26 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH
Confidence            5899999999999999999887653

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=95.97  E-value=0.0056  Score=45.97  Aligned_cols=42  Identities=12%  Similarity=0.173  Sum_probs=34.4

Q ss_pred             ChHHHHHHHHHHhcCCC-ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          156 SRSSTLNNVLRALQDPD-VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       156 gr~~~~~~l~~~L~~~~-~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..+...+++.+.+..+. .+.+-++|..|+||||+|+.+.+..
T Consensus         6 w~~~~~~~l~~~~~~~~l~h~lLl~Gp~G~GKtt~a~~~a~~l   48 (207)
T d1a5ta2           6 WLRPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYL   48 (207)
T ss_dssp             GGHHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHcCCcCeEEEEECCCCCcHHHHHHHHHHhc
Confidence            45667888888888665 5668999999999999999887754

>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=95.96  E-value=0.0019  Score=50.35  Aligned_cols=26  Identities=27%  Similarity=0.417  Sum_probs=22.4

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        40 ~Ge~iaivG~sGsGKSTLl~ll~gl~   65 (253)
T d3b60a1          40 AGKTVALVGRSGSGKSTIASLITRFY   65 (253)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHTTTT
T ss_pred             CCCEEEEECCCCChHHHHHHHHhccc
Confidence            45689999999999999999997544

>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=95.94  E-value=0.0021  Score=49.50  Aligned_cols=24  Identities=21%  Similarity=0.281  Sum_probs=21.5

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .+++|+|+.|+|||||++.++.-.
T Consensus        25 e~~~liGpnGaGKSTll~~i~Gl~   48 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEECCCCChHHHHHHHHHcCC
Confidence            478899999999999999998755

>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=95.94  E-value=0.002  Score=50.96  Aligned_cols=28  Identities=29%  Similarity=0.332  Sum_probs=24.0

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      .-.+++|+|..|+|||||++.+..-...
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            5678999999999999999999865543

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=95.94  E-value=0.013  Score=44.63  Aligned_cols=57  Identities=26%  Similarity=0.398  Sum_probs=40.3

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCC----CCCeEEEEEcCCCCCHHHHHHHHHHHhC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQ----FFDQVIFVEVPHIPDIRKIQGEIADKLG  229 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~----~Fd~~~wv~vs~~~~~~~l~~~i~~~l~  229 (250)
                      .-.++-|+|.+|+||||++-++..+.....    .....+|+.....++...+. ......+
T Consensus        35 ~G~~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~   95 (254)
T d1pzna2          35 TQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERIR-EIAQNRG   95 (254)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHHH-HHHHTTT
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHhhchHHhcCCCceEEEEeccchhHHHHHH-HHHHhcC
Confidence            346899999999999999999887764321    23578888888777765443 3333333

>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=95.91  E-value=0.0021  Score=49.72  Aligned_cols=26  Identities=35%  Similarity=0.572  Sum_probs=22.6

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-..++|+|..|+|||||++.+..-.
T Consensus        28 ~Ge~vaIvG~sGsGKSTLl~ll~gl~   53 (241)
T d2pmka1          28 QGEVIGIVGRSGSGKSTLTKLIQRFY   53 (241)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcC
Confidence            45688999999999999999988654

>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=95.89  E-value=0.0018  Score=46.51  Aligned_cols=23  Identities=22%  Similarity=0.254  Sum_probs=20.4

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|.++|.+|+|||||+..+.++.
T Consensus         4 Kv~liG~~~vGKTsLl~~~~~~~   26 (165)
T d1z06a1           4 KIIVIGDSNVGKTCLTYRFCAGR   26 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47899999999999999988764

>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=95.89  E-value=0.0053  Score=46.81  Aligned_cols=41  Identities=17%  Similarity=0.149  Sum_probs=33.6

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHI  214 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~  214 (250)
                      .-.++-|+|.+|+|||+|+.++..+..  ++...++|++...+
T Consensus        25 ~gsl~li~G~pGsGKT~l~~qia~~~~--~~~~~~~~is~e~~   65 (242)
T d1tf7a2          25 KDSIILATGATGTGKTLLVSRFVENAC--ANKERAILFAYEES   65 (242)
T ss_dssp             SSCEEEEEECTTSSHHHHHHHHHHHHH--TTTCCEEEEESSSC
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHH--HhccccceeeccCC
Confidence            456889999999999999999988864  45677888887654

>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=95.87  E-value=0.0022  Score=50.09  Aligned_cols=26  Identities=23%  Similarity=0.386  Sum_probs=22.4

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        27 ~GEi~~iiG~sGsGKSTLl~~i~Gl~   52 (258)
T d1b0ua_          27 AGDVISIIGSSGSGKSTFLRCINFLE   52 (258)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHcCc
Confidence            45689999999999999999997543

>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=95.86  E-value=0.0022  Score=49.86  Aligned_cols=27  Identities=22%  Similarity=0.326  Sum_probs=23.1

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..-..++|+|..|+|||||++.+..-.
T Consensus        38 ~~Ge~vaivG~sGsGKSTLl~li~gl~   64 (251)
T d1jj7a_          38 RPGEVTALVGPNGSGKSTVAALLQNLY   64 (251)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhccc
Confidence            355689999999999999999987544

>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=95.83  E-value=0.0024  Score=45.86  Aligned_cols=22  Identities=18%  Similarity=0.439  Sum_probs=19.3

Q ss_pred             EEEEccCCCCHHHHHHHHHHHh
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      |.++|.+|+|||||+..+.++.
T Consensus         5 v~liG~~~vGKSsLi~rl~~~~   26 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKGI   26 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6799999999999999887654

>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=95.82  E-value=0.0025  Score=49.26  Aligned_cols=27  Identities=19%  Similarity=0.284  Sum_probs=22.7

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..-..++|+|..|+|||||++.+..-.
T Consensus        26 ~~Ge~vaivG~sGsGKSTLl~ll~gl~   52 (242)
T d1mv5a_          26 QPNSIIAFAGPSGGGKSTIFSLLERFY   52 (242)
T ss_dssp             CTTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            345688999999999999999987544

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.79  E-value=0.0048  Score=46.84  Aligned_cols=49  Identities=10%  Similarity=0.194  Sum_probs=35.6

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCCCCC----CeEEEEEcCCCCCHHHH
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFF----DQVIFVEVPHIPDIRKI  220 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~F----d~~~wv~vs~~~~~~~l  220 (250)
                      .-+++-|.|.+|+|||||+-++.........+    ...+|++....++...+
T Consensus        33 ~G~~~li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~   85 (251)
T d1szpa2          33 TGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRL   85 (251)
T ss_dssp             SSSEEEEEESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSSCCCGGGG
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHhhhhhhhccCCceEEEEeecchHHHHHH
Confidence            34688999999999999999887655432222    47888888877764443

>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=95.76  E-value=0.0023  Score=46.45  Aligned_cols=23  Identities=26%  Similarity=0.247  Sum_probs=19.9

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|.|+|.+|+|||||+..+.++.
T Consensus         5 KivvvG~~~vGKTsli~r~~~~~   27 (173)
T d2a5ja1           5 KYIIIGDTGVGKSCLLLQFTDKR   27 (173)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHhcCC
Confidence            46799999999999999987664

>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=95.76  E-value=0.0062  Score=48.88  Aligned_cols=45  Identities=27%  Similarity=0.401  Sum_probs=34.0

Q ss_pred             CCcChHHHHHHHHHHhc-------C--CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          153 AFESRSSTLNNVLRALQ-------D--PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       153 ~~~gr~~~~~~l~~~L~-------~--~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .++|.+..++.+.+.+.       +  ....++..+|+.|+|||.||+.+.+..
T Consensus        24 ~v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l   77 (315)
T d1qvra3          24 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATL   77 (315)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHH
T ss_pred             eEeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHHHh
Confidence            45787777777666543       1  234588999999999999999988765

>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=95.75  E-value=0.0027  Score=47.78  Aligned_cols=19  Identities=37%  Similarity=0.520  Sum_probs=17.4

Q ss_pred             EEEEEccCCCCHHHHHHHH
Q 036637          175 MVGIYGMGGIGKTTLAKEV  193 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v  193 (250)
                      +|+|+|+.|+||||.++.+
T Consensus         5 iIgitG~igSGKStv~~~l   23 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAF   23 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHH
Confidence            8999999999999999854

>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=95.73  E-value=0.0029  Score=45.60  Aligned_cols=22  Identities=23%  Similarity=0.362  Sum_probs=19.8

Q ss_pred             EEEEccCCCCHHHHHHHHHHHh
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      |.|+|-+|+|||||+..+.++.
T Consensus         7 i~lvG~~~vGKTsli~rl~~~~   28 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVEDS   28 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6799999999999999988765

>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=95.71  E-value=0.003  Score=45.72  Aligned_cols=23  Identities=26%  Similarity=0.492  Sum_probs=20.2

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|.++|.+|+|||||++.+.++.
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~~   29 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQGL   29 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47899999999999999988754

>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=95.67  E-value=0.0031  Score=45.51  Aligned_cols=22  Identities=27%  Similarity=0.573  Sum_probs=19.8

Q ss_pred             EEEEccCCCCHHHHHHHHHHHh
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      |.++|.+|+|||+|.....++.
T Consensus         5 i~lvG~~~vGKTsli~r~~~~~   26 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTKR   26 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            5799999999999999988765

>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=95.66  E-value=0.0027  Score=45.72  Aligned_cols=23  Identities=26%  Similarity=0.265  Sum_probs=19.9

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|.|+|.+|+|||||+..+.++.
T Consensus         6 KivlvG~~~vGKTsli~~~~~~~   28 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTEKK   28 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47899999999999999887654

>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=95.66  E-value=0.0029  Score=49.53  Aligned_cols=27  Identities=41%  Similarity=0.431  Sum_probs=23.5

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      .+-|-++|++|+|||+||+.+.+....
T Consensus        41 ~~giLL~Gp~GtGKT~l~~ala~~~~~   67 (265)
T d1r7ra3          41 SKGVLFYGPPGCGKTLLAKAIANECQA   67 (265)
T ss_dssp             CCEEEEBCCTTSSHHHHHHHHHHHTTC
T ss_pred             CCeEEEECCCCCcchhHHHHHHHHhCC
Confidence            456779999999999999999988753

>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=95.65  E-value=0.0034  Score=45.32  Aligned_cols=22  Identities=32%  Similarity=0.409  Sum_probs=19.3

Q ss_pred             EEEEEccCCCCHHHHHHHHHHH
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      .|+|+|.+|+|||||++.+...
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~   23 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKK   23 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC-
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999998743

>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=95.65  E-value=0.003  Score=45.32  Aligned_cols=22  Identities=27%  Similarity=0.339  Sum_probs=19.1

Q ss_pred             EEEEccCCCCHHHHHHHHHHHh
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      |.|+|.+|+|||||...+.++.
T Consensus         5 i~ivG~~~~GKTsLi~~l~~~~   26 (165)
T d1ksha_           5 LLMLGLDNAGKTTILKKFNGED   26 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHTTCC
T ss_pred             EEEECCCCCCHHHHHHHHcCCC
Confidence            6799999999999999986543

>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=95.65  E-value=0.0021  Score=49.18  Aligned_cols=26  Identities=27%  Similarity=0.208  Sum_probs=22.7

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||.+.+..-.
T Consensus        25 ~Ge~~~liGpsGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          25 SGEYFVILGPTGAGKTLFLELIAGFH   50 (229)
T ss_dssp             TTCEEEEECCCTHHHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCc
Confidence            45689999999999999999998654

>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=95.64  E-value=0.0027  Score=45.84  Aligned_cols=23  Identities=26%  Similarity=0.237  Sum_probs=20.0

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|.++|.+|+|||||+..+.++.
T Consensus         7 Ki~vvG~~~vGKTsLi~~l~~~~   29 (169)
T d3raba_           7 KILIIGNSSVGKTSFLFRYADDS   29 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHcCC
Confidence            47899999999999999887653

>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=95.64  E-value=0.0032  Score=45.84  Aligned_cols=25  Identities=28%  Similarity=0.328  Sum_probs=21.9

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .+.|+|+|.+|+|||||+..+.+..
T Consensus         5 ~~~I~lvG~~~~GKSSLin~l~~~~   29 (178)
T d1wf3a1           5 SGFVAIVGKPNVGKSTLLNNLLGVK   29 (178)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTSC
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCC
Confidence            4579999999999999999998653

>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=95.64  E-value=0.0044  Score=45.32  Aligned_cols=24  Identities=29%  Similarity=0.455  Sum_probs=20.4

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhc
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      -|.++|-+|+|||||+.+...+..
T Consensus         4 KivllG~~~vGKTsl~~r~~~~~~   27 (195)
T d1svsa1           4 KLLLLGAGESGKSTIVKQMKIIHE   27 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhhCCC
Confidence            368999999999999999877653

>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=95.61  E-value=0.0035  Score=44.92  Aligned_cols=22  Identities=23%  Similarity=0.318  Sum_probs=19.7

Q ss_pred             EEEEccCCCCHHHHHHHHHHHh
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      |.|+|.+|+|||||++.+.++.
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~~   24 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYDS   24 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6899999999999999988655

>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=95.57  E-value=0.0035  Score=45.34  Aligned_cols=23  Identities=35%  Similarity=0.394  Sum_probs=19.8

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|.++|.+|+|||||+..+.++.
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~~~~   26 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYVNDK   26 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHcCC
Confidence            47899999999999999987644

>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=95.55  E-value=0.0035  Score=45.45  Aligned_cols=24  Identities=29%  Similarity=0.455  Sum_probs=21.5

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHH
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      .+.|+|+|.+|+|||||...+.+.
T Consensus         5 ~~~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           5 CGFIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCC
Confidence            467899999999999999999864

>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=95.55  E-value=0.0035  Score=48.28  Aligned_cols=27  Identities=26%  Similarity=0.448  Sum_probs=23.1

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .-.+++|+|+.|+|||||.+.+..-..
T Consensus        27 ~Gei~glvG~nGaGKSTLl~~l~G~~~   53 (238)
T d1vpla_          27 EGEIFGLIGPNGAGKTTTLRIISTLIK   53 (238)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            456899999999999999999876553

>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=95.54  E-value=0.0031  Score=48.68  Aligned_cols=27  Identities=30%  Similarity=0.335  Sum_probs=23.2

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .-.+++|+|+.|+|||||.+.+..-..
T Consensus        31 ~Gei~~liGpnGaGKSTl~~~i~Gl~~   57 (240)
T d1ji0a_          31 RGQIVTLIGANGAGKTTTLSAIAGLVR   57 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCCC
Confidence            456899999999999999999986553

>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=95.54  E-value=0.013  Score=44.14  Aligned_cols=26  Identities=23%  Similarity=0.258  Sum_probs=23.0

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      -+.|+|-|+-|+||||+++.+.+..+
T Consensus         3 Gk~I~iEG~DGsGKST~~~~L~~~L~   28 (214)
T d1tmka_           3 GKLILIEGLDRTGKTTQCNILYKKLQ   28 (214)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             eEEEEEECCCCCcHHHHHHHHHHHHH
Confidence            45789999999999999999988765

>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=95.53  E-value=0.0036  Score=46.89  Aligned_cols=20  Identities=45%  Similarity=0.559  Sum_probs=18.1

Q ss_pred             eEEEEEccCCCCHHHHHHHH
Q 036637          174 NMVGIYGMGGIGKTTLAKEV  193 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v  193 (250)
                      .+|||+|..|+||||+++.+
T Consensus         3 ~iIgITG~igSGKStv~~~l   22 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLF   22 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHH
Confidence            58999999999999999855

>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=95.52  E-value=0.004  Score=44.72  Aligned_cols=23  Identities=22%  Similarity=0.299  Sum_probs=20.0

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|.++|.+|+|||||+..+.++.
T Consensus         4 Ki~vvG~~~vGKTSli~~l~~~~   26 (166)
T d1g16a_           4 KILLIGDSGVGKSCLLVRFVEDK   26 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36899999999999999988754

>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=95.51  E-value=0.0031  Score=45.53  Aligned_cols=22  Identities=32%  Similarity=0.673  Sum_probs=19.2

Q ss_pred             EEEEccCCCCHHHHHHHHHHHh
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      |.++|.+|+|||||...+.++.
T Consensus         5 i~viG~~~vGKTsLi~r~~~~~   26 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKGT   26 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTCC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            6799999999999999887654

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.49  E-value=0.021  Score=43.37  Aligned_cols=49  Identities=14%  Similarity=0.220  Sum_probs=36.8

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhcCC----CCCCeEEEEEcCCCCCHHHH
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFGRD----QFFDQVIFVEVPHIPDIRKI  220 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~v~----~~Fd~~~wv~vs~~~~~~~l  220 (250)
                      .-.++-|+|.+|+|||+++.++.......    ..+..+.|+.....+.....
T Consensus        36 ~G~~~~i~G~~GsGKT~lalq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (258)
T d1v5wa_          36 SMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRL   88 (258)
T ss_dssp             SSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHhhhhcccccceEEEechHHHHHHHHH
Confidence            35699999999999999999998765322    24567888888777664433

>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=95.48  E-value=0.0047  Score=43.56  Aligned_cols=23  Identities=26%  Similarity=0.271  Sum_probs=20.3

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|.++|.+|+|||||+..+.+..
T Consensus         2 KI~liG~~nvGKSSLln~l~~~~   24 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKNDR   24 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999987754

>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=95.48  E-value=0.014  Score=43.55  Aligned_cols=35  Identities=26%  Similarity=0.340  Sum_probs=26.3

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEE
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFV  209 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv  209 (250)
                      +.|+|-|+.|+||||+++.+.+..... .+...++.
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~~L~~~-g~~~~~~~   37 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVETLEQL-GIRDMVFT   37 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHHHT-TCCCEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHhC-CCCeEEEe
Confidence            468899999999999999998876532 34444443

>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=95.47  E-value=0.0041  Score=44.94  Aligned_cols=23  Identities=26%  Similarity=0.537  Sum_probs=20.0

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|.++|.+|+|||||...+.++.
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~~~   29 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQSY   29 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            47899999999999999887754

>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=95.47  E-value=0.0034  Score=45.48  Aligned_cols=23  Identities=22%  Similarity=0.267  Sum_probs=19.8

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|.++|.+|+|||||+..+.++.
T Consensus         7 KI~lvG~~~vGKTsll~~~~~~~   29 (174)
T d2bmea1           7 KFLVIGNAGTGKSCLLHQFIEKK   29 (174)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47899999999999999877653

>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=95.44  E-value=0.0038  Score=45.18  Aligned_cols=23  Identities=35%  Similarity=0.484  Sum_probs=19.8

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHH
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      --|.++|.+|+|||||...+.+.
T Consensus        17 ~kI~vvG~~~vGKSsLi~~l~~~   39 (176)
T d1fzqa_          17 VRILLLGLDNAGKTTLLKQLASE   39 (176)
T ss_dssp             EEEEEEESTTSSHHHHHHHHCCS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            45789999999999999988654

>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=95.44  E-value=0.0042  Score=44.61  Aligned_cols=24  Identities=21%  Similarity=0.367  Sum_probs=20.5

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-|.|+|..|+|||||+..+.++.
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~~~   28 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVEGQ   28 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCcCHHHHHHHHHhCC
Confidence            457899999999999999987654

>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=95.44  E-value=0.0035  Score=45.45  Aligned_cols=23  Identities=26%  Similarity=0.541  Sum_probs=20.2

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|.|+|.+|+|||||+..+.++.
T Consensus         8 Kv~lvG~~~vGKTsLi~r~~~~~   30 (173)
T d2fn4a1           8 KLVVVGGGGVGKSALTIQFIQSY   30 (173)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            57899999999999999988754

>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=95.44  E-value=0.0044  Score=44.54  Aligned_cols=23  Identities=30%  Similarity=0.351  Sum_probs=19.9

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|.|+|.+|+|||||+..+.++.
T Consensus         5 KivlvG~~~vGKTsLi~r~~~~~   27 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCENK   27 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            46899999999999999987654

>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=95.43  E-value=0.0043  Score=44.57  Aligned_cols=23  Identities=30%  Similarity=0.525  Sum_probs=20.2

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|.++|-+|+|||||+..+.++.
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~~   27 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47899999999999999988764

>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=95.42  E-value=0.0041  Score=46.03  Aligned_cols=23  Identities=22%  Similarity=0.300  Sum_probs=20.3

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|.|+|.+|+|||||+..+.++.
T Consensus         8 KivvvG~~~vGKTsli~~l~~~~   30 (194)
T d2bcgy1           8 KLLLIGNSGVGKSCLLLRFSDDT   30 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHhhCC
Confidence            47899999999999999988765

>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=95.41  E-value=0.0044  Score=47.12  Aligned_cols=26  Identities=27%  Similarity=0.369  Sum_probs=22.6

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .+.|..|.|+-|+|||||.+++....
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~~   27 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNEQ   27 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHSC
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhcC
Confidence            46788899999999999999998754

>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=95.41  E-value=0.0037  Score=45.09  Aligned_cols=22  Identities=32%  Similarity=0.415  Sum_probs=19.0

Q ss_pred             EEEEEccCCCCHHHHHHHHHHH
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      -|.++|.+|+|||||+..+.+.
T Consensus         3 Ki~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           3 KVLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCcCHHHHHHHHhCC
Confidence            4789999999999999987654

>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=95.40  E-value=0.0044  Score=44.68  Aligned_cols=23  Identities=17%  Similarity=0.265  Sum_probs=20.0

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|.++|.+|+|||||+..+.++.
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~~   30 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVKGQ   30 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36899999999999999988665

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=95.40  E-value=0.0045  Score=46.83  Aligned_cols=38  Identities=26%  Similarity=0.467  Sum_probs=28.2

Q ss_pred             ceEEEEE-ccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcC
Q 036637          173 VNMVGIY-GMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVP  212 (250)
Q Consensus       173 ~~vi~I~-G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs  212 (250)
                      .+||+|+ |-||+||||+|..+..-....  =..+++|...
T Consensus         1 ~kvIav~s~KGGvGKTtia~nlA~~la~~--g~~VlliD~D   39 (232)
T d1hyqa_           1 VRTITVASGKGGTGKTTITANLGVALAQL--GHDVTIVDAD   39 (232)
T ss_dssp             CEEEEEEESSSCSCHHHHHHHHHHHHHHT--TCCEEEEECC
T ss_pred             CEEEEEECCCCCChHHHHHHHHHHHHHhC--CCCEEEEeCC
Confidence            3789988 889999999999987766532  2346667654

>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=95.39  E-value=0.0037  Score=48.65  Aligned_cols=27  Identities=26%  Similarity=0.282  Sum_probs=23.2

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .-.+++|+|..|+|||||++.++.-..
T Consensus        29 ~Gei~~liG~nGaGKSTLl~~i~Gl~~   55 (254)
T d1g6ha_          29 KGDVTLIIGPNGSGKSTLINVITGFLK   55 (254)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHCCCc
Confidence            345889999999999999999987654

>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=95.38  E-value=0.0055  Score=44.28  Aligned_cols=33  Identities=18%  Similarity=0.244  Sum_probs=23.9

Q ss_pred             HHHhcCCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          165 LRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       165 ~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .+.+.+..---|.++|.+|+|||||...+.++.
T Consensus         4 ~~~~~~~k~~kIvlvG~~~vGKTSli~rl~~~~   36 (173)
T d1e0sa_           4 LSKIFGNKEMRILMLGLDAAGKTTILYKLKLGQ   36 (173)
T ss_dssp             HHHHHTTCCEEEEEEEETTSSHHHHHHHTTCCC
T ss_pred             hhhhhCCCeEEEEEECCCCCCHHHHHHHHhcCC
Confidence            344554443336799999999999999987554

>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=95.38  E-value=0.0044  Score=44.50  Aligned_cols=23  Identities=26%  Similarity=0.538  Sum_probs=20.3

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|.++|-+|+|||||+..+.++.
T Consensus         5 Ki~viG~~~vGKTsli~~l~~~~   27 (166)
T d1ctqa_           5 KLVVVGAGGVGKSALTIQLIQNH   27 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            37899999999999999988764

>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=95.36  E-value=0.0046  Score=44.45  Aligned_cols=23  Identities=26%  Similarity=0.530  Sum_probs=20.1

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|.++|.+|+|||+|+..+.++.
T Consensus         5 KivvvG~~~vGKTsli~r~~~~~   27 (167)
T d1c1ya_           5 KLVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            36899999999999999987765

>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=95.35  E-value=0.0028  Score=48.32  Aligned_cols=25  Identities=20%  Similarity=0.242  Sum_probs=21.8

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .+.|+|-|+-|+||||+++.+.+..
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L~~~l   26 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNILKQLC   26 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGGGC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHH
Confidence            4789999999999999999877644

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=95.29  E-value=0.0031  Score=49.90  Aligned_cols=25  Identities=20%  Similarity=0.418  Sum_probs=18.1

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-||+|.|..|+||||+++.+.+-.
T Consensus         4 ~pIIgIaG~SGSGKTTva~~l~~i~   28 (288)
T d1a7ja_           4 HPIISVTGSSGAGTSTVKHTFDQIF   28 (288)
T ss_dssp             SCEEEEESCC---CCTHHHHHHHHH
T ss_pred             CCEEEEECCCCCcHHHHHHHHHHHH
Confidence            4599999999999999998765544

>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=95.29  E-value=0.0025  Score=49.15  Aligned_cols=26  Identities=35%  Similarity=0.388  Sum_probs=22.6

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .-.+++|+|..|+|||||++.+..-.
T Consensus        30 ~Ge~~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          30 NGERFGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHcCc
Confidence            44689999999999999999988644

>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=95.28  E-value=0.0043  Score=45.02  Aligned_cols=23  Identities=26%  Similarity=0.359  Sum_probs=20.0

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|.|+|..|+|||||+..+.++.
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~~   28 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRNE   28 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47899999999999999887653

>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=95.28  E-value=0.0075  Score=43.89  Aligned_cols=37  Identities=24%  Similarity=0.316  Sum_probs=25.9

Q ss_pred             HHHHHHHhc-CCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          161 LNNVLRALQ-DPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       161 ~~~l~~~L~-~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ...+.+.|. ...---|.++|.+|+|||||...+.+..
T Consensus         4 ~~~~~~~l~~~~k~~KI~lvG~~~vGKTsLi~~l~~~~   41 (182)
T d1moza_           4 FSSMFDKLWGSNKELRILILGLDGAGKTTILYRLQIGE   41 (182)
T ss_dssp             HHHHHGGGTTCSSCEEEEEEEETTSSHHHHHHHTCCSE
T ss_pred             HHHHHHHHhCCCceEEEEEECCCCCCHHHHHHHHhcCC
Confidence            345555554 3334456799999999999999876443

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=95.27  E-value=0.0041  Score=47.69  Aligned_cols=24  Identities=29%  Similarity=0.396  Sum_probs=21.5

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHH
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~  195 (250)
                      .-.+++|+|..|+|||||.+.+..
T Consensus        24 ~Gei~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          24 AGEILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             TTCEEECBCCTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhC
Confidence            456899999999999999999886

>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=95.26  E-value=0.0058  Score=45.52  Aligned_cols=24  Identities=25%  Similarity=0.169  Sum_probs=21.0

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      +-|.|+|.+|+|||||...+.+..
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~~~   24 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLTGQ   24 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCC
Confidence            358999999999999999988754

>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=95.26  E-value=0.0058  Score=45.34  Aligned_cols=23  Identities=26%  Similarity=0.213  Sum_probs=20.5

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .|.|+|.+|+|||||...+.+..
T Consensus         5 ~V~lvG~~n~GKTSLln~l~~~~   27 (209)
T d1nrjb_           5 SIIIAGPQNSGKTSLLTLLTTDS   27 (209)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57999999999999999998663

>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=95.20  E-value=0.007  Score=43.58  Aligned_cols=25  Identities=28%  Similarity=0.470  Sum_probs=21.3

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      +.-|.++|-+|+|||||+..+.++.
T Consensus         4 ~~KivlvG~~~vGKTsli~~~~~~~   28 (168)
T d1u8za_           4 LHKVIMVGSGGVGKSALTLQFMYDE   28 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eeEEEEECCCCcCHHHHHHHHHhCC
Confidence            4567899999999999999987655

>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=95.20  E-value=0.039  Score=40.35  Aligned_cols=49  Identities=10%  Similarity=0.160  Sum_probs=34.4

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcCCCC----CCeEEEEEcCCCCCHHHHH
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGRDQF----FDQVIFVEVPHIPDIRKIQ  221 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~----Fd~~~wv~vs~~~~~~~l~  221 (250)
                      -.++-|.|.+|+|||||+.++..+......    +....++..........+.
T Consensus        23 G~v~~i~G~~GsGKT~l~l~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   75 (242)
T d1n0wa_          23 GSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLL   75 (242)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHH
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHHHHHhhccccccceehhhhhhhhhHHHHHH
Confidence            458899999999999999999877654332    2355666666555554443

>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=95.19  E-value=0.0043  Score=45.12  Aligned_cols=22  Identities=23%  Similarity=0.309  Sum_probs=19.7

Q ss_pred             EEEEEccCCCCHHHHHHHHHHH
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      -|+++|.+|+|||||...+.+.
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999999853

>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=95.17  E-value=0.0058  Score=43.99  Aligned_cols=23  Identities=13%  Similarity=0.251  Sum_probs=19.7

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|.++|..|+|||||+..+.++.
T Consensus         5 Ki~vvG~~~vGKTsLi~~~~~~~   27 (170)
T d1ek0a_           5 KLVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36789999999999999887764

>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=95.17  E-value=0.0036  Score=45.63  Aligned_cols=20  Identities=30%  Similarity=0.519  Sum_probs=18.5

Q ss_pred             EEEEccCCCCHHHHHHHHHH
Q 036637          176 VGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~  195 (250)
                      |+|+|.+|+|||||...+.+
T Consensus         4 VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCS
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            79999999999999999864

>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=95.16  E-value=0.0044  Score=45.36  Aligned_cols=23  Identities=26%  Similarity=0.232  Sum_probs=19.6

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|.|+|.+|+|||||+..+.++.
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~~~   29 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTDNK   29 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHCSC
T ss_pred             EEEEECCCCcCHHHHHHHHhcCC
Confidence            46899999999999999887543

>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=95.14  E-value=0.006  Score=46.18  Aligned_cols=36  Identities=31%  Similarity=0.540  Sum_probs=26.4

Q ss_pred             eEEEEE-ccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEc
Q 036637          174 NMVGIY-GMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEV  211 (250)
Q Consensus       174 ~vi~I~-G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~v  211 (250)
                      ++|+|+ +-||+||||++..+..-..-. .. .++-+..
T Consensus         3 ~vIav~~~kGGvGKTtia~nLA~~la~~-g~-~VlliD~   39 (237)
T d1g3qa_           3 RIISIVSGKGGTGKTTVTANLSVALGDR-GR-KVLAVDG   39 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHHHHT-TC-CEEEEEC
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHHHHhC-CC-CEEEEeC
Confidence            689999 678999999999988766532 22 4555554

>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=95.13  E-value=0.0059  Score=44.31  Aligned_cols=23  Identities=30%  Similarity=0.224  Sum_probs=20.0

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|.|+|.+|+|||||+..+.++.
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~~   26 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKDQ   26 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            46899999999999999887764

>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=95.12  E-value=0.0066  Score=44.54  Aligned_cols=23  Identities=30%  Similarity=0.460  Sum_probs=20.0

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|.++|-+|+|||||+..+.++.
T Consensus         4 Kiv~lG~~~vGKTsll~r~~~~~   26 (200)
T d2bcjq2           4 KLLLLGTGESGKSTFIKQMRIIH   26 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            36799999999999999987665

>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=95.12  E-value=0.0061  Score=44.67  Aligned_cols=23  Identities=30%  Similarity=0.314  Sum_probs=20.0

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|.|+|.+|+|||||+..+.++.
T Consensus        11 Ki~lvG~~~vGKTsLi~r~~~~~   33 (185)
T d2atxa1          11 KCVVVGDGAVGKTCLLMSYANDA   33 (185)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhhCC
Confidence            37899999999999999987765

>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=95.11  E-value=0.0075  Score=46.01  Aligned_cols=24  Identities=21%  Similarity=0.322  Sum_probs=21.4

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .+|+|+|..|+||||.|+.+.+..
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e~~   25 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMSNY   25 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhC
Confidence            689999999999999999987654

>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=95.09  E-value=0.0064  Score=44.39  Aligned_cols=23  Identities=26%  Similarity=0.307  Sum_probs=20.1

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|.|+|.+|+|||||+.++.++.
T Consensus         7 KivviG~~~vGKTsli~~~~~~~   29 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTNA   29 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            47899999999999999887764

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=95.09  E-value=0.016  Score=47.31  Aligned_cols=29  Identities=31%  Similarity=0.212  Sum_probs=25.6

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      +..+.+.++|++|+|||++|..+.+....
T Consensus       152 ~~~~~~~~~g~~~~gk~~~~~~~~~~~~~  180 (362)
T d1svma_         152 PKKRYWLFKGPIDSGKTTLAAALLELCGG  180 (362)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHHCC
T ss_pred             CCcCeEEEECCCCCCHHHHHHHHHHHcCC
Confidence            45678999999999999999999998863

>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=95.07  E-value=0.011  Score=45.63  Aligned_cols=44  Identities=20%  Similarity=0.273  Sum_probs=31.1

Q ss_pred             CcChHHHHHHHHHHhc--CCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          154 FESRSSTLNNVLRALQ--DPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       154 ~~gr~~~~~~l~~~L~--~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ++|.....+++++.+.  ...-.-|-|.|..|+|||++|+.++..-
T Consensus         2 ~v~~S~~~~~~~~~~~~~a~~~~pvlI~Ge~GtGK~~~A~~ih~~s   47 (247)
T d1ny5a2           2 YVFESPKMKEILEKIKKISCAECPVLITGESGVGKEVVARLIHKLS   47 (247)
T ss_dssp             CCCCSHHHHHHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhc
Confidence            5666666666666555  2223346889999999999999998654

>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=95.07  E-value=0.0068  Score=43.35  Aligned_cols=22  Identities=27%  Similarity=0.318  Sum_probs=19.1

Q ss_pred             EEEEccCCCCHHHHHHHHHHHh
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      |.++|.+|+|||||...+.++.
T Consensus         5 i~i~G~~~~GKTsLl~~l~~~~   26 (164)
T d1zd9a1           5 LTLVGLQYSGKTTFVNVIASGQ   26 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            5789999999999999887654

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=95.06  E-value=0.033  Score=41.84  Aligned_cols=56  Identities=14%  Similarity=0.312  Sum_probs=38.3

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhcCCCC--------------CCeEEEEEcCCCCCHHHHHHHHHHHhC
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFGRDQF--------------FDQVIFVEVPHIPDIRKIQGEIADKLG  229 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~--------------Fd~~~wv~vs~~~~~~~l~~~i~~~l~  229 (250)
                      -.++-|.|.+|+||||++.++..+....+.              -..+.|++....++... .+.+...+.
T Consensus        34 G~l~~i~G~~G~GKT~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~e~~~~~~~-~~~~~~~~~  103 (258)
T d2i1qa2          34 QSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPER-IMQMAEHAG  103 (258)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHHH-HHHHHHHHT
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHhcCCCceEEeecccchhcCceEEEEEecCCcCHHH-HHHHHhhcc
Confidence            468899999999999999999877643221              22577888776666443 334444443

>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=95.03  E-value=0.0035  Score=48.83  Aligned_cols=27  Identities=30%  Similarity=0.405  Sum_probs=22.3

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..-..++|+|..|+|||||++.+..-.
T Consensus        42 ~~Ge~vaivG~sGsGKSTLl~ll~gl~   68 (255)
T d2hyda1          42 EKGETVAFVGMSGGGKSTLINLIPRFY   68 (255)
T ss_dssp             CTTCEEEEECSTTSSHHHHHTTTTTSS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHHhcC
Confidence            355688999999999999999886443

>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=95.03  E-value=0.0069  Score=44.20  Aligned_cols=22  Identities=36%  Similarity=0.465  Sum_probs=19.5

Q ss_pred             EEEEccCCCCHHHHHHHHHHHh
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      |.++|-+|+|||||+..+.+..
T Consensus         5 v~vvG~~~vGKSSLi~~l~~~~   26 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVNKK   26 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6799999999999999988654

>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=94.99  E-value=0.0074  Score=43.43  Aligned_cols=23  Identities=30%  Similarity=0.288  Sum_probs=20.0

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|.|+|.+|+|||||+..+.+..
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~~~   30 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKDGA   30 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            48999999999999999877654

>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=94.98  E-value=0.0048  Score=45.07  Aligned_cols=21  Identities=38%  Similarity=0.577  Sum_probs=18.5

Q ss_pred             EEEEEccCCCCHHHHHHHHHH
Q 036637          175 MVGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~  195 (250)
                      -|+|+|.+|+|||||...+.+
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEE
T ss_pred             eEEEECCCCCCHHHHHHHHhC
Confidence            479999999999999998753

>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=94.95  E-value=0.0074  Score=43.48  Aligned_cols=23  Identities=26%  Similarity=0.486  Sum_probs=20.0

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|.++|-.|+|||||+..+.++.
T Consensus         6 Ki~lvG~~~vGKTsll~~~~~~~   28 (169)
T d1x1ra1           6 KLVVVGDGGVGKSALTIQFFQKI   28 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            46789999999999999988754

>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=94.94  E-value=0.02  Score=45.77  Aligned_cols=52  Identities=25%  Similarity=0.335  Sum_probs=33.5

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCC---C--CHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHI---P--DIRKIQGEIADKL  228 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~---~--~~~~l~~~i~~~l  228 (250)
                      +++-++|.+|+|||.||+.+.......-.|-   -+..+.-   |  ..++-++.++++.
T Consensus       124 g~~l~~G~pG~GKT~la~ala~~~~~~~~~~---~~~~~~~~~~~~G~~e~~~~~~f~~a  180 (321)
T d1w44a_         124 GMVIVTGKGNSGKTPLVHALGEALGGKDKYA---TVRFGEPLSGYNTDFNVFVDDIARAM  180 (321)
T ss_dssp             EEEEEECSSSSCHHHHHHHHHHHHHTTSCCE---EEEBSCSSTTCBCCHHHHHHHHHHHH
T ss_pred             ceEEEECCCCccHHHHHHHHHHHhcCCCCeE---EEEhhHhhhcccchHHHHHHHHHHHH
Confidence            4555689999999999999998864222232   2333322   2  5566667776655

>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=94.92  E-value=0.0075  Score=43.95  Aligned_cols=23  Identities=26%  Similarity=0.251  Sum_probs=20.1

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|.++|..|+|||+|+..+.++.
T Consensus         4 KivliG~~~vGKTsli~r~~~~~   26 (179)
T d1m7ba_           4 KIVVVGDSQCGKTALLHVFAKDC   26 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            46799999999999999888764

>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=94.90  E-value=0.008  Score=43.59  Aligned_cols=22  Identities=27%  Similarity=0.398  Sum_probs=19.4

Q ss_pred             EEEEccCCCCHHHHHHHHHHHh
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      |.++|.+|+|||||+..+.++.
T Consensus        10 i~vvG~~~vGKTsli~~l~~~~   31 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDDT   31 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7899999999999999877654

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.86  E-value=0.0037  Score=45.23  Aligned_cols=23  Identities=35%  Similarity=0.390  Sum_probs=17.9

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|.++|.+|+|||||+..+.++.
T Consensus         5 Ki~vvG~~~vGKTsli~~~~~~~   27 (170)
T d1i2ma_           5 KLVLVGDGGTGKTTFVKRHLTGE   27 (170)
T ss_dssp             EEEEEECTTSSHHHHHHTTC---
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36889999999999999876654

>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=94.85  E-value=0.0078  Score=43.49  Aligned_cols=22  Identities=41%  Similarity=0.436  Sum_probs=19.0

Q ss_pred             eEEEEEccCCCCHHHHHHHHHH
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~  195 (250)
                      --|.++|.+|+|||||+..+..
T Consensus         4 ~Kv~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           4 YRVVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEEECCCCcCHHHHHHHHHh
Confidence            3578999999999999998764

>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=94.85  E-value=0.0072  Score=44.47  Aligned_cols=20  Identities=30%  Similarity=0.509  Sum_probs=17.8

Q ss_pred             EEEEEccCCCCHHHHHHHHH
Q 036637          175 MVGIYGMGGIGKTTLAKEVA  194 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~  194 (250)
                      -|.++|.+|+|||||+....
T Consensus         4 KivllG~~~vGKTsll~r~~   23 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQMR   23 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            46799999999999999983

>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=94.83  E-value=0.0046  Score=44.82  Aligned_cols=26  Identities=15%  Similarity=0.130  Sum_probs=21.6

Q ss_pred             CCCceEEEEEccCCCCHHHHHHHHHH
Q 036637          170 DPDVNMVGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       170 ~~~~~vi~I~G~gGvGKTtLa~~v~~  195 (250)
                      .++...|+++|.+++|||||...+..
T Consensus        13 ~~~~~~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          13 SDTGIEVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             CSCSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             CccCCEEEEECCCCCCHHHHHHHHhC
Confidence            44566789999999999999988743

>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=94.77  E-value=0.0072  Score=44.01  Aligned_cols=22  Identities=32%  Similarity=0.442  Sum_probs=19.4

Q ss_pred             EEEEEccCCCCHHHHHHHHHHH
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      -|+|+|..|+|||||+..+.+.
T Consensus        10 kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            3699999999999999988754

>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=94.76  E-value=0.0079  Score=43.46  Aligned_cols=22  Identities=32%  Similarity=0.555  Sum_probs=19.1

Q ss_pred             EEEEEccCCCCHHHHHHHHHHH
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      -|.++|-+|+|||||+..+.++
T Consensus         8 KI~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           8 KVILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999887654

>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=94.75  E-value=0.0086  Score=42.42  Aligned_cols=21  Identities=33%  Similarity=0.357  Sum_probs=18.6

Q ss_pred             EEEEccCCCCHHHHHHHHHHH
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~  196 (250)
                      |+++|.+|+|||||...+...
T Consensus         4 I~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           4 VVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             EEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            679999999999999998743

>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=94.63  E-value=0.01  Score=43.11  Aligned_cols=23  Identities=22%  Similarity=0.329  Sum_probs=20.0

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|.++|.+|+|||||+..+.++.
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~~~   29 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLTGS   29 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            46899999999999999887755

>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=94.62  E-value=0.0098  Score=43.70  Aligned_cols=22  Identities=27%  Similarity=0.327  Sum_probs=19.2

Q ss_pred             EEEEccCCCCHHHHHHHHHHHh
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      |.++|-+|+|||+|+..+.++.
T Consensus         6 vvllG~~~vGKTSli~r~~~~~   27 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTNK   27 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6799999999999998877665

>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=94.55  E-value=0.012  Score=44.49  Aligned_cols=25  Identities=28%  Similarity=0.417  Sum_probs=21.1

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .-|.++|.+|+|||||++++....-
T Consensus         7 ~KilllG~~~vGKTsll~~~~~~~~   31 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMRILHV   31 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCc
Confidence            4578999999999999999876553

>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=94.49  E-value=0.073  Score=39.28  Aligned_cols=68  Identities=16%  Similarity=0.096  Sum_probs=43.5

Q ss_pred             HHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhcCC--CCCCeEEEEEc-CCCCCHHHHHHHHHHHhCC
Q 036637          161 LNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGRD--QFFDQVIFVEV-PHIPDIRKIQGEIADKLGL  230 (250)
Q Consensus       161 ~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~--~~Fd~~~wv~v-s~~~~~~~l~~~i~~~l~~  230 (250)
                      ++-+-+++......-+-++|.+|+||||+|..+.+.....  +|.|. +++.- +....+.++- .|.+.+..
T Consensus         3 ~~~l~~~i~~~~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~-~~i~~~~~~I~Id~IR-~i~~~~~~   73 (198)
T d2gnoa2           3 LETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDV-LEIDPEGENIGIDDIR-TIKDFLNY   73 (198)
T ss_dssp             HHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTE-EEECCSSSCBCHHHHH-HHHHHHTS
T ss_pred             HHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhccccCCCCE-EEEeCCcCCCCHHHHH-HHHHHHhh
Confidence            3445555556778899999999999999999988765432  23343 33332 2344555554 46666543

>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=94.36  E-value=0.0064  Score=43.96  Aligned_cols=23  Identities=22%  Similarity=0.268  Sum_probs=8.8

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|.++|-+|+|||||+..+.++.
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~~   30 (173)
T d2fu5c1           8 KLLLIGDSGVGKTCVLFRFSEDA   30 (173)
T ss_dssp             EEEEECCCCC-------------
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47899999999999998766543

>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=94.36  E-value=0.016  Score=45.34  Aligned_cols=27  Identities=26%  Similarity=0.306  Sum_probs=23.1

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      .++-|+|+|.+|.|||||+..+.....
T Consensus         5 ~iRni~i~gh~~~GKTtL~e~ll~~~g   31 (276)
T d2bv3a2           5 RLRNIGIAAHIDAGKTTTTERILYYTG   31 (276)
T ss_dssp             GEEEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             hceEEEEEeCCCCCHHHHHHHHHHhcC
Confidence            467799999999999999999876554

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=94.16  E-value=0.029  Score=45.74  Aligned_cols=26  Identities=27%  Similarity=0.374  Sum_probs=22.0

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .+.-+-.+|+.|||||-||+.+..-.
T Consensus        67 p~~niLfiGPTGvGKTElAk~LA~~~   92 (364)
T d1um8a_          67 SKSNILLIGPTGSGKTLMAQTLAKHL   92 (364)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCcceeeeCCCCccHHHHHHHHHhhc
Confidence            45668889999999999999987654

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=94.15  E-value=0.024  Score=42.89  Aligned_cols=34  Identities=18%  Similarity=0.426  Sum_probs=26.0

Q ss_pred             HHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          161 LNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       161 ~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ++.|.++|.   -+...++|..|+|||||...+..+.
T Consensus        86 ~~~L~~~l~---~kt~~~~G~SGVGKSTLiN~L~~~~  119 (225)
T d1u0la2          86 IEELKEYLK---GKISTMAGLSGVGKSSLLNAINPGL  119 (225)
T ss_dssp             HHHHHHHHS---SSEEEEECSTTSSHHHHHHHHSTTC
T ss_pred             HhhHHHHhc---CCeEEEECCCCCCHHHHHHhhcchh
Confidence            455666563   2566899999999999999987654

>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=94.12  E-value=0.023  Score=44.32  Aligned_cols=25  Identities=32%  Similarity=0.518  Sum_probs=21.2

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      +|-|+|+|..|.|||||+..+....
T Consensus         2 iRNv~iiGh~~~GKTtL~e~ll~~~   26 (267)
T d2dy1a2           2 IRTVALVGHAGSGKTTLTEALLYKT   26 (267)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             eeEEEEEcCCCCcHHHHHHHHHHHc
Confidence            4678999999999999999985443

>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=94.12  E-value=0.055  Score=42.16  Aligned_cols=64  Identities=20%  Similarity=0.329  Sum_probs=47.1

Q ss_pred             HHHHHhcC-CCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCC-CHHHHHHHHHHH
Q 036637          163 NVLRALQD-PDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIP-DIRKIQGEIADK  227 (250)
Q Consensus       163 ~l~~~L~~-~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~-~~~~l~~~i~~~  227 (250)
                      +.++.+.. ..-.-++|.|..|+|||+|+..+.++... .+=++++++-+++.. ...++++++.+.
T Consensus        57 raID~l~pigkGQr~~If~~~g~GKt~l~~~i~~~~~~-~~~~v~V~~~iGer~~ev~~~~~~~~~~  122 (276)
T d2jdid3          57 KVVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVAK-AHGGYSVFAGVGERTREGNDLYHEMIES  122 (276)
T ss_dssp             HHHHHHSCEETTCEEEEEECTTSSHHHHHHHHHHHHTT-TCSSEEEEEEESCCHHHHHHHHHHHHHH
T ss_pred             eeeeeeccccCCCEEEeeCCCCCCHHHHHHHHHHHHHh-hCCCeEEEEEeccChHHHHHHHHHHHhc
Confidence            56776662 12334899999999999999999888542 334678999999775 567777777664

>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=93.98  E-value=0.0046  Score=43.91  Aligned_cols=22  Identities=27%  Similarity=0.321  Sum_probs=20.2

Q ss_pred             EEEEccCCCCHHHHHHHHHHHh
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      |+++|.+|+|||||+..+.+..
T Consensus         3 I~liG~~n~GKSSLin~l~g~~   24 (160)
T d1xzpa2           3 MVIVGKPNVGKSTLLNRLLNED   24 (160)
T ss_dssp             EEEECCHHHHTCHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            7899999999999999998765

>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=93.89  E-value=0.13  Score=39.62  Aligned_cols=52  Identities=15%  Similarity=0.266  Sum_probs=34.8

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKL  228 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~~l  228 (250)
                      .++.|.|.+|+||||++.++..+.-....+. +++++.-  .+..++...++...
T Consensus        36 ~l~vi~G~~G~GKT~~~~~la~~~a~~~g~~-v~~~s~E--~~~~~~~~r~~~~~   87 (277)
T d1cr2a_          36 EVIMVTSGSGMGKSTFVRQQALQWGTAMGKK-VGLAMLE--ESVEETAEDLIGLH   87 (277)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHHHTSCCC-EEEEESS--SCHHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHhhhhhcccc-eeEeeec--cchhhHHhHHHHHh
Confidence            5778999999999999999876653333333 4444443  45666766665444

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=93.87  E-value=0.02  Score=42.46  Aligned_cols=27  Identities=15%  Similarity=0.076  Sum_probs=22.6

Q ss_pred             eEEEEEccC-CCCHHHHHHHHHHHhcCC
Q 036637          174 NMVGIYGMG-GIGKTTLAKEVAIQFGRD  200 (250)
Q Consensus       174 ~vi~I~G~g-GvGKTtLa~~v~~~~~v~  200 (250)
                      +.+-|.|.| |+||||++-.+..-...+
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aLa~~   29 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAAKAA   29 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHHHT
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHHHHC
Confidence            467899998 999999999888777544

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=93.78  E-value=0.017  Score=48.48  Aligned_cols=51  Identities=25%  Similarity=0.393  Sum_probs=33.4

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHhcCCCCC---CeEEEEEcC-CCCCHHHHHHHHHH
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQFGRDQFF---DQVIFVEVP-HIPDIRKIQGEIAD  226 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~~v~~~F---d~~~wv~vs-~~~~~~~l~~~i~~  226 (250)
                      +=|-++|+.|+|||-||+.+..-..+-  |   |+.-+.-++ ..-|++.+++.++.
T Consensus        50 sNILliGPTGvGKTlLAr~LAk~l~VP--Fv~~daT~fTeaGYvG~DVesii~~L~~  104 (443)
T d1g41a_          50 KNILMIGPTGVGKTEIARRLAKLANAP--FIKVEATKFTEVGYVGKEVDSIIRDLTD  104 (443)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHTTCC--EEEEEGGGGC----CCCCTHHHHHHHHH
T ss_pred             ccEEEECCCCCCHHHHHHHHHHHhCCC--EEEeecceeeecceeecchhHHHHHHHH
Confidence            347899999999999999999877653  3   222222222 12478888877754

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=93.67  E-value=0.039  Score=42.60  Aligned_cols=39  Identities=21%  Similarity=0.362  Sum_probs=28.4

Q ss_pred             HHHHHHHHHhcC--CCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          159 STLNNVLRALQD--PDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       159 ~~~~~l~~~L~~--~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..+.++...+..  ...--|.++|..|+|||||...++...
T Consensus        16 ~~l~e~~~~l~~~~~~~l~I~LvG~tg~GKSSliN~ilg~~   56 (257)
T d1h65a_          16 TKLLELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGER   56 (257)
T ss_dssp             HHHHHHHHHHHHTTCCEEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHhhcCCCCcEEEEECCCCCcHHHHHHHHhCCC
Confidence            344455555552  344567899999999999999999764

>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=93.32  E-value=0.029  Score=42.39  Aligned_cols=23  Identities=30%  Similarity=0.365  Sum_probs=20.1

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHH
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      .+|+|+|..++|||||+..+...
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            35999999999999999988654

>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=92.78  E-value=0.048  Score=44.31  Aligned_cols=63  Identities=17%  Similarity=0.050  Sum_probs=36.5

Q ss_pred             HHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhc-CCCCCCeEEEEEcCCCCCHHHHHHHH
Q 036637          159 STLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFG-RDQFFDQVIFVEVPHIPDIRKIQGEI  224 (250)
Q Consensus       159 ~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~-v~~~Fd~~~wv~vs~~~~~~~l~~~i  224 (250)
                      ..+..+...+.   -++..|.|.+|.||||++..+..... ....=..+++++.+..-....+...+
T Consensus       152 ~Q~~A~~~al~---~~~~vI~G~pGTGKTt~i~~~l~~l~~~~~~~~~~I~l~ApTgkAA~~L~e~~  215 (359)
T d1w36d1         152 WQKVAAAVALT---RRISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAAPTGKAAARLTESL  215 (359)
T ss_dssp             HHHHHHHHHHT---BSEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEBSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHc---CCeEEEEcCCCCCceehHHHHHHHHHHHHhccCCeEEEecCcHHHHHHHHHHH
Confidence            34444444442   35788999999999998876554332 11112356777766544444444444

>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=92.76  E-value=0.032  Score=43.02  Aligned_cols=24  Identities=33%  Similarity=0.490  Sum_probs=20.7

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      .+..|+|.+|+|||||+-++.-..
T Consensus        30 ~~~~i~G~~G~GKS~l~l~la~~i   53 (274)
T d1nlfa_          30 TVGALVSPGGAGKSMLALQLAAQI   53 (274)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHH
Confidence            567799999999999999887664

>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=92.75  E-value=0.03  Score=40.49  Aligned_cols=21  Identities=43%  Similarity=0.555  Sum_probs=18.9

Q ss_pred             EEEEEccCCCCHHHHHHHHHH
Q 036637          175 MVGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~  195 (250)
                      -|+|+|..++|||||...+..
T Consensus         7 nIaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            489999999999999998863

>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=92.67  E-value=0.043  Score=42.92  Aligned_cols=35  Identities=26%  Similarity=0.318  Sum_probs=28.1

Q ss_pred             HHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          162 NNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       162 ~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -++++.+ ++.+.||+|+|.-+.|||||+..++...
T Consensus        22 l~~l~~~-~~~v~vvsi~G~~~sGKS~llN~l~~~~   56 (277)
T d1f5na2          22 LKILSAI-TQPMVVVAIVGLYRTGKSYLMNKLAGKK   56 (277)
T ss_dssp             HHHHHTC-CSBEEEEEEEEBTTSSHHHHHHHHTTCS
T ss_pred             HHHHHcC-CCCEEEEEEECCCCCCHHHHHHHHcCCC
Confidence            3445544 5679999999999999999999998644

>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=92.57  E-value=0.042  Score=40.96  Aligned_cols=40  Identities=20%  Similarity=0.184  Sum_probs=26.6

Q ss_pred             CceEEEEEccCCCCHHHHHHHHH-HHhcCCCCCCeEEEEEcCC
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVA-IQFGRDQFFDQVIFVEVPH  213 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~-~~~~v~~~Fd~~~wv~vs~  213 (250)
                      .-.++-|.|.+|+|||+|+.++. +-...  .=....|++...
T Consensus        25 ~G~~~~I~G~~G~GKT~la~~~~~~~~~~--~~~~~~~~s~e~   65 (242)
T d1tf7a1          25 IGRSTLVSGTSGTGKTLFSIQFLYNGIIE--FDEPGVFVTFEE   65 (242)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHH--HCCCEEEEESSS
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHHHh--cCCCcccccccC
Confidence            35688899999999999997754 33321  112456666544

>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=92.00  E-value=0.093  Score=41.09  Aligned_cols=37  Identities=22%  Similarity=0.079  Sum_probs=29.9

Q ss_pred             HHHHHhcC-CCceEEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          163 NVLRALQD-PDVNMVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       163 ~l~~~L~~-~~~~vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      ++++.+.- ..-.-++|.|..|+|||||+..+.+....
T Consensus        32 r~ID~l~PigrGQr~~I~g~~g~GKT~l~~~i~~~~~~   69 (289)
T d1xpua3          32 RVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAY   69 (289)
T ss_dssp             HHHHHHSCCBTTCEEEEEECSSSSHHHHHHHHHHHHHH
T ss_pred             eeeeecccccCCCeeeEeCCCCCCHHHHHHHHHHHHhh
Confidence            67888873 34456799999999999999999887753

>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=91.88  E-value=0.045  Score=40.67  Aligned_cols=19  Identities=42%  Similarity=0.527  Sum_probs=17.7

Q ss_pred             EEEEccCCCCHHHHHHHHH
Q 036637          176 VGIYGMGGIGKTTLAKEVA  194 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~  194 (250)
                      |+|+|..+.|||||+.++.
T Consensus         6 i~iiGhvd~GKSTL~~~Ll   24 (204)
T d2c78a3           6 VGTIGHVDHGKTTLTAALT   24 (204)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEEeCCCCcHHHHHHHHH
Confidence            7999999999999999985

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=91.55  E-value=0.039  Score=44.13  Aligned_cols=51  Identities=18%  Similarity=0.099  Sum_probs=32.5

Q ss_pred             EEEEccCCCCHHHHHHHHHHHhcCC----------C-CC---CeEEEEEcCCCCCHHHHHHHHHH
Q 036637          176 VGIYGMGGIGKTTLAKEVAIQFGRD----------Q-FF---DQVIFVEVPHIPDIRKIQGEIAD  226 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~~~~v~----------~-~F---d~~~wv~vs~~~~~~~l~~~i~~  226 (250)
                      |-|+|..|+||||+++.+.....-.          + ++   ...+-+......+..++++..+.
T Consensus       169 ili~G~tgSGKTT~l~al~~~i~~~~rivtiEd~~El~l~~~~~~~~~~~~~~~~~~~ll~~~lR  233 (323)
T d1g6oa_         169 VIVCGGTGSGKTTYIKSIMEFIPKEERIISIEDTEEIVFKHHKNYTQLFFGGNITSADCLKSCLR  233 (323)
T ss_dssp             EEEEESTTSSHHHHHHHHGGGSCTTCCEEEEESSCCCCCSSCSSEEEEECBTTBCHHHHHHHHTT
T ss_pred             EEEEeeccccchHHHHHHhhhcccccceeeccchhhhhcccccccceeccccchhHHHHHHHHhc
Confidence            6889999999999999988654211          0 11   12222233445677888777654

>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=91.50  E-value=0.08  Score=41.59  Aligned_cols=16  Identities=31%  Similarity=0.289  Sum_probs=13.0

Q ss_pred             EEEEEccCCCCHHHHH
Q 036637          175 MVGIYGMGGIGKTTLA  190 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa  190 (250)
                      .+-|.|.+|+||||.+
T Consensus        26 ~~lV~g~aGSGKTt~l   41 (318)
T d1pjra1          26 PLLIMAGAGSGKTRVL   41 (318)
T ss_dssp             CEEEEECTTSCHHHHH
T ss_pred             CEEEEecCCccHHHHH
Confidence            3668899999999844

>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=91.26  E-value=0.14  Score=42.12  Aligned_cols=73  Identities=14%  Similarity=0.062  Sum_probs=46.7

Q ss_pred             cChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhcCC-C-----------CCCeEEEEEcC--CCCCHHHH
Q 036637          155 ESRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFGRD-Q-----------FFDQVIFVEVP--HIPDIRKI  220 (250)
Q Consensus       155 ~gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~-~-----------~Fd~~~wv~vs--~~~~~~~l  220 (250)
                      .|.....-..++.+....-++|-|.|+.|+||||.+..+.+...-. .           .++...++.|.  ...+....
T Consensus       140 LG~~~~~~~~l~~l~~~~~GliLvtGpTGSGKSTTl~~~l~~~~~~~~~i~tiEdPiE~~~~~~~q~~v~~~~~~~~~~~  219 (401)
T d1p9ra_         140 LGMTAHNHDNFRRLIKRPHGIILVTGPTGSGKSTTLYAGLQELNSSERNILTVEDPIEFDIDGIGQTQVNPRVDMTFARG  219 (401)
T ss_dssp             SCCCHHHHHHHHHHHTSSSEEEEEECSTTSCHHHHHHHHHHHHCCTTSCEEEEESSCCSCCSSSEEEECBGGGTBCHHHH
T ss_pred             hcccHHHHHHHHHHHhhhhceEEEEcCCCCCccHHHHHHhhhhcCCCceEEEeccCcccccCCCCeeeecCCcCCCHHHH
Confidence            3544433444455677888999999999999999888887765221 1           12333444443  34567777


Q ss_pred             HHHHHHH
Q 036637          221 QGEIADK  227 (250)
Q Consensus       221 ~~~i~~~  227 (250)
                      ++.++.+
T Consensus       220 l~~~lR~  226 (401)
T d1p9ra_         220 LRAILRQ  226 (401)
T ss_dssp             HHHHGGG
T ss_pred             HHHHHhh
Confidence            7776654

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=90.82  E-value=0.069  Score=38.68  Aligned_cols=23  Identities=35%  Similarity=0.343  Sum_probs=19.1

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHH
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      +-|.|.|.+|+||||||-.+..+
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            45678999999999999887653

>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=90.81  E-value=0.063  Score=41.78  Aligned_cols=22  Identities=32%  Similarity=0.543  Sum_probs=19.0

Q ss_pred             EEEEEccCCCCHHHHHHHHHHH
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      .|||||++.+|||||-..+=+-
T Consensus         4 ~~GivG~Pn~GKSTlf~~lt~~   25 (278)
T d1jala1           4 KCGIVGLPNVGKSTLFNALTKA   25 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHCC
Confidence            5799999999999999977643

>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=89.96  E-value=0.082  Score=42.37  Aligned_cols=26  Identities=27%  Similarity=0.348  Sum_probs=22.4

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      +-.|.|=|.=|+||||+++.+.+...
T Consensus         6 ~~rI~iEG~iGsGKSTl~~~L~~~l~   31 (333)
T d1p6xa_           6 IVRIYLDGVYGIGKSTTGRVMASAAS   31 (333)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHSGGG
T ss_pred             eEEEEEECCccCCHHHHHHHHHHHhc
Confidence            34678889999999999999998765

>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=89.96  E-value=0.027  Score=40.86  Aligned_cols=23  Identities=22%  Similarity=0.270  Sum_probs=19.1

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHH
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      ++..|+|..|+||||+...|+-=
T Consensus        25 ~~tvi~G~NGsGKStil~Ai~~~   47 (222)
T d1qhla_          25 LVTTLSGGNGAGKSTTMAAFVTA   47 (222)
T ss_dssp             HHHHHHSCCSHHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            35568999999999999998743

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=89.93  E-value=0.034  Score=42.23  Aligned_cols=24  Identities=21%  Similarity=0.461  Sum_probs=19.1

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ++..++|..|+|||||...+..+.
T Consensus        98 ~~~vl~G~SGVGKSSLiN~L~~~~  121 (231)
T d1t9ha2          98 KTTVFAGQSGVGKSSLLNAISPEL  121 (231)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC--
T ss_pred             ceEEEECCCCccHHHHHHhhccHh
Confidence            445688999999999999988664

>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=89.92  E-value=0.081  Score=41.56  Aligned_cols=23  Identities=30%  Similarity=0.566  Sum_probs=20.5

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHh
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      -|||+|.+.+|||||-..+-+..
T Consensus        12 kiGivG~Pn~GKSTlfnalT~~~   34 (296)
T d1ni3a1          12 KTGIVGMPNVGKSTFFRAITKSV   34 (296)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHST
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC
Confidence            48999999999999999998653

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=89.89  E-value=0.11  Score=37.36  Aligned_cols=23  Identities=39%  Similarity=0.352  Sum_probs=18.9

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHH
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      .-+-|.|..|+||||||-.....
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            34679999999999999876654

>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=89.85  E-value=0.098  Score=37.85  Aligned_cols=22  Identities=32%  Similarity=0.320  Sum_probs=18.3

Q ss_pred             eEEEEEccCCCCHHHHHHHHHH
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~  195 (250)
                      .-+-|.|..|+||||||-.+..
T Consensus        16 ~gvli~G~sG~GKS~lal~l~~   37 (177)
T d1knxa2          16 VGVLLTGRSGIGKSECALDLIN   37 (177)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHT
T ss_pred             EEEEEEcCCCCCHHHHHHHHHH
Confidence            3467899999999999988764

>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=89.35  E-value=0.095  Score=41.44  Aligned_cols=20  Identities=25%  Similarity=0.599  Sum_probs=18.2

Q ss_pred             EEEEccCCCCHHHHHHHHHH
Q 036637          176 VGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~  195 (250)
                      |+|+|.+.+|||||-..+-+
T Consensus         3 v~lvG~pn~GKStlfn~lt~   22 (319)
T d1wxqa1           3 IGVVGKPNVGKSTFFSAATL   22 (319)
T ss_dssp             EEEEECTTSSHHHHHHHHHC
T ss_pred             EeEECCCCCCHHHHHHHHHC
Confidence            79999999999999999843

>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=89.34  E-value=0.23  Score=33.64  Aligned_cols=53  Identities=13%  Similarity=0.142  Sum_probs=34.8

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhC
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLG  229 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~~l~  229 (250)
                      ++.++.-|++..|.|||+++-..+..      ...++++.+....-..+..+.+.+.++
T Consensus         6 ~~~~~~ll~apTGsGKT~~~~~~~~~------~~~~vli~~P~~~l~~q~~~~~~~~~~   58 (136)
T d1a1va1           6 QSFQVAHLHAPTGSGKSTKVPAAYAA------QGYKVLVLNPSVAATLGFGAYMSKAHG   58 (136)
T ss_dssp             SSCEEEEEECCTTSCTTTHHHHHHHT------TTCCEEEEESCHHHHHHHHHHHHHHHS
T ss_pred             cCCCEEEEEeCCCCCHHHHHHHHHHH------cCCcEEEEcChHHHHHHHHHHHHHHhh
Confidence            34567788999999999988766642      344677777655444555555544443

>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=89.31  E-value=0.077  Score=41.17  Aligned_cols=26  Identities=27%  Similarity=0.309  Sum_probs=21.8

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..-.++|+|++.+||+||+..+.+..
T Consensus       111 ~~~~v~vvG~PNvGKSsliN~L~~~~  136 (273)
T d1puja_         111 RAIRALIIGIPNVGKSTLINRLAKKN  136 (273)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             CceEEEEEecCccchhhhhhhhhccc
Confidence            34458999999999999999988655

>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=88.51  E-value=0.17  Score=41.44  Aligned_cols=23  Identities=26%  Similarity=0.335  Sum_probs=20.2

Q ss_pred             ceEEEEEccCCCCHHHHHHHHHH
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~~  195 (250)
                      +--|+|+|.+|+|||||...+..
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            34579999999999999999975

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=88.43  E-value=0.21  Score=36.80  Aligned_cols=38  Identities=18%  Similarity=0.219  Sum_probs=29.6

Q ss_pred             HHHHHHHhc-CCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          161 LNNVLRALQ-DPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       161 ~~~l~~~L~-~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      +..+..+|. .+.-..+.++|+++.|||+++..+.+-..
T Consensus        40 l~~l~~~l~~~PKkn~i~~~GP~~TGKS~f~~sl~~~l~   78 (205)
T d1tuea_          40 LGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFIQ   78 (205)
T ss_dssp             HHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHcCCCCceEEEEECCCCccHHHHHHHHHHHhC
Confidence            455555555 45678999999999999999998877663

>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=88.33  E-value=0.12  Score=41.35  Aligned_cols=25  Identities=40%  Similarity=0.450  Sum_probs=21.6

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhcC
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFGR  199 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~v  199 (250)
                      .|+|=|.=|+||||+++.+.+....
T Consensus         7 rI~IEG~iGsGKSTl~~~L~~~l~~   31 (331)
T d1osna_           7 RIYLDGAYGIGKTTAAEEFLHHFAI   31 (331)
T ss_dssp             EEEEEESSSSCTTHHHHHHHHTTTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhh
Confidence            4788899999999999999887653

>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=88.22  E-value=0.12  Score=41.47  Aligned_cols=25  Identities=20%  Similarity=0.283  Sum_probs=21.9

Q ss_pred             CCceEEEEEccCCCCHHHHHHHHHH
Q 036637          171 PDVNMVGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       171 ~~~~vi~I~G~gGvGKTtLa~~v~~  195 (250)
                      +.+|=|+|+|..|.|||||+..+..
T Consensus        15 ~~IRNI~iiGhvd~GKTTL~d~Ll~   39 (341)
T d1n0ua2          15 TNVRNMSVIAHVDHGKSTLTDSLVQ   39 (341)
T ss_dssp             GGEEEEEEECCGGGTHHHHHHHHHH
T ss_pred             ccCcEEEEEeCCCCcHHHHHHHHHH
Confidence            4677799999999999999998754

>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=88.05  E-value=0.12  Score=40.14  Aligned_cols=17  Identities=24%  Similarity=0.239  Sum_probs=13.6

Q ss_pred             eEEEEEccCCCCHHHHH
Q 036637          174 NMVGIYGMGGIGKTTLA  190 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa  190 (250)
                      +.+-|.|.+|+||||.+
T Consensus        15 ~~~lI~g~aGTGKTt~l   31 (306)
T d1uaaa1          15 GPCLVLAGAGSGKTRVI   31 (306)
T ss_dssp             SEEEECCCTTSCHHHHH
T ss_pred             CCEEEEeeCCccHHHHH
Confidence            34678899999999853

>d1e2ka_ c.37.1.1 (A:) Thymidine kinase {Herpes simplex virus type 1, different strains [TaxId: 10298]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Herpes simplex virus type 1, different strains [TaxId: 10298]

Probab=87.69  E-value=0.15  Score=40.74  Aligned_cols=24  Identities=33%  Similarity=0.209  Sum_probs=19.3

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ..|.|=|.=|+||||+++.+.+..
T Consensus         5 lrI~IEG~iGsGKTTl~~~La~~l   28 (329)
T d1e2ka_           5 LRVYIDGPHGMGKTTTTQLLVALG   28 (329)
T ss_dssp             EEEEECSCTTSSHHHHHHHHTC--
T ss_pred             eEEEEECCcCCCHHHHHHHHHHHh
Confidence            458899999999999999886443

>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=87.25  E-value=0.17  Score=37.09  Aligned_cols=20  Identities=40%  Similarity=0.488  Sum_probs=18.0

Q ss_pred             EEEEccCCCCHHHHHHHHHH
Q 036637          176 VGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~~  195 (250)
                      |+|+|..+.|||||+..+-.
T Consensus         6 i~iiGHvd~GKSTL~~~l~~   25 (196)
T d1d2ea3           6 VGTIGHVDHGKTTLTAAITK   25 (196)
T ss_dssp             EEEESSTTSSHHHHHHHHHH
T ss_pred             EEEEeCCCCcHHHHHHHHHH
Confidence            79999999999999998754

>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=86.81  E-value=0.27  Score=38.09  Aligned_cols=49  Identities=14%  Similarity=0.158  Sum_probs=34.4

Q ss_pred             EEEEEccCCCCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCC-CHHHHHHHHH
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIP-DIRKIQGEIA  225 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~-~~~~l~~~i~  225 (250)
                      -++|+|..|+|||+|+..+-....  .+-+.++++-++... ...++.+++.
T Consensus        69 r~~Ifg~~g~GKt~l~~~~~~~~~--~~~~v~V~~~iGer~~Ev~e~~~~~~  118 (276)
T d1fx0a3          69 RELIIGDRQTGKTAVATDTILNQQ--GQNVICVYVAIGQKASSVAQVVTNFQ  118 (276)
T ss_dssp             BCBEEESSSSSHHHHHHHHHHTCC--TTTCEEEEEEESCCHHHHHHHHHHTG
T ss_pred             eEeeccCCCCChHHHHHHHHhhhc--ccCceeeeeeecchhHHHHHHHHhhc
Confidence            468999999999999988654443  345688888888764 3444444443

>d1jnya3 c.37.1.8 (A:4-227) Elongation factor eEF-1alpha, N-terminal (G) 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: G proteins
domain: Elongation factor eEF-1alpha, N-terminal (G) domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=86.67  E-value=0.23  Score=37.08  Aligned_cols=19  Identities=26%  Similarity=0.307  Sum_probs=17.0

Q ss_pred             EEEEccCCCCHHHHHHHHH
Q 036637          176 VGIYGMGGIGKTTLAKEVA  194 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~  194 (250)
                      |+|+|..+.|||||+.++.
T Consensus         6 i~viGHVd~GKTTL~~~Ll   24 (224)
T d1jnya3           6 LIVIGHVDHGKSTLVGRLL   24 (224)
T ss_dssp             EEEEESTTSSHHHHHHHHH
T ss_pred             EEEEecCCCCHHHHHHHHH
Confidence            7899999999999998763

>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=86.08  E-value=0.5  Score=36.26  Aligned_cols=37  Identities=22%  Similarity=0.218  Sum_probs=27.9

Q ss_pred             HHHHHHHhc--CCCceEEEEEccCCCCHHHHHHHHHHHh
Q 036637          161 LNNVLRALQ--DPDVNMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       161 ~~~l~~~L~--~~~~~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      ...+..+|.  .+.-..+.++|.|+.|||+++..+.+-.
T Consensus        90 ~~~l~~~L~~~~~k~n~~~l~G~~~tGKS~f~~~i~~~l  128 (267)
T d1u0ja_          90 ASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             HHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             HHHHHHHHcCCCCccEEEEEEcCCCCCHHHHHHHHHHHh
Confidence            344555554  2456788999999999999999988755

>d1kk1a3 c.37.1.8 (A:6-200) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Archaeon 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: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Archaeon Pyrococcus abyssi [TaxId: 29292]

Probab=85.85  E-value=0.23  Score=36.09  Aligned_cols=20  Identities=40%  Similarity=0.564  Sum_probs=17.9

Q ss_pred             EEEEEccCCCCHHHHHHHHH
Q 036637          175 MVGIYGMGGIGKTTLAKEVA  194 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~  194 (250)
                      -|+|.|..+.|||||+..+-
T Consensus         7 nIaiiGhvd~GKSTL~~~L~   26 (195)
T d1kk1a3           7 NIGMVGHVDHGKTTLTKALT   26 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEEeccCCcHHHHHHHHH
Confidence            37999999999999999985

>d1zunb3 c.37.1.8 (B:16-237) Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain {Pseudomonas syringae pv. tomato [TaxId: 323]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain
species: Pseudomonas syringae pv. tomato [TaxId: 323]

Probab=84.98  E-value=0.32  Score=36.34  Aligned_cols=22  Identities=23%  Similarity=0.092  Sum_probs=18.9

Q ss_pred             EEEEEccCCCCHHHHHHHHHHH
Q 036637          175 MVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      -|+|+|....|||||+.++...
T Consensus        11 ~i~viGHVd~GKSTL~~~Ll~~   32 (222)
T d1zunb3          11 RFLTCGNVDDGKSTLIGRLLHD   32 (222)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Confidence            3789999999999999988543

>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=84.46  E-value=0.25  Score=38.33  Aligned_cols=21  Identities=24%  Similarity=0.504  Sum_probs=18.0

Q ss_pred             eEEEEEccCCCCHHHHHHHHH
Q 036637          174 NMVGIYGMGGIGKTTLAKEVA  194 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~  194 (250)
                      ++-.|+|.-|+||||+...+.
T Consensus        25 ~lnvlvG~NgsGKS~iL~Ai~   45 (308)
T d1e69a_          25 RVTAIVGPNGSGKSNIIDAIK   45 (308)
T ss_dssp             SEEEEECCTTTCSTHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHH
Confidence            466899999999999988773

>d2qn6a3 c.37.1.8 (A:2-206) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {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: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=83.60  E-value=0.32  Score=35.54  Aligned_cols=20  Identities=35%  Similarity=0.559  Sum_probs=18.1

Q ss_pred             EEEEEccCCCCHHHHHHHHH
Q 036637          175 MVGIYGMGGIGKTTLAKEVA  194 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~  194 (250)
                      -|+|+|....|||||+..+-
T Consensus        10 ni~iiGhVd~GKSTL~~~L~   29 (205)
T d2qn6a3          10 NIGVVGHVDHGKTTLVQAIT   29 (205)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEEEccCCcHHHHHHHHH
Confidence            48999999999999999885

>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=83.24  E-value=0.38  Score=38.83  Aligned_cols=22  Identities=27%  Similarity=0.548  Sum_probs=18.9

Q ss_pred             ceEEEEEccCCCCHHHHHHHHH
Q 036637          173 VNMVGIYGMGGIGKTTLAKEVA  194 (250)
Q Consensus       173 ~~vi~I~G~gGvGKTtLa~~v~  194 (250)
                      .++-.|+|.-|+||||+...|+
T Consensus        25 ~~l~~i~G~NGsGKS~ileAi~   46 (427)
T d1w1wa_          25 SNFTSIIGPNGSGKSNMMDAIS   46 (427)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHH
Confidence            3466799999999999999885

>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=83.16  E-value=2.6  Score=31.38  Aligned_cols=43  Identities=26%  Similarity=0.255  Sum_probs=34.7

Q ss_pred             ChHHHHHHHHHHhcCCCceEEEEEccCCCCHHHHHHHHHHHhc
Q 036637          156 SRSSTLNNVLRALQDPDVNMVGIYGMGGIGKTTLAKEVAIQFG  198 (250)
Q Consensus       156 gr~~~~~~l~~~L~~~~~~vi~I~G~gGvGKTtLa~~v~~~~~  198 (250)
                      ......+++.+.+..+.....-+.|--|+|||-++-......-
T Consensus        59 ~Q~~~~~~i~~~~~~~~~~~~LL~GdvGsGKT~V~~~a~~~~~  101 (233)
T d2eyqa3          59 DQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAV  101 (233)
T ss_dssp             HHHHHHHHHHHHHHSSSCCEEEEECCCCTTTHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhccCccCeEEEcCCCCCcHHHHHHHHHHHH
Confidence            4556677888888888888889999999999998887665553

>d1r0ka2 c.2.1.3 (A:3-126,A:265-290) 1-deoxy-D-xylulose-5-phosphate reductoisomerase {Zymomonas mobilis [TaxId: 542]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain
domain: 1-deoxy-D-xylulose-5-phosphate reductoisomerase
species: Zymomonas mobilis [TaxId: 542]

Probab=82.66  E-value=1  Score=31.24  Aligned_cols=68  Identities=13%  Similarity=0.175  Sum_probs=38.4

Q ss_pred             CceEEEEEccCC-CCHHHHHHHHHHHhcCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHH
Q 036637          172 DVNMVGIYGMGG-IGKTTLAKEVAIQFGRDQFFDQVIFVEVPHIPDIRKIQGEIADKLGLIFFEETESGRARSLYNR  247 (250)
Q Consensus       172 ~~~vi~I~G~gG-vGKTtLa~~v~~~~~v~~~Fd~~~wv~vs~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~l~~~  247 (250)
                      +++-|+|.|-.| +|++||--  .+...  +.|......+ .  -|...+ .+.+..++++.-.-.+.+....+.+.
T Consensus         1 ~pK~I~IlGsTGSIG~~tL~V--i~~~~--d~f~v~~lsa-~--~N~~~L-~~q~~ef~Pk~v~i~d~~~~~~l~~~   69 (150)
T d1r0ka2           1 QPRTVTVLGATGSIGHSTLDL--IERNL--DRYQVIALTA-N--RNVKDL-ADAAKRTNAKRAVIADPSLYNDLKEA   69 (150)
T ss_dssp             CCEEEEEETTTSHHHHHHHHH--HHHTG--GGEEEEEEEE-S--SCHHHH-HHHHHHTTCSEEEESCGGGHHHHHHH
T ss_pred             CCcEEEEECCCcHHHHHHHHH--HHcCC--CCcEEEEEEe-C--CCHHHH-HHHHHhhccccceeccHHHHHHHHHH
Confidence            367899999999 89999743  33322  3576655433 2  245444 45557776664333333333344433

>d1f60a3 c.37.1.8 (A:2-240) Elongation factor eEF-1alpha, 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 eEF-1alpha, N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=82.19  E-value=0.47  Score=35.79  Aligned_cols=21  Identities=24%  Similarity=0.213  Sum_probs=18.2

Q ss_pred             EEEEEccCCCCHHHHHHHHHH
Q 036637          175 MVGIYGMGGIGKTTLAKEVAI  195 (250)
Q Consensus       175 vi~I~G~gGvGKTtLa~~v~~  195 (250)
                      =|+|+|..+.|||||+.++..
T Consensus         8 Ni~iiGHvD~GKsTl~~~ll~   28 (239)
T d1f60a3           8 NVVVIGHVDSGKSTTTGHLIY   28 (239)
T ss_dssp             EEEEEECTTSCHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHH
Confidence            478999999999999988753

>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=81.83  E-value=0.45  Score=38.83  Aligned_cols=24  Identities=29%  Similarity=0.384  Sum_probs=18.7

Q ss_pred             eEEEEEccCCCCHHHHHHHHHHHh
Q 036637          174 NMVGIYGMGGIGKTTLAKEVAIQF  197 (250)
Q Consensus       174 ~vi~I~G~gGvGKTtLa~~v~~~~  197 (250)
                      +-+.|+|..|+|||++++.+....
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            447999999999999887655443

>d1r5ba3 c.37.1.8 (A:215-459) Eukaryotic peptide chain release factor ERF2, G 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: Eukaryotic peptide chain release factor ERF2, G domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=80.72  E-value=0.39  Score=36.35  Aligned_cols=19  Identities=26%  Similarity=0.377  Sum_probs=17.5

Q ss_pred             EEEEccCCCCHHHHHHHHH
Q 036637          176 VGIYGMGGIGKTTLAKEVA  194 (250)
Q Consensus       176 i~I~G~gGvGKTtLa~~v~  194 (250)
                      |+|.|..+.|||||+.++.
T Consensus        27 i~iiGHVD~GKSTL~~~Ll   45 (245)
T d1r5ba3          27 IVFIGHVDAGKSTLGGNIL   45 (245)
T ss_dssp             EEEEECGGGTHHHHHHHHH
T ss_pred             EEEEeeCCCCHHHHHHHHH
Confidence            8999999999999999884

>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=80.72  E-value=0.9  Score=28.87  Aligned_cols=25  Identities=24%  Similarity=0.469  Sum_probs=20.2

Q ss_pred             CceEEEEEccCCCCHHHHHHHHHHH
Q 036637          172 DVNMVGIYGMGGIGKTTLAKEVAIQ  196 (250)
Q Consensus       172 ~~~vi~I~G~gGvGKTtLa~~v~~~  196 (250)
                      ..+-|=++|.||+|.+.||+.+.+.
T Consensus         7 ~~~~ihfiGigG~GMs~LA~~L~~~   31 (96)
T d1p3da1           7 RVQQIHFIGIGGAGMSGIAEILLNE   31 (96)
T ss_dssp             TCCEEEEETTTSTTHHHHHHHHHHH
T ss_pred             hCCEEEEEEECHHHHHHHHHHHHhC
Confidence            4556789999999999999866543